Query psy4572
Match_columns 345
No_of_seqs 430 out of 1637
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 20:27:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4572.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4572hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 1.3E-26 2.9E-31 207.0 8.3 132 75-211 131-265 (279)
2 KOG2462|consensus 99.9 1.1E-26 2.4E-31 207.6 6.1 137 43-181 127-266 (279)
3 KOG3608|consensus 99.8 2.3E-21 5E-26 177.7 7.2 182 32-216 193-379 (467)
4 KOG1074|consensus 99.8 2.9E-21 6.3E-26 193.3 3.9 171 42-215 601-933 (958)
5 KOG3608|consensus 99.8 6E-20 1.3E-24 168.4 10.4 179 47-237 178-363 (467)
6 KOG1074|consensus 99.8 4.6E-20 1E-24 184.8 3.7 53 45-97 352-404 (958)
7 KOG3576|consensus 99.7 2.9E-17 6.3E-22 140.6 4.2 120 100-219 115-242 (267)
8 KOG3576|consensus 99.6 2.5E-16 5.3E-21 134.9 6.7 123 44-183 115-237 (267)
9 PLN03086 PRLI-interacting fact 99.5 3.2E-13 6.9E-18 134.7 10.9 149 45-215 406-566 (567)
10 KOG3623|consensus 99.4 2E-14 4.3E-19 142.5 1.8 119 76-212 212-332 (1007)
11 KOG3623|consensus 99.4 6.1E-14 1.3E-18 139.2 3.6 112 40-151 204-330 (1007)
12 PLN03086 PRLI-interacting fact 99.2 4.5E-11 9.7E-16 119.4 6.8 119 47-182 434-564 (567)
13 PHA00733 hypothetical protein 99.1 6.2E-11 1.3E-15 97.6 4.4 85 127-216 37-126 (128)
14 KOG3993|consensus 98.9 6.5E-11 1.4E-15 111.7 -2.9 173 45-220 266-489 (500)
15 PHA00733 hypothetical protein 98.9 2E-09 4.3E-14 88.6 5.5 53 128-182 71-123 (128)
16 PHA02768 hypothetical protein; 98.6 9.9E-09 2.1E-13 70.7 1.6 44 158-206 5-48 (55)
17 PHA02768 hypothetical protein; 98.6 2.6E-08 5.6E-13 68.6 1.7 43 46-90 5-47 (55)
18 KOG3993|consensus 98.5 7.9E-09 1.7E-13 97.8 -2.9 152 33-184 282-484 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.2 9E-07 1.9E-11 52.0 2.6 25 61-85 1-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.2 1.3E-06 2.8E-11 51.3 2.5 25 173-200 1-25 (26)
21 PF05605 zf-Di19: Drought indu 98.2 2.8E-06 6.2E-11 59.1 4.2 53 158-214 2-54 (54)
22 PHA00616 hypothetical protein 98.1 1.8E-06 3.8E-11 56.8 1.8 34 46-79 1-34 (44)
23 PHA00732 hypothetical protein 98.0 2.6E-06 5.5E-11 64.0 2.0 44 158-209 1-44 (79)
24 PHA00616 hypothetical protein 98.0 3.2E-06 6.8E-11 55.6 1.8 34 158-194 1-34 (44)
25 PHA00732 hypothetical protein 97.9 1E-05 2.2E-10 60.8 2.8 48 130-182 1-48 (79)
26 PF05605 zf-Di19: Drought indu 97.7 6.4E-05 1.4E-09 52.2 4.3 50 46-98 2-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.6 4.6E-05 1E-09 43.1 2.6 22 190-211 1-22 (23)
28 PF12756 zf-C2H2_2: C2H2 type 97.6 4.4E-05 9.5E-10 59.3 3.2 79 132-218 1-79 (100)
29 PF13894 zf-C2H2_4: C2H2-type 97.6 6.8E-05 1.5E-09 42.4 2.7 24 190-213 1-24 (24)
30 KOG2231|consensus 97.4 0.00028 6.1E-09 72.1 7.0 121 76-210 117-260 (669)
31 PF13912 zf-C2H2_6: C2H2-type 97.4 7.9E-05 1.7E-09 43.9 1.6 26 189-214 1-26 (27)
32 COG5189 SFP1 Putative transcri 97.4 4.5E-05 9.7E-10 70.3 0.3 58 156-213 347-422 (423)
33 PF00096 zf-C2H2: Zinc finger, 97.3 0.00017 3.6E-09 40.7 2.3 22 47-68 1-22 (23)
34 PF12756 zf-C2H2_2: C2H2 type 97.2 0.00023 4.9E-09 55.2 2.3 72 48-124 1-72 (100)
35 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00047 1E-08 38.8 2.4 23 47-69 1-23 (24)
36 COG5189 SFP1 Putative transcri 96.8 0.0006 1.3E-08 63.0 2.0 68 44-123 347-419 (423)
37 COG5236 Uncharacterized conser 96.8 0.0016 3.6E-08 60.8 4.9 131 75-218 152-310 (493)
38 PF13912 zf-C2H2_6: C2H2-type 96.8 0.00075 1.6E-08 39.6 1.7 23 47-69 2-24 (27)
39 KOG2231|consensus 96.8 0.0027 5.9E-08 65.1 6.6 133 75-229 100-252 (669)
40 PF09237 GAGA: GAGA factor; I 96.5 0.0021 4.7E-08 43.3 2.7 40 175-216 12-51 (54)
41 PF13909 zf-H2C2_5: C2H2-type 96.4 0.003 6.5E-08 35.9 2.4 24 190-214 1-24 (24)
42 smart00355 ZnF_C2H2 zinc finge 96.2 0.0038 8.2E-08 35.5 2.0 23 190-212 1-23 (26)
43 PF09237 GAGA: GAGA factor; I 96.0 0.011 2.4E-07 39.9 3.8 31 44-74 22-52 (54)
44 COG5048 FOG: Zn-finger [Genera 96.0 0.0021 4.4E-08 62.5 0.3 138 45-182 288-442 (467)
45 smart00355 ZnF_C2H2 zinc finge 95.9 0.0058 1.3E-07 34.7 2.1 24 159-182 1-24 (26)
46 COG5236 Uncharacterized conser 95.8 0.011 2.5E-07 55.4 4.4 129 46-184 151-307 (493)
47 PF12874 zf-met: Zinc-finger o 95.8 0.0066 1.4E-07 34.8 1.7 23 190-212 1-23 (25)
48 KOG1146|consensus 95.4 0.0074 1.6E-07 65.5 1.8 75 49-123 439-539 (1406)
49 PRK04860 hypothetical protein; 95.2 0.013 2.7E-07 50.1 2.5 37 46-86 119-155 (160)
50 KOG2785|consensus 94.9 0.063 1.4E-06 51.3 6.2 56 157-212 165-243 (390)
51 KOG1146|consensus 94.9 0.0053 1.1E-07 66.6 -1.0 138 77-217 439-617 (1406)
52 PF13909 zf-H2C2_5: C2H2-type 94.8 0.021 4.5E-07 32.4 1.8 22 47-69 1-22 (24)
53 PF12874 zf-met: Zinc-finger o 94.7 0.019 4.2E-07 32.7 1.5 20 48-67 2-21 (25)
54 PRK04860 hypothetical protein; 94.7 0.015 3.3E-07 49.6 1.5 37 158-201 119-155 (160)
55 COG5048 FOG: Zn-finger [Genera 94.7 0.003 6.6E-08 61.3 -3.3 144 73-217 288-446 (467)
56 KOG2785|consensus 94.6 0.083 1.8E-06 50.5 6.3 27 189-215 166-192 (390)
57 KOG2482|consensus 94.0 0.17 3.6E-06 47.7 6.7 54 159-212 280-357 (423)
58 PF12171 zf-C2H2_jaz: Zinc-fin 93.8 0.014 3.1E-07 34.2 -0.4 22 190-211 2-23 (27)
59 PF13913 zf-C2HC_2: zinc-finge 92.7 0.094 2E-06 30.2 1.9 21 190-211 3-23 (25)
60 PF12171 zf-C2H2_jaz: Zinc-fin 92.6 0.035 7.7E-07 32.4 0.1 22 159-180 2-23 (27)
61 KOG2482|consensus 92.4 0.19 4.2E-06 47.3 4.7 26 190-215 280-305 (423)
62 TIGR00622 ssl1 transcription f 91.9 0.19 4.1E-06 40.1 3.5 25 157-181 80-104 (112)
63 KOG4173|consensus 91.3 0.11 2.4E-06 45.6 1.6 77 75-154 80-170 (253)
64 KOG4173|consensus 91.1 0.11 2.4E-06 45.5 1.4 77 101-180 78-168 (253)
65 KOG2893|consensus 91.1 0.06 1.3E-06 48.2 -0.2 47 161-214 13-59 (341)
66 smart00451 ZnF_U1 U1-like zinc 90.9 0.16 3.5E-06 31.3 1.8 24 189-212 3-26 (35)
67 TIGR00622 ssl1 transcription f 90.6 0.26 5.6E-06 39.4 3.0 85 73-165 14-110 (112)
68 PF12013 DUF3505: Protein of u 90.2 0.33 7.2E-06 38.5 3.4 85 129-214 10-109 (109)
69 PF13913 zf-C2HC_2: zinc-finge 90.0 0.25 5.4E-06 28.4 1.8 19 160-179 4-22 (25)
70 KOG2893|consensus 89.1 0.1 2.2E-06 46.7 -0.4 44 47-94 11-54 (341)
71 smart00451 ZnF_U1 U1-like zinc 88.8 0.34 7.4E-06 29.8 2.0 22 46-67 3-24 (35)
72 COG4049 Uncharacterized protei 88.5 0.27 5.9E-06 33.8 1.5 31 185-215 13-43 (65)
73 cd00350 rubredoxin_like Rubred 86.0 0.37 7.9E-06 29.7 0.9 11 47-57 2-12 (33)
74 PF09986 DUF2225: Uncharacteri 84.2 0.18 3.8E-06 45.3 -1.6 46 157-202 4-61 (214)
75 PF12013 DUF3505: Protein of u 83.8 1.7 3.7E-05 34.4 4.1 24 159-182 81-108 (109)
76 PF09538 FYDLN_acid: Protein o 83.7 0.54 1.2E-05 37.4 1.1 30 159-202 10-39 (108)
77 KOG2186|consensus 81.3 0.87 1.9E-05 41.3 1.7 47 47-96 4-50 (276)
78 PF09538 FYDLN_acid: Protein o 81.2 0.88 1.9E-05 36.2 1.5 30 47-87 10-39 (108)
79 COG4049 Uncharacterized protei 81.1 0.83 1.8E-05 31.5 1.1 32 40-71 11-42 (65)
80 PRK04023 DNA polymerase II lar 79.7 2.3 4.9E-05 46.0 4.3 24 44-83 624-647 (1121)
81 PF02892 zf-BED: BED zinc fing 78.4 1.6 3.5E-05 28.5 1.9 27 187-213 14-44 (45)
82 PF13719 zinc_ribbon_5: zinc-r 78.4 1.6 3.4E-05 27.6 1.7 34 47-85 3-36 (37)
83 TIGR02098 MJ0042_CXXC MJ0042 f 77.6 1.7 3.7E-05 27.4 1.7 33 47-84 3-35 (38)
84 PRK04023 DNA polymerase II lar 77.0 2.1 4.5E-05 46.2 3.1 22 74-111 626-647 (1121)
85 PRK00464 nrdR transcriptional 76.1 0.6 1.3E-05 39.6 -0.9 20 190-209 29-48 (154)
86 PF13717 zinc_ribbon_4: zinc-r 75.5 2.4 5.3E-05 26.6 2.0 33 47-84 3-35 (36)
87 smart00531 TFIIE Transcription 75.5 1.7 3.6E-05 36.6 1.6 38 155-199 96-133 (147)
88 KOG2807|consensus 74.6 3.7 8E-05 38.7 3.7 26 156-181 343-368 (378)
89 PF09986 DUF2225: Uncharacteri 74.6 0.5 1.1E-05 42.4 -1.9 21 45-65 4-24 (214)
90 TIGR02300 FYDLN_acid conserved 73.1 1.7 3.8E-05 35.3 1.1 30 159-202 10-39 (129)
91 COG1198 PriA Primosomal protei 71.6 2 4.3E-05 45.4 1.4 12 187-198 473-484 (730)
92 smart00531 TFIIE Transcription 71.0 7 0.00015 32.8 4.4 37 72-112 97-133 (147)
93 PF10571 UPF0547: Uncharacteri 70.8 2.1 4.6E-05 24.9 0.8 9 160-168 16-24 (26)
94 smart00659 RPOLCX RNA polymera 70.8 2.7 5.9E-05 27.7 1.4 11 47-57 3-13 (44)
95 TIGR00373 conserved hypothetic 70.1 5.3 0.00012 34.0 3.5 15 75-89 110-124 (158)
96 PF04959 ARS2: Arsenite-resist 69.4 4.8 0.0001 36.1 3.2 30 185-214 73-102 (214)
97 TIGR00373 conserved hypothetic 68.4 6.5 0.00014 33.5 3.7 42 90-140 97-138 (158)
98 COG5151 SSL1 RNA polymerase II 68.4 2.6 5.7E-05 39.4 1.3 48 132-181 364-411 (421)
99 cd00729 rubredoxin_SM Rubredox 68.1 2.5 5.4E-05 26.2 0.8 11 47-57 3-13 (34)
100 TIGR02300 FYDLN_acid conserved 67.7 3.2 7E-05 33.8 1.6 30 47-87 10-39 (129)
101 PF05443 ROS_MUCR: ROS/MUCR tr 67.7 3.5 7.6E-05 34.0 1.8 26 189-217 72-97 (132)
102 COG2888 Predicted Zn-ribbon RN 67.3 3.5 7.6E-05 28.9 1.4 7 190-196 51-57 (61)
103 KOG4167|consensus 67.2 3.6 7.9E-05 42.8 2.1 29 43-71 789-817 (907)
104 TIGR02605 CxxC_CxxC_SSSS putat 65.7 1.4 3E-05 29.8 -0.8 12 47-58 6-17 (52)
105 KOG2807|consensus 65.6 7.7 0.00017 36.7 3.8 24 189-212 345-368 (378)
106 COG1198 PriA Primosomal protei 65.4 3.6 7.8E-05 43.6 1.8 10 47-56 436-445 (730)
107 PRK06266 transcription initiat 64.8 6.5 0.00014 34.2 3.0 13 103-115 118-130 (178)
108 smart00834 CxxC_CXXC_SSSS Puta 64.7 1.5 3.2E-05 28.0 -0.8 12 47-58 6-17 (41)
109 PRK00464 nrdR transcriptional 64.2 1.1 2.4E-05 38.0 -1.8 15 75-89 29-43 (154)
110 PRK06266 transcription initiat 63.4 8 0.00017 33.6 3.3 34 71-113 114-147 (178)
111 KOG2186|consensus 63.0 4.7 0.0001 36.7 1.8 47 74-123 3-49 (276)
112 PRK14890 putative Zn-ribbon RN 62.8 4.2 9.1E-05 28.5 1.2 7 190-196 49-55 (59)
113 COG1997 RPL43A Ribosomal prote 62.3 3.9 8.4E-05 31.0 1.0 12 189-200 53-64 (89)
114 COG1592 Rubrerythrin [Energy p 61.8 4.8 0.0001 34.6 1.6 10 128-137 147-156 (166)
115 PRK00398 rpoP DNA-directed RNA 61.6 2.4 5.2E-05 28.0 -0.2 12 47-58 4-15 (46)
116 smart00734 ZnF_Rad18 Rad18-lik 61.5 6.5 0.00014 22.7 1.7 21 190-211 2-22 (26)
117 PF05443 ROS_MUCR: ROS/MUCR tr 60.7 6.5 0.00014 32.5 2.1 27 44-73 70-96 (132)
118 COG1592 Rubrerythrin [Energy p 59.6 5.4 0.00012 34.2 1.5 11 155-165 146-156 (166)
119 PF14353 CpXC: CpXC protein 59.2 6.9 0.00015 31.8 2.1 20 189-208 38-57 (128)
120 smart00614 ZnF_BED BED zinc fi 59.2 7.1 0.00015 26.2 1.8 26 189-214 18-48 (50)
121 COG4957 Predicted transcriptio 57.7 4.8 0.0001 33.1 0.9 25 45-72 75-99 (148)
122 PRK14714 DNA polymerase II lar 57.7 14 0.0003 41.2 4.6 10 46-55 667-676 (1337)
123 KOG2593|consensus 56.5 10 0.00022 37.2 3.1 37 155-197 125-161 (436)
124 PF09723 Zn-ribbon_8: Zinc rib 56.2 2.7 5.9E-05 27.3 -0.7 12 47-58 6-17 (42)
125 PF04959 ARS2: Arsenite-resist 54.9 4.3 9.2E-05 36.4 0.1 32 41-72 72-103 (214)
126 COG1996 RPC10 DNA-directed RNA 52.3 8.1 0.00018 26.1 1.1 10 47-56 7-16 (49)
127 COG0068 HypF Hydrogenase matur 51.5 2 4.2E-05 44.8 -2.8 28 133-166 154-181 (750)
128 PF15135 UPF0515: Uncharacteri 51.0 10 0.00022 34.5 1.9 74 58-144 91-169 (278)
129 PF02176 zf-TRAF: TRAF-type zi 50.5 6.7 0.00015 27.1 0.6 39 46-85 9-53 (60)
130 PRK14873 primosome assembly pr 49.5 11 0.00023 39.8 2.1 8 48-55 385-392 (665)
131 PF12760 Zn_Tnp_IS1595: Transp 47.7 15 0.00032 24.2 1.9 10 188-197 36-45 (46)
132 PF03604 DNA_RNApol_7kD: DNA d 47.4 12 0.00026 22.9 1.2 9 48-56 2-10 (32)
133 COG4530 Uncharacterized protei 47.4 8.1 0.00018 30.6 0.6 27 160-200 11-37 (129)
134 COG5151 SSL1 RNA polymerase II 47.3 11 0.00023 35.5 1.5 50 159-213 363-412 (421)
135 PRK14714 DNA polymerase II lar 46.0 26 0.00057 39.2 4.4 63 189-256 692-754 (1337)
136 COG4957 Predicted transcriptio 45.6 14 0.00031 30.4 1.8 26 190-218 77-102 (148)
137 PRK09678 DNA-binding transcrip 45.3 4.3 9.4E-05 29.8 -1.1 8 48-55 3-10 (72)
138 TIGR00595 priA primosomal prot 44.9 13 0.00029 37.7 2.0 9 102-110 253-261 (505)
139 KOG2593|consensus 44.6 22 0.00047 35.1 3.2 39 70-111 124-162 (436)
140 PF03833 PolC_DP2: DNA polymer 44.6 7.3 0.00016 41.5 0.0 11 45-55 654-664 (900)
141 PF06524 NOA36: NOA36 protein; 44.5 8.4 0.00018 35.3 0.4 90 97-209 137-229 (314)
142 KOG0782|consensus 43.1 8.2 0.00018 39.2 0.1 58 143-208 238-296 (1004)
143 PF08209 Sgf11: Sgf11 (transcr 42.1 18 0.00038 22.3 1.4 28 189-217 4-31 (33)
144 KOG3408|consensus 42.0 34 0.00073 27.7 3.3 27 42-68 53-79 (129)
145 PHA00626 hypothetical protein 41.7 13 0.00029 25.7 0.9 16 187-202 21-36 (59)
146 COG1571 Predicted DNA-binding 41.2 11 0.00024 37.1 0.7 29 160-202 352-380 (421)
147 PF06524 NOA36: NOA36 protein; 40.7 7 0.00015 35.8 -0.7 26 156-181 207-232 (314)
148 smart00661 RPOL9 RNA polymeras 39.6 18 0.00039 24.1 1.3 12 189-200 20-31 (52)
149 PF15269 zf-C2H2_7: Zinc-finge 39.2 36 0.00078 22.5 2.6 23 46-68 20-42 (54)
150 COG0068 HypF Hydrogenase matur 38.5 1.9 4E-05 44.9 -5.3 56 132-197 125-181 (750)
151 TIGR00244 transcriptional regu 37.5 7.3 0.00016 32.7 -1.1 16 159-174 29-44 (147)
152 KOG1280|consensus 37.4 28 0.0006 33.3 2.6 25 158-182 79-103 (381)
153 COG3357 Predicted transcriptio 37.1 17 0.00038 27.8 1.0 10 132-141 60-69 (97)
154 PF07754 DUF1610: Domain of un 36.8 22 0.00048 20.2 1.2 10 188-197 15-24 (24)
155 PF13878 zf-C2H2_3: zinc-finge 36.2 34 0.00073 22.0 2.1 24 190-213 14-39 (41)
156 PRK03824 hypA hydrogenase nick 36.1 14 0.00029 30.6 0.3 11 47-57 71-81 (135)
157 KOG4167|consensus 35.9 11 0.00025 39.3 -0.2 28 189-216 792-819 (907)
158 PF08274 PhnA_Zn_Ribbon: PhnA 35.8 14 0.00031 22.2 0.3 9 74-82 19-27 (30)
159 PF07975 C1_4: TFIIH C1-like d 35.7 5.7 0.00012 27.1 -1.6 20 158-177 21-40 (51)
160 PF05290 Baculo_IE-1: Baculovi 35.3 23 0.00049 29.2 1.5 56 127-203 77-135 (140)
161 PF09845 DUF2072: Zn-ribbon co 35.1 19 0.00041 29.6 1.0 15 74-88 1-15 (131)
162 PTZ00255 60S ribosomal protein 35.0 18 0.00038 27.8 0.8 12 189-200 54-65 (90)
163 KOG4124|consensus 34.8 5.6 0.00012 37.9 -2.3 56 156-211 347-420 (442)
164 PF01363 FYVE: FYVE zinc finge 34.3 24 0.00053 25.1 1.4 10 160-169 11-20 (69)
165 PRK05580 primosome assembly pr 34.2 26 0.00057 37.1 2.2 9 102-110 421-429 (679)
166 PF04216 FdhE: Protein involve 33.8 4 8.7E-05 38.3 -3.6 77 103-200 173-249 (290)
167 TIGR01206 lysW lysine biosynth 33.7 17 0.00037 25.1 0.5 30 159-199 3-32 (54)
168 TIGR00280 L37a ribosomal prote 33.5 17 0.00036 27.9 0.4 12 189-200 53-64 (91)
169 PF07282 OrfB_Zn_ribbon: Putat 33.5 35 0.00075 24.3 2.1 30 160-202 30-59 (69)
170 PRK14559 putative protein seri 33.4 41 0.00089 35.4 3.4 8 48-55 3-10 (645)
171 KOG2907|consensus 33.4 24 0.00052 28.1 1.3 13 189-201 102-114 (116)
172 COG1327 Predicted transcriptio 33.1 10 0.00022 31.9 -0.9 15 159-173 29-43 (156)
173 PRK14873 primosome assembly pr 32.6 12 0.00025 39.6 -0.8 6 104-109 385-390 (665)
174 COG1655 Uncharacterized protei 32.6 11 0.00024 33.9 -0.8 19 156-174 17-35 (267)
175 PF13240 zinc_ribbon_2: zinc-r 32.1 18 0.00039 20.2 0.3 6 161-166 16-21 (23)
176 PF13451 zf-trcl: Probable zin 32.0 35 0.00075 23.1 1.7 7 158-164 33-39 (49)
177 PF15135 UPF0515: Uncharacteri 31.8 38 0.00081 31.0 2.4 73 86-171 91-168 (278)
178 KOG4377|consensus 30.7 14 0.00029 36.1 -0.6 26 190-215 402-429 (480)
179 PRK14559 putative protein seri 30.6 50 0.0011 34.7 3.5 12 160-171 43-54 (645)
180 PF04780 DUF629: Protein of un 30.6 38 0.00082 34.0 2.5 28 189-216 57-84 (466)
181 PF12907 zf-met2: Zinc-binding 30.4 33 0.0007 22.2 1.3 27 190-216 2-31 (40)
182 PRK12380 hydrogenase nickel in 30.3 23 0.00049 28.3 0.7 26 45-82 69-94 (113)
183 KOG1842|consensus 30.3 29 0.00063 34.3 1.6 31 188-218 14-44 (505)
184 PTZ00303 phosphatidylinositol 30.0 22 0.00047 37.7 0.7 13 131-143 461-473 (1374)
185 PF14446 Prok-RING_1: Prokaryo 29.3 37 0.00081 23.4 1.5 26 47-84 6-31 (54)
186 PF01780 Ribosomal_L37ae: Ribo 29.2 11 0.00024 28.9 -1.2 12 189-200 53-64 (90)
187 PF13453 zf-TFIIB: Transcripti 28.9 28 0.0006 22.2 0.8 14 104-117 21-34 (41)
188 KOG1280|consensus 28.5 61 0.0013 31.1 3.3 28 45-72 78-105 (381)
189 COG3091 SprT Zn-dependent meta 27.8 31 0.00068 29.1 1.2 33 45-82 116-148 (156)
190 PRK00432 30S ribosomal protein 27.8 33 0.00071 23.2 1.1 11 189-199 37-47 (50)
191 KOG2907|consensus 27.4 29 0.00062 27.7 0.8 40 47-86 75-114 (116)
192 PRK03976 rpl37ae 50S ribosomal 27.4 24 0.00052 27.1 0.4 12 189-200 54-65 (90)
193 COG4888 Uncharacterized Zn rib 27.2 22 0.00047 27.8 0.1 39 43-85 19-57 (104)
194 TIGR00100 hypA hydrogenase nic 27.0 26 0.00056 28.1 0.5 27 45-83 69-95 (115)
195 COG3364 Zn-ribbon containing p 26.6 39 0.00085 26.5 1.4 12 75-86 3-14 (112)
196 PRK03564 formate dehydrogenase 25.4 31 0.00068 32.7 0.8 79 101-201 186-264 (309)
197 TIGR00595 priA primosomal prot 24.7 21 0.00046 36.3 -0.5 12 128-139 238-249 (505)
198 KOG2272|consensus 24.5 42 0.00091 30.7 1.4 126 47-176 100-239 (332)
199 KOG3408|consensus 24.4 51 0.0011 26.7 1.7 27 188-214 56-82 (129)
200 KOG4377|consensus 24.4 39 0.00085 33.1 1.3 18 80-97 279-296 (480)
201 PF08271 TF_Zn_Ribbon: TFIIB z 24.1 31 0.00067 22.2 0.4 9 75-83 20-28 (43)
202 PRK03681 hypA hydrogenase nick 23.7 46 0.001 26.6 1.4 14 45-58 69-82 (114)
203 smart00154 ZnF_AN1 AN1-like Zi 23.6 38 0.00083 21.5 0.7 13 189-201 12-24 (39)
204 COG1571 Predicted DNA-binding 23.0 44 0.00095 33.0 1.4 13 74-86 367-379 (421)
205 PF03811 Zn_Tnp_IS1: InsA N-te 22.8 14 0.0003 23.3 -1.4 8 188-195 28-35 (36)
206 PRK12496 hypothetical protein; 22.1 44 0.00095 28.6 1.0 12 130-141 127-138 (164)
207 PF05495 zf-CHY: CHY zinc fing 21.9 17 0.00037 26.4 -1.3 12 47-58 11-22 (71)
208 PF13821 DUF4187: Domain of un 21.7 95 0.0021 21.4 2.5 18 190-207 28-45 (55)
209 PRK00564 hypA hydrogenase nick 21.5 39 0.00084 27.2 0.6 14 45-58 70-83 (117)
210 PF04606 Ogr_Delta: Ogr/Delta- 21.0 24 0.00052 23.4 -0.6 37 160-201 1-39 (47)
211 TIGR00686 phnA alkylphosphonat 21.0 44 0.00094 26.5 0.7 30 160-203 4-33 (109)
212 PF08790 zf-LYAR: LYAR-type C2 20.9 21 0.00046 21.1 -0.8 18 190-208 1-18 (28)
213 KOG0320|consensus 20.9 82 0.0018 27.4 2.4 19 42-60 127-145 (187)
214 PF05191 ADK_lid: Adenylate ki 20.9 27 0.00058 21.9 -0.4 8 77-84 4-11 (36)
215 PRK10220 hypothetical protein; 20.8 55 0.0012 26.0 1.2 30 160-203 5-34 (111)
216 PF04423 Rad50_zn_hook: Rad50 20.5 40 0.00086 22.9 0.4 12 191-202 22-33 (54)
217 cd00924 Cyt_c_Oxidase_Vb Cytoc 20.4 47 0.001 25.9 0.8 14 187-200 77-90 (97)
218 PF01428 zf-AN1: AN1-like Zinc 20.4 40 0.00087 21.8 0.4 14 188-201 12-25 (43)
219 PF01155 HypA: Hydrogenase exp 20.2 41 0.0009 26.8 0.5 27 45-83 69-95 (113)
220 PLN02294 cytochrome c oxidase 20.2 48 0.001 28.5 0.9 16 186-201 138-153 (174)
221 COG2331 Uncharacterized protei 20.2 44 0.00095 24.7 0.5 9 47-55 13-21 (82)
No 1
>KOG2462|consensus
Probab=99.93 E-value=1.3e-26 Score=207.04 Aligned_cols=132 Identities=27% Similarity=0.527 Sum_probs=66.2
Q ss_pred eeccccccccCCHHHHHHHHHhcCC---CCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHH
Q psy4572 75 FPCTVCLKMFKTKAQREEHIASHVT---DSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNI 151 (345)
Q Consensus 75 ~~C~~C~k~F~~~~~L~~H~~~h~~---~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~ 151 (345)
|+|+.||+.+.+..+|.+|.++|.. .+.+.|+.|++.+.+...|+.|+++|. -+++|.+|||.|....-|+.|+|
T Consensus 131 ~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiR 208 (279)
T KOG2462|consen 131 YKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIR 208 (279)
T ss_pred eeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccc
Confidence 4444444444444444444444421 234455555555555555555555543 34455555555555555555555
Q ss_pred HhcCCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHH
Q psy4572 152 AKHGAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 152 ~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
+|+|||||.|+.|+|.|.++++|+.|+++|. +.|+|+|+.|+|.|..++.|.+|...
T Consensus 209 THTGEKPF~C~hC~kAFADRSNLRAHmQTHS---~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 209 THTGEKPFSCPHCGKAFADRSNLRAHMQTHS---DVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccCCCCccCCcccchhcchHHHHHHHHhhc---CCccccCcchhhHHHHHHHHHHhhhh
Confidence 5555555555555555555555555555554 33345555555555555555555443
No 2
>KOG2462|consensus
Probab=99.93 E-value=1.1e-26 Score=207.64 Aligned_cols=137 Identities=27% Similarity=0.505 Sum_probs=129.2
Q ss_pred CCCceeccccccccCCHHHHHHHHHHcCC---CCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHH
Q psy4572 43 LDGPHKCEHCEKEFENRRALKRHEKNHTQ---EKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLR 119 (345)
Q Consensus 43 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~---~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~ 119 (345)
....|+|+.||+.+.+.+.|.+|.++|-. .+.+.|+.|++.|.+...|+.|+++|. -+++|.+||+.|.+.+-|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhh
Confidence 34569999999999999999999999853 467999999999999999999999986 5799999999999999999
Q ss_pred HHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhh
Q psy4572 120 YHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKH 181 (345)
Q Consensus 120 ~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H 181 (345)
.|+|+|+||+||.|+.|++.|.++++|+.|+++|.+.|+|+|+.|+|+|..++-|.+|...-
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~ 266 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESA 266 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999998753
No 3
>KOG3608|consensus
Probab=99.84 E-value=2.3e-21 Score=177.66 Aligned_cols=182 Identities=21% Similarity=0.429 Sum_probs=131.3
Q ss_pred cccccccCCCCCCCceeccccccccCCHHHHHHHHHHcC--CCCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCc
Q psy4572 32 KKRSRKSTPQKLDGPHKCEHCEKEFENRRALKRHEKNHT--QEKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCP 109 (345)
Q Consensus 32 ~~~~~~~~~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~--~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~ 109 (345)
.++.++...+.+++...|+.||..|.++..|-.|.+..+ ...+|.|..|.+.|.+...|..|+..|.. .|+|+.|+
T Consensus 193 ~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCd 270 (467)
T KOG3608|consen 193 YRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCD 270 (467)
T ss_pred HHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccc
Confidence 344555566666666666666666666666666655433 33466777777777777777777666643 37777777
Q ss_pred ccccCHHHHHHHHHH-hcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcc--hhhccCCHHHHHHHHhhhCCCCc
Q psy4572 110 YVAKRIKYLRYHMKK-HRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCET--CRKLFLSKYSLFTHNKKHLPIEE 186 (345)
Q Consensus 110 ~~f~~~~~L~~H~~~-h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~--Cgk~F~s~s~L~~H~~~H~~~~~ 186 (345)
-+....+.|..|++. |...+||+|+.|++.|.+..+|.+|...|. +..|+|+. |..+|.+...+++|++.++....
T Consensus 271 mtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~n 349 (467)
T KOG3608|consen 271 MTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNN 349 (467)
T ss_pred cCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCC
Confidence 777777777777663 566778888888888888888888877655 66788876 88888888888888887776556
Q ss_pred CceeecCccccccCCHHHHHHHHHHhcCCC
Q psy4572 187 RLHYQCELCGKSFNNKQTFSLSNMYVLSLS 216 (345)
Q Consensus 187 ~k~y~C~~Cgk~F~~~~~L~~H~~~~H~~~ 216 (345)
..+|.|..|++.|++-.+|.+|++..|++.
T Consensus 350 p~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 350 PILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred CCceeeecchhhhccchhHHHHHHHhhccc
Confidence 677888888888888888888888888753
No 4
>KOG1074|consensus
Probab=99.82 E-value=2.9e-21 Score=193.35 Aligned_cols=171 Identities=23% Similarity=0.465 Sum_probs=148.6
Q ss_pred CCCCceeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhcCCC----CCccCC---CCcccccC
Q psy4572 42 KLDGPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASHVTD----SEFKCD---QCPYVAKR 114 (345)
Q Consensus 42 ~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~----k~~~C~---~C~~~f~~ 114 (345)
+...+-+|-+|.++...++.|+.|.++|+|++||+|.+||+.|+++++|+.|+..|... -.|.|+ +|.+.|..
T Consensus 601 ~~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn 680 (958)
T KOG1074|consen 601 KRTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTN 680 (958)
T ss_pred ccCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccc
Confidence 33467899999999999999999999999999999999999999999999999988654 348899 99999999
Q ss_pred HHHHHHHHHHhcCC-C------------ccccCCCCCCcCCHHHHHHHHHHhcCC-------------------------
Q psy4572 115 IKYLRYHMKKHRKE-Y------------SAYCEPCQEGFFSRDKLETHNIAKHGA------------------------- 156 (345)
Q Consensus 115 ~~~L~~H~~~h~~~-~------------~~~C~~C~k~F~~~~~l~~H~~~hh~~------------------------- 156 (345)
.-.+.+|++.|.+. . .-+|..|.+.|.....+..++..|.+.
T Consensus 681 ~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e 760 (958)
T KOG1074|consen 681 AVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPE 760 (958)
T ss_pred cccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccc
Confidence 99999999998632 1 135889999998887777776665210
Q ss_pred --------------------------------------------------------------------------------
Q psy4572 157 -------------------------------------------------------------------------------- 156 (345)
Q Consensus 157 -------------------------------------------------------------------------------- 156 (345)
T Consensus 761 ~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg 840 (958)
T KOG1074|consen 761 NSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEG 840 (958)
T ss_pred cccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccc
Confidence
Q ss_pred -------------------------------------CCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCcccccc
Q psy4572 157 -------------------------------------QPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSF 199 (345)
Q Consensus 157 -------------------------------------k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F 199 (345)
....|..||+.|.+.+.|+.|+++|+ ++|||.|..|++.|
T Consensus 841 ~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHt---g~KPF~C~fC~~aF 917 (958)
T KOG1074|consen 841 LATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHT---GPKPFFCHFCEEAF 917 (958)
T ss_pred cccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCC---CCCCccchhhhhhh
Confidence 00679999999999999999999998 88899999999999
Q ss_pred CCHHHHHHHHHHhcCC
Q psy4572 200 NNKQTFSLSNMYVLSL 215 (345)
Q Consensus 200 ~~~~~L~~H~~~~H~~ 215 (345)
..+.+|+.||.+|+..
T Consensus 918 ttrgnLKvHMgtH~w~ 933 (958)
T KOG1074|consen 918 TTRGNLKVHMGTHMWV 933 (958)
T ss_pred hhhhhhhhhhcccccc
Confidence 9999999999988764
No 5
>KOG3608|consensus
Probab=99.81 E-value=6e-20 Score=168.41 Aligned_cols=179 Identities=25% Similarity=0.477 Sum_probs=158.0
Q ss_pred eec--cccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhcC--CCCCccCCCCcccccCHHHHHHHH
Q psy4572 47 HKC--EHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASHV--TDSEFKCDQCPYVAKRIKYLRYHM 122 (345)
Q Consensus 47 ~~C--~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~--~~k~~~C~~C~~~f~~~~~L~~H~ 122 (345)
+.| .-|-+.|.++..|+.|.+.|+++|...|+.||.-|.++..|-.|.+..+ ...+|.|..|.+.|.+...|..|+
T Consensus 178 ~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv 257 (467)
T KOG3608|consen 178 TMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHV 257 (467)
T ss_pred eeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHH
Confidence 556 4699999999999999999999999999999999999999999997643 456899999999999999999999
Q ss_pred HHhcCCCccccCCCCCCcCCHHHHHHHHHHhc-CCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCc--ccccc
Q psy4572 123 KKHRKEYSAYCEPCQEGFFSRDKLETHNIAKH-GAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCEL--CGKSF 199 (345)
Q Consensus 123 ~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh-~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~--Cgk~F 199 (345)
..|- ..|+|+.|+.+...+++|.+|++..| ..+||+|+.|.+.|.+.+.|.+|...|. +..|+|+. |..+|
T Consensus 258 ~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS----~~~y~C~h~~C~~s~ 331 (467)
T KOG3608|consen 258 VRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS----KTVYQCEHPDCHYSV 331 (467)
T ss_pred HHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc----ccceecCCCCCcHHH
Confidence 9886 46899999999999999999998755 6899999999999999999999999885 45699988 99999
Q ss_pred CCHHHHHHHHHHhcCCCCcccccccceeeechhhHHHH
Q psy4572 200 NNKQTFSLSNMYVLSLSNMYVLSSSNMYVLSLSNMYVL 237 (345)
Q Consensus 200 ~~~~~L~~H~~~~H~~~~~~~~s~~~~~~~~l~~~~~~ 237 (345)
.+...+++|++.+|...+ ...|.|-++|++..
T Consensus 332 r~~~q~~~H~~evhEg~n------p~~Y~CH~Cdr~ft 363 (467)
T KOG3608|consen 332 RTYTQMRRHFLEVHEGNN------PILYACHCCDRFFT 363 (467)
T ss_pred HHHHHHHHHHHHhccCCC------CCceeeecchhhhc
Confidence 999999999999994322 23566777776653
No 6
>KOG1074|consensus
Probab=99.78 E-value=4.6e-20 Score=184.79 Aligned_cols=53 Identities=40% Similarity=0.710 Sum_probs=50.6
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhc
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASH 97 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h 97 (345)
.+++|.+|.+.|...+.|+.|.|.|+|++||+|.+||..|.++.+|+.|...|
T Consensus 352 ~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH 404 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRH 404 (958)
T ss_pred ccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeec
Confidence 45889999999999999999999999999999999999999999999998877
No 7
>KOG3576|consensus
Probab=99.67 E-value=2.9e-17 Score=140.57 Aligned_cols=120 Identities=27% Similarity=0.471 Sum_probs=103.9
Q ss_pred CCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHh
Q psy4572 100 DSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNK 179 (345)
Q Consensus 100 ~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~ 179 (345)
...|.|..|++.|.-...|.+|++-|...+.+-|..||+.|.+..+|++|.++|+|.+||+|..|+|.|+.+-.|..|.+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 44588888888888888888898888888888899999999999999999999999999999999999999999999988
Q ss_pred hhCCC--------CcCceeecCccccccCCHHHHHHHHHHhcCCCCcc
Q psy4572 180 KHLPI--------EERLHYQCELCGKSFNNKQTFSLSNMYVLSLSNMY 219 (345)
Q Consensus 180 ~H~~~--------~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~~~ 219 (345)
..|+. +..|.|.|+.||..-...+....|++.||..+.-+
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spal 242 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPAL 242 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHHH
Confidence 76654 24567999999999999999999999999866543
No 8
>KOG3576|consensus
Probab=99.64 E-value=2.5e-16 Score=134.92 Aligned_cols=123 Identities=28% Similarity=0.435 Sum_probs=90.4
Q ss_pred CCceeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHH
Q psy4572 44 DGPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMK 123 (345)
Q Consensus 44 ~~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~ 123 (345)
...|.|.+|++.|.-...|.+|++-|...+.+-|..||+.|....+|++|+++|+|.+||+|..|++.|..+-.|..|.+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 34588888888888888888888888888888888888888888888888888888888888888888888888888876
Q ss_pred HhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhCC
Q psy4572 124 KHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHLP 183 (345)
Q Consensus 124 ~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ 183 (345)
.-++... ...+ ....++-|.|+.||.+-.....+..|++.||+
T Consensus 195 kvhgv~~------------~yay-----kerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 195 KVHGVQH------------QYAY-----KERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HHcCchH------------HHHH-----HHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 5443210 0000 01124556666666666666666666666663
No 9
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.45 E-value=3.2e-13 Score=134.66 Aligned_cols=149 Identities=17% Similarity=0.397 Sum_probs=119.6
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceeccc--cccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHH
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTV--CLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHM 122 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~--C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~ 122 (345)
..-.|+.|...... ..|..|.... ......|+. |+..|.. ..+..| +.|+.|++.|. ...+..|+
T Consensus 406 ~~V~C~NC~~~i~l-~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~r-~el~~H---------~~C~~Cgk~f~-~s~LekH~ 472 (567)
T PLN03086 406 DTVECRNCKHYIPS-RSIALHEAYC-SRHNVVCPHDGCGIVLRV-EEAKNH---------VHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred CeEECCCCCCccch-hHHHHHHhhC-CCcceeCCcccccceeec-cccccC---------ccCCCCCCccc-hHHHHHHH
Confidence 34689999987655 5567887554 334567985 9998833 333433 58999999996 67899999
Q ss_pred HHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCC----------HHHHHHHHhhhCCCCcCceeec
Q psy4572 123 KKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLS----------KYSLFTHNKKHLPIEERLHYQC 192 (345)
Q Consensus 123 ~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s----------~s~L~~H~~~H~~~~~~k~y~C 192 (345)
+.|+ +++.|+ |++.+ .+..|..|...|.+.+++.|+.|++.|.. ...|..|...+ +.+++.|
T Consensus 473 ~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C----G~rt~~C 544 (567)
T PLN03086 473 KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC----GSRTAPC 544 (567)
T ss_pred HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc----CCcceEc
Confidence 9985 789999 99765 67899999999999999999999999952 45788888885 6779999
Q ss_pred CccccccCCHHHHHHHHHHhcCC
Q psy4572 193 ELCGKSFNNKQTFSLSNMYVLSL 215 (345)
Q Consensus 193 ~~Cgk~F~~~~~L~~H~~~~H~~ 215 (345)
..||+.|..+ .+..|+..+|.+
T Consensus 545 ~~Cgk~Vrlr-dm~~H~~~~h~~ 566 (567)
T PLN03086 545 DSCGRSVMLK-EMDIHQIAVHQK 566 (567)
T ss_pred cccCCeeeeh-hHHHHHHHhhcC
Confidence 9999999865 799999999975
No 10
>KOG3623|consensus
Probab=99.45 E-value=2e-14 Score=142.55 Aligned_cols=119 Identities=23% Similarity=0.393 Sum_probs=78.1
Q ss_pred eccccccccCCHHHHHHHHHhcC--CCCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHh
Q psy4572 76 PCTVCLKMFKTKAQREEHIASHV--TDSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAK 153 (345)
Q Consensus 76 ~C~~C~k~F~~~~~L~~H~~~h~--~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~h 153 (345)
.|+.|.+.+.....++.|++.-+ .+..|.|..|.++|..+..|.+|+..|....+-. .+.-.-
T Consensus 212 tcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa---------------~sltqs 276 (1007)
T KOG3623|consen 212 TCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA---------------ISLTQS 276 (1007)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc---------------ccccch
Confidence 45555555555555555554322 2233555555555555555555555553211100 111111
Q ss_pred cCCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHh
Q psy4572 154 HGAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYV 212 (345)
Q Consensus 154 h~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~ 212 (345)
..-+.|+|.+|||.|+.+.+|+.|+|+|. |+|||.|+.|+|+|+....+..|+-..
T Consensus 277 a~lRKFKCtECgKAFKfKHHLKEHlRIHS---GEKPfeCpnCkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 277 ALLRKFKCTECGKAFKFKHHLKEHLRIHS---GEKPFECPNCKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred hhhccccccccchhhhhHHHHHhhheeec---CCCCcCCcccccccccCCccccccccc
Confidence 23467999999999999999999999998 889999999999999999999998543
No 11
>KOG3623|consensus
Probab=99.43 E-value=6.1e-14 Score=139.16 Aligned_cols=112 Identities=26% Similarity=0.513 Sum_probs=93.8
Q ss_pred CCCCCCceeccccccccCCHHHHHHHHHHcCC--CCceeccccccccCCHHHHHHHHHhcCC-------------CCCcc
Q psy4572 40 PQKLDGPHKCEHCEKEFENRRALKRHEKNHTQ--EKTFPCTVCLKMFKTKAQREEHIASHVT-------------DSEFK 104 (345)
Q Consensus 40 ~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~--~k~~~C~~C~k~F~~~~~L~~H~~~h~~-------------~k~~~ 104 (345)
+........|+.|++.+.....|+.|++..+. +..|.|..|..+|..+..|.+|+..|.. .+.|+
T Consensus 204 pdAfsqlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFK 283 (1007)
T KOG3623|consen 204 PDAFSQLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFK 283 (1007)
T ss_pred cchhhhhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhcccc
Confidence 33334557899999999999999999887543 4559999999999999999999998843 35588
Q ss_pred CCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHH
Q psy4572 105 CDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNI 151 (345)
Q Consensus 105 C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~ 151 (345)
|..||+.|..+-.|+.|+|+|.|++||.|+.|+|+|.....+..|+.
T Consensus 284 CtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 284 CTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred ccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 88888888888888888888888888888888888888888887764
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.16 E-value=4.5e-11 Score=119.45 Aligned_cols=119 Identities=18% Similarity=0.374 Sum_probs=97.5
Q ss_pred eeccc--cccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHHH
Q psy4572 47 HKCEH--CEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMKK 124 (345)
Q Consensus 47 ~~C~~--C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~ 124 (345)
-.|+. |+..|. +..+..| +.|+.|++.|. ...+..|+..|+ +++.|+ ||+.+ ....|..|+..
T Consensus 434 V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~t 498 (567)
T PLN03086 434 VVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQAS 498 (567)
T ss_pred eeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhc
Confidence 46874 999883 3334443 68999999996 678999999986 789999 99765 66899999999
Q ss_pred hcCCCccccCCCCCCcCC----------HHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhC
Q psy4572 125 HRKEYSAYCEPCQEGFFS----------RDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 125 h~~~~~~~C~~C~k~F~~----------~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
|.+++++.|+.|++.|.. ...|..|.... |.+++.|..||+.+..+ .+..|+...|
T Consensus 499 hCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 499 TCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred cCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHhh
Confidence 999999999999999852 35799998884 89999999999998765 5788877665
No 13
>PHA00733 hypothetical protein
Probab=99.11 E-value=6.2e-11 Score=97.56 Aligned_cols=85 Identities=19% Similarity=0.286 Sum_probs=65.7
Q ss_pred CCCccccCCCCCCcCCHHHHHHH--H---HHhcCCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCC
Q psy4572 127 KEYSAYCEPCQEGFFSRDKLETH--N---IAKHGAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNN 201 (345)
Q Consensus 127 ~~~~~~C~~C~k~F~~~~~l~~H--~---~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~ 201 (345)
.++++.|.+|++.|.....+..| . ..+++.+||.|+.||+.|.+...|..|++.|. .+|.|+.|++.|..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~-----~~~~C~~CgK~F~~ 111 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTE-----HSKVCPVCGKEFRN 111 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCC-----cCccCCCCCCccCC
Confidence 45566677776666665554444 1 23345789999999999999999999998752 35899999999999
Q ss_pred HHHHHHHHHHhcCCC
Q psy4572 202 KQTFSLSNMYVLSLS 216 (345)
Q Consensus 202 ~~~L~~H~~~~H~~~ 216 (345)
...|.+|+...|+++
T Consensus 112 ~~sL~~H~~~~h~~~ 126 (128)
T PHA00733 112 TDSTLDHVCKKHNIC 126 (128)
T ss_pred HHHHHHHHHHhcCcc
Confidence 999999999999875
No 14
>KOG3993|consensus
Probab=98.92 E-value=6.5e-11 Score=111.70 Aligned_cols=173 Identities=18% Similarity=0.236 Sum_probs=111.8
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhcCCC------------------------
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASHVTD------------------------ 100 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~------------------------ 100 (345)
+-|.|..|...|.+.-.|.+|.....-...|+|++|+|.|+-..+|..|.+.|...
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 34999999999999999999976544445599999999999999999999988421
Q ss_pred ---------CCccCCCCcccccCHHHHHHHHHHhcCCCc-----------------cccCCCCCCcCCHHHHHHHHHHhc
Q psy4572 101 ---------SEFKCDQCPYVAKRIKYLRYHMKKHRKEYS-----------------AYCEPCQEGFFSRDKLETHNIAKH 154 (345)
Q Consensus 101 ---------k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~-----------------~~C~~C~k~F~~~~~l~~H~~~hh 154 (345)
..|.|..|++.|.+...|+.|+.+|+.... +.|+.|...+...+.-..+...+.
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a 425 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVA 425 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeee
Confidence 125666666666666666666655543110 112222222222111111111110
Q ss_pred C-CCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHhcCCCCccc
Q psy4572 155 G-AQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYVLSLSNMYV 220 (345)
Q Consensus 155 ~-~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~~~~ 220 (345)
+ .....|+.||..+.+...-..|.+.-+ .+..|.|.+|.-.|.....|.+|+...|.-..+++
T Consensus 426 ~sael~~pp~~~~ppsss~~sgg~~rlg~---~~q~f~~ky~~atfyss~~ltrhin~~Hpse~rqv 489 (500)
T KOG3993|consen 426 GSAELELPPYDGSPPSSSGSSGGYGRLGI---AEQGFTCKYCPATFYSSPGLTRHINKCHPSELRQV 489 (500)
T ss_pred ccccccCCCCCCCCcccCCCCCccccccc---hhhccccccchHhhhcCcchHhHhhhcChHHhhhh
Confidence 0 122456777766666655444544333 33459999999999999999999999998655543
No 15
>PHA00733 hypothetical protein
Probab=98.90 E-value=2e-09 Score=88.65 Aligned_cols=53 Identities=25% Similarity=0.280 Sum_probs=27.1
Q ss_pred CCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhC
Q psy4572 128 EYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 128 ~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
+++|.|+.|++.|.+...|..|++.+ +.+|.|+.|++.|.....|..|+...|
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h 123 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKH 123 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhc
Confidence 44455555555555555555554433 234555555555555555555555544
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.65 E-value=9.9e-09 Score=70.67 Aligned_cols=44 Identities=20% Similarity=0.508 Sum_probs=34.2
Q ss_pred CCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHH
Q psy4572 158 PYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFS 206 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~ 206 (345)
-|+|+.||+.|...++|..|+++|+ ++|+|..|++.|.+.+.|.
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 3678888888888888888888875 3688888888887766553
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.56 E-value=2.6e-08 Score=68.63 Aligned_cols=43 Identities=14% Similarity=0.393 Sum_probs=31.1
Q ss_pred ceeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHH
Q psy4572 46 PHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQR 90 (345)
Q Consensus 46 ~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L 90 (345)
.|+|+.||+.|...+.|..|+++|+ ++++|..|++.|.....|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 3677777777777777777777776 467777777777655543
No 18
>KOG3993|consensus
Probab=98.50 E-value=7.9e-09 Score=97.85 Aligned_cols=152 Identities=17% Similarity=0.182 Sum_probs=102.7
Q ss_pred ccccccCCCCCCCceeccccccccCCHHHHHHHHHHcCC---------------------------------CCceeccc
Q psy4572 33 KRSRKSTPQKLDGPHKCEHCEKEFENRRALKRHEKNHTQ---------------------------------EKTFPCTV 79 (345)
Q Consensus 33 ~~~~~~~~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~---------------------------------~k~~~C~~ 79 (345)
.+.+|.-..-..-.|+|++|+|+|....+|..|.|.|.. +..|.|.+
T Consensus 282 ~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~ 361 (500)
T KOG3993|consen 282 ALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHT 361 (500)
T ss_pred HHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHH
Confidence 445555444444569999999999999999999998831 12489999
Q ss_pred cccccCCHHHHHHHHHhcCCCCC-----------------ccCCCCcccccCHHHHHHHHHHhcC-CCccccCCCCCCcC
Q psy4572 80 CLKMFKTKAQREEHIASHVTDSE-----------------FKCDQCPYVAKRIKYLRYHMKKHRK-EYSAYCEPCQEGFF 141 (345)
Q Consensus 80 C~k~F~~~~~L~~H~~~h~~~k~-----------------~~C~~C~~~f~~~~~L~~H~~~h~~-~~~~~C~~C~k~F~ 141 (345)
|++.|.+..-|+.|+.+|+.... +-|+.|...+.....-..+...+.+ .....|+.|+..+.
T Consensus 362 C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~pps 441 (500)
T KOG3993|consen 362 CGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPS 441 (500)
T ss_pred hhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCCCCCcc
Confidence 99999999999999988754211 2233333322222111111111111 11234788887777
Q ss_pred CHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhCCC
Q psy4572 142 SRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHLPI 184 (345)
Q Consensus 142 ~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~ 184 (345)
+...-..|.+.-+.+.-|.|.+|.-+|.+...|.+|+...|..
T Consensus 442 ss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 442 SSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred cCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 6665555555555677899999999999999999999987743
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=98.23 E-value=9e-07 Score=51.96 Aligned_cols=25 Identities=44% Similarity=0.849 Sum_probs=19.2
Q ss_pred HHHHHHHHcCCCCceeccccccccC
Q psy4572 61 ALKRHEKNHTQEKTFPCTVCLKMFK 85 (345)
Q Consensus 61 ~L~~H~~~h~~~k~~~C~~C~k~F~ 85 (345)
+|..|++.|++++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 3677888888888888888887775
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=98.18 E-value=1.3e-06 Score=51.26 Aligned_cols=25 Identities=40% Similarity=0.812 Sum_probs=18.0
Q ss_pred HHHHHHhhhCCCCcCceeecCccccccC
Q psy4572 173 SLFTHNKKHLPIEERLHYQCELCGKSFN 200 (345)
Q Consensus 173 ~L~~H~~~H~~~~~~k~y~C~~Cgk~F~ 200 (345)
+|.+|+++|+ +++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~---~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHT---GEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHS---SSSSEEESSSSEEES
T ss_pred CHHHHhhhcC---CCCCCCCCCCcCeeC
Confidence 3677777776 666777777777775
No 21
>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=98.15 E-value=2.8e-06 Score=59.09 Aligned_cols=53 Identities=19% Similarity=0.310 Sum_probs=41.9
Q ss_pred CCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHhcC
Q psy4572 158 PYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
.|.||.|++ ..+...|..|....|..+ .+.+.||+|...+. .+|.+|+..+|+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~-~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSE-SKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCC-CCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 478999999 556788999988777553 44689999998765 489999998884
No 22
>PHA00616 hypothetical protein
Probab=98.07 E-value=1.8e-06 Score=56.76 Aligned_cols=34 Identities=12% Similarity=0.296 Sum_probs=22.9
Q ss_pred ceeccccccccCCHHHHHHHHHHcCCCCceeccc
Q psy4572 46 PHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTV 79 (345)
Q Consensus 46 ~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~ 79 (345)
||+|+.||+.|...+.+..|++.||+++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4667777777777777777777776666666654
No 23
>PHA00732 hypothetical protein
Probab=98.02 E-value=2.6e-06 Score=64.01 Aligned_cols=44 Identities=18% Similarity=0.515 Sum_probs=28.5
Q ss_pred CCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHH
Q psy4572 158 PYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSN 209 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~ 209 (345)
||.|+.||+.|.+...|+.|++.+|. ++.|+.||+.|. .+..|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~-----~~~C~~CgKsF~---~l~~H~ 44 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT-----LTKCPVCNKSYR---RLNQHF 44 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC-----CCccCCCCCEeC---Chhhhh
Confidence 46677777777777777777764321 246777777776 366666
No 24
>PHA00616 hypothetical protein
Probab=98.00 E-value=3.2e-06 Score=55.55 Aligned_cols=34 Identities=24% Similarity=0.366 Sum_probs=20.4
Q ss_pred CCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCc
Q psy4572 158 PYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCEL 194 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~ 194 (345)
||+|+.||+.|...+.+.+|++.|| +++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h---g~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH---KQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc---CCCccceeE
Confidence 4566666666666666666666666 444555543
No 25
>PHA00732 hypothetical protein
Probab=97.86 E-value=1e-05 Score=60.77 Aligned_cols=48 Identities=21% Similarity=0.286 Sum_probs=31.6
Q ss_pred ccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhC
Q psy4572 130 SAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 130 ~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
||.|+.|++.|.+...++.|++.+|. ++.|+.||+.|. .+..|.+++-
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--CCccCCCCCEeC---ChhhhhcccC
Confidence 45677777777777777777764332 246788887776 4667776553
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.68 E-value=6.4e-05 Score=52.23 Aligned_cols=50 Identities=20% Similarity=0.385 Sum_probs=27.9
Q ss_pred ceeccccccccCCHHHHHHHHHHcCC--CCceeccccccccCCHHHHHHHHHhcC
Q psy4572 46 PHKCEHCEKEFENRRALKRHEKNHTQ--EKTFPCTVCLKMFKTKAQREEHIASHV 98 (345)
Q Consensus 46 ~~~C~~C~k~F~~~~~L~~H~~~h~~--~k~~~C~~C~k~F~~~~~L~~H~~~h~ 98 (345)
.|.||.|++ ..+...|..|....|. .+.+.||+|...+. .+|..|+..+|
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 366677766 3445666666555332 23466666665433 25666665543
No 27
>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=97.64 E-value=4.6e-05 Score=43.06 Aligned_cols=22 Identities=36% Similarity=0.807 Sum_probs=18.2
Q ss_pred eecCccccccCCHHHHHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
|.|+.|++.|.++..|.+|++.
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 6788888888888888888876
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.63 E-value=4.4e-05 Score=59.33 Aligned_cols=79 Identities=23% Similarity=0.366 Sum_probs=23.5
Q ss_pred ccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHH
Q psy4572 132 YCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 132 ~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
+|..|+..|.+...+..|+...|+...- ....+.....+..+.+... ...+.|..|++.|.+...|..|++.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~----~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKV----KESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp --------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred Cccccccccccccccccccccccccccc----ccccccccccccccccccc----CCCCCCCccCCCCcCHHHHHHHHcC
Confidence 3777777777777788887766653211 1122223444444443321 2258999999999999999999988
Q ss_pred hcCCCCc
Q psy4572 212 VLSLSNM 218 (345)
Q Consensus 212 ~H~~~~~ 218 (345)
+++....
T Consensus 73 ~~H~~~~ 79 (100)
T PF12756_consen 73 KHHKKRN 79 (100)
T ss_dssp TTTTC-S
T ss_pred ccCCCcc
Confidence 7655443
No 29
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.57 E-value=6.8e-05 Score=42.41 Aligned_cols=24 Identities=33% Similarity=0.652 Sum_probs=17.9
Q ss_pred eecCccccccCCHHHHHHHHHHhc
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMYVL 213 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~~H 213 (345)
|.|++|++.|.++..|..|++.+|
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 678888888888888888888776
No 30
>KOG2231|consensus
Probab=97.45 E-value=0.00028 Score=72.07 Aligned_cols=121 Identities=22% Similarity=0.402 Sum_probs=69.7
Q ss_pred eccccccccCCHHHHHHHHHhcCCCCCccCCCCc---------ccccCHHHHHHHHHHhcC-CC----ccccCCCCCCcC
Q psy4572 76 PCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCP---------YVAKRIKYLRYHMKKHRK-EY----SAYCEPCQEGFF 141 (345)
Q Consensus 76 ~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~---------~~f~~~~~L~~H~~~h~~-~~----~~~C~~C~k~F~ 141 (345)
.|..| ..|.....|+.|+...|+ .+.|..|- ...-+...|..|++.-.. +. .-.|+.|...|.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 34445 445577778888754332 23444332 222345666777654221 11 135788888888
Q ss_pred CHHHHHHHHHHhcCCCCCCCcch------hhccCCHHHHHHHHhhhCCCCcCceeecC--ccc-cccCCHHHHHHHHH
Q psy4572 142 SRDKLETHNIAKHGAQPYQCETC------RKLFLSKYSLFTHNKKHLPIEERLHYQCE--LCG-KSFNNKQTFSLSNM 210 (345)
Q Consensus 142 ~~~~l~~H~~~hh~~k~y~C~~C------gk~F~s~s~L~~H~~~H~~~~~~k~y~C~--~Cg-k~F~~~~~L~~H~~ 210 (345)
....+.+|++.+| |.|..| +.-|.....|..|.+.+| |.|. .|. +.|.....+..|++
T Consensus 194 d~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H-------flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 194 DDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH-------FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred cHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC-------ccccccccccceeeehhHHHHHHH
Confidence 8888888877766 344444 456677778888888777 6666 453 34444444455544
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.41 E-value=7.9e-05 Score=43.87 Aligned_cols=26 Identities=23% Similarity=0.540 Sum_probs=20.0
Q ss_pred eeecCccccccCCHHHHHHHHHHhcC
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
||+|+.|++.|.+...|..|++.|++
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 47788888888888888888777664
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.37 E-value=4.5e-05 Score=70.30 Aligned_cols=58 Identities=22% Similarity=0.480 Sum_probs=47.7
Q ss_pred CCCCCCcc--hhhccCCHHHHHHHHhhhCCC----------------CcCceeecCccccccCCHHHHHHHHHHhc
Q psy4572 156 AQPYQCET--CRKLFLSKYSLFTHNKKHLPI----------------EERLHYQCELCGKSFNNKQTFSLSNMYVL 213 (345)
Q Consensus 156 ~k~y~C~~--Cgk~F~s~s~L~~H~~~H~~~----------------~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H 213 (345)
++||+|++ |.|+++....|+.|+.--|.. .+.|||+|++|+|++.....|+.|++.-|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~Hsh 422 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccccC
Confidence 58999987 999999999999998743310 13589999999999999999999976544
No 33
>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=97.33 E-value=0.00017 Score=40.70 Aligned_cols=22 Identities=41% Similarity=0.804 Sum_probs=12.1
Q ss_pred eeccccccccCCHHHHHHHHHH
Q psy4572 47 HKCEHCEKEFENRRALKRHEKN 68 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~ 68 (345)
|+|+.|++.|.++..|..|++.
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 4555555555555555555554
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.17 E-value=0.00023 Score=55.23 Aligned_cols=72 Identities=18% Similarity=0.344 Sum_probs=14.0
Q ss_pred eccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHHH
Q psy4572 48 KCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMKK 124 (345)
Q Consensus 48 ~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~ 124 (345)
+|..|+..|.+...+..|+...|+-. .+ ....+.....+..+.+.. -...+.|..|++.|.+...|..|++.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~---~~-~~~~l~~~~~~~~~~~~~-~~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD---IP-DQKYLVDPNRLLNYLRKK-VKESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred Cccccccccccccccccccccccccc---cc-cccccccccccccccccc-cCCCCCCCccCCCCcCHHHHHHHHcC
Confidence 46677777777777777766554421 11 111111222233332221 11246666666666666666666654
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=97.08 E-value=0.00047 Score=38.82 Aligned_cols=23 Identities=30% Similarity=0.819 Sum_probs=11.6
Q ss_pred eeccccccccCCHHHHHHHHHHc
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNH 69 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h 69 (345)
|+|+.|++.|.+...|+.|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45555555555555555555544
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.82 E-value=0.0006 Score=63.04 Aligned_cols=68 Identities=28% Similarity=0.576 Sum_probs=42.0
Q ss_pred CCceeccc--cccccCCHHHHHHHHHHcC-CCCceecc--ccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHH
Q psy4572 44 DGPHKCEH--CEKEFENRRALKRHEKNHT-QEKTFPCT--VCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYL 118 (345)
Q Consensus 44 ~~~~~C~~--C~k~F~~~~~L~~H~~~h~-~~k~~~C~--~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L 118 (345)
++||+|++ |+|.|++...|+-|+..-| .++...-+ +=-..| -..+|||+|+.|++++.....|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F------------~~~~KPYrCevC~KRYKNlNGL 414 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF------------SAKDKPYRCEVCDKRYKNLNGL 414 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccc------------cccCCceeccccchhhccCccc
Confidence 47788865 8888888888887765422 11111111 111111 2356888888888888888888
Q ss_pred HHHHH
Q psy4572 119 RYHMK 123 (345)
Q Consensus 119 ~~H~~ 123 (345)
+.|+.
T Consensus 415 KYHr~ 419 (423)
T COG5189 415 KYHRK 419 (423)
T ss_pred eeccc
Confidence 88764
No 37
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.82 E-value=0.0016 Score=60.83 Aligned_cols=131 Identities=21% Similarity=0.355 Sum_probs=94.6
Q ss_pred eeccc--cccccCCHHHHHHHHHhcCCCCCccCCCCc---cccc------CHHHHHHHHHHhcCCCcc----ccCCCCCC
Q psy4572 75 FPCTV--CLKMFKTKAQREEHIASHVTDSEFKCDQCP---YVAK------RIKYLRYHMKKHRKEYSA----YCEPCQEG 139 (345)
Q Consensus 75 ~~C~~--C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~---~~f~------~~~~L~~H~~~h~~~~~~----~C~~C~k~ 139 (345)
|.||. |..+......++.|.+..|+. +.|..|- +.|. +...|..|...-..+..| .|..|...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 77887 788888888999999875543 4565553 2332 445567776543323222 59999999
Q ss_pred cCCHHHHHHHHHHhcCCCCCCCcchh-------hccCCHHHHHHHHhhhCCCCcCceeecCc--cc----cccCCHHHHH
Q psy4572 140 FFSRDKLETHNIAKHGAQPYQCETCR-------KLFLSKYSLFTHNKKHLPIEERLHYQCEL--CG----KSFNNKQTFS 206 (345)
Q Consensus 140 F~~~~~l~~H~~~hh~~k~y~C~~Cg-------k~F~s~s~L~~H~~~H~~~~~~k~y~C~~--Cg----k~F~~~~~L~ 206 (345)
|.+-.+|.+|.+..| ++ |-+|. .-|++...|..|.+.-| |.|.. |- ..|.....|.
T Consensus 230 FYdDDEL~~HcR~~H-E~---ChICD~v~p~~~QYFK~Y~~Le~HF~~~h-------y~ct~qtc~~~k~~vf~~~~el~ 298 (493)
T COG5236 230 FYDDDELRRHCRLRH-EA---CHICDMVGPIRYQYFKSYEDLEAHFRNAH-------YCCTFQTCRVGKCYVFPYHTELL 298 (493)
T ss_pred ecChHHHHHHHHhhh-hh---hhhhhccCccchhhhhCHHHHHHHhhcCc-------eEEEEEEEecCcEEEeccHHHHH
Confidence 999999999999887 43 55554 34788889999988765 77754 42 5799999999
Q ss_pred HHHHHhcCCCCc
Q psy4572 207 LSNMYVLSLSNM 218 (345)
Q Consensus 207 ~H~~~~H~~~~~ 218 (345)
.|+...|+.-.+
T Consensus 299 ~h~~~~h~~~~~ 310 (493)
T COG5236 299 EHLTRFHKVNAR 310 (493)
T ss_pred HHHHHHhhcccc
Confidence 999999986444
No 38
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.81 E-value=0.00075 Score=39.59 Aligned_cols=23 Identities=35% Similarity=0.891 Sum_probs=12.8
Q ss_pred eeccccccccCCHHHHHHHHHHc
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNH 69 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h 69 (345)
|+|..|++.|.+...|..|++.|
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCccCCccCChhHHHHHhHHh
Confidence 55555555555555555555544
No 39
>KOG2231|consensus
Probab=96.79 E-value=0.0027 Score=65.05 Aligned_cols=133 Identities=20% Similarity=0.421 Sum_probs=92.3
Q ss_pred eeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCC---------CCcCCHHH
Q psy4572 75 FPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQ---------EGFFSRDK 145 (345)
Q Consensus 75 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~---------k~F~~~~~ 145 (345)
+.|.+|++.|.-.. ..-.|..| ..|.....|+.|+...|+ .+.|..|- ....++.+
T Consensus 100 ~~C~~C~~~~~~~~------------~~~~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~e 164 (669)
T KOG2231|consen 100 HSCHICDRRFRALY------------NKKECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAE 164 (669)
T ss_pred hhcCccccchhhhc------------ccCCCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHH
Confidence 56777776653221 12368888 788899999999854332 23444442 22335677
Q ss_pred HHHHHHHhcC-C----CCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCcc------ccccCCHHHHHHHHHHhcC
Q psy4572 146 LETHNIAKHG-A----QPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELC------GKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 146 l~~H~~~hh~-~----k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~C------gk~F~~~~~L~~H~~~~H~ 214 (345)
+..|+..-.. + ..-.|..|...|-....|.+|++.+| |.|..| +..|..-+.|..|.+..|-
T Consensus 165 l~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h-------~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 165 LNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH-------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred HHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce-------eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 8888764322 1 12569999999999999999999887 777777 4678899999999999999
Q ss_pred CCCcccccccceeee
Q psy4572 215 LSNMYVLSSSNMYVL 229 (345)
Q Consensus 215 ~~~~~~~s~~~~~~~ 229 (345)
.+..-.....-.+..
T Consensus 238 lCE~~~C~~~~f~~~ 252 (669)
T KOG2231|consen 238 LCEEEFCRTKKFYVA 252 (669)
T ss_pred cccccccccceeeeh
Confidence 988665544444433
No 40
>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=96.55 E-value=0.0021 Score=43.29 Aligned_cols=40 Identities=10% Similarity=0.139 Sum_probs=24.7
Q ss_pred HHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHhcCCC
Q psy4572 175 FTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYVLSLS 216 (345)
Q Consensus 175 ~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~~~ 216 (345)
..+.+.+. ..+.|-.|++|+..+++..+|++|+...|..+
T Consensus 12 ~~~~k~~~--~S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 12 TKKPKSKS--QSEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp ----CCCC--TTS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred hhHHHHhh--ccCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 44555554 35668899999999999999999998888764
No 41
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.40 E-value=0.003 Score=35.94 Aligned_cols=24 Identities=21% Similarity=0.321 Sum_probs=18.1
Q ss_pred eecCccccccCCHHHHHHHHHHhcC
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
|+|+.|+.... +..|.+|++.+|+
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 67888888887 8888888888874
No 42
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.17 E-value=0.0038 Score=35.47 Aligned_cols=23 Identities=30% Similarity=0.606 Sum_probs=17.5
Q ss_pred eecCccccccCCHHHHHHHHHHh
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMYV 212 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~~ 212 (345)
|.|+.|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 46888888888888888887743
No 43
>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=96.00 E-value=0.011 Score=39.90 Aligned_cols=31 Identities=26% Similarity=0.509 Sum_probs=16.9
Q ss_pred CCceeccccccccCCHHHHHHHHHHcCCCCc
Q psy4572 44 DGPHKCEHCEKEFENRRALKRHEKNHTQEKT 74 (345)
Q Consensus 44 ~~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~ 74 (345)
+.|..||+|+..+....+|++|+..+|+.+|
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 4556777777777777777777766665543
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.97 E-value=0.0021 Score=62.50 Aligned_cols=138 Identities=25% Similarity=0.392 Sum_probs=92.3
Q ss_pred CceeccccccccCCHHHHHHHHH--HcCCC--Cceecc--ccccccCCHHHHHHHHHhcCCCCCccCCCC--cccccCHH
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEK--NHTQE--KTFPCT--VCLKMFKTKAQREEHIASHVTDSEFKCDQC--PYVAKRIK 116 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~--~h~~~--k~~~C~--~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C--~~~f~~~~ 116 (345)
.++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+..++.|... ...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 36788889999999999999988 78888 889998 699999998888888888888777776543 33332221
Q ss_pred HH-----HHHHHHhcCCCcccc--CCCCCCcCCHHHHHHHHHHhcCCC--CCCCcchhhccCCHHHHHHHHhhhC
Q psy4572 117 YL-----RYHMKKHRKEYSAYC--EPCQEGFFSRDKLETHNIAKHGAQ--PYQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 117 ~L-----~~H~~~h~~~~~~~C--~~C~k~F~~~~~l~~H~~~hh~~k--~y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
.- ..............+ ..|...+.....+..|...+-... .+.+..|.+.|.....+..|.+.|.
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccc
Confidence 11 111111112222333 335556666666666666555444 4566778888888888888888775
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.95 E-value=0.0058 Score=34.65 Aligned_cols=24 Identities=42% Similarity=0.805 Sum_probs=19.9
Q ss_pred CCCcchhhccCCHHHHHHHHhhhC
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
|+|+.|++.|.....+..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 578889999998888988888663
No 46
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.82 E-value=0.011 Score=55.38 Aligned_cols=129 Identities=25% Similarity=0.451 Sum_probs=91.7
Q ss_pred ceeccc--cccccCCHHHHHHHHHHcCCCCceeccccc---cccC------CHHHHHHHHHhcCCCCCc----cCCCCcc
Q psy4572 46 PHKCEH--CEKEFENRRALKRHEKNHTQEKTFPCTVCL---KMFK------TKAQREEHIASHVTDSEF----KCDQCPY 110 (345)
Q Consensus 46 ~~~C~~--C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~---k~F~------~~~~L~~H~~~h~~~k~~----~C~~C~~ 110 (345)
.|.||. |+.+......|..|.+..|+. +.|.+|- +.|. +...|..|...-..+..| .|..|..
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccc
Confidence 488975 888777788999999987764 7788873 3443 344566666432222223 5999999
Q ss_pred cccCHHHHHHHHHHhcCCCccccCCCCC-------CcCCHHHHHHHHHHhcCCCCCCCcc--h--h--hccCCHHHHHHH
Q psy4572 111 VAKRIKYLRYHMKKHRKEYSAYCEPCQE-------GFFSRDKLETHNIAKHGAQPYQCET--C--R--KLFLSKYSLFTH 177 (345)
Q Consensus 111 ~f~~~~~L~~H~~~h~~~~~~~C~~C~k-------~F~~~~~l~~H~~~hh~~k~y~C~~--C--g--k~F~s~s~L~~H 177 (345)
.|-+.+.|..|.+..|. .|.+|++ -|.+...|..|.+..| |.|.. | | ..|.....|+.|
T Consensus 229 ~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~vf~~~~el~~h 300 (493)
T COG5236 229 YFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYVFPYHTELLEH 300 (493)
T ss_pred eecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEEeccHHHHHHH
Confidence 99999999999987553 4666654 3778888999987655 55543 4 2 468889999999
Q ss_pred HhhhCCC
Q psy4572 178 NKKHLPI 184 (345)
Q Consensus 178 ~~~H~~~ 184 (345)
+...|+.
T Consensus 301 ~~~~h~~ 307 (493)
T COG5236 301 LTRFHKV 307 (493)
T ss_pred HHHHhhc
Confidence 8876643
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.75 E-value=0.0066 Score=34.76 Aligned_cols=23 Identities=22% Similarity=0.603 Sum_probs=17.8
Q ss_pred eecCccccccCCHHHHHHHHHHh
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMYV 212 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~~ 212 (345)
|.|++|++.|.+...+..|++.+
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 57888888888888888887643
No 48
>KOG1146|consensus
Probab=95.39 E-value=0.0074 Score=65.51 Aligned_cols=75 Identities=23% Similarity=0.398 Sum_probs=37.9
Q ss_pred ccccccccCCHHHHHHHHHH-cCCCCceeccccccccCCHHHHHHHHHhcC-------------------------CCCC
Q psy4572 49 CEHCEKEFENRRALKRHEKN-HTQEKTFPCTVCLKMFKTKAQREEHIASHV-------------------------TDSE 102 (345)
Q Consensus 49 C~~C~k~F~~~~~L~~H~~~-h~~~k~~~C~~C~k~F~~~~~L~~H~~~h~-------------------------~~k~ 102 (345)
|..|+..+.....+..|+.. |...+.++|+.|+..|+....|..|++..| +.++
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 33344444444444444332 233345555555555555555555555411 1244
Q ss_pred ccCCCCcccccCHHHHHHHHH
Q psy4572 103 FKCDQCPYVAKRIKYLRYHMK 123 (345)
Q Consensus 103 ~~C~~C~~~f~~~~~L~~H~~ 123 (345)
|.|..|...+.....|..|++
T Consensus 519 ~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ccceeeeeeeecchHHHHHHH
Confidence 666666666666666666654
No 49
>PRK04860 hypothetical protein; Provisional
Probab=95.25 E-value=0.013 Score=50.15 Aligned_cols=37 Identities=22% Similarity=0.651 Sum_probs=24.5
Q ss_pred ceeccccccccCCHHHHHHHHHHcCCCCceeccccccccCC
Q psy4572 46 PHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKT 86 (345)
Q Consensus 46 ~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~ 86 (345)
+|.|. |++ ....+++|.++|.++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 56776 766 45556677777777777777777766643
No 50
>KOG2785|consensus
Probab=94.89 E-value=0.063 Score=51.30 Aligned_cols=56 Identities=18% Similarity=0.237 Sum_probs=40.9
Q ss_pred CCCCCcchhhccCCHHHHHHHHhhhCCCC--------------------cCceeecCccc---cccCCHHHHHHHHHHh
Q psy4572 157 QPYQCETCRKLFLSKYSLFTHNKKHLPIE--------------------ERLHYQCELCG---KSFNNKQTFSLSNMYV 212 (345)
Q Consensus 157 k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~--------------------~~k~y~C~~Cg---k~F~~~~~L~~H~~~~ 212 (345)
-|-.|-.|++.+.+...-..||..+|+.- ...-|.|-.|+ +.|.+....++||...
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 34667778888888777778877776421 11237888888 9999999999998654
No 51
>KOG1146|consensus
Probab=94.89 E-value=0.0053 Score=66.58 Aligned_cols=138 Identities=20% Similarity=0.349 Sum_probs=84.1
Q ss_pred ccccccccCCHHHHHHHHHh-cCCCCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcC
Q psy4572 77 CTVCLKMFKTKAQREEHIAS-HVTDSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHG 155 (345)
Q Consensus 77 C~~C~k~F~~~~~L~~H~~~-h~~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~ 155 (345)
|..|+..+.++..+..|+.. +...+.++|+.|+..+.....|..|+|.-+.+..- ..|... .....+.+-..-..+
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~g-q~~~~~arg~~~~~~ 515 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKAG-QNHPRLARGEVYRCP 515 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhHhc-cccccccccccccCC
Confidence 33344444444444444432 44557789999999999999999998863322111 111111 110011110111123
Q ss_pred CCCCCCcchhhccCCHHHHHHHHhhhC--C--------------------------------------CCcCceeecCcc
Q psy4572 156 AQPYQCETCRKLFLSKYSLFTHNKKHL--P--------------------------------------IEERLHYQCELC 195 (345)
Q Consensus 156 ~k~y~C~~Cgk~F~s~s~L~~H~~~H~--~--------------------------------------~~~~k~y~C~~C 195 (345)
.++|.|..|...++.+.+|..|++.-- . ...+-++.|.+|
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc 595 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVC 595 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhh
Confidence 567888888888888888888875320 0 011235899999
Q ss_pred ccccCCHHHHHHHHHHhcCCCC
Q psy4572 196 GKSFNNKQTFSLSNMYVLSLSN 217 (345)
Q Consensus 196 gk~F~~~~~L~~H~~~~H~~~~ 217 (345)
++.-+-..+|..|+...++...
T Consensus 596 ~yetniarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 596 SYETNIARNLRIHMTASPSSSP 617 (1406)
T ss_pred cchhhhhhccccccccCCCCCC
Confidence 9999999999999998887766
No 52
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.85 E-value=0.021 Score=32.38 Aligned_cols=22 Identities=45% Similarity=0.797 Sum_probs=10.0
Q ss_pred eeccccccccCCHHHHHHHHHHc
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNH 69 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h 69 (345)
|+|+.|+.... ...|.+|++.+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 34555555444 44555555543
No 53
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.72 E-value=0.019 Score=32.74 Aligned_cols=20 Identities=30% Similarity=0.828 Sum_probs=10.1
Q ss_pred eccccccccCCHHHHHHHHH
Q psy4572 48 KCEHCEKEFENRRALKRHEK 67 (345)
Q Consensus 48 ~C~~C~k~F~~~~~L~~H~~ 67 (345)
.|..|++.|.+...++.|++
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 45555555555555555543
No 54
>PRK04860 hypothetical protein; Provisional
Probab=94.70 E-value=0.015 Score=49.62 Aligned_cols=37 Identities=27% Similarity=0.761 Sum_probs=22.6
Q ss_pred CCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCC
Q psy4572 158 PYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNN 201 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~ 201 (345)
+|.|. |++ ....+.+|.++|. ++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~---g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVR---GEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhc---CCccEECCCCCceeEE
Confidence 46665 665 4555666666665 5556666666666543
No 55
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.65 E-value=0.003 Score=61.30 Aligned_cols=144 Identities=17% Similarity=0.200 Sum_probs=104.4
Q ss_pred CceeccccccccCCHHHHHHHHH--hcCCC--CCccCC--CCcccccCHHHHHHHHHHhcCCCccccCC--CCCCcCCHH
Q psy4572 73 KTFPCTVCLKMFKTKAQREEHIA--SHVTD--SEFKCD--QCPYVAKRIKYLRYHMKKHRKEYSAYCEP--CQEGFFSRD 144 (345)
Q Consensus 73 k~~~C~~C~k~F~~~~~L~~H~~--~h~~~--k~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~k~F~~~~ 144 (345)
.++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+..+..|.. |...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 36889999999999999999999 79898 899999 79999999999999999998877776643 333333322
Q ss_pred H-----HHHHHHHhcCCCCCCCc--chhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHhcCCCC
Q psy4572 145 K-----LETHNIAKHGAQPYQCE--TCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYVLSLSN 217 (345)
Q Consensus 145 ~-----l~~H~~~hh~~k~y~C~--~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~ 217 (345)
. ...............|. .|...+.....+..|...|... +...+.|..|.+.|.....+..|.+.+.....
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSF-RPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAP 446 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhcccccccccccccccc-CCcCCCCCcchhhccCcccccccccccccCCc
Confidence 2 11111112223444443 3777888888888887777532 22357889999999999999999887765433
No 56
>KOG2785|consensus
Probab=94.64 E-value=0.083 Score=50.49 Aligned_cols=27 Identities=11% Similarity=0.129 Sum_probs=22.5
Q ss_pred eeecCccccccCCHHHHHHHHHHhcCC
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLSL 215 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~~ 215 (345)
|-.|-.|++.|.+-..-..||..+|++
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~Hgf 192 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGF 192 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCC
Confidence 567888888888888888888888884
No 57
>KOG2482|consensus
Probab=93.98 E-value=0.17 Score=47.74 Aligned_cols=54 Identities=19% Similarity=0.332 Sum_probs=36.4
Q ss_pred CCCcchhhccCCHHHHHHHHhhhCCC------------------------CcCceeecCccccccCCHHHHHHHHHHh
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKKHLPI------------------------EERLHYQCELCGKSFNNKQTFSLSNMYV 212 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~H~~~------------------------~~~k~y~C~~Cgk~F~~~~~L~~H~~~~ 212 (345)
..|-.|....-+...|..|++..|.- +..+.-.|-.|.-.|-....|..|+..+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 35666666666666666666654411 0122356888999999999999998644
No 58
>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=93.77 E-value=0.014 Score=34.18 Aligned_cols=22 Identities=18% Similarity=0.528 Sum_probs=15.0
Q ss_pred eecCccccccCCHHHHHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
|.|..|++.|.+...+..|++.
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 5677777777777777776543
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.68 E-value=0.094 Score=30.21 Aligned_cols=21 Identities=24% Similarity=0.683 Sum_probs=13.8
Q ss_pred eecCccccccCCHHHHHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
..|+.||+.| ..+.|.+|.+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3577777777 56667777653
No 60
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=92.59 E-value=0.035 Score=32.45 Aligned_cols=22 Identities=36% Similarity=0.720 Sum_probs=16.2
Q ss_pred CCCcchhhccCCHHHHHHHHhh
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKK 180 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~ 180 (345)
|.|..|++.|.+...+..|++.
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 5677777777777777777664
No 61
>KOG2482|consensus
Probab=92.44 E-value=0.19 Score=47.32 Aligned_cols=26 Identities=15% Similarity=0.227 Sum_probs=23.2
Q ss_pred eecCccccccCCHHHHHHHHHHhcCC
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMYVLSL 215 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~~H~~ 215 (345)
..|-.|.....+...|..|++.+|..
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~ 305 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEF 305 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHh
Confidence 58999999999999999999998863
No 62
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.92 E-value=0.19 Score=40.09 Aligned_cols=25 Identities=28% Similarity=0.794 Sum_probs=13.9
Q ss_pred CCCCCcchhhccCCHHHHHHHHhhh
Q psy4572 157 QPYQCETCRKLFLSKYSLFTHNKKH 181 (345)
Q Consensus 157 k~y~C~~Cgk~F~s~s~L~~H~~~H 181 (345)
..|+|+.|+..|--.=+...|...|
T Consensus 80 ~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 80 HRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cceeCCCCCCccccccchhhhhhcc
Confidence 3466666666665555555554444
No 63
>KOG4173|consensus
Probab=91.32 E-value=0.11 Score=45.55 Aligned_cols=77 Identities=26% Similarity=0.468 Sum_probs=42.8
Q ss_pred eeccc--cccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHHHh----------cCCCcccc--CCCCCCc
Q psy4572 75 FPCTV--CLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMKKH----------RKEYSAYC--EPCQEGF 140 (345)
Q Consensus 75 ~~C~~--C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~h----------~~~~~~~C--~~C~k~F 140 (345)
+.|++ |.+.|........|..+-|+. .|..|.+.|.+..-|..|+... .|...|.| +.|+..|
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 55665 666666666666665543332 5666666666666666665422 23444555 4455555
Q ss_pred CCHHHHHHHHHHhc
Q psy4572 141 FSRDKLETHNIAKH 154 (345)
Q Consensus 141 ~~~~~l~~H~~~hh 154 (345)
.+....+.|+...|
T Consensus 157 kT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 157 KTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhHHHHhc
Confidence 55555555544433
No 64
>KOG4173|consensus
Probab=91.07 E-value=0.11 Score=45.51 Aligned_cols=77 Identities=25% Similarity=0.481 Sum_probs=46.4
Q ss_pred CCccCCC--CcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhc----------CCCCCCC--cchhh
Q psy4572 101 SEFKCDQ--CPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKH----------GAQPYQC--ETCRK 166 (345)
Q Consensus 101 k~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh----------~~k~y~C--~~Cgk 166 (345)
..|.|+. |...|.....+..|..+-++. .|..|.+.|.+..-|..|+...| |...|+| ..|+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4467764 666777777777776554432 57777777777777777766554 2333555 23555
Q ss_pred ccCCHHHHHHHHhh
Q psy4572 167 LFLSKYSLFTHNKK 180 (345)
Q Consensus 167 ~F~s~s~L~~H~~~ 180 (345)
.|.+...-..|+-.
T Consensus 155 KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhhhHHHH
Confidence 55555555555443
No 65
>KOG2893|consensus
Probab=91.07 E-value=0.06 Score=48.17 Aligned_cols=47 Identities=26% Similarity=0.514 Sum_probs=27.6
Q ss_pred CcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHhcC
Q psy4572 161 CETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 161 C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
|=+|++.|....-|.+|++..| |+|.+|.|..-+--.|..|-..+|.
T Consensus 13 cwycnrefddekiliqhqkakh-------fkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKH-------FKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeecccccchhhhhhhhhhhcc-------ceeeeehhhhccCCCceeehhhhhh
Confidence 5556666666666666655544 6666666655555555555444443
No 66
>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=90.95 E-value=0.16 Score=31.27 Aligned_cols=24 Identities=17% Similarity=0.414 Sum_probs=20.4
Q ss_pred eeecCccccccCCHHHHHHHHHHh
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYV 212 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~ 212 (345)
+|.|++|++.|.+...+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 588999999999999999997644
No 67
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.65 E-value=0.26 Score=39.36 Aligned_cols=85 Identities=12% Similarity=0.208 Sum_probs=46.6
Q ss_pred CceeccccccccCCHHHHHHHHHhcCC------------CCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCc
Q psy4572 73 KTFPCTVCLKMFKTKAQREEHIASHVT------------DSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGF 140 (345)
Q Consensus 73 k~~~C~~C~k~F~~~~~L~~H~~~h~~------------~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F 140 (345)
-|..|+.|+-..-....|.+...--.. ...-.|-.|...|....... ...-.....|+|+.|...|
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~F 91 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNVF 91 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccc--ccccccccceeCCCCCCcc
Confidence 356677777666665555543210000 11124888888776543111 0001233467888888888
Q ss_pred CCHHHHHHHHHHhcCCCCCCCcchh
Q psy4572 141 FSRDKLETHNIAKHGAQPYQCETCR 165 (345)
Q Consensus 141 ~~~~~l~~H~~~hh~~k~y~C~~Cg 165 (345)
=-.-+.-.|...| .|+.|.
T Consensus 92 C~dCD~fiHe~Lh------~CPGC~ 110 (112)
T TIGR00622 92 CVDCDVFVHESLH------CCPGCI 110 (112)
T ss_pred ccccchhhhhhcc------CCcCCC
Confidence 7776666775554 377665
No 68
>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=90.21 E-value=0.33 Score=38.54 Aligned_cols=85 Identities=16% Similarity=0.225 Sum_probs=47.5
Q ss_pred CccccCCCCCCcCCHHHHHHHHHHhcCCC-CCCCcchhhccCCHHHHHH-HHhhhCCCCc---------Cceeec----C
Q psy4572 129 YSAYCEPCQEGFFSRDKLETHNIAKHGAQ-PYQCETCRKLFLSKYSLFT-HNKKHLPIEE---------RLHYQC----E 193 (345)
Q Consensus 129 ~~~~C~~C~k~F~~~~~l~~H~~~hh~~k-~y~C~~Cgk~F~s~s~L~~-H~~~H~~~~~---------~k~y~C----~ 193 (345)
+...|..|+..... .++..|.+..|... ......=.+.+.....+.. ......+... ..-|.| +
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~ 88 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPP 88 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCC
Confidence 34579999988766 88999998655332 1111100011111110100 0000000000 112999 9
Q ss_pred ccccccCCHHHHHHHHHHhcC
Q psy4572 194 LCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 194 ~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
.|++.+.+...+.+|.+.+|+
T Consensus 89 ~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCcEeccHHHHHHHHHHhcC
Confidence 999999999999999999996
No 69
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.02 E-value=0.25 Score=28.43 Aligned_cols=19 Identities=32% Similarity=0.630 Sum_probs=11.4
Q ss_pred CCcchhhccCCHHHHHHHHh
Q psy4572 160 QCETCRKLFLSKYSLFTHNK 179 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~ 179 (345)
.|+.||+.| ..+.|.+|..
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 4555666654
No 70
>KOG2893|consensus
Probab=89.05 E-value=0.1 Score=46.74 Aligned_cols=44 Identities=30% Similarity=0.613 Sum_probs=36.6
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHH
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHI 94 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~ 94 (345)
-.|-.|++.|.++.-|.+|++. +.|+|.+|.+...+--.|..|.
T Consensus 11 pwcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred ceeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeeh
Confidence 4799999999999999999887 3499999998877766666664
No 71
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=88.81 E-value=0.34 Score=29.78 Aligned_cols=22 Identities=23% Similarity=0.525 Sum_probs=13.9
Q ss_pred ceeccccccccCCHHHHHHHHH
Q psy4572 46 PHKCEHCEKEFENRRALKRHEK 67 (345)
Q Consensus 46 ~~~C~~C~k~F~~~~~L~~H~~ 67 (345)
+|.|..|++.|.+...+..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4666666666666666666654
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.52 E-value=0.27 Score=33.83 Aligned_cols=31 Identities=13% Similarity=0.319 Sum_probs=25.5
Q ss_pred CcCceeecCccccccCCHHHHHHHHHHhcCC
Q psy4572 185 EERLHYQCELCGKSFNNKQTFSLSNMYVLSL 215 (345)
Q Consensus 185 ~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~~ 215 (345)
+++.-+.||-||..|..+....+|....|+.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 3566788999999999999999998877764
No 73
>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=86.04 E-value=0.37 Score=29.68 Aligned_cols=11 Identities=18% Similarity=0.570 Sum_probs=5.8
Q ss_pred eeccccccccC
Q psy4572 47 HKCEHCEKEFE 57 (345)
Q Consensus 47 ~~C~~C~k~F~ 57 (345)
|+|..||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 45555555544
No 74
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=84.17 E-value=0.18 Score=45.33 Aligned_cols=46 Identities=17% Similarity=0.251 Sum_probs=24.8
Q ss_pred CCCCCcchhhccCCHHHHHHHHhhhC-C------CCcCc-----eeecCccccccCCH
Q psy4572 157 QPYQCETCRKLFLSKYSLFTHNKKHL-P------IEERL-----HYQCELCGKSFNNK 202 (345)
Q Consensus 157 k~y~C~~Cgk~F~s~s~L~~H~~~H~-~------~~~~k-----~y~C~~Cgk~F~~~ 202 (345)
+.+.||+|++.|.+..-.....+.-. . -++-. ...||.||..|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 45667777777776543333333210 0 01111 25699999987654
No 75
>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=83.80 E-value=1.7 Score=34.43 Aligned_cols=24 Identities=29% Similarity=0.530 Sum_probs=22.7
Q ss_pred CCC----cchhhccCCHHHHHHHHhhhC
Q psy4572 159 YQC----ETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 159 y~C----~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
|.| +.|+..+.+...+.+|.+.+|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 889 999999999999999999887
No 76
>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=83.70 E-value=0.54 Score=37.45 Aligned_cols=30 Identities=23% Similarity=0.602 Sum_probs=18.5
Q ss_pred CCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCH
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNK 202 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~ 202 (345)
..|+.||++|-.. ++.|-.||.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL--------------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL--------------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC--------------CCCCccCCCCCCccCcc
Confidence 3577777776553 33466677777776544
No 77
>KOG2186|consensus
Probab=81.33 E-value=0.87 Score=41.33 Aligned_cols=47 Identities=19% Similarity=0.504 Sum_probs=30.0
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCHHHHHHHHHh
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTKAQREEHIAS 96 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~ 96 (345)
|.|..||....... +.+|+-..++ .-|.|-.|++.|.. .+...|..-
T Consensus 4 FtCnvCgEsvKKp~-vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQ-VEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhhhhhhccccc-hHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 66777777655533 4557766666 44777777777766 556666543
No 78
>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=81.22 E-value=0.88 Score=36.24 Aligned_cols=30 Identities=20% Similarity=0.576 Sum_probs=18.6
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCH
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTK 87 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~ 87 (345)
..|+.||+.|... +..|..||.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4677777776652 23566677777766554
No 79
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=81.10 E-value=0.83 Score=31.51 Aligned_cols=32 Identities=19% Similarity=0.374 Sum_probs=21.1
Q ss_pred CCCCCCceeccccccccCCHHHHHHHHHHcCC
Q psy4572 40 PQKLDGPHKCEHCEKEFENRRALKRHEKNHTQ 71 (345)
Q Consensus 40 ~~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~ 71 (345)
...++.-+.||.|+..|.......+|...-|+
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 34455567777777777777777777665443
No 80
>PRK04023 DNA polymerase II large subunit; Validated
Probab=79.67 E-value=2.3 Score=45.99 Aligned_cols=24 Identities=33% Similarity=0.557 Sum_probs=15.4
Q ss_pred CCceeccccccccCCHHHHHHHHHHcCCCCceeccccccc
Q psy4572 44 DGPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKM 83 (345)
Q Consensus 44 ~~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~ 83 (345)
.....|+.||... ..+.|+.||..
T Consensus 624 Vg~RfCpsCG~~t----------------~~frCP~CG~~ 647 (1121)
T PRK04023 624 IGRRKCPSCGKET----------------FYRRCPFCGTH 647 (1121)
T ss_pred ccCccCCCCCCcC----------------CcccCCCCCCC
Confidence 3456788888762 12677777765
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=78.39 E-value=1.6 Score=28.47 Aligned_cols=27 Identities=15% Similarity=0.301 Sum_probs=16.4
Q ss_pred CceeecCccccccCCH----HHHHHHHHHhc
Q psy4572 187 RLHYQCELCGKSFNNK----QTFSLSNMYVL 213 (345)
Q Consensus 187 ~k~y~C~~Cgk~F~~~----~~L~~H~~~~H 213 (345)
+...+|..|++.+... +.|.+|++..|
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 4457788888877664 78888886655
No 82
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=78.37 E-value=1.6 Score=27.61 Aligned_cols=34 Identities=18% Similarity=0.501 Sum_probs=18.1
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceeccccccccC
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFK 85 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~ 85 (345)
..||.|+..|.-...- ...+.+..+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcEEECCCCCcEee
Confidence 3577777766654331 112233466777766653
No 83
>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=77.56 E-value=1.7 Score=27.37 Aligned_cols=33 Identities=15% Similarity=0.442 Sum_probs=16.3
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceecccccccc
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMF 84 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F 84 (345)
+.|+.|+..|.-..... ..+.....|+.|+..|
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEECCCCCCEE
Confidence 45666666665443321 0111235666666655
No 84
>PRK04023 DNA polymerase II large subunit; Validated
Probab=77.00 E-value=2.1 Score=46.22 Aligned_cols=22 Identities=23% Similarity=0.318 Sum_probs=16.0
Q ss_pred ceeccccccccCCHHHHHHHHHhcCCCCCccCCCCccc
Q psy4572 74 TFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYV 111 (345)
Q Consensus 74 ~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~ 111 (345)
...|+.||... ..+.|+.||..
T Consensus 626 ~RfCpsCG~~t----------------~~frCP~CG~~ 647 (1121)
T PRK04023 626 RRKCPSCGKET----------------FYRRCPFCGTH 647 (1121)
T ss_pred CccCCCCCCcC----------------CcccCCCCCCC
Confidence 46799999873 23688888865
No 85
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=76.13 E-value=0.6 Score=39.61 Aligned_cols=20 Identities=30% Similarity=0.619 Sum_probs=10.9
Q ss_pred eecCccccccCCHHHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSLSN 209 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~ 209 (345)
++|+.||+.|.+-..+..=+
T Consensus 29 ~~c~~c~~~f~~~e~~~~~~ 48 (154)
T PRK00464 29 RECLACGKRFTTFERVELVP 48 (154)
T ss_pred eeccccCCcceEeEeccCcc
Confidence 66666666665544443333
No 86
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=75.53 E-value=2.4 Score=26.58 Aligned_cols=33 Identities=18% Similarity=0.551 Sum_probs=18.0
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceecccccccc
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMF 84 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F 84 (345)
..|+.|+..|.-..... -.+....+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~i-----p~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKI-----PPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHC-----CCCCcEEECCCCCCEe
Confidence 45777777666544321 1222346677776665
No 87
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=75.47 E-value=1.7 Score=36.58 Aligned_cols=38 Identities=16% Similarity=0.446 Sum_probs=21.4
Q ss_pred CCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCcccccc
Q psy4572 155 GAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSF 199 (345)
Q Consensus 155 ~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F 199 (345)
...-|.|+.|+..|.....+..- .. ...|.||.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~---d~----~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLL---DM----DGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhc---CC----CCcEECCCCCCEE
Confidence 34457788888777754333220 01 1238888888654
No 88
>KOG2807|consensus
Probab=74.58 E-value=3.7 Score=38.74 Aligned_cols=26 Identities=31% Similarity=0.832 Sum_probs=18.3
Q ss_pred CCCCCCcchhhccCCHHHHHHHHhhh
Q psy4572 156 AQPYQCETCRKLFLSKYSLFTHNKKH 181 (345)
Q Consensus 156 ~k~y~C~~Cgk~F~s~s~L~~H~~~H 181 (345)
...|+|+.|...|-..-+...|...|
T Consensus 343 ~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCcEEchhccceeeccchHHHHhhhh
Confidence 45577888877777776666776665
No 89
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=74.57 E-value=0.5 Score=42.38 Aligned_cols=21 Identities=24% Similarity=0.547 Sum_probs=13.2
Q ss_pred CceeccccccccCCHHHHHHH
Q psy4572 45 GPHKCEHCEKEFENRRALKRH 65 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H 65 (345)
+...||.|++.|.........
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~ 24 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGK 24 (214)
T ss_pred CceECCCCCCeeeeeEEEcCC
Confidence 456777777777765444333
No 90
>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=73.09 E-value=1.7 Score=35.33 Aligned_cols=30 Identities=17% Similarity=0.244 Sum_probs=17.5
Q ss_pred CCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCH
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNK 202 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~ 202 (345)
..|+.||++|-.. ++.|-.|+.||..|.-.
T Consensus 10 r~Cp~cg~kFYDL--------------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL--------------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc--------------CCCCccCCCcCCccCcc
Confidence 3566666666543 33456677777666544
No 91
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=71.57 E-value=2 Score=45.43 Aligned_cols=12 Identities=25% Similarity=0.719 Sum_probs=6.7
Q ss_pred CceeecCccccc
Q psy4572 187 RLHYQCELCGKS 198 (345)
Q Consensus 187 ~k~y~C~~Cgk~ 198 (345)
..|..|+.||-.
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 345666666643
No 92
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=71.03 E-value=7 Score=32.78 Aligned_cols=37 Identities=16% Similarity=0.426 Sum_probs=20.7
Q ss_pred CCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccc
Q psy4572 72 EKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVA 112 (345)
Q Consensus 72 ~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f 112 (345)
..-|.|+.|+..|.....+.. .. ....|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEE
Confidence 345778888877764332221 01 23337777777654
No 93
>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=70.77 E-value=2.1 Score=24.87 Aligned_cols=9 Identities=33% Similarity=0.722 Sum_probs=4.4
Q ss_pred CCcchhhcc
Q psy4572 160 QCETCRKLF 168 (345)
Q Consensus 160 ~C~~Cgk~F 168 (345)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 355555444
No 94
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=70.76 E-value=2.7 Score=27.72 Aligned_cols=11 Identities=36% Similarity=0.736 Sum_probs=6.2
Q ss_pred eeccccccccC
Q psy4572 47 HKCEHCEKEFE 57 (345)
Q Consensus 47 ~~C~~C~k~F~ 57 (345)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 55666665554
No 95
>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=70.11 E-value=5.3 Score=34.00 Aligned_cols=15 Identities=20% Similarity=0.301 Sum_probs=6.6
Q ss_pred eeccccccccCCHHH
Q psy4572 75 FPCTVCLKMFKTKAQ 89 (345)
Q Consensus 75 ~~C~~C~k~F~~~~~ 89 (345)
|.|+.|+..|+....
T Consensus 110 Y~Cp~c~~r~tf~eA 124 (158)
T TIGR00373 110 FICPNMCVRFTFNEA 124 (158)
T ss_pred EECCCCCcEeeHHHH
Confidence 444444444444333
No 96
>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=69.40 E-value=4.8 Score=36.08 Aligned_cols=30 Identities=23% Similarity=0.468 Sum_probs=22.0
Q ss_pred CcCceeecCccccccCCHHHHHHHHHHhcC
Q psy4572 185 EERLHYQCELCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 185 ~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
+++..|.|+.|+|.|.-..-..+|+...|.
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 455578899999999888888888888885
No 97
>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=68.43 E-value=6.5 Score=33.48 Aligned_cols=42 Identities=12% Similarity=0.155 Sum_probs=27.6
Q ss_pred HHHHHHhcCCCCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCc
Q psy4572 90 REEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGF 140 (345)
Q Consensus 90 L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F 140 (345)
+..-+....+...|.|+.|+..|....++. ..|.||.||...
T Consensus 97 lk~~l~~e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 97 LREKLEFETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred HHHHHhhccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 334444445566688888888877776664 257888888653
No 98
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=68.36 E-value=2.6 Score=39.39 Aligned_cols=48 Identities=29% Similarity=0.522 Sum_probs=29.6
Q ss_pred ccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhh
Q psy4572 132 YCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKH 181 (345)
Q Consensus 132 ~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H 181 (345)
.|-.|.-.|.-...-..- .-.....|+|+.|...|-..-....|...|
T Consensus 364 ~Cf~CQ~~fp~~~~~~~~--~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 364 HCFVCQGPFPKPPVSPFD--ESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceeccCCCCCCCCCccc--ccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 366666666543221000 011245688998988888888888887776
No 99
>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=68.13 E-value=2.5 Score=26.17 Aligned_cols=11 Identities=27% Similarity=0.483 Sum_probs=5.7
Q ss_pred eeccccccccC
Q psy4572 47 HKCEHCEKEFE 57 (345)
Q Consensus 47 ~~C~~C~k~F~ 57 (345)
|.|..||..+.
T Consensus 3 ~~C~~CG~i~~ 13 (34)
T cd00729 3 WVCPVCGYIHE 13 (34)
T ss_pred EECCCCCCEeE
Confidence 45555555443
No 100
>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=67.73 E-value=3.2 Score=33.77 Aligned_cols=30 Identities=10% Similarity=0.190 Sum_probs=18.5
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceeccccccccCCH
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKTK 87 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~~ 87 (345)
..|+.||+.|... +..|..|+.||..|...
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 4677777776652 23566777777666544
No 101
>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=67.66 E-value=3.5 Score=34.02 Aligned_cols=26 Identities=23% Similarity=0.322 Sum_probs=15.5
Q ss_pred eeecCccccccCCHHHHHHHHHHhcCCCC
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLSLSN 217 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~ 217 (345)
...|-+||+.|.. |.+|++.||++..
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred eeEEccCCcccch---HHHHHHHccCCCH
Confidence 3678889998864 4889988888653
No 102
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=67.28 E-value=3.5 Score=28.88 Aligned_cols=7 Identities=57% Similarity=1.725 Sum_probs=3.0
Q ss_pred eecCccc
Q psy4572 190 YQCELCG 196 (345)
Q Consensus 190 y~C~~Cg 196 (345)
|+|+.||
T Consensus 51 Y~Cp~CG 57 (61)
T COG2888 51 YRCPKCG 57 (61)
T ss_pred eECCCcC
Confidence 4444443
No 103
>KOG4167|consensus
Probab=67.16 E-value=3.6 Score=42.78 Aligned_cols=29 Identities=31% Similarity=0.516 Sum_probs=22.7
Q ss_pred CCCceeccccccccCCHHHHHHHHHHcCC
Q psy4572 43 LDGPHKCEHCEKEFENRRALKRHEKNHTQ 71 (345)
Q Consensus 43 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~ 71 (345)
.++-|.|.+|++.|.....+..||++|..
T Consensus 789 ~~giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 789 PTGIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred CCceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 34568888888888888888888888743
No 104
>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=65.67 E-value=1.4 Score=29.85 Aligned_cols=12 Identities=33% Similarity=0.866 Sum_probs=6.5
Q ss_pred eeccccccccCC
Q psy4572 47 HKCEHCEKEFEN 58 (345)
Q Consensus 47 ~~C~~C~k~F~~ 58 (345)
|+|+.|+..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 555555555553
No 105
>KOG2807|consensus
Probab=65.59 E-value=7.7 Score=36.69 Aligned_cols=24 Identities=21% Similarity=0.429 Sum_probs=20.0
Q ss_pred eeecCccccccCCHHHHHHHHHHh
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYV 212 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~ 212 (345)
.|+|+.|...|-..-+...|...|
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred cEEchhccceeeccchHHHHhhhh
Confidence 599999999998888888887655
No 106
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=65.41 E-value=3.6 Score=43.58 Aligned_cols=10 Identities=20% Similarity=0.398 Sum_probs=5.7
Q ss_pred eecccccccc
Q psy4572 47 HKCEHCEKEF 56 (345)
Q Consensus 47 ~~C~~C~k~F 56 (345)
..|..||..+
T Consensus 436 l~C~~Cg~v~ 445 (730)
T COG1198 436 LLCRDCGYIA 445 (730)
T ss_pred eecccCCCcc
Confidence 4466666553
No 107
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=64.85 E-value=6.5 Score=34.21 Aligned_cols=13 Identities=23% Similarity=0.352 Sum_probs=5.4
Q ss_pred ccCCCCcccccCH
Q psy4572 103 FKCDQCPYVAKRI 115 (345)
Q Consensus 103 ~~C~~C~~~f~~~ 115 (345)
|.|+.|+..|...
T Consensus 118 Y~Cp~C~~rytf~ 130 (178)
T PRK06266 118 FFCPNCHIRFTFD 130 (178)
T ss_pred EECCCCCcEEeHH
Confidence 4444444444333
No 108
>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=64.66 E-value=1.5 Score=27.98 Aligned_cols=12 Identities=42% Similarity=0.988 Sum_probs=6.4
Q ss_pred eeccccccccCC
Q psy4572 47 HKCEHCEKEFEN 58 (345)
Q Consensus 47 ~~C~~C~k~F~~ 58 (345)
|+|+.||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (41)
T smart00834 6 YRCEDCGHTFEV 17 (41)
T ss_pred EEcCCCCCEEEE
Confidence 555555555543
No 109
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=64.19 E-value=1.1 Score=38.02 Aligned_cols=15 Identities=33% Similarity=0.512 Sum_probs=9.2
Q ss_pred eeccccccccCCHHH
Q psy4572 75 FPCTVCLKMFKTKAQ 89 (345)
Q Consensus 75 ~~C~~C~k~F~~~~~ 89 (345)
++|+.||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 566666666665543
No 110
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=63.40 E-value=8 Score=33.65 Aligned_cols=34 Identities=26% Similarity=0.518 Sum_probs=24.7
Q ss_pred CCCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCccccc
Q psy4572 71 QEKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAK 113 (345)
Q Consensus 71 ~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~ 113 (345)
...-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 345688999998887776542 3589999987543
No 111
>KOG2186|consensus
Probab=63.05 E-value=4.7 Score=36.73 Aligned_cols=47 Identities=30% Similarity=0.525 Sum_probs=38.9
Q ss_pred ceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHH
Q psy4572 74 TFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMK 123 (345)
Q Consensus 74 ~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~ 123 (345)
-|.|..||...... .+.+|+.+.++ .-|.|-.|++.|.+ .....|..
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 38899999887654 58889988877 67999999999998 67788865
No 112
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=62.79 E-value=4.2 Score=28.51 Aligned_cols=7 Identities=57% Similarity=1.654 Sum_probs=3.4
Q ss_pred eecCccc
Q psy4572 190 YQCELCG 196 (345)
Q Consensus 190 y~C~~Cg 196 (345)
|.|+.||
T Consensus 49 Y~CP~CG 55 (59)
T PRK14890 49 YTCPKCG 55 (59)
T ss_pred eECCCCC
Confidence 4444444
No 113
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=62.31 E-value=3.9 Score=31.01 Aligned_cols=12 Identities=33% Similarity=1.046 Sum_probs=8.0
Q ss_pred eeecCccccccC
Q psy4572 189 HYQCELCGKSFN 200 (345)
Q Consensus 189 ~y~C~~Cgk~F~ 200 (345)
.+.|..||..|.
T Consensus 53 IW~C~kCg~~fA 64 (89)
T COG1997 53 IWKCRKCGAKFA 64 (89)
T ss_pred eEEcCCCCCeec
Confidence 467777777664
No 114
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=61.82 E-value=4.8 Score=34.57 Aligned_cols=10 Identities=30% Similarity=0.654 Sum_probs=4.5
Q ss_pred CCccccCCCC
Q psy4572 128 EYSAYCEPCQ 137 (345)
Q Consensus 128 ~~~~~C~~C~ 137 (345)
+.|..||.||
T Consensus 147 e~P~~CPiCg 156 (166)
T COG1592 147 EAPEVCPICG 156 (166)
T ss_pred CCCCcCCCCC
Confidence 3444444444
No 115
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=61.61 E-value=2.4 Score=28.04 Aligned_cols=12 Identities=42% Similarity=0.855 Sum_probs=6.5
Q ss_pred eeccccccccCC
Q psy4572 47 HKCEHCEKEFEN 58 (345)
Q Consensus 47 ~~C~~C~k~F~~ 58 (345)
|.|+.||..|..
T Consensus 4 y~C~~CG~~~~~ 15 (46)
T PRK00398 4 YKCARCGREVEL 15 (46)
T ss_pred EECCCCCCEEEE
Confidence 556666655443
No 116
>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=61.51 E-value=6.5 Score=22.72 Aligned_cols=21 Identities=14% Similarity=0.241 Sum_probs=15.7
Q ss_pred eecCccccccCCHHHHHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
..||+|++.+ ....+.+|+..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHHH
Confidence 3588888888 56778888764
No 117
>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=60.70 E-value=6.5 Score=32.48 Aligned_cols=27 Identities=33% Similarity=0.559 Sum_probs=17.2
Q ss_pred CCceeccccccccCCHHHHHHHHHHcCCCC
Q psy4572 44 DGPHKCEHCEKEFENRRALKRHEKNHTQEK 73 (345)
Q Consensus 44 ~~~~~C~~C~k~F~~~~~L~~H~~~h~~~k 73 (345)
+....|-+||+.|.. |++|++.|+|-.
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCC
Confidence 345789999999988 589999997754
No 118
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=59.63 E-value=5.4 Score=34.25 Aligned_cols=11 Identities=36% Similarity=0.930 Sum_probs=6.0
Q ss_pred CCCCCCCcchh
Q psy4572 155 GAQPYQCETCR 165 (345)
Q Consensus 155 ~~k~y~C~~Cg 165 (345)
|+.|-+||.||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 34555566665
No 119
>PF14353 CpXC: CpXC protein
Probab=59.19 E-value=6.9 Score=31.81 Aligned_cols=20 Identities=20% Similarity=0.604 Sum_probs=12.5
Q ss_pred eeecCccccccCCHHHHHHH
Q psy4572 189 HYQCELCGKSFNNKQTFSLS 208 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H 208 (345)
.|.||.||..|.-...+.-|
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EEECCCCCCceecCCCEEEE
Confidence 47777777777655444444
No 120
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=59.17 E-value=7.1 Score=26.21 Aligned_cols=26 Identities=15% Similarity=0.356 Sum_probs=18.7
Q ss_pred eeecCccccccCCH-----HHHHHHHHHhcC
Q psy4572 189 HYQCELCGKSFNNK-----QTFSLSNMYVLS 214 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~-----~~L~~H~~~~H~ 214 (345)
.-.|..|++.+... +.|.+|++..|+
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 45688888877655 588888885543
No 121
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=57.73 E-value=4.8 Score=33.08 Aligned_cols=25 Identities=32% Similarity=0.365 Sum_probs=19.7
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCC
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQE 72 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~ 72 (345)
.-..|-++|+.|++ |++|+.+|++-
T Consensus 75 D~IicLEDGkkfKS---LKRHL~t~~gm 99 (148)
T COG4957 75 DYIICLEDGKKFKS---LKRHLTTHYGL 99 (148)
T ss_pred CeEEEeccCcchHH---HHHHHhcccCC
Confidence 34679999998876 88899888764
No 122
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=57.70 E-value=14 Score=41.22 Aligned_cols=10 Identities=30% Similarity=0.919 Sum_probs=7.5
Q ss_pred ceeccccccc
Q psy4572 46 PHKCEHCEKE 55 (345)
Q Consensus 46 ~~~C~~C~k~ 55 (345)
.++|+.||..
T Consensus 667 ~rkCPkCG~~ 676 (1337)
T PRK14714 667 RRRCPSCGTE 676 (1337)
T ss_pred EEECCCCCCc
Confidence 3788888874
No 123
>KOG2593|consensus
Probab=56.54 E-value=10 Score=37.21 Aligned_cols=37 Identities=30% Similarity=0.621 Sum_probs=25.3
Q ss_pred CCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCcccc
Q psy4572 155 GAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGK 197 (345)
Q Consensus 155 ~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk 197 (345)
....|.|+.|.+.|+....++-=-. ....|.|..|+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~~~------~~~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLLDN------ETGEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHhhcc------cCceEEEecCCC
Confidence 4566999999999988776543211 223589999973
No 124
>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=56.16 E-value=2.7 Score=27.28 Aligned_cols=12 Identities=50% Similarity=1.090 Sum_probs=6.9
Q ss_pred eeccccccccCC
Q psy4572 47 HKCEHCEKEFEN 58 (345)
Q Consensus 47 ~~C~~C~k~F~~ 58 (345)
|+|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 556666655554
No 125
>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=54.86 E-value=4.3 Score=36.41 Aligned_cols=32 Identities=22% Similarity=0.456 Sum_probs=21.3
Q ss_pred CCCCCceeccccccccCCHHHHHHHHHHcCCC
Q psy4572 41 QKLDGPHKCEHCEKEFENRRALKRHEKNHTQE 72 (345)
Q Consensus 41 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~ 72 (345)
...+..|.|+.|+|.|....-..+|+...|.+
T Consensus 72 e~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 72 EEDEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSSSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred HHcCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 34455688888888888888888888776654
No 126
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=52.28 E-value=8.1 Score=26.09 Aligned_cols=10 Identities=40% Similarity=1.006 Sum_probs=4.7
Q ss_pred eecccccccc
Q psy4572 47 HKCEHCEKEF 56 (345)
Q Consensus 47 ~~C~~C~k~F 56 (345)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4444444444
No 127
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=51.48 E-value=2 Score=44.76 Aligned_cols=28 Identities=29% Similarity=0.631 Sum_probs=15.7
Q ss_pred cCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhh
Q psy4572 133 CEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRK 166 (345)
Q Consensus 133 C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk 166 (345)
|+.|.+.|.++.+.+-| .+|..|+.||-
T Consensus 154 C~~C~~EY~dP~nRRfH------AQp~aCp~CGP 181 (750)
T COG0068 154 CPFCDKEYKDPLNRRFH------AQPIACPKCGP 181 (750)
T ss_pred CHHHHHHhcCccccccc------cccccCcccCC
Confidence 66666665555554433 44556666664
No 128
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=51.03 E-value=10 Score=34.53 Aligned_cols=74 Identities=15% Similarity=0.321 Sum_probs=43.5
Q ss_pred CHHHHHHHHHHcCCC-----CceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHHHHHHHHHHhcCCCccc
Q psy4572 58 NRRALKRHEKNHTQE-----KTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAY 132 (345)
Q Consensus 58 ~~~~L~~H~~~h~~~-----k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~ 132 (345)
+...|+.+.+.+.+. +.|.|..|.... . + +.-...+.-+|..|.+.|.-... ..-.|..-|.
T Consensus 91 Te~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~W--w---R---rvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~aef~ 157 (278)
T PF15135_consen 91 TEENLRMFDDAQENLIPSVDRQFACSSCDHMW--W---R---RVPQRKEVSRCRKCRKRYDPVPC-----DKMWGIAEFH 157 (278)
T ss_pred hHHHHHHhhhhhhccccccceeeeccccchHH--H---h---ccCcccccccccccccccCCCcc-----ccccceeeee
Confidence 445565555554443 679999996432 1 1 11122344689999887754321 1123555688
Q ss_pred cCCCCCCcCCHH
Q psy4572 133 CEPCQEGFFSRD 144 (345)
Q Consensus 133 C~~C~k~F~~~~ 144 (345)
|+.|+..|+...
T Consensus 158 C~~C~h~F~G~~ 169 (278)
T PF15135_consen 158 CPKCRHNFRGFA 169 (278)
T ss_pred cccccccchhhh
Confidence 999999998653
No 129
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=50.49 E-value=6.7 Score=27.06 Aligned_cols=39 Identities=26% Similarity=0.679 Sum_probs=17.4
Q ss_pred ceeccc--cccccCCHHHHHHHHHHcCCCCceeccc----cccccC
Q psy4572 46 PHKCEH--CEKEFENRRALKRHEKNHTQEKTFPCTV----CLKMFK 85 (345)
Q Consensus 46 ~~~C~~--C~k~F~~~~~L~~H~~~h~~~k~~~C~~----C~k~F~ 85 (345)
+..|+. |...+. +..|..|....-..++..|+. |+..+.
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 455655 333333 345666666444455566666 655543
No 130
>PRK14873 primosome assembly protein PriA; Provisional
Probab=49.47 E-value=11 Score=39.78 Aligned_cols=8 Identities=25% Similarity=0.966 Sum_probs=4.5
Q ss_pred eccccccc
Q psy4572 48 KCEHCEKE 55 (345)
Q Consensus 48 ~C~~C~k~ 55 (345)
.|..||..
T Consensus 385 ~C~~Cg~~ 392 (665)
T PRK14873 385 ACARCRTP 392 (665)
T ss_pred EhhhCcCe
Confidence 56666554
No 131
>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=47.66 E-value=15 Score=24.18 Aligned_cols=10 Identities=40% Similarity=1.022 Sum_probs=6.8
Q ss_pred ceeecCcccc
Q psy4572 188 LHYQCELCGK 197 (345)
Q Consensus 188 k~y~C~~Cgk 197 (345)
..|+|..|++
T Consensus 36 ~~~~C~~C~~ 45 (46)
T PF12760_consen 36 GRYRCKACRK 45 (46)
T ss_pred CeEECCCCCC
Confidence 4577777765
No 132
>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=47.38 E-value=12 Score=22.87 Aligned_cols=9 Identities=33% Similarity=0.851 Sum_probs=3.9
Q ss_pred ecccccccc
Q psy4572 48 KCEHCEKEF 56 (345)
Q Consensus 48 ~C~~C~k~F 56 (345)
.|..|+..+
T Consensus 2 ~C~~Cg~~~ 10 (32)
T PF03604_consen 2 ICGECGAEV 10 (32)
T ss_dssp BESSSSSSE
T ss_pred CCCcCCCee
Confidence 344444443
No 133
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.35 E-value=8.1 Score=30.58 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=17.3
Q ss_pred CCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccC
Q psy4572 160 QCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFN 200 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~ 200 (345)
.|+.||+.|-.. .+.|..||.||++|.
T Consensus 11 idPetg~KFYDL--------------NrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYDL--------------NRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhcc--------------CCCccccCcccccch
Confidence 467777766543 345677777777773
No 134
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=47.27 E-value=11 Score=35.46 Aligned_cols=50 Identities=20% Similarity=0.355 Sum_probs=33.2
Q ss_pred CCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHHHHHHHHHHhc
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQTFSLSNMYVL 213 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~~L~~H~~~~H 213 (345)
-.|-.|.-.|..... |..... .....|+|+.|...|-..-+...|...|-
T Consensus 363 ~~Cf~CQ~~fp~~~~---~~~~~~--~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 363 THCFVCQGPFPKPPV---SPFDES--TSSGRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred ccceeccCCCCCCCC---Cccccc--ccccceechhhhhhhhhhhHHHHHHHHhh
Confidence 348888877765421 111111 11235999999999999999999987764
No 135
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=45.98 E-value=26 Score=39.17 Aligned_cols=63 Identities=11% Similarity=0.163 Sum_probs=34.1
Q ss_pred eeecCccccccCCHHHHHHHHHHhcCCCCcccccccceeeechhhHHHHHHhHhhhcccCCeEEEeec
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLSLSNMYVLSSSNMYVLSLSNMYVLSLSKVRLNSSSNMYVLSLS 256 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~~~~~s~~~~~~~~l~~~~~~~~s~~~~~~~~~~~~~~~~ 256 (345)
+|.|+.||........- ...++.|+... .......+++.+.+...+..+..+..+=--|-||.
T Consensus 692 vy~CPsCGaev~~des~----a~~CP~CGtpl-v~~~~~~i~~~~~~~~A~~~~g~~~~~~~~~KgVk 754 (1337)
T PRK14714 692 VYVCPDCGAEVPPDESG----RVECPRCDVEL-TPYQRRTINVKEEYRSALENVGERENAFDLLKGVK 754 (1337)
T ss_pred ceeCccCCCccCCCccc----cccCCCCCCcc-cccceEEecHHHHHHHHHHHhCcccccccccccce
Confidence 36677776654332110 33345444432 23345577888888888887777665433344443
No 136
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=45.59 E-value=14 Score=30.38 Aligned_cols=26 Identities=19% Similarity=0.184 Sum_probs=20.4
Q ss_pred eecCccccccCCHHHHHHHHHHhcCCCCc
Q psy4572 190 YQCELCGKSFNNKQTFSLSNMYVLSLSNM 218 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H~~~~H~~~~~ 218 (345)
..|-.||+.| ..|++|+.+||+..-.
T Consensus 77 IicLEDGkkf---KSLKRHL~t~~gmTPd 102 (148)
T COG4957 77 IICLEDGKKF---KSLKRHLTTHYGLTPD 102 (148)
T ss_pred EEEeccCcch---HHHHHHHhcccCCCHH
Confidence 4688899888 4688999988887544
No 137
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=45.28 E-value=4.3 Score=29.79 Aligned_cols=8 Identities=25% Similarity=0.978 Sum_probs=3.8
Q ss_pred eccccccc
Q psy4572 48 KCEHCEKE 55 (345)
Q Consensus 48 ~C~~C~k~ 55 (345)
.|+.||..
T Consensus 3 ~CP~Cg~~ 10 (72)
T PRK09678 3 HCPLCQHA 10 (72)
T ss_pred cCCCCCCc
Confidence 45555543
No 138
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=44.88 E-value=13 Score=37.72 Aligned_cols=9 Identities=33% Similarity=0.659 Sum_probs=4.5
Q ss_pred CccCCCCcc
Q psy4572 102 EFKCDQCPY 110 (345)
Q Consensus 102 ~~~C~~C~~ 110 (345)
+..|+.|+.
T Consensus 253 ~~~Cp~C~s 261 (505)
T TIGR00595 253 PKTCPQCGS 261 (505)
T ss_pred CCCCCCCCC
Confidence 345555543
No 139
>KOG2593|consensus
Probab=44.61 E-value=22 Score=35.06 Aligned_cols=39 Identities=21% Similarity=0.457 Sum_probs=26.3
Q ss_pred CCCCceeccccccccCCHHHHHHHHHhcCCCCCccCCCCccc
Q psy4572 70 TQEKTFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYV 111 (345)
Q Consensus 70 ~~~k~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~ 111 (345)
+....|.|+.|.+.|+....++ ..-.....|.|..|+..
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 4456699999999987765443 22333456899988753
No 140
>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=44.60 E-value=7.3 Score=41.51 Aligned_cols=11 Identities=45% Similarity=1.153 Sum_probs=0.0
Q ss_pred Cceeccccccc
Q psy4572 45 GPHKCEHCEKE 55 (345)
Q Consensus 45 ~~~~C~~C~k~ 55 (345)
...+|+.||..
T Consensus 654 ~~r~Cp~Cg~~ 664 (900)
T PF03833_consen 654 GRRRCPKCGKE 664 (900)
T ss_dssp -----------
T ss_pred ecccCcccCCc
Confidence 34567777653
No 141
>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=44.53 E-value=8.4 Score=35.29 Aligned_cols=90 Identities=20% Similarity=0.407 Sum_probs=45.9
Q ss_pred cCCCCCccCCCCcccccCHHHHHHHHHHhc--CCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHH
Q psy4572 97 HVTDSEFKCDQCPYVAKRIKYLRYHMKKHR--KEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSL 174 (345)
Q Consensus 97 h~~~k~~~C~~C~~~f~~~~~L~~H~~~h~--~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L 174 (345)
.||.+.|+|..|....---. --.|+.... ....|+|.-|++. ..|.|-.|.-.|-.
T Consensus 137 ~hGGrif~CsfC~~flCEDD-QFEHQAsCQvLe~E~~KC~SCNrl-----------------Gq~sCLRCK~cfCd---- 194 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCEDD-QFEHQASCQVLESETFKCQSCNRL-----------------GQYSCLRCKICFCD---- 194 (314)
T ss_pred cCCCeEEEeecCCCeeeccc-hhhhhhhhhhhhcccccccccccc-----------------cchhhhheeeeehh----
Confidence 45778899999975433333 334544321 2345777777653 12334444433432
Q ss_pred HHHHhhh-CCCCcCceeecCccccccCCHHHHHHHH
Q psy4572 175 FTHNKKH-LPIEERLHYQCELCGKSFNNKQTFSLSN 209 (345)
Q Consensus 175 ~~H~~~H-~~~~~~k~y~C~~Cgk~F~~~~~L~~H~ 209 (345)
.|.+.. ...+..+++.||.||........|..-.
T Consensus 195 -dHvrrKg~ky~k~k~~PCPKCg~et~eTkdLSmSt 229 (314)
T PF06524_consen 195 -DHVRRKGFKYEKGKPIPCPKCGYETQETKDLSMST 229 (314)
T ss_pred -hhhhhcccccccCCCCCCCCCCCcccccccceeee
Confidence 233321 1112335677777776665555554443
No 142
>KOG0782|consensus
Probab=43.12 E-value=8.2 Score=39.20 Aligned_cols=58 Identities=26% Similarity=0.502 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHH-HHHHH
Q psy4572 143 RDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQ-TFSLS 208 (345)
Q Consensus 143 ~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~-~L~~H 208 (345)
...+.+|...|.....=+|..|||.|..+..+ |. ++-....|.+|.+.|..+. .|..|
T Consensus 238 E~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hs--KEivAisCSWCKqayH~KvtCFml~ 296 (1004)
T KOG0782|consen 238 ESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HS--KEIVAISCSWCKQAYHLKVTCFMLD 296 (1004)
T ss_pred cccchHHhHhhHhhhccccchhhhhhhhheee------cc--ccEEEEEehHHHHHhhcchhhhhhh
Confidence 34677787777666666899999999877554 21 1233578999999998876 44444
No 143
>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=42.06 E-value=18 Score=22.31 Aligned_cols=28 Identities=14% Similarity=0.325 Sum_probs=18.4
Q ss_pred eeecCccccccCCHHHHHHHHHHhcCCCC
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLSLSN 217 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~ 217 (345)
.+.|+.|++.+. ...+..|+...-+...
T Consensus 4 ~~~C~nC~R~v~-a~RfA~HLekCmg~g~ 31 (33)
T PF08209_consen 4 YVECPNCGRPVA-ASRFAPHLEKCMGRGR 31 (33)
T ss_dssp EEE-TTTSSEEE-GGGHHHHHHHHTCH--
T ss_pred eEECCCCcCCcc-hhhhHHHHHHHHccCC
Confidence 478888888775 5678888877766443
No 144
>KOG3408|consensus
Probab=41.99 E-value=34 Score=27.71 Aligned_cols=27 Identities=33% Similarity=0.541 Sum_probs=22.5
Q ss_pred CCCCceeccccccccCCHHHHHHHHHH
Q psy4572 42 KLDGPHKCEHCEKEFENRRALKRHEKN 68 (345)
Q Consensus 42 ~~~~~~~C~~C~k~F~~~~~L~~H~~~ 68 (345)
.+-+.|.|-.|.+.|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 445679999999999999999999775
No 145
>PHA00626 hypothetical protein
Probab=41.68 E-value=13 Score=25.71 Aligned_cols=16 Identities=25% Similarity=0.451 Sum_probs=12.8
Q ss_pred CceeecCccccccCCH
Q psy4572 187 RLHYQCELCGKSFNNK 202 (345)
Q Consensus 187 ~k~y~C~~Cgk~F~~~ 202 (345)
...|.|+.||+.|+..
T Consensus 21 snrYkCkdCGY~ft~~ 36 (59)
T PHA00626 21 SDDYVCCDCGYNDSKD 36 (59)
T ss_pred CcceEcCCCCCeechh
Confidence 3469999999999743
No 146
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=41.21 E-value=11 Score=37.10 Aligned_cols=29 Identities=24% Similarity=0.592 Sum_probs=19.4
Q ss_pred CCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCH
Q psy4572 160 QCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNK 202 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~ 202 (345)
.|+.||.+..+. ++.-|+|+.||+.+...
T Consensus 352 ~Cp~Cg~~m~S~--------------G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA--------------GRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc--------------CCCCcccccccccCCcc
Confidence 588888665443 33358888888877654
No 147
>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=40.72 E-value=7 Score=35.79 Aligned_cols=26 Identities=19% Similarity=0.386 Sum_probs=14.7
Q ss_pred CCCCCCcchhhccCCHHHHHHHHhhh
Q psy4572 156 AQPYQCETCRKLFLSKYSLFTHNKKH 181 (345)
Q Consensus 156 ~k~y~C~~Cgk~F~s~s~L~~H~~~H 181 (345)
.+++.||.||........|..-.|+|
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeecc
Confidence 46677777776655555554444443
No 148
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=39.60 E-value=18 Score=24.13 Aligned_cols=12 Identities=25% Similarity=0.706 Sum_probs=8.3
Q ss_pred eeecCccccccC
Q psy4572 189 HYQCELCGKSFN 200 (345)
Q Consensus 189 ~y~C~~Cgk~F~ 200 (345)
.|.|+.||+.+.
T Consensus 20 ~~vC~~Cg~~~~ 31 (52)
T smart00661 20 RFVCRKCGYEEP 31 (52)
T ss_pred EEECCcCCCeEE
Confidence 577888886544
No 149
>PF15269 zf-C2H2_7: Zinc-finger
Probab=39.23 E-value=36 Score=22.47 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=18.9
Q ss_pred ceeccccccccCCHHHHHHHHHH
Q psy4572 46 PHKCEHCEKEFENRRALKRHEKN 68 (345)
Q Consensus 46 ~~~C~~C~k~F~~~~~L~~H~~~ 68 (345)
.|+|-.|..+...++.|-.||+-
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 47888888888888888888864
No 150
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=38.54 E-value=1.9 Score=44.91 Aligned_cols=56 Identities=20% Similarity=0.395 Sum_probs=35.0
Q ss_pred ccCCCCCCcCCHHHHHHHHHHhcCCCC-CCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCcccc
Q psy4572 132 YCEPCQEGFFSRDKLETHNIAKHGAQP-YQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGK 197 (345)
Q Consensus 132 ~C~~C~k~F~~~~~l~~H~~~hh~~k~-y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk 197 (345)
.|..||-+|+-...+---. ..+.-+. --|+.|.+.|....+-+-|.+ |.-|+.||=
T Consensus 125 ~CT~CGPRfTIi~alPYDR-~nTsM~~F~lC~~C~~EY~dP~nRRfHAQ---------p~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDR-ENTSMADFPLCPFCDKEYKDPLNRRFHAQ---------PIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCCCCc-ccCccccCcCCHHHHHHhcCccccccccc---------cccCcccCC
Confidence 4888888877544332111 1122222 359999999998877555533 577999985
No 151
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=37.50 E-value=7.3 Score=32.66 Aligned_cols=16 Identities=19% Similarity=0.405 Sum_probs=8.9
Q ss_pred CCCcchhhccCCHHHH
Q psy4572 159 YQCETCRKLFLSKYSL 174 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L 174 (345)
-+|..||+.|++....
T Consensus 29 ReC~~C~~RFTTyErv 44 (147)
T TIGR00244 29 RECLECHERFTTFERA 44 (147)
T ss_pred ccCCccCCccceeeec
Confidence 4566666666655433
No 152
>KOG1280|consensus
Probab=37.38 E-value=28 Score=33.34 Aligned_cols=25 Identities=16% Similarity=0.323 Sum_probs=15.8
Q ss_pred CCCCcchhhccCCHHHHHHHHhhhC
Q psy4572 158 PYQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
.|.|++|++.-.+...+..|....|
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~H 103 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQH 103 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcC
Confidence 4666666666666666666665544
No 153
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=37.11 E-value=17 Score=27.77 Aligned_cols=10 Identities=30% Similarity=0.663 Sum_probs=4.4
Q ss_pred ccCCCCCCcC
Q psy4572 132 YCEPCQEGFF 141 (345)
Q Consensus 132 ~C~~C~k~F~ 141 (345)
.|..||..|.
T Consensus 60 ~CkkCGfef~ 69 (97)
T COG3357 60 RCKKCGFEFR 69 (97)
T ss_pred hhcccCcccc
Confidence 3444444443
No 154
>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=36.84 E-value=22 Score=20.22 Aligned_cols=10 Identities=30% Similarity=0.946 Sum_probs=7.3
Q ss_pred ceeecCcccc
Q psy4572 188 LHYQCELCGK 197 (345)
Q Consensus 188 k~y~C~~Cgk 197 (345)
.+|.||.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4688888874
No 155
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=36.19 E-value=34 Score=22.03 Aligned_cols=24 Identities=21% Similarity=0.440 Sum_probs=16.8
Q ss_pred eecCccccccC--CHHHHHHHHHHhc
Q psy4572 190 YQCELCGKSFN--NKQTFSLSNMYVL 213 (345)
Q Consensus 190 y~C~~Cgk~F~--~~~~L~~H~~~~H 213 (345)
-+|+.||-.|. ....-..|.+.|-
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 47888886664 5677777777764
No 156
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.13 E-value=14 Score=30.65 Aligned_cols=11 Identities=36% Similarity=1.008 Sum_probs=5.2
Q ss_pred eeccccccccC
Q psy4572 47 HKCEHCEKEFE 57 (345)
Q Consensus 47 ~~C~~C~k~F~ 57 (345)
+.|+.||..|.
T Consensus 71 ~~C~~CG~~~~ 81 (135)
T PRK03824 71 LKCRNCGNEWS 81 (135)
T ss_pred EECCCCCCEEe
Confidence 44555554443
No 157
>KOG4167|consensus
Probab=35.86 E-value=11 Score=39.33 Aligned_cols=28 Identities=18% Similarity=0.277 Sum_probs=25.2
Q ss_pred eeecCccccccCCHHHHHHHHHHhcCCC
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLSLS 216 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~~~ 216 (345)
.|.|..|+|.|-....+..|+++|--..
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~q~ 819 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQQE 819 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 4999999999999999999999987654
No 158
>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=35.80 E-value=14 Score=22.19 Aligned_cols=9 Identities=22% Similarity=0.604 Sum_probs=4.8
Q ss_pred ceecccccc
Q psy4572 74 TFPCTVCLK 82 (345)
Q Consensus 74 ~~~C~~C~k 82 (345)
.+.|+.|+.
T Consensus 19 ~~vCp~C~~ 27 (30)
T PF08274_consen 19 LLVCPECGH 27 (30)
T ss_dssp SEEETTTTE
T ss_pred EEeCCcccc
Confidence 355665553
No 159
>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=35.68 E-value=5.7 Score=27.10 Aligned_cols=20 Identities=30% Similarity=0.850 Sum_probs=6.4
Q ss_pred CCCCcchhhccCCHHHHHHH
Q psy4572 158 PYQCETCRKLFLSKYSLFTH 177 (345)
Q Consensus 158 ~y~C~~Cgk~F~s~s~L~~H 177 (345)
.|+|+.|+..|--.=....|
T Consensus 21 ~y~C~~C~~~FC~dCD~fiH 40 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIH 40 (51)
T ss_dssp EE--TTTT--B-HHHHHTTT
T ss_pred eEECCCCCCccccCcChhhh
Confidence 34555555444433333333
No 160
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=35.32 E-value=23 Score=29.21 Aligned_cols=56 Identities=20% Similarity=0.399 Sum_probs=34.9
Q ss_pred CCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCC---cchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHH
Q psy4572 127 KEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQC---ETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQ 203 (345)
Q Consensus 127 ~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C---~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~ 203 (345)
..+.|+|.+|..+...+.- -+|-+| .+|+.- -..|++|-..|. .||.|..+|.+..
T Consensus 77 d~~lYeCnIC~etS~ee~F----------LKPneCCgY~iCn~C---ya~LWK~~~~yp--------vCPvCkTSFKss~ 135 (140)
T PF05290_consen 77 DPKLYECNICKETSAEERF----------LKPNECCGYSICNAC---YANLWKFCNLYP--------VCPVCKTSFKSSS 135 (140)
T ss_pred CCCceeccCcccccchhhc----------CCcccccchHHHHHH---HHHHHHHcccCC--------CCCcccccccccc
Confidence 4467888888877655422 344455 123322 456777766653 6999999987654
No 161
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=35.13 E-value=19 Score=29.56 Aligned_cols=15 Identities=27% Similarity=0.704 Sum_probs=9.8
Q ss_pred ceeccccccccCCHH
Q psy4572 74 TFPCTVCLKMFKTKA 88 (345)
Q Consensus 74 ~~~C~~C~k~F~~~~ 88 (345)
|++|..||+.|....
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 456777777776544
No 162
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=35.00 E-value=18 Score=27.79 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=7.8
Q ss_pred eeecCccccccC
Q psy4572 189 HYQCELCGKSFN 200 (345)
Q Consensus 189 ~y~C~~Cgk~F~ 200 (345)
.+.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PTZ00255 54 IWRCKGCKKTVA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 466777776664
No 163
>KOG4124|consensus
Probab=34.84 E-value=5.6 Score=37.88 Aligned_cols=56 Identities=25% Similarity=0.531 Sum_probs=40.5
Q ss_pred CCCCCCcc--hhhccCCHHHHHHHHhhhCCC----------------CcCceeecCccccccCCHHHHHHHHHH
Q psy4572 156 AQPYQCET--CRKLFLSKYSLFTHNKKHLPI----------------EERLHYQCELCGKSFNNKQTFSLSNMY 211 (345)
Q Consensus 156 ~k~y~C~~--Cgk~F~s~s~L~~H~~~H~~~----------------~~~k~y~C~~Cgk~F~~~~~L~~H~~~ 211 (345)
.++|+|++ |.+.++....+..|...-|.. ...|+|+|++|.+++.....|.-|...
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 46788865 999999888888886543311 135789999999998877666666433
No 164
>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=34.30 E-value=24 Score=25.06 Aligned_cols=10 Identities=40% Similarity=0.870 Sum_probs=3.5
Q ss_pred CCcchhhccC
Q psy4572 160 QCETCRKLFL 169 (345)
Q Consensus 160 ~C~~Cgk~F~ 169 (345)
.|..|++.|.
T Consensus 11 ~C~~C~~~F~ 20 (69)
T PF01363_consen 11 NCMICGKKFS 20 (69)
T ss_dssp B-TTT--B-B
T ss_pred cCcCcCCcCC
Confidence 4666666664
No 165
>PRK05580 primosome assembly protein PriA; Validated
Probab=34.20 E-value=26 Score=37.06 Aligned_cols=9 Identities=22% Similarity=0.604 Sum_probs=5.1
Q ss_pred CccCCCCcc
Q psy4572 102 EFKCDQCPY 110 (345)
Q Consensus 102 ~~~C~~C~~ 110 (345)
+..|+.|+.
T Consensus 421 ~~~Cp~Cg~ 429 (679)
T PRK05580 421 PKACPECGS 429 (679)
T ss_pred CCCCCCCcC
Confidence 445666654
No 166
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=33.85 E-value=4 Score=38.29 Aligned_cols=77 Identities=19% Similarity=0.230 Sum_probs=30.2
Q ss_pred ccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhhhC
Q psy4572 103 FKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKKHL 182 (345)
Q Consensus 103 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~H~ 182 (345)
-.|+.||..-.-. .+..-.. .|.+-..|..|+.... -....|+.||..-...-.... ..
T Consensus 173 g~CPvCGs~P~~s-~l~~~~~--~G~R~L~Cs~C~t~W~--------------~~R~~Cp~Cg~~~~~~l~~~~----~e 231 (290)
T PF04216_consen 173 GYCPVCGSPPVLS-VLRGGER--EGKRYLHCSLCGTEWR--------------FVRIKCPYCGNTDHEKLEYFT----VE 231 (290)
T ss_dssp SS-TTT---EEEE-EEE--------EEEEEETTT--EEE----------------TTS-TTT---SS-EEE---------
T ss_pred CcCCCCCCcCceE-EEecCCC--CccEEEEcCCCCCeee--------------ecCCCCcCCCCCCCcceeeEe----cC
Confidence 4789998532111 0110000 2455667888876543 234579999976544322211 11
Q ss_pred CCCcCceeecCccccccC
Q psy4572 183 PIEERLHYQCELCGKSFN 200 (345)
Q Consensus 183 ~~~~~k~y~C~~Cgk~F~ 200 (345)
+..+.+-+.|..|+..+.
T Consensus 232 ~~~~~rve~C~~C~~YlK 249 (290)
T PF04216_consen 232 GEPAYRVEVCESCGSYLK 249 (290)
T ss_dssp ---SEEEEEETTTTEEEE
T ss_pred CCCcEEEEECCcccchHH
Confidence 122455688999986554
No 167
>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=33.67 E-value=17 Score=25.05 Aligned_cols=30 Identities=17% Similarity=0.431 Sum_probs=16.0
Q ss_pred CCCcchhhccCCHHHHHHHHhhhCCCCcCceeecCcccccc
Q psy4572 159 YQCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSF 199 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F 199 (345)
++|+.||..+.-... ..+ ....|+.||..+
T Consensus 3 ~~CP~CG~~iev~~~----------~~G-eiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENP----------ELG-ELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCC----------ccC-CEEeCCCCCCEE
Confidence 567777765532211 111 246777777655
No 168
>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=33.50 E-value=17 Score=27.95 Aligned_cols=12 Identities=33% Similarity=1.005 Sum_probs=8.1
Q ss_pred eeecCccccccC
Q psy4572 189 HYQCELCGKSFN 200 (345)
Q Consensus 189 ~y~C~~Cgk~F~ 200 (345)
.+.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 467777777664
No 169
>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=33.49 E-value=35 Score=24.27 Aligned_cols=30 Identities=17% Similarity=0.449 Sum_probs=18.1
Q ss_pred CCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCH
Q psy4572 160 QCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNK 202 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~ 202 (345)
.|+.||..-.. ....+.|.|+.||..+...
T Consensus 30 ~C~~CG~~~~~-------------~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 30 TCPRCGHRNKK-------------RRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred CccCccccccc-------------ccccceEEcCCCCCEECcH
Confidence 47777755443 0133468888888776543
No 170
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=33.45 E-value=41 Score=35.36 Aligned_cols=8 Identities=38% Similarity=0.982 Sum_probs=3.9
Q ss_pred eccccccc
Q psy4572 48 KCEHCEKE 55 (345)
Q Consensus 48 ~C~~C~k~ 55 (345)
.|+.||..
T Consensus 3 ~Cp~Cg~~ 10 (645)
T PRK14559 3 ICPQCQFE 10 (645)
T ss_pred cCCCCCCc
Confidence 35555543
No 171
>KOG2907|consensus
Probab=33.44 E-value=24 Score=28.13 Aligned_cols=13 Identities=31% Similarity=0.856 Sum_probs=10.1
Q ss_pred eeecCccccccCC
Q psy4572 189 HYQCELCGKSFNN 201 (345)
Q Consensus 189 ~y~C~~Cgk~F~~ 201 (345)
-|.|+.|++.|+.
T Consensus 102 FYTC~kC~~k~~e 114 (116)
T KOG2907|consen 102 FYTCPKCKYKFTE 114 (116)
T ss_pred EEEcCccceeeec
Confidence 4788888888864
No 172
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=33.14 E-value=10 Score=31.92 Aligned_cols=15 Identities=20% Similarity=0.423 Sum_probs=9.5
Q ss_pred CCCcchhhccCCHHH
Q psy4572 159 YQCETCRKLFLSKYS 173 (345)
Q Consensus 159 y~C~~Cgk~F~s~s~ 173 (345)
-.|+.||+.|++...
T Consensus 29 ReC~~C~~RFTTfE~ 43 (156)
T COG1327 29 RECLECGERFTTFER 43 (156)
T ss_pred hcccccccccchhhe
Confidence 457777777776543
No 173
>PRK14873 primosome assembly protein PriA; Provisional
Probab=32.63 E-value=12 Score=39.57 Aligned_cols=6 Identities=33% Similarity=1.270 Sum_probs=2.9
Q ss_pred cCCCCc
Q psy4572 104 KCDQCP 109 (345)
Q Consensus 104 ~C~~C~ 109 (345)
.|..||
T Consensus 385 ~C~~Cg 390 (665)
T PRK14873 385 ACARCR 390 (665)
T ss_pred EhhhCc
Confidence 455554
No 174
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.57 E-value=11 Score=33.93 Aligned_cols=19 Identities=16% Similarity=0.412 Sum_probs=11.5
Q ss_pred CCCCCCcchhhccCCHHHH
Q psy4572 156 AQPYQCETCRKLFLSKYSL 174 (345)
Q Consensus 156 ~k~y~C~~Cgk~F~s~s~L 174 (345)
++.+.||+|+..|....-+
T Consensus 17 kk~ieCPvC~tkFkkeev~ 35 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVK 35 (267)
T ss_pred hceeccCcccchhhhhhee
Confidence 4456677777776655433
No 175
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=32.07 E-value=18 Score=20.21 Aligned_cols=6 Identities=33% Similarity=1.226 Sum_probs=2.8
Q ss_pred Ccchhh
Q psy4572 161 CETCRK 166 (345)
Q Consensus 161 C~~Cgk 166 (345)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444443
No 176
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=32.02 E-value=35 Score=23.09 Aligned_cols=7 Identities=43% Similarity=1.474 Sum_probs=3.0
Q ss_pred CCCCcch
Q psy4572 158 PYQCETC 164 (345)
Q Consensus 158 ~y~C~~C 164 (345)
|-.|+.|
T Consensus 33 p~RC~~C 39 (49)
T PF13451_consen 33 PKRCPSC 39 (49)
T ss_pred CccCHHH
Confidence 3344444
No 177
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=31.80 E-value=38 Score=30.96 Aligned_cols=73 Identities=18% Similarity=0.386 Sum_probs=43.9
Q ss_pred CHHHHHHHHHhcCC-----CCCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCC
Q psy4572 86 TKAQREEHIASHVT-----DSEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQ 160 (345)
Q Consensus 86 ~~~~L~~H~~~h~~-----~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~ 160 (345)
+..+++.+-+.+.+ ++.|.|..|+..... +.......-.|..|.+.|.-...-+ --|-..|.
T Consensus 91 Te~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~WwR--------rvp~rKeVSRCr~C~~rYDPVP~dk-----mwG~aef~ 157 (278)
T PF15135_consen 91 TEENLRMFDDAQENLIPSVDRQFACSSCDHMWWR--------RVPQRKEVSRCRKCRKRYDPVPCDK-----MWGIAEFH 157 (278)
T ss_pred hHHHHHHhhhhhhccccccceeeeccccchHHHh--------ccCcccccccccccccccCCCcccc-----ccceeeee
Confidence 44556655554433 367999999754322 3333344567999988876433100 11344589
Q ss_pred CcchhhccCCH
Q psy4572 161 CETCRKLFLSK 171 (345)
Q Consensus 161 C~~Cgk~F~s~ 171 (345)
|+.|+..|+..
T Consensus 158 C~~C~h~F~G~ 168 (278)
T PF15135_consen 158 CPKCRHNFRGF 168 (278)
T ss_pred cccccccchhh
Confidence 99999999855
No 178
>KOG4377|consensus
Probab=30.74 E-value=14 Score=36.15 Aligned_cols=26 Identities=8% Similarity=0.241 Sum_probs=19.1
Q ss_pred eecC--ccccccCCHHHHHHHHHHhcCC
Q psy4572 190 YQCE--LCGKSFNNKQTFSLSNMYVLSL 215 (345)
Q Consensus 190 y~C~--~Cgk~F~~~~~L~~H~~~~H~~ 215 (345)
|.|. -|+..|..-+....|.+.|-..
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhhh
Confidence 4553 4888888888888887777544
No 179
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=30.64 E-value=50 Score=34.73 Aligned_cols=12 Identities=17% Similarity=0.357 Sum_probs=6.7
Q ss_pred CCcchhhccCCH
Q psy4572 160 QCETCRKLFLSK 171 (345)
Q Consensus 160 ~C~~Cgk~F~s~ 171 (345)
.|+.||......
T Consensus 43 fC~~CG~~~~~~ 54 (645)
T PRK14559 43 HCPNCGAETGTI 54 (645)
T ss_pred cccccCCcccch
Confidence 466666555443
No 180
>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=30.56 E-value=38 Score=33.99 Aligned_cols=28 Identities=14% Similarity=0.284 Sum_probs=23.8
Q ss_pred eeecCccccccCCHHHHHHHHHHhcCCC
Q psy4572 189 HYQCELCGKSFNNKQTFSLSNMYVLSLS 216 (345)
Q Consensus 189 ~y~C~~Cgk~F~~~~~L~~H~~~~H~~~ 216 (345)
-+.|+.|.+.|.....+..|+...|.-.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 3679999999999999999998877643
No 181
>PF12907 zf-met2: Zinc-binding
Probab=30.37 E-value=33 Score=22.16 Aligned_cols=27 Identities=15% Similarity=0.368 Sum_probs=17.5
Q ss_pred eecCcccccc---CCHHHHHHHHHHhcCCC
Q psy4572 190 YQCELCGKSF---NNKQTFSLSNMYVLSLS 216 (345)
Q Consensus 190 y~C~~Cgk~F---~~~~~L~~H~~~~H~~~ 216 (345)
+.|.+|...| .+...|..|....|++.
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 4677777555 34566777777777663
No 182
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=30.35 E-value=23 Score=28.33 Aligned_cols=26 Identities=19% Similarity=0.438 Sum_probs=16.5
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceecccccc
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLK 82 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k 82 (345)
....|+.|+..|.... ..+.||.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~------------~~~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQ------------HDAQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCC------------cCccCcCCCC
Confidence 4578888887765532 2255888874
No 183
>KOG1842|consensus
Probab=30.30 E-value=29 Score=34.32 Aligned_cols=31 Identities=10% Similarity=0.054 Sum_probs=24.0
Q ss_pred ceeecCccccccCCHHHHHHHHHHhcCCCCc
Q psy4572 188 LHYQCELCGKSFNNKQTFSLSNMYVLSLSNM 218 (345)
Q Consensus 188 k~y~C~~Cgk~F~~~~~L~~H~~~~H~~~~~ 218 (345)
.-|.||+|...|..-..|..|....|+..+.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ed~ 44 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEEDE 44 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccccch
Confidence 3578888888888888888888888876664
No 184
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=29.96 E-value=22 Score=37.71 Aligned_cols=13 Identities=31% Similarity=0.733 Sum_probs=9.8
Q ss_pred cccCCCCCCcCCH
Q psy4572 131 AYCEPCQEGFFSR 143 (345)
Q Consensus 131 ~~C~~C~k~F~~~ 143 (345)
-.|..|++.|...
T Consensus 461 dtC~~C~kkFfSl 473 (1374)
T PTZ00303 461 DSCPSCGRAFISL 473 (1374)
T ss_pred CcccCcCCccccc
Confidence 4588899888654
No 185
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=29.30 E-value=37 Score=23.42 Aligned_cols=26 Identities=27% Similarity=0.710 Sum_probs=15.0
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceecccccccc
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMF 84 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F 84 (345)
-+|+.|++.|.. ++....|+.|+..+
T Consensus 6 ~~C~~Cg~~~~~------------~dDiVvCp~Cgapy 31 (54)
T PF14446_consen 6 CKCPVCGKKFKD------------GDDIVVCPECGAPY 31 (54)
T ss_pred ccChhhCCcccC------------CCCEEECCCCCCcc
Confidence 467777776654 22335677776554
No 186
>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=29.22 E-value=11 Score=28.89 Aligned_cols=12 Identities=42% Similarity=1.168 Sum_probs=7.5
Q ss_pred eeecCccccccC
Q psy4572 189 HYQCELCGKSFN 200 (345)
Q Consensus 189 ~y~C~~Cgk~F~ 200 (345)
-++|..|++.|.
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 366777766663
No 187
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=28.86 E-value=28 Score=22.23 Aligned_cols=14 Identities=14% Similarity=0.157 Sum_probs=5.7
Q ss_pred cCCCCcccccCHHH
Q psy4572 104 KCDQCPYVAKRIKY 117 (345)
Q Consensus 104 ~C~~C~~~f~~~~~ 117 (345)
.|+.|+-.+.+...
T Consensus 21 ~C~~C~G~W~d~~e 34 (41)
T PF13453_consen 21 VCPSCGGIWFDAGE 34 (41)
T ss_pred ECCCCCeEEccHHH
Confidence 34444444433333
No 188
>KOG1280|consensus
Probab=28.51 E-value=61 Score=31.08 Aligned_cols=28 Identities=18% Similarity=0.228 Sum_probs=16.6
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCC
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQE 72 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~ 72 (345)
..|.|+.|++.-.+...+..|....|.+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcc
Confidence 3566666666666666666666554443
No 189
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=27.77 E-value=31 Score=29.06 Aligned_cols=33 Identities=24% Similarity=0.674 Sum_probs=17.1
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceecccccc
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLK 82 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k 82 (345)
-+|.|. |+..|.+. ++|-..-.|+ .|.|..|+.
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~g 148 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGG 148 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCCc
Confidence 356666 66665442 3343333444 566666654
No 190
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=27.77 E-value=33 Score=23.21 Aligned_cols=11 Identities=27% Similarity=0.851 Sum_probs=7.2
Q ss_pred eeecCcccccc
Q psy4572 189 HYQCELCGKSF 199 (345)
Q Consensus 189 ~y~C~~Cgk~F 199 (345)
.+.|..||..+
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 46777777654
No 191
>KOG2907|consensus
Probab=27.45 E-value=29 Score=27.70 Aligned_cols=40 Identities=25% Similarity=0.517 Sum_probs=18.2
Q ss_pred eeccccccccCCHHHHHHHHHHcCCCCceeccccccccCC
Q psy4572 47 HKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFKT 86 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~~ 86 (345)
.+||.||..--....++.--.......-|.|+.|++.|..
T Consensus 75 ~kCpkCghe~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhhcccccCCceEEEEcCccceeeec
Confidence 5677777543222222211111111123677777776653
No 192
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=27.38 E-value=24 Score=27.06 Aligned_cols=12 Identities=33% Similarity=1.052 Sum_probs=7.7
Q ss_pred eeecCccccccC
Q psy4572 189 HYQCELCGKSFN 200 (345)
Q Consensus 189 ~y~C~~Cgk~F~ 200 (345)
.+.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PRK03976 54 IWECRKCGAKFA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 466777766664
No 193
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=27.18 E-value=22 Score=27.76 Aligned_cols=39 Identities=23% Similarity=0.373 Sum_probs=21.3
Q ss_pred CCCceeccccccccCCHHHHHHHHHHcCCCCceeccccccccC
Q psy4572 43 LDGPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKMFK 85 (345)
Q Consensus 43 ~~~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~F~ 85 (345)
-++.|.|+.|+..-...-.++ ...+.....|..||..|.
T Consensus 19 L~k~FtCp~Cghe~vs~ctvk----k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVK----KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CCceEecCccCCeeeeEEEEE----ecCceeEEEcccCcceEE
Confidence 456788888886543322211 112223356777877664
No 194
>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=26.99 E-value=26 Score=28.11 Aligned_cols=27 Identities=22% Similarity=0.605 Sum_probs=16.9
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceeccccccc
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKM 83 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~ 83 (345)
....|+.|+..|..... .+.||.||..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEID------------LYRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCCc------------CccCcCCcCC
Confidence 44778888877665321 2567777743
No 195
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=26.57 E-value=39 Score=26.46 Aligned_cols=12 Identities=33% Similarity=0.808 Sum_probs=6.2
Q ss_pred eeccccccccCC
Q psy4572 75 FPCTVCLKMFKT 86 (345)
Q Consensus 75 ~~C~~C~k~F~~ 86 (345)
+.|..||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 445555555544
No 196
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.38 E-value=31 Score=32.73 Aligned_cols=79 Identities=13% Similarity=0.244 Sum_probs=42.2
Q ss_pred CCccCCCCcccccCHHHHHHHHHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHHHHhh
Q psy4572 101 SEFKCDQCPYVAKRIKYLRYHMKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFTHNKK 180 (345)
Q Consensus 101 k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~H~~~ 180 (345)
..-.|+.||..-.-. +. +.....|.+-..|..|+.... -.+.+|+.||.. ..+..+ ..
T Consensus 186 ~~~~CPvCGs~P~~s--~v-~~~~~~G~RyL~CslC~teW~--------------~~R~~C~~Cg~~----~~l~y~-~~ 243 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VV-QIGTTQGLRYLHCNLCESEWH--------------VVRVKCSNCEQS----GKLHYW-SL 243 (309)
T ss_pred CCCCCCCCCCcchhh--ee-eccCCCCceEEEcCCCCCccc--------------ccCccCCCCCCC----Cceeee-ee
Confidence 346799998653211 11 222334566677988876532 234579999952 112111 00
Q ss_pred hCCCCcCceeecCccccccCC
Q psy4572 181 HLPIEERLHYQCELCGKSFNN 201 (345)
Q Consensus 181 H~~~~~~k~y~C~~Cgk~F~~ 201 (345)
.......+...|..|+.....
T Consensus 244 ~~~~~~~r~e~C~~C~~YlK~ 264 (309)
T PRK03564 244 DSEQAAVKAESCGDCGTYLKI 264 (309)
T ss_pred cCCCcceEeeeccccccccee
Confidence 110113356789999876654
No 197
>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=24.74 E-value=21 Score=36.30 Aligned_cols=12 Identities=25% Similarity=0.343 Sum_probs=6.0
Q ss_pred CCccccCCCCCC
Q psy4572 128 EYSAYCEPCQEG 139 (345)
Q Consensus 128 ~~~~~C~~C~k~ 139 (345)
+....|..||..
T Consensus 238 ~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 238 EGKLRCHYCGYQ 249 (505)
T ss_pred CCeEEcCCCcCc
Confidence 334556666543
No 198
>KOG2272|consensus
Probab=24.54 E-value=42 Score=30.72 Aligned_cols=126 Identities=16% Similarity=0.287 Sum_probs=0.0
Q ss_pred eeccccccccCCHHHHH---HHHHHcCCCC-------ceeccccccccCCHHHHHHHHHhcCCCCCccCCCCcccccCHH
Q psy4572 47 HKCEHCEKEFENRRALK---RHEKNHTQEK-------TFPCTVCLKMFKTKAQREEHIASHVTDSEFKCDQCPYVAKRIK 116 (345)
Q Consensus 47 ~~C~~C~k~F~~~~~L~---~H~~~h~~~k-------~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~ 116 (345)
|.|.+|.+...+...++ +++-.--.++ .|.|..|...... ..|.-.-...|+.. |+|..|++...+..
T Consensus 100 F~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~-~~l~fr~d~yH~yH-FkCt~C~keL~sda 177 (332)
T KOG2272|consen 100 FRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE-QPLTFRGDPYHPYH-FKCTTCGKELTSDA 177 (332)
T ss_pred chhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-ccccccCCCCCccc-eecccccccccchh
Q ss_pred HHHHH----HHHhcCCCccccCCCCCCcCCHHHHHHHHHHhcCCCCCCCcchhhccCCHHHHHH
Q psy4572 117 YLRYH----MKKHRKEYSAYCEPCQEGFFSRDKLETHNIAKHGAQPYQCETCRKLFLSKYSLFT 176 (345)
Q Consensus 117 ~L~~H----~~~h~~~~~~~C~~C~k~F~~~~~l~~H~~~hh~~k~y~C~~Cgk~F~s~s~L~~ 176 (345)
.-..- .+-|..-..-.|..|.+... .....-+-.|=....|.|..|.+-|-......+
T Consensus 178 Revk~eLyClrChD~mgipiCgaC~rpIe--ervi~amgKhWHveHFvCa~CekPFlGHrHYEk 239 (332)
T KOG2272|consen 178 REVKGELYCLRCHDKMGIPICGACRRPIE--ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEK 239 (332)
T ss_pred hhhccceeccccccccCCcccccccCchH--HHHHHHhccccchhheeehhcCCcccchhhhhh
No 199
>KOG3408|consensus
Probab=24.44 E-value=51 Score=26.71 Aligned_cols=27 Identities=11% Similarity=0.263 Sum_probs=22.7
Q ss_pred ceeecCccccccCCHHHHHHHHHHhcC
Q psy4572 188 LHYQCELCGKSFNNKQTFSLSNMYVLS 214 (345)
Q Consensus 188 k~y~C~~Cgk~F~~~~~L~~H~~~~H~ 214 (345)
..|.|-.|.+-|.+...|..|.+..-+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~ktK~H 82 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKTKVH 82 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhccHH
Confidence 359999999999999999999876544
No 200
>KOG4377|consensus
Probab=24.40 E-value=39 Score=33.07 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=8.1
Q ss_pred cccccCCHHHHHHHHHhc
Q psy4572 80 CLKMFKTKAQREEHIASH 97 (345)
Q Consensus 80 C~k~F~~~~~L~~H~~~h 97 (345)
|+..+..+.++.+|.+.|
T Consensus 279 C~ykr~~k~DvirH~~~h 296 (480)
T KOG4377|consen 279 CFYKRGQKNDVIRHVEIH 296 (480)
T ss_pred ccccccchhhhHHHHHHH
Confidence 444444444444444443
No 201
>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=24.08 E-value=31 Score=22.24 Aligned_cols=9 Identities=22% Similarity=0.600 Sum_probs=4.2
Q ss_pred eeccccccc
Q psy4572 75 FPCTVCLKM 83 (345)
Q Consensus 75 ~~C~~C~k~ 83 (345)
+.|+.||..
T Consensus 20 ~vC~~CG~V 28 (43)
T PF08271_consen 20 LVCPNCGLV 28 (43)
T ss_dssp EEETTT-BB
T ss_pred EECCCCCCE
Confidence 455555543
No 202
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.67 E-value=46 Score=26.59 Aligned_cols=14 Identities=21% Similarity=0.454 Sum_probs=9.5
Q ss_pred CceeccccccccCC
Q psy4572 45 GPHKCEHCEKEFEN 58 (345)
Q Consensus 45 ~~~~C~~C~k~F~~ 58 (345)
....|..|+..|..
T Consensus 69 ~~~~C~~Cg~~~~~ 82 (114)
T PRK03681 69 AECWCETCQQYVTL 82 (114)
T ss_pred cEEEcccCCCeeec
Confidence 45778888876554
No 203
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=23.64 E-value=38 Score=21.53 Aligned_cols=13 Identities=31% Similarity=0.963 Sum_probs=10.9
Q ss_pred eeecCccccccCC
Q psy4572 189 HYQCELCGKSFNN 201 (345)
Q Consensus 189 ~y~C~~Cgk~F~~ 201 (345)
||+|..|++.|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7899999998854
No 204
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=22.96 E-value=44 Score=33.04 Aligned_cols=13 Identities=23% Similarity=0.531 Sum_probs=6.4
Q ss_pred ceeccccccccCC
Q psy4572 74 TFPCTVCLKMFKT 86 (345)
Q Consensus 74 ~~~C~~C~k~F~~ 86 (345)
-|+|+.|+..+..
T Consensus 367 g~rC~kCg~~~~~ 379 (421)
T COG1571 367 GFRCKKCGTRARE 379 (421)
T ss_pred CcccccccccCCc
Confidence 3555555554443
No 205
>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=22.78 E-value=14 Score=23.26 Aligned_cols=8 Identities=38% Similarity=1.186 Sum_probs=3.8
Q ss_pred ceeecCcc
Q psy4572 188 LHYQCELC 195 (345)
Q Consensus 188 k~y~C~~C 195 (345)
..|.|..|
T Consensus 28 qryrC~~C 35 (36)
T PF03811_consen 28 QRYRCKDC 35 (36)
T ss_pred EeEecCcC
Confidence 34555544
No 206
>PRK12496 hypothetical protein; Provisional
Probab=22.07 E-value=44 Score=28.60 Aligned_cols=12 Identities=17% Similarity=0.661 Sum_probs=7.4
Q ss_pred ccccCCCCCCcC
Q psy4572 130 SAYCEPCQEGFF 141 (345)
Q Consensus 130 ~~~C~~C~k~F~ 141 (345)
.+.|+.|++.|.
T Consensus 127 ~~~C~gC~~~~~ 138 (164)
T PRK12496 127 RKVCKGCKKKYP 138 (164)
T ss_pred eEECCCCCcccc
Confidence 355777776664
No 207
>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=21.89 E-value=17 Score=26.43 Aligned_cols=12 Identities=17% Similarity=0.332 Sum_probs=6.7
Q ss_pred eeccccccccCC
Q psy4572 47 HKCEHCEKEFEN 58 (345)
Q Consensus 47 ~~C~~C~k~F~~ 58 (345)
++|+-|++.|.-
T Consensus 11 ~~~~cC~~~y~C 22 (71)
T PF05495_consen 11 IRFPCCGKYYPC 22 (71)
T ss_dssp EEETTTTEEESS
T ss_pred EECCcccCeecH
Confidence 455566665554
No 208
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=21.72 E-value=95 Score=21.42 Aligned_cols=18 Identities=17% Similarity=0.639 Sum_probs=12.2
Q ss_pred eecCccccccCCHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSL 207 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~ 207 (345)
+-|-.||..|.+...|.+
T Consensus 28 ~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDLER 45 (55)
T ss_pred ceeeeeCCccCCHHHHHh
Confidence 567777777777766654
No 209
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.49 E-value=39 Score=27.18 Aligned_cols=14 Identities=21% Similarity=0.627 Sum_probs=9.9
Q ss_pred CceeccccccccCC
Q psy4572 45 GPHKCEHCEKEFEN 58 (345)
Q Consensus 45 ~~~~C~~C~k~F~~ 58 (345)
..+.|..|+..|..
T Consensus 70 ~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 70 VELECKDCSHVFKP 83 (117)
T ss_pred CEEEhhhCCCcccc
Confidence 45788888876655
No 210
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=20.98 E-value=24 Score=23.36 Aligned_cols=37 Identities=24% Similarity=0.416 Sum_probs=18.7
Q ss_pred CCcchhhccCCHHHHHHHHhhhCCCCcCceeecCc--cccccCC
Q psy4572 160 QCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCEL--CGKSFNN 201 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~--Cgk~F~~ 201 (345)
.||.||....-......+... .+.-|+|.. ||..|..
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~-----~~~Y~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLT-----RELYCQCTNPECGHTFVA 39 (47)
T ss_pred CcCCCCCeeEEEEchhhCcce-----EEEEEEECCCcCCCEEEE
Confidence 377777654433332222111 233467765 8877753
No 211
>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=20.97 E-value=44 Score=26.51 Aligned_cols=30 Identities=17% Similarity=0.524 Sum_probs=20.8
Q ss_pred CCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHH
Q psy4572 160 QCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQ 203 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~ 203 (345)
.||.|+-.|... ....|.||.|+..+....
T Consensus 4 ~CP~C~seytY~--------------dg~~~iCpeC~~EW~~~~ 33 (109)
T TIGR00686 4 PCPKCNSEYTYH--------------DGTQLICPSCLYEWNENE 33 (109)
T ss_pred cCCcCCCcceEe--------------cCCeeECccccccccccc
Confidence 488887766543 223589999998887654
No 212
>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=20.95 E-value=21 Score=21.13 Aligned_cols=18 Identities=22% Similarity=0.724 Sum_probs=9.8
Q ss_pred eecCccccccCCHHHHHHH
Q psy4572 190 YQCELCGKSFNNKQTFSLS 208 (345)
Q Consensus 190 y~C~~Cgk~F~~~~~L~~H 208 (345)
|.|-.|++.| .....+.|
T Consensus 1 ~sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EEETTTTEEE-EGGGTTT-
T ss_pred CeeecCCCCc-CcCCcCCC
Confidence 4566777777 34444444
No 213
>KOG0320|consensus
Probab=20.92 E-value=82 Score=27.38 Aligned_cols=19 Identities=21% Similarity=0.546 Sum_probs=11.9
Q ss_pred CCCCceeccccccccCCHH
Q psy4572 42 KLDGPHKCEHCEKEFENRR 60 (345)
Q Consensus 42 ~~~~~~~C~~C~k~F~~~~ 60 (345)
..+..|.|++|-..|..+.
T Consensus 127 ~~~~~~~CPiCl~~~sek~ 145 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKV 145 (187)
T ss_pred ccccccCCCceecchhhcc
Confidence 3345588888877665543
No 214
>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=20.87 E-value=27 Score=21.88 Aligned_cols=8 Identities=25% Similarity=1.136 Sum_probs=3.6
Q ss_pred cccccccc
Q psy4572 77 CTVCLKMF 84 (345)
Q Consensus 77 C~~C~k~F 84 (345)
|+.||+.|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 44444444
No 215
>PRK10220 hypothetical protein; Provisional
Probab=20.76 E-value=55 Score=26.00 Aligned_cols=30 Identities=20% Similarity=0.662 Sum_probs=20.8
Q ss_pred CCcchhhccCCHHHHHHHHhhhCCCCcCceeecCccccccCCHH
Q psy4572 160 QCETCRKLFLSKYSLFTHNKKHLPIEERLHYQCELCGKSFNNKQ 203 (345)
Q Consensus 160 ~C~~Cgk~F~s~s~L~~H~~~H~~~~~~k~y~C~~Cgk~F~~~~ 203 (345)
.|+.|+-.|... ....|.|+.|+..+....
T Consensus 5 ~CP~C~seytY~--------------d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 5 HCPKCNSEYTYE--------------DNGMYICPECAHEWNDAE 34 (111)
T ss_pred cCCCCCCcceEc--------------CCCeEECCcccCcCCccc
Confidence 488887766543 223588999998887654
No 216
>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=20.50 E-value=40 Score=22.89 Aligned_cols=12 Identities=33% Similarity=1.113 Sum_probs=6.5
Q ss_pred ecCccccccCCH
Q psy4572 191 QCELCGKSFNNK 202 (345)
Q Consensus 191 ~C~~Cgk~F~~~ 202 (345)
.||+|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999999753
No 217
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=20.44 E-value=47 Score=25.85 Aligned_cols=14 Identities=29% Similarity=0.688 Sum_probs=11.3
Q ss_pred CceeecCccccccC
Q psy4572 187 RLHYQCELCGKSFN 200 (345)
Q Consensus 187 ~k~y~C~~Cgk~F~ 200 (345)
.++.+|+.||..|.
T Consensus 77 g~~~rC~eCG~~fk 90 (97)
T cd00924 77 GKPKRCPECGHVFK 90 (97)
T ss_pred CCceeCCCCCcEEE
Confidence 36889999998885
No 218
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=20.42 E-value=40 Score=21.78 Aligned_cols=14 Identities=50% Similarity=1.094 Sum_probs=9.0
Q ss_pred ceeecCccccccCC
Q psy4572 188 LHYQCELCGKSFNN 201 (345)
Q Consensus 188 k~y~C~~Cgk~F~~ 201 (345)
-|+.|+.|++.|=.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 47999999998853
No 219
>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=20.23 E-value=41 Score=26.78 Aligned_cols=27 Identities=30% Similarity=0.716 Sum_probs=15.0
Q ss_pred CceeccccccccCCHHHHHHHHHHcCCCCceeccccccc
Q psy4572 45 GPHKCEHCEKEFENRRALKRHEKNHTQEKTFPCTVCLKM 83 (345)
Q Consensus 45 ~~~~C~~C~k~F~~~~~L~~H~~~h~~~k~~~C~~C~k~ 83 (345)
....|..|+..|.-... .+.||.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEF------------DFSCPRCGSP 95 (113)
T ss_dssp -EEEETTTS-EEECHHC------------CHH-SSSSSS
T ss_pred CcEECCCCCCEEecCCC------------CCCCcCCcCC
Confidence 34778888887765432 1447777754
No 220
>PLN02294 cytochrome c oxidase subunit Vb
Probab=20.16 E-value=48 Score=28.52 Aligned_cols=16 Identities=19% Similarity=0.675 Sum_probs=12.4
Q ss_pred cCceeecCccccccCC
Q psy4572 186 ERLHYQCELCGKSFNN 201 (345)
Q Consensus 186 ~~k~y~C~~Cgk~F~~ 201 (345)
..++.+|+.||..|.-
T Consensus 138 kGkp~RCpeCG~~fkL 153 (174)
T PLN02294 138 KGKSFECPVCTQYFEL 153 (174)
T ss_pred CCCceeCCCCCCEEEE
Confidence 4468889999998853
No 221
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.16 E-value=44 Score=24.74 Aligned_cols=9 Identities=22% Similarity=0.840 Sum_probs=4.4
Q ss_pred eeccccccc
Q psy4572 47 HKCEHCEKE 55 (345)
Q Consensus 47 ~~C~~C~k~ 55 (345)
|+|..|+..
T Consensus 13 Y~c~~cg~~ 21 (82)
T COG2331 13 YECTECGNR 21 (82)
T ss_pred EeecccchH
Confidence 455555543
Done!