Query psy7463
Match_columns 319
No_of_seqs 316 out of 2470
Neff 10.5
Searched_HMMs 46136
Date Fri Aug 16 18:58:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7463.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7463hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 4.9E-29 1.1E-33 197.6 7.9 141 121-264 129-272 (279)
2 KOG1074|consensus 100.0 7.3E-30 1.6E-34 228.2 3.4 139 122-263 605-935 (958)
3 KOG3608|consensus 100.0 6.7E-28 1.4E-32 196.0 11.2 205 13-247 176-398 (467)
4 KOG2462|consensus 99.9 1.1E-28 2.3E-33 195.7 5.8 101 123-227 162-264 (279)
5 KOG3608|consensus 99.9 8.1E-27 1.8E-31 189.7 12.4 219 13-260 133-377 (467)
6 KOG3623|consensus 99.9 4E-22 8.8E-27 176.2 9.0 77 180-257 895-972 (1007)
7 KOG1074|consensus 99.9 1.4E-22 3.1E-27 181.9 3.7 207 12-235 603-935 (958)
8 KOG3623|consensus 99.9 4.4E-22 9.6E-27 176.0 5.1 75 153-227 895-971 (1007)
9 KOG3576|consensus 99.7 5.9E-18 1.3E-22 128.1 2.0 109 122-232 117-238 (267)
10 KOG3576|consensus 99.7 4.7E-17 1E-21 123.2 3.6 109 153-261 118-238 (267)
11 PLN03086 PRLI-interacting fact 99.4 8.2E-13 1.8E-17 118.4 9.8 146 69-232 408-566 (567)
12 PLN03086 PRLI-interacting fact 99.2 1.9E-11 4.1E-16 109.8 8.1 146 14-203 407-564 (567)
13 PHA00733 hypothetical protein 99.2 1.8E-11 3.9E-16 89.8 6.0 78 153-231 41-124 (128)
14 PHA00733 hypothetical protein 99.1 6.4E-11 1.4E-15 86.9 4.5 86 117-204 35-124 (128)
15 KOG3993|consensus 99.1 2.2E-11 4.7E-16 102.7 -0.3 84 10-93 263-382 (500)
16 KOG3993|consensus 99.0 4.3E-11 9.3E-16 100.9 -1.0 191 43-233 268-485 (500)
17 PHA02768 hypothetical protein; 99.0 2E-10 4.4E-15 69.1 2.0 40 180-220 6-45 (55)
18 PHA02768 hypothetical protein; 98.9 3E-10 6.4E-15 68.4 1.5 44 14-59 5-48 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.2E-08 2.7E-13 52.5 2.0 26 29-54 1-26 (26)
20 PHA00616 hypothetical protein 98.6 3.2E-08 7E-13 56.7 1.6 39 14-52 1-39 (44)
21 PHA00732 hypothetical protein 98.5 1.2E-07 2.7E-12 62.9 2.8 46 153-203 2-48 (79)
22 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.4E-07 3.1E-12 48.5 1.6 9 207-215 15-23 (26)
23 PHA00616 hypothetical protein 98.4 2E-07 4.4E-12 53.4 1.9 32 179-210 1-33 (44)
24 PHA00732 hypothetical protein 98.3 2.8E-07 6.1E-12 61.2 2.2 49 14-68 1-50 (79)
25 PF05605 zf-Di19: Drought indu 98.3 1.2E-06 2.6E-11 54.1 4.4 50 123-175 3-52 (54)
26 PF05605 zf-Di19: Drought indu 98.3 1.7E-06 3.6E-11 53.4 4.2 48 180-230 3-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 98.0 3.6E-06 7.8E-11 41.9 2.0 23 15-37 1-23 (23)
28 PF12756 zf-C2H2_2: C2H2 type 98.0 6.1E-06 1.3E-10 58.4 2.9 72 155-229 2-73 (100)
29 PF00096 zf-C2H2: Zinc finger, 97.9 6.3E-06 1.4E-10 41.0 1.7 21 207-227 1-21 (23)
30 PF13894 zf-C2H2_4: C2H2-type 97.8 1.4E-05 3.1E-10 40.1 2.3 24 207-230 1-24 (24)
31 PF12756 zf-C2H2_2: C2H2 type 97.8 1.2E-05 2.5E-10 56.9 2.1 73 124-202 1-73 (100)
32 PF13894 zf-C2H2_4: C2H2-type 97.8 2.1E-05 4.7E-10 39.4 2.2 24 15-38 1-24 (24)
33 KOG2231|consensus 97.7 0.00011 2.3E-09 67.8 7.4 124 45-200 118-260 (669)
34 PF13912 zf-C2H2_6: C2H2-type 97.6 2.3E-05 5E-10 40.7 1.2 25 14-38 1-25 (27)
35 PF13912 zf-C2H2_6: C2H2-type 97.5 4.2E-05 9E-10 39.7 1.3 20 207-226 2-21 (27)
36 COG5189 SFP1 Putative transcri 97.4 4E-05 8.7E-10 63.1 -0.1 51 177-227 347-419 (423)
37 COG5189 SFP1 Putative transcri 97.3 5.3E-05 1.1E-09 62.4 0.0 51 149-200 347-419 (423)
38 COG5236 Uncharacterized conser 97.1 0.0013 2.9E-08 55.0 5.7 136 122-261 151-307 (493)
39 PF09237 GAGA: GAGA factor; I 97.1 0.00078 1.7E-08 39.6 3.1 31 12-42 22-52 (54)
40 PF13909 zf-H2C2_5: C2H2-type 97.0 0.0005 1.1E-08 34.4 2.0 23 207-230 1-23 (24)
41 KOG2231|consensus 97.0 0.0024 5.1E-08 59.2 7.1 130 15-183 100-275 (669)
42 smart00355 ZnF_C2H2 zinc finge 97.0 0.00066 1.4E-08 34.4 2.2 20 208-227 2-21 (26)
43 smart00355 ZnF_C2H2 zinc finge 96.9 0.00082 1.8E-08 34.1 2.3 23 15-37 1-23 (26)
44 PF12874 zf-met: Zinc-finger o 96.7 0.00074 1.6E-08 34.1 1.2 22 15-36 1-22 (25)
45 PF13909 zf-H2C2_5: C2H2-type 96.7 0.0015 3.3E-08 32.6 2.0 23 15-38 1-23 (24)
46 PF09237 GAGA: GAGA factor; I 96.6 0.0012 2.7E-08 38.8 1.7 26 206-231 24-49 (54)
47 COG5236 Uncharacterized conser 96.6 0.0046 9.9E-08 51.9 5.6 76 154-232 222-307 (493)
48 KOG2482|consensus 96.6 0.0086 1.9E-07 50.3 7.1 140 123-262 145-361 (423)
49 PF12874 zf-met: Zinc-finger o 96.5 0.001 2.3E-08 33.6 0.9 20 208-227 2-21 (25)
50 PRK04860 hypothetical protein; 96.5 0.0015 3.3E-08 49.9 1.8 39 13-55 118-156 (160)
51 KOG1146|consensus 96.5 0.0014 3.1E-08 64.3 2.0 110 124-234 438-617 (1406)
52 KOG2482|consensus 96.4 0.017 3.6E-07 48.6 7.6 162 58-227 131-355 (423)
53 KOG4173|consensus 96.0 0.0048 1E-07 47.9 2.2 83 152-236 79-176 (253)
54 PF12171 zf-C2H2_jaz: Zinc-fin 95.9 0.0018 3.9E-08 33.4 -0.2 19 181-199 3-21 (27)
55 KOG1146|consensus 95.8 0.0066 1.4E-07 59.9 3.1 73 156-228 440-540 (1406)
56 KOG2785|consensus 95.8 0.02 4.3E-07 49.1 5.4 51 179-229 166-243 (390)
57 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.004 8.6E-08 32.1 0.5 22 43-64 2-23 (27)
58 PRK04860 hypothetical protein; 95.6 0.0041 8.9E-08 47.6 0.6 35 179-217 119-154 (160)
59 KOG4173|consensus 95.0 0.037 8.1E-07 43.1 4.1 91 14-149 79-173 (253)
60 PF13913 zf-C2HC_2: zinc-finge 94.8 0.026 5.7E-07 28.4 1.9 20 207-227 3-22 (25)
61 PF13913 zf-C2HC_2: zinc-finge 94.8 0.027 5.8E-07 28.4 2.0 19 181-200 4-22 (25)
62 smart00451 ZnF_U1 U1-like zinc 94.0 0.037 8.1E-07 30.3 1.6 23 14-36 3-25 (35)
63 KOG2893|consensus 93.7 0.02 4.4E-07 45.6 0.2 49 13-65 9-58 (341)
64 smart00451 ZnF_U1 U1-like zinc 93.6 0.049 1.1E-06 29.8 1.6 22 206-227 3-24 (35)
65 PF12013 DUF3505: Protein of u 93.4 0.13 2.9E-06 36.8 4.1 78 153-231 12-109 (109)
66 KOG2893|consensus 92.9 0.032 6.9E-07 44.5 0.1 42 154-198 12-53 (341)
67 KOG2785|consensus 92.5 0.45 9.7E-06 41.1 6.4 137 123-260 4-245 (390)
68 COG4049 Uncharacterized protei 92.4 0.095 2.1E-06 31.5 1.7 32 7-38 10-41 (65)
69 cd00350 rubredoxin_like Rubred 91.9 0.062 1.3E-06 29.1 0.5 10 153-162 2-11 (33)
70 COG5048 FOG: Zn-finger [Genera 91.7 0.015 3.2E-07 52.7 -3.5 56 13-68 288-349 (467)
71 COG4049 Uncharacterized protei 91.4 0.09 2E-06 31.5 0.8 27 206-232 17-43 (65)
72 KOG2186|consensus 90.6 0.16 3.4E-06 41.2 1.8 47 179-227 3-49 (276)
73 TIGR00622 ssl1 transcription f 90.3 0.4 8.6E-06 34.1 3.4 20 122-141 15-34 (112)
74 PF12013 DUF3505: Protein of u 89.7 0.56 1.2E-05 33.5 3.9 70 123-204 12-109 (109)
75 COG5048 FOG: Zn-finger [Genera 89.3 0.078 1.7E-06 48.0 -1.0 120 122-243 289-454 (467)
76 PF09538 FYDLN_acid: Protein o 86.7 0.43 9.3E-06 33.9 1.7 11 16-26 11-21 (108)
77 KOG2186|consensus 86.6 0.35 7.6E-06 39.2 1.3 47 14-63 3-49 (276)
78 PF02892 zf-BED: BED zinc fing 84.9 0.61 1.3E-05 27.1 1.5 25 206-230 16-44 (45)
79 PF09538 FYDLN_acid: Protein o 84.6 0.53 1.1E-05 33.5 1.3 31 179-219 9-39 (108)
80 PF06524 NOA36: NOA36 protein; 84.1 0.55 1.2E-05 38.3 1.3 93 118-227 138-230 (314)
81 PF12907 zf-met2: Zinc-binding 84.1 0.64 1.4E-05 26.3 1.2 29 207-235 2-33 (40)
82 TIGR02098 MJ0042_CXXC MJ0042 f 83.9 0.64 1.4E-05 25.9 1.2 14 123-136 3-16 (38)
83 cd00729 rubredoxin_SM Rubredox 83.4 0.66 1.4E-05 25.2 1.1 9 153-161 3-11 (34)
84 TIGR00373 conserved hypothetic 82.4 1.4 3.1E-05 33.8 3.0 35 38-79 105-139 (158)
85 COG2888 Predicted Zn-ribbon RN 81.5 0.97 2.1E-05 27.8 1.4 10 177-186 48-57 (61)
86 PF13719 zinc_ribbon_5: zinc-r 81.5 1 2.2E-05 25.0 1.4 12 124-135 4-15 (37)
87 smart00531 TFIIE Transcription 81.4 1.3 2.8E-05 33.6 2.4 38 39-79 96-134 (147)
88 smart00614 ZnF_BED BED zinc fi 81.3 1.3 2.8E-05 26.5 1.9 25 207-231 19-48 (50)
89 PF13717 zinc_ribbon_4: zinc-r 79.8 1.5 3.2E-05 24.2 1.6 12 124-135 4-15 (36)
90 PF09986 DUF2225: Uncharacteri 79.6 0.34 7.3E-06 39.3 -1.4 16 122-137 5-20 (214)
91 smart00734 ZnF_Rad18 Rad18-lik 79.2 1.9 4E-05 21.8 1.8 19 208-227 3-21 (26)
92 PF09986 DUF2225: Uncharacteri 78.2 0.38 8.1E-06 39.1 -1.5 13 207-219 49-61 (214)
93 PRK06266 transcription initiat 77.7 2.2 4.8E-05 33.5 2.7 33 40-79 115-147 (178)
94 PF15269 zf-C2H2_7: Zinc-finge 77.6 2.1 4.6E-05 24.5 1.8 22 206-227 20-41 (54)
95 smart00659 RPOLCX RNA polymera 77.2 1.1 2.3E-05 26.1 0.6 10 180-189 3-12 (44)
96 COG1592 Rubrerythrin [Energy p 75.9 1.3 2.7E-05 34.1 0.9 10 153-162 135-144 (166)
97 TIGR00373 conserved hypothetic 75.7 1.6 3.4E-05 33.6 1.4 34 10-52 105-138 (158)
98 PF04959 ARS2: Arsenite-resist 74.8 2.1 4.5E-05 34.5 1.9 28 206-233 77-104 (214)
99 PRK00398 rpoP DNA-directed RNA 74.7 1.6 3.4E-05 25.6 0.9 10 123-132 4-13 (46)
100 PHA00626 hypothetical protein 74.6 1.5 3.2E-05 26.6 0.7 11 153-163 24-34 (59)
101 PRK06266 transcription initiat 74.2 1.6 3.5E-05 34.2 1.1 34 11-53 114-147 (178)
102 KOG2071|consensus 72.8 3.9 8.5E-05 37.8 3.3 32 284-315 511-545 (579)
103 smart00834 CxxC_CXXC_SSSS Puta 72.0 0.79 1.7E-05 25.9 -0.8 12 15-26 6-17 (41)
104 TIGR02605 CxxC_CxxC_SSSS putat 71.4 0.85 1.8E-05 27.5 -0.8 11 43-53 6-16 (52)
105 PF14353 CpXC: CpXC protein 70.8 3.5 7.6E-05 30.3 2.2 45 181-227 3-59 (128)
106 smart00531 TFIIE Transcription 70.7 3.3 7E-05 31.4 2.0 39 10-52 95-133 (147)
107 PRK14890 putative Zn-ribbon RN 70.4 2.5 5.3E-05 26.1 1.0 9 178-186 47-55 (59)
108 TIGR02300 FYDLN_acid conserved 69.5 2.8 6.2E-05 30.4 1.4 28 16-54 11-38 (129)
109 TIGR00622 ssl1 transcription f 69.3 2.9 6.2E-05 29.8 1.3 22 12-33 13-34 (112)
110 COG1996 RPC10 DNA-directed RNA 69.1 1.8 3.9E-05 25.7 0.3 10 153-162 7-16 (49)
111 KOG1701|consensus 68.7 0.64 1.4E-05 40.8 -2.4 40 16-55 276-315 (468)
112 COG1592 Rubrerythrin [Energy p 68.0 2.8 6.1E-05 32.3 1.2 24 122-160 134-157 (166)
113 COG1198 PriA Primosomal protei 67.1 4 8.6E-05 39.5 2.2 28 146-188 457-484 (730)
114 PF03604 DNA_RNApol_7kD: DNA d 67.0 3 6.6E-05 22.3 0.9 9 179-187 17-25 (32)
115 PF05443 ROS_MUCR: ROS/MUCR tr 66.5 4 8.6E-05 30.2 1.7 28 12-42 70-97 (132)
116 PF08274 PhnA_Zn_Ribbon: PhnA 66.3 2.5 5.4E-05 22.2 0.4 8 206-213 19-26 (30)
117 PRK00464 nrdR transcriptional 65.9 0.78 1.7E-05 34.9 -2.2 16 43-58 29-44 (154)
118 PF09723 Zn-ribbon_8: Zinc rib 65.6 0.86 1.9E-05 26.2 -1.5 10 43-52 6-15 (42)
119 PRK04023 DNA polymerase II lar 65.5 5.3 0.00011 39.6 2.7 13 206-218 663-675 (1121)
120 PF10571 UPF0547: Uncharacteri 64.3 5.7 0.00012 20.1 1.5 9 124-132 16-24 (26)
121 PF05443 ROS_MUCR: ROS/MUCR tr 59.0 5.8 0.00013 29.3 1.4 24 179-205 72-95 (132)
122 KOG1280|consensus 58.3 8.9 0.00019 33.0 2.5 39 122-160 79-117 (381)
123 KOG2272|consensus 57.7 6.4 0.00014 32.2 1.5 13 153-165 222-234 (332)
124 KOG2593|consensus 57.1 9.9 0.00021 33.9 2.7 40 38-78 124-163 (436)
125 PF02176 zf-TRAF: TRAF-type zi 56.0 6.1 0.00013 24.4 1.0 39 14-53 9-53 (60)
126 KOG2272|consensus 54.6 8.6 0.00019 31.4 1.8 63 123-192 164-234 (332)
127 PF04959 ARS2: Arsenite-resist 54.1 9.8 0.00021 30.8 2.1 26 122-147 77-102 (214)
128 KOG4167|consensus 54.1 5.2 0.00011 38.0 0.6 27 12-38 790-816 (907)
129 KOG2907|consensus 54.1 6.8 0.00015 27.7 1.0 40 123-164 75-114 (116)
130 PRK09678 DNA-binding transcrip 53.4 2.7 5.9E-05 27.4 -1.0 9 15-23 2-10 (72)
131 TIGR00595 priA primosomal prot 53.4 9.3 0.0002 35.6 2.1 30 144-188 233-262 (505)
132 KOG1280|consensus 53.0 16 0.00035 31.5 3.2 36 178-213 78-116 (381)
133 PF04780 DUF629: Protein of un 52.4 10 0.00023 34.4 2.1 27 207-233 58-84 (466)
134 KOG1842|consensus 51.8 9.1 0.0002 34.1 1.6 29 206-234 15-43 (505)
135 KOG2593|consensus 49.3 9.3 0.0002 34.0 1.3 35 178-215 127-162 (436)
136 PF07754 DUF1610: Domain of un 48.9 7.2 0.00016 19.3 0.3 11 12-22 14-24 (24)
137 KOG4167|consensus 48.8 5.6 0.00012 37.7 -0.1 25 43-67 793-817 (907)
138 smart00440 ZnF_C2C2 C2C2 Zinc 47.7 3.2 6.9E-05 23.5 -1.2 11 152-162 28-38 (40)
139 COG1997 RPL43A Ribosomal prote 47.7 20 0.00044 24.1 2.4 12 153-164 54-65 (89)
140 KOG2807|consensus 44.7 35 0.00075 29.3 3.9 25 179-203 345-369 (378)
141 PRK04023 DNA polymerase II lar 44.5 16 0.00036 36.4 2.3 10 123-132 664-673 (1121)
142 PF12760 Zn_Tnp_IS1595: Transp 43.6 17 0.00036 21.2 1.4 8 180-187 19-26 (46)
143 COG4957 Predicted transcriptio 43.3 12 0.00026 27.4 0.9 26 14-42 76-101 (148)
144 PF05290 Baculo_IE-1: Baculovi 43.1 6.2 0.00014 28.9 -0.5 14 151-164 79-92 (140)
145 TIGR01206 lysW lysine biosynth 43.0 8.1 0.00018 23.6 0.0 9 207-215 23-31 (54)
146 PF13878 zf-C2H2_3: zinc-finge 41.7 25 0.00055 19.9 1.9 22 181-202 15-38 (41)
147 PF05191 ADK_lid: Adenylate ki 41.7 7.3 0.00016 21.5 -0.3 9 124-132 3-11 (36)
148 PRK03824 hypA hydrogenase nick 41.6 7.3 0.00016 29.0 -0.4 14 13-26 69-82 (135)
149 KOG1842|consensus 40.4 16 0.00035 32.7 1.4 28 123-150 16-43 (505)
150 COG4530 Uncharacterized protei 39.5 14 0.00031 25.9 0.8 27 180-216 10-36 (129)
151 PF13240 zinc_ribbon_2: zinc-r 39.5 8.3 0.00018 18.8 -0.3 6 17-22 2-7 (23)
152 COG3357 Predicted transcriptio 39.5 18 0.00039 24.5 1.2 11 154-164 60-70 (97)
153 KOG2636|consensus 38.8 20 0.00044 32.1 1.8 28 173-200 394-423 (497)
154 PRK05580 primosome assembly pr 38.5 21 0.00046 34.6 2.1 22 153-188 409-430 (679)
155 PRK14873 primosome assembly pr 37.9 20 0.00044 34.6 1.8 8 124-131 385-392 (665)
156 KOG0717|consensus 37.8 19 0.00041 32.5 1.5 23 206-228 292-314 (508)
157 PF04780 DUF629: Protein of un 36.9 25 0.00053 32.1 2.1 28 123-150 58-85 (466)
158 PF06524 NOA36: NOA36 protein; 36.9 11 0.00023 31.1 -0.1 91 88-202 136-232 (314)
159 KOG3408|consensus 36.7 25 0.00055 25.3 1.7 22 14-35 57-78 (129)
160 KOG4377|consensus 36.7 14 0.00031 32.6 0.5 25 180-204 402-428 (480)
161 PF01363 FYVE: FYVE zinc finge 36.3 22 0.00047 22.7 1.3 28 13-52 8-35 (69)
162 COG0068 HypF Hydrogenase matur 36.1 5.4 0.00012 37.9 -2.2 58 124-188 125-182 (750)
163 PF01286 XPA_N: XPA protein N- 36.0 4.8 0.0001 21.9 -1.5 9 182-190 6-14 (34)
164 COG2331 Uncharacterized protei 36.0 21 0.00046 23.3 1.1 10 43-52 13-22 (82)
165 COG5151 SSL1 RNA polymerase II 35.7 20 0.00043 30.4 1.2 12 69-80 389-400 (421)
166 PRK00432 30S ribosomal protein 35.3 15 0.00032 22.0 0.3 8 207-214 38-45 (50)
167 COG3091 SprT Zn-dependent meta 34.4 15 0.00033 27.6 0.3 32 13-49 116-147 (156)
168 PF06220 zf-U1: U1 zinc finger 34.0 31 0.00066 19.3 1.4 11 14-24 3-13 (38)
169 COG5151 SSL1 RNA polymerase II 33.5 19 0.0004 30.6 0.7 22 206-227 388-409 (421)
170 PTZ00255 60S ribosomal protein 33.2 37 0.0008 23.2 2.0 11 153-163 55-65 (90)
171 smart00154 ZnF_AN1 AN1-like Zi 33.2 18 0.0004 20.3 0.5 14 14-27 12-25 (39)
172 PF08209 Sgf11: Sgf11 (transcr 33.1 21 0.00046 19.2 0.7 22 69-90 5-26 (33)
173 COG4888 Uncharacterized Zn rib 32.8 8.2 0.00018 26.7 -1.2 12 12-23 20-31 (104)
174 PF13453 zf-TFIIB: Transcripti 32.1 19 0.0004 20.4 0.4 20 41-60 18-37 (41)
175 PRK12380 hydrogenase nickel in 32.0 23 0.0005 25.4 0.9 10 153-162 71-80 (113)
176 PF08271 TF_Zn_Ribbon: TFIIB z 31.7 23 0.0005 20.2 0.7 10 153-162 20-29 (43)
177 COG1594 RPB9 DNA-directed RNA 31.4 14 0.0003 26.6 -0.3 40 122-163 72-111 (113)
178 KOG3408|consensus 30.6 37 0.00079 24.5 1.7 23 42-64 57-79 (129)
179 PF01780 Ribosomal_L37ae: Ribo 30.6 22 0.00047 24.3 0.5 11 153-163 54-64 (90)
180 PF14446 Prok-RING_1: Prokaryo 30.6 28 0.0006 21.2 0.9 10 16-25 7-16 (54)
181 KOG4124|consensus 30.5 6.3 0.00014 33.8 -2.4 50 178-227 348-419 (442)
182 TIGR00280 L37a ribosomal prote 30.5 36 0.00077 23.3 1.5 11 153-163 54-64 (91)
183 PF14803 Nudix_N_2: Nudix N-te 30.2 18 0.00038 19.7 0.1 8 153-160 23-30 (34)
184 PF01096 TFIIS_C: Transcriptio 29.8 2.2 4.7E-05 24.0 -3.7 11 152-162 28-38 (39)
185 PF01155 HypA: Hydrogenase exp 28.9 16 0.00035 26.2 -0.3 10 123-132 71-80 (113)
186 KOG2636|consensus 28.9 34 0.00073 30.7 1.6 29 35-63 394-423 (497)
187 PF07649 C1_3: C1-like domain; 28.7 25 0.00053 18.2 0.5 9 206-214 15-23 (30)
188 cd00065 FYVE FYVE domain; Zinc 28.3 32 0.0007 20.8 1.0 10 16-25 4-13 (57)
189 PF11931 DUF3449: Domain of un 27.5 20 0.00044 28.5 0.0 22 41-62 100-122 (196)
190 KOG2807|consensus 27.4 68 0.0015 27.6 3.0 22 69-90 346-368 (378)
191 PF03145 Sina: Seven in absent 27.2 42 0.00092 26.8 1.8 52 179-232 14-73 (198)
192 PF01428 zf-AN1: AN1-like Zinc 27.0 21 0.00046 20.4 0.0 15 13-27 12-26 (43)
193 TIGR03826 YvyF flagellar opero 26.7 92 0.002 23.3 3.3 10 123-132 82-91 (137)
194 PF07282 OrfB_Zn_ribbon: Putat 26.7 43 0.00092 21.3 1.4 10 69-78 47-56 (69)
195 COG5112 UFD2 U1-like Zn-finger 26.0 55 0.0012 22.9 1.9 21 207-227 56-76 (126)
196 COG1655 Uncharacterized protei 26.0 15 0.00033 29.7 -0.9 16 121-136 18-33 (267)
197 PRK03976 rpl37ae 50S ribosomal 25.8 47 0.001 22.7 1.5 11 153-163 55-65 (90)
198 PF09332 Mcm10: Mcm10 replicat 25.8 9.4 0.0002 33.3 -2.3 41 123-163 253-296 (344)
199 PF13824 zf-Mss51: Zinc-finger 25.7 42 0.00092 20.5 1.1 13 40-52 12-24 (55)
200 smart00661 RPOL9 RNA polymeras 25.5 13 0.00028 22.1 -1.2 10 153-162 21-30 (52)
201 PRK00564 hypA hydrogenase nick 25.5 37 0.00079 24.6 1.0 8 123-130 72-79 (117)
202 TIGR00515 accD acetyl-CoA carb 25.4 43 0.00093 28.6 1.6 31 123-164 27-57 (285)
203 TIGR00100 hypA hydrogenase nic 25.4 24 0.00052 25.4 0.1 11 43-53 71-81 (115)
204 PF04423 Rad50_zn_hook: Rad50 25.4 25 0.00055 21.2 0.2 13 208-220 22-34 (54)
205 PF10276 zf-CHCC: Zinc-finger 25.3 33 0.00071 19.5 0.6 12 13-24 28-39 (40)
206 KOG4377|consensus 25.2 25 0.00055 31.1 0.2 21 126-147 277-297 (480)
207 KOG0717|consensus 25.0 36 0.00078 30.8 1.1 22 180-201 293-314 (508)
208 PHA02998 RNA polymerase subuni 24.7 17 0.00036 28.2 -0.9 14 151-164 170-183 (195)
209 PF14311 DUF4379: Domain of un 24.6 45 0.00097 20.2 1.2 12 15-26 29-40 (55)
210 KOG3002|consensus 24.6 78 0.0017 27.2 3.0 77 153-232 81-165 (299)
211 CHL00174 accD acetyl-CoA carbo 24.4 44 0.00096 28.6 1.5 31 123-164 39-69 (296)
212 PF13451 zf-trcl: Probable zin 24.2 30 0.00065 20.6 0.3 16 12-27 2-17 (49)
213 PF07975 C1_4: TFIIH C1-like d 24.2 31 0.00066 20.8 0.3 24 41-64 20-43 (51)
214 PF14369 zf-RING_3: zinc-finge 23.9 38 0.00082 18.5 0.6 12 14-25 2-13 (35)
215 PRK14714 DNA polymerase II lar 23.9 63 0.0014 33.4 2.6 10 123-132 693-702 (1337)
216 COG4896 Uncharacterized protei 23.4 46 0.001 20.7 1.0 35 16-50 4-39 (68)
217 COG3364 Zn-ribbon containing p 23.4 40 0.00088 23.4 0.8 12 43-54 3-14 (112)
218 PRK00420 hypothetical protein; 23.3 34 0.00075 24.5 0.5 27 43-78 24-50 (112)
219 KOG0782|consensus 23.2 11 0.00023 34.9 -2.5 58 129-192 232-289 (1004)
220 PRK03681 hypA hydrogenase nick 23.1 41 0.00088 24.2 0.9 10 153-162 71-80 (114)
221 smart00064 FYVE Protein presen 22.9 57 0.0012 20.6 1.5 26 15-52 11-36 (68)
222 KOG3362|consensus 22.7 25 0.00053 26.2 -0.3 19 180-198 130-148 (156)
223 KOG4118|consensus 22.6 45 0.00097 21.0 0.8 27 207-233 39-65 (74)
224 PRK04351 hypothetical protein; 22.5 31 0.00068 26.2 0.2 11 206-216 132-142 (149)
225 COG1571 Predicted DNA-binding 22.4 43 0.00094 30.1 1.1 14 206-219 367-380 (421)
226 COG1998 RPS31 Ribosomal protei 22.2 57 0.0012 19.4 1.2 9 153-161 38-46 (51)
227 PLN02294 cytochrome c oxidase 21.8 27 0.00058 27.0 -0.3 17 201-217 136-152 (174)
228 KOG0696|consensus 21.3 20 0.00043 32.2 -1.2 54 153-214 74-129 (683)
229 PF10013 DUF2256: Uncharacteri 21.3 63 0.0014 18.5 1.2 17 207-223 9-25 (42)
230 PF10263 SprT-like: SprT-like 21.0 20 0.00044 27.2 -1.1 10 153-162 124-133 (157)
231 KOG4317|consensus 20.9 22 0.00049 30.2 -0.9 20 179-198 19-38 (383)
232 COG1773 Rubredoxin [Energy pro 20.6 40 0.00087 20.6 0.3 10 43-52 4-13 (55)
233 PRK05654 acetyl-CoA carboxylas 20.1 56 0.0012 28.0 1.2 31 123-164 28-58 (292)
No 1
>KOG2462|consensus
Probab=99.96 E-value=4.9e-29 Score=197.65 Aligned_cols=141 Identities=23% Similarity=0.401 Sum_probs=129.0
Q ss_pred cccccCCCccccCChhHHHHHHhHhcCC--CCccccccccccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHHH
Q psy7463 121 IKLQCNLCADTFCPRSNMLRHYLLKHRG--DKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIH 198 (319)
Q Consensus 121 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~--~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H 198 (319)
.+|+|+.||+.+.+.++|.+|. .+|.. ++..+.|++|++.|.+...|+.|+++|+ -+++|.+|||.|...+.|+.|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHk-Q~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~-l~c~C~iCGKaFSRPWLLQGH 206 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHK-QTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT-LPCECGICGKAFSRPWLLQGH 206 (279)
T ss_pred Cceeccccccccccccccchhh-cccccccccccccCCCCCceeeehHHHhhHhhccC-CCcccccccccccchHHhhcc
Confidence 3499999999999999999998 77853 3445899999999999999999999987 579999999999999999999
Q ss_pred HHhcCCC-cccccccccccCChHHHHHHHHhhccccccccccchhhhhhhhhhHHHHHhcCCCCCCC
Q psy7463 199 MNMHNGF-KYQCHICLKCTSRKNYLKRHIIMMHTKFEGQIGEMEDKVGEKKIGEIEAKVGEGNQGKE 264 (319)
Q Consensus 199 ~~~h~~~-~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~ 264 (319)
+|+|+|+ ||.|+.|++.|..+++|+.||+ .|++.+.|.|..|+|.|..++-|.+|..+.-.....
T Consensus 207 iRTHTGEKPF~C~hC~kAFADRSNLRAHmQ-THS~~K~~qC~~C~KsFsl~SyLnKH~ES~C~~~~~ 272 (279)
T KOG2462|consen 207 IRTHTGEKPFSCPHCGKAFADRSNLRAHMQ-THSDVKKHQCPRCGKSFALKSYLNKHSESACLKYLA 272 (279)
T ss_pred cccccCCCCccCCcccchhcchHHHHHHHH-hhcCCccccCcchhhHHHHHHHHHHhhhhccccccc
Confidence 9999998 8999999999999999999999 999999999999999999999999998875554443
No 2
>KOG1074|consensus
Probab=99.95 E-value=7.3e-30 Score=228.23 Aligned_cols=139 Identities=23% Similarity=0.418 Sum_probs=127.8
Q ss_pred ccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhc-----CCCCccC---chhhccCCHH
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHE-----RIAYQCN---VCDKKYSRLS 193 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-----~~~~~C~---~C~~~f~~~~ 193 (319)
+-+|-+|.++..-.++|+.|. ++|+||+| |+|.+||++|.++.+|+.|+.+|. ...+.|+ +|.+.|.+.-
T Consensus 605 PNqCiiC~rVlSC~saLqmHy-rtHtGERP-FkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHY-RTHTGERP-FKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred ccceeeeeecccchhhhhhhh-hcccCcCc-cccccccchhccccchhhcccccccCccccccccCCchhhhcccccccc
Confidence 478999999999999999999 99999999 999999999999999999999996 3468999 9999999999
Q ss_pred HHHHHHHhcC----------------------------------------------------------------------
Q psy7463 194 DYKIHMNMHN---------------------------------------------------------------------- 203 (319)
Q Consensus 194 ~l~~H~~~h~---------------------------------------------------------------------- 203 (319)
.|..|+++|.
T Consensus 683 ~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~ 762 (958)
T KOG1074|consen 683 TLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENS 762 (958)
T ss_pred cccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccc
Confidence 9999999985
Q ss_pred --------------------------------------------------------------------------------
Q psy7463 204 -------------------------------------------------------------------------------- 203 (319)
Q Consensus 204 -------------------------------------------------------------------------------- 203 (319)
T Consensus 763 ~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~ 842 (958)
T KOG1074|consen 763 CGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLA 842 (958)
T ss_pred cccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccc
Confidence
Q ss_pred ----------------------------CC------cccccccccccCChHHHHHHHHhhccccccccccchhhhhhhhh
Q psy7463 204 ----------------------------GF------KYQCHICLKCTSRKNYLKRHIIMMHTKFEGQIGEMEDKVGEKKI 249 (319)
Q Consensus 204 ----------------------------~~------~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~c~~c~~~~~~~~ 249 (319)
+. +..|.+|++.|.+.+.|..|++ .|+++++|.|.+|+++|..+.
T Consensus 843 t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~r-THtg~KPF~C~fC~~aFttrg 921 (958)
T KOG1074|consen 843 TKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMR-THTGPKPFFCHFCEEAFTTRG 921 (958)
T ss_pred cccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhh-cCCCCCCccchhhhhhhhhhh
Confidence 11 2789999999999999999999 999999999999999999999
Q ss_pred hHHHHHhcCCCCCC
Q psy7463 250 GEIEAKVGEGNQGK 263 (319)
Q Consensus 250 ~~~~~~~~~~~~~~ 263 (319)
.|..|+..+.+...
T Consensus 922 nLKvHMgtH~w~q~ 935 (958)
T KOG1074|consen 922 NLKVHMGTHMWVQP 935 (958)
T ss_pred hhhhhhccccccCC
Confidence 99999998777643
No 3
>KOG3608|consensus
Probab=99.95 E-value=6.7e-28 Score=196.03 Aligned_cols=205 Identities=24% Similarity=0.520 Sum_probs=181.9
Q ss_pred ccccccc--chhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHHHHHHhcc----CCccccccchhhhh-HHHHH
Q psy7463 13 VPQKCPL--CERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYEEHVRLHE----GGIICRLCGEKFEK-SLMRD 85 (319)
Q Consensus 13 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~----~~~~C~~C~~~f~~-~~l~~ 85 (319)
..+.|.+ |-+.+.+++.|++|++.|++++...|+.|+..|.++..|..|++..+ +.|+|..|.+.|.+ ..|..
T Consensus 176 pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~ 255 (467)
T KOG3608|consen 176 PVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKS 255 (467)
T ss_pred ceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHH
Confidence 3467765 99999999999999999999999999999999999999999988654 34999999999999 89999
Q ss_pred HHhhcCCCCCCCCcCccccchhhhHHHHHHhhhCCcccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCCh
Q psy7463 86 HLVTHIPPEHRGKVSDAFFNKKQTALLTHYLKRNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLL 165 (319)
Q Consensus 86 H~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~ 165 (319)
|+..|.. -|+|+.|+.+....++|..|++..|..++| |+|+.|++.|.+.
T Consensus 256 Hv~rHvn-----------------------------~ykCplCdmtc~~~ssL~~H~r~rHs~dkp-fKCd~Cd~~c~~e 305 (467)
T KOG3608|consen 256 HVVRHVN-----------------------------CYKCPLCDMTCSSASSLTTHIRYRHSKDKP-FKCDECDTRCVRE 305 (467)
T ss_pred HHHHhhh-----------------------------cccccccccCCCChHHHHHHHHhhhccCCC-ccccchhhhhccH
Confidence 9998842 389999999999999999999999999999 9999999999999
Q ss_pred HHHHHHHHHhcCCCCccCc--hhhccCCHHHHHHHHHhcC-CC---cccccccccccCChHHHHHHHHhhcccccc----
Q psy7463 166 QNLKRHLAIHERIAYQCNV--CDKKYSRLSDYKIHMNMHN-GF---KYQCHICLKCTSRKNYLKRHIIMMHTKFEG---- 235 (319)
Q Consensus 166 ~~L~~H~~~h~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~---~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~---- 235 (319)
+.|.+|..+|.+..|.|+. |..+|.+...|+.|++.++ |. +|.|..|++.|++-.+|..|+...|.-..|
T Consensus 306 sdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~ 385 (467)
T KOG3608|consen 306 SDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHK 385 (467)
T ss_pred HHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCCC
Confidence 9999999999988999999 9999999999999999876 43 599999999999999999999989965433
Q ss_pred -ccccchhhhhhh
Q psy7463 236 -QIGEMEDKVGEK 247 (319)
Q Consensus 236 -~~c~~c~~~~~~ 247 (319)
|.=..|.-+|.+
T Consensus 386 RFtYk~~edG~mR 398 (467)
T KOG3608|consen 386 RFTYKVDEDGFMR 398 (467)
T ss_pred ceeeeeccCceee
Confidence 444444444433
No 4
>KOG2462|consensus
Probab=99.95 E-value=1.1e-28 Score=195.71 Aligned_cols=101 Identities=28% Similarity=0.551 Sum_probs=58.0
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhc-CCCCccCchhhccCCHHHHHHHHHh
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHE-RIAYQCNVCDKKYSRLSDYKIHMNM 201 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~~~~~l~~H~~~ 201 (319)
+.|+.|++.|.+-.+|..|+ ++|+- + ++|.+||+.|....-|+.|+|+|+ +|||.|+.|+++|..+++|+.||++
T Consensus 162 ~~C~~C~K~YvSmpALkMHi-rTH~l--~-c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 162 FSCKYCGKVYVSMPALKMHI-RTHTL--P-CECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQT 237 (279)
T ss_pred ccCCCCCceeeehHHHhhHh-hccCC--C-cccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHh
Confidence 45555555555555555555 44542 2 555555555555555556666555 5566666666666666666666666
Q ss_pred cCCC-cccccccccccCChHHHHHHHH
Q psy7463 202 HNGF-KYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 202 h~~~-~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
|.+. +|+|..|+|+|...+-|.+|..
T Consensus 238 HS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 238 HSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred hcCCccccCcchhhHHHHHHHHHHhhh
Confidence 5554 4666666666666666665554
No 5
>KOG3608|consensus
Probab=99.94 E-value=8.1e-27 Score=189.75 Aligned_cols=219 Identities=23% Similarity=0.433 Sum_probs=189.5
Q ss_pred cccccc--cchhccccHHHHHHHHHHhcC------------CCc-ccc--ccchhhccCHHHHHHHHHhccCC--ccccc
Q psy7463 13 VPQKCP--LCERLYKSVYRMKEHMKKQHK------------GQL-YEC--DCCTEYFIDRIAYEEHVRLHEGG--IICRL 73 (319)
Q Consensus 13 ~~~~C~--~C~~~f~~~~~l~~H~~~h~~------------~~~-~~C--~~C~~~f~~~~~l~~H~~~h~~~--~~C~~ 73 (319)
.-|.|. .|+..|.+...|..|+..|.. ++| +.| ..|.+.|.++..|++|+++|.++ ..|+.
T Consensus 133 ~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~ 212 (467)
T KOG3608|consen 133 QNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPH 212 (467)
T ss_pred hhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecch
Confidence 457775 499999999999999988852 222 556 45999999999999999999998 88999
Q ss_pred cchhhhh-HHHHHHHhhcCCCCCCCCcCccccchhhhHHHHHHhhhCCcccccCCCccccCChhHHHHHHhHhcCCCCcc
Q psy7463 74 CGEKFEK-SLMRDHLVTHIPPEHRGKVSDAFFNKKQTALLTHYLKRNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVF 152 (319)
Q Consensus 74 C~~~f~~-~~l~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~ 152 (319)
||.-|++ ..|-.|++..+.-. ..+|+|..|.+.|.++..|..|+ +.|-.-
T Consensus 213 Cg~~F~~~tkl~DH~rRqt~l~-------------------------~n~fqC~~C~KrFaTeklL~~Hv-~rHvn~--- 263 (467)
T KOG3608|consen 213 CGELFRTKTKLFDHLRRQTELN-------------------------TNSFQCAQCFKRFATEKLLKSHV-VRHVNC--- 263 (467)
T ss_pred HHHHhccccHHHHHHHhhhhhc-------------------------CCchHHHHHHHHHhHHHHHHHHH-HHhhhc---
Confidence 9999998 88888877654211 11599999999999999999998 667654
Q ss_pred ccccccccccCChHHHHHHHHHhc--CCCCccCchhhccCCHHHHHHHHHhcCCCcccccc--cccccCChHHHHHHHHh
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHE--RIAYQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHI--CLKCTSRKNYLKRHIIM 228 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~--~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~--C~~~f~~~~~L~~H~~~ 228 (319)
|+|+.|+.+....+.|..|++.-+ .+||+|+.|++.|.+.+.|.+|..+|....|+|.. |.+.|.+..+|++|++.
T Consensus 264 ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~e 343 (467)
T KOG3608|consen 264 YKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLE 343 (467)
T ss_pred ccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHH
Confidence 999999999999999999999655 89999999999999999999999999976799999 99999999999999998
Q ss_pred hccc--cccccccchhhhhhhhhhHHHHHhcCCC
Q psy7463 229 MHTK--FEGQIGEMEDKVGEKKIGEIEAKVGEGN 260 (319)
Q Consensus 229 ~H~~--~~~~~c~~c~~~~~~~~~~~~~~~~~~~ 260 (319)
+|-+ ..+|.|-.|++.|++-.+|..|......
T Consensus 344 vhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 344 VHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred hccCCCCCceeeecchhhhccchhHHHHHHHhhc
Confidence 8855 4579999999999999999988665433
No 6
>KOG3623|consensus
Probab=99.87 E-value=4e-22 Score=176.25 Aligned_cols=77 Identities=26% Similarity=0.335 Sum_probs=70.6
Q ss_pred CccCchhhccCCHHHHHHHHHhcCCC-cccccccccccCChHHHHHHHHhhccccccccccchhhhhhhhhhHHHHHhc
Q psy7463 180 YQCNVCDKKYSRLSDYKIHMNMHNGF-KYQCHICLKCTSRKNYLKRHIIMMHTKFEGQIGEMEDKVGEKKIGEIEAKVG 257 (319)
Q Consensus 180 ~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~c~~c~~~~~~~~~~~~~~~~ 257 (319)
|.|+.|+|.|...+.|.+|.-.|+|. ||+|.+|.|.|..+..|..|.+ .|+|++||.|..|+|.|........|+.-
T Consensus 895 yaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkR-LHSGEKPfQCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 895 YACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKR-LHSGEKPFQCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred chHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhh-hccCCCcchhhhhhhhcccccchHhhhcc
Confidence 89999999999999999999999997 8999999999999999999998 99999999999999999998888888654
No 7
>KOG1074|consensus
Probab=99.86 E-value=1.4e-22 Score=181.94 Aligned_cols=207 Identities=21% Similarity=0.430 Sum_probs=149.0
Q ss_pred ccccccccchhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHHHHHHhccCC------cccc---ccchhhhh-H
Q psy7463 12 VVPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYEEHVRLHEGG------IICR---LCGEKFEK-S 81 (319)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~------~~C~---~C~~~f~~-~ 81 (319)
..|-+|-+|-++....+.|+.|+++|+||+||+|.+|++.|.++.+|+.||-.|... +.|+ +|.+.|.. .
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred CCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccc
Confidence 458899999999999999999999999999999999999999999999999999653 8999 99999998 8
Q ss_pred HHHHHHhhcCCCCC-CCCcCccccchhhhHHHHHHhhhCCcccccCCCccccCChhHHHHHHhHhcC-------------
Q psy7463 82 LMRDHLVTHIPPEH-RGKVSDAFFNKKQTALLTHYLKRNGIKLQCNLCADTFCPRSNMLRHYLLKHR------------- 147 (319)
Q Consensus 82 ~l~~H~~~h~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~------------- 147 (319)
.|..|++.|.+... ...... ......-+|..|.+.|.....+..++ ..|.
T Consensus 683 ~lpQhIriH~~~~~s~g~~a~---------------e~~~~adq~~~~qk~~~~a~~f~~~~-se~~~~~s~~~~~~~~~ 746 (958)
T KOG1074|consen 683 TLPQHIRIHLGGQISNGGTAA---------------EGILAADQCSSCQKTFSDARSFSQQI-SEQPSPESEPDEQMDER 746 (958)
T ss_pred cccceEEeecCCCCCCCcccc---------------cccchhcccchhhhcccccccchhhh-hccCCcccCCccccccc
Confidence 89999999985221 110000 00001134555555555555555544 2231
Q ss_pred ---CCC---ccccccccccccCChHHHHHHHHHhc---------------------------------------------
Q psy7463 148 ---GDK---VFYACDRCDKRFSLLQNLKRHLAIHE--------------------------------------------- 176 (319)
Q Consensus 148 ---~~~---~~~~C~~C~~~f~~~~~L~~H~~~h~--------------------------------------------- 176 (319)
++. +...+..|+..+.....+..+-..+.
T Consensus 747 t~t~~~~~tp~~~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~ 826 (958)
T KOG1074|consen 747 TETEELDVTPPPPENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMD 826 (958)
T ss_pred ccccccccCCCccccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccC
Confidence 101 11344445554444433333221110
Q ss_pred --------------------------------------------------CCCCccCchhhccCCHHHHHHHHHhcCCC-
Q psy7463 177 --------------------------------------------------RIAYQCNVCDKKYSRLSDYKIHMNMHNGF- 205 (319)
Q Consensus 177 --------------------------------------------------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~- 205 (319)
.....|.+||+.|...+.|..|+++|++.
T Consensus 827 pvl~~~~~~~l~eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~K 906 (958)
T KOG1074|consen 827 PVLWNQETSMLNEGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPK 906 (958)
T ss_pred chhhcccccccccccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCC
Confidence 00177999999999999999999999997
Q ss_pred cccccccccccCChHHHHHHHHhhcccccc
Q psy7463 206 KYQCHICLKCTSRKNYLKRHIIMMHTKFEG 235 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~ 235 (319)
||.|.+|++.|..+.+|+.||. .|....+
T Consensus 907 PF~C~fC~~aFttrgnLKvHMg-tH~w~q~ 935 (958)
T KOG1074|consen 907 PFFCHFCEEAFTTRGNLKVHMG-THMWVQP 935 (958)
T ss_pred Cccchhhhhhhhhhhhhhhhhc-cccccCC
Confidence 7999999999999999999999 6655443
No 8
>KOG3623|consensus
Probab=99.85 E-value=4.4e-22 Score=176.01 Aligned_cols=75 Identities=36% Similarity=0.711 Sum_probs=73.2
Q ss_pred ccccccccccCChHHHHHHHHHhc-CCCCccCchhhccCCHHHHHHHHHhcCCC-cccccccccccCChHHHHHHHH
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHE-RIAYQCNVCDKKYSRLSDYKIHMNMHNGF-KYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
|.|++|++.|...+.|.+|.--|+ .+||+|.+|.|+|+.+..|..|+|.|.|+ ||+|..|+|+|+..+.+..||.
T Consensus 895 yaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 895 YACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred chHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 999999999999999999999998 88999999999999999999999999998 7999999999999999999987
No 9
>KOG3576|consensus
Probab=99.69 E-value=5.9e-18 Score=128.05 Aligned_cols=109 Identities=26% Similarity=0.513 Sum_probs=82.8
Q ss_pred ccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhc-CCCCccCchhhccCCHHHHHHHHH
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHE-RIAYQCNVCDKKYSRLSDYKIHMN 200 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~~~~~l~~H~~ 200 (319)
.|.|.+|++.|.-...|.+|+ ..|...+. |.|..||+.|..--.|++|+|+|+ -+||+|..|+++|.++-.|..|++
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~-kch~~vkr-~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHL-KCHSDVKR-HLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHh-hhccHHHH-HHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 478888888887777778887 77777776 778888888888888888888887 668888888888888888888876
Q ss_pred hcCCC------------cccccccccccCChHHHHHHHHhhccc
Q psy7463 201 MHNGF------------KYQCHICLKCTSRKNYLKRHIIMMHTK 232 (319)
Q Consensus 201 ~h~~~------------~~~C~~C~~~f~~~~~L~~H~~~~H~~ 232 (319)
.-+|. -|.|..||.+-.....+..|++.+|..
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 54432 177888888877777888888766654
No 10
>KOG3576|consensus
Probab=99.66 E-value=4.7e-17 Score=123.20 Aligned_cols=109 Identities=25% Similarity=0.394 Sum_probs=100.0
Q ss_pred ccccccccccCChHHHHHHHHHhc-CCCCccCchhhccCCHHHHHHHHHhcCCC-cccccccccccCChHHHHHHHHhhc
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHE-RIAYQCNVCDKKYSRLSDYKIHMNMHNGF-KYQCHICLKCTSRKNYLKRHIIMMH 230 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~C~~C~~~f~~~~~L~~H~~~~H 230 (319)
|.|.+|++.|.....|.+|++-|. -+.|-|..||+.|..-..|++|+++|+|. ||+|..|++.|+.+..|..|++.+|
T Consensus 118 ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvh 197 (267)
T KOG3576|consen 118 FTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVH 197 (267)
T ss_pred eeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHc
Confidence 899999999999999999999998 77899999999999999999999999997 8999999999999999999999999
Q ss_pred cc----------cccccccchhhhhhhhhhHHHHHhcCCCC
Q psy7463 231 TK----------FEGQIGEMEDKVGEKKIGEIEAKVGEGNQ 261 (319)
Q Consensus 231 ~~----------~~~~~c~~c~~~~~~~~~~~~~~~~~~~~ 261 (319)
+. .+.|.|+.|+...........|.......
T Consensus 198 gv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 198 GVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred CchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 65 45699999999988888888887765544
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.42 E-value=8.2e-13 Score=118.42 Aligned_cols=146 Identities=16% Similarity=0.292 Sum_probs=110.2
Q ss_pred ccccccchhhhhHHHHHHHhhcCCCCCCCCc--CccccchhhhHHHHHHhhhCCcccccCCCccccCChhHHHHHHhHhc
Q psy7463 69 IICRLCGEKFEKSLMRDHLVTHIPPEHRGKV--SDAFFNKKQTALLTHYLKRNGIKLQCNLCADTFCPRSNMLRHYLLKH 146 (319)
Q Consensus 69 ~~C~~C~~~f~~~~l~~H~~~h~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H 146 (319)
..|+.|........|..|..........|+. |+..+... .....+.|+.|++.|. ...|..|+.. |
T Consensus 408 V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~----------el~~H~~C~~Cgk~f~-~s~LekH~~~-~ 475 (567)
T PLN03086 408 VECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVE----------EAKNHVHCEKCGQAFQ-QGEMEKHMKV-F 475 (567)
T ss_pred EECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeecc----------ccccCccCCCCCCccc-hHHHHHHHHh-c
Confidence 5788888888777777888777666666763 66665433 1122378999999985 6789999844 4
Q ss_pred CCCCccccccccccccCChHHHHHHHHHhc-CCCCccCchhhccC----------CHHHHHHHHHhcCCCcccccccccc
Q psy7463 147 RGDKVFYACDRCDKRFSLLQNLKRHLAIHE-RIAYQCNVCDKKYS----------RLSDYKIHMNMHNGFKYQCHICLKC 215 (319)
Q Consensus 147 ~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~C~~C~~~ 215 (319)
. .+ +.|+ |++.+ .+..|..|+.+|. .+++.|++|++.|. ..+.|..|..++...++.|..|++.
T Consensus 476 H--kp-v~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~ 550 (567)
T PLN03086 476 H--EP-LQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRS 550 (567)
T ss_pred C--CC-ccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCe
Confidence 3 45 8999 99755 6688999998887 88999999999885 2458999999986668999999988
Q ss_pred cCChHHHHHHHHhhccc
Q psy7463 216 TSRKNYLKRHIIMMHTK 232 (319)
Q Consensus 216 f~~~~~L~~H~~~~H~~ 232 (319)
|.. ..|..|+..+|..
T Consensus 551 Vrl-rdm~~H~~~~h~~ 566 (567)
T PLN03086 551 VML-KEMDIHQIAVHQK 566 (567)
T ss_pred eee-hhHHHHHHHhhcC
Confidence 755 4688888877753
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.24 E-value=1.9e-11 Score=109.77 Aligned_cols=146 Identities=19% Similarity=0.386 Sum_probs=108.9
Q ss_pred ccccccchhccccHHHHHHHHHHhcCCCcccccc--chhhccCHHHHHHHHHhccCCccccccchhhhhHHHHHHHhhcC
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDC--CTEYFIDRIAYEEHVRLHEGGIICRLCGEKFEKSLMRDHLVTHI 91 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f~~~~l~~H~~~h~ 91 (319)
.-.|+.|...... ..|..|..... ...-.|+. |+..|. +..+..| +.|+.|++.|....|..|+..++
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~-r~~V~Cp~~~Cg~v~~-r~el~~H-------~~C~~Cgk~f~~s~LekH~~~~H 476 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCS-RHNVVCPHDGCGIVLR-VEEAKNH-------VHCEKCGQAFQQGEMEKHMKVFH 476 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCC-CcceeCCcccccceee-ccccccC-------ccCCCCCCccchHHHHHHHHhcC
Confidence 3468888877663 45667775442 34456764 888773 3444444 47888888886666777877753
Q ss_pred CCCCCCCcCccccchhhhHHHHHHhhhCCcccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCC-------
Q psy7463 92 PPEHRGKVSDAFFNKKQTALLTHYLKRNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSL------- 164 (319)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~------- 164 (319)
.++.|+ ||+.+ .+..|..|+ ..|.++++ +.|+.|++.|..
T Consensus 477 -----------------------------kpv~Cp-Cg~~~-~R~~L~~H~-~thCp~Kp-i~C~fC~~~v~~g~~~~d~ 523 (567)
T PLN03086 477 -----------------------------EPLQCP-CGVVL-EKEQMVQHQ-ASTCPLRL-ITCRFCGDMVQAGGSAMDV 523 (567)
T ss_pred -----------------------------CCccCC-CCCCc-chhHHHhhh-hccCCCCc-eeCCCCCCccccCccccch
Confidence 258999 99765 678999998 77999999 999999999852
Q ss_pred ---hHHHHHHHHHhcCCCCccCchhhccCCHHHHHHHHHhcC
Q psy7463 165 ---LQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIHMNMHN 203 (319)
Q Consensus 165 ---~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 203 (319)
...|..|..+...+++.|..||+.+..+ .|..|+..-|
T Consensus 524 ~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 524 RDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred hhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhh
Confidence 3589999999889999999999999876 5888876544
No 13
>PHA00733 hypothetical protein
Probab=99.23 E-value=1.8e-11 Score=89.84 Aligned_cols=78 Identities=18% Similarity=0.225 Sum_probs=62.7
Q ss_pred ccccccccccCChHHHHHH------HHHhcCCCCccCchhhccCCHHHHHHHHHhcCCCcccccccccccCChHHHHHHH
Q psy7463 153 YACDRCDKRFSLLQNLKRH------LAIHERIAYQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHICLKCTSRKNYLKRHI 226 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H------~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~L~~H~ 226 (319)
+.|.+|...|.....|..+ +..+..+||.|+.||+.|.+...|..|++.| ..+|.|+.|++.|.....|..|+
T Consensus 41 ~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK~F~~~~sL~~H~ 119 (128)
T PHA00733 41 LIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGKEFRNTDSTLDHV 119 (128)
T ss_pred HHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCCccCCHHHHHHHH
Confidence 7888888877777666655 2333477899999999999999999999876 34799999999999999999998
Q ss_pred Hhhcc
Q psy7463 227 IMMHT 231 (319)
Q Consensus 227 ~~~H~ 231 (319)
...|.
T Consensus 120 ~~~h~ 124 (128)
T PHA00733 120 CKKHN 124 (128)
T ss_pred HHhcC
Confidence 87664
No 14
>PHA00733 hypothetical protein
Probab=99.12 E-value=6.4e-11 Score=86.95 Aligned_cols=86 Identities=19% Similarity=0.281 Sum_probs=70.4
Q ss_pred hhCCcccccCCCccccCChhHHHHH--H--hHhcCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhccCCH
Q psy7463 117 KRNGIKLQCNLCADTFCPRSNMLRH--Y--LLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRL 192 (319)
Q Consensus 117 ~~~~~~~~C~~C~~~f~~~~~l~~H--~--~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~ 192 (319)
.....++.|.+|...|.....|..+ + ...+.++.+ |.|+.|++.|.+...|..|++.| ..+|.|+.|++.|...
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kP-y~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK~F~~~ 112 (128)
T PHA00733 35 TPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSP-YVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGKEFRNT 112 (128)
T ss_pred ChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCC-ccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCCccCCH
Confidence 3344569999999998887777665 1 123344667 99999999999999999999976 4579999999999999
Q ss_pred HHHHHHHHhcCC
Q psy7463 193 SDYKIHMNMHNG 204 (319)
Q Consensus 193 ~~l~~H~~~h~~ 204 (319)
..|..|+...++
T Consensus 113 ~sL~~H~~~~h~ 124 (128)
T PHA00733 113 DSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHHHHhcC
Confidence 999999998776
No 15
>KOG3993|consensus
Probab=99.06 E-value=2.2e-11 Score=102.66 Aligned_cols=84 Identities=26% Similarity=0.564 Sum_probs=72.1
Q ss_pred CCccccccccchhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHHHHHHhcc-----------------------
Q psy7463 10 DKVVPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYEEHVRLHE----------------------- 66 (319)
Q Consensus 10 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~----------------------- 66 (319)
....-|.|..|...|.....|.+|.-.---...|+|+.|+++|....+|..|.++|.
T Consensus 263 n~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~ 342 (500)
T KOG3993|consen 263 NVIGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEV 342 (500)
T ss_pred ccHHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhh
Confidence 345579999999999999999999765444456999999999999999999999993
Q ss_pred ------------CCccccccchhhhh-HHHHHHHhhcCCC
Q psy7463 67 ------------GGIICRLCGEKFEK-SLMRDHLVTHIPP 93 (319)
Q Consensus 67 ------------~~~~C~~C~~~f~~-~~l~~H~~~h~~~ 93 (319)
+-|.|..|++.|++ ..|+.|+.+|...
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 11789999999999 8999999988763
No 16
>KOG3993|consensus
Probab=99.00 E-value=4.3e-11 Score=100.92 Aligned_cols=191 Identities=16% Similarity=0.156 Sum_probs=117.8
Q ss_pred cccccchhhccCHHHHHHHH--HhccCCccccccchhhhh-HHHHHHHhhcCCCCCCCCcCc---cccchhhhHHHHHHh
Q psy7463 43 YECDCCTEYFIDRIAYEEHV--RLHEGGIICRLCGEKFEK-SLMRDHLVTHIPPEHRGKVSD---AFFNKKQTALLTHYL 116 (319)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~--~~h~~~~~C~~C~~~f~~-~~l~~H~~~h~~~~~~~~~~~---~~~~~~~~~~~~~~~ 116 (319)
|.|.+|...|.+...|.+|. ++-+-+|.|++|++.|.- .+|..|.+.|-.........+ +..............
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 99999999999999999995 455677999999999998 999999999976332221100 000000001111110
Q ss_pred h---hCCcccccCCCccccCChhHHHHHHhHhcCCCCcc---------------ccccccccccCChHHHHHHHHHhc--
Q psy7463 117 K---RNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVF---------------YACDRCDKRFSLLQNLKRHLAIHE-- 176 (319)
Q Consensus 117 ~---~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~---------------~~C~~C~~~f~~~~~L~~H~~~h~-- 176 (319)
. ....-|.|..|++.|.+...|+.|+...|...... +-|+.|.-.+.....--.+...+.
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~s 427 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGS 427 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeecc
Confidence 0 11123999999999999999999985544332211 223333333322221111111111
Q ss_pred CCCCccCchhhccCCHHHHHHHHHhcC-CCcccccccccccCChHHHHHHHHhhcccc
Q psy7463 177 RIAYQCNVCDKKYSRLSDYKIHMNMHN-GFKYQCHICLKCTSRKNYLKRHIIMMHTKF 233 (319)
Q Consensus 177 ~~~~~C~~C~~~f~~~~~l~~H~~~h~-~~~~~C~~C~~~f~~~~~L~~H~~~~H~~~ 233 (319)
..-..|++||..+.++..--.+.+.-. ...|.|.+|..+|.+...|.+|+...|..+
T Consensus 428 ael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 428 AELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred ccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 123457788877776654444443322 225999999999999999999998777654
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.99 E-value=2e-10 Score=69.14 Aligned_cols=40 Identities=23% Similarity=0.557 Sum_probs=17.7
Q ss_pred CccCchhhccCCHHHHHHHHHhcCCCcccccccccccCChH
Q psy7463 180 YQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHICLKCTSRKN 220 (319)
Q Consensus 180 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~ 220 (319)
|.|+.||+.|...+.|..|+++|+ .+|+|..|++.|...+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s 45 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTG 45 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceecccc
Confidence 344444444444444444444444 2444444444444333
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.94 E-value=3e-10 Score=68.42 Aligned_cols=44 Identities=20% Similarity=0.464 Sum_probs=37.8
Q ss_pred ccccccchhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHH
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYE 59 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 59 (319)
.|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|.....|.
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 4899999999999999999999988 6899999999988766553
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=98.67 E-value=1.2e-08 Score=52.46 Aligned_cols=26 Identities=23% Similarity=0.691 Sum_probs=23.6
Q ss_pred HHHHHHHHhcCCCccccccchhhccC
Q psy7463 29 RMKEHMKKQHKGQLYECDCCTEYFID 54 (319)
Q Consensus 29 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 54 (319)
+|.+|+++|++++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 48899999999999999999999863
No 20
>PHA00616 hypothetical protein
Probab=98.55 E-value=3.2e-08 Score=56.66 Aligned_cols=39 Identities=21% Similarity=0.399 Sum_probs=35.1
Q ss_pred ccccccchhccccHHHHHHHHHHhcCCCccccccchhhc
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYF 52 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 52 (319)
||+|+.||+.|...+.|..|++.|++++++.|+.-...|
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y~~f 39 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFYIYF 39 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEEEEE
Confidence 699999999999999999999999999999988655544
No 21
>PHA00732 hypothetical protein
Probab=98.45 E-value=1.2e-07 Score=62.95 Aligned_cols=46 Identities=28% Similarity=0.540 Sum_probs=23.0
Q ss_pred ccccccccccCChHHHHHHHHH-hcCCCCccCchhhccCCHHHHHHHHHhcC
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAI-HERIAYQCNVCDKKYSRLSDYKIHMNMHN 203 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~-h~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 203 (319)
|.|+.|++.|.+...|+.|++. |. ++.|+.||+.|. .|..|+.++.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~--~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT--LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC--CCccCCCCCEeC---ChhhhhcccC
Confidence 4555555555555555555543 22 234555555554 3455554433
No 22
>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=98.40 E-value=1.4e-07 Score=48.46 Aligned_cols=9 Identities=44% Similarity=1.087 Sum_probs=3.3
Q ss_pred ccccccccc
Q psy7463 207 YQCHICLKC 215 (319)
Q Consensus 207 ~~C~~C~~~ 215 (319)
|.|++|++.
T Consensus 15 ~~C~~C~k~ 23 (26)
T PF13465_consen 15 YKCPYCGKS 23 (26)
T ss_dssp EEESSSSEE
T ss_pred CCCCCCcCe
Confidence 333333333
No 23
>PHA00616 hypothetical protein
Probab=98.37 E-value=2e-07 Score=53.39 Aligned_cols=32 Identities=19% Similarity=0.305 Sum_probs=16.4
Q ss_pred CCccCchhhccCCHHHHHHHHHhcCCC-ccccc
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHNGF-KYQCH 210 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~C~ 210 (319)
||+|+.||+.|.+++.|..|++.|+|. ++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 345555555555555555555555544 34443
No 24
>PHA00732 hypothetical protein
Probab=98.33 E-value=2.8e-07 Score=61.25 Aligned_cols=49 Identities=20% Similarity=0.519 Sum_probs=39.4
Q ss_pred ccccccchhccccHHHHHHHHHH-hcCCCccccccchhhccCHHHHHHHHHhccCC
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKK-QHKGQLYECDCCTEYFIDRIAYEEHVRLHEGG 68 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 68 (319)
||.|+.|++.|.+...|+.|++. |. ++.|+.|++.|. .|..|+.+....
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~~ 50 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYDI 50 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCCc
Confidence 58899999999999999999885 54 368999999997 588888766554
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.30 E-value=1.2e-06 Score=54.06 Aligned_cols=50 Identities=28% Similarity=0.555 Sum_probs=31.0
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHh
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIH 175 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h 175 (319)
|.|+.|++ ..+...|..|+...|..+...+.||+|...+. .+|..|+..+
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHh
Confidence 66777777 34566777777666766544466777766433 3666666543
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.25 E-value=1.7e-06 Score=53.42 Aligned_cols=48 Identities=25% Similarity=0.400 Sum_probs=25.8
Q ss_pred CccCchhhccCCHHHHHHHHHhcC-CC--cccccccccccCChHHHHHHHHhhc
Q psy7463 180 YQCNVCDKKYSRLSDYKIHMNMHN-GF--KYQCHICLKCTSRKNYLKRHIIMMH 230 (319)
Q Consensus 180 ~~C~~C~~~f~~~~~l~~H~~~h~-~~--~~~C~~C~~~f~~~~~L~~H~~~~H 230 (319)
|.|++|++ ..+...|..|....+ .. .+.||+|...+. .+|..|+...|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 55666666 334455666655432 22 366666665433 36666666544
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=98.03 E-value=3.6e-06 Score=41.95 Aligned_cols=23 Identities=35% Similarity=0.899 Sum_probs=15.8
Q ss_pred cccccchhccccHHHHHHHHHHh
Q psy7463 15 QKCPLCERLYKSVYRMKEHMKKQ 37 (319)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~h 37 (319)
|+|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56777777777777777776653
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.95 E-value=6.1e-06 Score=58.39 Aligned_cols=72 Identities=18% Similarity=0.290 Sum_probs=17.3
Q ss_pred ccccccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHHHHHhcCCCcccccccccccCChHHHHHHHHhh
Q psy7463 155 CDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHICLKCTSRKNYLKRHIIMM 229 (319)
Q Consensus 155 C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~L~~H~~~~ 229 (319)
|..|+..|.+...|..|+...++.... ....+.....+..+++.-....+.|.+|++.|.+...|..|++..
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~~---~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDIP---DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp --------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred ccccccccccccccccccccccccccc---cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 666666666666666666543321111 111222333444444433333577777777777777777777744
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.92 E-value=6.3e-06 Score=41.05 Aligned_cols=21 Identities=52% Similarity=0.866 Sum_probs=13.6
Q ss_pred ccccccccccCChHHHHHHHH
Q psy7463 207 YQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~ 227 (319)
|+|+.|++.|.++..|..|++
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHh
Confidence 456666666666666666665
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.84 E-value=1.4e-05 Score=40.09 Aligned_cols=24 Identities=38% Similarity=0.692 Sum_probs=13.7
Q ss_pred ccccccccccCChHHHHHHHHhhc
Q psy7463 207 YQCHICLKCTSRKNYLKRHIIMMH 230 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~~~H 230 (319)
|.|++|++.|.+...|+.|++..|
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 456666666666666666666443
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.80 E-value=1.2e-05 Score=56.93 Aligned_cols=73 Identities=23% Similarity=0.414 Sum_probs=21.9
Q ss_pred ccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHHHHHhc
Q psy7463 124 QCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIHMNMH 202 (319)
Q Consensus 124 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h 202 (319)
+|..|+..|.+...|..|+...|.-..+ ....+.....+..+++.-....+.|.+|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~------~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP------DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc------cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 5899999999999999999887864432 112222444455555433344799999999999999999999975
No 32
>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=97.76 E-value=2.1e-05 Score=39.44 Aligned_cols=24 Identities=29% Similarity=0.922 Sum_probs=14.9
Q ss_pred cccccchhccccHHHHHHHHHHhc
Q psy7463 15 QKCPLCERLYKSVYRMKEHMKKQH 38 (319)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~h~ 38 (319)
|.|++|++.|.+...|+.|+..|+
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 567777777777777777776653
No 33
>KOG2231|consensus
Probab=97.72 E-value=0.00011 Score=67.85 Aligned_cols=124 Identities=22% Similarity=0.501 Sum_probs=69.5
Q ss_pred cccchhhccCHHHHHHHHHhccCCccccccc----------hhhhhHHHHHHHhhcCCCCCCCCcCccccchhhhHHHHH
Q psy7463 45 CDCCTEYFIDRIAYEEHVRLHEGGIICRLCG----------EKFEKSLMRDHLVTHIPPEHRGKVSDAFFNKKQTALLTH 114 (319)
Q Consensus 45 C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~----------~~f~~~~l~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~ 114 (319)
|..| -.|.+...|+.|+..-|..+.|.+|- +.|....|..|++.--. ++..+..
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~-------d~~s~rG-------- 181 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP-------DDESCRG-------- 181 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCC-------ccccccC--------
Confidence 4444 44447778888887666666665553 34444556666554322 1111110
Q ss_pred HhhhCCcccccCCCccccCChhHHHHHHhHhcCCCCcccccccc------ccccCChHHHHHHHHHhcCCCCccC--chh
Q psy7463 115 YLKRNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRC------DKRFSLLQNLKRHLAIHERIAYQCN--VCD 186 (319)
Q Consensus 115 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C------~~~f~~~~~L~~H~~~h~~~~~~C~--~C~ 186 (319)
--.|..|...|.....|..|+...| |.|..| +.-|.....|..|.+.++ |.|+ .|.
T Consensus 182 -------hp~C~~C~~~fld~~el~rH~~~~h------~~chfC~~~~~~neyy~~~~dLe~HfR~~H---flCE~~~C~ 245 (669)
T KOG2231|consen 182 -------HPLCKFCHERFLDDDELYRHLRFDH------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH---FLCEEEFCR 245 (669)
T ss_pred -------CccchhhhhhhccHHHHHHhhccce------eheeecCcccccchhcccchHHHHHhhhcC---ccccccccc
Confidence 1467788888888888888875545 555555 344666777777777654 5566 453
Q ss_pred -hccCCHHHHHHHHH
Q psy7463 187 -KKYSRLSDYKIHMN 200 (319)
Q Consensus 187 -~~f~~~~~l~~H~~ 200 (319)
+.|.....+..+++
T Consensus 246 ~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 246 TKKFYVAFELEIELK 260 (669)
T ss_pred cceeeehhHHHHHHH
Confidence 23333334444444
No 34
>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=97.63 E-value=2.3e-05 Score=40.68 Aligned_cols=25 Identities=24% Similarity=0.659 Sum_probs=15.3
Q ss_pred ccccccchhccccHHHHHHHHHHhc
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKKQH 38 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~ 38 (319)
||.|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4566666666666666666665553
No 35
>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=97.53 E-value=4.2e-05 Score=39.70 Aligned_cols=20 Identities=30% Similarity=0.554 Sum_probs=8.2
Q ss_pred ccccccccccCChHHHHHHH
Q psy7463 207 YQCHICLKCTSRKNYLKRHI 226 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~ 226 (319)
|+|..|++.|.+...|..|+
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~ 21 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHK 21 (27)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCccCCccCChhHHHHHh
Confidence 33444444444444444443
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.37 E-value=4e-05 Score=63.11 Aligned_cols=51 Identities=35% Similarity=0.579 Sum_probs=37.7
Q ss_pred CCCCccCc--hhhccCCHHHHHHHHHhcC--------------------CCcccccccccccCChHHHHHHHH
Q psy7463 177 RIAYQCNV--CDKKYSRLSDYKIHMNMHN--------------------GFKYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 177 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~--------------------~~~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
++||+|++ |.|.|++...|+-|+.--+ .+||.|++|+|++.....|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 47788877 8888888888888875311 236888888888888888887764
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.31 E-value=5.3e-05 Score=62.42 Aligned_cols=51 Identities=37% Similarity=0.803 Sum_probs=42.8
Q ss_pred CCccccccc--cccccCChHHHHHHHHH-h-------------------cCCCCccCchhhccCCHHHHHHHHH
Q psy7463 149 DKVFYACDR--CDKRFSLLQNLKRHLAI-H-------------------ERIAYQCNVCDKKYSRLSDYKIHMN 200 (319)
Q Consensus 149 ~~~~~~C~~--C~~~f~~~~~L~~H~~~-h-------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 200 (319)
++| |+|++ |++.+.+...|+.|+.- | ..|||.|++|+|+|++...|+-|+.
T Consensus 347 ~Kp-ykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKP-YKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred Cce-ecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 466 99987 99999999999999752 2 1368999999999999999998864
No 38
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.06 E-value=0.0013 Score=55.02 Aligned_cols=136 Identities=15% Similarity=0.151 Sum_probs=89.9
Q ss_pred ccccCC--CccccCChhHHHHHHhHhcCCCCccccccccc---ccc------CChHHHHHHHHHhc-C----CCCccCch
Q psy7463 122 KLQCNL--CADTFCPRSNMLRHYLLKHRGDKVFYACDRCD---KRF------SLLQNLKRHLAIHE-R----IAYQCNVC 185 (319)
Q Consensus 122 ~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~---~~f------~~~~~L~~H~~~h~-~----~~~~C~~C 185 (319)
.|.|+. |..+......|..|....|.. +.|.+|- +.| .++..|+.|...-. + .--.|..|
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 226 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF----VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFC 226 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc----EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhc
Confidence 378864 777777788999998776754 5677662 223 34566777754321 1 12369999
Q ss_pred hhccCCHHHHHHHHHhcCCCccccccc----ccccCChHHHHHHHHhhccccccccccch-hhhhhhhhhHHHHHhcCCC
Q psy7463 186 DKKYSRLSDYKIHMNMHNGFKYQCHIC----LKCTSRKNYLKRHIIMMHTKFEGQIGEME-DKVGEKKIGEIEAKVGEGN 260 (319)
Q Consensus 186 ~~~f~~~~~l~~H~~~h~~~~~~C~~C----~~~f~~~~~L~~H~~~~H~~~~~~~c~~c-~~~~~~~~~~~~~~~~~~~ 260 (319)
...|-....|..|++..+..-|.|..= ..-|.+..+|..|.+..|---.-..|-.- -..|....+|++|......
T Consensus 227 ~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 227 KIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred cceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 999999999999999877744444332 23488888999998866643222333322 2578888888888776544
Q ss_pred C
Q psy7463 261 Q 261 (319)
Q Consensus 261 ~ 261 (319)
.
T Consensus 307 ~ 307 (493)
T COG5236 307 V 307 (493)
T ss_pred c
Confidence 4
No 39
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.06 E-value=0.00078 Score=39.58 Aligned_cols=31 Identities=19% Similarity=0.578 Sum_probs=18.2
Q ss_pred ccccccccchhccccHHHHHHHHHHhcCCCc
Q psy7463 12 VVPQKCPLCERLYKSVYRMKEHMKKQHKGQL 42 (319)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 42 (319)
+.|-.|++|+..+....+|++|+...|+.+|
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 5567777777777777777777777666554
No 40
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.04 E-value=0.0005 Score=34.41 Aligned_cols=23 Identities=48% Similarity=0.781 Sum_probs=15.5
Q ss_pred ccccccccccCChHHHHHHHHhhc
Q psy7463 207 YQCHICLKCTSRKNYLKRHIIMMH 230 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~~~H 230 (319)
|+|+.|++... ...|..|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 57778887776 777888877555
No 41
>KOG2231|consensus
Probab=96.97 E-value=0.0024 Score=59.25 Aligned_cols=130 Identities=28% Similarity=0.638 Sum_probs=83.8
Q ss_pred cccccchhcc---------------ccHHHHHHHHHHhcCCCccccccc---------hhhccCHHHHHHHHHhc-----
Q psy7463 15 QKCPLCERLY---------------KSVYRMKEHMKKQHKGQLYECDCC---------TEYFIDRIAYEEHVRLH----- 65 (319)
Q Consensus 15 ~~C~~C~~~f---------------~~~~~l~~H~~~h~~~~~~~C~~C---------~~~f~~~~~l~~H~~~h----- 65 (319)
+.|.+|++.| .+...|+.|+...|+ .+.|.+| .....++..|..|+..-
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~ 177 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDE 177 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccc
Confidence 5666666655 478899999965553 3556555 23455778888887643
Q ss_pred --cCCccccccchhhhh-HHHHHHHhhcCCCCCCCCcCccccchhhhHHHHHHhhhCCcccccCCC------ccccCChh
Q psy7463 66 --EGGIICRLCGEKFEK-SLMRDHLVTHIPPEHRGKVSDAFFNKKQTALLTHYLKRNGIKLQCNLC------ADTFCPRS 136 (319)
Q Consensus 66 --~~~~~C~~C~~~f~~-~~l~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C------~~~f~~~~ 136 (319)
.|...|.+|...|-. ..|..|++.++ |.|..| +.-|....
T Consensus 178 s~rGhp~C~~C~~~fld~~el~rH~~~~h-------------------------------~~chfC~~~~~~neyy~~~~ 226 (669)
T KOG2231|consen 178 SCRGHPLCKFCHERFLDDDELYRHLRFDH-------------------------------EFCHFCDYKTGQNEYYNDYD 226 (669)
T ss_pred cccCCccchhhhhhhccHHHHHHhhccce-------------------------------eheeecCcccccchhcccch
Confidence 233689999999988 88999988764 344444 45677788
Q ss_pred HHHHHHhHhcCCCCcccccc--cccc-cc----CChHHHHHHHHHhc-CCCCccC
Q psy7463 137 NMLRHYLLKHRGDKVFYACD--RCDK-RF----SLLQNLKRHLAIHE-RIAYQCN 183 (319)
Q Consensus 137 ~l~~H~~~~H~~~~~~~~C~--~C~~-~f----~~~~~L~~H~~~h~-~~~~~C~ 183 (319)
.|..|.+..| |.|. .|.- .| .....|++|.+.+. ++.|.|.
T Consensus 227 dLe~HfR~~H------flCE~~~C~~~~f~~~~~~ei~lk~~~~~~~~e~~~~~~ 275 (669)
T KOG2231|consen 227 DLEEHFRKGH------FLCEEEFCRTKKFYVAFELEIELKAHNRFIQHEKCYICR 275 (669)
T ss_pred HHHHHhhhcC------ccccccccccceeeehhHHHHHHHhhccccchheeccCC
Confidence 9999987766 6776 4532 22 33444444443222 5555553
No 42
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.97 E-value=0.00066 Score=34.44 Aligned_cols=20 Identities=35% Similarity=0.547 Sum_probs=10.5
Q ss_pred cccccccccCChHHHHHHHH
Q psy7463 208 QCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 208 ~C~~C~~~f~~~~~L~~H~~ 227 (319)
.|+.|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 45555555555555555554
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.93 E-value=0.00082 Score=34.06 Aligned_cols=23 Identities=39% Similarity=0.908 Sum_probs=14.4
Q ss_pred cccccchhccccHHHHHHHHHHh
Q psy7463 15 QKCPLCERLYKSVYRMKEHMKKQ 37 (319)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~h 37 (319)
|.|+.|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45666666666666666666644
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.74 E-value=0.00074 Score=34.14 Aligned_cols=22 Identities=18% Similarity=0.676 Sum_probs=13.4
Q ss_pred cccccchhccccHHHHHHHHHH
Q psy7463 15 QKCPLCERLYKSVYRMKEHMKK 36 (319)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~ 36 (319)
|.|++|++.|.+...|+.|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666554
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.67 E-value=0.0015 Score=32.60 Aligned_cols=23 Identities=35% Similarity=0.720 Sum_probs=13.7
Q ss_pred cccccchhccccHHHHHHHHHHhc
Q psy7463 15 QKCPLCERLYKSVYRMKEHMKKQH 38 (319)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~h~ 38 (319)
|.|+.|+.... ...|.+|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56677776666 666777766654
No 46
>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=96.63 E-value=0.0012 Score=38.78 Aligned_cols=26 Identities=27% Similarity=0.515 Sum_probs=15.2
Q ss_pred cccccccccccCChHHHHHHHHhhcc
Q psy7463 206 KYQCHICLKCTSRKNYLKRHIIMMHT 231 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~~~H~ 231 (319)
|-.|++|+..+.+..+|++|++..|.
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCCCcchhhccchhhHHHHHHHHhc
Confidence 56777777777777777777765553
No 47
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.63 E-value=0.0046 Score=51.94 Aligned_cols=76 Identities=20% Similarity=0.400 Sum_probs=50.5
Q ss_pred cccccccccCChHHHHHHHHHhcCCCCccCchh----hccCCHHHHHHHHHhcCCCcccccc--cc----cccCChHHHH
Q psy7463 154 ACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCD----KKYSRLSDYKIHMNMHNGFKYQCHI--CL----KCTSRKNYLK 223 (319)
Q Consensus 154 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~----~~f~~~~~l~~H~~~h~~~~~~C~~--C~----~~f~~~~~L~ 223 (319)
.|..|...|-+...|..|+|..+++-|.|+.=+ .-|.+-..|..|.+.-+ |.|.+ |- ..|...-.|.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h---y~ct~qtc~~~k~~vf~~~~el~ 298 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAH---YCCTFQTCRVGKCYVFPYHTELL 298 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCc---eEEEEEEEecCcEEEeccHHHHH
Confidence 578888888888888888876666544443322 34677777888766433 33322 21 5788888899
Q ss_pred HHHHhhccc
Q psy7463 224 RHIIMMHTK 232 (319)
Q Consensus 224 ~H~~~~H~~ 232 (319)
.|+...|..
T Consensus 299 ~h~~~~h~~ 307 (493)
T COG5236 299 EHLTRFHKV 307 (493)
T ss_pred HHHHHHhhc
Confidence 998878865
No 48
>KOG2482|consensus
Probab=96.61 E-value=0.0086 Score=50.28 Aligned_cols=140 Identities=21% Similarity=0.240 Sum_probs=86.2
Q ss_pred cccCCCcccc-CChhHHHHHHhHhcCCCCc--------------------cccccccccccCChHHHHHHHHHhc--CCC
Q psy7463 123 LQCNLCADTF-CPRSNMLRHYLLKHRGDKV--------------------FYACDRCDKRFSLLQNLKRHLAIHE--RIA 179 (319)
Q Consensus 123 ~~C~~C~~~f-~~~~~l~~H~~~~H~~~~~--------------------~~~C~~C~~~f~~~~~L~~H~~~h~--~~~ 179 (319)
.+|-.|...+ ..++.+..|+...|.-.-. .+.|-.|.+.|..+..|+.||+... +..
T Consensus 145 lqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrrin 224 (423)
T KOG2482|consen 145 LQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRIN 224 (423)
T ss_pred eEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcccC
Confidence 6899998655 4567888888777742110 1678888888888888888887542 110
Q ss_pred CccCchhhcc--------CCHHHHHHHH--Hhc---------------CC-Cc--ccccccccccCChHHHHHHHHhhcc
Q psy7463 180 YQCNVCDKKY--------SRLSDYKIHM--NMH---------------NG-FK--YQCHICLKCTSRKNYLKRHIIMMHT 231 (319)
Q Consensus 180 ~~C~~C~~~f--------~~~~~l~~H~--~~h---------------~~-~~--~~C~~C~~~f~~~~~L~~H~~~~H~ 231 (319)
-+=..-++-| ++......+. .+- .+ .+ ..|-.|....-+...|..||+.+|.
T Consensus 225 PknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe 304 (423)
T KOG2482|consen 225 PKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVHE 304 (423)
T ss_pred CCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHHH
Confidence 0000011100 0000011111 110 01 12 5899998888889999999998883
Q ss_pred c--------------------------cccccccchhhhhhhhhhHHHHHhcCCCCC
Q psy7463 232 K--------------------------FEGQIGEMEDKVGEKKIGEIEAKVGEGNQG 262 (319)
Q Consensus 232 ~--------------------------~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~ 262 (319)
- ...-.|..|+..|..+..+..|+..++..+
T Consensus 305 ~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k~l~ 361 (423)
T KOG2482|consen 305 FDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDKHLS 361 (423)
T ss_pred hhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccccccc
Confidence 2 122457889999999999999988776653
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.53 E-value=0.001 Score=33.57 Aligned_cols=20 Identities=40% Similarity=0.725 Sum_probs=9.7
Q ss_pred cccccccccCChHHHHHHHH
Q psy7463 208 QCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 208 ~C~~C~~~f~~~~~L~~H~~ 227 (319)
.|.+|++.|.+...|..|++
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 44445555555555544443
No 50
>PRK04860 hypothetical protein; Provisional
Probab=96.47 E-value=0.0015 Score=49.91 Aligned_cols=39 Identities=21% Similarity=0.617 Sum_probs=31.4
Q ss_pred cccccccchhccccHHHHHHHHHHhcCCCccccccchhhccCH
Q psy7463 13 VPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDR 55 (319)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 55 (319)
-+|.|. |+. ....+.+|.++|.++++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 468887 887 566788899999988899999898877543
No 51
>KOG1146|consensus
Probab=96.46 E-value=0.0014 Score=64.33 Aligned_cols=110 Identities=17% Similarity=0.348 Sum_probs=77.8
Q ss_pred ccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhc--------------------------C
Q psy7463 124 QCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHE--------------------------R 177 (319)
Q Consensus 124 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~--------------------------~ 177 (319)
.|..|+..+.....+..|....|...+. |+|+.|++.|+....|..|+|..+ .
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt-~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~ 516 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKT-LKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPG 516 (1406)
T ss_pred cccchhhhhhhhcccccceeeeeccccc-ccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCC
Confidence 3445555566666666666566666665 788888888888888888887621 2
Q ss_pred CCCccCchhhccCCHHHHHHHHHhcC-------------------------------------C------C-cccccccc
Q psy7463 178 IAYQCNVCDKKYSRLSDYKIHMNMHN-------------------------------------G------F-KYQCHICL 213 (319)
Q Consensus 178 ~~~~C~~C~~~f~~~~~l~~H~~~h~-------------------------------------~------~-~~~C~~C~ 213 (319)
++|.|..|..++..+.+|..|+..-- + + ++.|.+|+
T Consensus 517 ~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~ 596 (1406)
T KOG1146|consen 517 KPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCS 596 (1406)
T ss_pred CcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhc
Confidence 46888888888888888888875310 0 1 28899999
Q ss_pred cccCChHHHHHHHHhhccccc
Q psy7463 214 KCTSRKNYLKRHIIMMHTKFE 234 (319)
Q Consensus 214 ~~f~~~~~L~~H~~~~H~~~~ 234 (319)
+.-.-..+|..|+...+.-..
T Consensus 597 yetniarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 597 YETNIARNLRIHMTASPSSSP 617 (1406)
T ss_pred chhhhhhccccccccCCCCCC
Confidence 888888888888875554433
No 52
>KOG2482|consensus
Probab=96.41 E-value=0.017 Score=48.62 Aligned_cols=162 Identities=19% Similarity=0.219 Sum_probs=92.3
Q ss_pred HHHHHHhccCC---ccccccchhhhh--HHHHHHHhhcCCCCCCCCcCccccchhhhHHHHHHhhhCCcccccCCCcccc
Q psy7463 58 YEEHVRLHEGG---IICRLCGEKFEK--SLMRDHLVTHIPPEHRGKVSDAFFNKKQTALLTHYLKRNGIKLQCNLCADTF 132 (319)
Q Consensus 58 l~~H~~~h~~~---~~C~~C~~~f~~--~~l~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f 132 (319)
|.+|++.-.+. .+|-+|...+.- +....|+-..++-...-+. +..+- ..+..+.... -..+.|-.|.+.|
T Consensus 131 LeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpD-niVyv---nelLehLkek-L~r~~CLyCekif 205 (423)
T KOG2482|consen 131 LEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPD-NIVYV---NELLEHLKEK-LERLRCLYCEKIF 205 (423)
T ss_pred HHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCc-ceeeH---HHHHHHHHHH-Hhhheeeeecccc
Confidence 44444443333 689999988853 6677776554431100000 00000 2222222211 1248999999999
Q ss_pred CChhHHHHHHhHh-cCCCCcc-------ccccccccccCChHHHHHHHH----Hh----------------cCCC--Ccc
Q psy7463 133 CPRSNMLRHYLLK-HRGDKVF-------YACDRCDKRFSLLQNLKRHLA----IH----------------ERIA--YQC 182 (319)
Q Consensus 133 ~~~~~l~~H~~~~-H~~~~~~-------~~C~~C~~~f~~~~~L~~H~~----~h----------------~~~~--~~C 182 (319)
..+.-|+.||+.. |..-.|. |.=.+ .-..++....|.. +- ...+ .+|
T Consensus 206 rdkntLkeHMrkK~HrrinPknreYDkfyiINY---~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~C 282 (423)
T KOG2482|consen 206 RDKNTLKEHMRKKRHRRINPKNREYDKFYIINY---LEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVC 282 (423)
T ss_pred CCcHHHHHHHHhccCcccCCCccccceEEEEeH---hhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEE
Confidence 9999999999654 4332221 11111 0011111112211 10 0112 589
Q ss_pred CchhhccCCHHHHHHHHHhcCC----------------------------CcccccccccccCChHHHHHHHH
Q psy7463 183 NVCDKKYSRLSDYKIHMNMHNG----------------------------FKYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 183 ~~C~~~f~~~~~l~~H~~~h~~----------------------------~~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
-.|....-+...|..||++-|. ..-.|..|.-.|.....|..||.
T Consensus 283 LfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 283 LFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred EeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcc
Confidence 9999999889999999986430 02468899999999999999986
No 53
>KOG4173|consensus
Probab=95.96 E-value=0.0048 Score=47.88 Aligned_cols=83 Identities=23% Similarity=0.448 Sum_probs=65.2
Q ss_pred cccccc--cccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHHHHHhcC----------CC-cccccc--ccccc
Q psy7463 152 FYACDR--CDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIHMNMHN----------GF-KYQCHI--CLKCT 216 (319)
Q Consensus 152 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~----------~~-~~~C~~--C~~~f 216 (319)
.|.|++ |-..|........|..+-+ .-.|.+|.+.|.+...|..|+..-+ |. -|+|-+ |+..|
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h--~~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLH--GNSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcc--cchhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 377887 7888888887888875443 3479999999999999999986533 33 399977 99999
Q ss_pred CChHHHHHHHHhhccccccc
Q psy7463 217 SRKNYLKRHIIMMHTKFEGQ 236 (319)
Q Consensus 217 ~~~~~L~~H~~~~H~~~~~~ 236 (319)
.+...-+.|+-..|.-...|
T Consensus 157 kT~r~RkdH~I~~Hk~Pa~f 176 (253)
T KOG4173|consen 157 KTSRDRKDHMIRMHKYPADF 176 (253)
T ss_pred hhhhhhhhHHHHhccCCcce
Confidence 99999999998888654443
No 54
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.93 E-value=0.0018 Score=33.43 Aligned_cols=19 Identities=42% Similarity=0.826 Sum_probs=8.1
Q ss_pred ccCchhhccCCHHHHHHHH
Q psy7463 181 QCNVCDKKYSRLSDYKIHM 199 (319)
Q Consensus 181 ~C~~C~~~f~~~~~l~~H~ 199 (319)
.|..|++.|.+...|..|+
T Consensus 3 ~C~~C~k~f~~~~~~~~H~ 21 (27)
T PF12171_consen 3 YCDACDKYFSSENQLKQHM 21 (27)
T ss_dssp BBTTTTBBBSSHHHHHCCT
T ss_pred CcccCCCCcCCHHHHHHHH
Confidence 3444444444444444443
No 55
>KOG1146|consensus
Probab=95.84 E-value=0.0066 Score=59.89 Aligned_cols=73 Identities=18% Similarity=0.377 Sum_probs=56.8
Q ss_pred cccccccCChHHHHHHHHHh-c-CCCCccCchhhccCCHHHHHHHHHhcC--------------------------CCcc
Q psy7463 156 DRCDKRFSLLQNLKRHLAIH-E-RIAYQCNVCDKKYSRLSDYKIHMNMHN--------------------------GFKY 207 (319)
Q Consensus 156 ~~C~~~f~~~~~L~~H~~~h-~-~~~~~C~~C~~~f~~~~~l~~H~~~h~--------------------------~~~~ 207 (319)
..|+..+.....+..|+..- . .+.|+|+.|+..|+....|..|+|.-+ +.+|
T Consensus 440 ~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~ 519 (1406)
T KOG1146|consen 440 TKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPY 519 (1406)
T ss_pred cchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcc
Confidence 33445555555555555433 3 678999999999999999999999822 3369
Q ss_pred cccccccccCChHHHHHHHHh
Q psy7463 208 QCHICLKCTSRKNYLKRHIIM 228 (319)
Q Consensus 208 ~C~~C~~~f~~~~~L~~H~~~ 228 (319)
.|..|...++.+.+|.+|+..
T Consensus 520 ~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 520 PCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred cceeeeeeeecchHHHHHHHH
Confidence 999999999999999999873
No 56
>KOG2785|consensus
Probab=95.80 E-value=0.02 Score=49.08 Aligned_cols=51 Identities=25% Similarity=0.443 Sum_probs=43.9
Q ss_pred CCccCchhhccCCHHHHHHHHHhcCC------------------------Ccccccccc---cccCChHHHHHHHHhh
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHNG------------------------FKYQCHICL---KCTSRKNYLKRHIIMM 229 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~~------------------------~~~~C~~C~---~~f~~~~~L~~H~~~~ 229 (319)
|-.|-+|++.+.+...-..||..+|| .-|.|-.|+ +.|.+....+.||...
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 67899999999999999999998773 127899999 9999999999999843
No 57
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.66 E-value=0.004 Score=32.09 Aligned_cols=22 Identities=27% Similarity=0.815 Sum_probs=13.9
Q ss_pred cccccchhhccCHHHHHHHHHh
Q psy7463 43 YECDCCTEYFIDRIAYEEHVRL 64 (319)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~ 64 (319)
|.|..|++.|.+...|..|+++
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 5566666666666666666553
No 58
>PRK04860 hypothetical protein; Provisional
Probab=95.59 E-value=0.0041 Score=47.56 Aligned_cols=35 Identities=23% Similarity=0.582 Sum_probs=18.9
Q ss_pred CCccCchhhccCCHHHHHHHHHhcCCC-cccccccccccC
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHNGF-KYQCHICLKCTS 217 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~C~~C~~~f~ 217 (319)
+|.|. |+. ....++.|.++|.+. +|.|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 45555 554 444455555555554 455555555554
No 59
>KOG4173|consensus
Probab=95.02 E-value=0.037 Score=43.09 Aligned_cols=91 Identities=18% Similarity=0.404 Sum_probs=50.9
Q ss_pred cccccc--chhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHHHHHHhccCCccccccchhhhhHHHHHHHhhcC
Q psy7463 14 PQKCPL--CERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYEEHVRLHEGGIICRLCGEKFEKSLMRDHLVTHI 91 (319)
Q Consensus 14 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f~~~~l~~H~~~h~ 91 (319)
.|.|++ |...|.....+..|..+-++ -.|..|.+.|.+...|..|+...+.
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HD------------------------ 131 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHD------------------------ 131 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHH------------------------
Confidence 455655 55666666666666654444 3466666666666666666543322
Q ss_pred CCCCCCCcCccccchhhhHHHHHHhhhCCccccc--CCCccccCChhHHHHHHhHhcCCC
Q psy7463 92 PPEHRGKVSDAFFNKKQTALLTHYLKRNGIKLQC--NLCADTFCPRSNMLRHYLLKHRGD 149 (319)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C--~~C~~~f~~~~~l~~H~~~~H~~~ 149 (319)
.+-......+..-|+| +.|+..|.+...-..|+..+|.-.
T Consensus 132 ------------------s~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk~P 173 (253)
T KOG4173|consen 132 ------------------SLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHKYP 173 (253)
T ss_pred ------------------HHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhccCC
Confidence 1111111122223777 458888888888888877777643
No 60
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.81 E-value=0.026 Score=28.38 Aligned_cols=20 Identities=25% Similarity=0.453 Sum_probs=13.0
Q ss_pred ccccccccccCChHHHHHHHH
Q psy7463 207 YQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~ 227 (319)
..|+.|++.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3567777777 5666666654
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.80 E-value=0.027 Score=28.35 Aligned_cols=19 Identities=21% Similarity=0.670 Sum_probs=10.0
Q ss_pred ccCchhhccCCHHHHHHHHH
Q psy7463 181 QCNVCDKKYSRLSDYKIHMN 200 (319)
Q Consensus 181 ~C~~C~~~f~~~~~l~~H~~ 200 (319)
.|+.||+.| ..+.|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 4445555544
No 62
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.98 E-value=0.037 Score=30.31 Aligned_cols=23 Identities=22% Similarity=0.498 Sum_probs=15.1
Q ss_pred ccccccchhccccHHHHHHHHHH
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKK 36 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~ 36 (319)
+|.|+.|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46677777777766666666653
No 63
>KOG2893|consensus
Probab=93.70 E-value=0.02 Score=45.58 Aligned_cols=49 Identities=18% Similarity=0.445 Sum_probs=38.4
Q ss_pred cccccccchhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHHHH-HHhc
Q psy7463 13 VPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYEEH-VRLH 65 (319)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H-~~~h 65 (319)
..-+|=+|++.|....-|.+|++.. -|+|.+|.+...+--.|..| |+.|
T Consensus 9 ~kpwcwycnrefddekiliqhqkak----hfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 9 DKPWCWYCNREFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred CCceeeecccccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhh
Confidence 3447999999999999999998754 49999999887776666666 4444
No 64
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.60 E-value=0.049 Score=29.83 Aligned_cols=22 Identities=14% Similarity=0.427 Sum_probs=19.0
Q ss_pred cccccccccccCChHHHHHHHH
Q psy7463 206 KYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
+|.|.+|++.|.+...+..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5789999999998888888876
No 65
>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=93.42 E-value=0.13 Score=36.75 Aligned_cols=78 Identities=17% Similarity=0.313 Sum_probs=44.6
Q ss_pred ccccccccccCChHHHHHHHHHhc-CC-CCccCchhhccCCHHHH-HHHHHhc---------CCC----cccc----ccc
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHE-RI-AYQCNVCDKKYSRLSDY-KIHMNMH---------NGF----KYQC----HIC 212 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~-~~-~~~C~~C~~~f~~~~~l-~~H~~~h---------~~~----~~~C----~~C 212 (319)
..|..|+.+... +.+..|++..+ .. ...-..=...+.....| ......- .|. -|.| +.|
T Consensus 12 lIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~~C 90 (109)
T PF12013_consen 12 LICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPPHC 90 (109)
T ss_pred EEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCCCC
Confidence 689999988766 88999998443 21 11010000011110001 0000000 011 2899 999
Q ss_pred ccccCChHHHHHHHHhhcc
Q psy7463 213 LKCTSRKNYLKRHIIMMHT 231 (319)
Q Consensus 213 ~~~f~~~~~L~~H~~~~H~ 231 (319)
++.+.+...+.+|++.+|+
T Consensus 91 ~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 91 GYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CcEeccHHHHHHHHHHhcC
Confidence 9999999999999997774
No 66
>KOG2893|consensus
Probab=92.85 E-value=0.032 Score=44.52 Aligned_cols=42 Identities=26% Similarity=0.514 Sum_probs=30.3
Q ss_pred cccccccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHHH
Q psy7463 154 ACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIH 198 (319)
Q Consensus 154 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H 198 (319)
.|.+|++.|..+..|..|++. +-|+|.+|-+...+--.|..|
T Consensus 12 wcwycnrefddekiliqhqka---khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA---KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhh---ccceeeeehhhhccCCCceee
Confidence 578888888888877777663 357788887776666666666
No 67
>KOG2785|consensus
Probab=92.46 E-value=0.45 Score=41.12 Aligned_cols=137 Identities=19% Similarity=0.251 Sum_probs=92.2
Q ss_pred cccCCCccccCChhHHHHHHhHh-cC-----------------------------------CCCccccccccccccCChH
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLK-HR-----------------------------------GDKVFYACDRCDKRFSLLQ 166 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~-H~-----------------------------------~~~~~~~C~~C~~~f~~~~ 166 (319)
|.|..|...|.+....+.|.... |. .+.+ +.|..|.+.|.+..
T Consensus 4 ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~-~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 4 FTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESV-VYCEACNKSFASPK 82 (390)
T ss_pred ceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccc-eehHHhhccccChh
Confidence 89999999999998888886422 21 1112 78999999999999
Q ss_pred HHHHHHHHhc-----CC-------------CCc-------------cCchhhccCCHHHHHHHHH------hcC-C----
Q psy7463 167 NLKRHLAIHE-----RI-------------AYQ-------------CNVCDKKYSRLSDYKIHMN------MHN-G---- 204 (319)
Q Consensus 167 ~L~~H~~~h~-----~~-------------~~~-------------C~~C~~~f~~~~~l~~H~~------~h~-~---- 204 (319)
....|+..-. .+ ... +..+-..+........+.. +-. +
T Consensus 83 a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e~ 162 (390)
T KOG2785|consen 83 AHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDED 162 (390)
T ss_pred hHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchhc
Confidence 8888875421 00 112 3333333333222222211 100 1
Q ss_pred --CcccccccccccCChHHHHHHHHhhcccc----------------------ccccccchh---hhhhhhhhHHHHHhc
Q psy7463 205 --FKYQCHICLKCTSRKNYLKRHIIMMHTKF----------------------EGQIGEMED---KVGEKKIGEIEAKVG 257 (319)
Q Consensus 205 --~~~~C~~C~~~f~~~~~L~~H~~~~H~~~----------------------~~~~c~~c~---~~~~~~~~~~~~~~~ 257 (319)
.|-.|-.|++.|.+...-..||...|+-. ..+.|-.|. +.|.+..+...|+..
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 15789999999999999999999788542 237888898 999999999999886
Q ss_pred CCC
Q psy7463 258 EGN 260 (319)
Q Consensus 258 ~~~ 260 (319)
.+.
T Consensus 243 K~H 245 (390)
T KOG2785|consen 243 KGH 245 (390)
T ss_pred ccC
Confidence 554
No 68
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.39 E-value=0.095 Score=31.45 Aligned_cols=32 Identities=22% Similarity=0.437 Sum_probs=19.0
Q ss_pred cCCCCccccccccchhccccHHHHHHHHHHhc
Q psy7463 7 DLKDKVVPQKCPLCERLYKSVYRMKEHMKKQH 38 (319)
Q Consensus 7 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 38 (319)
...+|+--+.|+.|++.|.......+|...-+
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 34455556666666666666666666665443
No 69
>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=91.90 E-value=0.062 Score=29.09 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=4.5
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
|.|..||..+
T Consensus 2 ~~C~~CGy~y 11 (33)
T cd00350 2 YVCPVCGYIY 11 (33)
T ss_pred EECCCCCCEE
Confidence 3444444443
No 70
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.69 E-value=0.015 Score=52.70 Aligned_cols=56 Identities=20% Similarity=0.453 Sum_probs=50.8
Q ss_pred cccccccchhccccHHHHHHHHH--HhcCC--Cccccc--cchhhccCHHHHHHHHHhccCC
Q psy7463 13 VPQKCPLCERLYKSVYRMKEHMK--KQHKG--QLYECD--CCTEYFIDRIAYEEHVRLHEGG 68 (319)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~ 68 (319)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~ 349 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI 349 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCC
Confidence 47899999999999999999999 79999 999999 7999999999999998888764
No 71
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=91.42 E-value=0.09 Score=31.55 Aligned_cols=27 Identities=22% Similarity=0.287 Sum_probs=23.5
Q ss_pred cccccccccccCChHHHHHHHHhhccc
Q psy7463 206 KYQCHICLKCTSRKNYLKRHIIMMHTK 232 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~~~H~~ 232 (319)
-+.||.|+..|....++.+|+...|.-
T Consensus 17 ~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 17 FLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred eeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 389999999999999999999877753
No 72
>KOG2186|consensus
Probab=90.65 E-value=0.16 Score=41.16 Aligned_cols=47 Identities=26% Similarity=0.449 Sum_probs=34.1
Q ss_pred CCccCchhhccCCHHHHHHHHHhcCCCcccccccccccCChHHHHHHHH
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
-|.|..||....-. .+..|+...++.-|.|-.|++.|.. .++..|..
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccCCeeEEeeccccccc-chhhhhhh
Confidence 36777777777543 4666877777767888888888877 67777776
No 73
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.30 E-value=0.4 Score=34.06 Aligned_cols=20 Identities=20% Similarity=0.567 Sum_probs=13.3
Q ss_pred ccccCCCccccCChhHHHHH
Q psy7463 122 KLQCNLCADTFCPRSNMLRH 141 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H 141 (319)
|..|++||-.......|.+-
T Consensus 15 P~~CpiCgLtLVss~HLARS 34 (112)
T TIGR00622 15 PVECPICGLTLILSTHLARS 34 (112)
T ss_pred CCcCCcCCCEEeccchHHHh
Confidence 56777777777666666554
No 74
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=89.73 E-value=0.56 Score=33.49 Aligned_cols=70 Identities=20% Similarity=0.289 Sum_probs=45.3
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhc------------------------CC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHE------------------------RI 178 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~------------------------~~ 178 (319)
..|..|+..... +++..|++..|..... ..- ..+..-.+... -.
T Consensus 12 lIC~~C~~av~~-~~v~~HL~~~H~~~~~-~~~----------~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~ 79 (109)
T PF12013_consen 12 LICRQCQYAVQP-SEVESHLRKRHHILKS-QER----------QRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYD 79 (109)
T ss_pred EEeCCCCcccCc-hHHHHHHHHhcccccH-HHH----------HHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCC
Confidence 789999988855 8999999766654322 100 11111111100 01
Q ss_pred CCcc----CchhhccCCHHHHHHHHHhcCC
Q psy7463 179 AYQC----NVCDKKYSRLSDYKIHMNMHNG 204 (319)
Q Consensus 179 ~~~C----~~C~~~f~~~~~l~~H~~~h~~ 204 (319)
-|.| ..|++.+.+...+..|++.++|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 2889 9999999999999999988775
No 75
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.27 E-value=0.078 Score=47.98 Aligned_cols=120 Identities=26% Similarity=0.452 Sum_probs=83.5
Q ss_pred ccccCCCccccCChhHHHHHHhH-hcCCC--Ccccccc--ccccccCChHHHHHHHHHhc-CCCCccCc-----------
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLL-KHRGD--KVFYACD--RCDKRFSLLQNLKRHLAIHE-RIAYQCNV----------- 184 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~-~H~~~--~~~~~C~--~C~~~f~~~~~L~~H~~~h~-~~~~~C~~----------- 184 (319)
++.|..|...|.....|..|... .|.++ ++ +.|+ .|++.|.....+..|...|. ..++.+..
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~-~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP-FSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCc-eeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 47888899999899999999843 78888 77 8888 79999999888888888775 22222222
Q ss_pred --------------------------hhhccCCHHHHHHHHHhcCCC---cccccccccccCChHHHHHHHHhhcccccc
Q psy7463 185 --------------------------CDKKYSRLSDYKIHMNMHNGF---KYQCHICLKCTSRKNYLKRHIIMMHTKFEG 235 (319)
Q Consensus 185 --------------------------C~~~f~~~~~l~~H~~~h~~~---~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~ 235 (319)
|-..+.....+..|...|... .+.+..|.+.|.....|..|++ .|....+
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 446 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKK-IHTNHAP 446 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccccc-ccccCCc
Confidence 233333333333333333332 3778889999999999999988 7777666
Q ss_pred ccccchhh
Q psy7463 236 QIGEMEDK 243 (319)
Q Consensus 236 ~~c~~c~~ 243 (319)
+.|.....
T Consensus 447 ~~~~~~~~ 454 (467)
T COG5048 447 LLCSILKS 454 (467)
T ss_pred eeeccccc
Confidence 66655443
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=86.74 E-value=0.43 Score=33.89 Aligned_cols=11 Identities=27% Similarity=0.866 Sum_probs=5.6
Q ss_pred ccccchhcccc
Q psy7463 16 KCPLCERLYKS 26 (319)
Q Consensus 16 ~C~~C~~~f~~ 26 (319)
.|+.||+.|..
T Consensus 11 ~Cp~CG~kFYD 21 (108)
T PF09538_consen 11 TCPSCGAKFYD 21 (108)
T ss_pred cCCCCcchhcc
Confidence 45555555543
No 77
>KOG2186|consensus
Probab=86.60 E-value=0.35 Score=39.23 Aligned_cols=47 Identities=21% Similarity=0.553 Sum_probs=34.6
Q ss_pred ccccccchhccccHHHHHHHHHHhcCCCccccccchhhccCHHHHHHHHH
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDRIAYEEHVR 63 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 63 (319)
.|.|..||...+. ..+.+|+...++ .-|.|-.|++.|.. .....|..
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 5788888888774 467778887777 56888888888876 66666654
No 78
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=84.87 E-value=0.61 Score=27.13 Aligned_cols=25 Identities=36% Similarity=0.578 Sum_probs=14.3
Q ss_pred cccccccccccCCh----HHHHHHHHhhc
Q psy7463 206 KYQCHICLKCTSRK----NYLKRHIIMMH 230 (319)
Q Consensus 206 ~~~C~~C~~~f~~~----~~L~~H~~~~H 230 (319)
..+|.+|++.+... +.|.+|++..|
T Consensus 16 ~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 16 KAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp -EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred eEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 36777777777653 67888875454
No 79
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=84.62 E-value=0.53 Score=33.45 Aligned_cols=31 Identities=19% Similarity=0.347 Sum_probs=20.2
Q ss_pred CCccCchhhccCCHHHHHHHHHhcCCCcccccccccccCCh
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHICLKCTSRK 219 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~ 219 (319)
...|+.||..|.... ..|..||.||..|.-.
T Consensus 9 KR~Cp~CG~kFYDLn----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLN----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCC----------CCCccCCCCCCccCcc
Confidence 456777777775421 1267788888777665
No 80
>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=84.10 E-value=0.55 Score=38.26 Aligned_cols=93 Identities=15% Similarity=0.309 Sum_probs=49.1
Q ss_pred hCCcccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHH
Q psy7463 118 RNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKI 197 (319)
Q Consensus 118 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~ 197 (319)
++++-|+|..|...+ -...-..|+.....-+...|+|.-|++.= .|.|-.|.--|-.....+.
T Consensus 138 hGGrif~CsfC~~fl-CEDDQFEHQAsCQvLe~E~~KC~SCNrlG----------------q~sCLRCK~cfCddHvrrK 200 (314)
T PF06524_consen 138 HGGRIFKCSFCDNFL-CEDDQFEHQASCQVLESETFKCQSCNRLG----------------QYSCLRCKICFCDDHVRRK 200 (314)
T ss_pred CCCeEEEeecCCCee-eccchhhhhhhhhhhhccccccccccccc----------------chhhhheeeeehhhhhhhc
Confidence 444456776666433 33333445433333333236666665421 2455555555543222222
Q ss_pred HHHhcCCCcccccccccccCChHHHHHHHH
Q psy7463 198 HMNMHNGFKYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 198 H~~~h~~~~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
=.+.--+.++.||.|+........|..-.+
T Consensus 201 g~ky~k~k~~PCPKCg~et~eTkdLSmStR 230 (314)
T PF06524_consen 201 GFKYEKGKPIPCPKCGYETQETKDLSMSTR 230 (314)
T ss_pred ccccccCCCCCCCCCCCcccccccceeeee
Confidence 222233457999999988888877766655
No 81
>PF12907 zf-met2: Zinc-binding
Probab=84.07 E-value=0.64 Score=26.30 Aligned_cols=29 Identities=28% Similarity=0.339 Sum_probs=20.5
Q ss_pred cccccccccc---CChHHHHHHHHhhcccccc
Q psy7463 207 YQCHICLKCT---SRKNYLKRHIIMMHTKFEG 235 (319)
Q Consensus 207 ~~C~~C~~~f---~~~~~L~~H~~~~H~~~~~ 235 (319)
+.|.+|-.+| .+...|..|....|++...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~ 33 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTF 33 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCH
Confidence 5688887544 5566788888888877543
No 82
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=83.92 E-value=0.64 Score=25.93 Aligned_cols=14 Identities=29% Similarity=0.648 Sum_probs=8.1
Q ss_pred cccCCCccccCChh
Q psy7463 123 LQCNLCADTFCPRS 136 (319)
Q Consensus 123 ~~C~~C~~~f~~~~ 136 (319)
+.|+.|+..|.-..
T Consensus 3 ~~CP~C~~~~~v~~ 16 (38)
T TIGR02098 3 IQCPNCKTSFRVVD 16 (38)
T ss_pred EECCCCCCEEEeCH
Confidence 45666666664443
No 83
>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=83.38 E-value=0.66 Score=25.24 Aligned_cols=9 Identities=22% Similarity=0.744 Sum_probs=3.6
Q ss_pred ccccccccc
Q psy7463 153 YACDRCDKR 161 (319)
Q Consensus 153 ~~C~~C~~~ 161 (319)
|+|..||..
T Consensus 3 ~~C~~CG~i 11 (34)
T cd00729 3 WVCPVCGYI 11 (34)
T ss_pred EECCCCCCE
Confidence 334444433
No 84
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=82.42 E-value=1.4 Score=33.81 Aligned_cols=35 Identities=20% Similarity=0.379 Sum_probs=26.8
Q ss_pred cCCCccccccchhhccCHHHHHHHHHhccCCccccccchhhh
Q psy7463 38 HKGQLYECDCCTEYFIDRIAYEEHVRLHEGGIICRLCGEKFE 79 (319)
Q Consensus 38 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f~ 79 (319)
....-|.|+.|+..|+...++. ..|.|+.||....
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~-------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME-------LNFTCPRCGAMLD 139 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH-------cCCcCCCCCCEee
Confidence 3445688999999988888885 3699999987653
No 85
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=81.51 E-value=0.97 Score=27.78 Aligned_cols=10 Identities=30% Similarity=0.876 Sum_probs=5.6
Q ss_pred CCCCccCchh
Q psy7463 177 RIAYQCNVCD 186 (319)
Q Consensus 177 ~~~~~C~~C~ 186 (319)
..+|.|+.||
T Consensus 48 g~~Y~Cp~CG 57 (61)
T COG2888 48 GNPYRCPKCG 57 (61)
T ss_pred CCceECCCcC
Confidence 3456666665
No 86
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.48 E-value=1 Score=25.03 Aligned_cols=12 Identities=25% Similarity=0.578 Sum_probs=6.3
Q ss_pred ccCCCccccCCh
Q psy7463 124 QCNLCADTFCPR 135 (319)
Q Consensus 124 ~C~~C~~~f~~~ 135 (319)
.|+.|+..|.-.
T Consensus 4 ~CP~C~~~f~v~ 15 (37)
T PF13719_consen 4 TCPNCQTRFRVP 15 (37)
T ss_pred ECCCCCceEEcC
Confidence 455565555433
No 87
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=81.42 E-value=1.3 Score=33.63 Aligned_cols=38 Identities=26% Similarity=0.599 Sum_probs=26.5
Q ss_pred CCCccccccchhhccCHHHHHH-HHHhccCCccccccchhhh
Q psy7463 39 KGQLYECDCCTEYFIDRIAYEE-HVRLHEGGIICRLCGEKFE 79 (319)
Q Consensus 39 ~~~~~~C~~C~~~f~~~~~l~~-H~~~h~~~~~C~~C~~~f~ 79 (319)
...-|.|+.|+..|.....+.. . ..+.|.|+.||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d---~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLD---MDGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcC---CCCcEECCCCCCEEE
Confidence 3456899999988886655443 2 245599999987763
No 88
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=81.29 E-value=1.3 Score=26.52 Aligned_cols=25 Identities=36% Similarity=0.590 Sum_probs=15.6
Q ss_pred ccccccccccCCh-----HHHHHHHHhhcc
Q psy7463 207 YQCHICLKCTSRK-----NYLKRHIIMMHT 231 (319)
Q Consensus 207 ~~C~~C~~~f~~~-----~~L~~H~~~~H~ 231 (319)
-.|..|++.+... +.|.+|++..|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4566677666544 577777765453
No 89
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=79.79 E-value=1.5 Score=24.23 Aligned_cols=12 Identities=17% Similarity=0.498 Sum_probs=6.3
Q ss_pred ccCCCccccCCh
Q psy7463 124 QCNLCADTFCPR 135 (319)
Q Consensus 124 ~C~~C~~~f~~~ 135 (319)
.|+.|+..|.-.
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 455555555433
No 90
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=79.64 E-value=0.34 Score=39.35 Aligned_cols=16 Identities=25% Similarity=0.744 Sum_probs=11.0
Q ss_pred ccccCCCccccCChhH
Q psy7463 122 KLQCNLCADTFCPRSN 137 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~ 137 (319)
.+.||+|+..|.+..-
T Consensus 5 ~~~CPvC~~~F~~~~v 20 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKV 20 (214)
T ss_pred ceECCCCCCeeeeeEE
Confidence 4678888888766543
No 91
>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=79.23 E-value=1.9 Score=21.84 Aligned_cols=19 Identities=26% Similarity=0.735 Sum_probs=13.2
Q ss_pred cccccccccCChHHHHHHHH
Q psy7463 208 QCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 208 ~C~~C~~~f~~~~~L~~H~~ 227 (319)
.||+|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 577777777 5567777764
No 92
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.18 E-value=0.38 Score=39.06 Aligned_cols=13 Identities=15% Similarity=0.404 Sum_probs=10.1
Q ss_pred ccccccccccCCh
Q psy7463 207 YQCHICLKCTSRK 219 (319)
Q Consensus 207 ~~C~~C~~~f~~~ 219 (319)
..||.||+.|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5799999887654
No 93
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=77.66 E-value=2.2 Score=33.47 Aligned_cols=33 Identities=33% Similarity=0.597 Sum_probs=25.5
Q ss_pred CCccccccchhhccCHHHHHHHHHhccCCccccccchhhh
Q psy7463 40 GQLYECDCCTEYFIDRIAYEEHVRLHEGGIICRLCGEKFE 79 (319)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f~ 79 (319)
..-|.|+.|+..|+...++. ..|.|+.||....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~-------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME-------YGFRCPQCGEMLE 147 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh-------cCCcCCCCCCCCe
Confidence 45688999999988887763 4699999987653
No 94
>PF15269 zf-C2H2_7: Zinc-finger
Probab=77.62 E-value=2.1 Score=24.51 Aligned_cols=22 Identities=32% Similarity=0.569 Sum_probs=19.6
Q ss_pred cccccccccccCChHHHHHHHH
Q psy7463 206 KYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
.|+|-.|..+..-++.|-.||+
T Consensus 20 ~ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred cceeecCCcccchHHHHHHHHH
Confidence 3889999999999999999987
No 95
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=77.18 E-value=1.1 Score=26.10 Aligned_cols=10 Identities=30% Similarity=0.999 Sum_probs=4.5
Q ss_pred CccCchhhcc
Q psy7463 180 YQCNVCDKKY 189 (319)
Q Consensus 180 ~~C~~C~~~f 189 (319)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 4444444444
No 96
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=75.87 E-value=1.3 Score=34.13 Aligned_cols=10 Identities=20% Similarity=0.740 Sum_probs=4.9
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
|.|++||..+
T Consensus 135 ~vC~vCGy~~ 144 (166)
T COG1592 135 WVCPVCGYTH 144 (166)
T ss_pred EEcCCCCCcc
Confidence 4555555443
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=75.67 E-value=1.6 Score=33.56 Aligned_cols=34 Identities=15% Similarity=0.230 Sum_probs=27.8
Q ss_pred CCccccccccchhccccHHHHHHHHHHhcCCCccccccchhhc
Q psy7463 10 DKVVPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYF 52 (319)
Q Consensus 10 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 52 (319)
....-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 3456799999999999888885 259999999764
No 98
>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=74.80 E-value=2.1 Score=34.54 Aligned_cols=28 Identities=25% Similarity=0.616 Sum_probs=22.9
Q ss_pred cccccccccccCChHHHHHHHHhhcccc
Q psy7463 206 KYQCHICLKCTSRKNYLKRHIIMMHTKF 233 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~~~H~~~ 233 (319)
+|.|++|+|.|.-..-..+|+...|...
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred EECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 7999999999999999999999999763
No 99
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=74.73 E-value=1.6 Score=25.59 Aligned_cols=10 Identities=20% Similarity=0.740 Sum_probs=6.0
Q ss_pred cccCCCcccc
Q psy7463 123 LQCNLCADTF 132 (319)
Q Consensus 123 ~~C~~C~~~f 132 (319)
|.|+.||..|
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 5666666555
No 100
>PHA00626 hypothetical protein
Probab=74.57 E-value=1.5 Score=26.60 Aligned_cols=11 Identities=36% Similarity=0.709 Sum_probs=5.7
Q ss_pred ccccccccccC
Q psy7463 153 YACDRCDKRFS 163 (319)
Q Consensus 153 ~~C~~C~~~f~ 163 (319)
|+|+.||..|+
T Consensus 24 YkCkdCGY~ft 34 (59)
T PHA00626 24 YVCCDCGYNDS 34 (59)
T ss_pred eEcCCCCCeec
Confidence 55555555543
No 101
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=74.19 E-value=1.6 Score=34.24 Aligned_cols=34 Identities=21% Similarity=0.359 Sum_probs=27.3
Q ss_pred CccccccccchhccccHHHHHHHHHHhcCCCccccccchhhcc
Q psy7463 11 KVVPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFI 53 (319)
Q Consensus 11 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 53 (319)
...-|.|+.|+..|+....+. .-|.|+.||....
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 346799999999999887763 3599999997653
No 102
>KOG2071|consensus
Probab=72.75 E-value=3.9 Score=37.83 Aligned_cols=32 Identities=19% Similarity=0.334 Sum_probs=24.1
Q ss_pred CccccccCCCCCccccc-ccccccc--cccccccC
Q psy7463 284 THPLVCPSSNGREETQY-FPFRSWV--NTRTLESN 315 (319)
Q Consensus 284 ~~~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~~ 315 (319)
.....|+.+.+.+...+ .-...|| +|+.+..|
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G 545 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFG 545 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccC
Confidence 45678999999997775 4467787 88887733
No 103
>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=71.97 E-value=0.79 Score=25.95 Aligned_cols=12 Identities=17% Similarity=0.647 Sum_probs=6.6
Q ss_pred cccccchhcccc
Q psy7463 15 QKCPLCERLYKS 26 (319)
Q Consensus 15 ~~C~~C~~~f~~ 26 (319)
|.|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (41)
T smart00834 6 YRCEDCGHTFEV 17 (41)
T ss_pred EEcCCCCCEEEE
Confidence 555556555553
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=71.36 E-value=0.85 Score=27.52 Aligned_cols=11 Identities=36% Similarity=1.014 Sum_probs=5.4
Q ss_pred cccccchhhcc
Q psy7463 43 YECDCCTEYFI 53 (319)
Q Consensus 43 ~~C~~C~~~f~ 53 (319)
|+|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44555555443
No 105
>PF14353 CpXC: CpXC protein
Probab=70.83 E-value=3.5 Score=30.34 Aligned_cols=45 Identities=18% Similarity=0.300 Sum_probs=26.7
Q ss_pred ccCchhhccCC----------HHHHHHHHHhcCCC--cccccccccccCChHHHHHHHH
Q psy7463 181 QCNVCDKKYSR----------LSDYKIHMNMHNGF--KYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 181 ~C~~C~~~f~~----------~~~l~~H~~~h~~~--~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
.|+.|+..|.. ...|+.=+. .|. .|.||.||..|.-...+.-|-.
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il--~g~l~~~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKIL--DGSLFSFTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHH--cCCcCEEECCCCCCceecCCCEEEEcC
Confidence 57777766632 223333222 343 5888888888877766666644
No 106
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=70.72 E-value=3.3 Score=31.41 Aligned_cols=39 Identities=21% Similarity=0.397 Sum_probs=27.1
Q ss_pred CCccccccccchhccccHHHHHHHHHHhcCCCccccccchhhc
Q psy7463 10 DKVVPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYF 52 (319)
Q Consensus 10 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 52 (319)
....-|.|+.|+..|.....+.. .. ....|.|+.||...
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEE
Confidence 34567999999999996544332 01 23449999999865
No 107
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=70.35 E-value=2.5 Score=26.11 Aligned_cols=9 Identities=33% Similarity=0.955 Sum_probs=5.0
Q ss_pred CCCccCchh
Q psy7463 178 IAYQCNVCD 186 (319)
Q Consensus 178 ~~~~C~~C~ 186 (319)
.+|.|+.||
T Consensus 47 ~~Y~CP~CG 55 (59)
T PRK14890 47 NPYTCPKCG 55 (59)
T ss_pred CceECCCCC
Confidence 355566555
No 108
>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=69.47 E-value=2.8 Score=30.37 Aligned_cols=28 Identities=14% Similarity=0.163 Sum_probs=14.4
Q ss_pred ccccchhccccHHHHHHHHHHhcCCCccccccchhhccC
Q psy7463 16 KCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFID 54 (319)
Q Consensus 16 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 54 (319)
.|+.||+.|... +..|-.|+.||..|.-
T Consensus 11 ~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~ 38 (129)
T TIGR02300 11 ICPNTGSKFYDL-----------NRRPAVSPYTGEQFPP 38 (129)
T ss_pred cCCCcCcccccc-----------CCCCccCCCcCCccCc
Confidence 556666555531 2345555555555543
No 109
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.32 E-value=2.9 Score=29.81 Aligned_cols=22 Identities=18% Similarity=0.492 Sum_probs=13.4
Q ss_pred ccccccccchhccccHHHHHHH
Q psy7463 12 VVPQKCPLCERLYKSVYRMKEH 33 (319)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H 33 (319)
+-|-.|+.|+...-....|.+-
T Consensus 13 ~LP~~CpiCgLtLVss~HLARS 34 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARS 34 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHh
Confidence 3466677777666655555553
No 110
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=69.08 E-value=1.8 Score=25.67 Aligned_cols=10 Identities=40% Similarity=1.268 Sum_probs=5.4
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 5555555555
No 111
>KOG1701|consensus
Probab=68.66 E-value=0.64 Score=40.80 Aligned_cols=40 Identities=18% Similarity=0.407 Sum_probs=20.6
Q ss_pred ccccchhccccHHHHHHHHHHhcCCCccccccchhhccCH
Q psy7463 16 KCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYFIDR 55 (319)
Q Consensus 16 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 55 (319)
.|-.|+|...-...--+=|..---..-|.|..|.+...-+
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq 315 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQ 315 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccc
Confidence 5777776654443333333322223447777776654443
No 112
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=67.98 E-value=2.8 Score=32.26 Aligned_cols=24 Identities=29% Similarity=0.704 Sum_probs=18.7
Q ss_pred ccccCCCccccCChhHHHHHHhHhcCCCCcccccccccc
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDK 160 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~ 160 (319)
-|.|++||.. +.++.| -+||+||.
T Consensus 134 ~~vC~vCGy~--------------~~ge~P-~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT--------------HEGEAP-EVCPICGA 157 (166)
T ss_pred EEEcCCCCCc--------------ccCCCC-CcCCCCCC
Confidence 5999999964 455566 79999984
No 113
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=67.13 E-value=4 Score=39.47 Aligned_cols=28 Identities=21% Similarity=0.557 Sum_probs=17.0
Q ss_pred cCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhc
Q psy7463 146 HRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKK 188 (319)
Q Consensus 146 H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~ 188 (319)
|..... ..|.+||..- ..|..|+.||..
T Consensus 457 H~~~~~-L~CH~Cg~~~--------------~~p~~Cp~Cgs~ 484 (730)
T COG1198 457 HKATGQ-LRCHYCGYQE--------------PIPQSCPECGSE 484 (730)
T ss_pred ecCCCe-eEeCCCCCCC--------------CCCCCCCCCCCC
Confidence 444444 6777777541 347778888754
No 114
>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=67.05 E-value=3 Score=22.30 Aligned_cols=9 Identities=22% Similarity=0.814 Sum_probs=3.7
Q ss_pred CCccCchhh
Q psy7463 179 AYQCNVCDK 187 (319)
Q Consensus 179 ~~~C~~C~~ 187 (319)
+..|+.||.
T Consensus 17 ~irC~~CG~ 25 (32)
T PF03604_consen 17 PIRCPECGH 25 (32)
T ss_dssp TSSBSSSS-
T ss_pred cEECCcCCC
Confidence 344444443
No 115
>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=66.51 E-value=4 Score=30.17 Aligned_cols=28 Identities=21% Similarity=0.395 Sum_probs=17.7
Q ss_pred ccccccccchhccccHHHHHHHHHHhcCCCc
Q psy7463 12 VVPQKCPLCERLYKSVYRMKEHMKKQHKGQL 42 (319)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 42 (319)
..-..|-+||+.|+. |.+|++.|+|-.|
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCCH
Confidence 445789999999997 4999999987543
No 116
>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=66.33 E-value=2.5 Score=22.25 Aligned_cols=8 Identities=25% Similarity=0.468 Sum_probs=3.9
Q ss_pred cccccccc
Q psy7463 206 KYQCHICL 213 (319)
Q Consensus 206 ~~~C~~C~ 213 (319)
.|.|+.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 45555554
No 117
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=65.90 E-value=0.78 Score=34.92 Aligned_cols=16 Identities=25% Similarity=0.384 Sum_probs=11.2
Q ss_pred cccccchhhccCHHHH
Q psy7463 43 YECDCCTEYFIDRIAY 58 (319)
Q Consensus 43 ~~C~~C~~~f~~~~~l 58 (319)
++|+.||..|.+...+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 7788888887665443
No 118
>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=65.64 E-value=0.86 Score=26.15 Aligned_cols=10 Identities=40% Similarity=1.148 Sum_probs=4.5
Q ss_pred cccccchhhc
Q psy7463 43 YECDCCTEYF 52 (319)
Q Consensus 43 ~~C~~C~~~f 52 (319)
|.|..||..|
T Consensus 6 y~C~~Cg~~f 15 (42)
T PF09723_consen 6 YRCEECGHEF 15 (42)
T ss_pred EEeCCCCCEE
Confidence 4444444444
No 119
>PRK04023 DNA polymerase II large subunit; Validated
Probab=65.54 E-value=5.3 Score=39.58 Aligned_cols=13 Identities=15% Similarity=0.447 Sum_probs=8.2
Q ss_pred cccccccccccCC
Q psy7463 206 KYQCHICLKCTSR 218 (319)
Q Consensus 206 ~~~C~~C~~~f~~ 218 (319)
++.|+.|+..-..
T Consensus 663 ~y~CPKCG~El~~ 675 (1121)
T PRK04023 663 EDECEKCGREPTP 675 (1121)
T ss_pred CCcCCCCCCCCCc
Confidence 4667777765443
No 120
>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=64.27 E-value=5.7 Score=20.08 Aligned_cols=9 Identities=33% Similarity=0.826 Sum_probs=5.0
Q ss_pred ccCCCcccc
Q psy7463 124 QCNLCADTF 132 (319)
Q Consensus 124 ~C~~C~~~f 132 (319)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 455555555
No 121
>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=58.99 E-value=5.8 Score=29.33 Aligned_cols=24 Identities=33% Similarity=0.693 Sum_probs=15.4
Q ss_pred CCccCchhhccCCHHHHHHHHHhcCCC
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHNGF 205 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~~~ 205 (319)
-..|-+||+.|.. |++|++.|+|.
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eeEEccCCcccch---HHHHHHHccCC
Confidence 4678889998875 58899998775
No 122
>KOG1280|consensus
Probab=58.27 E-value=8.9 Score=32.99 Aligned_cols=39 Identities=18% Similarity=0.338 Sum_probs=30.5
Q ss_pred ccccCCCccccCChhHHHHHHhHhcCCCCcccccccccc
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDK 160 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~ 160 (319)
-|.|+.|++.-.+...|..|+...|....+...|+.|.-
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~ 117 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA 117 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeecccc
Confidence 388999988888888888898888877665567777753
No 123
>KOG2272|consensus
Probab=57.72 E-value=6.4 Score=32.16 Aligned_cols=13 Identities=31% Similarity=0.876 Sum_probs=10.1
Q ss_pred ccccccccccCCh
Q psy7463 153 YACDRCDKRFSLL 165 (319)
Q Consensus 153 ~~C~~C~~~f~~~ 165 (319)
|+|..|.+.|..-
T Consensus 222 FvCa~CekPFlGH 234 (332)
T KOG2272|consen 222 FVCAKCEKPFLGH 234 (332)
T ss_pred eeehhcCCcccch
Confidence 7888888887653
No 124
>KOG2593|consensus
Probab=57.11 E-value=9.9 Score=33.85 Aligned_cols=40 Identities=20% Similarity=0.437 Sum_probs=27.9
Q ss_pred cCCCccccccchhhccCHHHHHHHHHhccCCccccccchhh
Q psy7463 38 HKGQLYECDCCTEYFIDRIAYEEHVRLHEGGIICRLCGEKF 78 (319)
Q Consensus 38 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f 78 (319)
+....|.|+.|.+.|.....++- +..-.+.|.|..|+...
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L-~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL-LDNETGEFHCENCGGEL 163 (436)
T ss_pred cccccccCCccccchhhhHHHHh-hcccCceEEEecCCCch
Confidence 34566999999999976655532 23335679999998543
No 125
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=55.97 E-value=6.1 Score=24.39 Aligned_cols=39 Identities=21% Similarity=0.569 Sum_probs=19.6
Q ss_pred cccccc--chhccccHHHHHHHHHHhcCCCcccccc----chhhcc
Q psy7463 14 PQKCPL--CERLYKSVYRMKEHMKKQHKGQLYECDC----CTEYFI 53 (319)
Q Consensus 14 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 53 (319)
+..|+. |...+. ...|..|+...-..++..|.. |...+.
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 456666 444344 356777776555556666666 665553
No 126
>KOG2272|consensus
Probab=54.59 E-value=8.6 Score=31.43 Aligned_cols=63 Identities=14% Similarity=0.377 Sum_probs=31.2
Q ss_pred cccCCCccccCChhHHHHHH---hHhcCCCCccccccccc---cccCCh--HHHHHHHHHhcCCCCccCchhhccCCH
Q psy7463 123 LQCNLCADTFCPRSNMLRHY---LLKHRGDKVFYACDRCD---KRFSLL--QNLKRHLAIHERIAYQCNVCDKKYSRL 192 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~---~~~H~~~~~~~~C~~C~---~~f~~~--~~L~~H~~~h~~~~~~C~~C~~~f~~~ 192 (319)
|+|..|++...+.+.-..-. .+.|.. +.+++|+ +....+ ..|-.|+. .+ -|.|..|.+.|.--
T Consensus 164 FkCt~C~keL~sdaRevk~eLyClrChD~----mgipiCgaC~rpIeervi~amgKhWH--ve-HFvCa~CekPFlGH 234 (332)
T KOG2272|consen 164 FKCTTCGKELTSDAREVKGELYCLRCHDK----MGIPICGACRRPIEERVIFAMGKHWH--VE-HFVCAKCEKPFLGH 234 (332)
T ss_pred eecccccccccchhhhhccceeccccccc----cCCcccccccCchHHHHHHHhccccc--hh-heeehhcCCcccch
Confidence 78999998876543211100 011111 3344443 333322 22333332 22 58899999888643
No 127
>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=54.13 E-value=9.8 Score=30.78 Aligned_cols=26 Identities=31% Similarity=0.556 Sum_probs=13.8
Q ss_pred ccccCCCccccCChhHHHHHHhHhcC
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLLKHR 147 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~~H~ 147 (319)
+|.|+.|+|.|.-..-...|+...|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 46666666666666666666655554
No 128
>KOG4167|consensus
Probab=54.09 E-value=5.2 Score=37.96 Aligned_cols=27 Identities=19% Similarity=0.385 Sum_probs=18.3
Q ss_pred ccccccccchhccccHHHHHHHHHHhc
Q psy7463 12 VVPQKCPLCERLYKSVYRMKEHMKKQH 38 (319)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~ 38 (319)
..-|.|.+|+|.|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 345677777777777777777777664
No 129
>KOG2907|consensus
Probab=54.06 E-value=6.8 Score=27.71 Aligned_cols=40 Identities=23% Similarity=0.584 Sum_probs=24.4
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSL 164 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~ 164 (319)
.+|+.||-.=....-|+ ++....|...+|.|+.|++.|..
T Consensus 75 ~kCpkCghe~m~Y~T~Q--lRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQ--LRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhh--cccccCCceEEEEcCccceeeec
Confidence 78999985422222211 22345566677899999888764
No 130
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=53.39 E-value=2.7 Score=27.36 Aligned_cols=9 Identities=44% Similarity=1.246 Sum_probs=4.6
Q ss_pred cccccchhc
Q psy7463 15 QKCPLCERL 23 (319)
Q Consensus 15 ~~C~~C~~~ 23 (319)
+.|+.||..
T Consensus 2 m~CP~Cg~~ 10 (72)
T PRK09678 2 FHCPLCQHA 10 (72)
T ss_pred ccCCCCCCc
Confidence 345555544
No 131
>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=53.37 E-value=9.3 Score=35.57 Aligned_cols=30 Identities=20% Similarity=0.504 Sum_probs=18.4
Q ss_pred HhcCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhc
Q psy7463 144 LKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKK 188 (319)
Q Consensus 144 ~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~ 188 (319)
..|..... ..|..||.... .|..|+.||..
T Consensus 233 ~~h~~~~~-l~Ch~Cg~~~~--------------~~~~Cp~C~s~ 262 (505)
T TIGR00595 233 TYHKKEGK-LRCHYCGYQEP--------------IPKTCPQCGSE 262 (505)
T ss_pred EEecCCCe-EEcCCCcCcCC--------------CCCCCCCCCCC
Confidence 33444444 67888876543 36778888753
No 132
>KOG1280|consensus
Probab=53.05 E-value=16 Score=31.47 Aligned_cols=36 Identities=14% Similarity=0.343 Sum_probs=23.6
Q ss_pred CCCccCchhhccCCHHHHHHHHHhcCCC-c--ccccccc
Q psy7463 178 IAYQCNVCDKKYSRLSDYKIHMNMHNGF-K--YQCHICL 213 (319)
Q Consensus 178 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~-~--~~C~~C~ 213 (319)
..|.|++|+..=.+...|..|...-+.. . ..|++|.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 3688888888777777888887654432 1 3455544
No 133
>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=52.38 E-value=10 Score=34.44 Aligned_cols=27 Identities=22% Similarity=0.221 Sum_probs=24.3
Q ss_pred ccccccccccCChHHHHHHHHhhcccc
Q psy7463 207 YQCHICLKCTSRKNYLKRHIIMMHTKF 233 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~~~H~~~ 233 (319)
+.|+.|.+.|.....+..|+...|.+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 789999999999999999999899764
No 134
>KOG1842|consensus
Probab=51.85 E-value=9.1 Score=34.14 Aligned_cols=29 Identities=24% Similarity=0.414 Sum_probs=26.0
Q ss_pred cccccccccccCChHHHHHHHHhhccccc
Q psy7463 206 KYQCHICLKCTSRKNYLKRHIIMMHTKFE 234 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~~~H~~~~ 234 (319)
.|.||+|...|.+...|..|+...|.++.
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 49999999999999999999998998765
No 135
>KOG2593|consensus
Probab=49.27 E-value=9.3 Score=34.01 Aligned_cols=35 Identities=29% Similarity=0.674 Sum_probs=23.1
Q ss_pred CCCccCchhhccCCHHHHHHHHHhcC-CCcccccccccc
Q psy7463 178 IAYQCNVCDKKYSRLSDYKIHMNMHN-GFKYQCHICLKC 215 (319)
Q Consensus 178 ~~~~C~~C~~~f~~~~~l~~H~~~h~-~~~~~C~~C~~~ 215 (319)
.-|.|+.|++.|.....++. .-. ...|.|..|+-.
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGE 162 (436)
T ss_pred ccccCCccccchhhhHHHHh---hcccCceEEEecCCCc
Confidence 46888888888887655542 222 226888888744
No 136
>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=48.94 E-value=7.2 Score=19.31 Aligned_cols=11 Identities=45% Similarity=0.954 Sum_probs=8.7
Q ss_pred ccccccccchh
Q psy7463 12 VVPQKCPLCER 22 (319)
Q Consensus 12 ~~~~~C~~C~~ 22 (319)
..+|.|+.||+
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 45799999984
No 137
>KOG4167|consensus
Probab=48.78 E-value=5.6 Score=37.73 Aligned_cols=25 Identities=20% Similarity=0.559 Sum_probs=23.1
Q ss_pred cccccchhhccCHHHHHHHHHhccC
Q psy7463 43 YECDCCTEYFIDRIAYEEHVRLHEG 67 (319)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~h~~ 67 (319)
|.|..|++.|.....+..||++|.-
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHH
Confidence 9999999999999999999999953
No 138
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=47.71 E-value=3.2 Score=23.51 Aligned_cols=11 Identities=45% Similarity=1.500 Sum_probs=6.7
Q ss_pred ccccccccccc
Q psy7463 152 FYACDRCDKRF 162 (319)
Q Consensus 152 ~~~C~~C~~~f 162 (319)
+|.|..|+..+
T Consensus 28 fy~C~~C~~~w 38 (40)
T smart00440 28 FYVCTKCGHRW 38 (40)
T ss_pred EEEeCCCCCEe
Confidence 46666666554
No 139
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=47.70 E-value=20 Score=24.15 Aligned_cols=12 Identities=25% Similarity=0.977 Sum_probs=7.5
Q ss_pred ccccccccccCC
Q psy7463 153 YACDRCDKRFSL 164 (319)
Q Consensus 153 ~~C~~C~~~f~~ 164 (319)
+.|..|+..|.-
T Consensus 54 W~C~kCg~~fAG 65 (89)
T COG1997 54 WKCRKCGAKFAG 65 (89)
T ss_pred EEcCCCCCeecc
Confidence 666666666643
No 140
>KOG2807|consensus
Probab=44.68 E-value=35 Score=29.32 Aligned_cols=25 Identities=32% Similarity=0.695 Sum_probs=20.5
Q ss_pred CCccCchhhccCCHHHHHHHHHhcC
Q psy7463 179 AYQCNVCDKKYSRLSDYKIHMNMHN 203 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H~~~h~ 203 (319)
.|.|+.|...|-..-+...|...|.
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred cEEchhccceeeccchHHHHhhhhc
Confidence 5899999999988888888876664
No 141
>PRK04023 DNA polymerase II large subunit; Validated
Probab=44.52 E-value=16 Score=36.38 Aligned_cols=10 Identities=20% Similarity=0.527 Sum_probs=5.4
Q ss_pred cccCCCcccc
Q psy7463 123 LQCNLCADTF 132 (319)
Q Consensus 123 ~~C~~C~~~f 132 (319)
+.|+.||...
T Consensus 664 y~CPKCG~El 673 (1121)
T PRK04023 664 DECEKCGREP 673 (1121)
T ss_pred CcCCCCCCCC
Confidence 4566665443
No 142
>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=43.59 E-value=17 Score=21.20 Aligned_cols=8 Identities=25% Similarity=0.995 Sum_probs=3.9
Q ss_pred CccCchhh
Q psy7463 180 YQCNVCDK 187 (319)
Q Consensus 180 ~~C~~C~~ 187 (319)
+.|+.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 44555553
No 143
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=43.27 E-value=12 Score=27.43 Aligned_cols=26 Identities=19% Similarity=0.168 Sum_probs=19.1
Q ss_pred ccccccchhccccHHHHHHHHHHhcCCCc
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMKKQHKGQL 42 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 42 (319)
-..|-++|+.|++ |.+|+.+|.+-.|
T Consensus 76 ~IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 76 YIICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred eEEEeccCcchHH---HHHHHhcccCCCH
Confidence 4578888888874 7888888876443
No 144
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=43.12 E-value=6.2 Score=28.88 Aligned_cols=14 Identities=21% Similarity=0.664 Sum_probs=8.7
Q ss_pred ccccccccccccCC
Q psy7463 151 VFYACDRCDKRFSL 164 (319)
Q Consensus 151 ~~~~C~~C~~~f~~ 164 (319)
+.|+|.+|..+...
T Consensus 79 ~lYeCnIC~etS~e 92 (140)
T PF05290_consen 79 KLYECNICKETSAE 92 (140)
T ss_pred CceeccCcccccch
Confidence 33777777766544
No 145
>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=42.99 E-value=8.1 Score=23.57 Aligned_cols=9 Identities=22% Similarity=0.368 Sum_probs=4.0
Q ss_pred ccccccccc
Q psy7463 207 YQCHICLKC 215 (319)
Q Consensus 207 ~~C~~C~~~ 215 (319)
..|+.||..
T Consensus 23 V~Cp~CGae 31 (54)
T TIGR01206 23 VICDECGAE 31 (54)
T ss_pred EeCCCCCCE
Confidence 444444433
No 146
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=41.73 E-value=25 Score=19.95 Aligned_cols=22 Identities=36% Similarity=0.691 Sum_probs=10.5
Q ss_pred ccCchhhccC--CHHHHHHHHHhc
Q psy7463 181 QCNVCDKKYS--RLSDYKIHMNMH 202 (319)
Q Consensus 181 ~C~~C~~~f~--~~~~l~~H~~~h 202 (319)
.|+.||..|. ....-..|.+.|
T Consensus 15 ~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 15 TCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred CCCCCCCEECCCCHHHHHHHHHHH
Confidence 4555555443 244444454444
No 147
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=41.66 E-value=7.3 Score=21.48 Aligned_cols=9 Identities=22% Similarity=0.844 Sum_probs=4.1
Q ss_pred ccCCCcccc
Q psy7463 124 QCNLCADTF 132 (319)
Q Consensus 124 ~C~~C~~~f 132 (319)
.|+.||..|
T Consensus 3 ~C~~Cg~~Y 11 (36)
T PF05191_consen 3 ICPKCGRIY 11 (36)
T ss_dssp EETTTTEEE
T ss_pred CcCCCCCcc
Confidence 344444444
No 148
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=41.62 E-value=7.3 Score=29.02 Aligned_cols=14 Identities=21% Similarity=0.425 Sum_probs=9.6
Q ss_pred cccccccchhcccc
Q psy7463 13 VPQKCPLCERLYKS 26 (319)
Q Consensus 13 ~~~~C~~C~~~f~~ 26 (319)
..+.|..||..|..
T Consensus 69 ~~~~C~~CG~~~~~ 82 (135)
T PRK03824 69 AVLKCRNCGNEWSL 82 (135)
T ss_pred eEEECCCCCCEEec
Confidence 45777777777664
No 149
>KOG1842|consensus
Probab=40.37 E-value=16 Score=32.67 Aligned_cols=28 Identities=18% Similarity=0.329 Sum_probs=26.3
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDK 150 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 150 (319)
|.|++|...|.+...|..|....|.++.
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 9999999999999999999999998765
No 150
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.54 E-value=14 Score=25.89 Aligned_cols=27 Identities=19% Similarity=-0.078 Sum_probs=16.4
Q ss_pred CccCchhhccCCHHHHHHHHHhcCCCccccccccccc
Q psy7463 180 YQCNVCDKKYSRLSDYKIHMNMHNGFKYQCHICLKCT 216 (319)
Q Consensus 180 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f 216 (319)
-.|+.||+.|... +..|..||+||+.|
T Consensus 10 ridPetg~KFYDL----------NrdPiVsPytG~s~ 36 (129)
T COG4530 10 RIDPETGKKFYDL----------NRDPIVSPYTGKSY 36 (129)
T ss_pred ccCccccchhhcc----------CCCccccCcccccc
Confidence 3567777766432 12267777777777
No 151
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=39.47 E-value=8.3 Score=18.79 Aligned_cols=6 Identities=50% Similarity=1.453 Sum_probs=2.4
Q ss_pred cccchh
Q psy7463 17 CPLCER 22 (319)
Q Consensus 17 C~~C~~ 22 (319)
|+.||.
T Consensus 2 Cp~CG~ 7 (23)
T PF13240_consen 2 CPNCGA 7 (23)
T ss_pred CcccCC
Confidence 344443
No 152
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=39.47 E-value=18 Score=24.54 Aligned_cols=11 Identities=27% Similarity=0.776 Sum_probs=5.8
Q ss_pred cccccccccCC
Q psy7463 154 ACDRCDKRFSL 164 (319)
Q Consensus 154 ~C~~C~~~f~~ 164 (319)
.|..||+.|.+
T Consensus 60 ~CkkCGfef~~ 70 (97)
T COG3357 60 RCKKCGFEFRD 70 (97)
T ss_pred hhcccCccccc
Confidence 45555555544
No 153
>KOG2636|consensus
Probab=38.82 E-value=20 Score=32.07 Aligned_cols=28 Identities=29% Similarity=0.740 Sum_probs=21.8
Q ss_pred HHhc-CCCCccCchh-hccCCHHHHHHHHH
Q psy7463 173 AIHE-RIAYQCNVCD-KKYSRLSDYKIHMN 200 (319)
Q Consensus 173 ~~h~-~~~~~C~~C~-~~f~~~~~l~~H~~ 200 (319)
+.|. ...|.|++|| +++.-+..+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 4566 7778888888 78888888888864
No 154
>PRK05580 primosome assembly protein PriA; Validated
Probab=38.54 E-value=21 Score=34.64 Aligned_cols=22 Identities=23% Similarity=0.635 Sum_probs=14.0
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCccCchhhc
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKK 188 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~ 188 (319)
..|..||.... .+..|+.||..
T Consensus 409 l~Ch~Cg~~~~--------------~~~~Cp~Cg~~ 430 (679)
T PRK05580 409 LRCHHCGYQEP--------------IPKACPECGST 430 (679)
T ss_pred EECCCCcCCCC--------------CCCCCCCCcCC
Confidence 56777775432 35678888654
No 155
>PRK14873 primosome assembly protein PriA; Provisional
Probab=37.92 E-value=20 Score=34.61 Aligned_cols=8 Identities=25% Similarity=0.825 Sum_probs=4.7
Q ss_pred ccCCCccc
Q psy7463 124 QCNLCADT 131 (319)
Q Consensus 124 ~C~~C~~~ 131 (319)
.|..||..
T Consensus 385 ~C~~Cg~~ 392 (665)
T PRK14873 385 ACARCRTP 392 (665)
T ss_pred EhhhCcCe
Confidence 56666654
No 156
>KOG0717|consensus
Probab=37.83 E-value=19 Score=32.47 Aligned_cols=23 Identities=26% Similarity=0.372 Sum_probs=20.6
Q ss_pred cccccccccccCChHHHHHHHHh
Q psy7463 206 KYQCHICLKCTSRKNYLKRHIIM 228 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~~ 228 (319)
.+-|.+|++.|.+...|..|..+
T Consensus 292 ~lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 292 VLYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred ceEEeeccccccchHHHHhhHHH
Confidence 38899999999999999999864
No 157
>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=36.93 E-value=25 Score=32.14 Aligned_cols=28 Identities=21% Similarity=0.418 Sum_probs=25.7
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDK 150 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 150 (319)
+.|+.|.+.|.....+..|+...|.+.-
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~l 85 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAGL 85 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhhc
Confidence 7999999999999999999998997754
No 158
>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=36.91 E-value=11 Score=31.10 Aligned_cols=91 Identities=16% Similarity=0.275 Sum_probs=53.3
Q ss_pred hhcCCCCCCCCcCccccchhhhHH-HHHHhhhCCcccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChH
Q psy7463 88 VTHIPPEHRGKVSDAFFNKKQTAL-LTHYLKRNGIKLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQ 166 (319)
Q Consensus 88 ~~h~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~ 166 (319)
..|.+..+.|..|..++-....-. ...-.......|+|..|++.- . |.|-.|...|-.
T Consensus 136 w~hGGrif~CsfC~~flCEDDQFEHQAsCQvLe~E~~KC~SCNrlG------------------q-~sCLRCK~cfCd-- 194 (314)
T PF06524_consen 136 WDHGGRIFKCSFCDNFLCEDDQFEHQASCQVLESETFKCQSCNRLG------------------Q-YSCLRCKICFCD-- 194 (314)
T ss_pred ccCCCeEEEeecCCCeeeccchhhhhhhhhhhhccccccccccccc------------------c-hhhhheeeeehh--
Confidence 345557778888877655442111 111223344559998887632 1 556666555543
Q ss_pred HHHHHHHHh-----cCCCCccCchhhccCCHHHHHHHHHhc
Q psy7463 167 NLKRHLAIH-----ERIAYQCNVCDKKYSRLSDYKIHMNMH 202 (319)
Q Consensus 167 ~L~~H~~~h-----~~~~~~C~~C~~~f~~~~~l~~H~~~h 202 (319)
.|.+.. ..+++.|+.||.....-..|..-.|+|
T Consensus 195 ---dHvrrKg~ky~k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 195 ---DHVRRKGFKYEKGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred ---hhhhhcccccccCCCCCCCCCCCcccccccceeeeecc
Confidence 344432 267899999998887766666555555
No 159
>KOG3408|consensus
Probab=36.69 E-value=25 Score=25.31 Aligned_cols=22 Identities=27% Similarity=0.531 Sum_probs=10.6
Q ss_pred ccccccchhccccHHHHHHHHH
Q psy7463 14 PQKCPLCERLYKSVYRMKEHMK 35 (319)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~ 35 (319)
.|-|-.|.+-|.+...|..|.+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHh
Confidence 3444445555555444444443
No 160
>KOG4377|consensus
Probab=36.66 E-value=14 Score=32.60 Aligned_cols=25 Identities=20% Similarity=0.557 Sum_probs=19.6
Q ss_pred CccCc--hhhccCCHHHHHHHHHhcCC
Q psy7463 180 YQCNV--CDKKYSRLSDYKIHMNMHNG 204 (319)
Q Consensus 180 ~~C~~--C~~~f~~~~~l~~H~~~h~~ 204 (319)
|.|.. |+..+.+.+.+..|.+.|..
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheR 428 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHER 428 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhh
Confidence 44544 88888899999999888875
No 161
>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=36.35 E-value=22 Score=22.68 Aligned_cols=28 Identities=14% Similarity=0.454 Sum_probs=11.8
Q ss_pred cccccccchhccccHHHHHHHHHHhcCCCccccccchhhc
Q psy7463 13 VPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCTEYF 52 (319)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 52 (319)
..-.|..|++.|.. -.+.+.|..||..|
T Consensus 8 ~~~~C~~C~~~F~~------------~~rrhhCr~CG~~v 35 (69)
T PF01363_consen 8 EASNCMICGKKFSL------------FRRRHHCRNCGRVV 35 (69)
T ss_dssp G-SB-TTT--B-BS------------SS-EEE-TTT--EE
T ss_pred CCCcCcCcCCcCCC------------ceeeEccCCCCCEE
Confidence 34567778888753 24556777777655
No 162
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=36.11 E-value=5.4 Score=37.92 Aligned_cols=58 Identities=21% Similarity=0.335 Sum_probs=37.8
Q ss_pred ccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhc
Q psy7463 124 QCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKK 188 (319)
Q Consensus 124 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~ 188 (319)
.|..||-.|+--..|-.-...+-..+- --|+.|.+.+.+..+-+-|. .|..|+.||-.
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F--~lC~~C~~EY~dP~nRRfHA-----Qp~aCp~CGP~ 182 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADF--PLCPFCDKEYKDPLNRRFHA-----QPIACPKCGPH 182 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccC--cCCHHHHHHhcCcccccccc-----ccccCcccCCC
Confidence 588898888766665444222222333 36999988888877644443 37889999864
No 163
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=36.02 E-value=4.8 Score=21.85 Aligned_cols=9 Identities=33% Similarity=1.099 Sum_probs=2.5
Q ss_pred cCchhhccC
Q psy7463 182 CNVCDKKYS 190 (319)
Q Consensus 182 C~~C~~~f~ 190 (319)
|..|++.|.
T Consensus 6 C~eC~~~f~ 14 (34)
T PF01286_consen 6 CDECGKPFM 14 (34)
T ss_dssp -TTT--EES
T ss_pred HhHhCCHHH
Confidence 444444443
No 164
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.01 E-value=21 Score=23.28 Aligned_cols=10 Identities=50% Similarity=1.212 Sum_probs=5.4
Q ss_pred cccccchhhc
Q psy7463 43 YECDCCTEYF 52 (319)
Q Consensus 43 ~~C~~C~~~f 52 (319)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 5555555544
No 165
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=35.71 E-value=20 Score=30.39 Aligned_cols=12 Identities=33% Similarity=0.780 Sum_probs=6.4
Q ss_pred ccccccchhhhh
Q psy7463 69 IICRLCGEKFEK 80 (319)
Q Consensus 69 ~~C~~C~~~f~~ 80 (319)
|+|+.|...|-.
T Consensus 389 Y~Ce~CK~~FC~ 400 (421)
T COG5151 389 YQCELCKSTFCS 400 (421)
T ss_pred eechhhhhhhhh
Confidence 555555555543
No 166
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=35.34 E-value=15 Score=22.01 Aligned_cols=8 Identities=25% Similarity=0.762 Sum_probs=3.4
Q ss_pred cccccccc
Q psy7463 207 YQCHICLK 214 (319)
Q Consensus 207 ~~C~~C~~ 214 (319)
+.|..|+.
T Consensus 38 ~~C~~Cgy 45 (50)
T PRK00432 38 WHCGKCGY 45 (50)
T ss_pred EECCCcCC
Confidence 44444443
No 167
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=34.44 E-value=15 Score=27.63 Aligned_cols=32 Identities=25% Similarity=0.780 Sum_probs=14.7
Q ss_pred cccccccchhccccHHHHHHHHHHhcCCCccccccch
Q psy7463 13 VPQKCPLCERLYKSVYRMKEHMKKQHKGQLYECDCCT 49 (319)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 49 (319)
-+|.|. |+..|-+. ++|-..-.|+ .|.|..|+
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~ 147 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCG 147 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCC
Confidence 345555 55554432 3333333333 45555554
No 168
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=34.01 E-value=31 Score=19.25 Aligned_cols=11 Identities=18% Similarity=0.652 Sum_probs=3.7
Q ss_pred ccccccchhcc
Q psy7463 14 PQKCPLCERLY 24 (319)
Q Consensus 14 ~~~C~~C~~~f 24 (319)
.|-|+.|+..|
T Consensus 3 ryyCdyC~~~~ 13 (38)
T PF06220_consen 3 RYYCDYCKKYL 13 (38)
T ss_dssp S-B-TTT--B-
T ss_pred Ceeccccccee
Confidence 46666666666
No 169
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=33.50 E-value=19 Score=30.58 Aligned_cols=22 Identities=23% Similarity=0.445 Sum_probs=15.0
Q ss_pred cccccccccccCChHHHHHHHH
Q psy7463 206 KYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 206 ~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
.|+|+.|...|-.-.+.-.|..
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~ 409 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHET 409 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHH
Confidence 4777777777777666666654
No 170
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=33.23 E-value=37 Score=23.21 Aligned_cols=11 Identities=27% Similarity=0.930 Sum_probs=6.3
Q ss_pred ccccccccccC
Q psy7463 153 YACDRCDKRFS 163 (319)
Q Consensus 153 ~~C~~C~~~f~ 163 (319)
+.|..|++.|.
T Consensus 55 W~C~~C~~~~A 65 (90)
T PTZ00255 55 WRCKGCKKTVA 65 (90)
T ss_pred EEcCCCCCEEe
Confidence 55666665553
No 171
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=33.23 E-value=18 Score=20.26 Aligned_cols=14 Identities=29% Similarity=0.560 Sum_probs=11.1
Q ss_pred ccccccchhccccH
Q psy7463 14 PQKCPLCERLYKSV 27 (319)
Q Consensus 14 ~~~C~~C~~~f~~~ 27 (319)
||.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78899898888753
No 172
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=33.14 E-value=21 Score=19.23 Aligned_cols=22 Identities=27% Similarity=0.498 Sum_probs=14.7
Q ss_pred ccccccchhhhhHHHHHHHhhc
Q psy7463 69 IICRLCGEKFEKSLMRDHLVTH 90 (319)
Q Consensus 69 ~~C~~C~~~f~~~~l~~H~~~h 90 (319)
+.|+.|++.+....+..|+..-
T Consensus 5 ~~C~nC~R~v~a~RfA~HLekC 26 (33)
T PF08209_consen 5 VECPNCGRPVAASRFAPHLEKC 26 (33)
T ss_dssp EE-TTTSSEEEGGGHHHHHHHH
T ss_pred EECCCCcCCcchhhhHHHHHHH
Confidence 6788888877766667776543
No 173
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=32.82 E-value=8.2 Score=26.69 Aligned_cols=12 Identities=25% Similarity=0.542 Sum_probs=7.2
Q ss_pred ccccccccchhc
Q psy7463 12 VVPQKCPLCERL 23 (319)
Q Consensus 12 ~~~~~C~~C~~~ 23 (319)
.+.|.|+.|+..
T Consensus 20 ~k~FtCp~Cghe 31 (104)
T COG4888 20 PKTFTCPRCGHE 31 (104)
T ss_pred CceEecCccCCe
Confidence 445666666644
No 174
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=32.10 E-value=19 Score=20.38 Aligned_cols=20 Identities=20% Similarity=0.478 Sum_probs=11.4
Q ss_pred CccccccchhhccCHHHHHH
Q psy7463 41 QLYECDCCTEYFIDRIAYEE 60 (319)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~ 60 (319)
.-+.|+.|+-.+.....|.+
T Consensus 18 ~id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 18 EIDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EEEECCCCCeEEccHHHHHH
Confidence 34556666666666555543
No 175
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=32.05 E-value=23 Score=25.41 Aligned_cols=10 Identities=20% Similarity=0.395 Sum_probs=4.5
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 3444444444
No 176
>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=31.73 E-value=23 Score=20.20 Aligned_cols=10 Identities=20% Similarity=0.690 Sum_probs=5.3
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
+.|+.||...
T Consensus 20 ~vC~~CG~Vl 29 (43)
T PF08271_consen 20 LVCPNCGLVL 29 (43)
T ss_dssp EEETTT-BBE
T ss_pred EECCCCCCEe
Confidence 5666666543
No 177
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=31.43 E-value=14 Score=26.55 Aligned_cols=40 Identities=23% Similarity=0.496 Sum_probs=23.8
Q ss_pred ccccCCCccccCChhHHHHHHhHhcCCCCccccccccccccC
Q psy7463 122 KLQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFS 163 (319)
Q Consensus 122 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~ 163 (319)
.+.|+.||..=.....| ..+..-.+...+|.|..||..+.
T Consensus 72 ~~~CpkCg~~ea~y~~~--QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 72 KEKCPKCGNKEAYYWQL--QTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred cccCCCCCCceeEEEee--ehhccCCCceEEEEecccCCEee
Confidence 36799998643332222 22233444555689999998775
No 178
>KOG3408|consensus
Probab=30.63 E-value=37 Score=24.52 Aligned_cols=23 Identities=35% Similarity=0.722 Sum_probs=20.0
Q ss_pred ccccccchhhccCHHHHHHHHHh
Q psy7463 42 LYECDCCTEYFIDRIAYEEHVRL 64 (319)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~~ 64 (319)
.|-|-.|.+-|.+...|..|.++
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhc
Confidence 48899999999999999999775
No 179
>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=30.61 E-value=22 Score=24.30 Aligned_cols=11 Identities=36% Similarity=1.331 Sum_probs=6.6
Q ss_pred ccccccccccC
Q psy7463 153 YACDRCDKRFS 163 (319)
Q Consensus 153 ~~C~~C~~~f~ 163 (319)
+.|..|++.|.
T Consensus 54 W~C~~C~~~~A 64 (90)
T PF01780_consen 54 WKCKKCGKKFA 64 (90)
T ss_dssp EEETTTTEEEE
T ss_pred eecCCCCCEEe
Confidence 56666666553
No 180
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=30.56 E-value=28 Score=21.23 Aligned_cols=10 Identities=50% Similarity=1.454 Sum_probs=5.0
Q ss_pred ccccchhccc
Q psy7463 16 KCPLCERLYK 25 (319)
Q Consensus 16 ~C~~C~~~f~ 25 (319)
.|+.|++.|.
T Consensus 7 ~C~~Cg~~~~ 16 (54)
T PF14446_consen 7 KCPVCGKKFK 16 (54)
T ss_pred cChhhCCccc
Confidence 4555555543
No 181
>KOG4124|consensus
Probab=30.54 E-value=6.3 Score=33.85 Aligned_cols=50 Identities=34% Similarity=0.577 Sum_probs=31.6
Q ss_pred CCCccCc--hhhccCCHHHHHHHHHhcC--------------------CCcccccccccccCChHHHHHHHH
Q psy7463 178 IAYQCNV--CDKKYSRLSDYKIHMNMHN--------------------GFKYQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 178 ~~~~C~~--C~~~f~~~~~l~~H~~~h~--------------------~~~~~C~~C~~~f~~~~~L~~H~~ 227 (319)
++|.|++ |.+.++....|..|...-+ .++|+|++|.+.......|.-|+.
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceee
Confidence 4677765 7888777777777654311 225778887777766655555543
No 182
>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=30.48 E-value=36 Score=23.32 Aligned_cols=11 Identities=27% Similarity=1.229 Sum_probs=6.1
Q ss_pred ccccccccccC
Q psy7463 153 YACDRCDKRFS 163 (319)
Q Consensus 153 ~~C~~C~~~f~ 163 (319)
+.|..|++.|.
T Consensus 54 W~C~~C~~~~A 64 (91)
T TIGR00280 54 WTCRKCGAKFA 64 (91)
T ss_pred EEcCCCCCEEe
Confidence 55666655553
No 183
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=30.24 E-value=18 Score=19.68 Aligned_cols=8 Identities=25% Similarity=0.775 Sum_probs=4.2
Q ss_pred cccccccc
Q psy7463 153 YACDRCDK 160 (319)
Q Consensus 153 ~~C~~C~~ 160 (319)
+.|+.|+.
T Consensus 23 ~vC~~Cg~ 30 (34)
T PF14803_consen 23 LVCPACGF 30 (34)
T ss_dssp EEETTTTE
T ss_pred eECCCCCC
Confidence 45555554
No 184
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=29.80 E-value=2.2 Score=24.03 Aligned_cols=11 Identities=45% Similarity=1.331 Sum_probs=6.4
Q ss_pred ccccccccccc
Q psy7463 152 FYACDRCDKRF 162 (319)
Q Consensus 152 ~~~C~~C~~~f 162 (319)
+|.|..|+..|
T Consensus 28 fy~C~~C~~~w 38 (39)
T PF01096_consen 28 FYVCCNCGHRW 38 (39)
T ss_dssp EEEESSSTEEE
T ss_pred EEEeCCCCCee
Confidence 36666666544
No 185
>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=28.90 E-value=16 Score=26.19 Aligned_cols=10 Identities=30% Similarity=0.913 Sum_probs=4.4
Q ss_pred cccCCCcccc
Q psy7463 123 LQCNLCADTF 132 (319)
Q Consensus 123 ~~C~~C~~~f 132 (319)
+.|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PF01155_consen 71 ARCRDCGHEF 80 (113)
T ss_dssp EEETTTS-EE
T ss_pred EECCCCCCEE
Confidence 4455555444
No 186
>KOG2636|consensus
Probab=28.89 E-value=34 Score=30.75 Aligned_cols=29 Identities=24% Similarity=0.521 Sum_probs=21.3
Q ss_pred HHhcCCCccccccch-hhccCHHHHHHHHH
Q psy7463 35 KKQHKGQLYECDCCT-EYFIDRIAYEEHVR 63 (319)
Q Consensus 35 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 63 (319)
+.|.-...|.|.+|| +++..+..+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 445556778888887 77888888888864
No 187
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=28.72 E-value=25 Score=18.23 Aligned_cols=9 Identities=33% Similarity=0.696 Sum_probs=3.3
Q ss_pred ccccccccc
Q psy7463 206 KYQCHICLK 214 (319)
Q Consensus 206 ~~~C~~C~~ 214 (319)
.|.|..|+.
T Consensus 15 ~Y~C~~Cdf 23 (30)
T PF07649_consen 15 FYRCSECDF 23 (30)
T ss_dssp EEE-TTT--
T ss_pred eEECccCCC
Confidence 455555543
No 188
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=28.29 E-value=32 Score=20.78 Aligned_cols=10 Identities=20% Similarity=0.703 Sum_probs=5.3
Q ss_pred ccccchhccc
Q psy7463 16 KCPLCERLYK 25 (319)
Q Consensus 16 ~C~~C~~~f~ 25 (319)
.|..|++.|.
T Consensus 4 ~C~~C~~~F~ 13 (57)
T cd00065 4 SCMGCGKPFT 13 (57)
T ss_pred cCcccCcccc
Confidence 3555555555
No 189
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=27.55 E-value=20 Score=28.49 Aligned_cols=22 Identities=32% Similarity=0.777 Sum_probs=0.0
Q ss_pred Cccccccchh-hccCHHHHHHHH
Q psy7463 41 QLYECDCCTE-YFIDRIAYEEHV 62 (319)
Q Consensus 41 ~~~~C~~C~~-~f~~~~~l~~H~ 62 (319)
..|.|.+||. +|.-+..+.+|.
T Consensus 100 ~ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp -----------------------
T ss_pred CeeeeEeCCCcceecHHHHHHhc
Confidence 3355555553 344555555554
No 190
>KOG2807|consensus
Probab=27.42 E-value=68 Score=27.63 Aligned_cols=22 Identities=23% Similarity=0.241 Sum_probs=14.6
Q ss_pred ccccccchhhhh-HHHHHHHhhc
Q psy7463 69 IICRLCGEKFEK-SLMRDHLVTH 90 (319)
Q Consensus 69 ~~C~~C~~~f~~-~~l~~H~~~h 90 (319)
|.|..|...|-. -+.-.|...|
T Consensus 346 y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 346 YRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred EEchhccceeeccchHHHHhhhh
Confidence 788888888854 4455565555
No 191
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=27.20 E-value=42 Score=26.75 Aligned_cols=52 Identities=17% Similarity=0.262 Sum_probs=27.9
Q ss_pred CCccCc----hhhccCCHHHHHHHHHhcCCCcccccc----cccccCChHHHHHHHHhhccc
Q psy7463 179 AYQCNV----CDKKYSRLSDYKIHMNMHNGFKYQCHI----CLKCTSRKNYLKRHIIMMHTK 232 (319)
Q Consensus 179 ~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~C~~----C~~~f~~~~~L~~H~~~~H~~ 232 (319)
.+.|.. |...+.. .....|.....-.|+.||. |+..= ....|..|+...|..
T Consensus 14 ~~pC~~~~~GC~~~~~~-~~~~~HE~~C~~~p~~CP~~~~~C~~~G-~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPY-SEKREHEEECPFRPCSCPFPGSGCDWQG-SYKELLDHLRDKHSW 73 (198)
T ss_dssp -EE-CCGGGT---EE-G-GGHHHHHHT-TTSEEE-SSSSTT---EE-ECCCHHHHHHHHTTT
T ss_pred eecCCCCCCCCcccccc-cChhhHhccCCCcCCcCCCCCCCccccC-CHHHHHHHHHHHCCC
Confidence 455655 6666543 3567787777777888877 65444 345788888877765
No 192
>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=27.04 E-value=21 Score=20.42 Aligned_cols=15 Identities=27% Similarity=0.640 Sum_probs=9.0
Q ss_pred cccccccchhccccH
Q psy7463 13 VPQKCPLCERLYKSV 27 (319)
Q Consensus 13 ~~~~C~~C~~~f~~~ 27 (319)
.|+.|+.|++.|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 578888888887643
No 193
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=26.74 E-value=92 Score=23.28 Aligned_cols=10 Identities=20% Similarity=0.816 Sum_probs=6.5
Q ss_pred cccCCCcccc
Q psy7463 123 LQCNLCADTF 132 (319)
Q Consensus 123 ~~C~~C~~~f 132 (319)
|.|..||...
T Consensus 82 ~~CE~CG~~I 91 (137)
T TIGR03826 82 YPCERCGTSI 91 (137)
T ss_pred CcccccCCcC
Confidence 6677777643
No 194
>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=26.68 E-value=43 Score=21.31 Aligned_cols=10 Identities=30% Similarity=0.833 Sum_probs=5.5
Q ss_pred ccccccchhh
Q psy7463 69 IICRLCGEKF 78 (319)
Q Consensus 69 ~~C~~C~~~f 78 (319)
+.|+.||..+
T Consensus 47 ~~C~~Cg~~~ 56 (69)
T PF07282_consen 47 FTCPNCGFEM 56 (69)
T ss_pred EEcCCCCCEE
Confidence 5555555554
No 195
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=26.03 E-value=55 Score=22.91 Aligned_cols=21 Identities=19% Similarity=0.249 Sum_probs=17.8
Q ss_pred ccccccccccCChHHHHHHHH
Q psy7463 207 YQCHICLKCTSRKNYLKRHII 227 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~ 227 (319)
+-|-.|.+-|.+...|..|.+
T Consensus 56 hYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 56 HYCIECARYFITEKALMEHKK 76 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhc
Confidence 778888888888888888876
No 196
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.98 E-value=15 Score=29.73 Aligned_cols=16 Identities=19% Similarity=0.634 Sum_probs=12.2
Q ss_pred cccccCCCccccCChh
Q psy7463 121 IKLQCNLCADTFCPRS 136 (319)
Q Consensus 121 ~~~~C~~C~~~f~~~~ 136 (319)
..+.||+|+..|..+.
T Consensus 18 k~ieCPvC~tkFkkee 33 (267)
T COG1655 18 KTIECPVCNTKFKKEE 33 (267)
T ss_pred ceeccCcccchhhhhh
Confidence 3588999999886553
No 197
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=25.84 E-value=47 Score=22.72 Aligned_cols=11 Identities=27% Similarity=1.210 Sum_probs=6.0
Q ss_pred ccccccccccC
Q psy7463 153 YACDRCDKRFS 163 (319)
Q Consensus 153 ~~C~~C~~~f~ 163 (319)
+.|..|++.|.
T Consensus 55 W~C~~C~~~~A 65 (90)
T PRK03976 55 WECRKCGAKFA 65 (90)
T ss_pred EEcCCCCCEEe
Confidence 55555555543
No 198
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=25.79 E-value=9.4 Score=33.31 Aligned_cols=41 Identities=29% Similarity=0.488 Sum_probs=15.1
Q ss_pred cccCCCccccCChhHH---HHHHhHhcCCCCccccccccccccC
Q psy7463 123 LQCNLCADTFCPRSNM---LRHYLLKHRGDKVFYACDRCDKRFS 163 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l---~~H~~~~H~~~~~~~~C~~C~~~f~ 163 (319)
+.|..|.++....... ..|....|...+.+|+|..|++.+.
T Consensus 253 v~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~ 296 (344)
T PF09332_consen 253 VTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTI 296 (344)
T ss_dssp EEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEE
T ss_pred EEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeee
Confidence 4566665554444333 2233334444555566666665543
No 199
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=25.72 E-value=42 Score=20.53 Aligned_cols=13 Identities=23% Similarity=0.329 Sum_probs=6.7
Q ss_pred CCccccccchhhc
Q psy7463 40 GQLYECDCCTEYF 52 (319)
Q Consensus 40 ~~~~~C~~C~~~f 52 (319)
...|.|+.||..+
T Consensus 12 ~v~~~Cp~cGipt 24 (55)
T PF13824_consen 12 HVNFECPDCGIPT 24 (55)
T ss_pred ccCCcCCCCCCcC
Confidence 3445555555543
No 200
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=25.52 E-value=13 Score=22.14 Aligned_cols=10 Identities=20% Similarity=0.836 Sum_probs=5.2
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
|.|+.||..+
T Consensus 21 ~vC~~Cg~~~ 30 (52)
T smart00661 21 FVCRKCGYEE 30 (52)
T ss_pred EECCcCCCeE
Confidence 5555555443
No 201
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.51 E-value=37 Score=24.58 Aligned_cols=8 Identities=38% Similarity=1.124 Sum_probs=3.5
Q ss_pred cccCCCcc
Q psy7463 123 LQCNLCAD 130 (319)
Q Consensus 123 ~~C~~C~~ 130 (319)
+.|..||.
T Consensus 72 ~~C~~Cg~ 79 (117)
T PRK00564 72 LECKDCSH 79 (117)
T ss_pred EEhhhCCC
Confidence 34444443
No 202
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=25.42 E-value=43 Score=28.56 Aligned_cols=31 Identities=19% Similarity=0.701 Sum_probs=17.5
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSL 164 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~ 164 (319)
.+|+.|+.....+ .|.... +.|+.|+.-|.-
T Consensus 27 ~~c~~c~~~~~~~-~l~~~~----------~vc~~c~~h~rl 57 (285)
T TIGR00515 27 TKCPKCGQVLYTK-ELERNL----------EVCPKCDHHMRM 57 (285)
T ss_pred eECCCCcchhhHH-HHHhhC----------CCCCCCCCcCcC
Confidence 5777777665322 222222 577777776653
No 203
>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=25.38 E-value=24 Score=25.42 Aligned_cols=11 Identities=36% Similarity=0.797 Sum_probs=5.5
Q ss_pred cccccchhhcc
Q psy7463 43 YECDCCTEYFI 53 (319)
Q Consensus 43 ~~C~~C~~~f~ 53 (319)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 44555554443
No 204
>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=25.38 E-value=25 Score=21.21 Aligned_cols=13 Identities=15% Similarity=0.501 Sum_probs=7.0
Q ss_pred cccccccccCChH
Q psy7463 208 QCHICLKCTSRKN 220 (319)
Q Consensus 208 ~C~~C~~~f~~~~ 220 (319)
.||+|++.|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999999987644
No 205
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=25.31 E-value=33 Score=19.45 Aligned_cols=12 Identities=42% Similarity=1.007 Sum_probs=8.2
Q ss_pred cccccccchhcc
Q psy7463 13 VPQKCPLCERLY 24 (319)
Q Consensus 13 ~~~~C~~C~~~f 24 (319)
++-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 356777777766
No 206
>KOG4377|consensus
Probab=25.24 E-value=25 Score=31.11 Aligned_cols=21 Identities=19% Similarity=0.407 Sum_probs=13.0
Q ss_pred CCCccccCChhHHHHHHhHhcC
Q psy7463 126 NLCADTFCPRSNMLRHYLLKHR 147 (319)
Q Consensus 126 ~~C~~~f~~~~~l~~H~~~~H~ 147 (319)
+.|+..+.++..+..|. ..|.
T Consensus 277 e~C~ykr~~k~DvirH~-~~hk 297 (480)
T KOG4377|consen 277 EYCFYKRGQKNDVIRHV-EIHK 297 (480)
T ss_pred ccccccccchhhhHHHH-HHHh
Confidence 34666666677777776 4453
No 207
>KOG0717|consensus
Probab=25.02 E-value=36 Score=30.82 Aligned_cols=22 Identities=32% Similarity=0.576 Sum_probs=20.1
Q ss_pred CccCchhhccCCHHHHHHHHHh
Q psy7463 180 YQCNVCDKKYSRLSDYKIHMNM 201 (319)
Q Consensus 180 ~~C~~C~~~f~~~~~l~~H~~~ 201 (319)
+.|.+|.++|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999865
No 208
>PHA02998 RNA polymerase subunit; Provisional
Probab=24.66 E-value=17 Score=28.20 Aligned_cols=14 Identities=43% Similarity=0.759 Sum_probs=8.8
Q ss_pred ccccccccccccCC
Q psy7463 151 VFYACDRCDKRFSL 164 (319)
Q Consensus 151 ~~~~C~~C~~~f~~ 164 (319)
.+|.|..|+..|.-
T Consensus 170 ~FYkC~~CG~~wkp 183 (195)
T PHA02998 170 VRHACRDCKKHFKP 183 (195)
T ss_pred EEEEcCCCCCccCC
Confidence 34677777766643
No 209
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=24.57 E-value=45 Score=20.19 Aligned_cols=12 Identities=42% Similarity=0.955 Sum_probs=5.8
Q ss_pred cccccchhcccc
Q psy7463 15 QKCPLCERLYKS 26 (319)
Q Consensus 15 ~~C~~C~~~f~~ 26 (319)
++|+.|+-.|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 445555444443
No 210
>KOG3002|consensus
Probab=24.56 E-value=78 Score=27.23 Aligned_cols=77 Identities=16% Similarity=0.285 Sum_probs=49.2
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCccCc----hhhccCCHHHHHHHHHhcCCCcccccc----cccccCChHHHHH
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHERIAYQCNV----CDKKYSRLSDYKIHMNMHNGFKYQCHI----CLKCTSRKNYLKR 224 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~C~~----C~~~f~~~~~L~~ 224 (319)
.+|+.|...+.....|..- ++-....+.|+. |.+.|.+-.. ..|.+.....||.||. |... .....|..
T Consensus 81 ~~CP~Cr~~~g~~R~~amE-kV~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C~f~~~~CP~p~~~C~~~-G~~~~l~~ 157 (299)
T KOG3002|consen 81 NKCPTCRLPIGNIRCRAME-KVAEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVCEFRPCSCPVPGAECKYT-GSYKDLYA 157 (299)
T ss_pred ccCCccccccccHHHHHHH-HHHHhceecccccccCCceeeccccc-cccccccccCCcCCCCCcccCCcc-CcHHHHHH
Confidence 5788888877754333221 122245666765 8888887766 6677766666777765 5433 45667888
Q ss_pred HHHhhccc
Q psy7463 225 HIIMMHTK 232 (319)
Q Consensus 225 H~~~~H~~ 232 (319)
|....|..
T Consensus 158 H~~~~hk~ 165 (299)
T KOG3002|consen 158 HLNDTHKS 165 (299)
T ss_pred HHHhhChh
Confidence 88877765
No 211
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=24.40 E-value=44 Score=28.57 Aligned_cols=31 Identities=16% Similarity=0.504 Sum_probs=17.0
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSL 164 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~ 164 (319)
.+|+.|+.....+ .|.... +.|+.|+.-|.-
T Consensus 39 ~kc~~C~~~~~~~-~l~~~~----------~vcp~c~~h~rl 69 (296)
T CHL00174 39 VQCENCYGLNYKK-FLKSKM----------NICEQCGYHLKM 69 (296)
T ss_pred eECCCccchhhHH-HHHHcC----------CCCCCCCCCcCC
Confidence 5677777655322 222221 577777776653
No 212
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=24.20 E-value=30 Score=20.60 Aligned_cols=16 Identities=13% Similarity=0.185 Sum_probs=9.5
Q ss_pred ccccccccchhccccH
Q psy7463 12 VVPQKCPLCERLYKSV 27 (319)
Q Consensus 12 ~~~~~C~~C~~~f~~~ 27 (319)
++.+.|..||..|...
T Consensus 2 Dk~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFT 17 (49)
T ss_pred CeeEEcccCCCeEEEe
Confidence 3456677777665543
No 213
>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=24.18 E-value=31 Score=20.78 Aligned_cols=24 Identities=25% Similarity=0.350 Sum_probs=9.0
Q ss_pred CccccccchhhccCHHHHHHHHHh
Q psy7463 41 QLYECDCCTEYFIDRIAYEEHVRL 64 (319)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~~~ 64 (319)
..|.|+.|...|=-.-.+-.|...
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~L 43 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETL 43 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS
T ss_pred CeEECCCCCCccccCcChhhhccc
Confidence 345555555555444444444333
No 214
>PF14369 zf-RING_3: zinc-finger
Probab=23.89 E-value=38 Score=18.48 Aligned_cols=12 Identities=25% Similarity=0.650 Sum_probs=6.7
Q ss_pred ccccccchhccc
Q psy7463 14 PQKCPLCERLYK 25 (319)
Q Consensus 14 ~~~C~~C~~~f~ 25 (319)
+|.|-.|.+...
T Consensus 2 ~ywCh~C~~~V~ 13 (35)
T PF14369_consen 2 RYWCHQCNRFVR 13 (35)
T ss_pred CEeCccCCCEeE
Confidence 356666665544
No 215
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=23.86 E-value=63 Score=33.45 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=6.1
Q ss_pred cccCCCcccc
Q psy7463 123 LQCNLCADTF 132 (319)
Q Consensus 123 ~~C~~C~~~f 132 (319)
|.|+.||...
T Consensus 693 y~CPsCGaev 702 (1337)
T PRK14714 693 YVCPDCGAEV 702 (1337)
T ss_pred eeCccCCCcc
Confidence 5666666643
No 216
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.37 E-value=46 Score=20.69 Aligned_cols=35 Identities=23% Similarity=0.506 Sum_probs=15.5
Q ss_pred ccccchhc-cccHHHHHHHHHHhcCCCccccccchh
Q psy7463 16 KCPLCERL-YKSVYRMKEHMKKQHKGQLYECDCCTE 50 (319)
Q Consensus 16 ~C~~C~~~-f~~~~~l~~H~~~h~~~~~~~C~~C~~ 50 (319)
+|-+|++. +-....+..-.....+-+.|.|+.|..
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~ 39 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEH 39 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHh
Confidence 45555543 222333333333333444566666643
No 217
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=23.35 E-value=40 Score=23.43 Aligned_cols=12 Identities=42% Similarity=0.822 Sum_probs=6.0
Q ss_pred cccccchhhccC
Q psy7463 43 YECDCCTEYFID 54 (319)
Q Consensus 43 ~~C~~C~~~f~~ 54 (319)
++|.-||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 445555555544
No 218
>PRK00420 hypothetical protein; Validated
Probab=23.27 E-value=34 Score=24.49 Aligned_cols=27 Identities=22% Similarity=0.723 Sum_probs=16.6
Q ss_pred cccccchhhccCHHHHHHHHHhccCCccccccchhh
Q psy7463 43 YECDCCTEYFIDRIAYEEHVRLHEGGIICRLCGEKF 78 (319)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f 78 (319)
-.|+.|+..+. +...+...|+.||...
T Consensus 24 ~~CP~Cg~pLf---------~lk~g~~~Cp~Cg~~~ 50 (112)
T PRK00420 24 KHCPVCGLPLF---------ELKDGEVVCPVHGKVY 50 (112)
T ss_pred CCCCCCCCcce---------ecCCCceECCCCCCee
Confidence 46777776553 1234567788887754
No 219
>KOG0782|consensus
Probab=23.21 E-value=11 Score=34.86 Aligned_cols=58 Identities=22% Similarity=0.397 Sum_probs=0.0
Q ss_pred ccccCChhHHHHHHhHhcCCCCccccccccccccCChHHHHHHHHHhcCCCCccCchhhccCCH
Q psy7463 129 ADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRL 192 (319)
Q Consensus 129 ~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~ 192 (319)
+..-..++.+.+|. .+|..... -+|..|++.|..+..+..-.-+ ...|..|..+|..+
T Consensus 232 gsr~~rE~~fvrHH-WVHrrRqe-GkC~~CgKgFQQKf~FhsKEiv----AisCSWCKqayH~K 289 (1004)
T KOG0782|consen 232 GSRKTRESGFVRHH-WVHRRRQE-GKCNTCGKGFQQKFFFHSKEIV----AISCSWCKQAYHLK 289 (1004)
T ss_pred cccCcccccchHHh-HhhHhhhc-cccchhhhhhhhheeeccccEE----EEEehHHHHHhhcc
No 220
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.14 E-value=41 Score=24.20 Aligned_cols=10 Identities=20% Similarity=0.737 Sum_probs=4.4
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (114)
T PRK03681 71 CWCETCQQYV 80 (114)
T ss_pred EEcccCCCee
Confidence 3444444433
No 221
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG3362|consensus
Probab=22.70 E-value=25 Score=26.20 Aligned_cols=19 Identities=37% Similarity=0.784 Sum_probs=8.6
Q ss_pred CccCchhhccCCHHHHHHH
Q psy7463 180 YQCNVCDKKYSRLSDYKIH 198 (319)
Q Consensus 180 ~~C~~C~~~f~~~~~l~~H 198 (319)
|.|.-||-.+-+..-|..|
T Consensus 130 ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 130 YSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred hHHHhcCCceeechhhhhc
Confidence 4444444444444444443
No 223
>KOG4118|consensus
Probab=22.63 E-value=45 Score=21.03 Aligned_cols=27 Identities=22% Similarity=0.426 Sum_probs=22.6
Q ss_pred ccccccccccCChHHHHHHHHhhcccc
Q psy7463 207 YQCHICLKCTSRKNYLKRHIIMMHTKF 233 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~~H~~~~H~~~ 233 (319)
|+|.+|-........+..|....|+.+
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~ 65 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKE 65 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCC
Confidence 889999888888888889988888763
No 224
>PRK04351 hypothetical protein; Provisional
Probab=22.53 E-value=31 Score=26.17 Aligned_cols=11 Identities=27% Similarity=0.730 Sum_probs=5.3
Q ss_pred ccccccccccc
Q psy7463 206 KYQCHICLKCT 216 (319)
Q Consensus 206 ~~~C~~C~~~f 216 (319)
.|.|..|+-.+
T Consensus 132 ~yrCg~C~g~L 142 (149)
T PRK04351 132 RYRCGKCRGKL 142 (149)
T ss_pred cEEeCCCCcEe
Confidence 45555554433
No 225
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=22.42 E-value=43 Score=30.11 Aligned_cols=14 Identities=14% Similarity=0.510 Sum_probs=7.5
Q ss_pred cccccccccccCCh
Q psy7463 206 KYQCHICLKCTSRK 219 (319)
Q Consensus 206 ~~~C~~C~~~f~~~ 219 (319)
-|+|+.|++.+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 35555555555443
No 226
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=22.15 E-value=57 Score=19.39 Aligned_cols=9 Identities=33% Similarity=1.114 Sum_probs=5.6
Q ss_pred ccccccccc
Q psy7463 153 YACDRCDKR 161 (319)
Q Consensus 153 ~~C~~C~~~ 161 (319)
+.|-.||.+
T Consensus 38 ~~CGkCgyT 46 (51)
T COG1998 38 WACGKCGYT 46 (51)
T ss_pred eEeccccce
Confidence 566666654
No 227
>PLN02294 cytochrome c oxidase subunit Vb
Probab=21.77 E-value=27 Score=26.95 Aligned_cols=17 Identities=18% Similarity=0.724 Sum_probs=10.1
Q ss_pred hcCCCcccccccccccC
Q psy7463 201 MHNGFKYQCHICLKCTS 217 (319)
Q Consensus 201 ~h~~~~~~C~~C~~~f~ 217 (319)
.+.|+++.|+.||..|.
T Consensus 136 L~kGkp~RCpeCG~~fk 152 (174)
T PLN02294 136 LEKGKSFECPVCTQYFE 152 (174)
T ss_pred ecCCCceeCCCCCCEEE
Confidence 34555666666666654
No 228
>KOG0696|consensus
Probab=21.32 E-value=20 Score=32.18 Aligned_cols=54 Identities=22% Similarity=0.308 Sum_probs=39.8
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCccCchhhccCCHHHHHHHHHh-cCC-Cccccccccc
Q psy7463 153 YACDRCDKRFSLLQNLKRHLAIHERIAYQCNVCDKKYSRLSDYKIHMNM-HNG-FKYQCHICLK 214 (319)
Q Consensus 153 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~-~~~~C~~C~~ 214 (319)
|+|..|.. ..|.+-|.-..|.|+-=++.+.+...-..|... |+- .|--|..||.
T Consensus 74 fQCqvC~f--------vvHkrChefVtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCGs 129 (683)
T KOG0696|consen 74 FQCQVCCF--------VVHKRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCGS 129 (683)
T ss_pred eeeeEEee--------hhhhhhcceEEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHHH
Confidence 88888864 458888877788999888888887777777543 432 2677888873
No 229
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.31 E-value=63 Score=18.50 Aligned_cols=17 Identities=12% Similarity=0.280 Sum_probs=10.6
Q ss_pred ccccccccccCChHHHH
Q psy7463 207 YQCHICLKCTSRKNYLK 223 (319)
Q Consensus 207 ~~C~~C~~~f~~~~~L~ 223 (319)
=.|++|++.|+-.....
T Consensus 9 K~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKWA 25 (42)
T ss_pred CcCcccCCcchHHHHHH
Confidence 35777777776655443
No 230
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=21.05 E-value=20 Score=27.23 Aligned_cols=10 Identities=30% Similarity=1.251 Sum_probs=4.7
Q ss_pred cccccccccc
Q psy7463 153 YACDRCDKRF 162 (319)
Q Consensus 153 ~~C~~C~~~f 162 (319)
|.|+.|+..+
T Consensus 124 ~~C~~C~~~~ 133 (157)
T PF10263_consen 124 YRCPSCGREY 133 (157)
T ss_pred EEcCCCCCEe
Confidence 4454454443
No 231
>KOG4317|consensus
Probab=20.90 E-value=22 Score=30.19 Aligned_cols=20 Identities=35% Similarity=0.803 Sum_probs=11.6
Q ss_pred CCccCchhhccCCHHHHHHH
Q psy7463 179 AYQCNVCDKKYSRLSDYKIH 198 (319)
Q Consensus 179 ~~~C~~C~~~f~~~~~l~~H 198 (319)
.|.|+.|+..|-+..-++.|
T Consensus 19 ~YtCPRCn~~YCsl~CYr~h 38 (383)
T KOG4317|consen 19 EYTCPRCNLLYCSLKCYRNH 38 (383)
T ss_pred cccCCCCCccceeeeeecCC
Confidence 37777777666554444443
No 232
>COG1773 Rubredoxin [Energy production and conversion]
Probab=20.56 E-value=40 Score=20.62 Aligned_cols=10 Identities=20% Similarity=0.939 Sum_probs=4.8
Q ss_pred cccccchhhc
Q psy7463 43 YECDCCTEYF 52 (319)
Q Consensus 43 ~~C~~C~~~f 52 (319)
|+|..|+..|
T Consensus 4 ~~C~~CG~vY 13 (55)
T COG1773 4 WRCSVCGYVY 13 (55)
T ss_pred eEecCCceEe
Confidence 4444444444
No 233
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=20.09 E-value=56 Score=28.00 Aligned_cols=31 Identities=13% Similarity=0.598 Sum_probs=17.7
Q ss_pred cccCCCccccCChhHHHHHHhHhcCCCCccccccccccccCC
Q psy7463 123 LQCNLCADTFCPRSNMLRHYLLKHRGDKVFYACDRCDKRFSL 164 (319)
Q Consensus 123 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~C~~C~~~f~~ 164 (319)
.+|+.|+.....+ .|.... +.|+.|+.-|.-
T Consensus 28 ~~c~~c~~~~~~~-~l~~~~----------~vc~~c~~h~rl 58 (292)
T PRK05654 28 TKCPSCGQVLYRK-ELEANL----------NVCPKCGHHMRI 58 (292)
T ss_pred eECCCccchhhHH-HHHhcC----------CCCCCCCCCeeC
Confidence 5778787655322 222221 578888777653
Done!