Query psy4574
Match_columns 343
No_of_seqs 185 out of 2192
Neff 10.8
Searched_HMMs 46136
Date Fri Aug 16 20:28:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4574.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4574hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 3.2E-31 7E-36 236.5 4.6 173 160-340 606-937 (958)
2 KOG1074|consensus 100.0 9.4E-30 2E-34 227.2 3.9 213 98-311 603-936 (958)
3 KOG2462|consensus 100.0 7.6E-29 1.6E-33 195.8 5.5 139 184-332 127-265 (279)
4 KOG3608|consensus 99.9 5.4E-27 1.2E-31 190.1 12.7 228 65-306 135-376 (467)
5 KOG3608|consensus 99.9 1.9E-26 4.2E-31 186.9 11.9 261 64-341 69-383 (467)
6 KOG3623|consensus 99.9 1.5E-24 3.3E-29 191.1 8.0 117 35-152 210-332 (1007)
7 KOG2462|consensus 99.9 1.6E-23 3.4E-28 165.9 6.2 132 99-246 129-263 (279)
8 KOG3623|consensus 99.8 3E-21 6.5E-26 170.6 5.2 111 100-210 210-332 (1007)
9 KOG3576|consensus 99.7 1.1E-18 2.3E-23 131.4 1.8 118 220-338 111-240 (267)
10 KOG3576|consensus 99.6 6.5E-17 1.4E-21 121.9 3.2 129 125-255 113-241 (267)
11 PLN03086 PRLI-interacting fact 99.3 1.1E-11 2.4E-16 111.2 9.3 146 160-335 408-565 (567)
12 PHA00733 hypothetical protein 99.2 2.2E-11 4.7E-16 89.2 5.2 83 253-337 39-126 (128)
13 PLN03086 PRLI-interacting fact 99.2 6.8E-11 1.5E-15 106.2 8.7 101 131-251 455-565 (567)
14 PHA00733 hypothetical protein 99.0 4.4E-10 9.5E-15 82.3 4.7 84 222-307 36-124 (128)
15 PHA02768 hypothetical protein; 98.9 7.3E-10 1.6E-14 66.3 2.3 43 283-327 6-48 (55)
16 KOG3993|consensus 98.9 1.7E-10 3.8E-15 97.1 -1.1 177 160-336 268-484 (500)
17 KOG3993|consensus 98.9 2.8E-10 6.1E-15 95.9 0.1 58 33-91 265-322 (500)
18 PHA02768 hypothetical protein; 98.7 8.1E-09 1.8E-13 61.9 1.9 44 254-299 5-48 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.6 2E-08 4.4E-13 51.3 1.8 24 298-321 2-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 6.6E-08 1.4E-12 49.4 2.3 26 269-294 1-26 (26)
21 PHA00616 hypothetical protein 98.4 9.4E-08 2E-12 54.4 1.5 33 282-314 1-33 (44)
22 PHA00732 hypothetical protein 98.4 2.1E-07 4.6E-12 61.6 3.3 35 256-293 3-38 (79)
23 PF05605 zf-Di19: Drought indu 98.4 4.1E-07 8.9E-12 55.9 4.3 52 35-89 2-54 (54)
24 PHA00616 hypothetical protein 98.3 1.9E-07 4.1E-12 53.2 1.1 30 310-339 1-30 (44)
25 PF05605 zf-Di19: Drought indu 98.3 1.1E-06 2.5E-11 54.0 4.6 37 130-167 3-39 (54)
26 PHA00732 hypothetical protein 98.0 4.6E-06 1E-10 55.2 3.2 45 282-332 1-46 (79)
27 KOG1146|consensus 98.0 2.5E-06 5.3E-11 82.7 1.3 121 37-157 438-617 (1406)
28 KOG1146|consensus 97.9 1.5E-06 3.3E-11 84.1 -0.8 220 102-332 438-791 (1406)
29 PF00096 zf-C2H2: Zinc finger, 97.9 5.3E-06 1.1E-10 41.1 1.4 22 311-332 1-22 (23)
30 PF13894 zf-C2H2_4: C2H2-type 97.9 7.1E-06 1.5E-10 41.1 1.6 24 311-334 1-24 (24)
31 PF00096 zf-C2H2: Zinc finger, 97.8 1.1E-05 2.4E-10 39.9 1.7 23 283-305 1-23 (23)
32 PF13912 zf-C2H2_6: C2H2-type 97.8 1.5E-05 3.3E-10 41.2 1.6 25 311-335 2-26 (27)
33 PF12756 zf-C2H2_2: C2H2 type 97.7 2.8E-05 6.2E-10 54.9 2.9 23 282-304 50-72 (100)
34 PF12756 zf-C2H2_2: C2H2 type 97.7 2.2E-05 4.9E-10 55.5 2.2 23 67-89 2-24 (100)
35 PF13894 zf-C2H2_4: C2H2-type 97.6 5.3E-05 1.2E-09 37.8 2.0 24 283-306 1-24 (24)
36 PF13912 zf-C2H2_6: C2H2-type 97.6 5.7E-05 1.2E-09 39.0 2.1 26 282-307 1-26 (27)
37 PF13909 zf-H2C2_5: C2H2-type 97.4 5.1E-05 1.1E-09 37.9 0.9 24 311-335 1-24 (24)
38 COG5189 SFP1 Putative transcri 97.3 9.2E-05 2E-09 60.9 1.3 52 280-331 347-419 (423)
39 PF09237 GAGA: GAGA factor; I 97.0 0.00058 1.3E-08 39.8 2.4 31 308-338 22-52 (54)
40 COG5189 SFP1 Putative transcri 96.9 0.00021 4.5E-09 58.9 0.1 62 185-246 347-418 (423)
41 KOG2482|consensus 96.9 0.0016 3.4E-08 54.4 5.0 148 35-182 144-357 (423)
42 KOG2231|consensus 96.9 0.003 6.5E-08 58.6 7.1 107 36-153 100-236 (669)
43 KOG2231|consensus 96.8 0.0037 8E-08 58.0 7.3 117 72-208 122-260 (669)
44 PF09237 GAGA: GAGA factor; I 96.8 0.0009 1.9E-08 39.1 1.8 34 124-157 19-52 (54)
45 smart00355 ZnF_C2H2 zinc finge 96.8 0.0012 2.7E-08 33.2 2.2 20 312-331 2-21 (26)
46 smart00355 ZnF_C2H2 zinc finge 96.8 0.0012 2.5E-08 33.3 2.0 24 283-306 1-24 (26)
47 KOG2482|consensus 96.7 0.0035 7.7E-08 52.4 5.6 149 62-210 142-357 (423)
48 PF12874 zf-met: Zinc-finger o 96.6 0.0013 2.9E-08 33.0 1.7 20 284-303 2-21 (25)
49 PF13909 zf-H2C2_5: C2H2-type 96.6 0.0013 2.8E-08 32.7 1.6 23 65-88 1-23 (24)
50 PF12874 zf-met: Zinc-finger o 96.6 0.0011 2.5E-08 33.2 1.3 23 311-333 1-23 (25)
51 COG5236 Uncharacterized conser 96.5 0.0039 8.4E-08 52.2 4.6 132 35-184 151-306 (493)
52 COG5236 Uncharacterized conser 96.5 0.0024 5.2E-08 53.5 3.2 129 188-337 152-308 (493)
53 PRK04860 hypothetical protein; 96.4 0.0017 3.7E-08 49.6 1.8 39 282-324 119-157 (160)
54 KOG2785|consensus 96.4 0.015 3.3E-07 49.7 7.6 49 256-304 168-242 (390)
55 KOG4173|consensus 96.3 0.0019 4.2E-08 49.8 1.6 80 64-154 79-171 (253)
56 KOG2785|consensus 96.2 0.022 4.8E-07 48.8 7.3 59 281-339 165-250 (390)
57 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0025 5.4E-08 32.7 0.9 22 311-332 2-23 (27)
58 KOG2893|consensus 96.0 0.0018 3.9E-08 51.2 0.1 51 253-307 9-60 (341)
59 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.0047 1E-07 31.6 1.0 22 283-304 2-23 (27)
60 PF13913 zf-C2HC_2: zinc-finge 95.1 0.016 3.6E-07 28.9 1.6 19 312-331 4-22 (25)
61 KOG4173|consensus 94.9 0.012 2.6E-07 45.6 1.1 89 33-125 77-171 (253)
62 PF13913 zf-C2HC_2: zinc-finge 94.4 0.036 7.9E-07 27.7 1.9 20 283-303 3-22 (25)
63 PRK04860 hypothetical protein; 94.1 0.033 7.2E-07 42.6 1.9 38 158-199 118-155 (160)
64 cd00350 rubredoxin_like Rubred 93.5 0.047 1E-06 29.4 1.4 24 283-318 2-25 (33)
65 smart00451 ZnF_U1 U1-like zinc 93.2 0.089 1.9E-06 28.7 2.2 22 282-303 3-24 (35)
66 COG4049 Uncharacterized protei 92.9 0.037 8.1E-07 32.9 0.5 28 307-334 14-41 (65)
67 COG4049 Uncharacterized protei 92.5 0.07 1.5E-06 31.8 1.2 30 30-59 12-41 (65)
68 smart00451 ZnF_U1 U1-like zinc 92.5 0.082 1.8E-06 28.8 1.5 24 309-332 2-25 (35)
69 TIGR00622 ssl1 transcription f 92.4 0.2 4.4E-06 35.4 3.6 83 64-149 15-101 (112)
70 PF12013 DUF3505: Protein of u 92.1 0.23 5E-06 35.5 3.8 89 34-124 10-108 (109)
71 PF12013 DUF3505: Protein of u 91.7 0.3 6.4E-06 34.9 4.0 24 160-183 81-108 (109)
72 KOG2893|consensus 91.1 0.063 1.4E-06 42.8 -0.0 46 103-153 13-58 (341)
73 PF10571 UPF0547: Uncharacteri 90.7 0.14 3.1E-06 25.8 1.1 10 312-321 16-25 (26)
74 COG5048 FOG: Zn-finger [Genera 90.0 0.084 1.8E-06 48.1 -0.2 154 34-195 288-454 (467)
75 PF12907 zf-met2: Zinc-binding 89.8 0.18 3.8E-06 28.4 1.0 32 36-67 2-36 (40)
76 COG5048 FOG: Zn-finger [Genera 89.3 0.077 1.7E-06 48.3 -1.1 59 32-91 30-90 (467)
77 cd00729 rubredoxin_SM Rubredox 88.5 0.29 6.3E-06 26.5 1.3 26 282-319 2-27 (34)
78 TIGR00622 ssl1 transcription f 87.8 0.89 1.9E-05 32.2 3.7 54 256-317 57-110 (112)
79 PF12907 zf-met2: Zinc-binding 86.5 0.39 8.5E-06 27.0 1.1 28 311-338 2-32 (40)
80 PF13719 zinc_ribbon_5: zinc-r 84.4 0.76 1.7E-05 25.4 1.6 7 312-318 27-33 (37)
81 PF02892 zf-BED: BED zinc fing 84.3 0.59 1.3E-05 27.1 1.2 27 308-334 14-44 (45)
82 PF06524 NOA36: NOA36 protein; 83.9 0.7 1.5E-05 37.6 1.8 19 224-242 207-225 (314)
83 smart00659 RPOLCX RNA polymera 83.7 0.82 1.8E-05 26.5 1.6 26 283-319 3-28 (44)
84 COG2888 Predicted Zn-ribbon RN 83.6 0.86 1.9E-05 27.9 1.7 8 160-167 51-58 (61)
85 PF09538 FYDLN_acid: Protein o 83.5 0.7 1.5E-05 32.8 1.5 15 225-239 25-39 (108)
86 PF13717 zinc_ribbon_4: zinc-r 83.2 0.86 1.9E-05 25.1 1.5 12 225-236 24-35 (36)
87 TIGR02098 MJ0042_CXXC MJ0042 f 83.1 0.69 1.5E-05 25.7 1.1 12 228-239 4-15 (38)
88 COG1996 RPC10 DNA-directed RNA 82.6 0.77 1.7E-05 27.1 1.2 28 282-319 6-33 (49)
89 PF09538 FYDLN_acid: Protein o 81.2 1 2.2E-05 32.0 1.6 31 35-77 9-39 (108)
90 KOG2807|consensus 80.5 2.3 5E-05 36.0 3.7 81 64-166 290-374 (378)
91 TIGR00373 conserved hypothetic 80.4 2 4.3E-05 33.0 3.2 19 127-145 107-125 (158)
92 smart00531 TFIIE Transcription 80.2 1.1 2.4E-05 33.9 1.7 36 34-74 98-133 (147)
93 TIGR00373 conserved hypothetic 79.6 2.2 4.9E-05 32.7 3.2 33 279-320 106-138 (158)
94 PRK06266 transcription initiat 78.9 1 2.3E-05 35.3 1.2 31 34-74 116-146 (178)
95 PF06524 NOA36: NOA36 protein; 78.1 0.9 1.9E-05 37.0 0.6 27 308-334 207-233 (314)
96 KOG4118|consensus 77.5 1.5 3.2E-05 27.3 1.3 31 310-340 38-68 (74)
97 PF09986 DUF2225: Uncharacteri 77.1 0.71 1.5E-05 37.5 -0.2 16 128-143 4-19 (214)
98 PF02176 zf-TRAF: TRAF-type zi 77.1 1.7 3.7E-05 27.0 1.6 40 281-321 8-53 (60)
99 PF03604 DNA_RNApol_7kD: DNA d 77.0 1.1 2.4E-05 23.9 0.6 26 283-319 1-26 (32)
100 smart00734 ZnF_Rad18 Rad18-lik 77.0 1.9 4.2E-05 21.7 1.4 19 312-331 3-21 (26)
101 smart00614 ZnF_BED BED zinc fi 76.9 2 4.3E-05 25.6 1.8 25 311-335 19-48 (50)
102 COG2879 Uncharacterized small 76.9 2.1 4.6E-05 26.5 1.8 21 320-340 22-42 (65)
103 PF09723 Zn-ribbon_8: Zinc rib 76.7 0.74 1.6E-05 26.3 -0.1 29 36-72 6-34 (42)
104 PRK00398 rpoP DNA-directed RNA 76.2 1.1 2.4E-05 26.2 0.5 30 282-321 3-32 (46)
105 smart00531 TFIIE Transcription 75.9 3.8 8.2E-05 31.1 3.5 38 279-320 96-133 (147)
106 KOG2186|consensus 75.7 1.8 3.8E-05 35.3 1.6 46 36-85 4-49 (276)
107 PRK06266 transcription initiat 75.3 2.9 6.4E-05 32.8 2.8 30 281-319 116-145 (178)
108 PF15269 zf-C2H2_7: Zinc-finge 74.9 3 6.5E-05 23.8 2.0 28 154-181 15-42 (54)
109 COG1592 Rubrerythrin [Energy p 74.9 2.2 4.8E-05 32.8 2.0 24 282-318 134-157 (166)
110 PRK00464 nrdR transcriptional 74.8 0.68 1.5E-05 35.2 -0.8 14 311-324 29-42 (154)
111 smart00834 CxxC_CXXC_SSSS Puta 74.6 0.89 1.9E-05 25.7 -0.2 29 283-318 6-34 (41)
112 KOG1280|consensus 74.4 2.5 5.5E-05 36.1 2.3 40 128-167 78-117 (381)
113 PF09986 DUF2225: Uncharacteri 73.5 0.62 1.4E-05 37.8 -1.4 14 64-77 5-18 (214)
114 TIGR02605 CxxC_CxxC_SSSS putat 72.9 1.1 2.3E-05 27.0 -0.1 29 283-318 6-34 (52)
115 PF04959 ARS2: Arsenite-resist 72.5 1.2 2.7E-05 35.8 0.1 29 308-336 75-103 (214)
116 PF04959 ARS2: Arsenite-resist 70.9 2.6 5.6E-05 34.0 1.6 31 30-60 72-102 (214)
117 PRK14890 putative Zn-ribbon RN 70.6 2.9 6.2E-05 25.7 1.4 10 63-72 47-56 (59)
118 KOG2593|consensus 70.4 2.7 5.8E-05 37.3 1.7 35 34-72 127-161 (436)
119 KOG2272|consensus 70.0 2.5 5.4E-05 34.4 1.3 70 100-173 99-177 (332)
120 PF08274 PhnA_Zn_Ribbon: PhnA 67.1 2.2 4.7E-05 22.3 0.3 10 309-318 18-27 (30)
121 COG0068 HypF Hydrogenase matur 65.8 0.6 1.3E-05 44.0 -3.3 58 227-291 124-182 (750)
122 TIGR02300 FYDLN_acid conserved 64.6 4.4 9.4E-05 29.4 1.5 31 35-77 9-39 (129)
123 COG5151 SSL1 RNA polymerase II 64.2 7.9 0.00017 32.7 3.1 101 33-151 306-410 (421)
124 COG3357 Predicted transcriptio 63.8 3.5 7.6E-05 27.7 0.8 14 34-47 57-70 (97)
125 KOG2186|consensus 63.5 3.2 7E-05 33.9 0.8 45 256-303 5-49 (276)
126 KOG2593|consensus 63.4 7.2 0.00015 34.7 2.9 38 183-234 124-161 (436)
127 PRK09678 DNA-binding transcrip 61.7 1.4 3E-05 28.6 -1.3 43 283-327 2-46 (72)
128 PF05443 ROS_MUCR: ROS/MUCR tr 61.5 4.4 9.5E-05 29.9 1.1 23 311-336 73-95 (132)
129 PF13878 zf-C2H2_3: zinc-finge 60.2 11 0.00024 21.3 2.4 25 34-59 12-38 (41)
130 PF13240 zinc_ribbon_2: zinc-r 60.1 3.4 7.5E-05 20.0 0.3 6 313-318 16-21 (23)
131 PHA00626 hypothetical protein 59.8 4.4 9.4E-05 24.5 0.7 15 308-322 21-35 (59)
132 PF12760 Zn_Tnp_IS1595: Transp 59.8 7.9 0.00017 22.5 1.8 8 310-317 37-44 (46)
133 PRK04023 DNA polymerase II lar 58.5 11 0.00025 37.5 3.5 49 226-321 626-674 (1121)
134 COG1198 PriA Primosomal protei 58.2 5.9 0.00013 38.5 1.6 24 103-137 447-470 (730)
135 PF13451 zf-trcl: Probable zin 57.9 7 0.00015 23.2 1.3 37 34-70 3-39 (49)
136 PF09845 DUF2072: Zn-ribbon co 57.8 5.5 0.00012 29.1 1.1 15 282-296 1-15 (131)
137 PF07754 DUF1610: Domain of un 56.2 5.2 0.00011 19.7 0.5 8 310-317 16-23 (24)
138 KOG1280|consensus 56.2 10 0.00022 32.7 2.5 26 187-212 79-104 (381)
139 KOG2807|consensus 55.8 16 0.00036 31.2 3.6 73 226-317 290-374 (378)
140 PF14353 CpXC: CpXC protein 55.7 11 0.00023 27.8 2.4 8 132-139 4-11 (128)
141 PF07975 C1_4: TFIIH C1-like d 54.4 5.3 0.00011 23.9 0.4 25 281-305 20-44 (51)
142 PF05290 Baculo_IE-1: Baculovi 54.0 14 0.00031 27.0 2.6 56 253-325 79-136 (140)
143 PRK14714 DNA polymerase II lar 53.3 12 0.00026 38.4 2.9 12 129-140 692-703 (1337)
144 PF00301 Rubredoxin: Rubredoxi 53.1 3.8 8.2E-05 24.1 -0.3 10 227-236 2-11 (47)
145 TIGR00595 priA primosomal prot 53.0 7.8 0.00017 36.2 1.6 17 122-138 233-249 (505)
146 cd00730 rubredoxin Rubredoxin; 52.4 5.5 0.00012 23.8 0.3 9 228-236 3-11 (50)
147 KOG2272|consensus 51.7 9.2 0.0002 31.2 1.5 16 311-326 281-296 (332)
148 KOG2907|consensus 51.5 8.9 0.00019 27.1 1.2 12 310-321 102-113 (116)
149 PRK03824 hypA hydrogenase nick 50.9 5.1 0.00011 29.9 -0.0 15 34-48 69-83 (135)
150 COG5188 PRP9 Splicing factor 3 49.8 22 0.00048 30.7 3.5 23 225-247 237-259 (470)
151 PF15135 UPF0515: Uncharacteri 48.0 16 0.00035 29.9 2.3 40 224-268 130-169 (278)
152 PF07800 DUF1644: Protein of u 47.5 23 0.00049 26.9 2.9 20 322-341 120-139 (162)
153 PRK00432 30S ribosomal protein 47.4 10 0.00022 22.6 0.9 9 283-291 38-46 (50)
154 COG1997 RPL43A Ribosomal prote 47.3 10 0.00022 25.5 0.9 14 225-238 52-65 (89)
155 COG0068 HypF Hydrogenase matur 47.0 2.8 6.1E-05 39.8 -2.3 88 29-138 95-182 (750)
156 KOG2907|consensus 46.4 8.2 0.00018 27.2 0.5 10 188-197 103-112 (116)
157 COG5188 PRP9 Splicing factor 3 46.1 13 0.00029 32.0 1.7 29 124-152 369-398 (470)
158 PF08271 TF_Zn_Ribbon: TFIIB z 46.1 12 0.00026 21.4 1.0 29 283-320 1-29 (43)
159 COG3364 Zn-ribbon containing p 45.0 14 0.0003 25.5 1.4 15 282-296 2-16 (112)
160 PF01155 HypA: Hydrogenase exp 44.6 12 0.00025 27.0 1.0 14 283-296 71-84 (113)
161 PF08790 zf-LYAR: LYAR-type C2 43.9 7.4 0.00016 19.9 -0.0 17 228-245 2-18 (28)
162 COG3091 SprT Zn-dependent meta 43.1 13 0.00027 28.0 1.0 35 281-320 116-150 (156)
163 PF04780 DUF629: Protein of un 43.0 14 0.0003 33.8 1.4 20 283-302 58-77 (466)
164 PF14446 Prok-RING_1: Prokaryo 42.3 5.2 0.00011 24.2 -0.9 10 283-292 22-31 (54)
165 PRK12380 hydrogenase nickel in 41.9 13 0.00029 26.7 1.0 11 283-293 71-81 (113)
166 PF05191 ADK_lid: Adenylate ki 41.0 18 0.0004 19.8 1.2 9 284-292 3-11 (36)
167 PF10013 DUF2256: Uncharacteri 40.6 11 0.00025 21.3 0.4 13 312-324 10-22 (42)
168 PF04780 DUF629: Protein of un 40.4 19 0.00042 32.8 2.0 31 32-62 54-84 (466)
169 PF08209 Sgf11: Sgf11 (transcr 40.3 23 0.0005 19.0 1.5 22 310-332 4-25 (33)
170 TIGR00100 hypA hydrogenase nic 40.0 14 0.0003 26.7 0.8 11 283-293 71-81 (115)
171 KOG3408|consensus 40.0 19 0.00041 25.9 1.4 29 29-57 51-79 (129)
172 PF14311 DUF4379: Domain of un 39.7 24 0.00052 21.4 1.8 14 283-296 29-42 (55)
173 PRK04023 DNA polymerase II lar 39.4 30 0.00064 34.8 3.1 14 282-295 1037-1050(1121)
174 PF13821 DUF4187: Domain of un 39.3 32 0.0007 21.0 2.2 17 102-118 29-45 (55)
175 PF04328 DUF466: Protein of un 39.0 23 0.00049 22.5 1.6 19 322-340 24-42 (65)
176 PF13824 zf-Mss51: Zinc-finger 39.0 25 0.00055 21.4 1.7 11 282-292 14-24 (55)
177 PF04810 zf-Sec23_Sec24: Sec23 38.5 3.9 8.4E-05 23.0 -1.8 32 35-73 2-33 (40)
178 KOG4167|consensus 38.4 6.7 0.00015 37.3 -1.2 27 281-307 791-817 (907)
179 KOG1842|consensus 38.2 20 0.00042 32.2 1.6 31 33-63 13-43 (505)
180 COG5151 SSL1 RNA polymerase II 36.4 22 0.00047 30.2 1.5 25 281-305 387-411 (421)
181 PF01363 FYVE: FYVE zinc finge 35.9 21 0.00046 22.7 1.2 9 256-264 11-19 (69)
182 KOG1842|consensus 35.9 22 0.00048 31.9 1.6 28 100-127 15-42 (505)
183 PF15227 zf-C3HC4_4: zinc fing 35.6 21 0.00045 20.3 1.0 6 311-316 37-42 (42)
184 COG1998 RPS31 Ribosomal protei 35.1 20 0.00043 21.2 0.8 10 310-319 37-46 (51)
185 TIGR01206 lysW lysine biosynth 35.0 18 0.00038 22.0 0.6 11 283-293 3-13 (54)
186 KOG3408|consensus 34.9 8.7 0.00019 27.5 -0.8 26 279-304 54-79 (129)
187 PF05495 zf-CHY: CHY zinc fing 34.6 7.5 0.00016 25.2 -1.1 13 282-294 41-53 (71)
188 PRK00564 hypA hydrogenase nick 34.3 19 0.00041 26.1 0.8 11 283-293 72-82 (117)
189 smart00440 ZnF_C2C2 C2C2 Zinc 34.3 6.1 0.00013 22.3 -1.4 10 311-320 29-38 (40)
190 COG4896 Uncharacterized protei 34.2 25 0.00054 21.7 1.1 10 281-290 30-39 (68)
191 COG4888 Uncharacterized Zn rib 33.7 12 0.00027 25.8 -0.2 9 312-320 48-56 (104)
192 PRK12496 hypothetical protein; 33.6 15 0.00033 28.4 0.2 11 283-293 128-138 (164)
193 PF11789 zf-Nse: Zinc-finger o 33.1 33 0.00072 21.1 1.6 31 281-315 23-53 (57)
194 PF01780 Ribosomal_L37ae: Ribo 33.0 11 0.00023 25.7 -0.6 12 310-321 53-64 (90)
195 TIGR00686 phnA alkylphosphonat 32.8 20 0.00044 25.2 0.7 11 283-293 20-30 (109)
196 PF07282 OrfB_Zn_ribbon: Putat 32.5 38 0.00082 21.5 1.9 13 281-293 45-57 (69)
197 COG4957 Predicted transcriptio 32.1 27 0.00059 25.6 1.3 22 312-336 78-99 (148)
198 PF07649 C1_3: C1-like domain; 31.8 25 0.00055 18.1 0.8 10 310-319 15-24 (30)
199 PRK05580 primosome assembly pr 31.5 26 0.00056 34.2 1.4 14 124-137 403-416 (679)
200 KOG4377|consensus 31.5 26 0.00056 31.1 1.3 56 65-124 272-335 (480)
201 KOG4167|consensus 31.5 11 0.00023 36.0 -1.1 25 310-334 792-816 (907)
202 cd00065 FYVE FYVE domain; Zinc 31.3 28 0.0006 21.1 1.1 10 283-292 19-28 (57)
203 KOG0978|consensus 31.2 17 0.00038 34.9 0.2 20 281-300 677-696 (698)
204 PRK10220 hypothetical protein; 31.2 24 0.00051 24.9 0.8 11 283-293 21-31 (111)
205 PF03145 Sina: Seven in absent 30.8 47 0.001 26.5 2.6 46 288-336 24-73 (198)
206 COG2331 Uncharacterized protei 30.4 16 0.00035 23.7 -0.1 8 130-137 13-20 (82)
207 COG1571 Predicted DNA-binding 30.3 25 0.00053 31.6 1.0 33 253-296 349-381 (421)
208 KOG4124|consensus 29.6 11 0.00023 32.5 -1.2 54 281-334 348-422 (442)
209 PF09963 DUF2197: Uncharacteri 28.7 26 0.00057 21.4 0.6 36 284-319 4-40 (56)
210 COG1773 Rubredoxin [Energy pro 28.4 26 0.00056 21.4 0.5 11 310-320 3-13 (55)
211 PF03811 Zn_Tnp_IS1: InsA N-te 27.9 19 0.00042 19.7 -0.0 30 283-316 6-35 (36)
212 PRK03681 hypA hydrogenase nick 27.9 28 0.00061 25.0 0.8 10 283-292 71-80 (114)
213 COG1198 PriA Primosomal protei 27.7 23 0.00051 34.5 0.4 45 256-319 437-484 (730)
214 PF13248 zf-ribbon_3: zinc-rib 27.4 24 0.00052 17.6 0.2 7 66-72 4-10 (26)
215 PF07295 DUF1451: Protein of u 26.6 24 0.00053 26.6 0.3 33 222-264 108-140 (146)
216 KOG2636|consensus 26.4 42 0.00091 30.2 1.7 23 281-303 400-423 (497)
217 PF04423 Rad50_zn_hook: Rad50 26.2 27 0.00059 21.0 0.4 11 312-322 22-32 (54)
218 PTZ00255 60S ribosomal protein 26.0 26 0.00055 23.9 0.3 13 281-293 53-65 (90)
219 COG4640 Predicted membrane pro 25.8 47 0.001 29.4 1.8 22 279-300 12-33 (465)
220 TIGR00595 priA primosomal prot 25.6 37 0.0008 31.8 1.3 13 280-292 238-250 (505)
221 PF10276 zf-CHCC: Zinc-finger 25.3 28 0.00061 19.6 0.3 11 310-320 29-39 (40)
222 KOG4377|consensus 25.2 38 0.00082 30.1 1.2 65 186-254 270-339 (480)
223 PRK00420 hypothetical protein; 24.5 39 0.00085 24.2 1.0 9 311-319 41-49 (112)
224 TIGR00280 L37a ribosomal prote 24.4 24 0.00052 24.1 -0.1 12 281-292 52-63 (91)
225 KOG2636|consensus 24.2 55 0.0012 29.5 2.0 30 56-85 393-423 (497)
226 smart00661 RPOL9 RNA polymeras 24.0 52 0.0011 19.4 1.4 11 310-320 20-30 (52)
227 smart00064 FYVE Protein presen 23.8 45 0.00097 21.1 1.1 26 256-293 12-37 (68)
228 PF09332 Mcm10: Mcm10 replicat 23.6 12 0.00026 32.7 -2.0 42 34-77 251-298 (344)
229 COG1656 Uncharacterized conser 23.6 68 0.0015 24.7 2.1 44 35-81 97-147 (165)
230 smart00154 ZnF_AN1 AN1-like Zi 23.2 46 0.001 18.6 0.9 13 282-294 12-24 (39)
231 TIGR01562 FdhE formate dehydro 23.1 75 0.0016 27.5 2.6 71 226-318 184-260 (305)
232 COG1326 Uncharacterized archae 22.9 79 0.0017 25.0 2.4 12 309-320 29-40 (201)
233 TIGR03826 YvyF flagellar opero 22.9 40 0.00086 25.2 0.8 11 37-47 5-15 (137)
234 KOG1994|consensus 22.8 49 0.0011 26.8 1.3 23 98-120 237-259 (268)
235 KOG0717|consensus 22.6 41 0.00089 30.5 0.9 35 1-54 277-311 (508)
236 PF14205 Cys_rich_KTR: Cystein 22.4 45 0.00098 20.2 0.8 10 158-167 27-36 (55)
237 PF10263 SprT-like: SprT-like 21.8 34 0.00075 26.0 0.3 10 283-292 124-133 (157)
238 PRK00762 hypA hydrogenase nick 21.8 41 0.00089 24.6 0.7 10 283-293 71-80 (124)
239 COG3880 Modulator of heat shoc 21.7 19 0.0004 27.6 -1.1 31 35-76 74-104 (176)
240 PF03833 PolC_DP2: DNA polymer 21.7 31 0.00066 34.0 0.0 11 129-139 680-690 (900)
241 COG1655 Uncharacterized protei 21.6 16 0.00035 29.5 -1.5 15 224-238 17-31 (267)
242 KOG4727|consensus 21.5 56 0.0012 25.2 1.3 24 98-121 73-96 (193)
243 COG1675 TFA1 Transcription ini 21.5 1.5E+02 0.0032 23.3 3.7 33 278-319 109-141 (176)
244 smart00731 SprT SprT homologue 21.5 35 0.00075 25.8 0.3 32 282-320 112-143 (146)
245 PF05129 Elf1: Transcription e 21.3 15 0.00032 24.6 -1.5 11 65-75 47-57 (81)
246 PF14803 Nudix_N_2: Nudix N-te 21.3 40 0.00086 18.2 0.4 6 161-166 24-29 (34)
247 PF01096 TFIIS_C: Transcriptio 20.9 4 8.6E-05 22.9 -3.7 10 311-320 29-38 (39)
248 PF09416 UPF1_Zn_bind: RNA hel 20.7 65 0.0014 24.5 1.5 50 185-234 12-68 (152)
249 COG4530 Uncharacterized protei 20.4 54 0.0012 23.1 1.0 11 282-292 26-36 (129)
250 COG5216 Uncharacterized conser 20.4 72 0.0016 19.6 1.4 29 283-318 23-52 (67)
251 PF01927 Mut7-C: Mut7-C RNAse 20.0 47 0.001 25.1 0.7 18 63-80 123-140 (147)
No 1
>KOG1074|consensus
Probab=99.96 E-value=3.2e-31 Score=236.47 Aligned_cols=173 Identities=28% Similarity=0.614 Sum_probs=148.0
Q ss_pred ccccccccccCCHHHHHHHHHHhCCCCcccccccccccCCchHHHhHHHhhccchhHHHHhhhcCCccccC---ccCccc
Q psy4574 160 LSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICD---VCGKSY 236 (343)
Q Consensus 160 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~---~C~~~f 236 (343)
.+|-.|.++....++|+.|.+.|.|++||+|.+|++.|.++.+|+.|+-.|. ..+...-.+.|+ +|.+.|
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHk-------a~p~~R~q~ScP~~~ic~~kf 678 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHK-------AKPPARVQFSCPSTFICQKKF 678 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccc-------cCccccccccCCchhhhcccc
Confidence 7899999999999999999999999999999999999999999999985543 233334668999 999999
Q ss_pred cchhHHHHHHhhhcCC-CC-------------cccccccccCCChHHHHHHHHhhcCC----------------------
Q psy4574 237 VRKGALTEHHQREHQG-KK-------------PVCTICGKMLIDKRSLANHMNTHTGL---------------------- 280 (343)
Q Consensus 237 ~~~~~l~~H~~~~h~~-~~-------------~~C~~C~~~f~~~~~l~~H~~~h~~~---------------------- 280 (343)
...-.|..|+ +.|.+ .. -+|..|.+.|.....+..++..|.+.
T Consensus 679 tn~V~lpQhI-riH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~ 757 (958)
T KOG1074|consen 679 TNAVTLPQHI-RIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPP 757 (958)
T ss_pred cccccccceE-EeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCC
Confidence 9999999997 66542 11 17999999998888877777655211
Q ss_pred --------------------------------------------------------------------------------
Q psy4574 281 -------------------------------------------------------------------------------- 280 (343)
Q Consensus 281 -------------------------------------------------------------------------------- 280 (343)
T Consensus 758 ~~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l 837 (958)
T KOG1074|consen 758 PPENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSML 837 (958)
T ss_pred ccccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccc
Confidence
Q ss_pred ----------------------------------------CceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccc
Q psy4574 281 ----------------------------------------KPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKF 320 (343)
Q Consensus 281 ----------------------------------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 320 (343)
....|.+||+.|...++|..|+++|.+.|+|.|..|++.|
T Consensus 838 ~eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aF 917 (958)
T KOG1074|consen 838 NEGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAF 917 (958)
T ss_pred ccccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhh
Confidence 1167999999999999999999999999999999999999
Q ss_pred cCchhHHhHHhhcCCCCCCC
Q psy4574 321 RQRSSYTLHYKTHHPGVIPP 340 (343)
Q Consensus 321 ~~~~~l~~H~~~~h~~~~~~ 340 (343)
..+.+|..||.+|+...|+.
T Consensus 918 ttrgnLKvHMgtH~w~q~~s 937 (958)
T KOG1074|consen 918 TTRGNLKVHMGTHMWVQPPS 937 (958)
T ss_pred hhhhhhhhhhccccccCCCc
Confidence 99999999999999887764
No 2
>KOG1074|consensus
Probab=99.95 E-value=9.4e-30 Score=227.21 Aligned_cols=213 Identities=27% Similarity=0.526 Sum_probs=158.4
Q ss_pred CCccccccccccccChHHHHHHHHhcCCCCCcccCCcCcccccchhHHHhHHhhccCCCC--CCcccc---ccccccCCH
Q psy4574 98 KTKCVCHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKP--ANLSCE---FCSRIFTKK 172 (343)
Q Consensus 98 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~--~~~~C~---~C~~~f~~~ 172 (343)
..+-.|-+|.++..-...|+.|. +.|.++++|+|.+||+-|.++.+|+.||..|-...+ .++.|+ +|...|...
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHy-rtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~ 681 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHY-RTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNA 681 (958)
T ss_pred CCccceeeeeecccchhhhhhhh-hcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccc
Confidence 34557999999999999999999 999999999999999999999999999988765443 458999 999999999
Q ss_pred HHHHHHHHHhCCC-------------CcccccccccccCCchHHHhHHHhhccch-----hHHHHhhhcCC----ccccC
Q psy4574 173 ELLRSHLAVHKIG-------------KNYQCYYCRKTYCHKPNLTNHIQNVHLKS-----ELEKRTAILKR----EFICD 230 (343)
Q Consensus 173 ~~l~~H~~~h~~~-------------~~~~C~~C~~~~~~~~~l~~H~~~~h~~~-----~~~~~~~~~~~----~~~C~ 230 (343)
..|..|+++|.+. ..-+|..|.+.|.+...+..++..+-+.. ........... +..+.
T Consensus 682 V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~ 761 (958)
T KOG1074|consen 682 VTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPEN 761 (958)
T ss_pred ccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccc
Confidence 9999999999743 12589999999999888888887663221 00001111111 22222
Q ss_pred ccCccccchhHHHHHHh----------------------------------------------------h----------
Q psy4574 231 VCGKSYVRKGALTEHHQ----------------------------------------------------R---------- 248 (343)
Q Consensus 231 ~C~~~f~~~~~l~~H~~----------------------------------------------------~---------- 248 (343)
.|+..+.....+..+-. .
T Consensus 762 ~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~ 841 (958)
T KOG1074|consen 762 SCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGL 841 (958)
T ss_pred ccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccc
Confidence 33322222211111100 0
Q ss_pred -------hc-------------------CC------CCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHH
Q psy4574 249 -------EH-------------------QG------KKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAA 296 (343)
Q Consensus 249 -------~h-------------------~~------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 296 (343)
.+ .+ ..-.|..|++.|.+.+.|..|+++|++++||.|.+|+++|..+.
T Consensus 842 ~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrg 921 (958)
T KOG1074|consen 842 ATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRG 921 (958)
T ss_pred ccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhh
Confidence 00 00 01159999999999999999999999999999999999999999
Q ss_pred HHHHHhhhcCCCCcc
Q psy4574 297 YLKVHMSCHTGETSH 311 (343)
Q Consensus 297 ~l~~H~~~h~~~~~~ 311 (343)
+|..||.+|....++
T Consensus 922 nLKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 922 NLKVHMGTHMWVQPP 936 (958)
T ss_pred hhhhhhccccccCCC
Confidence 999999999876543
No 3
>KOG2462|consensus
Probab=99.95 E-value=7.6e-29 Score=195.84 Aligned_cols=139 Identities=35% Similarity=0.645 Sum_probs=127.1
Q ss_pred CCCcccccccccccCCchHHHhHHHhhccchhHHHHhhhcCCccccCccCccccchhHHHHHHhhhcCCCCccccccccc
Q psy4574 184 IGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICDVCGKSYVRKGALTEHHQREHQGKKPVCTICGKM 263 (343)
Q Consensus 184 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~~C~~~ 263 (343)
....|+|+.|++.+.+.++|-+|.|.|-+ ...++.+.|+.|++.|.+-.+|++|+ +.|. -+.+|.+||+.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~--------~~s~ka~~C~~C~K~YvSmpALkMHi-rTH~-l~c~C~iCGKa 196 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRS--------LDSKKAFSCKYCGKVYVSMPALKMHI-RTHT-LPCECGICGKA 196 (279)
T ss_pred cCCceeccccccccccccccchhhccccc--------ccccccccCCCCCceeeehHHHhhHh-hccC-CCccccccccc
Confidence 34568999999999999999999887643 33478899999999999999999998 7775 55699999999
Q ss_pred CCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccccCchhHHhHHhh
Q psy4574 264 LIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 264 f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
|...=.|+.|+++|+|||||.|+.|+++|.++++|+.||++|.+.++|+|+.|++.|+.++-|..|...
T Consensus 197 FSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 197 FSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999864
No 4
>KOG3608|consensus
Probab=99.95 E-value=5.4e-27 Score=190.11 Aligned_cols=228 Identities=25% Similarity=0.496 Sum_probs=184.9
Q ss_pred ccc--cccccccCChHHHHHHhhhhcCCccccc-----CCCCcccc--ccccccccChHHHHHHHHhcCCCCCcccCCcC
Q psy4574 65 YEC--SLCNESFENKKVLFRHLRGKHGMKIKLS-----RHKTKCVC--HYCNRTFDSKAKIQEHIISSHMHEKLYQCDFC 135 (343)
Q Consensus 65 ~~C--~~C~~~~~~~~~l~~H~~~~~~~~~~~~-----~~~~~~~C--~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C 135 (343)
|.| ..|+..|.+...+..|+..|.-...+.+ +....+-| ..|-+.|.++..|++|+ +.|++++...|+.|
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~-r~Hs~eKvvACp~C 213 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHI-RTHSNEKVVACPHC 213 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHH-HhcCCCeEEecchH
Confidence 666 5699999999999999888776433311 11223345 45889999999999999 88999999999999
Q ss_pred cccccchhHHHhHHhhccCCCCCCccccccccccCCHHHHHHHHHHhCCCCcccccccccccCCchHHHhHHHhhccchh
Q psy4574 136 GSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSE 215 (343)
Q Consensus 136 ~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~ 215 (343)
|..|.++..|..|++.........|+|..|.+.|.+...|..|+..|- ..|+|+.|+......++|..|++..|
T Consensus 214 g~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rH---- 287 (467)
T KOG3608|consen 214 GELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRH---- 287 (467)
T ss_pred HHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhh----
Confidence 999999999999998887766667899999999999999999999884 67899999999999999999986544
Q ss_pred HHHHhhhcCCccccCccCccccchhHHHHHHhhhcCCCCccccc--ccccCCChHHHHHHHHhhc-CC--CceeCCccCc
Q psy4574 216 LEKRTAILKREFICDVCGKSYVRKGALTEHHQREHQGKKPVCTI--CGKMLIDKRSLANHMNTHT-GL--KPHCCEICGR 290 (343)
Q Consensus 216 ~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~--~~~~C~~C~~ 290 (343)
...++|+|+.|++.+.+.++|..|+ ..|+...|.|.. |.+.+.+...|+.|++.++ |. -+|.|..|++
T Consensus 288 ------s~dkpfKCd~Cd~~c~~esdL~kH~-~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr 360 (467)
T KOG3608|consen 288 ------SKDKPFKCDECDTRCVRESDLAKHV-QVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDR 360 (467)
T ss_pred ------ccCCCccccchhhhhccHHHHHHHH-HhccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchh
Confidence 4468899999999999999999997 688877788866 8888888888888877654 33 4588888888
Q ss_pred ccCCHHHHHHHhhhcC
Q psy4574 291 SYSTAAYLKVHMSCHT 306 (343)
Q Consensus 291 ~f~~~~~l~~H~~~h~ 306 (343)
.|....+|-+|+...+
T Consensus 361 ~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 361 FFTSGKSLSAHLMKKH 376 (467)
T ss_pred hhccchhHHHHHHHhh
Confidence 8888888888875443
No 5
>KOG3608|consensus
Probab=99.94 E-value=1.9e-26 Score=186.90 Aligned_cols=261 Identities=25% Similarity=0.447 Sum_probs=214.2
Q ss_pred cccc--cccccccCC-hHHHHHHhhhhcC-------------CcccccC-------------CCCcccc--ccccccccC
Q psy4574 64 LYEC--SLCNESFEN-KKVLFRHLRGKHG-------------MKIKLSR-------------HKTKCVC--HYCNRTFDS 112 (343)
Q Consensus 64 ~~~C--~~C~~~~~~-~~~l~~H~~~~~~-------------~~~~~~~-------------~~~~~~C--~~C~~~f~~ 112 (343)
.+.| ..|+....+ ...|.+|+--|-- ..+.+.. ....|.| ..|+..|.+
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s 148 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVS 148 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccC
Confidence 5777 458888877 5888888763311 0000000 0233556 559999999
Q ss_pred hHHHHHHHHhcCCC------------C-CcccC--CcCcccccchhHHHhHHhhccCCCCCCccccccccccCCHHHHHH
Q psy4574 113 KAKIQEHIISSHMH------------E-KLYQC--DFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELLRS 177 (343)
Q Consensus 113 ~~~l~~H~~~~H~~------------~-~~~~C--~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~ 177 (343)
...+.+|+ ..|.. + ..+.| ..|.+.+.++..|++|++.|.+++.. .|+.|+.-|.....|-.
T Consensus 149 ~~ef~dHV-~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvv--ACp~Cg~~F~~~tkl~D 225 (467)
T KOG3608|consen 149 IVEFQDHV-VKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVV--ACPHCGELFRTKTKLFD 225 (467)
T ss_pred HHHHHHHH-HHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEE--ecchHHHHhccccHHHH
Confidence 99999998 66632 1 22455 45999999999999999999999886 99999999999999999
Q ss_pred HHHHhC--CCCcccccccccccCCchHHHhHHHhhccchhHHHHhhhcCCccccCccCccccchhHHHHHHhhhcCCCC-
Q psy4574 178 HLAVHK--IGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICDVCGKSYVRKGALTEHHQREHQGKK- 254 (343)
Q Consensus 178 H~~~h~--~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~- 254 (343)
|++..+ ...+|+|..|.+.|.++..|..|+..+ . ..|+|+.|+.+....+.|.+|++-.|+..+
T Consensus 226 H~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rH-----------v--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkp 292 (467)
T KOG3608|consen 226 HLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRH-----------V--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKP 292 (467)
T ss_pred HHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHh-----------h--hcccccccccCCCChHHHHHHHHhhhccCCC
Confidence 987654 456899999999999999999998543 2 459999999999999999999987787654
Q ss_pred cccccccccCCChHHHHHHHHhhcCCCceeCCc--cCcccCCHHHHHHHhhhcC-CC--CcccCCCCcccccCchhHHhH
Q psy4574 255 PVCTICGKMLIDKRSLANHMNTHTGLKPHCCEI--CGRSYSTAAYLKVHMSCHT-GE--TSHTCHLCPQKFRQRSSYTLH 329 (343)
Q Consensus 255 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~--~~~~C~~C~~~f~~~~~l~~H 329 (343)
++|..|++.+...+.|.+|+..|. +-.|+|.. |.+.|.+..+|..|++.++ |. .+|.|-.|++.|++-.+|.+|
T Consensus 293 fKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~H 371 (467)
T KOG3608|consen 293 FKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAH 371 (467)
T ss_pred ccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHH
Confidence 599999999999999999999887 57799998 9999999999999997766 43 469999999999999999999
Q ss_pred HhhcCCCCCCCC
Q psy4574 330 YKTHHPGVIPPK 341 (343)
Q Consensus 330 ~~~~h~~~~~~~ 341 (343)
++..|+-.+++.
T Consensus 372 L~kkH~f~~PsG 383 (467)
T KOG3608|consen 372 LMKKHGFRLPSG 383 (467)
T ss_pred HHHhhcccCCCC
Confidence 999999877654
No 6
>KOG3623|consensus
Probab=99.91 E-value=1.5e-24 Score=191.09 Aligned_cols=117 Identities=21% Similarity=0.358 Sum_probs=103.1
Q ss_pred ccccCcccccccChhHHHHHHHHhcCC-CCcccccccccccCChHHHHHHhhhhcCCcccccC-----CCCccccccccc
Q psy4574 35 EERCRSCGLLSGSITQTYIHYLECKNR-GKLYECSLCNESFENKKVLFRHLRGKHGMKIKLSR-----HKTKCVCHYCNR 108 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~l~~H~~~~h~~-~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~-----~~~~~~C~~C~~ 108 (343)
.++|+.|...+.....|..|.+..|.. +..|.|..|.++|..+..|.+||..|.+....... ...+|+|..|++
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 478999999999999999998888865 45699999999999999999999999886655322 267899999999
Q ss_pred cccChHHHHHHHHhcCCCCCcccCCcCcccccchhHHHhHHhhc
Q psy4574 109 TFDSKAKIQEHIISSHMHEKLYQCDFCGSQQRTKCRFYYHLRDK 152 (343)
Q Consensus 109 ~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~~~l~~H~~~~ 152 (343)
.|.-.-.|..|+ ++|.|+++|.|+.|++.|........||...
T Consensus 290 AFKfKHHLKEHl-RIHSGEKPfeCpnCkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 290 AFKFKHHLKEHL-RIHSGEKPFECPNCKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred hhhhHHHHHhhh-eeecCCCCcCCcccccccccCCccccccccc
Confidence 999999999999 9999999999999999999888888887654
No 7
>KOG2462|consensus
Probab=99.89 E-value=1.6e-23 Score=165.87 Aligned_cols=132 Identities=26% Similarity=0.623 Sum_probs=85.7
Q ss_pred CccccccccccccChHHHHHHHHhcCC---CCCcccCCcCcccccchhHHHhHHhhccCCCCCCccccccccccCCHHHH
Q psy4574 99 TKCVCHYCNRTFDSKAKIQEHIISSHM---HEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELL 175 (343)
Q Consensus 99 ~~~~C~~C~~~f~~~~~l~~H~~~~H~---~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l 175 (343)
..|.|..|++.+.+...|.+|. ..|. ..+.+.|++|++.+.+...|..|+++|.. ...|.+||+.|.....|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHk-Q~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l----~c~C~iCGKaFSRPWLL 203 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHK-QTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTL----PCECGICGKAFSRPWLL 203 (279)
T ss_pred Cceeccccccccccccccchhh-cccccccccccccCCCCCceeeehHHHhhHhhccCC----CcccccccccccchHHh
Confidence 3445666666666666666665 5553 23446666666666666666666666652 24677777777666667
Q ss_pred HHHHHHhCCCCcccccccccccCCchHHHhHHHhhccchhHHHHhhhcCCccccCccCccccchhHHHHHH
Q psy4574 176 RSHLAVHKIGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICDVCGKSYVRKGALTEHH 246 (343)
Q Consensus 176 ~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 246 (343)
+-|++.|+|++||.|+.|++.|.++++|+.|| .++.+.+.|+|+.|++.|...+.|..|.
T Consensus 204 QGHiRTHTGEKPF~C~hC~kAFADRSNLRAHm-----------QTHS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 204 QGHIRTHTGEKPFSCPHCGKAFADRSNLRAHM-----------QTHSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred hcccccccCCCCccCCcccchhcchHHHHHHH-----------HhhcCCccccCcchhhHHHHHHHHHHhh
Confidence 77777777777777777777777777777776 4455556677777777777777777775
No 8
>KOG3623|consensus
Probab=99.83 E-value=3e-21 Score=170.55 Aligned_cols=111 Identities=23% Similarity=0.553 Sum_probs=93.2
Q ss_pred ccccccccccccChHHHHHHHHhcCC-CCCcccCCcCcccccchhHHHhHHhhccCCCC-----------CCcccccccc
Q psy4574 100 KCVCHYCNRTFDSKAKIQEHIISSHM-HEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKP-----------ANLSCEFCSR 167 (343)
Q Consensus 100 ~~~C~~C~~~f~~~~~l~~H~~~~H~-~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~-----------~~~~C~~C~~ 167 (343)
...|+.|+..+...+.|..|+...|- .+..|.|..|.++|.++..|.+||..|....+ ..|+|..|++
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 45799999999999999999877774 45678899999999999999999988764332 2489999999
Q ss_pred ccCCHHHHHHHHHHhCCCCcccccccccccCCchHHHhHHHhh
Q psy4574 168 IFTKKELLRSHLAVHKIGKNYQCYYCRKTYCHKPNLTNHIQNV 210 (343)
Q Consensus 168 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~ 210 (343)
.|..+-.|+.|+++|.|++||.|+.|.+.|....++-.||.+.
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccccc
Confidence 9999999999999999999999999999998888888887543
No 9
>KOG3576|consensus
Probab=99.72 E-value=1.1e-18 Score=131.44 Aligned_cols=118 Identities=31% Similarity=0.611 Sum_probs=105.0
Q ss_pred hhhcCCccccCccCccccchhHHHHHHhhhcCC-CCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHH
Q psy4574 220 TAILKREFICDVCGKSYVRKGALTEHHQREHQG-KKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYL 298 (343)
Q Consensus 220 ~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~-~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 298 (343)
...+...|.|..|++.|.....|.+|+ .-|.. +.+.|..||+.|.....|.+|+++|+|.+||+|..|+++|.+.-+|
T Consensus 111 sssd~d~ftCrvCgK~F~lQRmlnrh~-kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsl 189 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRMLNRHL-KCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSL 189 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHHHHHh-hhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccH
Confidence 445567899999999999999999998 55654 5569999999999999999999999999999999999999999999
Q ss_pred HHHhh-hcCC----------CCcccCCCCcccccCchhHHhHHhhcCCCCC
Q psy4574 299 KVHMS-CHTG----------ETSHTCHLCPQKFRQRSSYTLHYKTHHPGVI 338 (343)
Q Consensus 299 ~~H~~-~h~~----------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 338 (343)
..|++ +|.. .+.|.|..||+.......+..|+..+|+..|
T Consensus 190 eshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 190 ESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 99995 4543 3579999999999999999999999999865
No 10
>KOG3576|consensus
Probab=99.65 E-value=6.5e-17 Score=121.87 Aligned_cols=129 Identities=21% Similarity=0.404 Sum_probs=101.7
Q ss_pred CCCCcccCCcCcccccchhHHHhHHhhccCCCCCCccccccccccCCHHHHHHHHHHhCCCCcccccccccccCCchHHH
Q psy4574 125 MHEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYYCRKTYCHKPNLT 204 (343)
Q Consensus 125 ~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~ 204 (343)
.+...|.|.+|++.|.-...|.+|++-|..-+ .+.|..||+.|.+.-+|++|+++|+|.+||+|..|++.|+++-+|.
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~vk--r~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsle 190 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVK--RHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLE 190 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHHH--HHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHH
Confidence 34556788888888888888888887766433 3588889999988889999999999999999999999999999999
Q ss_pred hHHHhhccchhHHHHhhhcCCccccCccCccccchhHHHHHHhhhcCCCCc
Q psy4574 205 NHIQNVHLKSELEKRTAILKREFICDVCGKSYVRKGALTEHHQREHQGKKP 255 (343)
Q Consensus 205 ~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 255 (343)
.|++..|+......-.....+.|.|..||.+-.....+..|+..+|...++
T Consensus 191 shl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 191 SHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred HHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 999888877644444445567889999998888888888888666655443
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.29 E-value=1.1e-11 Score=111.20 Aligned_cols=146 Identities=22% Similarity=0.481 Sum_probs=113.7
Q ss_pred ccccccccccCCHHHHHHHHHHhCCCCcccccc--cccccCCchHHHhHHHhhccchhHHHHhhhcCCccccCccCcccc
Q psy4574 160 LSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYY--CRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICDVCGKSYV 237 (343)
Q Consensus 160 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~~f~ 237 (343)
..|+.|.+.... ..|..|..... .....|+. |+..|. +..+..| +.|+.|++.|.
T Consensus 408 V~C~NC~~~i~l-~~l~lHe~~C~-r~~V~Cp~~~Cg~v~~-r~el~~H--------------------~~C~~Cgk~f~ 464 (567)
T PLN03086 408 VECRNCKHYIPS-RSIALHEAYCS-RHNVVCPHDGCGIVLR-VEEAKNH--------------------VHCEKCGQAFQ 464 (567)
T ss_pred EECCCCCCccch-hHHHHHHhhCC-CcceeCCcccccceee-ccccccC--------------------ccCCCCCCccc
Confidence 479999887654 44567875543 45567884 998883 3334444 58999999996
Q ss_pred chhHHHHHHhhhcCCCCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCC----------HHHHHHHhhhcCC
Q psy4574 238 RKGALTEHHQREHQGKKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYST----------AAYLKVHMSCHTG 307 (343)
Q Consensus 238 ~~~~l~~H~~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~----------~~~l~~H~~~h~~ 307 (343)
...|..|....| .++.|+ |+..+ .+..|..|+..|.+.+++.|..|++.|.. ...|..|..+. |
T Consensus 465 -~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G 538 (567)
T PLN03086 465 -QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-G 538 (567)
T ss_pred -hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-C
Confidence 678999985554 677999 99755 67899999999999999999999999852 45899998884 8
Q ss_pred CCcccCCCCcccccCchhHHhHHhhcCC
Q psy4574 308 ETSHTCHLCPQKFRQRSSYTLHYKTHHP 335 (343)
Q Consensus 308 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 335 (343)
.+++.|..||+.+..+ .|..|+-.-|.
T Consensus 539 ~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 539 SRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred CcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 8999999999998665 48889877664
No 12
>PHA00733 hypothetical protein
Probab=99.20 E-value=2.2e-11 Score=89.17 Aligned_cols=83 Identities=23% Similarity=0.451 Sum_probs=63.5
Q ss_pred CCcccccccccCCChHHHHHH--HH---hhcCCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccccCchhHH
Q psy4574 253 KKPVCTICGKMLIDKRSLANH--MN---THTGLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKFRQRSSYT 327 (343)
Q Consensus 253 ~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 327 (343)
+++.|.+|...|.....|..+ +. .+.+.+||.|..|++.|.....|..|+..| ..+|.|+.|++.|.....|.
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 344666666666655555444 11 234578999999999999999999999876 35789999999999999999
Q ss_pred hHHhhcCCCC
Q psy4574 328 LHYKTHHPGV 337 (343)
Q Consensus 328 ~H~~~~h~~~ 337 (343)
.|+...|+..
T Consensus 117 ~H~~~~h~~~ 126 (128)
T PHA00733 117 DHVCKKHNIC 126 (128)
T ss_pred HHHHHhcCcc
Confidence 9999998764
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.19 E-value=6.8e-11 Score=106.23 Aligned_cols=101 Identities=25% Similarity=0.481 Sum_probs=53.2
Q ss_pred cCCcCcccccchhHHHhHHhhccCCCCCCccccccccccCCHHHHHHHHHHhCCCCcccccccccccCC----------c
Q psy4574 131 QCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYYCRKTYCH----------K 200 (343)
Q Consensus 131 ~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~----------~ 200 (343)
.|+.|++.|. ...|..|+..+| .+ +.|+ |+..+ ....|..|+..|.+.+++.|+.|+..+.. .
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kp--v~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~ 527 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EP--LQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRL 527 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CC--ccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhh
Confidence 5666665553 455566655544 22 3565 65433 44556666666666666666666655531 1
Q ss_pred hHHHhHHHhhccchhHHHHhhhcCCccccCccCccccchhHHHHHHhhhcC
Q psy4574 201 PNLTNHIQNVHLKSELEKRTAILKREFICDVCGKSYVRKGALTEHHQREHQ 251 (343)
Q Consensus 201 ~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 251 (343)
+.|..|. .. -+.+++.|..|++.+. ..+|..|+...|.
T Consensus 528 s~Lt~HE-----------~~-CG~rt~~C~~Cgk~Vr-lrdm~~H~~~~h~ 565 (567)
T PLN03086 528 RGMSEHE-----------SI-CGSRTAPCDSCGRSVM-LKEMDIHQIAVHQ 565 (567)
T ss_pred hhHHHHH-----------Hh-cCCcceEccccCCeee-ehhHHHHHHHhhc
Confidence 2445553 22 2555666666665553 3345556555443
No 14
>PHA00733 hypothetical protein
Probab=99.00 E-value=4.4e-10 Score=82.32 Aligned_cols=84 Identities=17% Similarity=0.264 Sum_probs=62.9
Q ss_pred hcCCccccCccCccccchhHHHHH-----HhhhcCCCCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHH
Q psy4574 222 ILKREFICDVCGKSYVRKGALTEH-----HQREHQGKKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAA 296 (343)
Q Consensus 222 ~~~~~~~C~~C~~~f~~~~~l~~H-----~~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 296 (343)
..++++.|.+|...|.....|..+ ....+...++.|+.|++.|.+...|..|++.+ ..+|.|.+|+++|....
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~ 113 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTD 113 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHH
Confidence 345667777777666665555443 12455667779999999999999999998876 35689999999999999
Q ss_pred HHHHHhhhcCC
Q psy4574 297 YLKVHMSCHTG 307 (343)
Q Consensus 297 ~l~~H~~~h~~ 307 (343)
.|..|+...++
T Consensus 114 sL~~H~~~~h~ 124 (128)
T PHA00733 114 STLDHVCKKHN 124 (128)
T ss_pred HHHHHHHHhcC
Confidence 99999876554
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.91 E-value=7.3e-10 Score=66.30 Aligned_cols=43 Identities=23% Similarity=0.420 Sum_probs=35.1
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccccCchhHH
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKFRQRSSYT 327 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 327 (343)
|+|+.||+.|...++|..|+++|. ++|+|..|++.|...+.|.
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 788888888888888888888887 6788888888888777664
No 16
>KOG3993|consensus
Probab=98.89 E-value=1.7e-10 Score=97.11 Aligned_cols=177 Identities=19% Similarity=0.300 Sum_probs=99.1
Q ss_pred ccccccccccCCHHHHHHHHHHhCCCCcccccccccccCCchHHHhHHHhhccchhHH----------------------
Q psy4574 160 LSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELE---------------------- 217 (343)
Q Consensus 160 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~---------------------- 217 (343)
|.|..|...|.+.-.|.+|.-.-.-..-|+|+.|++.|....+|..|.++|.+.....
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 4455554444444444444322222233555555555555555555554444332111
Q ss_pred HHhhhcCCccccCccCccccchhHHHHHHhhhcCCCCc-----------------ccccccccCCChHHHHHHHHhhc-C
Q psy4574 218 KRTAILKREFICDVCGKSYVRKGALTEHHQREHQGKKP-----------------VCTICGKMLIDKRSLANHMNTHT-G 279 (343)
Q Consensus 218 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-----------------~C~~C~~~f~~~~~l~~H~~~h~-~ 279 (343)
......+..|.|..|++.|.+...|+.|...+|..... .+..|.-.+.-...-..++..+. .
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~s 427 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGS 427 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeecc
Confidence 01112234699999999999999999997566543222 23333332222222111111111 1
Q ss_pred CCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccccCchhHHhHHhhcCCC
Q psy4574 280 LKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKFRQRSSYTLHYKTHHPG 336 (343)
Q Consensus 280 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 336 (343)
...-.|+.|+..+..+..--.+.+.-..+..|.|.+|.-.|-+...|.+|+...|+-
T Consensus 428 ael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 428 AELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred ccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 122467888877776665555555555566789999999999999999999988864
No 17
>KOG3993|consensus
Probab=98.89 E-value=2.8e-10 Score=95.89 Aligned_cols=58 Identities=17% Similarity=0.162 Sum_probs=46.8
Q ss_pred ccccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHHHhhhhcCCc
Q psy4574 33 WDEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMK 91 (343)
Q Consensus 33 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~ 91 (343)
...|.|.+|...|.....|..| +=.--..-.|+|++|++.|+-..+|..|-+=|-+..
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQH-rC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~ 322 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQH-RCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRP 322 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhc-cCCeeEEeeecCCcccccccCchhhhhhhcccCCch
Confidence 4569999999999999999999 222222345999999999999999999988665533
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.69 E-value=8.1e-09 Score=61.85 Aligned_cols=44 Identities=23% Similarity=0.436 Sum_probs=34.8
Q ss_pred CcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHH
Q psy4574 254 KPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLK 299 (343)
Q Consensus 254 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 299 (343)
.|.|+.||+.|...+.|..|++.|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 3578888888888888888888887 6788888888887666553
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.62 E-value=2e-08 Score=51.29 Aligned_cols=24 Identities=42% Similarity=0.834 Sum_probs=13.2
Q ss_pred HHHHhhhcCCCCcccCCCCccccc
Q psy4574 298 LKVHMSCHTGETSHTCHLCPQKFR 321 (343)
Q Consensus 298 l~~H~~~h~~~~~~~C~~C~~~f~ 321 (343)
|.+|+++|.++++|.|++|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 455555555555555555555553
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.53 E-value=6.6e-08 Score=49.39 Aligned_cols=26 Identities=54% Similarity=0.985 Sum_probs=23.6
Q ss_pred HHHHHHHhhcCCCceeCCccCcccCC
Q psy4574 269 SLANHMNTHTGLKPHCCEICGRSYST 294 (343)
Q Consensus 269 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 294 (343)
+|..|++.|++++||.|++|++.|..
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 47899999999999999999999863
No 21
>PHA00616 hypothetical protein
Probab=98.43 E-value=9.4e-08 Score=54.38 Aligned_cols=33 Identities=15% Similarity=0.195 Sum_probs=18.0
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCC
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCH 314 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~ 314 (343)
||+|+.||+.|...++|..|++.|++++++.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 355555555555555555555555555555443
No 22
>PHA00732 hypothetical protein
Probab=98.43 E-value=2.1e-07 Score=61.59 Aligned_cols=35 Identities=34% Similarity=0.733 Sum_probs=16.9
Q ss_pred ccccccccCCChHHHHHHHHh-hcCCCceeCCccCcccC
Q psy4574 256 VCTICGKMLIDKRSLANHMNT-HTGLKPHCCEICGRSYS 293 (343)
Q Consensus 256 ~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~ 293 (343)
.|..|++.|.+...|..|++. |. ++.|+.|++.|.
T Consensus 3 ~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~ 38 (79)
T PHA00732 3 KCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR 38 (79)
T ss_pred cCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC
Confidence 455555555555555555542 32 134555555554
No 23
>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=98.42 E-value=4.1e-07 Score=55.93 Aligned_cols=52 Identities=25% Similarity=0.380 Sum_probs=40.3
Q ss_pred ccccCcccccccChhHHHHHHHHhcCCC-CcccccccccccCChHHHHHHhhhhcC
Q psy4574 35 EERCRSCGLLSGSITQTYIHYLECKNRG-KLYECSLCNESFENKKVLFRHLRGKHG 89 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~-~~~~C~~C~~~~~~~~~l~~H~~~~~~ 89 (343)
.|.||+|++. .+..+|..|+...|..+ +.+.||+|...+. ..|..||...|+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 5789999994 45678999988888875 4688999987655 378888887763
No 24
>PHA00616 hypothetical protein
Probab=98.33 E-value=1.9e-07 Score=53.16 Aligned_cols=30 Identities=20% Similarity=0.263 Sum_probs=20.0
Q ss_pred cccCCCCcccccCchhHHhHHhhcCCCCCC
Q psy4574 310 SHTCHLCPQKFRQRSSYTLHYKTHHPGVIP 339 (343)
Q Consensus 310 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 339 (343)
+|+|+.||+.|..++.|..|++++|+..++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 466666666666666666666666666654
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.32 E-value=1.1e-06 Score=53.97 Aligned_cols=37 Identities=30% Similarity=0.756 Sum_probs=14.4
Q ss_pred ccCCcCcccccchhHHHhHHhhccCCCCCCcccccccc
Q psy4574 130 YQCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSR 167 (343)
Q Consensus 130 ~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~ 167 (343)
|.||+|++ .-+...|..|....|......+.||+|..
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchh
Confidence 34444444 22233444444444433333334444443
No 26
>PHA00732 hypothetical protein
Probab=98.04 E-value=4.6e-06 Score=55.25 Aligned_cols=45 Identities=31% Similarity=0.563 Sum_probs=31.2
Q ss_pred ceeCCccCcccCCHHHHHHHhhh-cCCCCcccCCCCcccccCchhHHhHHhh
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSC-HTGETSHTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
||.|..|++.|....+|..|++. |.+ +.|+.||+.|. .|..|+++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhcc
Confidence 46777777777777777777764 442 46777777775 46677744
No 27
>KOG1146|consensus
Probab=97.97 E-value=2.5e-06 Score=82.70 Aligned_cols=121 Identities=17% Similarity=0.251 Sum_probs=91.7
Q ss_pred ccCcccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHHHhhhhcCCccc-----------------ccCCCC
Q psy4574 37 RCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMKIK-----------------LSRHKT 99 (343)
Q Consensus 37 ~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~-----------------~~~~~~ 99 (343)
-|.-|...+.....+.-|+...+...+.+.|+.|++.|.....|..||+..|.+... ......
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 355566667666667777667778889999999999999999999999996664332 111256
Q ss_pred ccccccccccccChHHHHHHHHhcCCC------------------------------------------CCcccCCcCcc
Q psy4574 100 KCVCHYCNRTFDSKAKIQEHIISSHMH------------------------------------------EKLYQCDFCGS 137 (343)
Q Consensus 100 ~~~C~~C~~~f~~~~~l~~H~~~~H~~------------------------------------------~~~~~C~~C~~ 137 (343)
+|.|..|+..+.+...|..|+...-.. +..+.|..|++
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 789999999999999999998322100 23488999999
Q ss_pred cccchhHHHhHHhhccCCCC
Q psy4574 138 QQRTKCRFYYHLRDKHLSKP 157 (343)
Q Consensus 138 ~~~~~~~l~~H~~~~~~~~~ 157 (343)
...-..+|+.||.......+
T Consensus 598 etniarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 598 ETNIARNLRIHMTASPSSSP 617 (1406)
T ss_pred hhhhhhccccccccCCCCCC
Confidence 99999999999987664333
No 28
>KOG1146|consensus
Probab=97.93 E-value=1.5e-06 Score=84.08 Aligned_cols=220 Identities=21% Similarity=0.290 Sum_probs=141.5
Q ss_pred ccccccccccChHHHHHHHHhcCCCCCcccCCcCcccccchhHHHhHHhhccCCCCCCccccccccccCCHHHHHHHHHH
Q psy4574 102 VCHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELLRSHLAV 181 (343)
Q Consensus 102 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 181 (343)
.|..|...+.....+..|++..|...+.|+|+.|+..|+....|..||+..|.+... ..|. ..+.|.+.
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~----~~c~-------~gq~~~~~ 506 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS----AYCK-------AGQNHPRL 506 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch----hHhH-------hccccccc
Confidence 456667777777777777777788788899999999999999999999987765432 2221 11122222
Q ss_pred ------hCCCCcccccccccccCCchHHHhHHHhhccchhHHHH--------------------------------hhhc
Q psy4574 182 ------HKIGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELEKR--------------------------------TAIL 223 (343)
Q Consensus 182 ------h~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~~--------------------------------~~~~ 223 (343)
-.+..+|.|..|...+....+|..|++..--....+.. ....
T Consensus 507 arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pkt 586 (1406)
T KOG1146|consen 507 ARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKT 586 (1406)
T ss_pred cccccccCCCCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCC
Confidence 12346789999999999988999998764322111000 0111
Q ss_pred CCccccCccCccccchhHHHHHHhhhcCCCCc-ccccccccCCChHHHHHHHHhh-cC----------------------
Q psy4574 224 KREFICDVCGKSYVRKGALTEHHQREHQGKKP-VCTICGKMLIDKRSLANHMNTH-TG---------------------- 279 (343)
Q Consensus 224 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-~C~~C~~~f~~~~~l~~H~~~h-~~---------------------- 279 (343)
+-.|.|..|++...-..+|..|+...+...++ .+..++-.+..-..+..+.+.+ ++
T Consensus 587 kP~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp~tps~~~~s~~~l~qkl~l~~~~~e 666 (1406)
T KOG1146|consen 587 KPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLPFTPSSPPSSDYELSQKLELPDLSLE 666 (1406)
T ss_pred CCCcchhhhcchhhhhhccccccccCCCCCChHHHhhhcchhhccccccCcCCCCCCCCCCccccchhhhhhcccccccc
Confidence 23589999999999999999997655544442 3333333333333333332222 00
Q ss_pred -----------------------------------------------------------------CCceeCCccCccc-C
Q psy4574 280 -----------------------------------------------------------------LKPHCCEICGRSY-S 293 (343)
Q Consensus 280 -----------------------------------------------------------------~~~~~C~~C~~~f-~ 293 (343)
.+.+.|-+|+.-- .
T Consensus 667 ~~a~~as~~~~~~~~~~~~~~~aPt~s~~g~~~~~~~~~~~~~~~~~~~aa~~l~~a~~~~~sps~k~~~civcd~~st~ 746 (1406)
T KOG1146|consen 667 VAAKPASGLDGQLQLIRADPFLAPTGSEVGGGESLSPRDKLLRLTILPEAAMILGRAYMQDNSPSLKVFDCIVCDVFSTD 746 (1406)
T ss_pred ccccccccccchhhhccCCcccCCCCCCCCCCCCCCcccccCcccccHHHHhhhhhcccCCCCHHHHHHHHhhhhhhhhh
Confidence 0348899998543 3
Q ss_pred CHHHHHHHhhhcC------CCCcccCCCCcccccCchhHHhHHhh
Q psy4574 294 TAAYLKVHMSCHT------GETSHTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 294 ~~~~l~~H~~~h~------~~~~~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
+-..|+.|...-. ....|.|.+|.+....+.++..|.++
T Consensus 747 ~l~~l~~h~~~~rs~ke~v~g~~~~c~l~~y~t~~kanfqlh~Kt 791 (1406)
T KOG1146|consen 747 RLDQLWFHNTRERSRKEQVPGDVPSCKLKPYATNTKANFQLHNKT 791 (1406)
T ss_pred hHHHHhhcchhhhhhhhcccCCCCcceecccccccchhhhhhccc
Confidence 5566777753322 23469999999999999999988764
No 29
>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=97.92 E-value=5.3e-06 Score=41.09 Aligned_cols=22 Identities=23% Similarity=0.631 Sum_probs=13.2
Q ss_pred ccCCCCcccccCchhHHhHHhh
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
|.|++|++.|.+++.|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666654
No 30
>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=97.89 E-value=7.1e-06 Score=41.07 Aligned_cols=24 Identities=38% Similarity=0.872 Sum_probs=14.6
Q ss_pred ccCCCCcccccCchhHHhHHhhcC
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKTHH 334 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~~h 334 (343)
|+|++|++.|.+...|..|++++|
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 456667777767777777666655
No 31
>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=97.82 E-value=1.1e-05 Score=39.90 Aligned_cols=23 Identities=48% Similarity=0.872 Sum_probs=16.9
Q ss_pred eeCCccCcccCCHHHHHHHhhhc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCH 305 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h 305 (343)
|.|++|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56777777777777777777653
No 32
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.75 E-value=1.5e-05 Score=41.16 Aligned_cols=25 Identities=24% Similarity=0.517 Sum_probs=14.1
Q ss_pred ccCCCCcccccCchhHHhHHhhcCC
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKTHHP 335 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~~h~ 335 (343)
|.|..|++.|.+..+|..|++.|++
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhcC
Confidence 4555555555555555555555543
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.70 E-value=2.8e-05 Score=54.93 Aligned_cols=23 Identities=22% Similarity=0.608 Sum_probs=12.3
Q ss_pred ceeCCccCcccCCHHHHHHHhhh
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSC 304 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~ 304 (343)
.+.|.+|++.|.+...|..||+.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHHcC
Confidence 35555555555555555555544
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.69 E-value=2.2e-05 Score=55.47 Aligned_cols=23 Identities=43% Similarity=0.993 Sum_probs=0.0
Q ss_pred ccccccccCChHHHHHHhhhhcC
Q psy4574 67 CSLCNESFENKKVLFRHLRGKHG 89 (343)
Q Consensus 67 C~~C~~~~~~~~~l~~H~~~~~~ 89 (343)
|..|+..|.+...|..||...|+
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~ 24 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHG 24 (100)
T ss_dssp -----------------------
T ss_pred ccccccccccccccccccccccc
Confidence 55555555555555555555554
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.58 E-value=5.3e-05 Score=37.76 Aligned_cols=24 Identities=38% Similarity=0.839 Sum_probs=16.4
Q ss_pred eeCCccCcccCCHHHHHHHhhhcC
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHT 306 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~ 306 (343)
|.|++|++.|.+...|..|+..|+
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 577888888888888888876653
No 36
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.57 E-value=5.7e-05 Score=38.97 Aligned_cols=26 Identities=31% Similarity=0.769 Sum_probs=21.6
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCC
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTG 307 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 307 (343)
||+|..|++.|....+|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 57888899999888888888887753
No 37
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.45 E-value=5.1e-05 Score=37.87 Aligned_cols=24 Identities=33% Similarity=0.647 Sum_probs=16.8
Q ss_pred ccCCCCcccccCchhHHhHHhhcCC
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKTHHP 335 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~~h~ 335 (343)
|+|+.|++... +..|..|++.+|+
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 57888888777 7788888877765
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.30 E-value=9.2e-05 Score=60.88 Aligned_cols=52 Identities=25% Similarity=0.570 Sum_probs=36.9
Q ss_pred CCceeCCc--cCcccCCHHHHHHHhhhcC-------------------CCCcccCCCCcccccCchhHHhHHh
Q psy4574 280 LKPHCCEI--CGRSYSTAAYLKVHMSCHT-------------------GETSHTCHLCPQKFRQRSSYTLHYK 331 (343)
Q Consensus 280 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 331 (343)
++||+|++ |.+.|.....|..|+.--+ ..+||+|++|++.+++...|..|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 36666666 6666666666666654211 2478999999999999999988864
No 39
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.04 E-value=0.00058 Score=39.84 Aligned_cols=31 Identities=26% Similarity=0.403 Sum_probs=18.1
Q ss_pred CCcccCCCCcccccCchhHHhHHhhcCCCCC
Q psy4574 308 ETSHTCHLCPQKFRQRSSYTLHYKTHHPGVI 338 (343)
Q Consensus 308 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 338 (343)
+.|..||+|+..+.+..+|.+|+...|+.+|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 4566777777777777777777777776654
No 40
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.95 E-value=0.00021 Score=58.88 Aligned_cols=62 Identities=29% Similarity=0.567 Sum_probs=47.5
Q ss_pred CCcccccc--cccccCCchHHHhHHHhhccch--------hHHHHhhhcCCccccCccCccccchhHHHHHH
Q psy4574 185 GKNYQCYY--CRKTYCHKPNLTNHIQNVHLKS--------ELEKRTAILKREFICDVCGKSYVRKGALTEHH 246 (343)
Q Consensus 185 ~~~~~C~~--C~~~~~~~~~l~~H~~~~h~~~--------~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 246 (343)
++||+|++ |.+.+.....|+.|+..-|-.. ..........+||+|+.|++.+.....|+.|.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 48899988 9999999999999987766322 11122345568899999999999988888884
No 41
>KOG2482|consensus
Probab=96.93 E-value=0.0016 Score=54.44 Aligned_cols=148 Identities=17% Similarity=0.290 Sum_probs=84.1
Q ss_pred ccccCcccccc-cChhHHHHHHHHhcCCC---------------------CcccccccccccCChHHHHHHhhhhcCCc-
Q psy4574 35 EERCRSCGLLS-GSITQTYIHYLECKNRG---------------------KLYECSLCNESFENKKVLFRHLRGKHGMK- 91 (343)
Q Consensus 35 ~~~C~~C~~~~-~~~~~l~~H~~~~h~~~---------------------~~~~C~~C~~~~~~~~~l~~H~~~~~~~~- 91 (343)
..+|-+|+..+ .+.+.+..|+-..|.-. ..++|-.|.+.|..+..|..||+......
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrri 223 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRI 223 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCccc
Confidence 47899998876 56677778876677432 24889999999999999999999654422
Q ss_pred -ccccCCCCcccccc--cccccc-ChHHHHHHHHhcCC------------C--CCcccCCcCcccccchhHHHhHHhhcc
Q psy4574 92 -IKLSRHKTKCVCHY--CNRTFD-SKAKIQEHIISSHM------------H--EKLYQCDFCGSQQRTKCRFYYHLRDKH 153 (343)
Q Consensus 92 -~~~~~~~~~~~C~~--C~~~f~-~~~~l~~H~~~~H~------------~--~~~~~C~~C~~~~~~~~~l~~H~~~~~ 153 (343)
|.....+.-|.-.. =++... ....+.+-....+. + .....|-.|.....+...|..||...|
T Consensus 224 nPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vH 303 (423)
T KOG2482|consen 224 NPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVH 303 (423)
T ss_pred CCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHH
Confidence 21111111111110 011100 00000000000110 0 111467777776666777777776665
Q ss_pred CC-------------------------CCCCccccccccccCCHHHHHHHHHHh
Q psy4574 154 LS-------------------------KPANLSCEFCSRIFTKKELLRSHLAVH 182 (343)
Q Consensus 154 ~~-------------------------~~~~~~C~~C~~~f~~~~~l~~H~~~h 182 (343)
.- ....-.|..|...|.....|..|+..+
T Consensus 304 e~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 304 EFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 20 011147888888899999999988654
No 42
>KOG2231|consensus
Probab=96.90 E-value=0.003 Score=58.62 Aligned_cols=107 Identities=21% Similarity=0.347 Sum_probs=65.8
Q ss_pred cccCccccccc---------------ChhHHHHHHHHhcCCCCcccccccc---------cccCChHHHHHHhhhhcCCc
Q psy4574 36 ERCRSCGLLSG---------------SITQTYIHYLECKNRGKLYECSLCN---------ESFENKKVLFRHLRGKHGMK 91 (343)
Q Consensus 36 ~~C~~C~~~~~---------------~~~~l~~H~~~~h~~~~~~~C~~C~---------~~~~~~~~l~~H~~~~~~~~ 91 (343)
+.|.+|+..|. +...|..|+...|.. +.|.+|- ...-+...|..|++.--...
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~~---~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~ 176 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKL---HLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDD 176 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhh---hccccccccceeeeeeeehehHHHHHHHHhcCCCcc
Confidence 56777776663 667788887666644 3333331 12234566666665433311
Q ss_pred ccccCCCCccccccccccccChHHHHHHHHhcCCCCCcccCCcC------cccccchhHHHhHHhhcc
Q psy4574 92 IKLSRHKTKCVCHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFC------GSQQRTKCRFYYHLRDKH 153 (343)
Q Consensus 92 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C------~~~~~~~~~l~~H~~~~~ 153 (343)
.. ...---|..|...|.+...|..|++..| |.|..| +..|.....|..|.+..|
T Consensus 177 ~s---~rGhp~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 177 ES---CRGHPLCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cc---ccCCccchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 10 0112258888888888888888885544 566666 356677788888888887
No 43
>KOG2231|consensus
Probab=96.85 E-value=0.0037 Score=58.02 Aligned_cols=117 Identities=24% Similarity=0.574 Sum_probs=74.3
Q ss_pred cccCChHHHHHHhhhhcCCcccccCCCCccccccc---------cccccChHHHHHHHHhcCCCCCc----ccCCcCccc
Q psy4574 72 ESFENKKVLFRHLRGKHGMKIKLSRHKTKCVCHYC---------NRTFDSKAKIQEHIISSHMHEKL----YQCDFCGSQ 138 (343)
Q Consensus 72 ~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~C~~C---------~~~f~~~~~l~~H~~~~H~~~~~----~~C~~C~~~ 138 (343)
..|.+-..|..||...|... .|.+| -....+..+|..|+...-.++.. -.|..|...
T Consensus 122 ~~~~s~~~Lk~H~~~~H~~~----------~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~ 191 (669)
T KOG2231|consen 122 TEFKSVENLKNHMRDQHKLH----------LCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHER 191 (669)
T ss_pred cchhHHHHHHHHHHHhhhhh----------ccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhh
Confidence 34447788888987777643 23333 22334567777777443332222 468888888
Q ss_pred ccchhHHHhHHhhccCCCCCCcccccc------ccccCCHHHHHHHHHHhCCCCccccc--ccc-cccCCchHHHhHHH
Q psy4574 139 QRTKCRFYYHLRDKHLSKPANLSCEFC------SRIFTKKELLRSHLAVHKIGKNYQCY--YCR-KTYCHKPNLTNHIQ 208 (343)
Q Consensus 139 ~~~~~~l~~H~~~~~~~~~~~~~C~~C------~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~-~~~~~~~~l~~H~~ 208 (343)
|-...+|.+|++..| |.|..| +.-|.....|..|.+.++ |.|. .|. ..|.....+..+++
T Consensus 192 fld~~el~rH~~~~h------~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 192 FLDDDELYRHLRFDH------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred hccHHHHHHhhccce------eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccceeeehhHHHHHHH
Confidence 988999999988877 466666 355677788888887766 6676 565 33444434555544
No 44
>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=96.78 E-value=0.0009 Score=39.08 Aligned_cols=34 Identities=29% Similarity=0.553 Sum_probs=20.2
Q ss_pred CCCCCcccCCcCcccccchhHHHhHHhhccCCCC
Q psy4574 124 HMHEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKP 157 (343)
Q Consensus 124 H~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~ 157 (343)
+..+.+-.||+|+..+.+..+|++|+...|+.++
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3455667788888888888888888877776543
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.77 E-value=0.0012 Score=33.22 Aligned_cols=20 Identities=25% Similarity=0.647 Sum_probs=9.1
Q ss_pred cCCCCcccccCchhHHhHHh
Q psy4574 312 TCHLCPQKFRQRSSYTLHYK 331 (343)
Q Consensus 312 ~C~~C~~~f~~~~~l~~H~~ 331 (343)
.|+.|++.|.....|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 34444444444444444444
No 46
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.76 E-value=0.0012 Score=33.35 Aligned_cols=24 Identities=33% Similarity=0.642 Sum_probs=21.8
Q ss_pred eeCCccCcccCCHHHHHHHhhhcC
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHT 306 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~ 306 (343)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 679999999999999999998764
No 47
>KOG2482|consensus
Probab=96.74 E-value=0.0035 Score=52.40 Aligned_cols=149 Identities=19% Similarity=0.356 Sum_probs=93.5
Q ss_pred CCccccccccccc-CChHHHHHHhhhhcCCcccccCC--------------CCccccccccccccChHHHHHHHHhcCCC
Q psy4574 62 GKLYECSLCNESF-ENKKVLFRHLRGKHGMKIKLSRH--------------KTKCVCHYCNRTFDSKAKIQEHIISSHMH 126 (343)
Q Consensus 62 ~~~~~C~~C~~~~-~~~~~l~~H~~~~~~~~~~~~~~--------------~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 126 (343)
....+|-.|...+ .+++.+..|+...|+...-++.. ...+.|-.|.+.|.++..|+.||+..-..
T Consensus 142 ~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hr 221 (423)
T KOG2482|consen 142 IFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHR 221 (423)
T ss_pred eeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCc
Confidence 3457899997766 67788889999888754333332 34567999999999999999999554322
Q ss_pred CCcccCCcCcccc--------cchhHHHhHH--hhc--c-------------CCCCCCccccccccccCCHHHHHHHHHH
Q psy4574 127 EKLYQCDFCGSQQ--------RTKCRFYYHL--RDK--H-------------LSKPANLSCEFCSRIFTKKELLRSHLAV 181 (343)
Q Consensus 127 ~~~~~C~~C~~~~--------~~~~~l~~H~--~~~--~-------------~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 181 (343)
.-.-+-..-++.| ++......+. .+. . +..+....|-.|.....+...|..||..
T Consensus 222 rinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~ 301 (423)
T KOG2482|consen 222 RINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKI 301 (423)
T ss_pred ccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHH
Confidence 1110111111111 1111111111 111 0 1112226899999988889999999976
Q ss_pred hCC---------------------------CCcccccccccccCCchHHHhHHHhh
Q psy4574 182 HKI---------------------------GKNYQCYYCRKTYCHKPNLTNHIQNV 210 (343)
Q Consensus 182 h~~---------------------------~~~~~C~~C~~~~~~~~~l~~H~~~~ 210 (343)
-+. .....|-.|...|..+..|..|+...
T Consensus 302 vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 302 VHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 432 11257888999999999999998553
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.64 E-value=0.0013 Score=32.99 Aligned_cols=20 Identities=35% Similarity=0.914 Sum_probs=9.6
Q ss_pred eCCccCcccCCHHHHHHHhh
Q psy4574 284 CCEICGRSYSTAAYLKVHMS 303 (343)
Q Consensus 284 ~C~~C~~~f~~~~~l~~H~~ 303 (343)
.|.+|++.|.+..+|..|++
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 44444444444444444443
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.63 E-value=0.0013 Score=32.69 Aligned_cols=23 Identities=43% Similarity=0.778 Sum_probs=10.3
Q ss_pred ccccccccccCChHHHHHHhhhhc
Q psy4574 65 YECSLCNESFENKKVLFRHLRGKH 88 (343)
Q Consensus 65 ~~C~~C~~~~~~~~~l~~H~~~~~ 88 (343)
|+|+.|++... ...|..|++.+|
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 445555555443
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.60 E-value=0.0011 Score=33.24 Aligned_cols=23 Identities=22% Similarity=0.644 Sum_probs=21.0
Q ss_pred ccCCCCcccccCchhHHhHHhhc
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKTH 333 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~~ 333 (343)
|.|.+|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 57999999999999999999754
No 51
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.53 E-value=0.0039 Score=52.23 Aligned_cols=132 Identities=23% Similarity=0.436 Sum_probs=87.0
Q ss_pred ccccCc--ccccccChhHHHHHHHHhcCCCCccccccc---cccc------CChHHHHHHhhhhcCCcccccCCCCcccc
Q psy4574 35 EERCRS--CGLLSGSITQTYIHYLECKNRGKLYECSLC---NESF------ENKKVLFRHLRGKHGMKIKLSRHKTKCVC 103 (343)
Q Consensus 35 ~~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C---~~~~------~~~~~l~~H~~~~~~~~~~~~~~~~~~~C 103 (343)
.|.||. |..++.....|..|+...|.. +.|.+| .+.| .+...|+.|...-..+... ..--.|
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~---~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GF----KGHP~C 223 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF---VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGF----KGHPLC 223 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc---EEhHhhhcCcccCccceeeeecccccccccCCccccCc----CCCchh
Confidence 477886 888888899999997777754 456655 2223 3344555554322211100 111259
Q ss_pred ccccccccChHHHHHHHHhcCCCCCcccCCcCc-------ccccchhHHHhHHhhccCCCCCCccccc--cc----cccC
Q psy4574 104 HYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCG-------SQQRTKCRFYYHLRDKHLSKPANLSCEF--CS----RIFT 170 (343)
Q Consensus 104 ~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~-------~~~~~~~~l~~H~~~~~~~~~~~~~C~~--C~----~~f~ 170 (343)
..|+..|-+.+.|..|++..|- +|-+|+ .-|.+...|..|++..| |.|.. |. .+|+
T Consensus 224 ~FC~~~FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h------y~ct~qtc~~~k~~vf~ 292 (493)
T COG5236 224 IFCKIYFYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH------YCCTFQTCRVGKCYVFP 292 (493)
T ss_pred hhccceecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhcCc------eEEEEEEEecCcEEEec
Confidence 9999999999999999977662 566665 35788888888887766 45543 22 5688
Q ss_pred CHHHHHHHHHHhCC
Q psy4574 171 KKELLRSHLAVHKI 184 (343)
Q Consensus 171 ~~~~l~~H~~~h~~ 184 (343)
....|..|+...++
T Consensus 293 ~~~el~~h~~~~h~ 306 (493)
T COG5236 293 YHTELLEHLTRFHK 306 (493)
T ss_pred cHHHHHHHHHHHhh
Confidence 88888888765544
No 52
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.50 E-value=0.0024 Score=53.46 Aligned_cols=129 Identities=20% Similarity=0.447 Sum_probs=77.4
Q ss_pred ccccc--cccccCCchHHHhHHHhhccchhHHHHhhhcCCccccCccC---------ccccchhHHHHHHhhhcCCC---
Q psy4574 188 YQCYY--CRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICDVCG---------KSYVRKGALTEHHQREHQGK--- 253 (343)
Q Consensus 188 ~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~---------~~f~~~~~l~~H~~~~h~~~--- 253 (343)
|.||. |...+.....|..|....|.. +.|..|- -...+...|..|......+.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~-------------~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFK 218 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF-------------VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFK 218 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc-------------EEhHhhhcCcccCccceeeeecccccccccCCccccCcC
Confidence 55654 555555566677777665532 3444442 23344566666642222222
Q ss_pred -CcccccccccCCChHHHHHHHHhhcCCCceeCCccCc-------ccCCHHHHHHHhhhcCCCCcccCCC--Cc----cc
Q psy4574 254 -KPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGR-------SYSTAAYLKVHMSCHTGETSHTCHL--CP----QK 319 (343)
Q Consensus 254 -~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~h~~~~~~~C~~--C~----~~ 319 (343)
.|.|..|...|-+...|..|++..+. +|-||++ -|.+..+|.+|...-+ |.|.. |. +.
T Consensus 219 GHP~C~FC~~~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~v 290 (493)
T COG5236 219 GHPLCIFCKIYFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYV 290 (493)
T ss_pred CCchhhhccceecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEE
Confidence 34788888888888888888876553 4666653 4667777888864322 23321 22 56
Q ss_pred ccCchhHHhHHhhcCCCC
Q psy4574 320 FRQRSSYTLHYKTHHPGV 337 (343)
Q Consensus 320 f~~~~~l~~H~~~~h~~~ 337 (343)
|.....|..|+..-|+..
T Consensus 291 f~~~~el~~h~~~~h~~~ 308 (493)
T COG5236 291 FPYHTELLEHLTRFHKVN 308 (493)
T ss_pred eccHHHHHHHHHHHhhcc
Confidence 888888888888777653
No 53
>PRK04860 hypothetical protein; Provisional
Probab=96.42 E-value=0.0017 Score=49.56 Aligned_cols=39 Identities=21% Similarity=0.485 Sum_probs=29.8
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccccCch
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKFRQRS 324 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 324 (343)
+|.|. |+. ....+.+|.++|.++++|.|..|+..|....
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 58887 876 5667788888888888888888888776543
No 54
>KOG2785|consensus
Probab=96.42 E-value=0.015 Score=49.70 Aligned_cols=49 Identities=24% Similarity=0.462 Sum_probs=37.7
Q ss_pred ccccccccCCChHHHHHHHHhhcCC-----------------------CceeCCccC---cccCCHHHHHHHhhh
Q psy4574 256 VCTICGKMLIDKRSLANHMNTHTGL-----------------------KPHCCEICG---RSYSTAAYLKVHMSC 304 (343)
Q Consensus 256 ~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 304 (343)
.|..|+..+++....+.||..++|- .-|.|-.|. +.|.+..+.+.||..
T Consensus 168 ~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 168 DCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 6888999998888888898887764 226677777 777777788888754
No 55
>KOG4173|consensus
Probab=96.32 E-value=0.0019 Score=49.84 Aligned_cols=80 Identities=25% Similarity=0.557 Sum_probs=64.7
Q ss_pred cccccc--cccccCChHHHHHHhhhhcCCcccccCCCCccccccccccccChHHHHHHHHhcC---------CCCCcccC
Q psy4574 64 LYECSL--CNESFENKKVLFRHLRGKHGMKIKLSRHKTKCVCHYCNRTFDSKAKIQEHIISSH---------MHEKLYQC 132 (343)
Q Consensus 64 ~~~C~~--C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H---------~~~~~~~C 132 (343)
.|.|++ |-..|.+.+....|..+-|+. .|..|.+.|++...|..|+...| .|...|.|
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~~-----------sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHGN-----------SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcccc-----------hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 467865 888999999999998877775 59999999999999999997777 24667888
Q ss_pred --CcCcccccchhHHHhHHhhccC
Q psy4574 133 --DFCGSQQRTKCRFYYHLRDKHL 154 (343)
Q Consensus 133 --~~C~~~~~~~~~l~~H~~~~~~ 154 (343)
..|+..|.+...-..|+...|.
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhcc
Confidence 4588888888888888877764
No 56
>KOG2785|consensus
Probab=96.19 E-value=0.022 Score=48.78 Aligned_cols=59 Identities=19% Similarity=0.304 Sum_probs=48.6
Q ss_pred CceeCCccCcccCCHHHHHHHhhhcCCC-----------------------CcccCCCCc---ccccCchhHHhHHh-hc
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCHTGE-----------------------TSHTCHLCP---QKFRQRSSYTLHYK-TH 333 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~-~~ 333 (343)
-|-.|-.|++.+.+-..-..||..++|- .-+.|=.|. +.|.+..+.+.||. .-
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K~ 244 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDKG 244 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhcc
Confidence 4577999999999999999999888872 236788888 99999999999997 55
Q ss_pred CCCCCC
Q psy4574 334 HPGVIP 339 (343)
Q Consensus 334 h~~~~~ 339 (343)
|...++
T Consensus 245 HCkl~y 250 (390)
T KOG2785|consen 245 HCKLPY 250 (390)
T ss_pred CcccCC
Confidence 666665
No 57
>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=96.13 E-value=0.0025 Score=32.68 Aligned_cols=22 Identities=23% Similarity=0.552 Sum_probs=12.8
Q ss_pred ccCCCCcccccCchhHHhHHhh
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
|.|..|++.|.+...|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 4466666666666666666543
No 58
>KOG2893|consensus
Probab=96.00 E-value=0.0018 Score=51.18 Aligned_cols=51 Identities=27% Similarity=0.574 Sum_probs=42.2
Q ss_pred CCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHHHH-hhhcCC
Q psy4574 253 KKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVH-MSCHTG 307 (343)
Q Consensus 253 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H-~~~h~~ 307 (343)
.+++|.+|++.|.....|.+|++.- -|+|.||.+..-+-..|..| |++|..
T Consensus 9 ~kpwcwycnrefddekiliqhqkak----hfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 9 DKPWCWYCNREFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred CCceeeecccccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhhhh
Confidence 4568999999999999999998874 49999999887777788888 466653
No 59
>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=95.75 E-value=0.0047 Score=31.62 Aligned_cols=22 Identities=32% Similarity=0.730 Sum_probs=17.9
Q ss_pred eeCCccCcccCCHHHHHHHhhh
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSC 304 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~ 304 (343)
|.|.+|++.|.+..+|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6788888888888888888764
No 60
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.08 E-value=0.016 Score=28.94 Aligned_cols=19 Identities=32% Similarity=0.690 Sum_probs=10.8
Q ss_pred cCCCCcccccCchhHHhHHh
Q psy4574 312 TCHLCPQKFRQRSSYTLHYK 331 (343)
Q Consensus 312 ~C~~C~~~f~~~~~l~~H~~ 331 (343)
+|+.||+.| ..+.|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 466666666 4555555554
No 61
>KOG4173|consensus
Probab=94.87 E-value=0.012 Score=45.60 Aligned_cols=89 Identities=20% Similarity=0.413 Sum_probs=71.4
Q ss_pred ccccccCc--ccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHHHhhhhcCCcccc--cCCCCccccc--cc
Q psy4574 33 WDEERCRS--CGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMKIKL--SRHKTKCVCH--YC 106 (343)
Q Consensus 33 ~~~~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~--~~~~~~~~C~--~C 106 (343)
...+.|+. |...|.+......|+-..|.. .|..|.+.|.+...|..|+..-|..-... .+....|.|- .|
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgC 152 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGC 152 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhh
Confidence 34577987 899999999999998777743 79999999999999999998777633222 2335667885 49
Q ss_pred cccccChHHHHHHHHhcCC
Q psy4574 107 NRTFDSKAKIQEHIISSHM 125 (343)
Q Consensus 107 ~~~f~~~~~l~~H~~~~H~ 125 (343)
+..|.+..+-..|+...|.
T Consensus 153 t~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 153 TEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhhhhhhhhhhhHHHHhcc
Confidence 9999999999999999985
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.40 E-value=0.036 Score=27.68 Aligned_cols=20 Identities=35% Similarity=0.737 Sum_probs=14.7
Q ss_pred eeCCccCcccCCHHHHHHHhh
Q psy4574 283 HCCEICGRSYSTAAYLKVHMS 303 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~ 303 (343)
.+|+.||+.| ..+.|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4688888888 6667777764
No 63
>PRK04860 hypothetical protein; Provisional
Probab=94.05 E-value=0.033 Score=42.59 Aligned_cols=38 Identities=24% Similarity=0.488 Sum_probs=27.5
Q ss_pred CCccccccccccCCHHHHHHHHHHhCCCCcccccccccccCC
Q psy4574 158 ANLSCEFCSRIFTKKELLRSHLAVHKIGKNYQCYYCRKTYCH 199 (343)
Q Consensus 158 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~ 199 (343)
+.|.|. |+. ....+++|.+++.++++|.|..|+..|..
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 347787 776 56667778888888888888888776644
No 64
>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=93.50 E-value=0.047 Score=29.41 Aligned_cols=24 Identities=25% Similarity=0.773 Sum_probs=14.6
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQ 318 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 318 (343)
|.|.+||..+.... .+..||+||.
T Consensus 2 ~~C~~CGy~y~~~~------------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE------------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc------------CCCcCcCCCC
Confidence 56777776654322 4566777765
No 65
>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=93.18 E-value=0.089 Score=28.65 Aligned_cols=22 Identities=14% Similarity=0.616 Sum_probs=15.5
Q ss_pred ceeCCccCcccCCHHHHHHHhh
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMS 303 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~ 303 (343)
+|.|.+|+..|.+..++..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4667777777777777777764
No 66
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.93 E-value=0.037 Score=32.93 Aligned_cols=28 Identities=36% Similarity=0.656 Sum_probs=13.2
Q ss_pred CCCcccCCCCcccccCchhHHhHHhhcC
Q psy4574 307 GETSHTCHLCPQKFRQRSSYTLHYKTHH 334 (343)
Q Consensus 307 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h 334 (343)
|+..++||.||..|....++.+|+...|
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 3334445555555544444444444443
No 67
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.51 E-value=0.07 Score=31.81 Aligned_cols=30 Identities=20% Similarity=0.274 Sum_probs=16.3
Q ss_pred cccccccccCcccccccChhHHHHHHHHhc
Q psy4574 30 SDVWDEERCRSCGLLSGSITQTYIHYLECK 59 (343)
Q Consensus 30 ~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h 59 (343)
.+|+..++||.|++.|........|+-+.|
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 344555556666665555555555544444
No 68
>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=92.47 E-value=0.082 Score=28.79 Aligned_cols=24 Identities=29% Similarity=0.512 Sum_probs=21.2
Q ss_pred CcccCCCCcccccCchhHHhHHhh
Q psy4574 309 TSHTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 309 ~~~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
.+|.|.+|+..|.....+..|+..
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHCh
Confidence 368899999999999999999864
No 69
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.42 E-value=0.2 Score=35.41 Aligned_cols=83 Identities=17% Similarity=0.284 Sum_probs=40.1
Q ss_pred cccccccccccCChHHHHHHhhhhcCCcccccC----CCCccccccccccccChHHHHHHHHhcCCCCCcccCCcCcccc
Q psy4574 64 LYECSLCNESFENKKVLFRHLRGKHGMKIKLSR----HKTKCVCHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCGSQQ 139 (343)
Q Consensus 64 ~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~----~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~ 139 (343)
|..|++|+.+.-+..+|.+-.-.--+..++... ....-.|.-|+..|........ ..=.....|.|+.|...|
T Consensus 15 P~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~---~~~~~~~~y~C~~C~~~F 91 (112)
T TIGR00622 15 PVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF---DELKDSHRYVCAVCKNVF 91 (112)
T ss_pred CCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc---cccccccceeCCCCCCcc
Confidence 567888888777776665432111111111110 0111247777777765421110 001123456666666666
Q ss_pred cchhHHHhHH
Q psy4574 140 RTKCRFYYHL 149 (343)
Q Consensus 140 ~~~~~l~~H~ 149 (343)
-..-++..|-
T Consensus 92 C~dCD~fiHe 101 (112)
T TIGR00622 92 CVDCDVFVHE 101 (112)
T ss_pred ccccchhhhh
Confidence 6666665554
No 70
>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=92.10 E-value=0.23 Score=35.48 Aligned_cols=89 Identities=18% Similarity=0.138 Sum_probs=48.9
Q ss_pred cccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHH---Hhhhh-cCC--cccccCCCCcccc----
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFR---HLRGK-HGM--KIKLSRHKTKCVC---- 103 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~---H~~~~-~~~--~~~~~~~~~~~~C---- 103 (343)
+-+.|..|+..... ..+..|+...|.......-..=...+.....|.. .+..- .+. -+.+.. ...|.|
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~-~~G~~C~~~~ 87 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPV-YDGYRCQCDP 87 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCC-CCCeeeecCC
Confidence 45679999998876 7788998777754322110000000011110100 00000 000 011111 467899
Q ss_pred ccccccccChHHHHHHHHhcC
Q psy4574 104 HYCNRTFDSKAKIQEHIISSH 124 (343)
Q Consensus 104 ~~C~~~f~~~~~l~~H~~~~H 124 (343)
..|++.+.+...|..|++..|
T Consensus 88 ~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCCCcEeccHHHHHHHHHHhc
Confidence 999999999999999997766
No 71
>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=91.73 E-value=0.3 Score=34.93 Aligned_cols=24 Identities=25% Similarity=0.517 Sum_probs=14.8
Q ss_pred ccc----cccccccCCHHHHHHHHHHhC
Q psy4574 160 LSC----EFCSRIFTKKELLRSHLAVHK 183 (343)
Q Consensus 160 ~~C----~~C~~~f~~~~~l~~H~~~h~ 183 (343)
|.| +.|+..+.+...++.|++.++
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 566 666666666666666665554
No 72
>KOG2893|consensus
Probab=91.12 E-value=0.063 Score=42.76 Aligned_cols=46 Identities=28% Similarity=0.661 Sum_probs=26.1
Q ss_pred cccccccccChHHHHHHHHhcCCCCCcccCCcCcccccchhHHHhHHhhcc
Q psy4574 103 CHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCGSQQRTKCRFYYHLRDKH 153 (343)
Q Consensus 103 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~~~l~~H~~~~~ 153 (343)
|=.|+..|.+..-|..|+...| |+|.+|.+.+-+--.|..|....|
T Consensus 13 cwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceeehhhhh
Confidence 5556666666666666654333 566666665555555555554444
No 73
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=90.70 E-value=0.14 Score=25.76 Aligned_cols=10 Identities=30% Similarity=0.746 Sum_probs=6.8
Q ss_pred cCCCCccccc
Q psy4574 312 TCHLCPQKFR 321 (343)
Q Consensus 312 ~C~~C~~~f~ 321 (343)
.|+.||+.|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 4777777764
No 74
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.02 E-value=0.084 Score=48.07 Aligned_cols=154 Identities=15% Similarity=0.221 Sum_probs=97.0
Q ss_pred cccccCcccccccChhHHHHHHHH-hcCCC--Cccccc--ccccccCChHHHHHHhhhhcCCcccccCCCCcccccc--c
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLE-CKNRG--KLYECS--LCNESFENKKVLFRHLRGKHGMKIKLSRHKTKCVCHY--C 106 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~-~h~~~--~~~~C~--~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~C~~--C 106 (343)
.++.|..|...|.....|..|... .|..+ +++.|+ .|+..|.....+..|...+...... .+.. +
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~ 359 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPA--------KEKLLNS 359 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcc--------ccccccC
Confidence 367888899999888888888443 78888 888998 7999999988888888888876655 2322 2
Q ss_pred cccccChHHH----HHHHHhcCCCCCcccC--CcCcccccchhHHHhHHhhccCCCCCCccccccccccCCHHHHHHHHH
Q psy4574 107 NRTFDSKAKI----QEHIISSHMHEKLYQC--DFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFTKKELLRSHLA 180 (343)
Q Consensus 107 ~~~f~~~~~l----~~H~~~~H~~~~~~~C--~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 180 (343)
...+...... .......-.....+.+ ..|...+.....+..|...+.......+.+..|...+.....+..|++
T Consensus 360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 439 (467)
T COG5048 360 SSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKK 439 (467)
T ss_pred ccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccccc
Confidence 2222211110 1111011111222222 224455555666666666666666566778888888888888888888
Q ss_pred HhCCCCccccccccc
Q psy4574 181 VHKIGKNYQCYYCRK 195 (343)
Q Consensus 181 ~h~~~~~~~C~~C~~ 195 (343)
.+....++.|..+..
T Consensus 440 ~~~~~~~~~~~~~~~ 454 (467)
T COG5048 440 IHTNHAPLLCSILKS 454 (467)
T ss_pred ccccCCceeeccccc
Confidence 877666665555443
No 75
>PF12907 zf-met2: Zinc-binding
Probab=89.83 E-value=0.18 Score=28.38 Aligned_cols=32 Identities=19% Similarity=0.234 Sum_probs=21.0
Q ss_pred cccCcccccc---cChhHHHHHHHHhcCCCCcccc
Q psy4574 36 ERCRSCGLLS---GSITQTYIHYLECKNRGKLYEC 67 (343)
Q Consensus 36 ~~C~~C~~~~---~~~~~l~~H~~~~h~~~~~~~C 67 (343)
++|.+|..+| .+...|..|+...|++..+-.|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 5677787544 5556778887777777554444
No 76
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.28 E-value=0.077 Score=48.32 Aligned_cols=59 Identities=25% Similarity=0.425 Sum_probs=48.4
Q ss_pred cccccccCcccccccChhHHHHHHHHhcCCCCcccccc--cccccCChHHHHHHhhhhcCCc
Q psy4574 32 VWDEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSL--CNESFENKKVLFRHLRGKHGMK 91 (343)
Q Consensus 32 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~--C~~~~~~~~~l~~H~~~~~~~~ 91 (343)
....+.|+.|...|........| ...+..++++.|.. |...+.....+..|...++...
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (467)
T COG5048 30 APRPDSCPNCTDSFSRLEHLTRH-IRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHNNP 90 (467)
T ss_pred CCchhhcccccccccccchhhhh-cccccccCCccccccccccccCCcchhhhhcccccccc
Confidence 34668899999999999999999 88999999999965 6777888888888887766633
No 77
>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=88.45 E-value=0.29 Score=26.52 Aligned_cols=26 Identities=19% Similarity=0.599 Sum_probs=15.7
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
.|.|.+||..+.... .|-.||+||..
T Consensus 2 ~~~C~~CG~i~~g~~------------~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEE------------APEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCc------------CCCcCcCCCCc
Confidence 367777776654321 34567777753
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=87.81 E-value=0.89 Score=32.22 Aligned_cols=54 Identities=19% Similarity=0.364 Sum_probs=32.5
Q ss_pred ccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCc
Q psy4574 256 VCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCP 317 (343)
Q Consensus 256 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 317 (343)
.|..|...|....... ...-.....|+|+.|...|-..=.+.+|...|. |+-|.
T Consensus 57 ~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~------CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNVFCVDCDVFVHESLHC------CPGCI 110 (112)
T ss_pred cccCcCCCCCCccccc--ccccccccceeCCCCCCccccccchhhhhhccC------CcCCC
Confidence 4777777776543111 000122346888888888877777777866554 66664
No 79
>PF12907 zf-met2: Zinc-binding
Probab=86.47 E-value=0.39 Score=26.99 Aligned_cols=28 Identities=18% Similarity=0.425 Sum_probs=18.3
Q ss_pred ccCCCCc---ccccCchhHHhHHhhcCCCCC
Q psy4574 311 HTCHLCP---QKFRQRSSYTLHYKTHHPGVI 338 (343)
Q Consensus 311 ~~C~~C~---~~f~~~~~l~~H~~~~h~~~~ 338 (343)
++|.+|. ........|..|....|++.+
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~ 32 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNT 32 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCC
Confidence 4677777 344455667777777777753
No 80
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=84.39 E-value=0.76 Score=25.42 Aligned_cols=7 Identities=29% Similarity=0.914 Sum_probs=2.8
Q ss_pred cCCCCcc
Q psy4574 312 TCHLCPQ 318 (343)
Q Consensus 312 ~C~~C~~ 318 (343)
+|+.|+.
T Consensus 27 rC~~C~~ 33 (37)
T PF13719_consen 27 RCPKCGH 33 (37)
T ss_pred ECCCCCc
Confidence 3444433
No 81
>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=84.29 E-value=0.59 Score=27.10 Aligned_cols=27 Identities=22% Similarity=0.509 Sum_probs=14.2
Q ss_pred CCcccCCCCcccccC----chhHHhHHhhcC
Q psy4574 308 ETSHTCHLCPQKFRQ----RSSYTLHYKTHH 334 (343)
Q Consensus 308 ~~~~~C~~C~~~f~~----~~~l~~H~~~~h 334 (343)
.....|.+|++.+.. .++|..|++..|
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 344566666665543 467777775554
No 82
>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=83.87 E-value=0.7 Score=37.63 Aligned_cols=19 Identities=21% Similarity=0.431 Sum_probs=11.0
Q ss_pred CCccccCccCccccchhHH
Q psy4574 224 KREFICDVCGKSYVRKGAL 242 (343)
Q Consensus 224 ~~~~~C~~C~~~f~~~~~l 242 (343)
.+++.||.|+.......+|
T Consensus 207 ~k~~PCPKCg~et~eTkdL 225 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDL 225 (314)
T ss_pred CCCCCCCCCCCcccccccc
Confidence 3566677776655554444
No 83
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=83.74 E-value=0.82 Score=26.45 Aligned_cols=26 Identities=23% Similarity=0.566 Sum_probs=17.4
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
|.|..||..|... ...+.+|+.||..
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----------CCCceECCCCCce
Confidence 7788888777543 2245678888864
No 84
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=83.58 E-value=0.86 Score=27.87 Aligned_cols=8 Identities=25% Similarity=0.675 Sum_probs=4.1
Q ss_pred cccccccc
Q psy4574 160 LSCEFCSR 167 (343)
Q Consensus 160 ~~C~~C~~ 167 (343)
|.|+.||+
T Consensus 51 Y~Cp~CGF 58 (61)
T COG2888 51 YRCPKCGF 58 (61)
T ss_pred eECCCcCc
Confidence 45555554
No 85
>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=83.45 E-value=0.7 Score=32.77 Aligned_cols=15 Identities=20% Similarity=0.764 Sum_probs=9.2
Q ss_pred CccccCccCccccch
Q psy4574 225 REFICDVCGKSYVRK 239 (343)
Q Consensus 225 ~~~~C~~C~~~f~~~ 239 (343)
.|..||.||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 455677776666544
No 86
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=83.16 E-value=0.86 Score=25.05 Aligned_cols=12 Identities=33% Similarity=1.018 Sum_probs=5.4
Q ss_pred CccccCccCccc
Q psy4574 225 REFICDVCGKSY 236 (343)
Q Consensus 225 ~~~~C~~C~~~f 236 (343)
...+|+.|+..|
T Consensus 24 ~~v~C~~C~~~f 35 (36)
T PF13717_consen 24 RKVRCSKCGHVF 35 (36)
T ss_pred cEEECCCCCCEe
Confidence 334455444443
No 87
>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=83.08 E-value=0.69 Score=25.69 Aligned_cols=12 Identities=25% Similarity=0.523 Sum_probs=5.9
Q ss_pred ccCccCccccch
Q psy4574 228 ICDVCGKSYVRK 239 (343)
Q Consensus 228 ~C~~C~~~f~~~ 239 (343)
.|+.|+..|.-.
T Consensus 4 ~CP~C~~~~~v~ 15 (38)
T TIGR02098 4 QCPNCKTSFRVV 15 (38)
T ss_pred ECCCCCCEEEeC
Confidence 455555554433
No 88
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=82.64 E-value=0.77 Score=27.08 Aligned_cols=28 Identities=21% Similarity=0.525 Sum_probs=18.6
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
.|.|..||+.|.... .....+|+.||..
T Consensus 6 ~Y~C~~Cg~~~~~~~----------~~~~irCp~Cg~r 33 (49)
T COG1996 6 EYKCARCGREVELDQ----------ETRGIRCPYCGSR 33 (49)
T ss_pred EEEhhhcCCeeehhh----------ccCceeCCCCCcE
Confidence 488888988883211 1345679988865
No 89
>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=81.16 E-value=1 Score=31.99 Aligned_cols=31 Identities=23% Similarity=0.529 Sum_probs=24.0
Q ss_pred ccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCCh
Q psy4574 35 EERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENK 77 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 77 (343)
...|+.||+.|-... ..|..||.||..|.-.
T Consensus 9 KR~Cp~CG~kFYDLn------------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLN------------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCC------------CCCccCCCCCCccCcc
Confidence 467999999987643 3578899999988755
No 90
>KOG2807|consensus
Probab=80.46 E-value=2.3 Score=36.02 Aligned_cols=81 Identities=20% Similarity=0.438 Sum_probs=48.3
Q ss_pred cccccccccccCChHHHHHHhhhhcCCcccccCCCCc----cccccccccccChHHHHHHHHhcCCCCCcccCCcCcccc
Q psy4574 64 LYECSLCNESFENKKVLFRHLRGKHGMKIKLSRHKTK----CVCHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCGSQQ 139 (343)
Q Consensus 64 ~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~----~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~ 139 (343)
|..|++|+.+.-+...|.+-...--+.+++...+... -.|..|+ ..-.....|+|..|...|
T Consensus 290 P~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~--------------~~~~~~~~y~C~~Ck~~F 355 (378)
T KOG2807|consen 290 PIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQ--------------GELLSSGRYRCESCKNVF 355 (378)
T ss_pred CccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeec--------------cccCCCCcEEchhcccee
Confidence 6778888888877777765433222333332222111 1266661 222345578999999999
Q ss_pred cchhHHHhHHhhccCCCCCCccccccc
Q psy4574 140 RTKCRFYYHLRDKHLSKPANLSCEFCS 166 (343)
Q Consensus 140 ~~~~~l~~H~~~~~~~~~~~~~C~~C~ 166 (343)
-.--+...|-..| .|+.|.
T Consensus 356 CldCDv~iHesLh--------~CpgCe 374 (378)
T KOG2807|consen 356 CLDCDVFIHESLH--------NCPGCE 374 (378)
T ss_pred eccchHHHHhhhh--------cCCCcC
Confidence 8888888885432 566665
No 91
>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=80.43 E-value=2 Score=32.99 Aligned_cols=19 Identities=5% Similarity=0.069 Sum_probs=10.8
Q ss_pred CCcccCCcCcccccchhHH
Q psy4574 127 EKLYQCDFCGSQQRTKCRF 145 (343)
Q Consensus 127 ~~~~~C~~C~~~~~~~~~l 145 (343)
...|.||.|+..|+....+
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CCeEECCCCCcEeeHHHHH
Confidence 4456666666665555554
No 92
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=80.22 E-value=1.1 Score=33.95 Aligned_cols=36 Identities=14% Similarity=0.372 Sum_probs=17.5
Q ss_pred cccccCcccccccChhHHHHHHHHhcCCCCccccccccccc
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESF 74 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~ 74 (343)
..|.||.|+..|....++.. .+. ...|.||.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~----~d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL----LDM-DGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh----cCC-CCcEECCCCCCEE
Confidence 45666666666664433321 011 2236666665544
No 93
>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=79.60 E-value=2.2 Score=32.73 Aligned_cols=33 Identities=12% Similarity=0.209 Sum_probs=21.6
Q ss_pred CCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccc
Q psy4574 279 GLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKF 320 (343)
Q Consensus 279 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 320 (343)
+..=|.|+.|+..|+...++. ..|.||.||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 334477777777777766664 257777777543
No 94
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=78.90 E-value=1 Score=35.28 Aligned_cols=31 Identities=16% Similarity=0.211 Sum_probs=16.2
Q ss_pred cccccCcccccccChhHHHHHHHHhcCCCCccccccccccc
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESF 74 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~ 74 (343)
..|.|+.|+..|+...++. ..|.||.||...
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~----------~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME----------YGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhh----------cCCcCCCCCCCC
Confidence 4456666666555554431 245666665543
No 95
>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=78.11 E-value=0.9 Score=37.03 Aligned_cols=27 Identities=11% Similarity=0.368 Sum_probs=20.1
Q ss_pred CCcccCCCCcccccCchhHHhHHhhcC
Q psy4574 308 ETSHTCHLCPQKFRQRSSYTLHYKTHH 334 (343)
Q Consensus 308 ~~~~~C~~C~~~f~~~~~l~~H~~~~h 334 (343)
.++++||.||+.......|..-.|+|-
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeecch
Confidence 368889999988887777776555553
No 96
>KOG4118|consensus
Probab=77.50 E-value=1.5 Score=27.29 Aligned_cols=31 Identities=23% Similarity=0.652 Sum_probs=28.1
Q ss_pred cccCCCCcccccCchhHHhHHhhcCCCCCCC
Q psy4574 310 SHTCHLCPQKFRQRSSYTLHYKTHHPGVIPP 340 (343)
Q Consensus 310 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 340 (343)
.|.|.+|-........+..|....|+..|++
T Consensus 38 ~~kCtVC~~~mpdpktfkqhfe~kHpk~~~P 68 (74)
T KOG4118|consen 38 HHKCTVCMVQMPDPKTFKQHFENKHPKEPLP 68 (74)
T ss_pred HhhhHhhHhhCCCCchHHHHHhhcCCCCCCC
Confidence 3789999999999999999999999999887
No 97
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.09 E-value=0.71 Score=37.51 Aligned_cols=16 Identities=38% Similarity=0.713 Sum_probs=9.3
Q ss_pred CcccCCcCcccccchh
Q psy4574 128 KLYQCDFCGSQQRTKC 143 (343)
Q Consensus 128 ~~~~C~~C~~~~~~~~ 143 (343)
+.+.||.|+..|.++.
T Consensus 4 k~~~CPvC~~~F~~~~ 19 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKK 19 (214)
T ss_pred CceECCCCCCeeeeeE
Confidence 3456666666665543
No 98
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=77.09 E-value=1.7 Score=26.96 Aligned_cols=40 Identities=18% Similarity=0.430 Sum_probs=22.8
Q ss_pred CceeCCc--cCcccCCHHHHHHHhhhcCCCCcccCCC----Cccccc
Q psy4574 281 KPHCCEI--CGRSYSTAAYLKVHMSCHTGETSHTCHL----CPQKFR 321 (343)
Q Consensus 281 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 321 (343)
.+..|+. |...+ .+..|..|+...-...+..|+. |+..+.
T Consensus 8 ~~v~C~~~cc~~~i-~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMI-PRKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEE-ECCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCcccce-eHHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 4566766 43433 3556778877777777777888 777653
No 99
>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=77.04 E-value=1.1 Score=23.88 Aligned_cols=26 Identities=19% Similarity=0.497 Sum_probs=14.2
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
|.|..||..+.... ..+.+|+.||..
T Consensus 1 Y~C~~Cg~~~~~~~-----------~~~irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVELKP-----------GDPIRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-BST-----------SSTSSBSSSS-S
T ss_pred CCCCcCCCeeEcCC-----------CCcEECCcCCCe
Confidence 56777776664211 234567777764
No 100
>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=77.00 E-value=1.9 Score=21.66 Aligned_cols=19 Identities=16% Similarity=0.455 Sum_probs=12.5
Q ss_pred cCCCCcccccCchhHHhHHh
Q psy4574 312 TCHLCPQKFRQRSSYTLHYK 331 (343)
Q Consensus 312 ~C~~C~~~f~~~~~l~~H~~ 331 (343)
.||+|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 477777776 4566666664
No 101
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=76.92 E-value=2 Score=25.60 Aligned_cols=25 Identities=28% Similarity=0.700 Sum_probs=14.3
Q ss_pred ccCCCCcccccC-----chhHHhHHhhcCC
Q psy4574 311 HTCHLCPQKFRQ-----RSSYTLHYKTHHP 335 (343)
Q Consensus 311 ~~C~~C~~~f~~-----~~~l~~H~~~~h~ 335 (343)
-.|..|++.++. .++|.+|++..|+
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 346666655433 3577777765444
No 102
>COG2879 Uncharacterized small protein [Function unknown]
Probab=76.86 E-value=2.1 Score=26.47 Aligned_cols=21 Identities=24% Similarity=0.453 Sum_probs=17.1
Q ss_pred ccCchhHHhHHhhcCCCCCCC
Q psy4574 320 FRQRSSYTLHYKTHHPGVIPP 340 (343)
Q Consensus 320 f~~~~~l~~H~~~~h~~~~~~ 340 (343)
.+..++...|++.+||+.|+-
T Consensus 22 vpdYdnYVehmr~~hPd~p~m 42 (65)
T COG2879 22 VPDYDNYVEHMRKKHPDKPPM 42 (65)
T ss_pred CCcHHHHHHHHHHhCcCCCcc
Confidence 456688899999999998863
No 103
>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=76.68 E-value=0.74 Score=26.32 Aligned_cols=29 Identities=21% Similarity=0.503 Sum_probs=14.9
Q ss_pred cccCcccccccChhHHHHHHHHhcCCCCccccccccc
Q psy4574 36 ERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNE 72 (343)
Q Consensus 36 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~ 72 (343)
|+|..||..|..... ... .....||.|+.
T Consensus 6 y~C~~Cg~~fe~~~~-------~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQS-------ISE-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEE-------cCC-CCCCcCCCCCC
Confidence 566666666654321 111 34556666655
No 104
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=76.16 E-value=1.1 Score=26.15 Aligned_cols=30 Identities=27% Similarity=0.537 Sum_probs=18.3
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccccc
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKFR 321 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 321 (343)
.|.|+.||..|...... ....|+.||..+.
T Consensus 3 ~y~C~~CG~~~~~~~~~----------~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYG----------TGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCC----------CceECCCCCCeEE
Confidence 47788888776543221 1457888886543
No 105
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=75.85 E-value=3.8 Score=31.08 Aligned_cols=38 Identities=16% Similarity=0.349 Sum_probs=20.8
Q ss_pred CCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccc
Q psy4574 279 GLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKF 320 (343)
Q Consensus 279 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 320 (343)
+..-|.|+.|+..|.....+.. . . ....|.||.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 3345777777777765443322 0 1 12337777777654
No 106
>KOG2186|consensus
Probab=75.71 E-value=1.8 Score=35.32 Aligned_cols=46 Identities=26% Similarity=0.550 Sum_probs=29.0
Q ss_pred cccCcccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHHHhh
Q psy4574 36 ERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLR 85 (343)
Q Consensus 36 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~ 85 (343)
|+|..||.+..- ..+..|+-+.+. .-|.|-.|+.+|.. ..+..|..
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn--~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN--AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC--CeeEEeeccccccc-chhhhhhh
Confidence 567777777764 456667544443 56777777777765 55666654
No 107
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=75.32 E-value=2.9 Score=32.78 Aligned_cols=30 Identities=13% Similarity=0.364 Sum_probs=17.7
Q ss_pred CceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
.-|.|+.|+..|+...++. ..|.||.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 3466666666666555542 24667777654
No 108
>PF15269 zf-C2H2_7: Zinc-finger
Probab=74.93 E-value=3 Score=23.76 Aligned_cols=28 Identities=25% Similarity=0.382 Sum_probs=18.5
Q ss_pred CCCCCCccccccccccCCHHHHHHHHHH
Q psy4574 154 LSKPANLSCEFCSRIFTKKELLRSHLAV 181 (343)
Q Consensus 154 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 181 (343)
.++++.|+|-.|.+.....+.|-.||+.
T Consensus 15 ~gkp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 15 PGKPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCCCccceeecCCcccchHHHHHHHHHH
Confidence 4556667777777777666666666654
No 109
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=74.90 E-value=2.2 Score=32.77 Aligned_cols=24 Identities=29% Similarity=0.858 Sum_probs=15.7
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcc
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQ 318 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 318 (343)
.|.|++||..+. ++.|-+||+||-
T Consensus 134 ~~vC~vCGy~~~-------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE-------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc-------------CCCCCcCCCCCC
Confidence 577777776542 345667777773
No 110
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=74.80 E-value=0.68 Score=35.21 Aligned_cols=14 Identities=21% Similarity=0.638 Sum_probs=8.1
Q ss_pred ccCCCCcccccCch
Q psy4574 311 HTCHLCPQKFRQRS 324 (343)
Q Consensus 311 ~~C~~C~~~f~~~~ 324 (343)
++|+.||+.|.+..
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 56666666665543
No 111
>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=74.56 E-value=0.89 Score=25.66 Aligned_cols=29 Identities=24% Similarity=0.584 Sum_probs=16.5
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQ 318 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 318 (343)
|+|..||..|....... ....-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~-------~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKIS-------DDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecC-------CCCCCCCCCCCC
Confidence 67777777765332221 123446777776
No 112
>KOG1280|consensus
Probab=74.42 E-value=2.5 Score=36.14 Aligned_cols=40 Identities=23% Similarity=0.614 Sum_probs=29.0
Q ss_pred CcccCCcCcccccchhHHHhHHhhccCCCCCCcccccccc
Q psy4574 128 KLYQCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSR 167 (343)
Q Consensus 128 ~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~ 167 (343)
..|.|+.|+..-.+...|..|+...|.+......|++|+.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~ 117 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA 117 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeecccc
Confidence 3677788877777777777787777777666667777753
No 113
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=73.54 E-value=0.62 Score=37.81 Aligned_cols=14 Identities=29% Similarity=0.857 Sum_probs=6.5
Q ss_pred cccccccccccCCh
Q psy4574 64 LYECSLCNESFENK 77 (343)
Q Consensus 64 ~~~C~~C~~~~~~~ 77 (343)
.+.||+|+..|...
T Consensus 5 ~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 5 KITCPVCGKEFKTK 18 (214)
T ss_pred ceECCCCCCeeeee
Confidence 34455555544443
No 114
>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=72.85 E-value=1.1 Score=27.00 Aligned_cols=29 Identities=21% Similarity=0.557 Sum_probs=15.9
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQ 318 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 318 (343)
|+|..||..|.....+. ....-.||.||-
T Consensus 6 y~C~~Cg~~fe~~~~~~-------~~~~~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMS-------DDPLATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEecC-------CCCCCCCCCCCC
Confidence 67777777665322111 123445777775
No 115
>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=72.48 E-value=1.2 Score=35.81 Aligned_cols=29 Identities=28% Similarity=0.508 Sum_probs=19.1
Q ss_pred CCcccCCCCcccccCchhHHhHHhhcCCC
Q psy4574 308 ETSHTCHLCPQKFRQRSSYTLHYKTHHPG 336 (343)
Q Consensus 308 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 336 (343)
+..|.|+.|++.|.-..-+..|+...|++
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 34577777787777777777788777765
No 116
>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=70.94 E-value=2.6 Score=34.05 Aligned_cols=31 Identities=23% Similarity=0.248 Sum_probs=19.4
Q ss_pred cccccccccCcccccccChhHHHHHHHHhcC
Q psy4574 30 SDVWDEERCRSCGLLSGSITQTYIHYLECKN 60 (343)
Q Consensus 30 ~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~ 60 (343)
...+..|.|++|++.|.-..=+.+|+...|.
T Consensus 72 e~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 72 EEDEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSSSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred HHcCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 3445567777777777777777777766665
No 117
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=70.63 E-value=2.9 Score=25.72 Aligned_cols=10 Identities=30% Similarity=0.800 Sum_probs=5.7
Q ss_pred Cccccccccc
Q psy4574 63 KLYECSLCNE 72 (343)
Q Consensus 63 ~~~~C~~C~~ 72 (343)
.+|.|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 4566666654
No 118
>KOG2593|consensus
Probab=70.40 E-value=2.7 Score=37.25 Aligned_cols=35 Identities=17% Similarity=0.354 Sum_probs=17.3
Q ss_pred cccccCcccccccChhHHHHHHHHhcCCCCccccccccc
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNE 72 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~ 72 (343)
..|.|+.|++.|+...+++. .....-.|.|..|+-
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L----~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQL----LDNETGEFHCENCGG 161 (436)
T ss_pred ccccCCccccchhhhHHHHh----hcccCceEEEecCCC
Confidence 44666666666655554422 222233555655543
No 119
>KOG2272|consensus
Probab=70.00 E-value=2.5 Score=34.35 Aligned_cols=70 Identities=14% Similarity=0.336 Sum_probs=37.5
Q ss_pred ccccccccccccChHHHHHHH---------HhcCCCCCcccCCcCcccccchhHHHhHHhhccCCCCCCccccccccccC
Q psy4574 100 KCVCHYCNRTFDSKAKIQEHI---------ISSHMHEKLYQCDFCGSQQRTKCRFYYHLRDKHLSKPANLSCEFCSRIFT 170 (343)
Q Consensus 100 ~~~C~~C~~~f~~~~~l~~H~---------~~~H~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~ 170 (343)
-|.|.+|++...+...++.-- +..-.+...|.|..|...... ..|.--- .+-.++-|.|..|+....
T Consensus 99 CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~-~~l~fr~---d~yH~yHFkCt~C~keL~ 174 (332)
T KOG2272|consen 99 CFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE-QPLTFRG---DPYHPYHFKCTTCGKELT 174 (332)
T ss_pred cchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-ccccccC---CCCCccceeccccccccc
Confidence 346788877776665555321 011122346778777655443 2222111 122345578888988876
Q ss_pred CHH
Q psy4574 171 KKE 173 (343)
Q Consensus 171 ~~~ 173 (343)
+..
T Consensus 175 sda 177 (332)
T KOG2272|consen 175 SDA 177 (332)
T ss_pred chh
Confidence 554
No 120
>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=67.12 E-value=2.2 Score=22.33 Aligned_cols=10 Identities=20% Similarity=0.488 Sum_probs=5.0
Q ss_pred CcccCCCCcc
Q psy4574 309 TSHTCHLCPQ 318 (343)
Q Consensus 309 ~~~~C~~C~~ 318 (343)
..|.|+.|+.
T Consensus 18 ~~~vCp~C~~ 27 (30)
T PF08274_consen 18 ELLVCPECGH 27 (30)
T ss_dssp SSEEETTTTE
T ss_pred CEEeCCcccc
Confidence 3455555554
No 121
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=65.77 E-value=0.6 Score=44.00 Aligned_cols=58 Identities=24% Similarity=0.484 Sum_probs=38.5
Q ss_pred cccCccCccccchhHHHHHHhhhcCCCCc-ccccccccCCChHHHHHHHHhhcCCCceeCCccCcc
Q psy4574 227 FICDVCGKSYVRKGALTEHHQREHQGKKP-VCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRS 291 (343)
Q Consensus 227 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 291 (343)
..|+.||-.|.-...|-.-. ....-..| .|+.|.+.|.+..+-+-|. .|..|+.||-.
T Consensus 124 ~~CT~CGPRfTIi~alPYDR-~nTsM~~F~lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP~ 182 (750)
T COG0068 124 INCTNCGPRFTIIEALPYDR-ENTSMADFPLCPFCDKEYKDPLNRRFHA------QPIACPKCGPH 182 (750)
T ss_pred cccCCCCcceeeeccCCCCc-ccCccccCcCCHHHHHHhcCcccccccc------ccccCcccCCC
Confidence 35889998887766654432 22222333 8999999888887744433 56789999953
No 122
>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=64.60 E-value=4.4 Score=29.38 Aligned_cols=31 Identities=13% Similarity=0.173 Sum_probs=23.4
Q ss_pred ccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCCh
Q psy4574 35 EERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENK 77 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 77 (343)
...|+.||+.|-... ..|..||.||..|.-.
T Consensus 9 Kr~Cp~cg~kFYDLn------------k~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 9 KRICPNTGSKFYDLN------------RRPAVSPYTGEQFPPE 39 (129)
T ss_pred cccCCCcCccccccC------------CCCccCCCcCCccCcc
Confidence 467999999887642 4588899999888655
No 123
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=64.16 E-value=7.9 Score=32.65 Aligned_cols=101 Identities=18% Similarity=0.321 Sum_probs=60.0
Q ss_pred ccccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHHHhhhhcCCcccccCCC----Cccccccccc
Q psy4574 33 WDEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMKIKLSRHK----TKCVCHYCNR 108 (343)
Q Consensus 33 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~----~~~~C~~C~~ 108 (343)
...|.||.|....-+ -|..||.|....-....|.+-...--+.+++...+. ..-.|..|.-
T Consensus 306 ~gGy~CP~CktkVCs---------------LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~ 370 (421)
T COG5151 306 GGGYECPVCKTKVCS---------------LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQG 370 (421)
T ss_pred cCceeCCcccceeec---------------CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccC
Confidence 456888888654433 267899998776655555432222222222222221 1124888888
Q ss_pred cccChHHHHHHHHhcCCCCCcccCCcCcccccchhHHHhHHhh
Q psy4574 109 TFDSKAKIQEHIISSHMHEKLYQCDFCGSQQRTKCRFYYHLRD 151 (343)
Q Consensus 109 ~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~~~l~~H~~~ 151 (343)
.|+-.. .|....-.....|+|+.|...|-.--++..|-..
T Consensus 371 ~fp~~~---~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~L 410 (421)
T COG5151 371 PFPKPP---VSPFDESTSSGRYQCELCKSTFCSDCDVFIHETL 410 (421)
T ss_pred CCCCCC---CCcccccccccceechhhhhhhhhhhHHHHHHHH
Confidence 887432 2222222345679999999999999998888654
No 124
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=63.77 E-value=3.5 Score=27.71 Aligned_cols=14 Identities=29% Similarity=0.767 Sum_probs=9.4
Q ss_pred cccccCcccccccC
Q psy4574 34 DEERCRSCGLLSGS 47 (343)
Q Consensus 34 ~~~~C~~C~~~~~~ 47 (343)
.|-+|..||+.|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 45667777777765
No 125
>KOG2186|consensus
Probab=63.45 E-value=3.2 Score=33.87 Aligned_cols=45 Identities=22% Similarity=0.583 Sum_probs=24.3
Q ss_pred ccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHHHHhh
Q psy4574 256 VCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVHMS 303 (343)
Q Consensus 256 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 303 (343)
.|..||....- ..+..|+..-++ .-|.|--|+..|.. .++..|..
T Consensus 5 tCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 5 TCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred ehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 56666655433 233446555444 44666666666655 45555643
No 126
>KOG2593|consensus
Probab=63.37 E-value=7.2 Score=34.72 Aligned_cols=38 Identities=29% Similarity=0.517 Sum_probs=22.3
Q ss_pred CCCCcccccccccccCCchHHHhHHHhhccchhHHHHhhhcCCccccCccCc
Q psy4574 183 KIGKNYQCYYCRKTYCHKPNLTNHIQNVHLKSELEKRTAILKREFICDVCGK 234 (343)
Q Consensus 183 ~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~C~~C~~ 234 (343)
.....|.|+.|.+.|.+...+. ........|.|..|+-
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~--------------L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ--------------LLDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHH--------------hhcccCceEEEecCCC
Confidence 4455677777777776665443 1122234577777764
No 127
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=61.70 E-value=1.4 Score=28.61 Aligned_cols=43 Identities=21% Similarity=0.407 Sum_probs=24.3
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCC--CCcccccCchhHH
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCH--LCPQKFRQRSSYT 327 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~~~f~~~~~l~ 327 (343)
+.|+.||....-..+-...-. ..+.-++|. .||..|....++.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~s 46 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESVQ 46 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEEE
Confidence 568888866533332222211 234557887 7888887665543
No 128
>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=61.48 E-value=4.4 Score=29.93 Aligned_cols=23 Identities=35% Similarity=0.651 Sum_probs=10.8
Q ss_pred ccCCCCcccccCchhHHhHHhhcCCC
Q psy4574 311 HTCHLCPQKFRQRSSYTLHYKTHHPG 336 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l~~H~~~~h~~ 336 (343)
..|=+||+.|. .|.+|+++|||-
T Consensus 73 i~clecGk~~k---~LkrHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFK---TLKRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EES---BHHHHHHHTT-S
T ss_pred eEEccCCcccc---hHHHHHHHccCC
Confidence 35666666663 345666666653
No 129
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=60.18 E-value=11 Score=21.33 Aligned_cols=25 Identities=24% Similarity=0.554 Sum_probs=15.2
Q ss_pred cccccCccccccc--ChhHHHHHHHHhc
Q psy4574 34 DEERCRSCGLLSG--SITQTYIHYLECK 59 (343)
Q Consensus 34 ~~~~C~~C~~~~~--~~~~l~~H~~~~h 59 (343)
...+|+.||..+. ...+-..| .+-|
T Consensus 12 ~~~~C~~CgM~Y~~~~~eD~~~H-~~yH 38 (41)
T PF13878_consen 12 GATTCPTCGMLYSPGSPEDEKLH-KKYH 38 (41)
T ss_pred CCcCCCCCCCEECCCCHHHHHHH-HHHH
Confidence 3467888888773 44555566 4444
No 130
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=60.11 E-value=3.4 Score=20.04 Aligned_cols=6 Identities=33% Similarity=0.960 Sum_probs=3.2
Q ss_pred CCCCcc
Q psy4574 313 CHLCPQ 318 (343)
Q Consensus 313 C~~C~~ 318 (343)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 555554
No 131
>PHA00626 hypothetical protein
Probab=59.80 E-value=4.4 Score=24.51 Aligned_cols=15 Identities=13% Similarity=0.235 Sum_probs=12.1
Q ss_pred CCcccCCCCcccccC
Q psy4574 308 ETSHTCHLCPQKFRQ 322 (343)
Q Consensus 308 ~~~~~C~~C~~~f~~ 322 (343)
...|.|+.||+.|+.
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 357999999999854
No 132
>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=59.80 E-value=7.9 Score=22.52 Aligned_cols=8 Identities=25% Similarity=0.787 Sum_probs=3.3
Q ss_pred cccCCCCc
Q psy4574 310 SHTCHLCP 317 (343)
Q Consensus 310 ~~~C~~C~ 317 (343)
.|+|..|+
T Consensus 37 ~~~C~~C~ 44 (46)
T PF12760_consen 37 RYRCKACR 44 (46)
T ss_pred eEECCCCC
Confidence 34444443
No 133
>PRK04023 DNA polymerase II large subunit; Validated
Probab=58.50 E-value=11 Score=37.49 Aligned_cols=49 Identities=24% Similarity=0.526 Sum_probs=29.6
Q ss_pred ccccCccCccccchhHHHHHHhhhcCCCCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHHHHhhhc
Q psy4574 226 EFICDVCGKSYVRKGALTEHHQREHQGKKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVHMSCH 305 (343)
Q Consensus 226 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 305 (343)
...|+.||... ..+.|+.||.. ....+.|+.|+...
T Consensus 626 ~RfCpsCG~~t----------------~~frCP~CG~~---------------Te~i~fCP~CG~~~------------- 661 (1121)
T PRK04023 626 RRKCPSCGKET----------------FYRRCPFCGTH---------------TEPVYRCPRCGIEV------------- 661 (1121)
T ss_pred CccCCCCCCcC----------------CcccCCCCCCC---------------CCcceeCccccCcC-------------
Confidence 35677777652 22477777764 23457777775432
Q ss_pred CCCCcccCCCCccccc
Q psy4574 306 TGETSHTCHLCPQKFR 321 (343)
Q Consensus 306 ~~~~~~~C~~C~~~f~ 321 (343)
.++.|+.||....
T Consensus 662 ---~~y~CPKCG~El~ 674 (1121)
T PRK04023 662 ---EEDECEKCGREPT 674 (1121)
T ss_pred ---CCCcCCCCCCCCC
Confidence 2356888887543
No 134
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=58.17 E-value=5.9 Score=38.47 Aligned_cols=24 Identities=25% Similarity=0.840 Sum_probs=15.1
Q ss_pred cccccccccChHHHHHHHHhcCCCCCcccCCcCcc
Q psy4574 103 CHYCNRTFDSKAKIQEHIISSHMHEKLYQCDFCGS 137 (343)
Q Consensus 103 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 137 (343)
|+.|+.. + ..|.......|.+||+
T Consensus 447 Cp~Cd~~----------l-t~H~~~~~L~CH~Cg~ 470 (730)
T COG1198 447 CPNCDSP----------L-TLHKATGQLRCHYCGY 470 (730)
T ss_pred CCCCCcc----------e-EEecCCCeeEeCCCCC
Confidence 7777665 2 4455556677777775
No 135
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=57.87 E-value=7 Score=23.16 Aligned_cols=37 Identities=19% Similarity=0.309 Sum_probs=18.1
Q ss_pred cccccCcccccccChhHHHHHHHHhcCCCCccccccc
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLC 70 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C 70 (343)
..+.|..||..|.....=+.-+...--...|-+|+.|
T Consensus 3 k~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~C 39 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSC 39 (49)
T ss_pred eeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHH
Confidence 4566777777665443333333221122345556655
No 136
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=57.81 E-value=5.5 Score=29.10 Aligned_cols=15 Identities=40% Similarity=1.092 Sum_probs=10.8
Q ss_pred ceeCCccCcccCCHH
Q psy4574 282 PHCCEICGRSYSTAA 296 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~ 296 (343)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 467888888887644
No 137
>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=56.24 E-value=5.2 Score=19.67 Aligned_cols=8 Identities=25% Similarity=0.737 Sum_probs=4.7
Q ss_pred cccCCCCc
Q psy4574 310 SHTCHLCP 317 (343)
Q Consensus 310 ~~~C~~C~ 317 (343)
.|.||.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45666665
No 138
>KOG1280|consensus
Probab=56.17 E-value=10 Score=32.66 Aligned_cols=26 Identities=19% Similarity=0.487 Sum_probs=12.2
Q ss_pred cccccccccccCCchHHHhHHHhhcc
Q psy4574 187 NYQCYYCRKTYCHKPNLTNHIQNVHL 212 (343)
Q Consensus 187 ~~~C~~C~~~~~~~~~l~~H~~~~h~ 212 (343)
.|.|+.|+..=.+...+..|....|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hp 104 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHP 104 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCc
Confidence 34555555444444445555444443
No 139
>KOG2807|consensus
Probab=55.83 E-value=16 Score=31.18 Aligned_cols=73 Identities=21% Similarity=0.359 Sum_probs=43.2
Q ss_pred ccccCccCccccchhHHHHHHhhhcCCCCc------------ccccccccCCChHHHHHHHHhhcCCCceeCCccCcccC
Q psy4574 226 EFICDVCGKSYVRKGALTEHHQREHQGKKP------------VCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYS 293 (343)
Q Consensus 226 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~------------~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 293 (343)
|..|+.|+.+......|.+-..-.-.-++| .|-.|+.. -.+...|+|..|...|-
T Consensus 290 P~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~-------------~~~~~~y~C~~Ck~~FC 356 (378)
T KOG2807|consen 290 PIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE-------------LLSSGRYRCESCKNVFC 356 (378)
T ss_pred CccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc-------------cCCCCcEEchhccceee
Confidence 356888887777776665432100011111 26666211 12234589999998888
Q ss_pred CHHHHHHHhhhcCCCCcccCCCCc
Q psy4574 294 TAAYLKVHMSCHTGETSHTCHLCP 317 (343)
Q Consensus 294 ~~~~l~~H~~~h~~~~~~~C~~C~ 317 (343)
..-+...|-..|. |+-|.
T Consensus 357 ldCDv~iHesLh~------CpgCe 374 (378)
T KOG2807|consen 357 LDCDVFIHESLHN------CPGCE 374 (378)
T ss_pred ccchHHHHhhhhc------CCCcC
Confidence 8778888866663 77775
No 140
>PF14353 CpXC: CpXC protein
Probab=55.75 E-value=11 Score=27.77 Aligned_cols=8 Identities=38% Similarity=1.153 Sum_probs=3.3
Q ss_pred CCcCcccc
Q psy4574 132 CDFCGSQQ 139 (343)
Q Consensus 132 C~~C~~~~ 139 (343)
||.|+..|
T Consensus 4 CP~C~~~~ 11 (128)
T PF14353_consen 4 CPHCGHEF 11 (128)
T ss_pred CCCCCCee
Confidence 44444433
No 141
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=54.41 E-value=5.3 Score=23.92 Aligned_cols=25 Identities=16% Similarity=0.372 Sum_probs=13.1
Q ss_pred CceeCCccCcccCCHHHHHHHhhhc
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCH 305 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h 305 (343)
..|+|+.|...|=..=.+..|...|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CeEECCCCCCccccCcChhhhcccc
Confidence 4588888888777666777775554
No 142
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=53.96 E-value=14 Score=27.01 Aligned_cols=56 Identities=34% Similarity=0.596 Sum_probs=34.0
Q ss_pred CCcccccccccCCChHHHHHHHHhhcCCCceeCCccCccc--CCHHHHHHHhhhcCCCCcccCCCCcccccCchh
Q psy4574 253 KKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSY--STAAYLKVHMSCHTGETSHTCHLCPQKFRQRSS 325 (343)
Q Consensus 253 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f--~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 325 (343)
.-|+|.+|..+...+.- -+|=.| ||+.- .-..+|+.|-.+|. .||.|..+|.+.+.
T Consensus 79 ~lYeCnIC~etS~ee~F----------LKPneC--CgY~iCn~Cya~LWK~~~~yp-----vCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEERF----------LKPNEC--CGYSICNACYANLWKFCNLYP-----VCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchhhc----------CCcccc--cchHHHHHHHHHHHHHcccCC-----CCCccccccccccc
Confidence 44588888776544332 244445 33321 23567777766553 69999999987653
No 143
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=53.27 E-value=12 Score=38.36 Aligned_cols=12 Identities=33% Similarity=0.913 Sum_probs=7.1
Q ss_pred cccCCcCccccc
Q psy4574 129 LYQCDFCGSQQR 140 (343)
Q Consensus 129 ~~~C~~C~~~~~ 140 (343)
.|.|+.||....
T Consensus 692 vy~CPsCGaev~ 703 (1337)
T PRK14714 692 VYVCPDCGAEVP 703 (1337)
T ss_pred ceeCccCCCccC
Confidence 456777766533
No 144
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=53.08 E-value=3.8 Score=24.09 Aligned_cols=10 Identities=50% Similarity=1.338 Sum_probs=4.2
Q ss_pred cccCccCccc
Q psy4574 227 FICDVCGKSY 236 (343)
Q Consensus 227 ~~C~~C~~~f 236 (343)
|+|..|+..+
T Consensus 2 y~C~~CgyvY 11 (47)
T PF00301_consen 2 YQCPVCGYVY 11 (47)
T ss_dssp EEETTTSBEE
T ss_pred cCCCCCCEEE
Confidence 3444444443
No 145
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=52.99 E-value=7.8 Score=36.17 Aligned_cols=17 Identities=35% Similarity=0.835 Sum_probs=10.1
Q ss_pred hcCCCCCcccCCcCccc
Q psy4574 122 SSHMHEKLYQCDFCGSQ 138 (343)
Q Consensus 122 ~~H~~~~~~~C~~C~~~ 138 (343)
..|.......|..||+.
T Consensus 233 ~~h~~~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 233 TYHKKEGKLRCHYCGYQ 249 (505)
T ss_pred EEecCCCeEEcCCCcCc
Confidence 34445556677777654
No 146
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=52.43 E-value=5.5 Score=23.77 Aligned_cols=9 Identities=44% Similarity=1.243 Sum_probs=3.7
Q ss_pred ccCccCccc
Q psy4574 228 ICDVCGKSY 236 (343)
Q Consensus 228 ~C~~C~~~f 236 (343)
+|..|++.+
T Consensus 3 ~C~~CgyiY 11 (50)
T cd00730 3 ECRICGYIY 11 (50)
T ss_pred CCCCCCeEE
Confidence 344444433
No 147
>KOG2272|consensus
Probab=51.71 E-value=9.2 Score=31.23 Aligned_cols=16 Identities=25% Similarity=0.837 Sum_probs=11.6
Q ss_pred ccCCCCcccccCchhH
Q psy4574 311 HTCHLCPQKFRQRSSY 326 (343)
Q Consensus 311 ~~C~~C~~~f~~~~~l 326 (343)
|.|..|++....+..+
T Consensus 281 f~Cs~Cdkkl~~K~Kf 296 (332)
T KOG2272|consen 281 FSCSTCDKKLTQKNKF 296 (332)
T ss_pred ccccccccccccccce
Confidence 7888888877766543
No 148
>KOG2907|consensus
Probab=51.45 E-value=8.9 Score=27.05 Aligned_cols=12 Identities=42% Similarity=0.694 Sum_probs=7.4
Q ss_pred cccCCCCccccc
Q psy4574 310 SHTCHLCPQKFR 321 (343)
Q Consensus 310 ~~~C~~C~~~f~ 321 (343)
-|.|+.|++.|.
T Consensus 102 FYTC~kC~~k~~ 113 (116)
T KOG2907|consen 102 FYTCPKCKYKFT 113 (116)
T ss_pred EEEcCccceeee
Confidence 366666666664
No 149
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=50.86 E-value=5.1 Score=29.86 Aligned_cols=15 Identities=27% Similarity=0.445 Sum_probs=11.5
Q ss_pred cccccCcccccccCh
Q psy4574 34 DEERCRSCGLLSGSI 48 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~ 48 (343)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 457899999888654
No 150
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=49.76 E-value=22 Score=30.73 Aligned_cols=23 Identities=22% Similarity=0.588 Sum_probs=18.9
Q ss_pred CccccCccCccccchhHHHHHHh
Q psy4574 225 REFICDVCGKSYVRKGALTEHHQ 247 (343)
Q Consensus 225 ~~~~C~~C~~~f~~~~~l~~H~~ 247 (343)
..+-|+.|++-|.+..-+..|+.
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHh
Confidence 34779999999999888888863
No 151
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=47.96 E-value=16 Score=29.89 Aligned_cols=40 Identities=18% Similarity=0.212 Sum_probs=19.4
Q ss_pred CCccccCccCccccchhHHHHHHhhhcCCCCcccccccccCCChH
Q psy4574 224 KREFICDVCGKSYVRKGALTEHHQREHQGKKPVCTICGKMLIDKR 268 (343)
Q Consensus 224 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~~C~~~f~~~~ 268 (343)
+..-.|..|.+.|.-... .+..+-..|.|+.|+..|....
T Consensus 130 KeVSRCr~C~~rYDPVP~-----dkmwG~aef~C~~C~h~F~G~~ 169 (278)
T PF15135_consen 130 KEVSRCRKCRKRYDPVPC-----DKMWGIAEFHCPKCRHNFRGFA 169 (278)
T ss_pred cccccccccccccCCCcc-----ccccceeeeecccccccchhhh
Confidence 334456666555433221 1222233456777777776543
No 152
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=47.51 E-value=23 Score=26.94 Aligned_cols=20 Identities=25% Similarity=0.461 Sum_probs=10.0
Q ss_pred CchhHHhHHhhcCCCCCCCC
Q psy4574 322 QRSSYTLHYKTHHPGVIPPK 341 (343)
Q Consensus 322 ~~~~l~~H~~~~h~~~~~~~ 341 (343)
+...|..|.+..|+...+.+
T Consensus 120 tY~eLrKHar~~HP~~rP~~ 139 (162)
T PF07800_consen 120 TYSELRKHARSEHPSARPSE 139 (162)
T ss_pred CHHHHHHHHHhhCCCCCCcc
Confidence 34445555555555544443
No 153
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=47.43 E-value=10 Score=22.63 Aligned_cols=9 Identities=33% Similarity=0.899 Sum_probs=4.2
Q ss_pred eeCCccCcc
Q psy4574 283 HCCEICGRS 291 (343)
Q Consensus 283 ~~C~~C~~~ 291 (343)
+.|..||..
T Consensus 38 ~~C~~Cgyt 46 (50)
T PRK00432 38 WHCGKCGYT 46 (50)
T ss_pred EECCCcCCE
Confidence 445555443
No 154
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=47.30 E-value=10 Score=25.48 Aligned_cols=14 Identities=21% Similarity=0.698 Sum_probs=8.3
Q ss_pred CccccCccCccccc
Q psy4574 225 REFICDVCGKSYVR 238 (343)
Q Consensus 225 ~~~~C~~C~~~f~~ 238 (343)
..|.|..|+..|.-
T Consensus 52 GIW~C~kCg~~fAG 65 (89)
T COG1997 52 GIWKCRKCGAKFAG 65 (89)
T ss_pred CeEEcCCCCCeecc
Confidence 44666666666544
No 155
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=46.95 E-value=2.8 Score=39.77 Aligned_cols=88 Identities=17% Similarity=0.306 Sum_probs=52.7
Q ss_pred ccccccccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCChHHHHHHhhhhcCCcccccCCCCccccccccc
Q psy4574 29 SSDVWDEERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFENKKVLFRHLRGKHGMKIKLSRHKTKCVCHYCNR 108 (343)
Q Consensus 29 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~C~~C~~ 108 (343)
.....+.-.|+.|-....+...-.-+ -....|..||-.|+-...|--= +........ --|+.|.+
T Consensus 95 ~~I~pD~a~C~~Cl~Ei~dp~~rrY~-------YPF~~CT~CGPRfTIi~alPYD-R~nTsM~~F-------~lC~~C~~ 159 (750)
T COG0068 95 TQIPPDAATCEDCLEEIFDPNSRRYL-------YPFINCTNCGPRFTIIEALPYD-RENTSMADF-------PLCPFCDK 159 (750)
T ss_pred cccCCchhhhHHHHHHhcCCCCccee-------ccccccCCCCcceeeeccCCCC-cccCccccC-------cCCHHHHH
Confidence 34445667899998777665543333 1223588999988765444211 000111111 14999999
Q ss_pred cccChHHHHHHHHhcCCCCCcccCCcCccc
Q psy4574 109 TFDSKAKIQEHIISSHMHEKLYQCDFCGSQ 138 (343)
Q Consensus 109 ~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~ 138 (343)
.+.+..+-+-|. .+..||.||-.
T Consensus 160 EY~dP~nRRfHA-------Qp~aCp~CGP~ 182 (750)
T COG0068 160 EYKDPLNRRFHA-------QPIACPKCGPH 182 (750)
T ss_pred HhcCcccccccc-------ccccCcccCCC
Confidence 888888776665 36789999863
No 156
>KOG2907|consensus
Probab=46.43 E-value=8.2 Score=27.23 Aligned_cols=10 Identities=30% Similarity=1.045 Sum_probs=4.9
Q ss_pred cccccccccc
Q psy4574 188 YQCYYCRKTY 197 (343)
Q Consensus 188 ~~C~~C~~~~ 197 (343)
|.|+.|++.|
T Consensus 103 YTC~kC~~k~ 112 (116)
T KOG2907|consen 103 YTCPKCKYKF 112 (116)
T ss_pred EEcCccceee
Confidence 4555554444
No 157
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=46.14 E-value=13 Score=32.01 Aligned_cols=29 Identities=24% Similarity=0.560 Sum_probs=21.7
Q ss_pred CCCCCcccCCcCc-ccccchhHHHhHHhhc
Q psy4574 124 HMHEKLYQCDFCG-SQQRTKCRFYYHLRDK 152 (343)
Q Consensus 124 H~~~~~~~C~~C~-~~~~~~~~l~~H~~~~ 152 (343)
|.-+..|.|.+|| +.+.-...+.+|+...
T Consensus 369 hgLd~ef~CEICgNyvy~GR~~FdrHF~E~ 398 (470)
T COG5188 369 HGLDIEFECEICGNYVYYGRDRFDRHFEED 398 (470)
T ss_pred cCCCcceeeeecccccccchHHHHhhhhhh
Confidence 4456678999998 7777777888887654
No 158
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=46.14 E-value=12 Score=21.37 Aligned_cols=29 Identities=17% Similarity=0.336 Sum_probs=15.3
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccc
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKF 320 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 320 (343)
|.|+.|+.... -.-.....+.|+.||...
T Consensus 1 m~Cp~Cg~~~~---------~~D~~~g~~vC~~CG~Vl 29 (43)
T PF08271_consen 1 MKCPNCGSKEI---------VFDPERGELVCPNCGLVL 29 (43)
T ss_dssp ESBTTTSSSEE---------EEETTTTEEEETTT-BBE
T ss_pred CCCcCCcCCce---------EEcCCCCeEECCCCCCEe
Confidence 56777776531 111233456788887654
No 159
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=44.97 E-value=14 Score=25.53 Aligned_cols=15 Identities=33% Similarity=0.997 Sum_probs=10.5
Q ss_pred ceeCCccCcccCCHH
Q psy4574 282 PHCCEICGRSYSTAA 296 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~ 296 (343)
|++|..||..|..-+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 467778888877643
No 160
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=44.58 E-value=12 Score=26.95 Aligned_cols=14 Identities=21% Similarity=0.693 Sum_probs=7.6
Q ss_pred eeCCccCcccCCHH
Q psy4574 283 HCCEICGRSYSTAA 296 (343)
Q Consensus 283 ~~C~~C~~~f~~~~ 296 (343)
+.|..||..|.-..
T Consensus 71 ~~C~~Cg~~~~~~~ 84 (113)
T PF01155_consen 71 ARCRDCGHEFEPDE 84 (113)
T ss_dssp EEETTTS-EEECHH
T ss_pred EECCCCCCEEecCC
Confidence 56666666665433
No 161
>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=43.87 E-value=7.4 Score=19.94 Aligned_cols=17 Identities=24% Similarity=0.585 Sum_probs=7.8
Q ss_pred ccCccCccccchhHHHHH
Q psy4574 228 ICDVCGKSYVRKGALTEH 245 (343)
Q Consensus 228 ~C~~C~~~f~~~~~l~~H 245 (343)
.|-.|++.| .....+.|
T Consensus 2 sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 2 SCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EETTTTEEE-EGGGTTT-
T ss_pred eeecCCCCc-CcCCcCCC
Confidence 455566555 33333344
No 162
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=43.13 E-value=13 Score=28.03 Aligned_cols=35 Identities=29% Similarity=0.664 Sum_probs=23.9
Q ss_pred CceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccc
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKF 320 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 320 (343)
-+|.|. |+..|.. .++|-.+-.|+ .|.|..|+-..
T Consensus 116 ~~Y~C~-C~q~~l~---~RRhn~~~~g~-~YrC~~C~gkL 150 (156)
T COG3091 116 YPYRCQ-CQQHYLR---IRRHNTVRRGE-VYRCGKCGGKL 150 (156)
T ss_pred eeEEee-cCCccch---hhhcccccccc-eEEeccCCceE
Confidence 458888 8877544 44565565666 78888888543
No 163
>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=42.97 E-value=14 Score=33.77 Aligned_cols=20 Identities=30% Similarity=0.582 Sum_probs=10.5
Q ss_pred eeCCccCcccCCHHHHHHHh
Q psy4574 283 HCCEICGRSYSTAAYLKVHM 302 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~ 302 (343)
+.|+.|.+.|.....+..|+
T Consensus 58 WiCp~CskkF~d~~~~~~H~ 77 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHM 77 (466)
T ss_pred eeCCcccceeCCHHHHHHHH
Confidence 34555555555555555555
No 164
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=42.35 E-value=5.2 Score=24.21 Aligned_cols=10 Identities=40% Similarity=1.065 Sum_probs=5.7
Q ss_pred eeCCccCccc
Q psy4574 283 HCCEICGRSY 292 (343)
Q Consensus 283 ~~C~~C~~~f 292 (343)
..|+.|+..+
T Consensus 22 VvCp~Cgapy 31 (54)
T PF14446_consen 22 VVCPECGAPY 31 (54)
T ss_pred EECCCCCCcc
Confidence 4566666554
No 165
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=41.90 E-value=13 Score=26.66 Aligned_cols=11 Identities=18% Similarity=0.398 Sum_probs=6.0
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PRK12380 71 AWCWDCSQVVE 81 (113)
T ss_pred EEcccCCCEEe
Confidence 45666655543
No 166
>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=41.00 E-value=18 Score=19.81 Aligned_cols=9 Identities=56% Similarity=1.353 Sum_probs=5.3
Q ss_pred eCCccCccc
Q psy4574 284 CCEICGRSY 292 (343)
Q Consensus 284 ~C~~C~~~f 292 (343)
.|+.||..|
T Consensus 3 ~C~~Cg~~Y 11 (36)
T PF05191_consen 3 ICPKCGRIY 11 (36)
T ss_dssp EETTTTEEE
T ss_pred CcCCCCCcc
Confidence 456666655
No 167
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=40.62 E-value=11 Score=21.33 Aligned_cols=13 Identities=31% Similarity=0.802 Sum_probs=9.0
Q ss_pred cCCCCcccccCch
Q psy4574 312 TCHLCPQKFRQRS 324 (343)
Q Consensus 312 ~C~~C~~~f~~~~ 324 (343)
.|++|++.|+.+.
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 5777777776654
No 168
>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=40.44 E-value=19 Score=32.82 Aligned_cols=31 Identities=16% Similarity=0.248 Sum_probs=26.5
Q ss_pred cccccccCcccccccChhHHHHHHHHhcCCC
Q psy4574 32 VWDEERCRSCGLLSGSITQTYIHYLECKNRG 62 (343)
Q Consensus 32 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~ 62 (343)
.+..+.|+.|.+.|.+...+..|+...|.+.
T Consensus 54 sWrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 54 SWRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred ceeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 3556899999999999999999998888764
No 169
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=40.26 E-value=23 Score=18.99 Aligned_cols=22 Identities=18% Similarity=0.398 Sum_probs=12.8
Q ss_pred cccCCCCcccccCchhHHhHHhh
Q psy4574 310 SHTCHLCPQKFRQRSSYTLHYKT 332 (343)
Q Consensus 310 ~~~C~~C~~~f~~~~~l~~H~~~ 332 (343)
.+.|+.|++.. ..+.+..|+..
T Consensus 4 ~~~C~nC~R~v-~a~RfA~HLek 25 (33)
T PF08209_consen 4 YVECPNCGRPV-AASRFAPHLEK 25 (33)
T ss_dssp EEE-TTTSSEE-EGGGHHHHHHH
T ss_pred eEECCCCcCCc-chhhhHHHHHH
Confidence 35677777765 34556667643
No 170
>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=40.00 E-value=14 Score=26.67 Aligned_cols=11 Identities=36% Similarity=0.625 Sum_probs=5.7
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 45555555443
No 171
>KOG3408|consensus
Probab=39.96 E-value=19 Score=25.86 Aligned_cols=29 Identities=10% Similarity=0.035 Sum_probs=22.7
Q ss_pred ccccccccccCcccccccChhHHHHHHHH
Q psy4574 29 SSDVWDEERCRSCGLLSGSITQTYIHYLE 57 (343)
Q Consensus 29 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~ 57 (343)
...|...+-|-.|...|.+..+|..|+.+
T Consensus 51 dlPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 51 DLPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 44556678899999999999999999543
No 172
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=39.73 E-value=24 Score=21.39 Aligned_cols=14 Identities=21% Similarity=0.719 Sum_probs=7.7
Q ss_pred eeCCccCcccCCHH
Q psy4574 283 HCCEICGRSYSTAA 296 (343)
Q Consensus 283 ~~C~~C~~~f~~~~ 296 (343)
++|+.||..|...-
T Consensus 29 W~C~~Cgh~w~~~v 42 (55)
T PF14311_consen 29 WKCPKCGHEWKASV 42 (55)
T ss_pred EECCCCCCeeEccH
Confidence 56666665554433
No 173
>PRK04023 DNA polymerase II large subunit; Validated
Probab=39.36 E-value=30 Score=34.78 Aligned_cols=14 Identities=29% Similarity=0.757 Sum_probs=9.8
Q ss_pred ceeCCccCcccCCH
Q psy4574 282 PHCCEICGRSYSTA 295 (343)
Q Consensus 282 ~~~C~~C~~~f~~~ 295 (343)
.|+|..|+..|...
T Consensus 1037 ~fRC~kC~~kYRR~ 1050 (1121)
T PRK04023 1037 EFRCTKCGAKYRRP 1050 (1121)
T ss_pred ceeecccCcccccC
Confidence 37888888777543
No 174
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=39.29 E-value=32 Score=21.00 Aligned_cols=17 Identities=18% Similarity=0.845 Sum_probs=9.4
Q ss_pred ccccccccccChHHHHH
Q psy4574 102 VCHYCNRTFDSKAKIQE 118 (343)
Q Consensus 102 ~C~~C~~~f~~~~~l~~ 118 (343)
.|-.|+..|.+..+|..
T Consensus 29 YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 29 YCFWCGTKYDDEEDLER 45 (55)
T ss_pred eeeeeCCccCCHHHHHh
Confidence 45555555555555543
No 175
>PF04328 DUF466: Protein of unknown function (DUF466); InterPro: IPR007423 This is a small bacterial protein of unknown function.
Probab=39.04 E-value=23 Score=22.53 Aligned_cols=19 Identities=32% Similarity=0.576 Sum_probs=14.7
Q ss_pred CchhHHhHHhhcCCCCCCC
Q psy4574 322 QRSSYTLHYKTHHPGVIPP 340 (343)
Q Consensus 322 ~~~~l~~H~~~~h~~~~~~ 340 (343)
....+..|++.+||+.|+.
T Consensus 24 ~Ye~Yv~H~~~~HP~~p~m 42 (65)
T PF04328_consen 24 DYERYVEHMRRHHPDEPPM 42 (65)
T ss_pred HHHHHHHHHHHHCcCCCCC
Confidence 3456778999999998763
No 176
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=38.96 E-value=25 Score=21.40 Aligned_cols=11 Identities=27% Similarity=0.528 Sum_probs=5.3
Q ss_pred ceeCCccCccc
Q psy4574 282 PHCCEICGRSY 292 (343)
Q Consensus 282 ~~~C~~C~~~f 292 (343)
.|.|+.||-.+
T Consensus 14 ~~~Cp~cGipt 24 (55)
T PF13824_consen 14 NFECPDCGIPT 24 (55)
T ss_pred CCcCCCCCCcC
Confidence 35555555443
No 177
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=38.52 E-value=3.9 Score=23.04 Aligned_cols=32 Identities=25% Similarity=0.684 Sum_probs=12.0
Q ss_pred ccccCcccccccChhHHHHHHHHhcCCCCcccccccccc
Q psy4574 35 EERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNES 73 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 73 (343)
+.+|..|+...+... ....+.+.+.|++|+..
T Consensus 2 p~rC~~C~aylNp~~-------~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFC-------QFDDGGKTWICNFCGTK 33 (40)
T ss_dssp S-B-TTT--BS-TTS-------EEETTTTEEEETTT--E
T ss_pred ccccCCCCCEECCcc-------eEcCCCCEEECcCCCCc
Confidence 445666655554432 12223455666666553
No 178
>KOG4167|consensus
Probab=38.45 E-value=6.7 Score=37.28 Aligned_cols=27 Identities=22% Similarity=0.431 Sum_probs=24.2
Q ss_pred CceeCCccCcccCCHHHHHHHhhhcCC
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCHTG 307 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h~~ 307 (343)
..|.|..|++.|..-.++.+||++|.-
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 449999999999999999999999864
No 179
>KOG1842|consensus
Probab=38.16 E-value=20 Score=32.18 Aligned_cols=31 Identities=13% Similarity=0.008 Sum_probs=27.2
Q ss_pred ccccccCcccccccChhHHHHHHHHhcCCCC
Q psy4574 33 WDEERCRSCGLLSGSITQTYIHYLECKNRGK 63 (343)
Q Consensus 33 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~ 63 (343)
.+.|.||+|..-|.+..+|..|+...|..+.
T Consensus 13 ~egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 13 LEGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hhcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 4678899999999999999999998998764
No 180
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=36.43 E-value=22 Score=30.19 Aligned_cols=25 Identities=20% Similarity=0.517 Sum_probs=16.1
Q ss_pred CceeCCccCcccCCHHHHHHHhhhc
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCH 305 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h 305 (343)
..|+|..|...|-..-..-.|-..|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 4477777777776666666665544
No 181
>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=35.91 E-value=21 Score=22.72 Aligned_cols=9 Identities=56% Similarity=1.279 Sum_probs=3.0
Q ss_pred ccccccccC
Q psy4574 256 VCTICGKML 264 (343)
Q Consensus 256 ~C~~C~~~f 264 (343)
.|.+|++.|
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 566666666
No 182
>KOG1842|consensus
Probab=35.89 E-value=22 Score=31.86 Aligned_cols=28 Identities=18% Similarity=0.462 Sum_probs=18.8
Q ss_pred ccccccccccccChHHHHHHHHhcCCCC
Q psy4574 100 KCVCHYCNRTFDSKAKIQEHIISSHMHE 127 (343)
Q Consensus 100 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 127 (343)
.|.|++|...|.+...|..|+-..|.++
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 4567777777777777777776666543
No 183
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=35.63 E-value=21 Score=20.28 Aligned_cols=6 Identities=33% Similarity=1.137 Sum_probs=1.7
Q ss_pred ccCCCC
Q psy4574 311 HTCHLC 316 (343)
Q Consensus 311 ~~C~~C 316 (343)
+.||.|
T Consensus 37 ~~CP~C 42 (42)
T PF15227_consen 37 FSCPEC 42 (42)
T ss_dssp ---SSS
T ss_pred CCCcCC
Confidence 556655
No 184
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=35.14 E-value=20 Score=21.17 Aligned_cols=10 Identities=20% Similarity=0.531 Sum_probs=4.7
Q ss_pred cccCCCCccc
Q psy4574 310 SHTCHLCPQK 319 (343)
Q Consensus 310 ~~~C~~C~~~ 319 (343)
.+-|+.||+.
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 3445555543
No 185
>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=34.98 E-value=18 Score=22.04 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=6.5
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
|+|+.||..+.
T Consensus 3 ~~CP~CG~~ie 13 (54)
T TIGR01206 3 FECPDCGAEIE 13 (54)
T ss_pred cCCCCCCCEEe
Confidence 46666666553
No 186
>KOG3408|consensus
Probab=34.94 E-value=8.7 Score=27.49 Aligned_cols=26 Identities=31% Similarity=0.497 Sum_probs=21.2
Q ss_pred CCCceeCCccCcccCCHHHHHHHhhh
Q psy4574 279 GLKPHCCEICGRSYSTAAYLKVHMSC 304 (343)
Q Consensus 279 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 304 (343)
|...|.|-.|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44668899999999999999998754
No 187
>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=34.61 E-value=7.5 Score=25.21 Aligned_cols=13 Identities=15% Similarity=0.340 Sum_probs=6.0
Q ss_pred ceeCCccCcccCC
Q psy4574 282 PHCCEICGRSYST 294 (343)
Q Consensus 282 ~~~C~~C~~~f~~ 294 (343)
...|..|+..++.
T Consensus 41 ~v~Cg~C~~~~~~ 53 (71)
T PF05495_consen 41 RVICGKCRTEQPI 53 (71)
T ss_dssp EEEETTT--EEES
T ss_pred CeECCCCCCccCh
Confidence 4556666655443
No 188
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=34.34 E-value=19 Score=26.07 Aligned_cols=11 Identities=18% Similarity=0.628 Sum_probs=5.7
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
+.|..||..|.
T Consensus 72 ~~C~~Cg~~~~ 82 (117)
T PRK00564 72 LECKDCSHVFK 82 (117)
T ss_pred EEhhhCCCccc
Confidence 45555554443
No 189
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=34.28 E-value=6.1 Score=22.26 Aligned_cols=10 Identities=20% Similarity=0.810 Sum_probs=6.5
Q ss_pred ccCCCCcccc
Q psy4574 311 HTCHLCPQKF 320 (343)
Q Consensus 311 ~~C~~C~~~f 320 (343)
|.|..|++.+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 6677776654
No 190
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.25 E-value=25 Score=21.73 Aligned_cols=10 Identities=20% Similarity=0.643 Sum_probs=4.6
Q ss_pred CceeCCccCc
Q psy4574 281 KPHCCEICGR 290 (343)
Q Consensus 281 ~~~~C~~C~~ 290 (343)
+.|.|+.|..
T Consensus 30 rtymC~eC~~ 39 (68)
T COG4896 30 RTYMCPECEH 39 (68)
T ss_pred eeEechhhHh
Confidence 3455555543
No 191
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=33.73 E-value=12 Score=25.78 Aligned_cols=9 Identities=33% Similarity=0.833 Sum_probs=4.3
Q ss_pred cCCCCcccc
Q psy4574 312 TCHLCPQKF 320 (343)
Q Consensus 312 ~C~~C~~~f 320 (343)
.|..||..|
T Consensus 48 ~Cg~CGls~ 56 (104)
T COG4888 48 VCGNCGLSF 56 (104)
T ss_pred EcccCcceE
Confidence 455555444
No 192
>PRK12496 hypothetical protein; Provisional
Probab=33.56 E-value=15 Score=28.37 Aligned_cols=11 Identities=27% Similarity=0.915 Sum_probs=7.8
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
|.|.-|++.|.
T Consensus 128 ~~C~gC~~~~~ 138 (164)
T PRK12496 128 KVCKGCKKKYP 138 (164)
T ss_pred EECCCCCcccc
Confidence 56777777774
No 193
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=33.14 E-value=33 Score=21.09 Aligned_cols=31 Identities=16% Similarity=0.415 Sum_probs=14.9
Q ss_pred CceeCCccCcccCCHHHHHHHhhhcCCCCcccCCC
Q psy4574 281 KPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHL 315 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 315 (343)
.|++...|+..|. +.++...+ ...+..+||+
T Consensus 23 ~PV~s~~C~H~fe-k~aI~~~i---~~~~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFE-KEAILQYI---QRNGSKRCPV 53 (57)
T ss_dssp SEEEESSS--EEE-HHHHHHHC---TTTS-EE-SC
T ss_pred CCcCcCCCCCeec-HHHHHHHH---HhcCCCCCCC
Confidence 5666667777774 33444444 2344566776
No 194
>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=33.04 E-value=11 Score=25.66 Aligned_cols=12 Identities=33% Similarity=0.791 Sum_probs=6.1
Q ss_pred cccCCCCccccc
Q psy4574 310 SHTCHLCPQKFR 321 (343)
Q Consensus 310 ~~~C~~C~~~f~ 321 (343)
.+.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (90)
T PF01780_consen 53 IWKCKKCGKKFA 64 (90)
T ss_dssp EEEETTTTEEEE
T ss_pred EeecCCCCCEEe
Confidence 345555555543
No 195
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=32.77 E-value=20 Score=25.20 Aligned_cols=11 Identities=18% Similarity=0.507 Sum_probs=5.7
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
|.|+.|+..+.
T Consensus 20 ~iCpeC~~EW~ 30 (109)
T TIGR00686 20 LICPSCLYEWN 30 (109)
T ss_pred eECcccccccc
Confidence 55555555443
No 196
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=32.52 E-value=38 Score=21.55 Aligned_cols=13 Identities=23% Similarity=0.613 Sum_probs=7.6
Q ss_pred CceeCCccCcccC
Q psy4574 281 KPHCCEICGRSYS 293 (343)
Q Consensus 281 ~~~~C~~C~~~f~ 293 (343)
+.|.|+.||..+.
T Consensus 45 r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 45 RVFTCPNCGFEMD 57 (69)
T ss_pred ceEEcCCCCCEEC
Confidence 4466666666543
No 197
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=32.10 E-value=27 Score=25.62 Aligned_cols=22 Identities=32% Similarity=0.339 Sum_probs=13.4
Q ss_pred cCCCCcccccCchhHHhHHhhcCCC
Q psy4574 312 TCHLCPQKFRQRSSYTLHYKTHHPG 336 (343)
Q Consensus 312 ~C~~C~~~f~~~~~l~~H~~~~h~~ 336 (343)
.|-.+|+.|. +|.+|+.+|++=
T Consensus 78 icLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEeccCcchH---HHHHHHhcccCC
Confidence 5666666663 466666666653
No 198
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=31.83 E-value=25 Score=18.09 Aligned_cols=10 Identities=20% Similarity=0.401 Sum_probs=3.5
Q ss_pred cccCCCCccc
Q psy4574 310 SHTCHLCPQK 319 (343)
Q Consensus 310 ~~~C~~C~~~ 319 (343)
.|.|.+|++.
T Consensus 15 ~Y~C~~Cdf~ 24 (30)
T PF07649_consen 15 FYRCSECDFD 24 (30)
T ss_dssp EEE-TTT---
T ss_pred eEECccCCCc
Confidence 4556666554
No 199
>PRK05580 primosome assembly protein PriA; Validated
Probab=31.54 E-value=26 Score=34.23 Aligned_cols=14 Identities=29% Similarity=0.854 Sum_probs=7.3
Q ss_pred CCCCCcccCCcCcc
Q psy4574 124 HMHEKLYQCDFCGS 137 (343)
Q Consensus 124 H~~~~~~~C~~C~~ 137 (343)
|.......|..||+
T Consensus 403 h~~~~~l~Ch~Cg~ 416 (679)
T PRK05580 403 HRFQRRLRCHHCGY 416 (679)
T ss_pred ECCCCeEECCCCcC
Confidence 33344556666654
No 200
>KOG4377|consensus
Probab=31.51 E-value=26 Score=31.07 Aligned_cols=56 Identities=21% Similarity=0.392 Sum_probs=30.8
Q ss_pred ccc--cccccccCChHHHHHHhhhhcCCcccccCC----CCcccc--ccccccccChHHHHHHHHhcC
Q psy4574 65 YEC--SLCNESFENKKVLFRHLRGKHGMKIKLSRH----KTKCVC--HYCNRTFDSKAKIQEHIISSH 124 (343)
Q Consensus 65 ~~C--~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~----~~~~~C--~~C~~~f~~~~~l~~H~~~~H 124 (343)
|.| +.|+..+-.+.++.+|++.|--....+... ...|-| ..|++ +..+.+.|- ..|
T Consensus 272 yhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~-nFh 335 (480)
T KOG4377|consen 272 YHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHD-NFH 335 (480)
T ss_pred hcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccC-ccc
Confidence 556 557776666777778877665544444433 222344 34655 344444554 444
No 201
>KOG4167|consensus
Probab=31.46 E-value=11 Score=36.03 Aligned_cols=25 Identities=32% Similarity=0.507 Sum_probs=23.1
Q ss_pred cccCCCCcccccCchhHHhHHhhcC
Q psy4574 310 SHTCHLCPQKFRQRSSYTLHYKTHH 334 (343)
Q Consensus 310 ~~~C~~C~~~f~~~~~l~~H~~~~h 334 (343)
.|.|..|++.|..-.++..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4999999999999999999999885
No 202
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=31.32 E-value=28 Score=21.07 Aligned_cols=10 Identities=50% Similarity=1.328 Sum_probs=4.7
Q ss_pred eeCCccCccc
Q psy4574 283 HCCEICGRSY 292 (343)
Q Consensus 283 ~~C~~C~~~f 292 (343)
+.|..||..|
T Consensus 19 ~~Cr~Cg~~~ 28 (57)
T cd00065 19 HHCRNCGRIF 28 (57)
T ss_pred cccCcCcCCc
Confidence 4444454444
No 203
>KOG0978|consensus
Probab=31.22 E-value=17 Score=34.88 Aligned_cols=20 Identities=10% Similarity=0.499 Sum_probs=11.4
Q ss_pred CceeCCccCcccCCHHHHHH
Q psy4574 281 KPHCCEICGRSYSTAAYLKV 300 (343)
Q Consensus 281 ~~~~C~~C~~~f~~~~~l~~ 300 (343)
+.-+||.|+.+|+.-+-+..
T Consensus 677 RqRKCP~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRI 696 (698)
T ss_pred hcCCCCCCCCCCCccccccc
Confidence 33467777777765544433
No 204
>PRK10220 hypothetical protein; Provisional
Probab=31.21 E-value=24 Score=24.89 Aligned_cols=11 Identities=18% Similarity=0.691 Sum_probs=5.2
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
|.|+.|+..+.
T Consensus 21 ~vCpeC~hEW~ 31 (111)
T PRK10220 21 YICPECAHEWN 31 (111)
T ss_pred EECCcccCcCC
Confidence 44555544443
No 205
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=30.75 E-value=47 Score=26.54 Aligned_cols=46 Identities=13% Similarity=0.218 Sum_probs=19.4
Q ss_pred cCcccCCHHHHHHHhhhcCCCCcccCCC----CcccccCchhHHhHHhhcCCC
Q psy4574 288 CGRSYSTAAYLKVHMSCHTGETSHTCHL----CPQKFRQRSSYTLHYKTHHPG 336 (343)
Q Consensus 288 C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~~h~~ 336 (343)
|...+ .......|... ..-+|+.||. |+..= ....|..|+...|+.
T Consensus 24 C~~~~-~~~~~~~HE~~-C~~~p~~CP~~~~~C~~~G-~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 24 CTETF-PYSEKREHEEE-CPFRPCSCPFPGSGCDWQG-SYKELLDHLRDKHSW 73 (198)
T ss_dssp ---EE--GGGHHHHHHT--TTSEEE-SSSSTT---EE-ECCCHHHHHHHHTTT
T ss_pred Ccccc-cccChhhHhcc-CCCcCCcCCCCCCCccccC-CHHHHHHHHHHHCCC
Confidence 55543 23344455432 2335666665 65442 344666777766665
No 206
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.42 E-value=16 Score=23.70 Aligned_cols=8 Identities=50% Similarity=1.501 Sum_probs=3.6
Q ss_pred ccCCcCcc
Q psy4574 130 YQCDFCGS 137 (343)
Q Consensus 130 ~~C~~C~~ 137 (343)
|.|..|+.
T Consensus 13 Y~c~~cg~ 20 (82)
T COG2331 13 YECTECGN 20 (82)
T ss_pred Eeecccch
Confidence 44444443
No 207
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.29 E-value=25 Score=31.63 Aligned_cols=33 Identities=27% Similarity=0.626 Sum_probs=20.3
Q ss_pred CCcccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHH
Q psy4574 253 KKPVCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAA 296 (343)
Q Consensus 253 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 296 (343)
..|.|+.||....+. |..-|+|+.||..+....
T Consensus 349 ~~p~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 349 VNPVCPRCGGRMKSA-----------GRNGFRCKKCGTRARETL 381 (421)
T ss_pred cCCCCCccCCchhhc-----------CCCCcccccccccCCccc
Confidence 345788888754332 223588888887776543
No 208
>KOG4124|consensus
Probab=29.59 E-value=11 Score=32.50 Aligned_cols=54 Identities=22% Similarity=0.551 Sum_probs=0.0
Q ss_pred CceeCCc--cCcccCCHHHHHHHhhhcCC-------------------CCcccCCCCcccccCchhHHhHHhhcC
Q psy4574 281 KPHCCEI--CGRSYSTAAYLKVHMSCHTG-------------------ETSHTCHLCPQKFRQRSSYTLHYKTHH 334 (343)
Q Consensus 281 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~-------------------~~~~~C~~C~~~f~~~~~l~~H~~~~h 334 (343)
++|+|++ |.+.+..-..|..|...-+. .|+|+|++|.+..+.-..|..|+..-|
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~~~ 422 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTHSH 422 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeehhh
No 209
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=28.67 E-value=26 Score=21.43 Aligned_cols=36 Identities=11% Similarity=0.294 Sum_probs=16.0
Q ss_pred eCCccCcccC-CHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 284 CCEICGRSYS-TAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 284 ~C~~C~~~f~-~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
+|.+|++.+. ....+.+-.........|-|..|.-.
T Consensus 4 kC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~R 40 (56)
T PF09963_consen 4 KCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKER 40 (56)
T ss_pred EEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHH
Confidence 5566665443 22223322222233445666666543
No 210
>COG1773 Rubredoxin [Energy production and conversion]
Probab=28.37 E-value=26 Score=21.37 Aligned_cols=11 Identities=18% Similarity=0.712 Sum_probs=6.3
Q ss_pred cccCCCCcccc
Q psy4574 310 SHTCHLCPQKF 320 (343)
Q Consensus 310 ~~~C~~C~~~f 320 (343)
.|+|..||+.|
T Consensus 3 ~~~C~~CG~vY 13 (55)
T COG1773 3 RWRCSVCGYVY 13 (55)
T ss_pred ceEecCCceEe
Confidence 45566666554
No 211
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=27.93 E-value=19 Score=19.73 Aligned_cols=30 Identities=20% Similarity=0.431 Sum_probs=15.3
Q ss_pred eeCCccCcccCCHHHHHHHhhhcCCCCcccCCCC
Q psy4574 283 HCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLC 316 (343)
Q Consensus 283 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C 316 (343)
..|+.|+.. ..+..|=+...|...|+|..|
T Consensus 6 v~CP~C~s~----~~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQST----EGVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCC----CcceeCCCCCCCCEeEecCcC
Confidence 356666432 124444444455556666666
No 212
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=27.92 E-value=28 Score=25.01 Aligned_cols=10 Identities=30% Similarity=0.707 Sum_probs=5.4
Q ss_pred eeCCccCccc
Q psy4574 283 HCCEICGRSY 292 (343)
Q Consensus 283 ~~C~~C~~~f 292 (343)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (114)
T PRK03681 71 CWCETCQQYV 80 (114)
T ss_pred EEcccCCCee
Confidence 4555555544
No 213
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=27.70 E-value=23 Score=34.55 Aligned_cols=45 Identities=22% Similarity=0.516 Sum_probs=24.7
Q ss_pred ccccccccCCCh---HHHHHHHHhhcCCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 256 VCTICGKMLIDK---RSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 256 ~C~~C~~~f~~~---~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
.|..||..+.-+ ..|.. |...+...|..||+. ...|..|+.||-.
T Consensus 437 ~C~~Cg~v~~Cp~Cd~~lt~----H~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 437 LCRDCGYIAECPNCDSPLTL----HKATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred ecccCCCcccCCCCCcceEE----ecCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 577777655332 12222 233344666666644 2346679999854
No 214
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=27.40 E-value=24 Score=17.56 Aligned_cols=7 Identities=29% Similarity=0.804 Sum_probs=3.3
Q ss_pred ccccccc
Q psy4574 66 ECSLCNE 72 (343)
Q Consensus 66 ~C~~C~~ 72 (343)
.|+.|+.
T Consensus 4 ~Cp~Cg~ 10 (26)
T PF13248_consen 4 FCPNCGA 10 (26)
T ss_pred CCcccCC
Confidence 3444544
No 215
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=26.59 E-value=24 Score=26.64 Aligned_cols=33 Identities=24% Similarity=0.646 Sum_probs=21.8
Q ss_pred hcCCccccCccCccccchhHHHHHHhhhcCCCCcccccccccC
Q psy4574 222 ILKREFICDVCGKSYVRKGALTEHHQREHQGKKPVCTICGKML 264 (343)
Q Consensus 222 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~~C~~~f 264 (343)
.+...|.|..||.... -.+...-+.|+.|+...
T Consensus 108 ~g~G~l~C~~Cg~~~~----------~~~~~~l~~Cp~C~~~~ 140 (146)
T PF07295_consen 108 VGPGTLVCENCGHEVE----------LTHPERLPPCPKCGHTE 140 (146)
T ss_pred ecCceEecccCCCEEE----------ecCCCcCCCCCCCCCCe
Confidence 3445688888887652 23455667888888663
No 216
>KOG2636|consensus
Probab=26.45 E-value=42 Score=30.21 Aligned_cols=23 Identities=30% Similarity=0.586 Sum_probs=11.8
Q ss_pred CceeCCccC-cccCCHHHHHHHhh
Q psy4574 281 KPHCCEICG-RSYSTAAYLKVHMS 303 (343)
Q Consensus 281 ~~~~C~~C~-~~f~~~~~l~~H~~ 303 (343)
..|.|.||| +++.-+.++.+|..
T Consensus 400 ~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 400 IEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred cccceeeccCccccCcHHHHHHhH
Confidence 335555555 45555555555544
No 217
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=26.18 E-value=27 Score=21.05 Aligned_cols=11 Identities=27% Similarity=0.851 Sum_probs=5.6
Q ss_pred cCCCCcccccC
Q psy4574 312 TCHLCPQKFRQ 322 (343)
Q Consensus 312 ~C~~C~~~f~~ 322 (343)
.||+|+..|..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 69999988764
No 218
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=26.04 E-value=26 Score=23.91 Aligned_cols=13 Identities=15% Similarity=0.414 Sum_probs=6.8
Q ss_pred CceeCCccCcccC
Q psy4574 281 KPHCCEICGRSYS 293 (343)
Q Consensus 281 ~~~~C~~C~~~f~ 293 (343)
..+.|..|++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PTZ00255 53 GIWRCKGCKKTVA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 4455555555543
No 219
>COG4640 Predicted membrane protein [Function unknown]
Probab=25.79 E-value=47 Score=29.41 Aligned_cols=22 Identities=14% Similarity=0.344 Sum_probs=13.5
Q ss_pred CCCceeCCccCcccCCHHHHHH
Q psy4574 279 GLKPHCCEICGRSYSTAAYLKV 300 (343)
Q Consensus 279 ~~~~~~C~~C~~~f~~~~~l~~ 300 (343)
.+..++|..||..|....++.+
T Consensus 12 ~Ed~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 12 AEDDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred ccccccccccCCcCCchhhhhh
Confidence 3444567777777766655554
No 220
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.58 E-value=37 Score=31.82 Aligned_cols=13 Identities=23% Similarity=0.421 Sum_probs=7.0
Q ss_pred CCceeCCccCccc
Q psy4574 280 LKPHCCEICGRSY 292 (343)
Q Consensus 280 ~~~~~C~~C~~~f 292 (343)
.....|..||+..
T Consensus 238 ~~~l~Ch~Cg~~~ 250 (505)
T TIGR00595 238 EGKLRCHYCGYQE 250 (505)
T ss_pred CCeEEcCCCcCcC
Confidence 3445666666543
No 221
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=25.34 E-value=28 Score=19.63 Aligned_cols=11 Identities=18% Similarity=0.803 Sum_probs=7.3
Q ss_pred cccCCCCcccc
Q psy4574 310 SHTCHLCPQKF 320 (343)
Q Consensus 310 ~~~C~~C~~~f 320 (343)
+-.|++|+..|
T Consensus 29 ~~~CpYCg~~y 39 (40)
T PF10276_consen 29 PVVCPYCGTRY 39 (40)
T ss_dssp EEEETTTTEEE
T ss_pred eEECCCCCCEE
Confidence 45677777665
No 222
>KOG4377|consensus
Probab=25.21 E-value=38 Score=30.09 Aligned_cols=65 Identities=18% Similarity=0.426 Sum_probs=36.4
Q ss_pred Ccccc--cccccccCCchHHHhHHHhhccchhHH-HHhhhcCCcccc--CccCccccchhHHHHHHhhhcCCCC
Q psy4574 186 KNYQC--YYCRKTYCHKPNLTNHIQNVHLKSELE-KRTAILKREFIC--DVCGKSYVRKGALTEHHQREHQGKK 254 (343)
Q Consensus 186 ~~~~C--~~C~~~~~~~~~l~~H~~~~h~~~~~~-~~~~~~~~~~~C--~~C~~~f~~~~~l~~H~~~~h~~~~ 254 (343)
.-|.| +.|...+-++..+.+|.+.+-..+..- -..+.-+..|.| ..|.+ +.+++..|. ..|...+
T Consensus 270 Ehyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~-nFht~~~ 339 (480)
T KOG4377|consen 270 EHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHD-NFHTDKR 339 (480)
T ss_pred hhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccC-ccccccc
Confidence 34556 458877777888888887665433210 112222334677 45877 445666674 5554433
No 223
>PRK00420 hypothetical protein; Validated
Probab=24.52 E-value=39 Score=24.19 Aligned_cols=9 Identities=11% Similarity=0.265 Sum_probs=4.8
Q ss_pred ccCCCCccc
Q psy4574 311 HTCHLCPQK 319 (343)
Q Consensus 311 ~~C~~C~~~ 319 (343)
..||.||..
T Consensus 41 ~~Cp~Cg~~ 49 (112)
T PRK00420 41 VVCPVHGKV 49 (112)
T ss_pred eECCCCCCe
Confidence 346666553
No 224
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=24.43 E-value=24 Score=24.06 Aligned_cols=12 Identities=25% Similarity=0.764 Sum_probs=6.3
Q ss_pred CceeCCccCccc
Q psy4574 281 KPHCCEICGRSY 292 (343)
Q Consensus 281 ~~~~C~~C~~~f 292 (343)
..+.|..|++.|
T Consensus 52 GIW~C~~C~~~~ 63 (91)
T TIGR00280 52 GIWTCRKCGAKF 63 (91)
T ss_pred EEEEcCCCCCEE
Confidence 345555555554
No 225
>KOG2636|consensus
Probab=24.19 E-value=55 Score=29.50 Aligned_cols=30 Identities=20% Similarity=0.537 Sum_probs=24.7
Q ss_pred HHhcCCCCcccccccc-cccCChHHHHHHhh
Q psy4574 56 LECKNRGKLYECSLCN-ESFENKKVLFRHLR 85 (343)
Q Consensus 56 ~~~h~~~~~~~C~~C~-~~~~~~~~l~~H~~ 85 (343)
-+.|.-+..|.|.+|| +++..+..+.+|..
T Consensus 393 yKLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 393 YKLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred HhhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 3457778889999997 88999999998865
No 226
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=23.96 E-value=52 Score=19.38 Aligned_cols=11 Identities=18% Similarity=0.461 Sum_probs=4.8
Q ss_pred cccCCCCcccc
Q psy4574 310 SHTCHLCPQKF 320 (343)
Q Consensus 310 ~~~C~~C~~~f 320 (343)
.+.|+.||+.+
T Consensus 20 ~~vC~~Cg~~~ 30 (52)
T smart00661 20 RFVCRKCGYEE 30 (52)
T ss_pred EEECCcCCCeE
Confidence 34444444443
No 227
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=23.65 E-value=12 Score=32.68 Aligned_cols=42 Identities=12% Similarity=0.283 Sum_probs=21.1
Q ss_pred cccccCcccccccChhHHHHHHHHhcC------CCCcccccccccccCCh
Q psy4574 34 DEERCRSCGLLSGSITQTYIHYLECKN------RGKLYECSLCNESFENK 77 (343)
Q Consensus 34 ~~~~C~~C~~~~~~~~~l~~H~~~~h~------~~~~~~C~~C~~~~~~~ 77 (343)
.-+.|..|.++.......-. ...|. ..+.|+|+.|+..+.+.
T Consensus 251 kav~C~~C~yt~~~~~~~C~--~~~H~l~~~~a~KRFFkC~~C~~Rt~sl 298 (344)
T PF09332_consen 251 KAVTCKQCKYTAFKPSDRCK--EEGHPLKWHDAVKRFFKCKDCGNRTISL 298 (344)
T ss_dssp EEEEETTT--EESS--HHHH--HTT--EEEEEEE-EEEE-T-TS-EEEES
T ss_pred EEEEcCCCCCcccCcchhHH--hcCCceEEeeeeeeeEECCCCCCeeeec
Confidence 44789999988877766543 12232 23568899998876653
No 229
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=23.58 E-value=68 Score=24.71 Aligned_cols=44 Identities=18% Similarity=0.382 Sum_probs=26.5
Q ss_pred ccccCcccccccChhH--HH-----HHHHHhcCCCCcccccccccccCChHHHH
Q psy4574 35 EERCRSCGLLSGSITQ--TY-----IHYLECKNRGKLYECSLCNESFENKKVLF 81 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~--l~-----~H~~~~h~~~~~~~C~~C~~~~~~~~~l~ 81 (343)
.-+|+.|+-.....+. .. .++ . .-+..+.|+.|++.|--..+..
T Consensus 97 ~~RCp~CN~~L~~vs~eev~~~Vp~~~~-~--~~~~f~~C~~CgkiYW~GsHw~ 147 (165)
T COG1656 97 FSRCPECNGELEKVSREEVKEKVPEKVY-R--NYEEFYRCPKCGKIYWKGSHWR 147 (165)
T ss_pred cccCcccCCEeccCcHHHHhhccchhhh-h--cccceeECCCCcccccCchHHH
Confidence 4579999887644332 11 111 1 1234678999999997666554
No 230
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=23.22 E-value=46 Score=18.57 Aligned_cols=13 Identities=23% Similarity=0.657 Sum_probs=10.5
Q ss_pred ceeCCccCcccCC
Q psy4574 282 PHCCEICGRSYST 294 (343)
Q Consensus 282 ~~~C~~C~~~f~~ 294 (343)
||+|..|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7889999888854
No 231
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=23.08 E-value=75 Score=27.46 Aligned_cols=71 Identities=21% Similarity=0.435 Sum_probs=37.3
Q ss_pred ccccCccCccccchhHHHHHHhhhcCCCCc-ccccccccCCChHHHHHHHHhhcCCCceeCCccCcccCCHHHHHHHhhh
Q psy4574 226 EFICDVCGKSYVRKGALTEHHQREHQGKKP-VCTICGKMLIDKRSLANHMNTHTGLKPHCCEICGRSYSTAAYLKVHMSC 304 (343)
Q Consensus 226 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 304 (343)
.-.||.||..-.. +.+ +......+..| .|+.|+.... -...+|+.||.. ..|... ..
T Consensus 184 ~~~CPvCGs~P~~-s~~--~~~~~~~G~RyL~CslC~teW~--------------~~R~~C~~Cg~~----~~l~y~-~~ 241 (305)
T TIGR01562 184 RTLCPACGSPPVA-SMV--RQGGKETGLRYLSCSLCATEWH--------------YVRVKCSHCEES----KHLAYL-SL 241 (305)
T ss_pred CCcCCCCCChhhh-hhh--cccCCCCCceEEEcCCCCCccc--------------ccCccCCCCCCC----CceeeE-ee
Confidence 3479999865321 111 10011334455 8999986431 134689999964 122211 11
Q ss_pred c-----CCCCcccCCCCcc
Q psy4574 305 H-----TGETSHTCHLCPQ 318 (343)
Q Consensus 305 h-----~~~~~~~C~~C~~ 318 (343)
. .+.+...|..|+.
T Consensus 242 e~~~~~~~~r~e~C~~C~~ 260 (305)
T TIGR01562 242 EHDAEKAVLKAETCDSCQG 260 (305)
T ss_pred cCCCCCcceEEeecccccc
Confidence 1 2235567988884
No 232
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=22.94 E-value=79 Score=25.03 Aligned_cols=12 Identities=17% Similarity=0.362 Sum_probs=6.5
Q ss_pred CcccCCCCcccc
Q psy4574 309 TSHTCHLCPQKF 320 (343)
Q Consensus 309 ~~~~C~~C~~~f 320 (343)
-.+.|..||..+
T Consensus 29 ~lvrC~eCG~V~ 40 (201)
T COG1326 29 PLVRCEECGTVH 40 (201)
T ss_pred eEEEccCCCcEe
Confidence 345566666544
No 233
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=22.91 E-value=40 Score=25.17 Aligned_cols=11 Identities=36% Similarity=0.755 Sum_probs=6.2
Q ss_pred ccCcccccccC
Q psy4574 37 RCRSCGLLSGS 47 (343)
Q Consensus 37 ~C~~C~~~~~~ 47 (343)
.|+.||+.|..
T Consensus 5 nC~~CgklF~~ 15 (137)
T TIGR03826 5 NCPKCGRLFVK 15 (137)
T ss_pred cccccchhhhh
Confidence 36666665553
No 234
>KOG1994|consensus
Probab=22.75 E-value=49 Score=26.78 Aligned_cols=23 Identities=17% Similarity=0.616 Sum_probs=20.0
Q ss_pred CCccccccccccccChHHHHHHH
Q psy4574 98 KTKCVCHYCNRTFDSKAKIQEHI 120 (343)
Q Consensus 98 ~~~~~C~~C~~~f~~~~~l~~H~ 120 (343)
..-|.|-+||..|.+..+|..|.
T Consensus 237 ~eh~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred ccceEEEEeccccCCHHHHHHhC
Confidence 45578999999999999999885
No 235
>KOG0717|consensus
Probab=22.63 E-value=41 Score=30.52 Aligned_cols=35 Identities=23% Similarity=0.200 Sum_probs=0.0
Q ss_pred CCcccccccceecceeEEeechhhhhccccccccccccCcccccccChhHHHHH
Q psy4574 1 SENKQIIGDLKVENTVYRIKSKDLLASFSSDVWDEERCRSCGLLSGSITQTYIH 54 (343)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~H 54 (343)
+++++..++...++++ +-|..|+++|.+..+|.-|
T Consensus 277 ~d~~~e~de~d~~ge~-------------------lyC~vCnKsFKseKq~kNH 311 (508)
T KOG0717|consen 277 SDDETESDEADNEGEV-------------------LYCVVCNKSFKSEKQLKNH 311 (508)
T ss_pred cccchhhhhhhhcCCc-------------------eEEeeccccccchHHHHhh
No 236
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=22.40 E-value=45 Score=20.20 Aligned_cols=10 Identities=30% Similarity=0.657 Sum_probs=4.9
Q ss_pred CCcccccccc
Q psy4574 158 ANLSCEFCSR 167 (343)
Q Consensus 158 ~~~~C~~C~~ 167 (343)
+.+.|+.|..
T Consensus 27 fPlyCpKCK~ 36 (55)
T PF14205_consen 27 FPLYCPKCKQ 36 (55)
T ss_pred ccccCCCCCc
Confidence 3345555544
No 237
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=21.81 E-value=34 Score=25.99 Aligned_cols=10 Identities=50% Similarity=1.185 Sum_probs=5.6
Q ss_pred eeCCccCccc
Q psy4574 283 HCCEICGRSY 292 (343)
Q Consensus 283 ~~C~~C~~~f 292 (343)
|.|..|+..+
T Consensus 124 ~~C~~C~~~~ 133 (157)
T PF10263_consen 124 YRCPSCGREY 133 (157)
T ss_pred EEcCCCCCEe
Confidence 5566665544
No 238
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.79 E-value=41 Score=24.61 Aligned_cols=10 Identities=30% Similarity=0.504 Sum_probs=4.9
Q ss_pred eeCCccCcccC
Q psy4574 283 HCCEICGRSYS 293 (343)
Q Consensus 283 ~~C~~C~~~f~ 293 (343)
+.| .|+..|.
T Consensus 71 ~~C-~Cg~~~~ 80 (124)
T PRK00762 71 IEC-ECGYEGV 80 (124)
T ss_pred EEe-eCcCccc
Confidence 455 5554443
No 239
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=21.73 E-value=19 Score=27.64 Aligned_cols=31 Identities=26% Similarity=0.705 Sum_probs=18.1
Q ss_pred ccccCcccccccChhHHHHHHHHhcCCCCcccccccccccCC
Q psy4574 35 EERCRSCGLLSGSITQTYIHYLECKNRGKLYECSLCNESFEN 76 (343)
Q Consensus 35 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~ 76 (343)
...|+.|+.+|.... + ...|.|..|...|.+
T Consensus 74 ~l~C~~C~~Tfk~f~----~-------~g~fGCaeCY~tf~~ 104 (176)
T COG3880 74 LLGCHNCGMTFKEFI----Q-------SGLFGCAECYKTFES 104 (176)
T ss_pred HhcCccccccHHHHH----H-------hcccchHHHHHHHHH
Confidence 456777777766432 1 235667777666654
No 240
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=21.65 E-value=31 Score=33.96 Aligned_cols=11 Identities=36% Similarity=0.936 Sum_probs=0.0
Q ss_pred cccCCcCcccc
Q psy4574 129 LYQCDFCGSQQ 139 (343)
Q Consensus 129 ~~~C~~C~~~~ 139 (343)
.|.|+.|+...
T Consensus 680 ~~~Cp~C~~~~ 690 (900)
T PF03833_consen 680 VYVCPDCGIEV 690 (900)
T ss_dssp -----------
T ss_pred ceecccccccc
Confidence 45666666543
No 241
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.57 E-value=16 Score=29.54 Aligned_cols=15 Identities=27% Similarity=0.811 Sum_probs=8.4
Q ss_pred CCccccCccCccccc
Q psy4574 224 KREFICDVCGKSYVR 238 (343)
Q Consensus 224 ~~~~~C~~C~~~f~~ 238 (343)
++.+.||+|+..|..
T Consensus 17 kk~ieCPvC~tkFkk 31 (267)
T COG1655 17 KKTIECPVCNTKFKK 31 (267)
T ss_pred hceeccCcccchhhh
Confidence 344556666666544
No 242
>KOG4727|consensus
Probab=21.50 E-value=56 Score=25.15 Aligned_cols=24 Identities=21% Similarity=0.448 Sum_probs=21.4
Q ss_pred CCccccccccccccChHHHHHHHH
Q psy4574 98 KTKCVCHYCNRTFDSKAKIQEHII 121 (343)
Q Consensus 98 ~~~~~C~~C~~~f~~~~~l~~H~~ 121 (343)
...|.|.+|+-+|.+...+..|++
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cCceeeeecceeehhhHHHHHHhc
Confidence 456899999999999999999984
No 243
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=21.49 E-value=1.5e+02 Score=23.31 Aligned_cols=33 Identities=24% Similarity=0.454 Sum_probs=18.6
Q ss_pred cCCCceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCccc
Q psy4574 278 TGLKPHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQK 319 (343)
Q Consensus 278 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 319 (343)
.++.-|.|+.|...|+...+... .|.||.||-.
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA~~~---------~F~Cp~Cg~~ 141 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEAMEL---------GFTCPKCGED 141 (176)
T ss_pred ccCCceeCCCCCCcccHHHHHHh---------CCCCCCCCch
Confidence 34444777777666655444321 2667777753
No 244
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=21.47 E-value=35 Score=25.76 Aligned_cols=32 Identities=25% Similarity=0.597 Sum_probs=16.2
Q ss_pred ceeCCccCcccCCHHHHHHHhhhcCCCCcccCCCCcccc
Q psy4574 282 PHCCEICGRSYSTAAYLKVHMSCHTGETSHTCHLCPQKF 320 (343)
Q Consensus 282 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 320 (343)
.|.|..|+..+.. ..+| .....|.|..|+-.+
T Consensus 112 ~y~C~~C~~~~~~---~rr~----~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYLR---VRRS----NNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCce---Eccc----cCcceEEcCCCCCEE
Confidence 4677767665431 1111 111456777776554
No 245
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=21.32 E-value=15 Score=24.57 Aligned_cols=11 Identities=45% Similarity=1.201 Sum_probs=4.3
Q ss_pred ccccccccccC
Q psy4574 65 YECSLCNESFE 75 (343)
Q Consensus 65 ~~C~~C~~~~~ 75 (343)
..|..|+..|.
T Consensus 47 ~~C~~Cg~~~~ 57 (81)
T PF05129_consen 47 LSCRVCGESFQ 57 (81)
T ss_dssp EEESSS--EEE
T ss_pred EEecCCCCeEE
Confidence 44555554443
No 246
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=21.25 E-value=40 Score=18.23 Aligned_cols=6 Identities=33% Similarity=1.088 Sum_probs=2.4
Q ss_pred cccccc
Q psy4574 161 SCEFCS 166 (343)
Q Consensus 161 ~C~~C~ 166 (343)
.|+.|+
T Consensus 24 vC~~Cg 29 (34)
T PF14803_consen 24 VCPACG 29 (34)
T ss_dssp EETTTT
T ss_pred ECCCCC
Confidence 344443
No 247
>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=20.88 E-value=4 Score=22.86 Aligned_cols=10 Identities=20% Similarity=0.746 Sum_probs=6.5
Q ss_pred ccCCCCcccc
Q psy4574 311 HTCHLCPQKF 320 (343)
Q Consensus 311 ~~C~~C~~~f 320 (343)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 6677776654
No 248
>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=20.71 E-value=65 Score=24.47 Aligned_cols=50 Identities=20% Similarity=0.421 Sum_probs=25.1
Q ss_pred CCccccccccccc------CCchHHHhHHHh-hccchhHHHHhhhcCCccccCccCc
Q psy4574 185 GKNYQCYYCRKTY------CHKPNLTNHIQN-VHLKSELEKRTAILKREFICDVCGK 234 (343)
Q Consensus 185 ~~~~~C~~C~~~~------~~~~~l~~H~~~-~h~~~~~~~~~~~~~~~~~C~~C~~ 234 (343)
.-..+|..|++.| .+.+.+..|+.. .|.....+.....++..+.|-.||.
T Consensus 12 ~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 12 SCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp CCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred ccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 3456788887766 355667788643 5555555556667777888888874
No 249
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.39 E-value=54 Score=23.08 Aligned_cols=11 Identities=36% Similarity=0.700 Sum_probs=4.6
Q ss_pred ceeCCccCccc
Q psy4574 282 PHCCEICGRSY 292 (343)
Q Consensus 282 ~~~C~~C~~~f 292 (343)
|..|+.||++|
T Consensus 26 PiVsPytG~s~ 36 (129)
T COG4530 26 PIVSPYTGKSY 36 (129)
T ss_pred ccccCcccccc
Confidence 33444444444
No 250
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=20.36 E-value=72 Score=19.57 Aligned_cols=29 Identities=28% Similarity=0.643 Sum_probs=18.0
Q ss_pred eeCCccCcccCC-HHHHHHHhhhcCCCCcccCCCCcc
Q psy4574 283 HCCEICGRSYST-AAYLKVHMSCHTGETSHTCHLCPQ 318 (343)
Q Consensus 283 ~~C~~C~~~f~~-~~~l~~H~~~h~~~~~~~C~~C~~ 318 (343)
|.|+ ||..|.- ...| ..|+..-+||-|..
T Consensus 23 yPCP-CGDRFeIsLeDl------~~GE~VArCPSCSL 52 (67)
T COG5216 23 YPCP-CGDRFEISLEDL------RNGEVVARCPSCSL 52 (67)
T ss_pred ecCC-CCCEeEEEHHHh------hCCceEEEcCCceE
Confidence 6676 7877753 2232 24566677888875
No 251
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=20.01 E-value=47 Score=25.10 Aligned_cols=18 Identities=11% Similarity=0.455 Sum_probs=11.4
Q ss_pred CcccccccccccCChHHH
Q psy4574 63 KLYECSLCNESFENKKVL 80 (343)
Q Consensus 63 ~~~~C~~C~~~~~~~~~l 80 (343)
..+.|+.|++.|-...+.
T Consensus 123 ~f~~C~~C~kiyW~GsH~ 140 (147)
T PF01927_consen 123 EFWRCPGCGKIYWEGSHW 140 (147)
T ss_pred eEEECCCCCCEecccccH
Confidence 356777777777655444
Done!