Query psy16775
Match_columns 306
No_of_seqs 236 out of 2963
Neff 9.7
Searched_HMMs 46136
Date Fri Aug 16 21:43:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16775.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16775hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 2E-28 4.4E-33 200.2 6.1 135 32-239 129-265 (279)
2 KOG2462|consensus 99.9 3.4E-25 7.5E-30 181.3 5.5 129 2-203 131-263 (279)
3 KOG3608|consensus 99.9 3.5E-23 7.5E-28 173.8 7.2 189 5-243 183-378 (467)
4 KOG1074|consensus 99.8 1.3E-21 2.8E-26 180.5 8.2 55 186-246 880-936 (958)
5 KOG3623|consensus 99.8 1E-20 2.2E-25 172.1 5.8 80 140-238 890-971 (1007)
6 KOG3576|consensus 99.8 5.7E-19 1.2E-23 137.9 4.8 122 101-245 112-240 (267)
7 KOG1074|consensus 99.8 6E-19 1.3E-23 163.1 4.9 87 143-244 604-695 (958)
8 KOG3608|consensus 99.7 5.7E-19 1.2E-23 148.6 3.0 205 6-257 141-364 (467)
9 KOG3576|consensus 99.6 6.8E-16 1.5E-20 120.8 2.6 117 1-168 117-236 (267)
10 KOG3623|consensus 99.6 1.7E-15 3.7E-20 138.5 4.3 119 106-239 210-331 (1007)
11 PLN03086 PRLI-interacting fact 99.3 7.8E-12 1.7E-16 115.2 6.2 102 106-243 453-566 (567)
12 PLN03086 PRLI-interacting fact 99.1 1.6E-10 3.4E-15 106.7 6.8 103 32-208 452-565 (567)
13 PHA00733 hypothetical protein 99.1 5.9E-11 1.3E-15 89.7 3.2 85 141-243 37-125 (128)
14 KOG3993|consensus 99.0 9.3E-11 2E-15 101.8 0.9 128 105-244 266-485 (500)
15 PHA00733 hypothetical protein 99.0 2.4E-10 5.1E-15 86.5 2.6 84 105-208 39-124 (128)
16 KOG3993|consensus 98.7 5.2E-09 1.1E-13 91.1 1.0 26 183-208 456-483 (500)
17 PHA02768 hypothetical protein; 98.6 1.5E-08 3.2E-13 63.3 1.9 44 106-161 5-48 (55)
18 PHA02768 hypothetical protein; 98.6 2.3E-08 5.1E-13 62.4 1.8 40 144-198 5-44 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.4 2.1E-07 4.5E-12 49.6 2.1 26 14-45 1-26 (26)
20 PF05605 zf-Di19: Drought indu 98.3 4.7E-07 1E-11 57.7 3.4 52 185-242 2-54 (54)
21 PF13465 zf-H2C2_2: Zinc-finge 98.3 4.1E-07 8.9E-12 48.4 2.2 24 199-228 2-25 (26)
22 PHA00616 hypothetical protein 98.3 3.6E-07 7.7E-12 54.3 1.6 31 33-63 1-31 (44)
23 PF05605 zf-Di19: Drought indu 98.2 2E-06 4.2E-11 54.8 4.6 52 106-168 2-53 (54)
24 PHA00732 hypothetical protein 98.2 1.2E-06 2.6E-11 60.1 2.9 45 106-165 1-45 (79)
25 PHA00732 hypothetical protein 98.1 8E-07 1.7E-11 61.0 1.1 44 185-239 1-46 (79)
26 PHA00616 hypothetical protein 98.1 1.3E-06 2.9E-11 51.9 1.5 34 144-190 1-34 (44)
27 PF00096 zf-C2H2: Zinc finger, 98.0 5.2E-06 1.1E-10 42.8 2.0 23 218-240 1-23 (23)
28 PF13894 zf-C2H2_4: C2H2-type 97.9 1.1E-05 2.4E-10 41.9 2.3 24 218-241 1-24 (24)
29 PF00096 zf-C2H2: Zinc finger, 97.9 9.2E-06 2E-10 41.9 1.7 23 34-56 1-23 (23)
30 COG5189 SFP1 Putative transcri 97.8 5E-06 1.1E-10 70.2 1.0 56 183-238 347-419 (423)
31 COG5236 Uncharacterized conser 97.7 0.00042 9.2E-09 59.5 11.0 27 33-59 151-179 (493)
32 PF13894 zf-C2H2_4: C2H2-type 97.7 2.3E-05 5E-10 40.6 2.1 24 34-57 1-24 (24)
33 PF13912 zf-C2H2_6: C2H2-type 97.7 2.5E-05 5.4E-10 42.0 1.9 26 217-242 1-26 (27)
34 PF13912 zf-C2H2_6: C2H2-type 97.6 2.5E-05 5.4E-10 41.9 1.5 26 33-58 1-26 (27)
35 PF12756 zf-C2H2_2: C2H2 type 97.6 3.9E-05 8.5E-10 55.5 2.1 60 108-167 1-73 (100)
36 KOG2231|consensus 97.5 0.00082 1.8E-08 63.6 10.4 94 113-238 156-260 (669)
37 PF12756 zf-C2H2_2: C2H2 type 97.5 7.4E-05 1.6E-09 54.0 2.8 73 146-241 1-74 (100)
38 COG5189 SFP1 Putative transcri 97.3 8.8E-05 1.9E-09 62.9 1.5 23 32-54 348-372 (423)
39 PF13909 zf-H2C2_5: C2H2-type 97.1 0.00033 7.1E-09 36.3 2.0 24 218-242 1-24 (24)
40 KOG2231|consensus 97.1 0.00087 1.9E-08 63.5 5.4 105 108-243 117-238 (669)
41 PF09237 GAGA: GAGA factor; I 97.0 0.00066 1.4E-08 41.4 2.7 32 214-245 21-52 (54)
42 KOG1146|consensus 96.9 0.0005 1.1E-08 68.8 2.3 116 32-168 464-613 (1406)
43 smart00355 ZnF_C2H2 zinc finge 96.9 0.00077 1.7E-08 35.2 1.9 23 218-240 1-23 (26)
44 smart00355 ZnF_C2H2 zinc finge 96.8 0.00087 1.9E-08 35.0 2.0 23 34-56 1-23 (26)
45 PF13909 zf-H2C2_5: C2H2-type 96.7 0.00098 2.1E-08 34.5 1.5 24 34-58 1-24 (24)
46 PF09237 GAGA: GAGA factor; I 96.7 0.0013 2.9E-08 40.0 2.1 30 32-61 23-52 (54)
47 PF12874 zf-met: Zinc-finger o 96.6 0.0012 2.6E-08 34.5 1.3 23 34-56 1-23 (25)
48 PF12874 zf-met: Zinc-finger o 96.5 0.0017 3.7E-08 33.9 1.8 23 218-240 1-23 (25)
49 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0036 7.7E-08 33.4 1.5 22 218-239 2-23 (27)
50 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.0058 1.3E-07 32.6 1.4 22 145-166 2-23 (27)
51 COG5236 Uncharacterized conser 95.7 0.0068 1.5E-07 52.3 2.3 26 106-131 151-178 (493)
52 KOG1146|consensus 95.6 0.0052 1.1E-07 61.9 1.4 82 147-240 439-541 (1406)
53 KOG4173|consensus 95.5 0.0083 1.8E-07 48.0 2.0 83 143-242 78-171 (253)
54 KOG2482|consensus 95.3 0.021 4.5E-07 49.4 3.8 61 106-166 279-356 (423)
55 PRK04860 hypothetical protein; 95.3 0.0071 1.5E-07 47.5 0.9 37 185-229 119-155 (160)
56 PF13913 zf-C2HC_2: zinc-finge 94.4 0.033 7.2E-07 29.0 1.8 21 218-239 3-23 (25)
57 KOG2482|consensus 94.2 0.1 2.2E-06 45.3 5.2 22 106-127 195-216 (423)
58 PRK04860 hypothetical protein; 93.9 0.022 4.9E-07 44.8 0.8 38 106-157 119-156 (160)
59 PF13913 zf-C2HC_2: zinc-finge 93.8 0.059 1.3E-06 28.1 2.0 22 33-55 2-23 (25)
60 KOG2186|consensus 93.6 0.031 6.6E-07 46.4 1.2 47 1-55 3-50 (276)
61 KOG2785|consensus 93.5 0.17 3.7E-06 44.7 5.5 134 106-239 3-242 (390)
62 smart00451 ZnF_U1 U1-like zinc 93.3 0.056 1.2E-06 30.5 1.6 24 32-55 2-25 (35)
63 smart00451 ZnF_U1 U1-like zinc 93.2 0.072 1.6E-06 30.0 1.9 23 217-239 3-25 (35)
64 COG4049 Uncharacterized protei 93.0 0.043 9.4E-07 34.1 0.8 29 214-242 14-42 (65)
65 KOG4173|consensus 92.7 0.06 1.3E-06 43.2 1.5 87 106-208 79-171 (253)
66 COG4049 Uncharacterized protei 91.2 0.086 1.9E-06 32.8 0.7 30 140-169 13-42 (65)
67 KOG2186|consensus 89.4 0.18 3.8E-06 42.0 1.2 49 185-241 3-52 (276)
68 PF12013 DUF3505: Protein of u 89.1 0.58 1.3E-05 34.3 3.7 94 32-131 10-109 (109)
69 KOG2785|consensus 88.6 1.1 2.4E-05 39.7 5.6 60 106-165 166-241 (390)
70 KOG2893|consensus 88.5 0.092 2E-06 43.2 -1.0 46 187-242 12-59 (341)
71 cd00350 rubredoxin_like Rubred 88.4 0.3 6.5E-06 27.3 1.3 25 145-194 2-26 (33)
72 KOG2893|consensus 87.0 0.17 3.6E-06 41.7 -0.3 49 141-207 8-58 (341)
73 PF09538 FYDLN_acid: Protein o 86.2 0.35 7.6E-06 35.3 1.0 30 186-230 10-39 (108)
74 COG5048 FOG: Zn-finger [Genera 84.1 0.8 1.7E-05 41.9 2.7 59 184-247 288-353 (467)
75 PF02892 zf-BED: BED zinc fing 82.4 1.2 2.7E-05 26.6 2.1 26 215-240 14-43 (45)
76 cd00729 rubredoxin_SM Rubredox 82.1 0.82 1.8E-05 25.7 1.2 12 144-155 2-13 (34)
77 PF09986 DUF2225: Uncharacteri 81.8 0.26 5.6E-06 41.0 -1.4 24 142-165 3-26 (214)
78 COG2888 Predicted Zn-ribbon RN 81.0 0.76 1.6E-05 29.2 0.8 34 184-226 26-59 (61)
79 COG1592 Rubrerythrin [Energy p 80.8 0.91 2E-05 35.8 1.4 25 143-193 133-157 (166)
80 PF09538 FYDLN_acid: Protein o 79.6 1.1 2.3E-05 32.8 1.4 30 107-157 10-39 (108)
81 TIGR02300 FYDLN_acid conserved 77.4 1.3 2.8E-05 33.0 1.3 14 217-230 26-39 (129)
82 COG5048 FOG: Zn-finger [Genera 77.0 0.67 1.5E-05 42.4 -0.4 127 106-245 289-446 (467)
83 PF13717 zinc_ribbon_4: zinc-r 75.9 1.1 2.5E-05 25.5 0.5 33 145-195 3-35 (36)
84 PF09986 DUF2225: Uncharacteri 75.8 0.73 1.6E-05 38.3 -0.5 24 32-55 4-27 (214)
85 PF12013 DUF3505: Protein of u 75.6 2.2 4.8E-05 31.2 2.1 25 218-242 81-109 (109)
86 PRK00398 rpoP DNA-directed RNA 74.4 1.1 2.4E-05 27.1 0.2 12 144-155 3-14 (46)
87 PF13719 zinc_ribbon_5: zinc-r 73.9 1.3 2.8E-05 25.4 0.4 33 145-195 3-35 (37)
88 PRK14890 putative Zn-ribbon RN 73.7 1.3 2.8E-05 28.2 0.4 33 184-226 24-57 (59)
89 PF05443 ROS_MUCR: ROS/MUCR tr 73.6 1.4 3E-05 33.4 0.6 25 218-245 73-97 (132)
90 TIGR02098 MJ0042_CXXC MJ0042 f 73.2 1.6 3.4E-05 25.1 0.6 34 107-155 3-36 (38)
91 PF15269 zf-C2H2_7: Zinc-finge 73.2 2.2 4.9E-05 25.3 1.3 23 33-55 20-42 (54)
92 TIGR00622 ssl1 transcription f 73.0 3 6.4E-05 30.6 2.1 84 107-208 16-105 (112)
93 PF15269 zf-C2H2_7: Zinc-finge 72.7 3.8 8.3E-05 24.3 2.1 22 106-127 20-41 (54)
94 PF09723 Zn-ribbon_8: Zinc rib 71.2 1.1 2.5E-05 26.5 -0.3 30 144-193 5-34 (42)
95 COG1592 Rubrerythrin [Energy p 71.1 1.6 3.5E-05 34.4 0.5 24 185-225 134-157 (166)
96 COG1997 RPL43A Ribosomal prote 71.1 2.5 5.4E-05 29.2 1.3 31 184-228 34-64 (89)
97 smart00734 ZnF_Rad18 Rad18-lik 70.8 3.4 7.4E-05 21.6 1.5 19 146-165 3-21 (26)
98 PF05443 ROS_MUCR: ROS/MUCR tr 70.6 2.7 5.8E-05 31.9 1.6 26 32-60 71-96 (132)
99 smart00614 ZnF_BED BED zinc fi 69.5 3.8 8.1E-05 25.2 1.8 22 218-239 19-45 (50)
100 smart00531 TFIIE Transcription 69.4 2.9 6.3E-05 32.4 1.6 38 141-195 96-133 (147)
101 PRK00464 nrdR transcriptional 67.0 0.73 1.6E-05 36.0 -2.2 14 217-230 28-41 (154)
102 TIGR00373 conserved hypothetic 66.7 3.2 7E-05 32.6 1.4 34 141-196 106-139 (158)
103 KOG2593|consensus 66.4 3.9 8.4E-05 37.1 1.9 61 118-195 103-163 (436)
104 TIGR00373 conserved hypothetic 66.3 3.2 6.9E-05 32.7 1.2 32 104-154 107-138 (158)
105 KOG4377|consensus 65.4 6.9 0.00015 35.2 3.2 124 107-243 272-429 (480)
106 PHA00626 hypothetical protein 62.8 4 8.6E-05 25.6 0.9 13 217-229 23-35 (59)
107 smart00531 TFIIE Transcription 62.3 3.8 8.3E-05 31.8 1.0 36 105-154 98-133 (147)
108 PRK06266 transcription initiat 62.0 3.8 8.3E-05 32.9 1.0 33 104-155 115-147 (178)
109 PRK06266 transcription initiat 61.6 4.3 9.3E-05 32.6 1.2 34 141-196 114-147 (178)
110 COG2331 Uncharacterized protei 61.4 2.4 5.2E-05 28.4 -0.2 33 106-155 12-44 (82)
111 TIGR02605 CxxC_CxxC_SSSS putat 59.7 3.1 6.7E-05 25.7 0.1 13 144-156 5-17 (52)
112 PF12907 zf-met2: Zinc-binding 59.2 7.6 0.00017 22.7 1.6 23 186-208 2-29 (40)
113 COG4957 Predicted transcriptio 57.9 6.5 0.00014 29.6 1.5 25 218-245 77-101 (148)
114 KOG2593|consensus 57.9 6 0.00013 36.0 1.5 40 101-153 123-162 (436)
115 smart00659 RPOLCX RNA polymera 56.8 5.7 0.00012 23.8 0.9 12 144-155 2-13 (44)
116 KOG4167|consensus 56.1 3.2 6.9E-05 40.1 -0.5 28 32-59 791-818 (907)
117 COG4530 Uncharacterized protei 56.0 8.4 0.00018 27.8 1.7 15 184-198 25-39 (129)
118 PF06524 NOA36: NOA36 protein; 55.9 6 0.00013 33.4 1.1 89 141-243 139-235 (314)
119 COG1996 RPC10 DNA-directed RNA 54.8 5.6 0.00012 24.4 0.6 13 142-154 4-16 (49)
120 PF03604 DNA_RNApol_7kD: DNA d 54.5 8.9 0.00019 21.2 1.3 11 145-155 1-11 (32)
121 PF10571 UPF0547: Uncharacteri 53.8 6.9 0.00015 20.5 0.8 11 218-228 15-25 (26)
122 COG1198 PriA Primosomal protei 53.5 9.4 0.0002 37.7 2.2 11 184-194 474-484 (730)
123 COG1198 PriA Primosomal protei 53.0 6.8 0.00015 38.7 1.2 28 180-226 457-484 (730)
124 KOG3408|consensus 52.5 11 0.00024 27.8 1.9 30 210-239 50-79 (129)
125 COG5151 SSL1 RNA polymerase II 51.9 30 0.00066 30.1 4.7 27 101-127 383-409 (421)
126 PF04959 ARS2: Arsenite-resist 51.3 7.4 0.00016 32.2 1.0 29 141-169 74-102 (214)
127 KOG1280|consensus 51.1 27 0.00059 30.9 4.4 26 142-167 77-102 (381)
128 KOG0978|consensus 50.1 11 0.00024 36.7 2.1 36 191-236 661-697 (698)
129 PF02176 zf-TRAF: TRAF-type zi 48.8 3.5 7.5E-05 26.3 -1.1 11 217-227 38-52 (60)
130 KOG4167|consensus 48.6 12 0.00026 36.5 2.0 25 1-26 792-818 (907)
131 PF05290 Baculo_IE-1: Baculovi 48.5 11 0.00024 28.4 1.4 56 140-231 76-135 (140)
132 KOG4124|consensus 47.4 3.1 6.7E-05 36.5 -1.8 57 183-239 347-420 (442)
133 PF07754 DUF1610: Domain of un 47.3 10 0.00022 19.4 0.8 8 217-224 16-23 (24)
134 COG3880 Modulator of heat shoc 45.8 23 0.00049 27.9 2.8 12 33-44 92-103 (176)
135 PRK09678 DNA-binding transcrip 45.7 4 8.7E-05 27.4 -1.1 14 217-230 27-42 (72)
136 PF04959 ARS2: Arsenite-resist 45.6 14 0.00029 30.7 1.7 29 31-59 75-103 (214)
137 COG4888 Uncharacterized Zn rib 45.3 2 4.3E-05 30.5 -2.7 37 182-228 19-57 (104)
138 KOG0320|consensus 44.7 26 0.00055 28.0 3.0 50 141-228 128-178 (187)
139 COG4957 Predicted transcriptio 44.2 11 0.00024 28.4 0.9 24 34-60 77-100 (148)
140 PF15135 UPF0515: Uncharacteri 42.7 6.2 0.00014 33.0 -0.7 61 141-232 109-170 (278)
141 COG3677 Transposase and inacti 41.2 12 0.00027 28.3 0.8 36 185-229 30-65 (129)
142 PF05191 ADK_lid: Adenylate ki 40.6 14 0.0003 21.0 0.8 11 145-155 2-12 (36)
143 PTZ00255 60S ribosomal protein 40.3 13 0.00029 26.0 0.8 31 184-228 35-65 (90)
144 KOG3408|consensus 40.1 19 0.00042 26.6 1.6 28 28-55 52-79 (129)
145 TIGR01206 lysW lysine biosynth 38.8 5.3 0.00012 25.1 -1.3 10 145-154 3-12 (54)
146 COG3357 Predicted transcriptio 38.5 20 0.00044 25.0 1.4 28 143-193 57-84 (97)
147 smart00834 CxxC_CXXC_SSSS Puta 38.5 15 0.00033 21.1 0.7 13 217-229 5-17 (41)
148 PRK14873 primosome assembly pr 37.7 18 0.00039 35.6 1.5 27 180-226 405-431 (665)
149 CHL00174 accD acetyl-CoA carbo 37.1 19 0.00042 31.4 1.4 32 186-231 39-71 (296)
150 TIGR00515 accD acetyl-CoA carb 36.6 20 0.00043 31.2 1.4 33 185-231 26-59 (285)
151 PRK00432 30S ribosomal protein 36.3 22 0.00049 21.9 1.2 27 187-228 22-48 (50)
152 COG4391 Uncharacterized protei 36.1 16 0.00034 23.5 0.5 39 78-117 21-59 (62)
153 COG5222 Uncharacterized conser 35.8 1.3E+02 0.0029 26.1 6.1 52 137-226 267-319 (427)
154 PF09416 UPF1_Zn_bind: RNA hel 35.3 15 0.00033 28.5 0.5 46 179-225 8-68 (152)
155 KOG4124|consensus 34.9 6.1 0.00013 34.8 -1.9 61 105-165 348-419 (442)
156 PRK03824 hypA hydrogenase nick 33.9 15 0.00033 28.0 0.3 15 143-157 69-83 (135)
157 PF10013 DUF2256: Uncharacteri 33.7 27 0.00058 20.6 1.2 16 219-234 10-25 (42)
158 COG1773 Rubredoxin [Energy pro 33.3 19 0.00042 22.7 0.6 12 217-228 3-14 (55)
159 PF08274 PhnA_Zn_Ribbon: PhnA 33.3 17 0.00036 19.8 0.3 14 141-154 16-29 (30)
160 TIGR00595 priA primosomal prot 32.8 25 0.00055 33.4 1.6 29 179-226 234-262 (505)
161 PF08790 zf-LYAR: LYAR-type C2 32.5 8.3 0.00018 20.6 -1.0 20 34-54 1-20 (28)
162 PF14446 Prok-RING_1: Prokaryo 32.1 20 0.00043 22.5 0.5 16 183-198 19-34 (54)
163 TIGR00280 L37a ribosomal prote 32.0 17 0.00038 25.5 0.3 31 184-228 34-64 (91)
164 PRK12380 hydrogenase nickel in 31.3 25 0.00054 25.9 1.0 14 142-155 68-81 (113)
165 PRK05654 acetyl-CoA carboxylas 31.2 25 0.00054 30.7 1.2 32 186-231 28-60 (292)
166 KOG2907|consensus 31.2 25 0.00054 25.7 0.9 13 217-229 102-114 (116)
167 PF13878 zf-C2H2_3: zinc-finge 31.0 51 0.0011 19.3 2.1 24 33-56 13-38 (41)
168 COG1998 RPS31 Ribosomal protei 31.0 31 0.00068 21.1 1.2 26 186-226 20-46 (51)
169 smart00154 ZnF_AN1 AN1-like Zi 30.7 27 0.00059 20.2 0.9 13 217-229 12-24 (39)
170 smart00661 RPOL9 RNA polymeras 30.3 40 0.00087 20.5 1.7 13 217-229 20-32 (52)
171 TIGR00595 priA primosomal prot 30.1 36 0.00078 32.4 2.1 14 141-154 237-250 (505)
172 COG1655 Uncharacterized protei 30.0 16 0.00035 30.3 -0.2 27 142-168 17-43 (267)
173 TIGR00100 hypA hydrogenase nic 28.4 30 0.00065 25.5 1.1 14 142-155 68-81 (115)
174 PF01428 zf-AN1: AN1-like Zinc 28.3 25 0.00053 20.8 0.5 14 216-229 12-25 (43)
175 PF13451 zf-trcl: Probable zin 28.1 29 0.00062 21.3 0.7 18 215-232 2-19 (49)
176 KOG1842|consensus 28.1 34 0.00074 31.4 1.5 27 105-131 14-40 (505)
177 KOG4727|consensus 27.2 37 0.00081 26.8 1.4 25 103-127 72-96 (193)
178 COG0068 HypF Hydrogenase matur 27.2 12 0.00026 36.4 -1.5 58 107-194 124-182 (750)
179 PF12760 Zn_Tnp_IS1595: Transp 27.1 1.1E+02 0.0024 18.2 3.2 28 185-225 18-45 (46)
180 PRK00564 hypA hydrogenase nick 26.9 33 0.00071 25.5 1.0 14 142-155 69-82 (117)
181 COG5151 SSL1 RNA polymerase II 26.4 57 0.0012 28.5 2.5 23 217-239 388-410 (421)
182 COG5112 UFD2 U1-like Zn-finger 25.9 38 0.00081 24.4 1.1 28 211-238 49-76 (126)
183 KOG1842|consensus 25.9 37 0.0008 31.2 1.3 30 143-172 14-43 (505)
184 PF04780 DUF629: Protein of un 25.8 49 0.0011 30.9 2.1 26 106-131 57-82 (466)
185 PRK03976 rpl37ae 50S ribosomal 25.3 25 0.00054 24.7 0.1 31 184-228 35-65 (90)
186 KOG0717|consensus 25.3 41 0.0009 31.1 1.5 21 218-238 293-313 (508)
187 PRK14873 primosome assembly pr 24.8 44 0.00096 33.0 1.7 11 184-194 421-431 (665)
188 KOG2071|consensus 24.6 44 0.00095 31.9 1.6 26 215-240 416-441 (579)
189 PF03145 Sina: Seven in absent 24.1 30 0.00064 28.2 0.4 52 185-244 14-74 (198)
190 PF06397 Desulfoferrod_N: Desu 24.0 34 0.00073 19.5 0.5 12 216-227 5-16 (36)
191 PRK05580 primosome assembly pr 23.9 42 0.00091 33.2 1.4 13 181-193 404-416 (679)
192 KOG2636|consensus 23.7 52 0.0011 30.3 1.8 27 205-236 394-421 (497)
193 PF04780 DUF629: Protein of un 23.5 56 0.0012 30.5 2.0 28 217-244 57-84 (466)
194 PF01363 FYVE: FYVE zinc finge 23.2 28 0.0006 22.8 0.0 12 144-155 9-20 (69)
195 PF00301 Rubredoxin: Rubredoxi 22.9 38 0.00083 20.6 0.6 11 218-228 2-12 (47)
196 PF10276 zf-CHCC: Zinc-finger 22.8 31 0.00068 20.1 0.2 12 143-154 28-39 (40)
197 COG1571 Predicted DNA-binding 22.8 41 0.00088 30.9 1.0 17 182-198 364-380 (421)
198 PTZ00448 hypothetical protein; 22.6 55 0.0012 29.4 1.7 23 33-55 314-336 (373)
199 PF04423 Rad50_zn_hook: Rad50 22.4 33 0.00072 21.3 0.3 11 219-229 22-32 (54)
200 KOG0717|consensus 22.0 44 0.00096 30.9 1.1 22 145-166 293-314 (508)
201 cd00730 rubredoxin Rubredoxin; 21.9 37 0.0008 20.9 0.4 11 218-228 2-12 (50)
202 PF01155 HypA: Hydrogenase exp 21.8 17 0.00036 26.8 -1.4 14 143-156 69-82 (113)
203 COG3091 SprT Zn-dependent meta 21.3 31 0.00067 26.7 -0.0 15 142-157 115-129 (156)
204 PRK03681 hypA hydrogenase nick 20.7 49 0.0011 24.4 0.9 14 142-155 68-81 (114)
205 KOG4727|consensus 20.5 51 0.0011 26.1 1.0 23 32-54 74-96 (193)
206 cd00065 FYVE FYVE domain; Zinc 20.3 56 0.0012 20.2 1.0 14 185-198 18-31 (57)
207 KOG1280|consensus 20.1 98 0.0021 27.5 2.7 27 105-131 78-104 (381)
208 PF07503 zf-HYPF: HypF finger; 20.0 12 0.00027 21.1 -1.8 11 185-195 21-31 (35)
No 1
>KOG2462|consensus
Probab=99.95 E-value=2e-28 Score=200.21 Aligned_cols=135 Identities=23% Similarity=0.452 Sum_probs=122.2
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCCCCCCCCCCCCCcccccCCCCCccccCCccccCCCCCCCCCCCCCCCCCcCCc
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQSTDPMLKPLKINDEITIIPQPPRPTASSSSSTSSSNNN 111 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~~ 111 (306)
..|+|..||+.|.+..+|.+|+++|-.- ...+.+.|++
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~------------------------------------------~s~ka~~C~~ 166 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSL------------------------------------------DSKKAFSCKY 166 (279)
T ss_pred Cceeccccccccccccccchhhcccccc------------------------------------------cccccccCCC
Confidence 5799999999999999999999887432 1234588899
Q ss_pred cCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcc
Q psy16775 112 KVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVC 191 (306)
Q Consensus 112 C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C 191 (306)
||+.|....+|+.|++ +|+ -+++|.+|||.|.+.+-|+-|++ +|+|||||.|+.|
T Consensus 167 C~K~YvSmpALkMHir-TH~-----------l~c~C~iCGKaFSRPWLLQGHiR-------------THTGEKPF~C~hC 221 (279)
T KOG2462|consen 167 CGKVYVSMPALKMHIR-THT-----------LPCECGICGKAFSRPWLLQGHIR-------------THTGEKPFSCPHC 221 (279)
T ss_pred CCceeeehHHHhhHhh-ccC-----------CCcccccccccccchHHhhcccc-------------cccCCCCccCCcc
Confidence 9999999999999997 665 37999999999999999999999 8899999999999
Q ss_pred hhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhh
Q psy16775 192 GRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 192 ~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
+++|... |+.|| ..|. +.|.|+|..|+++|...+.|.+|...
T Consensus 222 ~kAFADRSNLRAHm-QTHS-----~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 222 GKAFADRSNLRAHM-QTHS-----DVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cchhcchHHHHHHH-Hhhc-----CCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999998 99999 7787 77889999999999999999999865
No 2
>KOG2462|consensus
Probab=99.91 E-value=3.4e-25 Score=181.33 Aligned_cols=129 Identities=19% Similarity=0.373 Sum_probs=116.0
Q ss_pred chhHHHHHHHH--HHHHHHHHhhcCCCCCCCCcccccCcccccccCcHHHHHHHHhcCCCCCCCCCCCCCCcccccCCCC
Q psy16775 2 FGSAAIQDVYQ--WKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQSTDPML 79 (306)
Q Consensus 2 ~~~~~~~~~~~--~~l~~H~~~~H~~~~~~~~~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~~~~~~~ 79 (306)
|-|.+||+.|. +.|.+|. ..|..-. +.+.+.|..||+.|.+...|..|+++|...
T Consensus 131 ~~c~eCgk~ysT~snLsrHk-Q~H~~~~--s~ka~~C~~C~K~YvSmpALkMHirTH~l~-------------------- 187 (279)
T KOG2462|consen 131 YKCPECGKSYSTSSNLSRHK-QTHRSLD--SKKAFSCKYCGKVYVSMPALKMHIRTHTLP-------------------- 187 (279)
T ss_pred eeccccccccccccccchhh-ccccccc--ccccccCCCCCceeeehHHHhhHhhccCCC--------------------
Confidence 56899999994 5799999 7787543 348899999999999999999999998542
Q ss_pred CccccCCccccCCCCCCCCCCCCCCCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHH
Q psy16775 80 KPLKINDEITIIPQPPRPTASSSSSTSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQG 159 (306)
Q Consensus 80 ~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~ 159 (306)
++|.+||+.|...--|+-|++ .|+ ||+||.|+.|+++|..+++
T Consensus 188 ---------------------------c~C~iCGKaFSRPWLLQGHiR-THT---------GEKPF~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 188 ---------------------------CECGICGKAFSRPWLLQGHIR-THT---------GEKPFSCPHCGKAFADRSN 230 (279)
T ss_pred ---------------------------cccccccccccchHHhhcccc-ccc---------CCCCccCCcccchhcchHH
Confidence 667799999999999999997 776 9999999999999999999
Q ss_pred HHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHH
Q psy16775 160 LERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHV 203 (306)
Q Consensus 160 l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~ 203 (306)
|+.||+ +|.+.|+|+|..|++.|... |.+|.
T Consensus 231 LRAHmQ-------------THS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 231 LRAHMQ-------------THSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred HHHHHH-------------hhcCCccccCcchhhHHHHHHHHHHhh
Confidence 999999 88999999999999999998 89987
No 3
>KOG3608|consensus
Probab=99.88 E-value=3.5e-23 Score=173.84 Aligned_cols=189 Identities=15% Similarity=0.296 Sum_probs=153.2
Q ss_pred HHHHHHH--HHHHHHHHHhhcCCCCCCCCcccccCcccccccCcHHHHHHHHhcCCCCCCCCCCCCCCcccccCCCCCcc
Q psy16775 5 AAIQDVY--QWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQSTDPMLKPL 82 (306)
Q Consensus 5 ~~~~~~~--~~~l~~H~~~~H~~~~~~~~~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (306)
++|-.++ ++.|++|+ +.|.++ |...|+.||.-|.++..|..|++....- ...+|
T Consensus 183 ~~Ct~~~~~k~~LreH~-r~Hs~e-----KvvACp~Cg~~F~~~tkl~DH~rRqt~l------------------~~n~f 238 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHI-RTHSNE-----KVVACPHCGELFRTKTKLFDHLRRQTEL------------------NTNSF 238 (467)
T ss_pred hhhhhhhccHHHHHHHH-HhcCCC-----eEEecchHHHHhccccHHHHHHHhhhhh------------------cCCch
Confidence 3455555 67899999 999988 9999999999999999999999875432 22366
Q ss_pred ccCCccccCCCCCCCCCC-CCCCCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHH
Q psy16775 83 KINDEITIIPQPPRPTAS-SSSSTSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLE 161 (306)
Q Consensus 83 ~c~~~~~~~~~~~~~~~~-~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~ 161 (306)
.|..|...+...+....+ .+....|+|+.|+......+.|..|++..|. .++||+|+.|++.|.+.++|.
T Consensus 239 qC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs---------~dkpfKCd~Cd~~c~~esdL~ 309 (467)
T KOG3608|consen 239 QCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHS---------KDKPFKCDECDTRCVRESDLA 309 (467)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhc---------cCCCccccchhhhhccHHHHH
Confidence 666666665443222111 2223469999999999999999999999998 899999999999999999999
Q ss_pred hHhhhccCCcchhhHHhhhcCCCCcCCCc--chhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhH
Q psy16775 162 RHLLGSHGLVTSSMQEAANKGKDGGRCPV--CGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHV 237 (306)
Q Consensus 162 ~H~~~~h~~~~~~~~~~~h~~~~~~~C~~--C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~ 237 (306)
+|+. +|. +..|.|+. |..+|.+. |++|++.+|.+.. .-+|.|-.|++.|++-.+|.+|+
T Consensus 310 kH~~-------------~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~n---p~~Y~CH~Cdr~ft~G~~L~~HL 372 (467)
T KOG3608|consen 310 KHVQ-------------VHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNN---PILYACHCCDRFFTSGKSLSAHL 372 (467)
T ss_pred HHHH-------------hcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCC---CCceeeecchhhhccchhHHHHH
Confidence 9999 677 67899988 99999998 9999977774332 23799999999999999999998
Q ss_pred hhhcCC
Q psy16775 238 YSAHSV 243 (306)
Q Consensus 238 ~~hh~~ 243 (306)
..-|+-
T Consensus 373 ~kkH~f 378 (467)
T KOG3608|consen 373 MKKHGF 378 (467)
T ss_pred HHhhcc
Confidence 776654
No 4
>KOG1074|consensus
Probab=99.85 E-value=1.3e-21 Score=180.53 Aligned_cols=55 Identities=25% Similarity=0.521 Sum_probs=50.3
Q ss_pred cCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhhhcCCCCC
Q psy16775 186 GRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSVAPR 246 (306)
Q Consensus 186 ~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~hh~~~~~ 246 (306)
..|.+||+.|... |..|+ +.|+ |+|||.|.+|++.|..+.+|+.||.+|+...+.
T Consensus 880 h~C~vCgk~FsSSsALqiH~-rTHt-----g~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHM-RTHT-----GPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPP 936 (958)
T ss_pred hhhccchhcccchHHHHHhh-hcCC-----CCCCccchhhhhhhhhhhhhhhhhccccccCCC
Confidence 4599999999987 99999 8898 999999999999999999999999998876543
No 5
>KOG3623|consensus
Probab=99.82 E-value=1e-20 Score=172.10 Aligned_cols=80 Identities=23% Similarity=0.546 Sum_probs=75.5
Q ss_pred CCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcc
Q psy16775 140 YNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLS 217 (306)
Q Consensus 140 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~ 217 (306)
+.+.+|.|+.|+|+|...+.|.+|.- -|+|.+||+|.+|.+.|..+ |..|+ +.|. |+||
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKY-------------EHsGqRPyqC~iCkKAFKHKHHLtEHk-RLHS-----GEKP 950 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKY-------------EHSGQRPYQCIICKKAFKHKHHLTEHK-RLHS-----GEKP 950 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhh-------------hhcCCCCcccchhhHhhhhhhhhhhhh-hhcc-----CCCc
Confidence 45678999999999999999999999 77999999999999999999 99999 8898 9999
Q ss_pred eecCccCcccCCHHHHHhhHh
Q psy16775 218 YKCTVCTATFGMYRQFENHVY 238 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~ 238 (306)
|+|+.|+++|+...+...||.
T Consensus 951 fQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 951 FQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred chhhhhhhhcccccchHhhhc
Confidence 999999999999999999994
No 6
>KOG3576|consensus
Probab=99.76 E-value=5.7e-19 Score=137.88 Aligned_cols=122 Identities=21% Similarity=0.299 Sum_probs=108.1
Q ss_pred CCCCCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhh
Q psy16775 101 SSSSTSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAAN 180 (306)
Q Consensus 101 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h 180 (306)
..+...|.|.+|++.|.....|.+|++ .|. +.+.|.|..||+.|....+|++|++ +|
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~k-ch~---------~vkr~lct~cgkgfndtfdlkrh~r-------------th 168 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLK-CHS---------DVKRHLCTFCGKGFNDTFDLKRHTR-------------TH 168 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhh-hcc---------HHHHHHHhhccCcccchhhhhhhhc-------------cc
Confidence 445568999999999999999999998 777 7788999999999999999999999 88
Q ss_pred cCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCC-----CCCcceecCccCcccCCHHHHHhhHhhhcCCCC
Q psy16775 181 KGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLK-----PAHLSYKCTVCTATFGMYRQFENHVYSAHSVAP 245 (306)
Q Consensus 181 ~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~-----~~~k~~~C~~C~~~f~~~~~L~~H~~~hh~~~~ 245 (306)
+|.+||+|..|+++|+.. |..|++.+|..... ..+|.|.|..||++-.....+..|++.+|...+
T Consensus 169 tgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 169 TGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred cCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 999999999999999999 99999999965321 146789999999999999999999999887544
No 7
>KOG1074|consensus
Probab=99.75 E-value=6e-19 Score=163.15 Aligned_cols=87 Identities=22% Similarity=0.450 Sum_probs=76.3
Q ss_pred CCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceec
Q psy16775 143 PPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKC 220 (306)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C 220 (306)
-|-+|.+|.+...-++.|+.|.+ +|+|++||+|.+||+.|.++ |+.|| .+|..... -.-.|.|
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyr-------------tHtGERPFkCKiCgRAFtTkGNLkaH~-~vHka~p~-~R~q~Sc 668 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYR-------------THTGERPFKCKICGRAFTTKGNLKAHM-SVHKAKPP-ARVQFSC 668 (958)
T ss_pred Cccceeeeeecccchhhhhhhhh-------------cccCcCccccccccchhccccchhhcc-cccccCcc-ccccccC
Confidence 46899999999999999999999 88999999999999999999 99999 88853222 2235999
Q ss_pred C---ccCcccCCHHHHHhhHhhhcCCC
Q psy16775 221 T---VCTATFGMYRQFENHVYSAHSVA 244 (306)
Q Consensus 221 ~---~C~~~f~~~~~L~~H~~~hh~~~ 244 (306)
+ +|-+.|.....|..|++.|.+..
T Consensus 669 P~~~ic~~kftn~V~lpQhIriH~~~~ 695 (958)
T KOG1074|consen 669 PSTFICQKKFTNAVTLPQHIRIHLGGQ 695 (958)
T ss_pred CchhhhcccccccccccceEEeecCCC
Confidence 9 99999999999999999987543
No 8
>KOG3608|consensus
Probab=99.74 E-value=5.7e-19 Score=148.63 Aligned_cols=205 Identities=17% Similarity=0.236 Sum_probs=151.1
Q ss_pred HHHHHH--HHHHHHHHHhhcCCC------CCCC-C-cccccC--cccccccCcHHHHHHHHhcCCCCCCCCCCCCCCccc
Q psy16775 6 AIQDVY--QWKLLNHVARDHNMS------LKPA-H-LSYKCT--VCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQ 73 (306)
Q Consensus 6 ~~~~~~--~~~l~~H~~~~H~~~------~~~~-~-~~y~C~--~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~ 73 (306)
.|++.| ...|..|+ ..|..- .-++ + -.+.|. .|-+.|.++..|.+|++.|.+++...|+.|+..|..
T Consensus 141 dCe~~F~s~~ef~dHV-~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~ 219 (467)
T KOG3608|consen 141 DCEREFVSIVEFQDHV-VKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRT 219 (467)
T ss_pred hcCCcccCHHHHHHHH-HHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhcc
Confidence 455555 34577777 555322 1112 1 236675 599999999999999999999877777776666553
Q ss_pred ccCCCCCccccCCccccCCCCCCCCCCCCCCCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccc
Q psy16775 74 STDPMLKPLKINDEITIIPQPPRPTASSSSSTSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFR 153 (306)
Q Consensus 74 ~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~ 153 (306)
.. .++.+.+.-. .....+|.|..|.+.|.+...|..|+. -|- .-|+|+.|+.+
T Consensus 220 ~t-------------kl~DH~rRqt--~l~~n~fqC~~C~KrFaTeklL~~Hv~-rHv-----------n~ykCplCdmt 272 (467)
T KOG3608|consen 220 KT-------------KLFDHLRRQT--ELNTNSFQCAQCFKRFATEKLLKSHVV-RHV-----------NCYKCPLCDMT 272 (467)
T ss_pred cc-------------HHHHHHHhhh--hhcCCchHHHHHHHHHhHHHHHHHHHH-Hhh-----------hcccccccccC
Confidence 21 1111111111 122347999999999999999999997 443 26999999999
Q ss_pred cCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCc--cCcccCC
Q psy16775 154 FFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTV--CTATFGM 229 (306)
Q Consensus 154 f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~--C~~~f~~ 229 (306)
...++.|..|++. .|..++||+|+.|++.|.+. |.+|+ ..|+ +-.|.|.. |.+.|.+
T Consensus 273 c~~~ssL~~H~r~------------rHs~dkpfKCd~Cd~~c~~esdL~kH~-~~HS------~~~y~C~h~~C~~s~r~ 333 (467)
T KOG3608|consen 273 CSSASSLTTHIRY------------RHSKDKPFKCDECDTRCVRESDLAKHV-QVHS------KTVYQCEHPDCHYSVRT 333 (467)
T ss_pred CCChHHHHHHHHh------------hhccCCCccccchhhhhccHHHHHHHH-Hhcc------ccceecCCCCCcHHHHH
Confidence 9999999999997 56889999999999999887 99999 6885 22699987 9999999
Q ss_pred HHHHHhhHhhhcCCC---CCCCCCCCCCCCC
Q psy16775 230 YRQFENHVYSAHSVA---PRRPATDKKPQGQ 257 (306)
Q Consensus 230 ~~~L~~H~~~hh~~~---~~~~~~~~~~~~~ 257 (306)
...|++|++.+|.+. .+.++.+++-+.+
T Consensus 334 ~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~ 364 (467)
T KOG3608|consen 334 YTQMRRHFLEVHEGNNPILYACHCCDRFFTS 364 (467)
T ss_pred HHHHHHHHHHhccCCCCCceeeecchhhhcc
Confidence 999999999998432 3456666655443
No 9
>KOG3576|consensus
Probab=99.58 E-value=6.8e-16 Score=120.77 Aligned_cols=117 Identities=19% Similarity=0.211 Sum_probs=98.9
Q ss_pred CchhHHHHHHH--HHHHHHHHHhhcCCCCCCCCcccccCcccccccCcHHHHHHHHhcCCCCCCCCCCCCCCcccccCCC
Q psy16775 1 MFGSAAIQDVY--QWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQSTDPM 78 (306)
Q Consensus 1 ~~~~~~~~~~~--~~~l~~H~~~~H~~~~~~~~~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~~~~~~ 78 (306)
.|.|..|++.| +--|.+|| +.|..- +.|-|..||+.|....+|++|+++|+|.
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~-kch~~v-----kr~lct~cgkgfndtfdlkrh~rthtgv------------------- 171 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHL-KCHSDV-----KRHLCTFCGKGFNDTFDLKRHTRTHTGV------------------- 171 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHh-hhccHH-----HHHHHhhccCcccchhhhhhhhccccCc-------------------
Confidence 38899999998 45699999 999987 8999999999999999999999999886
Q ss_pred CCccccCCccccCCCCCCCCCCCCCCCCCcCCccCcCCCChHHHHHHHHHhccccc-cccccCCCCCccccccccccCCh
Q psy16775 79 LKPLKINDEITIIPQPPRPTASSSSSTSSSNNNKVKITPDLEQLRNHMQWIHKVKI-HPKMIYNRPPLNCQKCQFRFFTD 157 (306)
Q Consensus 79 ~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~-h~~~~~~~~~~~C~~C~~~f~~~ 157 (306)
+| |+|..|++.|.....|..|.+.+|++.. +--....++.|.|..||.+-...
T Consensus 172 -rp-------------------------ykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~ 225 (267)
T KOG3576|consen 172 -RP-------------------------YKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERP 225 (267)
T ss_pred -cc-------------------------cchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCCh
Confidence 22 5566999999999999999998998431 11111246789999999999999
Q ss_pred HHHHhHhhhcc
Q psy16775 158 QGLERHLLGSH 168 (306)
Q Consensus 158 ~~l~~H~~~~h 168 (306)
..+..|+..+|
T Consensus 226 e~~~~h~~~~h 236 (267)
T KOG3576|consen 226 EVYYLHLKLHH 236 (267)
T ss_pred hHHHHHHHhcC
Confidence 99999999766
No 10
>KOG3623|consensus
Probab=99.56 E-value=1.7e-15 Score=138.46 Aligned_cols=119 Identities=22% Similarity=0.421 Sum_probs=99.0
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcch-hhHHhhhcCCC
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTS-SMQEAANKGKD 184 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-~~~~~~h~~~~ 184 (306)
...|++|++.+.....|+.|++..|.+ .+..|.|..|.++|..+..|.+||.+|...-.. ..+ ..-...+
T Consensus 210 lltcpycdrgykrltslkeHikyrhek--------ne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sl-tqsa~lR 280 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEK--------NEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISL-TQSALLR 280 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhh--------CCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccc-cchhhhc
Confidence 578999999999999999999987762 567899999999999999999999976521110 000 0011246
Q ss_pred CcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhh
Q psy16775 185 GGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 185 ~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
.|+|..||+.|..+ |+.|+ ++|. |+|||.|+.|+++|+...++.-||-.
T Consensus 281 KFKCtECgKAFKfKHHLKEHl-RIHS-----GEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 281 KFKCTECGKAFKFKHHLKEHL-RIHS-----GEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred cccccccchhhhhHHHHHhhh-eeec-----CCCCcCCcccccccccCCcccccccc
Confidence 89999999999999 99999 9998 99999999999999999999999854
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.25 E-value=7.8e-12 Score=115.17 Aligned_cols=102 Identities=17% Similarity=0.346 Sum_probs=84.2
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCC
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDG 185 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~ 185 (306)
.+.|+.|++.|. ...|..|++.+|. ++.|+ |++.+ .+..|..|+. +|-..++
T Consensus 453 H~~C~~Cgk~f~-~s~LekH~~~~Hk------------pv~Cp-Cg~~~-~R~~L~~H~~-------------thCp~Kp 504 (567)
T PLN03086 453 HVHCEKCGQAFQ-QGEMEKHMKVFHE------------PLQCP-CGVVL-EKEQMVQHQA-------------STCPLRL 504 (567)
T ss_pred CccCCCCCCccc-hHHHHHHHHhcCC------------CccCC-CCCCc-chhHHHhhhh-------------ccCCCCc
Confidence 478999999996 6889999985554 89999 99755 6799999998 7788999
Q ss_pred cCCCcchhhhH-----------HH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhhhcCC
Q psy16775 186 GRCPVCGRVYQ-----------WK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHSV 243 (306)
Q Consensus 186 ~~C~~C~~~f~-----------~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~hh~~ 243 (306)
+.|..|++.|. .. |..|. ..+ |.+++.|..||+.|.. ..|..|+...|..
T Consensus 505 i~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE-~~C------G~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~~ 566 (567)
T PLN03086 505 ITCRFCGDMVQAGGSAMDVRDRLRGMSEHE-SIC------GSRTAPCDSCGRSVML-KEMDIHQIAVHQK 566 (567)
T ss_pred eeCCCCCCccccCccccchhhhhhhHHHHH-Hhc------CCcceEccccCCeeee-hhHHHHHHHhhcC
Confidence 99999999984 22 99998 554 6778999999998865 5688998877754
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.09 E-value=1.6e-10 Score=106.70 Aligned_cols=103 Identities=20% Similarity=0.284 Sum_probs=84.8
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCCCCCCCCCCCCCcccccCCCCCccccCCccccCCCCCCCCCCCCCCCCCcCCc
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQSTDPMLKPLKINDEITIIPQPPRPTASSSSSTSSSNNN 111 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~~ 111 (306)
..+.|+.|++.|. ...|..|++++|. ++.|+
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~Hk-----------------------------------------------pv~Cp- 482 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFHE-----------------------------------------------PLQCP- 482 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcCC-----------------------------------------------CccCC-
Confidence 5678999999885 6788899887652 27788
Q ss_pred cCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccC----------ChHHHHhHhhhccCCcchhhHHhhhc
Q psy16775 112 KVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFF----------TDQGLERHLLGSHGLVTSSMQEAANK 181 (306)
Q Consensus 112 C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~----------~~~~l~~H~~~~h~~~~~~~~~~~h~ 181 (306)
||..+ ....|..|+. .|. ..+++.|+.|++.|. ....|..|.. + -
T Consensus 483 Cg~~~-~R~~L~~H~~-thC---------p~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~-------------~-C 537 (567)
T PLN03086 483 CGVVL-EKEQMVQHQA-STC---------PLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHES-------------I-C 537 (567)
T ss_pred CCCCc-chhHHHhhhh-ccC---------CCCceeCCCCCCccccCccccchhhhhhhHHHHHH-------------h-c
Confidence 99755 6689999986 676 889999999999995 2458899988 4 3
Q ss_pred CCCCcCCCcchhhhHHH-HHHHHHhhcC
Q psy16775 182 GKDGGRCPVCGRVYQWK-LLNHVARDHN 208 (306)
Q Consensus 182 ~~~~~~C~~C~~~f~~~-l~~H~~~~H~ 208 (306)
+.+++.|..||+.+... |..|+...|.
T Consensus 538 G~rt~~C~~Cgk~Vrlrdm~~H~~~~h~ 565 (567)
T PLN03086 538 GSRTAPCDSCGRSVMLKEMDIHQIAVHQ 565 (567)
T ss_pred CCcceEccccCCeeeehhHHHHHHHhhc
Confidence 78999999999999999 9999977774
No 13
>PHA00733 hypothetical protein
Probab=99.09 E-value=5.9e-11 Score=89.73 Aligned_cols=85 Identities=22% Similarity=0.320 Sum_probs=68.2
Q ss_pred CCCCccccccccccCChHHHHhH--hhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCc
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERH--LLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHL 216 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H--~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k 216 (306)
..+++.|.+|.+.|.....|..| +..+. .+.++++|.|+.||+.|.+. |..|+ ..|. .
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~----------~~~~~kPy~C~~Cgk~Fss~s~L~~H~-r~h~-------~ 98 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLL----------TSKAVSPYVCPLCLMPFSSSVSLKQHI-RYTE-------H 98 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhc----------ccCCCCCccCCCCCCcCCCHHHHHHHH-hcCC-------c
Confidence 46789999999999888888877 33222 33457899999999999987 89998 5442 2
Q ss_pred ceecCccCcccCCHHHHHhhHhhhcCC
Q psy16775 217 SYKCTVCTATFGMYRQFENHVYSAHSV 243 (306)
Q Consensus 217 ~~~C~~C~~~f~~~~~L~~H~~~hh~~ 243 (306)
+|.|..|++.|.+...|.+|+...|+.
T Consensus 99 ~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 99 SKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 599999999999999999999988875
No 14
>KOG3993|consensus
Probab=98.99 E-value=9.3e-11 Score=101.77 Aligned_cols=128 Identities=20% Similarity=0.289 Sum_probs=95.1
Q ss_pred CCCcCCccCcCCCChHHHHHHHH--HhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchh--------
Q psy16775 105 TSSSNNNKVKITPDLEQLRNHMQ--WIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSS-------- 174 (306)
Q Consensus 105 ~~~~C~~C~~~f~~~~~l~~H~~--~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~-------- 174 (306)
+.|.|..|...|.+...|.+|.- ++| ..|+|+.|+|.|.-..+|..|.+||-.-....
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~------------vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k 333 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVH------------VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPK 333 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEE------------eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChh
Confidence 46999999999999999999972 233 26999999999999999999999997422111
Q ss_pred -h-------HHhh----hcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCC---------------------------
Q psy16775 175 -M-------QEAA----NKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKP--------------------------- 213 (306)
Q Consensus 175 -~-------~~~~----h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~--------------------------- 213 (306)
. ++.. ...+..|.|..|++.|.+. |+.|+..+|......
T Consensus 334 ~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a 413 (500)
T KOG3993|consen 334 QAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSA 413 (500)
T ss_pred hhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccccc
Confidence 0 0111 0223479999999999998 999984544221100
Q ss_pred -----------------------------------------CCcceecCccCcccCCHHHHHhhHhhhcCCC
Q psy16775 214 -----------------------------------------AHLSYKCTVCTATFGMYRQFENHVYSAHSVA 244 (306)
Q Consensus 214 -----------------------------------------~~k~~~C~~C~~~f~~~~~L~~H~~~hh~~~ 244 (306)
.+..|.|.+|...|....+|.+|+...|...
T Consensus 414 ~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 414 SDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred ccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 1235899999999999999999998766543
No 15
>PHA00733 hypothetical protein
Probab=98.98 E-value=2.4e-10 Score=86.45 Aligned_cols=84 Identities=20% Similarity=0.370 Sum_probs=67.6
Q ss_pred CCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCC
Q psy16775 105 TSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKD 184 (306)
Q Consensus 105 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~ 184 (306)
+++.|.+|.+.|.+...|..+.- .. .|+.. .++++|.|+.|++.|.+...|..|++ ++ +.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~-l~---~~~~~-~~~kPy~C~~Cgk~Fss~s~L~~H~r-------------~h--~~ 98 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSY-LY---KLLTS-KAVSPYVCPLCLMPFSSSVSLKQHIR-------------YT--EH 98 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHH-HH---hhccc-CCCCCccCCCCCCcCCCHHHHHHHHh-------------cC--Cc
Confidence 56889999999999888888732 11 11111 25789999999999999999999998 43 35
Q ss_pred CcCCCcchhhhHHH--HHHHHHhhcC
Q psy16775 185 GGRCPVCGRVYQWK--LLNHVARDHN 208 (306)
Q Consensus 185 ~~~C~~C~~~f~~~--l~~H~~~~H~ 208 (306)
+|.|+.|++.|... |.+|+...|.
T Consensus 99 ~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 99 SKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CccCCCCCCccCCHHHHHHHHHHhcC
Confidence 79999999999988 9999988775
No 16
>KOG3993|consensus
Probab=98.67 E-value=5.2e-09 Score=91.12 Aligned_cols=26 Identities=23% Similarity=0.501 Sum_probs=21.2
Q ss_pred CCCcCCCcchhhhHHH--HHHHHHhhcC
Q psy16775 183 KDGGRCPVCGRVYQWK--LLNHVARDHN 208 (306)
Q Consensus 183 ~~~~~C~~C~~~f~~~--l~~H~~~~H~ 208 (306)
+..|.|.+|...|.+. |.+|+..-|.
T Consensus 456 ~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 456 EQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred hhccccccchHhhhcCcchHhHhhhcCh
Confidence 4468899999999887 9999966664
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.63 E-value=1.5e-08 Score=63.33 Aligned_cols=44 Identities=11% Similarity=0.069 Sum_probs=38.2
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHH
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLE 161 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~ 161 (306)
.|.|+.||+.|...++|..||+ .|. ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r-~H~-----------k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLR-KHN-----------TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHH-hcC-----------CcccCCcccceecccceeE
Confidence 4899999999999999999998 443 4899999999999877664
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.58 E-value=2.3e-08 Score=62.43 Aligned_cols=40 Identities=15% Similarity=0.321 Sum_probs=33.7
Q ss_pred CccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH
Q psy16775 144 PLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK 198 (306)
Q Consensus 144 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~ 198 (306)
-|.|+.||+.|...+.|..|++ +|+ ++|+|..|++.|...
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r-------------~H~--k~~kc~~C~k~f~~~ 44 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLR-------------KHN--TNLKLSNCKRISLRT 44 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHH-------------hcC--CcccCCcccceeccc
Confidence 4899999999999999999999 555 688888888887654
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=98.39 E-value=2.1e-07 Score=49.59 Aligned_cols=26 Identities=35% Similarity=0.704 Sum_probs=23.3
Q ss_pred HHHHHHHhhcCCCCCCCCcccccCcccccccC
Q psy16775 14 KLLNHVARDHNMSLKPAHLSYKCTVCTATFGM 45 (306)
Q Consensus 14 ~l~~H~~~~H~~~~~~~~~~y~C~~C~~~f~~ 45 (306)
+|++|| +.|+++ +||.|+.|++.|.+
T Consensus 1 ~l~~H~-~~H~~~-----k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHM-RTHTGE-----KPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHH-HHHSSS-----SSEEESSSSEEESS
T ss_pred CHHHHh-hhcCCC-----CCCCCCCCcCeeCc
Confidence 589999 789988 99999999999963
No 20
>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=98.34 E-value=4.7e-07 Score=57.68 Aligned_cols=52 Identities=23% Similarity=0.574 Sum_probs=43.0
Q ss_pred CcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhhhcC
Q psy16775 185 GGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 185 ~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~hh~ 242 (306)
.|.|++|++.|... |..|+...|... .+.+.|++|...+. .+|.+|+..+|+
T Consensus 2 ~f~CP~C~~~~~~~~L~~H~~~~H~~~----~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSLVEHCEDEHRSE----SKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCccCHHHHHHHHHhHCcCC----CCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 48999999987777 999998888743 23699999998765 499999998774
No 21
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.31 E-value=4.1e-07 Score=48.43 Aligned_cols=24 Identities=38% Similarity=0.840 Sum_probs=16.0
Q ss_pred HHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 199 LLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 199 l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
|.+|+ +.|+ |++||.|+.|++.|.
T Consensus 2 l~~H~-~~H~-----~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHM-RTHT-----GEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHH-HHHS-----SSSSEEESSSSEEES
T ss_pred HHHHh-hhcC-----CCCCCCCCCCcCeeC
Confidence 56676 4566 666777777777765
No 22
>PHA00616 hypothetical protein
Probab=98.28 E-value=3.6e-07 Score=54.32 Aligned_cols=31 Identities=23% Similarity=0.463 Sum_probs=28.1
Q ss_pred ccccCcccccccCcHHHHHHHHhcCCCCCCC
Q psy16775 33 SYKCTVCTATFGMYRQFENHVYSAHSVAPRR 63 (306)
Q Consensus 33 ~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~ 63 (306)
||+|..||+.|..+++|..|++.||+++++.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~ 31 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLT 31 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccc
Confidence 6999999999999999999999999975543
No 23
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.25 E-value=2e-06 Score=54.81 Aligned_cols=52 Identities=25% Similarity=0.233 Sum_probs=42.6
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhcc
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSH 168 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 168 (306)
.|.|+.|++ ..+...|..|....|. .+.+.+.|++|...+. .+|..|+..+|
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~--------~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHR--------SESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCc--------CCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 488999999 5667899999988887 2456799999998765 49999998655
No 24
>PHA00732 hypothetical protein
Probab=98.19 E-value=1.2e-06 Score=60.09 Aligned_cols=45 Identities=20% Similarity=0.207 Sum_probs=38.7
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhh
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLL 165 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 165 (306)
+|.|+.|++.|.+...|..|++.+|. ++.|+.|++.|. .|..|++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~------------~~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT------------LTKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC------------CCccCCCCCEeC---Chhhhhc
Confidence 37899999999999999999974454 468999999998 5888887
No 25
>PHA00732 hypothetical protein
Probab=98.13 E-value=8e-07 Score=60.98 Aligned_cols=44 Identities=34% Similarity=0.729 Sum_probs=36.7
Q ss_pred CcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhh
Q psy16775 185 GGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 185 ~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
||.|+.||+.|.+. |+.|++..|. ++.|+.||+.|. .|..|+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--------~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--------LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--------CCccCCCCCEeC---Chhhhhcc
Confidence 68999999999987 9999944565 368999999997 58888854
No 26
>PHA00616 hypothetical protein
Probab=98.11 E-value=1.3e-06 Score=51.87 Aligned_cols=34 Identities=18% Similarity=0.253 Sum_probs=29.7
Q ss_pred CccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCc
Q psy16775 144 PLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPV 190 (306)
Q Consensus 144 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~ 190 (306)
||+|+.||+.|..++.|..|++ .|.+++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r-------------~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLL-------------SVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHH-------------HhcCCCccceeE
Confidence 6899999999999999999999 555678888764
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.96 E-value=5.2e-06 Score=42.80 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=21.2
Q ss_pred eecCccCcccCCHHHHHhhHhhh
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSA 240 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~h 240 (306)
|.|+.|++.|.++..|.+|++.|
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 78999999999999999999873
No 28
>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=97.87 E-value=1.1e-05 Score=41.89 Aligned_cols=24 Identities=21% Similarity=0.728 Sum_probs=20.4
Q ss_pred eecCccCcccCCHHHHHhhHhhhc
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSAH 241 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~hh 241 (306)
|.|++|++.|.+...|..|+.++|
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 789999999999999999999876
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=97.85 E-value=9.2e-06 Score=41.85 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=21.5
Q ss_pred cccCcccccccCcHHHHHHHHhc
Q psy16775 34 YKCTVCTATFGMYRQFENHVYSA 56 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~~h 56 (306)
|.|+.|++.|.++..|..|++.|
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 78999999999999999999873
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.85 E-value=5e-06 Score=70.22 Aligned_cols=56 Identities=23% Similarity=0.555 Sum_probs=45.2
Q ss_pred CCCcCCCc--chhhhHHH--HHHHHHhhcCCC-------------CCCCCcceecCccCcccCCHHHHHhhHh
Q psy16775 183 KDGGRCPV--CGRVYQWK--LLNHVARDHNMS-------------LKPAHLSYKCTVCTATFGMYRQFENHVY 238 (306)
Q Consensus 183 ~~~~~C~~--C~~~f~~~--l~~H~~~~H~~~-------------~~~~~k~~~C~~C~~~f~~~~~L~~H~~ 238 (306)
++||+|++ |++.|.+. |+.|+.--|... .....|||.|.+|+++|+....|+.|..
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 58999976 99999998 999995555221 1124589999999999999999999964
No 31
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.75 E-value=0.00042 Score=59.51 Aligned_cols=27 Identities=26% Similarity=0.664 Sum_probs=22.1
Q ss_pred ccccCc--ccccccCcHHHHHHHHhcCCC
Q psy16775 33 SYKCTV--CTATFGMYRQFENHVYSAHSV 59 (306)
Q Consensus 33 ~y~C~~--C~~~f~~~~~L~~H~~~hh~~ 59 (306)
.|.|+. |.........|..|.+..|+.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~ 179 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF 179 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc
Confidence 588875 788777789999999988864
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=97.73 E-value=2.3e-05 Score=40.61 Aligned_cols=24 Identities=21% Similarity=0.728 Sum_probs=20.7
Q ss_pred cccCcccccccCcHHHHHHHHhcC
Q psy16775 34 YKCTVCTATFGMYRQFENHVYSAH 57 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~~hh 57 (306)
|.|++|++.|.+...|..|++++|
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 789999999999999999999876
No 33
>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=97.69 E-value=2.5e-05 Score=41.95 Aligned_cols=26 Identities=27% Similarity=0.546 Sum_probs=23.6
Q ss_pred ceecCccCcccCCHHHHHhhHhhhcC
Q psy16775 217 SYKCTVCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 217 ~~~C~~C~~~f~~~~~L~~H~~~hh~ 242 (306)
+|.|..|++.|.+...|..|++.|+.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 58999999999999999999988764
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=97.65 E-value=2.5e-05 Score=41.95 Aligned_cols=26 Identities=27% Similarity=0.546 Sum_probs=23.9
Q ss_pred ccccCcccccccCcHHHHHHHHhcCC
Q psy16775 33 SYKCTVCTATFGMYRQFENHVYSAHS 58 (306)
Q Consensus 33 ~y~C~~C~~~f~~~~~L~~H~~~hh~ 58 (306)
||.|..|++.|.+...|..|++.|++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 69999999999999999999988764
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.57 E-value=3.9e-05 Score=55.46 Aligned_cols=60 Identities=17% Similarity=0.280 Sum_probs=21.6
Q ss_pred cCCccCcCCCChHHHHHHHHHhccccccc--------cc--c---CCCCCccccccccccCChHHHHhHhhhc
Q psy16775 108 SNNNKVKITPDLEQLRNHMQWIHKVKIHP--------KM--I---YNRPPLNCQKCQFRFFTDQGLERHLLGS 167 (306)
Q Consensus 108 ~C~~C~~~f~~~~~l~~H~~~~H~~~~h~--------~~--~---~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 167 (306)
.|..|+..|.+...|..||...|++.... +. . .....+.|.+|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 48899999999999999998888832210 00 0 1123599999999999999999999964
No 36
>KOG2231|consensus
Probab=97.51 E-value=0.00082 Score=63.64 Aligned_cols=94 Identities=23% Similarity=0.382 Sum_probs=55.4
Q ss_pred CcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcch
Q psy16775 113 VKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCG 192 (306)
Q Consensus 113 ~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~ 192 (306)
....-+...|.+|++ .-.- -.+.+.| --.|..|...|.....|.+|++.+| |.|..|.
T Consensus 156 e~k~Yt~~el~~h~~-~gd~--d~~s~rG--hp~C~~C~~~fld~~el~rH~~~~h-----------------~~chfC~ 213 (669)
T KOG2231|consen 156 ERKLYTRAELNLHLM-FGDP--DDESCRG--HPLCKFCHERFLDDDELYRHLRFDH-----------------EFCHFCD 213 (669)
T ss_pred eeehehHHHHHHHHh-cCCC--ccccccC--CccchhhhhhhccHHHHHHhhccce-----------------eheeecC
Confidence 334445677888875 2110 0011111 3578999999999999999999655 7787774
Q ss_pred -----hhhHH-H--HHHHHHhhcCCCCCCCCcceecC--ccCc-ccCCHHHHHhhHh
Q psy16775 193 -----RVYQW-K--LLNHVARDHNMSLKPAHLSYKCT--VCTA-TFGMYRQFENHVY 238 (306)
Q Consensus 193 -----~~f~~-~--l~~H~~~~H~~~~~~~~k~~~C~--~C~~-~f~~~~~L~~H~~ 238 (306)
..|.. . |..|.+..| |.|. .|-- .|.....+..|++
T Consensus 214 ~~~~~neyy~~~~dLe~HfR~~H----------flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 214 YKTGQNEYYNDYDDLEEHFRKGH----------FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred cccccchhcccchHHHHHhhhcC----------ccccccccccceeeehhHHHHHHH
Confidence 22222 2 999996666 7776 5533 3333334444443
No 37
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.51 E-value=7.4e-05 Score=53.97 Aligned_cols=73 Identities=25% Similarity=0.431 Sum_probs=22.0
Q ss_pred cccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccC
Q psy16775 146 NCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCT 224 (306)
Q Consensus 146 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~ 224 (306)
+|.+|+..|.+...|..|+...|++... ......... +..++...- ...+.|.+|+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----------------~~~~l~~~~~~~~~~~~~~-------~~~~~C~~C~ 57 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----------------DQKYLVDPNRLLNYLRKKV-------KESFRCPYCN 57 (100)
T ss_dssp -----------------------------------------------------------------------SSEEBSSSS
T ss_pred Cccccccccccccccccccccccccccc----------------ccccccccccccccccccc-------CCCCCCCccC
Confidence 5999999999999999999976642211 000111111 333431111 1149999999
Q ss_pred cccCCHHHHHhhHhhhc
Q psy16775 225 ATFGMYRQFENHVYSAH 241 (306)
Q Consensus 225 ~~f~~~~~L~~H~~~hh 241 (306)
+.|.+...|..||+.++
T Consensus 58 ~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 58 KTFRSREALQEHMRSKH 74 (100)
T ss_dssp -EESSHHHHHHHHHHTT
T ss_pred CCCcCHHHHHHHHcCcc
Confidence 99999999999999753
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.33 E-value=8.8e-05 Score=62.88 Aligned_cols=23 Identities=26% Similarity=0.650 Sum_probs=21.9
Q ss_pred cccccCc--ccccccCcHHHHHHHH
Q psy16775 32 LSYKCTV--CTATFGMYRQFENHVY 54 (306)
Q Consensus 32 ~~y~C~~--C~~~f~~~~~L~~H~~ 54 (306)
|||+|++ |.+.|++...|+-|+.
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhh
Confidence 8999987 9999999999999986
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.15 E-value=0.00033 Score=36.34 Aligned_cols=24 Identities=25% Similarity=0.613 Sum_probs=19.5
Q ss_pred eecCccCcccCCHHHHHhhHhhhcC
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~hh~ 242 (306)
|+|+.|++... ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999999988 9999999998874
No 40
>KOG2231|consensus
Probab=97.07 E-value=0.00087 Score=63.47 Aligned_cols=105 Identities=25% Similarity=0.442 Sum_probs=72.0
Q ss_pred cCCccCcCCCChHHHHHHHHHhccccccccccCCCCCcccccc---------ccccCChHHHHhHhhhccCCcchhhHHh
Q psy16775 108 SNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKC---------QFRFFTDQGLERHLLGSHGLVTSSMQEA 178 (306)
Q Consensus 108 ~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C---------~~~f~~~~~l~~H~~~~h~~~~~~~~~~ 178 (306)
.|..| ..|.....|+.|+...|. .+.|.+| .....++..|..|++.--- .+.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~------------~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~------d~~ 177 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK------------LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP------DDE 177 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh------------hhccccccccceeeeeeeehehHHHHHHHHhcCCC------ccc
Confidence 34445 455588999999977777 4555554 3345678889999883110 001
Q ss_pred hhcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccC------cccCCHHHHHhhHhhhcCC
Q psy16775 179 ANKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCT------ATFGMYRQFENHVYSAHSV 243 (306)
Q Consensus 179 ~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~------~~f~~~~~L~~H~~~hh~~ 243 (306)
.+.| --.|..|...|... |.+|++..| |.|.+|+ .-|.....|..|.+..|-.
T Consensus 178 s~rG--hp~C~~C~~~fld~~el~rH~~~~h----------~~chfC~~~~~~neyy~~~~dLe~HfR~~Hfl 238 (669)
T KOG2231|consen 178 SCRG--HPLCKFCHERFLDDDELYRHLRFDH----------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHFL 238 (669)
T ss_pred cccC--CccchhhhhhhccHHHHHHhhccce----------eheeecCcccccchhcccchHHHHHhhhcCcc
Confidence 1122 24799999998877 999995555 7888884 4577889999999988853
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.03 E-value=0.00066 Score=41.35 Aligned_cols=32 Identities=22% Similarity=0.442 Sum_probs=23.2
Q ss_pred CCcceecCccCcccCCHHHHHhhHhhhcCCCC
Q psy16775 214 AHLSYKCTVCTATFGMYRQFENHVYSAHSVAP 245 (306)
Q Consensus 214 ~~k~~~C~~C~~~f~~~~~L~~H~~~hh~~~~ 245 (306)
.+.|-.|++|+..+.+..+|++|+...|+..+
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 55689999999999999999999998887653
No 42
>KOG1146|consensus
Probab=96.89 E-value=0.0005 Score=68.83 Aligned_cols=116 Identities=15% Similarity=0.231 Sum_probs=75.4
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCCCCC-CCCCCCCCcccccCCCCCccccCCccccCCCCCCCCCCCCCCCCCcCC
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSVAPR-RPATDKKPQGQSTDPMLKPLKINDEITIIPQPPRPTASSSSSTSSSNN 110 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~-~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~ 110 (306)
+.|+|+.|++.|.....|..|||+.|.+... .|..+.. -.....+..|.| ....|.|.
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~---~~~~arg~~~~~------------------~~~p~~C~ 522 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQN---HPRLARGEVYRC------------------PGKPYPCR 522 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccchhHhHhccc---cccccccccccC------------------CCCcccce
Confidence 8999999999999999999999987654221 0000000 000111122222 23469999
Q ss_pred ccCcCCCChHHHHHHHHHh-cc---------cccccccc-----------------------CCCCCccccccccccCCh
Q psy16775 111 NKVKITPDLEQLRNHMQWI-HK---------VKIHPKMI-----------------------YNRPPLNCQKCQFRFFTD 157 (306)
Q Consensus 111 ~C~~~f~~~~~l~~H~~~~-H~---------~~~h~~~~-----------------------~~~~~~~C~~C~~~f~~~ 157 (306)
.|...+....+|.+|++.- |. ...+++.+ ...-.+.|.+|++...-.
T Consensus 523 ~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetnia 602 (1406)
T KOG1146|consen 523 ACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIA 602 (1406)
T ss_pred eeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhh
Confidence 9999999999999999622 21 01111111 112348999999999999
Q ss_pred HHHHhHhhhcc
Q psy16775 158 QGLERHLLGSH 168 (306)
Q Consensus 158 ~~l~~H~~~~h 168 (306)
.+|+.||...+
T Consensus 603 rnlrihmtss~ 613 (1406)
T KOG1146|consen 603 RNLRIHMTASP 613 (1406)
T ss_pred hccccccccCC
Confidence 99999988643
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.86 E-value=0.00077 Score=35.23 Aligned_cols=23 Identities=22% Similarity=0.621 Sum_probs=20.7
Q ss_pred eecCccCcccCCHHHHHhhHhhh
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSA 240 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~h 240 (306)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57999999999999999999854
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.85 E-value=0.00087 Score=35.03 Aligned_cols=23 Identities=22% Similarity=0.621 Sum_probs=21.3
Q ss_pred cccCcccccccCcHHHHHHHHhc
Q psy16775 34 YKCTVCTATFGMYRQFENHVYSA 56 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~~h 56 (306)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 68999999999999999999865
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.70 E-value=0.00098 Score=34.50 Aligned_cols=24 Identities=25% Similarity=0.613 Sum_probs=19.8
Q ss_pred cccCcccccccCcHHHHHHHHhcCC
Q psy16775 34 YKCTVCTATFGMYRQFENHVYSAHS 58 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~~hh~ 58 (306)
|+|+.|+.... ...|..|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999999998 9999999998764
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=96.67 E-value=0.0013 Score=40.04 Aligned_cols=30 Identities=23% Similarity=0.454 Sum_probs=22.6
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCCCC
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSVAP 61 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~ 61 (306)
.|-.|++|+..+....+|.+|+...|+.+|
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 789999999999999999999999998644
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.55 E-value=0.0012 Score=34.46 Aligned_cols=23 Identities=22% Similarity=0.658 Sum_probs=21.0
Q ss_pred cccCcccccccCcHHHHHHHHhc
Q psy16775 34 YKCTVCTATFGMYRQFENHVYSA 56 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~~h 56 (306)
|.|.+|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 78999999999999999999753
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.54 E-value=0.0017 Score=33.90 Aligned_cols=23 Identities=22% Similarity=0.658 Sum_probs=20.7
Q ss_pred eecCccCcccCCHHHHHhhHhhh
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSA 240 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~h 240 (306)
|.|.+|+..|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999998753
No 49
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.11 E-value=0.0036 Score=33.40 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=20.4
Q ss_pred eecCccCcccCCHHHHHhhHhh
Q psy16775 218 YKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
|.|.+|++.|.+...|..|++.
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 7899999999999999999865
No 50
>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=95.74 E-value=0.0058 Score=32.56 Aligned_cols=22 Identities=23% Similarity=0.634 Sum_probs=18.9
Q ss_pred ccccccccccCChHHHHhHhhh
Q psy16775 145 LNCQKCQFRFFTDQGLERHLLG 166 (306)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~ 166 (306)
|.|..|++.|.+...|..|+++
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 6789999999999999988873
No 51
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.69 E-value=0.0068 Score=52.34 Aligned_cols=26 Identities=19% Similarity=0.164 Sum_probs=19.6
Q ss_pred CCcCC--ccCcCCCChHHHHHHHHHhcc
Q psy16775 106 SSSNN--NKVKITPDLEQLRNHMQWIHK 131 (306)
Q Consensus 106 ~~~C~--~C~~~f~~~~~l~~H~~~~H~ 131 (306)
.|.|+ .|.........|+.|.+..|.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~ 178 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG 178 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC
Confidence 36664 477777778899999987776
No 52
>KOG1146|consensus
Probab=95.59 E-value=0.0052 Score=61.90 Aligned_cols=82 Identities=20% Similarity=0.255 Sum_probs=61.4
Q ss_pred ccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhcCCCCC------------
Q psy16775 147 CQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDHNMSLK------------ 212 (306)
Q Consensus 147 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~------------ 212 (306)
|..|+..+.++..+..|+.. .+.-.+.|.|+.|+-.|... |..||+..|.....
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~------------L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~ 506 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVV------------LHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRL 506 (1406)
T ss_pred ccchhhhhhhhcccccceee------------eecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccc
Confidence 44455566666666666653 45666899999999999998 99999775543211
Q ss_pred -------CCCcceecCccCcccCCHHHHHhhHhhh
Q psy16775 213 -------PAHLSYKCTVCTATFGMYRQFENHVYSA 240 (306)
Q Consensus 213 -------~~~k~~~C~~C~~~f~~~~~L~~H~~~h 240 (306)
-+.++|.|..|...|....+|.+|+..-
T Consensus 507 arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~ 541 (1406)
T KOG1146|consen 507 ARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSD 541 (1406)
T ss_pred cccccccCCCCcccceeeeeeeecchHHHHHHHHH
Confidence 1456899999999999999999998763
No 53
>KOG4173|consensus
Probab=95.50 E-value=0.0083 Score=47.96 Aligned_cols=83 Identities=28% Similarity=0.517 Sum_probs=53.7
Q ss_pred CCccccc--cccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhcCC-----CCCC
Q psy16775 143 PPLNCQK--CQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDHNM-----SLKP 213 (306)
Q Consensus 143 ~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H~~-----~~~~ 213 (306)
+.|.|++ |-..|.....+..|-.+-| .-.|.+|.+.|.+. |..|+...|.. .++
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h----------------~~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veR- 140 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLH----------------GNSCSFCKRAFPTGHLLDAHILEWHDSLFQALVER- 140 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcc----------------cchhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHc-
Confidence 4466766 6667777666666665433 24677777777776 67776555521 111
Q ss_pred CCcceecC--ccCcccCCHHHHHhhHhhhcC
Q psy16775 214 AHLSYKCT--VCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 214 ~~k~~~C~--~C~~~f~~~~~L~~H~~~hh~ 242 (306)
|.-.|+|- -|+..|.+...-+.|+-..|.
T Consensus 141 G~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 141 GQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred CccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 44578884 488889888888888766554
No 54
>KOG2482|consensus
Probab=95.28 E-value=0.021 Score=49.37 Aligned_cols=61 Identities=18% Similarity=0.345 Sum_probs=45.7
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhcc-----------cccccccc------CCCCCccccccccccCChHHHHhHhhh
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHK-----------VKIHPKMI------YNRPPLNCQKCQFRFFTDQGLERHLLG 166 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~-----------~~~h~~~~------~~~~~~~C~~C~~~f~~~~~l~~H~~~ 166 (306)
...|-.|.....+...|..||+.+|. +..++++. .....-.|-.|+-.|.....|..||-.
T Consensus 279 ~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 279 SVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred ceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 37899999999999999999999987 11111110 122345788899999999999999873
No 55
>PRK04860 hypothetical protein; Provisional
Probab=95.27 E-value=0.0071 Score=47.54 Aligned_cols=37 Identities=27% Similarity=0.508 Sum_probs=23.5
Q ss_pred CcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccCC
Q psy16775 185 GGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGM 229 (306)
Q Consensus 185 ~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~ 229 (306)
+|.|. |+. ....+++|. ++|. ++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~-~~~~~rrH~-ri~~-----g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE-HQLTVRRHN-RVVR-----GEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC-eeCHHHHHH-HHhc-----CCccEECCCCCceeEE
Confidence 57776 766 222366776 6666 6666777777776654
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.39 E-value=0.033 Score=29.02 Aligned_cols=21 Identities=24% Similarity=0.515 Sum_probs=14.8
Q ss_pred eecCccCcccCCHHHHHhhHhh
Q psy16775 218 YKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
..|+.||+.| ....|.+|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4677888887 56777777653
No 57
>KOG2482|consensus
Probab=94.17 E-value=0.1 Score=45.31 Aligned_cols=22 Identities=27% Similarity=0.208 Sum_probs=19.3
Q ss_pred CCcCCccCcCCCChHHHHHHHH
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQ 127 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~ 127 (306)
++.|-.|.+.|+.+..|+.||+
T Consensus 195 r~~CLyCekifrdkntLkeHMr 216 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMR 216 (423)
T ss_pred hheeeeeccccCCcHHHHHHHH
Confidence 5778899999999999999997
No 58
>PRK04860 hypothetical protein; Provisional
Probab=93.91 E-value=0.022 Score=44.76 Aligned_cols=38 Identities=11% Similarity=0.249 Sum_probs=32.0
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCCh
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTD 157 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~ 157 (306)
.|.|. |+. ....+.+|.+ .|. ++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~r-i~~---------g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNR-VVR---------GEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHH-Hhc---------CCccEECCCCCceeEEe
Confidence 59998 998 6678899997 776 88999999999998654
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.79 E-value=0.059 Score=28.07 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=18.4
Q ss_pred ccccCcccccccCcHHHHHHHHh
Q psy16775 33 SYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 33 ~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
...|+.||+.| ....|..|+..
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHHHh
Confidence 36799999999 77899999864
No 60
>KOG2186|consensus
Probab=93.64 E-value=0.031 Score=46.36 Aligned_cols=47 Identities=21% Similarity=0.410 Sum_probs=41.0
Q ss_pred CchhHHHHHHH-HHHHHHHHHhhcCCCCCCCCcccccCcccccccCcHHHHHHHHh
Q psy16775 1 MFGSAAIQDVY-QWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 1 ~~~~~~~~~~~-~~~l~~H~~~~H~~~~~~~~~~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
||.|..||+.- +..|.+|+.++++ .-|.|..|+..|.. .++..|..-
T Consensus 3 ~FtCnvCgEsvKKp~vekH~srCrn-------~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQVEKHMSRCRN-------AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhhhhhccccchHHHHHhccC-------CeeEEeeccccccc-chhhhhhhh
Confidence 69999999988 5789999988888 36999999999998 888888753
No 61
>KOG2785|consensus
Probab=93.51 E-value=0.17 Score=44.72 Aligned_cols=134 Identities=16% Similarity=0.291 Sum_probs=89.5
Q ss_pred CCcCCccCcCCCChHHHHHHHHHh-cc--ccc------------------------cccccCCCCCccccccccccCChH
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWI-HK--VKI------------------------HPKMIYNRPPLNCQKCQFRFFTDQ 158 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~-H~--~~~------------------------h~~~~~~~~~~~C~~C~~~f~~~~ 158 (306)
.|.|.-|...|.+...-+.|+++- |. |+. -+......-++.|.+|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 588999999999999899998622 22 000 000113456799999999999999
Q ss_pred HHHhHhhhccCCcch---------------hh---------------H---------------------Hhh------hc
Q psy16775 159 GLERHLLGSHGLVTS---------------SM---------------Q---------------------EAA------NK 181 (306)
Q Consensus 159 ~l~~H~~~~h~~~~~---------------~~---------------~---------------------~~~------h~ 181 (306)
....|+..--..... ++ . +.+ -.
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 999988753221100 00 0 000 00
Q ss_pred CCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCC--------------C---CcceecCccC---cccCCHHHHHhhHhh
Q psy16775 182 GKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKP--------------A---HLSYKCTVCT---ATFGMYRQFENHVYS 239 (306)
Q Consensus 182 ~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~--------------~---~k~~~C~~C~---~~f~~~~~L~~H~~~ 239 (306)
...|-.|-.|++.+.+. -..||...|..-... | ..-|.|-.|+ +.|.+.-+.+.||..
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 11246799999999887 888998888653321 1 1248899999 999999999999964
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=93.31 E-value=0.056 Score=30.54 Aligned_cols=24 Identities=25% Similarity=0.480 Sum_probs=21.5
Q ss_pred cccccCcccccccCcHHHHHHHHh
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
.+|.|..|+..|.+...+..|++.
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHCh
Confidence 369999999999999999999864
No 63
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.18 E-value=0.072 Score=30.05 Aligned_cols=23 Identities=26% Similarity=0.564 Sum_probs=20.6
Q ss_pred ceecCccCcccCCHHHHHhhHhh
Q psy16775 217 SYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 217 ~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
+|.|++|+..|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 48899999999999999999864
No 64
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.98 E-value=0.043 Score=34.06 Aligned_cols=29 Identities=24% Similarity=0.495 Sum_probs=19.5
Q ss_pred CCcceecCccCcccCCHHHHHhhHhhhcC
Q psy16775 214 AHLSYKCTVCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 214 ~~k~~~C~~C~~~f~~~~~L~~H~~~hh~ 242 (306)
||-.+.|+.||..|....+..+|+...|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 55566777777777777777777666554
No 65
>KOG4173|consensus
Probab=92.74 E-value=0.06 Score=43.20 Aligned_cols=87 Identities=22% Similarity=0.382 Sum_probs=67.8
Q ss_pred CCcCC--ccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCC
Q psy16775 106 SSSNN--NKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGK 183 (306)
Q Consensus 106 ~~~C~--~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~ 183 (306)
.|.|+ -|...|.+...+..|....|+ -.|..|.+.|.+..-|..|+...|...+ +..+-.|.
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~-------------~sCs~C~r~~Pt~hLLd~HI~E~HDs~F---qa~veRG~ 142 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG-------------NSCSFCKRAFPTGHLLDAHILEWHDSLF---QALVERGQ 142 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc-------------chhHHHHHhCCchhhhhHHHHHHHHHHH---HHHHHcCc
Confidence 47775 477899999988899876665 4899999999999999999987652221 22355567
Q ss_pred CCcCC--CcchhhhHHH--HHHHHHhhcC
Q psy16775 184 DGGRC--PVCGRVYQWK--LLNHVARDHN 208 (306)
Q Consensus 184 ~~~~C--~~C~~~f~~~--l~~H~~~~H~ 208 (306)
..|+| +.|+..|.+. -++|+-..|.
T Consensus 143 dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 143 DMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred cHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 78999 5699999987 8899877775
No 66
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=91.25 E-value=0.086 Score=32.77 Aligned_cols=30 Identities=27% Similarity=0.516 Sum_probs=26.7
Q ss_pred CCCCCccccccccccCChHHHHhHhhhccC
Q psy16775 140 YNRPPLNCQKCQFRFFTDQGLERHLLGSHG 169 (306)
Q Consensus 140 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 169 (306)
.++.-+.|+.|+..|.......+|+...||
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 478889999999999999999999997775
No 67
>KOG2186|consensus
Probab=89.39 E-value=0.18 Score=42.00 Aligned_cols=49 Identities=27% Similarity=0.476 Sum_probs=39.2
Q ss_pred CcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhhhc
Q psy16775 185 GGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAH 241 (306)
Q Consensus 185 ~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~hh 241 (306)
-|.|.+||.+..-. |-+|+.+-+. .-|.|-.|+..|.+ .+.+.|..--.
T Consensus 3 ~FtCnvCgEsvKKp~vekH~srCrn-------~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQVEKHMSRCRN-------AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred EEehhhhhhhccccchHHHHHhccC-------CeeEEeeccccccc-chhhhhhhhcc
Confidence 38999999998888 9999955443 24999999999987 77888876543
No 68
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=89.09 E-value=0.58 Score=34.27 Aligned_cols=94 Identities=19% Similarity=0.260 Sum_probs=48.4
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCCCCCCCCCCCCCccccc--CCCCCccccCCccccCCCCCCCCCCCCCCCCCcC
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSVAPRRPATDKKPQGQST--DPMLKPLKINDEITIIPQPPRPTASSSSSTSSSN 109 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~~~~~~~~~~~~~~~~~--~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C 109 (306)
+...|..|+....- +++..|++..|....... .+...... .....+.. ........+..+..-......|.|
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~---~~~i~~~~~~~~~l~~~~--~~~~~p~~~~~Pi~gLp~~~G~~C 83 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQE---RQRIVEAIRQWPDLLPDP--DDLQIPPDPSPPIPGLPVYDGYRC 83 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHH---HHHHHHHHHhhhhcccCc--cccCCCCCCCCcCCCCCCCCCeee
Confidence 67889999998776 999999996553311000 00000000 00000000 000000111111111222346889
Q ss_pred ----CccCcCCCChHHHHHHHHHhcc
Q psy16775 110 ----NNKVKITPDLEQLRNHMQWIHK 131 (306)
Q Consensus 110 ----~~C~~~f~~~~~l~~H~~~~H~ 131 (306)
..|+..+.+...+.+|++.+|+
T Consensus 84 ~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 84 QCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred ecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999987764
No 69
>KOG2785|consensus
Probab=88.59 E-value=1.1 Score=39.75 Aligned_cols=60 Identities=18% Similarity=0.103 Sum_probs=46.4
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhcccccccccc-------------CCCCCccccccc---cccCChHHHHhHhh
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMI-------------YNRPPLNCQKCQ---FRFFTDQGLERHLL 165 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~-------------~~~~~~~C~~C~---~~f~~~~~l~~H~~ 165 (306)
+-.|-.|++.+.+...-..||...|+.-.-.+.- .-..-|.|-.|+ +.|.+....+.||.
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 4789999999999999999999888821110000 012348999999 99999999999998
No 70
>KOG2893|consensus
Probab=88.54 E-value=0.092 Score=43.17 Aligned_cols=46 Identities=24% Similarity=0.527 Sum_probs=37.9
Q ss_pred CCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhhHhhhcC
Q psy16775 187 RCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 187 ~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~hh~ 242 (306)
.|=+|++.|... |..|++..| |+|.+|-+...+--.|..|--..|.
T Consensus 12 wcwycnrefddekiliqhqkakh----------fkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAKH----------FKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeeecccccchhhhhhhhhhhcc----------ceeeeehhhhccCCCceeehhhhhh
Confidence 588999999987 999995555 9999999988888888888544454
No 71
>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=88.35 E-value=0.3 Score=27.29 Aligned_cols=25 Identities=28% Similarity=0.677 Sum_probs=18.4
Q ss_pred ccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhh
Q psy16775 145 LNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRV 194 (306)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~ 194 (306)
|+|.+||..+.. .+.++.|++||..
T Consensus 2 ~~C~~CGy~y~~-------------------------~~~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDG-------------------------EEAPWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECC-------------------------CcCCCcCcCCCCc
Confidence 789999977642 2357899999864
No 72
>KOG2893|consensus
Probab=86.96 E-value=0.17 Score=41.67 Aligned_cols=49 Identities=22% Similarity=0.348 Sum_probs=37.6
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--HHHHHHhhc
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--LLNHVARDH 207 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--l~~H~~~~H 207 (306)
..+++ |=+|++.|....-|..|++. +-|+|.+|-+...+. |..|-..+|
T Consensus 8 ~~kpw-cwycnrefddekiliqhqka-----------------khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 8 VDKPW-CWYCNREFDDEKILIQHQKA-----------------KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred cCCce-eeecccccchhhhhhhhhhh-----------------ccceeeeehhhhccCCCceeehhhhh
Confidence 34555 88999999999999999983 559999998775554 666654555
No 73
>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=86.25 E-value=0.35 Score=35.32 Aligned_cols=30 Identities=27% Similarity=0.559 Sum_probs=19.0
Q ss_pred cCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccCCH
Q psy16775 186 GRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGMY 230 (306)
Q Consensus 186 ~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~ 230 (306)
..|+.||+.|.. | +..|-.|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYD-L--------------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD-L--------------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc-C--------------CCCCccCCCCCCccCcc
Confidence 567777777743 1 11257788888877644
No 74
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=84.10 E-value=0.8 Score=41.86 Aligned_cols=59 Identities=17% Similarity=0.441 Sum_probs=50.3
Q ss_pred CCcCCCcchhhhHHH--HHHHHHh-hcCCCCCCCC--cceecC--ccCcccCCHHHHHhhHhhhcCCCCCC
Q psy16775 184 DGGRCPVCGRVYQWK--LLNHVAR-DHNMSLKPAH--LSYKCT--VCTATFGMYRQFENHVYSAHSVAPRR 247 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~--l~~H~~~-~H~~~~~~~~--k~~~C~--~C~~~f~~~~~L~~H~~~hh~~~~~~ 247 (306)
.++.|..|...|... |.+|.+. .|. ++ +++.|+ .|++.|.+...|.+|...|.+.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-----~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-----GESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAK 353 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-----cccCCceeeeccCCCccccccccccCCcccccCCCccc
Confidence 478999999999998 9999932 677 66 789999 89999999999999999987766543
No 75
>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=82.37 E-value=1.2 Score=26.58 Aligned_cols=26 Identities=15% Similarity=0.351 Sum_probs=15.6
Q ss_pred CcceecCccCcccCCH----HHHHhhHhhh
Q psy16775 215 HLSYKCTVCTATFGMY----RQFENHVYSA 240 (306)
Q Consensus 215 ~k~~~C~~C~~~f~~~----~~L~~H~~~h 240 (306)
.....|..|++.+... .+|.+|++..
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~ 43 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKK 43 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhh
Confidence 3457788888887664 6888888543
No 76
>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=82.14 E-value=0.82 Score=25.73 Aligned_cols=12 Identities=17% Similarity=0.393 Sum_probs=9.1
Q ss_pred CccccccccccC
Q psy16775 144 PLNCQKCQFRFF 155 (306)
Q Consensus 144 ~~~C~~C~~~f~ 155 (306)
.|+|.+||..+.
T Consensus 2 ~~~C~~CG~i~~ 13 (34)
T cd00729 2 VWVCPVCGYIHE 13 (34)
T ss_pred eEECCCCCCEeE
Confidence 478999997653
No 77
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=81.76 E-value=0.26 Score=40.97 Aligned_cols=24 Identities=17% Similarity=0.308 Sum_probs=18.5
Q ss_pred CCCccccccccccCChHHHHhHhh
Q psy16775 142 RPPLNCQKCQFRFFTDQGLERHLL 165 (306)
Q Consensus 142 ~~~~~C~~C~~~f~~~~~l~~H~~ 165 (306)
++.+.||+|+..|.++.-+....+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 457899999999988766655554
No 78
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=81.04 E-value=0.76 Score=29.17 Aligned_cols=34 Identities=26% Similarity=0.561 Sum_probs=21.7
Q ss_pred CCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcc
Q psy16775 184 DGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTAT 226 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~ 226 (306)
..|.|+.||..-...-.+= +.+. .+|.|+.||+.
T Consensus 26 v~F~CPnCGe~~I~Rc~~C--Rk~g-------~~Y~Cp~CGF~ 59 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKC--RKLG-------NPYRCPKCGFE 59 (61)
T ss_pred eEeeCCCCCceeeehhhhH--HHcC-------CceECCCcCcc
Confidence 3599999997766551111 2221 26999999963
No 79
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=80.79 E-value=0.91 Score=35.83 Aligned_cols=25 Identities=28% Similarity=0.848 Sum_probs=20.7
Q ss_pred CCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchh
Q psy16775 143 PPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGR 193 (306)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~ 193 (306)
+.|.|++||+.+ .++.|-.||+||.
T Consensus 133 ~~~vC~vCGy~~--------------------------~ge~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPVCGYTH--------------------------EGEAPEVCPICGA 157 (166)
T ss_pred CEEEcCCCCCcc--------------------------cCCCCCcCCCCCC
Confidence 379999998654 5688999999984
No 80
>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=79.61 E-value=1.1 Score=32.79 Aligned_cols=30 Identities=27% Similarity=0.418 Sum_probs=23.8
Q ss_pred CcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccCCh
Q psy16775 107 SSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTD 157 (306)
Q Consensus 107 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~ 157 (306)
..|+.||..|-.. +..|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL---------------------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL---------------------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC---------------------CCCCccCCCCCCccCcc
Confidence 5688999999542 34689999999999765
No 81
>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=77.43 E-value=1.3 Score=33.00 Aligned_cols=14 Identities=7% Similarity=-0.133 Sum_probs=8.9
Q ss_pred ceecCccCcccCCH
Q psy16775 217 SYKCTVCTATFGMY 230 (306)
Q Consensus 217 ~~~C~~C~~~f~~~ 230 (306)
|..|+.||..|.-.
T Consensus 26 p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 26 PAVSPYTGEQFPPE 39 (129)
T ss_pred CccCCCcCCccCcc
Confidence 56677777766544
No 82
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=77.01 E-value=0.67 Score=42.36 Aligned_cols=127 Identities=18% Similarity=0.240 Sum_probs=81.4
Q ss_pred CCcCCccCcCCCChHHHHHHHHH-hccccccccccCCC--CCcccc--ccccccCChHHHHhHhhhccCCcchhhH----
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQW-IHKVKIHPKMIYNR--PPLNCQ--KCQFRFFTDQGLERHLLGSHGLVTSSMQ---- 176 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~-~H~~~~h~~~~~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~h~~~~~~~~---- 176 (306)
.+.|..|...|.....|..|.+. .|. ++ +++.|+ .|++.|.+...+..|...+.+.......
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~---------~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHS---------GESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359 (467)
T ss_pred CCCCccccCCccccccccccccccccc---------cccCCceeeeccCCCccccccccccCCcccccCCCccccccccC
Confidence 68999999999999999999973 455 77 899999 8999999999999999977653311000
Q ss_pred ------------------HhhhcCCCCcCCC--cchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHH
Q psy16775 177 ------------------EAANKGKDGGRCP--VCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFE 234 (306)
Q Consensus 177 ------------------~~~h~~~~~~~C~--~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~ 234 (306)
.........+.+. .|...+... +..|. ..|... +...+.+..|...|.....|.
T Consensus 360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~~~~~~ 435 (467)
T COG5048 360 SSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHI-ITHLSF---RPYNCKNPPCSKSFNRHYNLI 435 (467)
T ss_pred ccccccccCCCCccchhhccCccCCccccccccchhhhhcccccccccc-cccccc---CCcCCCCCcchhhccCccccc
Confidence 0011112233332 244444443 44444 333211 112366677888888888888
Q ss_pred hhHhhhcCCCC
Q psy16775 235 NHVYSAHSVAP 245 (306)
Q Consensus 235 ~H~~~hh~~~~ 245 (306)
.|++.+.....
T Consensus 436 ~~~~~~~~~~~ 446 (467)
T COG5048 436 PHKKIHTNHAP 446 (467)
T ss_pred ccccccccCCc
Confidence 88777654443
No 83
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=75.93 E-value=1.1 Score=25.49 Aligned_cols=33 Identities=27% Similarity=0.669 Sum_probs=22.3
Q ss_pred ccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhh
Q psy16775 145 LNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVY 195 (306)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f 195 (306)
..|+.|+..|.-.... +.......+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~------------------ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK------------------IPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHH------------------CCCCCcEEECCCCCCEe
Confidence 5788999888765552 22334567888888765
No 84
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.77 E-value=0.73 Score=38.28 Aligned_cols=24 Identities=17% Similarity=0.349 Sum_probs=19.3
Q ss_pred cccccCcccccccCcHHHHHHHHh
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
+.+.|++|+..|..+.-.....+.
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceE
Confidence 679999999999988766655544
No 85
>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=75.62 E-value=2.2 Score=31.17 Aligned_cols=25 Identities=20% Similarity=0.462 Sum_probs=22.7
Q ss_pred eec----CccCcccCCHHHHHhhHhhhcC
Q psy16775 218 YKC----TVCTATFGMYRQFENHVYSAHS 242 (306)
Q Consensus 218 ~~C----~~C~~~f~~~~~L~~H~~~hh~ 242 (306)
|.| ..|++.+.+...|.+|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999998875
No 86
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=74.38 E-value=1.1 Score=27.08 Aligned_cols=12 Identities=17% Similarity=0.506 Sum_probs=6.8
Q ss_pred CccccccccccC
Q psy16775 144 PLNCQKCQFRFF 155 (306)
Q Consensus 144 ~~~C~~C~~~f~ 155 (306)
.|.|+.||..|.
T Consensus 3 ~y~C~~CG~~~~ 14 (46)
T PRK00398 3 EYKCARCGREVE 14 (46)
T ss_pred EEECCCCCCEEE
Confidence 356666665553
No 87
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.95 E-value=1.3 Score=25.43 Aligned_cols=33 Identities=36% Similarity=0.825 Sum_probs=22.0
Q ss_pred ccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhh
Q psy16775 145 LNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVY 195 (306)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f 195 (306)
..|+.|+..|.-...- +..+....+|+.|+..|
T Consensus 3 i~CP~C~~~f~v~~~~------------------l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK------------------LPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHH------------------cccCCcEEECCCCCcEe
Confidence 4789999888755441 12334567888888766
No 88
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=73.69 E-value=1.3 Score=28.22 Aligned_cols=33 Identities=24% Similarity=0.496 Sum_probs=20.9
Q ss_pred CCcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcc
Q psy16775 184 DGGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTAT 226 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~ 226 (306)
..|.|+.||...... -+--. .. .+|.|+.||+.
T Consensus 24 ~~F~CPnCG~~~I~RC~~CRk-~~---------~~Y~CP~CGF~ 57 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCRK-QS---------NPYTCPKCGFE 57 (59)
T ss_pred CEeeCCCCCCeeEeechhHHh-cC---------CceECCCCCCc
Confidence 359999999874444 21111 11 25999999964
No 89
>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=73.58 E-value=1.4 Score=33.45 Aligned_cols=25 Identities=24% Similarity=0.634 Sum_probs=16.6
Q ss_pred eecCccCcccCCHHHHHhhHhhhcCCCC
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSAHSVAP 245 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~hh~~~~ 245 (306)
..|-+||+.|.. |++|++.||+-.+
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred eEEccCCcccch---HHHHHHHccCCCH
Confidence 789999999964 6999999988653
No 90
>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=73.18 E-value=1.6 Score=25.09 Aligned_cols=34 Identities=15% Similarity=0.246 Sum_probs=22.2
Q ss_pred CcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccC
Q psy16775 107 SSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFF 155 (306)
Q Consensus 107 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~ 155 (306)
+.|+.|+..|.-.... ... ......|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~------~~~---------~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQ------LGA---------NGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHH------cCC---------CCCEEECCCCCCEEE
Confidence 5688999887655432 111 233688999998774
No 91
>PF15269 zf-C2H2_7: Zinc-finger
Probab=73.17 E-value=2.2 Score=25.28 Aligned_cols=23 Identities=30% Similarity=0.475 Sum_probs=20.8
Q ss_pred ccccCcccccccCcHHHHHHHHh
Q psy16775 33 SYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 33 ~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
.|+|-+|..+...++.|..||+.
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 48899999999999999999974
No 92
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.01 E-value=3 Score=30.57 Aligned_cols=84 Identities=17% Similarity=0.064 Sum_probs=45.9
Q ss_pred CcCCccCcCCCChHHHHHHHHHhcc--cccc--ccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcC
Q psy16775 107 SSNNNKVKITPDLEQLRNHMQWIHK--VKIH--PKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKG 182 (306)
Q Consensus 107 ~~C~~C~~~f~~~~~l~~H~~~~H~--~~~h--~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~ 182 (306)
..|++||........|.+-. +|- +..- +.+......-.|--|...|....... .. .-..
T Consensus 16 ~~CpiCgLtLVss~HLARSy--HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~---~~------------~~~~ 78 (112)
T TIGR00622 16 VECPICGLTLILSTHLARSY--HHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP---FD------------ELKD 78 (112)
T ss_pred CcCCcCCCEEeccchHHHhh--hccCCCcccccccccccCCCCcccCcCCCCCCccccc---cc------------cccc
Confidence 66889999988888888774 443 1110 00000111234888888886543111 00 0122
Q ss_pred CCCcCCCcchhhhHHH--HHHHHHhhcC
Q psy16775 183 KDGGRCPVCGRVYQWK--LLNHVARDHN 208 (306)
Q Consensus 183 ~~~~~C~~C~~~f~~~--l~~H~~~~H~ 208 (306)
...|+|+.|...|-.. +-.|. ..|+
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe-~Lh~ 105 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHE-SLHC 105 (112)
T ss_pred ccceeCCCCCCccccccchhhhh-hccC
Confidence 3467888888777766 55565 4443
No 93
>PF15269 zf-C2H2_7: Zinc-finger
Probab=72.68 E-value=3.8 Score=24.32 Aligned_cols=22 Identities=18% Similarity=0.042 Sum_probs=20.1
Q ss_pred CCcCCccCcCCCChHHHHHHHH
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQ 127 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~ 127 (306)
.|+|-+|.....-++.|-.||+
T Consensus 20 ~ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred cceeecCCcccchHHHHHHHHH
Confidence 3889999999999999999997
No 94
>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=71.19 E-value=1.1 Score=26.47 Aligned_cols=30 Identities=30% Similarity=0.700 Sum_probs=21.1
Q ss_pred CccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchh
Q psy16775 144 PLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGR 193 (306)
Q Consensus 144 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~ 193 (306)
.|+|..||..|..... +.. .....|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~-------------------~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQS-------------------ISE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEE-------------------cCC-CCCCcCCCCCC
Confidence 4899999999864322 222 45788999986
No 95
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=71.13 E-value=1.6 Score=34.42 Aligned_cols=24 Identities=38% Similarity=0.827 Sum_probs=18.6
Q ss_pred CcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCc
Q psy16775 185 GGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTA 225 (306)
Q Consensus 185 ~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~ 225 (306)
.|.|++||.. |- |+-|-+|++||.
T Consensus 134 ~~vC~vCGy~------------~~-----ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT------------HE-----GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc------------cc-----CCCCCcCCCCCC
Confidence 7999999963 32 445799999994
No 96
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=71.12 E-value=2.5 Score=29.23 Aligned_cols=31 Identities=39% Similarity=0.732 Sum_probs=22.1
Q ss_pred CCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 184 DGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
..|.|+.|++. .+. +. +...+.|..||..|.
T Consensus 34 ~~~~Cp~C~~~------~Vk-R~-------a~GIW~C~kCg~~fA 64 (89)
T COG1997 34 AKHVCPFCGRT------TVK-RI-------ATGIWKCRKCGAKFA 64 (89)
T ss_pred cCCcCCCCCCc------cee-ee-------ccCeEEcCCCCCeec
Confidence 46999999974 111 21 334799999999985
No 97
>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=70.78 E-value=3.4 Score=21.61 Aligned_cols=19 Identities=21% Similarity=0.441 Sum_probs=14.0
Q ss_pred cccccccccCChHHHHhHhh
Q psy16775 146 NCQKCQFRFFTDQGLERHLL 165 (306)
Q Consensus 146 ~C~~C~~~f~~~~~l~~H~~ 165 (306)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 588888887 5667777765
No 98
>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=70.65 E-value=2.7 Score=31.89 Aligned_cols=26 Identities=19% Similarity=0.437 Sum_probs=17.0
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCCC
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSVA 60 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~~ 60 (306)
.-..|-+||+.|.. |.+|++.|||-.
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred CeeEEccCCcccch---HHHHHHHccCCC
Confidence 34679999999976 699999998753
No 99
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=69.51 E-value=3.8 Score=25.20 Aligned_cols=22 Identities=18% Similarity=0.446 Sum_probs=15.8
Q ss_pred eecCccCcccCCH-----HHHHhhHhh
Q psy16775 218 YKCTVCTATFGMY-----RQFENHVYS 239 (306)
Q Consensus 218 ~~C~~C~~~f~~~-----~~L~~H~~~ 239 (306)
-.|..|++.+... ++|.+|++.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 5578888777654 588888874
No 100
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=69.41 E-value=2.9 Score=32.44 Aligned_cols=38 Identities=24% Similarity=0.495 Sum_probs=25.3
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhh
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVY 195 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f 195 (306)
+..-|.|+.|+..|.....+.. . .. +..|.|+.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~-~---------------d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL-L---------------DM-DGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh-c---------------CC-CCcEECCCCCCEE
Confidence 5567999999999985444321 0 11 3349999998754
No 101
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.95 E-value=0.73 Score=36.00 Aligned_cols=14 Identities=21% Similarity=0.707 Sum_probs=11.8
Q ss_pred ceecCccCcccCCH
Q psy16775 217 SYKCTVCTATFGMY 230 (306)
Q Consensus 217 ~~~C~~C~~~f~~~ 230 (306)
.++|+.||++|...
T Consensus 28 ~~~c~~c~~~f~~~ 41 (154)
T PRK00464 28 RRECLACGKRFTTF 41 (154)
T ss_pred eeeccccCCcceEe
Confidence 49999999999754
No 102
>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=66.69 E-value=3.2 Score=32.63 Aligned_cols=34 Identities=26% Similarity=0.512 Sum_probs=25.4
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhH
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQ 196 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~ 196 (306)
+..-|.|+.|+..|+...++. ..|.|+.||....
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~----------------------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME----------------------LNFTCPRCGAMLD 139 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH----------------------cCCcCCCCCCEee
Confidence 556799999998888766653 1499999987643
No 103
>KOG2593|consensus
Probab=66.42 E-value=3.9 Score=37.11 Aligned_cols=61 Identities=16% Similarity=0.286 Sum_probs=38.2
Q ss_pred ChHHHHHHHHHhccccccccccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhh
Q psy16775 118 DLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVY 195 (306)
Q Consensus 118 ~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f 195 (306)
+...++.|+. .-.++--++..+...-|.|+.|.+.|.....++. +-.....|.|..|+-..
T Consensus 103 dvVKyKlh~m-~krled~~~d~t~~~~Y~Cp~C~kkyt~Lea~~L----------------~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 103 DVVKYKLHQM-RKRLEDRLRDDTNVAGYVCPNCQKKYTSLEALQL----------------LDNETGEFHCENCGGEL 163 (436)
T ss_pred HHHHHHHHHH-HHHHHHHhhhccccccccCCccccchhhhHHHHh----------------hcccCceEEEecCCCch
Confidence 3444555553 2222223333446678999999999998777654 22334579999997654
No 104
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=66.25 E-value=3.2 Score=32.69 Aligned_cols=32 Identities=13% Similarity=0.082 Sum_probs=25.4
Q ss_pred CCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCcccccccccc
Q psy16775 104 STSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRF 154 (306)
Q Consensus 104 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f 154 (306)
...|.|+.|+..|+...++. . .|.|+.||...
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~------~-------------~F~Cp~Cg~~L 138 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME------L-------------NFTCPRCGAML 138 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH------c-------------CCcCCCCCCEe
Confidence 34588999999998887763 1 49999999764
No 105
>KOG4377|consensus
Probab=65.37 E-value=6.9 Score=35.24 Aligned_cols=124 Identities=16% Similarity=0.132 Sum_probs=66.4
Q ss_pred CcC--CccCcCCCChHHHHHHHHHhccccc-cc--cccCCCCCcccc--ccccccCChHHHHhHhhhccCCcchhhHHhh
Q psy16775 107 SSN--NNKVKITPDLEQLRNHMQWIHKVKI-HP--KMIYNRPPLNCQ--KCQFRFFTDQGLERHLLGSHGLVTSSMQEAA 179 (306)
Q Consensus 107 ~~C--~~C~~~f~~~~~l~~H~~~~H~~~~-h~--~~~~~~~~~~C~--~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~ 179 (306)
|-| +.|+..+..+..+.+|.. +|.... -. ..+-=..-|.|. +|.+ +-++...|-..|..++
T Consensus 272 yhcl~e~C~ykr~~k~DvirH~~-~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~-------- 339 (480)
T KOG4377|consen 272 YHCLNEYCFYKRGQKNDVIRHVE-IHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKR-------- 339 (480)
T ss_pred hcccCccccccccchhhhHHHHH-HHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccc--------
Confidence 555 579998888999999997 665110 00 000001226774 4887 4455566665332111
Q ss_pred hcCCC--CcCCCcchhhhHHHHHHHHHhhcCCCCC---CCCc--------------------ceecCc--cCcccCCHHH
Q psy16775 180 NKGKD--GGRCPVCGRVYQWKLLNHVARDHNMSLK---PAHL--------------------SYKCTV--CTATFGMYRQ 232 (306)
Q Consensus 180 h~~~~--~~~C~~C~~~f~~~l~~H~~~~H~~~~~---~~~k--------------------~~~C~~--C~~~f~~~~~ 232 (306)
..|.+ -|.|-.||-.+..+...|. ..|-..+. .|.+ -|-|.. |+.+|...+.
T Consensus 340 n~GfrrthfhC~r~gCTdtfK~~khk-~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sq 418 (480)
T KOG4377|consen 340 NNGFRRTHFHCQRIGCTDTFKDSKHK-PYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQ 418 (480)
T ss_pred cCceecceeEEeccCCcccccccccc-ccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhh
Confidence 11221 3678887744443333343 33321110 0111 244533 8899999999
Q ss_pred HHhhHhhhcCC
Q psy16775 233 FENHVYSAHSV 243 (306)
Q Consensus 233 L~~H~~~hh~~ 243 (306)
+.-|.+.|...
T Consensus 419 m~shkrkheRq 429 (480)
T KOG4377|consen 419 MASHKRKHERQ 429 (480)
T ss_pred hhhhhhhhhhh
Confidence 99998886543
No 106
>PHA00626 hypothetical protein
Probab=62.81 E-value=4 Score=25.63 Aligned_cols=13 Identities=23% Similarity=0.460 Sum_probs=11.5
Q ss_pred ceecCccCcccCC
Q psy16775 217 SYKCTVCTATFGM 229 (306)
Q Consensus 217 ~~~C~~C~~~f~~ 229 (306)
.|+|+.||+.|+.
T Consensus 23 rYkCkdCGY~ft~ 35 (59)
T PHA00626 23 DYVCCDCGYNDSK 35 (59)
T ss_pred ceEcCCCCCeech
Confidence 6999999999964
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=62.30 E-value=3.8 Score=31.77 Aligned_cols=36 Identities=14% Similarity=0.123 Sum_probs=24.6
Q ss_pred CCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCcccccccccc
Q psy16775 105 TSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRF 154 (306)
Q Consensus 105 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f 154 (306)
..|.|+.|+..|....++.. . . ....|.|+.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~-~----d---------~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL-L----D---------MDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh-c----C---------CCCcEECCCCCCEE
Confidence 46899999999986543322 0 0 12349999999875
No 108
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=62.03 E-value=3.8 Score=32.92 Aligned_cols=33 Identities=12% Similarity=-0.067 Sum_probs=25.3
Q ss_pred CCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccC
Q psy16775 104 STSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFF 155 (306)
Q Consensus 104 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~ 155 (306)
...|.|+.|+..|+...++. .-|.|+.||....
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 34689999999998877642 1499999997653
No 109
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=61.64 E-value=4.3 Score=32.63 Aligned_cols=34 Identities=38% Similarity=0.842 Sum_probs=26.3
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhH
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQ 196 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~ 196 (306)
+..-|.|+.|+..|....++. ..|.|+.||....
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 456799999999998766542 2599999998754
No 110
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.44 E-value=2.4 Score=28.40 Aligned_cols=33 Identities=18% Similarity=0.279 Sum_probs=25.2
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccccC
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFRFF 155 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~f~ 155 (306)
.|.|..|+..| .+.+||. +...-.|+.|+..+.
T Consensus 12 ~Y~c~~cg~~~----dvvq~~~-------------ddplt~ce~c~a~~k 44 (82)
T COG2331 12 SYECTECGNRF----DVVQAMT-------------DDPLTTCEECGARLK 44 (82)
T ss_pred EEeecccchHH----HHHHhcc-------------cCccccChhhChHHH
Confidence 58999999876 5777775 555678999997653
No 111
>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=59.67 E-value=3.1 Score=25.73 Aligned_cols=13 Identities=31% Similarity=0.746 Sum_probs=10.7
Q ss_pred CccccccccccCC
Q psy16775 144 PLNCQKCQFRFFT 156 (306)
Q Consensus 144 ~~~C~~C~~~f~~ 156 (306)
.|+|..|+..|..
T Consensus 5 ey~C~~Cg~~fe~ 17 (52)
T TIGR02605 5 EYRCTACGHRFEV 17 (52)
T ss_pred EEEeCCCCCEeEE
Confidence 4899999998863
No 112
>PF12907 zf-met2: Zinc-binding
Probab=59.19 E-value=7.6 Score=22.72 Aligned_cols=23 Identities=22% Similarity=0.514 Sum_probs=10.9
Q ss_pred cCCCcchhhhHHH-----HHHHHHhhcC
Q psy16775 186 GRCPVCGRVYQWK-----LLNHVARDHN 208 (306)
Q Consensus 186 ~~C~~C~~~f~~~-----l~~H~~~~H~ 208 (306)
+.|.+|...|... |..|....|.
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHp 29 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHP 29 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCC
Confidence 3455555444432 5555544443
No 113
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=57.95 E-value=6.5 Score=29.60 Aligned_cols=25 Identities=16% Similarity=0.389 Sum_probs=21.1
Q ss_pred eecCccCcccCCHHHHHhhHhhhcCCCC
Q psy16775 218 YKCTVCTATFGMYRQFENHVYSAHSVAP 245 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~~hh~~~~ 245 (306)
..|-.+|+.| .+|++|+.+|++-.+
T Consensus 77 IicLEDGkkf---KSLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKF---KSLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcch---HHHHHHHhcccCCCH
Confidence 5799999999 579999999887654
No 114
>KOG2593|consensus
Probab=57.86 E-value=6 Score=35.97 Aligned_cols=40 Identities=18% Similarity=0.200 Sum_probs=29.0
Q ss_pred CCCCCCCcCCccCcCCCChHHHHHHHHHhccccccccccCCCCCccccccccc
Q psy16775 101 SSSSTSSSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPPLNCQKCQFR 153 (306)
Q Consensus 101 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~~~C~~C~~~ 153 (306)
......|.|+.|.+.|....+++-=-. ....|.|..|+-.
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~L~~~-------------~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQLLDN-------------ETGEFHCENCGGE 162 (436)
T ss_pred ccccccccCCccccchhhhHHHHhhcc-------------cCceEEEecCCCc
Confidence 344557999999999988776554322 3457999999854
No 115
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=56.80 E-value=5.7 Score=23.79 Aligned_cols=12 Identities=17% Similarity=0.196 Sum_probs=9.9
Q ss_pred CccccccccccC
Q psy16775 144 PLNCQKCQFRFF 155 (306)
Q Consensus 144 ~~~C~~C~~~f~ 155 (306)
.|.|..||..|.
T Consensus 2 ~Y~C~~Cg~~~~ 13 (44)
T smart00659 2 IYICGECGRENE 13 (44)
T ss_pred EEECCCCCCEee
Confidence 488999998876
No 116
>KOG4167|consensus
Probab=56.12 E-value=3.2 Score=40.15 Aligned_cols=28 Identities=14% Similarity=0.278 Sum_probs=25.2
Q ss_pred cccccCcccccccCcHHHHHHHHhcCCC
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVYSAHSV 59 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~~hh~~ 59 (306)
..|-|.+|++.|....++..||++|...
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 5799999999999999999999998643
No 117
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.98 E-value=8.4 Score=27.85 Aligned_cols=15 Identities=27% Similarity=0.381 Sum_probs=8.1
Q ss_pred CCcCCCcchhhhHHH
Q psy16775 184 DGGRCPVCGRVYQWK 198 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~ 198 (306)
.|..|++||++|...
T Consensus 25 dPiVsPytG~s~P~s 39 (129)
T COG4530 25 DPIVSPYTGKSYPRS 39 (129)
T ss_pred CccccCcccccchHH
Confidence 455555555555443
No 118
>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=55.94 E-value=6 Score=33.36 Aligned_cols=89 Identities=16% Similarity=0.197 Sum_probs=54.7
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH--------HHHHHHhhcCCCCC
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK--------LLNHVARDHNMSLK 212 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~--------l~~H~~~~H~~~~~ 212 (306)
+.+.|+|..|+...-.-.. -.|+-.-. +- ....|+|.-|++.=... -..|+++.--.-+
T Consensus 139 GGrif~CsfC~~flCEDDQ-FEHQAsCQ----------vL-e~E~~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~- 205 (314)
T PF06524_consen 139 GGRIFKCSFCDNFLCEDDQ-FEHQASCQ----------VL-ESETFKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYE- 205 (314)
T ss_pred CCeEEEeecCCCeeeccch-hhhhhhhh----------hh-hcccccccccccccchhhhheeeeehhhhhhhcccccc-
Confidence 6778999999865433333 34444222 11 22357887777654443 3467744332111
Q ss_pred CCCcceecCccCcccCCHHHHHhhHhhhcCC
Q psy16775 213 PAHLSYKCTVCTATFGMYRQFENHVYSAHSV 243 (306)
Q Consensus 213 ~~~k~~~C~~C~~~f~~~~~L~~H~~~hh~~ 243 (306)
..+++.|+.||+.......|..-.++|.-+
T Consensus 206 -k~k~~PCPKCg~et~eTkdLSmStR~hkyG 235 (314)
T PF06524_consen 206 -KGKPIPCPKCGYETQETKDLSMSTRSHKYG 235 (314)
T ss_pred -cCCCCCCCCCCCcccccccceeeeecchhc
Confidence 346899999999988888888777776433
No 119
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=54.77 E-value=5.6 Score=24.38 Aligned_cols=13 Identities=15% Similarity=0.462 Sum_probs=11.1
Q ss_pred CCCcccccccccc
Q psy16775 142 RPPLNCQKCQFRF 154 (306)
Q Consensus 142 ~~~~~C~~C~~~f 154 (306)
...|.|..|++.|
T Consensus 4 ~~~Y~C~~Cg~~~ 16 (49)
T COG1996 4 MMEYKCARCGREV 16 (49)
T ss_pred eEEEEhhhcCCee
Confidence 4569999999998
No 120
>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=54.47 E-value=8.9 Score=21.21 Aligned_cols=11 Identities=18% Similarity=0.416 Sum_probs=7.2
Q ss_pred ccccccccccC
Q psy16775 145 LNCQKCQFRFF 155 (306)
Q Consensus 145 ~~C~~C~~~f~ 155 (306)
|.|..|+..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 56777777764
No 121
>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=53.84 E-value=6.9 Score=20.49 Aligned_cols=11 Identities=27% Similarity=0.564 Sum_probs=6.8
Q ss_pred eecCccCcccC
Q psy16775 218 YKCTVCTATFG 228 (306)
Q Consensus 218 ~~C~~C~~~f~ 228 (306)
-.|+.||+.|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 34777776663
No 122
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=53.51 E-value=9.4 Score=37.74 Aligned_cols=11 Identities=36% Similarity=0.806 Sum_probs=6.2
Q ss_pred CCcCCCcchhh
Q psy16775 184 DGGRCPVCGRV 194 (306)
Q Consensus 184 ~~~~C~~C~~~ 194 (306)
.|..|+.||..
T Consensus 474 ~p~~Cp~Cgs~ 484 (730)
T COG1198 474 IPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCC
Confidence 45666666544
No 123
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=52.97 E-value=6.8 Score=38.71 Aligned_cols=28 Identities=25% Similarity=0.597 Sum_probs=20.0
Q ss_pred hcCCCCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcc
Q psy16775 180 NKGKDGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTAT 226 (306)
Q Consensus 180 h~~~~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~ 226 (306)
|.......|..||+. ...|..|+.||..
T Consensus 457 H~~~~~L~CH~Cg~~-------------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 457 HKATGQLRCHYCGYQ-------------------EPIPQSCPECGSE 484 (730)
T ss_pred ecCCCeeEeCCCCCC-------------------CCCCCCCCCCCCC
Confidence 344567899999751 2347999999975
No 124
>KOG3408|consensus
Probab=52.46 E-value=11 Score=27.82 Aligned_cols=30 Identities=17% Similarity=0.306 Sum_probs=25.3
Q ss_pred CCCCCCcceecCccCcccCCHHHHHhhHhh
Q psy16775 210 SLKPAHLSYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 210 ~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
.+.||..-|-|-.|.+-|.+...|..|.++
T Consensus 50 ~dlPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 50 PDLPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 344577779999999999999999999865
No 125
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=51.94 E-value=30 Score=30.07 Aligned_cols=27 Identities=15% Similarity=-0.181 Sum_probs=21.3
Q ss_pred CCCCCCCcCCccCcCCCChHHHHHHHH
Q psy16775 101 SSSSTSSSNNNKVKITPDLEQLRNHMQ 127 (306)
Q Consensus 101 ~~~~~~~~C~~C~~~f~~~~~l~~H~~ 127 (306)
.....+|.|+.|...|-.-.+.-.|..
T Consensus 383 ~~ss~rY~Ce~CK~~FC~dCdvfiHe~ 409 (421)
T COG5151 383 STSSGRYQCELCKSTFCSDCDVFIHET 409 (421)
T ss_pred cccccceechhhhhhhhhhhHHHHHHH
Confidence 445567999999998888888888875
No 126
>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=51.25 E-value=7.4 Score=32.20 Aligned_cols=29 Identities=17% Similarity=0.393 Sum_probs=23.0
Q ss_pred CCCCccccccccccCChHHHHhHhhhccC
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHG 169 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 169 (306)
++..|.|++|+|.|.-......|+..-|+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 55679999999999999999999997663
No 127
>KOG1280|consensus
Probab=51.08 E-value=27 Score=30.88 Aligned_cols=26 Identities=23% Similarity=0.535 Sum_probs=17.0
Q ss_pred CCCccccccccccCChHHHHhHhhhc
Q psy16775 142 RPPLNCQKCQFRFFTDQGLERHLLGS 167 (306)
Q Consensus 142 ~~~~~C~~C~~~f~~~~~l~~H~~~~ 167 (306)
..-|.|++|+..-.+...|..|+...
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~ 102 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQ 102 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhc
Confidence 34577777777766677777776643
No 128
>KOG0978|consensus
Probab=50.15 E-value=11 Score=36.75 Aligned_cols=36 Identities=28% Similarity=0.549 Sum_probs=23.6
Q ss_pred chhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHHHHHhh
Q psy16775 191 CGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYRQFENH 236 (306)
Q Consensus 191 C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H 236 (306)
|+-.|... ++.-+.. +.-+||.|+..|.-..-+..|
T Consensus 661 C~H~FC~~Cvq~r~et----------RqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 661 CGHVFCEECVQTRYET----------RQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred cchHHHHHHHHHHHHH----------hcCCCCCCCCCCCcccccccC
Confidence 77788877 5554411 235799999999865544433
No 129
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=48.79 E-value=3.5 Score=26.26 Aligned_cols=11 Identities=18% Similarity=0.627 Sum_probs=4.2
Q ss_pred ceecCc----cCccc
Q psy16775 217 SYKCTV----CTATF 227 (306)
Q Consensus 217 ~~~C~~----C~~~f 227 (306)
+..|.. |+..+
T Consensus 38 ~v~C~~~~~GC~~~~ 52 (60)
T PF02176_consen 38 PVPCPYSPYGCKERV 52 (60)
T ss_dssp EEE-SS----S--EE
T ss_pred cEECCCCCCCCCCcc
Confidence 455555 55554
No 130
>KOG4167|consensus
Probab=48.65 E-value=12 Score=36.46 Aligned_cols=25 Identities=16% Similarity=0.259 Sum_probs=20.7
Q ss_pred CchhHHHHHHH--HHHHHHHHHhhcCCC
Q psy16775 1 MFGSAAIQDVY--QWKLLNHVARDHNMS 26 (306)
Q Consensus 1 ~~~~~~~~~~~--~~~l~~H~~~~H~~~ 26 (306)
||.|.+|+++| .-++..|| +.|..+
T Consensus 792 iFpCreC~kvF~KiKSrNAHM-K~Hr~q 818 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHM-KTHRQQ 818 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHH-HHHHHH
Confidence 79999999999 35788899 777654
No 131
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=48.50 E-value=11 Score=28.42 Aligned_cols=56 Identities=20% Similarity=0.358 Sum_probs=36.1
Q ss_pred CCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH----HHHHHHhhcCCCCCCCC
Q psy16775 140 YNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK----LLNHVARDHNMSLKPAH 215 (306)
Q Consensus 140 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~----l~~H~~~~H~~~~~~~~ 215 (306)
.+.+.|+|.+|..+......| +|-.| ||+.--.. |=.|- ..|
T Consensus 76 ~d~~lYeCnIC~etS~ee~FL-----------------------KPneC--CgY~iCn~Cya~LWK~~-~~y-------- 121 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERFL-----------------------KPNEC--CGYSICNACYANLWKFC-NLY-------- 121 (140)
T ss_pred cCCCceeccCcccccchhhcC-----------------------Ccccc--cchHHHHHHHHHHHHHc-ccC--------
Confidence 456889999999877543221 34455 66655554 55554 333
Q ss_pred cceecCccCcccCCHH
Q psy16775 216 LSYKCTVCTATFGMYR 231 (306)
Q Consensus 216 k~~~C~~C~~~f~~~~ 231 (306)
=+|++|.-+|++.+
T Consensus 122 --pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 122 --PVCPVCKTSFKSSS 135 (140)
T ss_pred --CCCCcccccccccc
Confidence 35999999997654
No 132
>KOG4124|consensus
Probab=47.41 E-value=3.1 Score=36.53 Aligned_cols=57 Identities=23% Similarity=0.543 Sum_probs=40.9
Q ss_pred CCCcCCCc--chhhhHHH--HHHHHHhhcCCCCC-------------CCCcceecCccCcccCCHHHHHhhHhh
Q psy16775 183 KDGGRCPV--CGRVYQWK--LLNHVARDHNMSLK-------------PAHLSYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 183 ~~~~~C~~--C~~~f~~~--l~~H~~~~H~~~~~-------------~~~k~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
.++|+|++ |.+.+... |+.|....|..... ...|+|+|++|.++++....|+-|+..
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 46899965 99999887 88886444533221 145789999999999877777776543
No 133
>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=47.30 E-value=10 Score=19.44 Aligned_cols=8 Identities=25% Similarity=1.028 Sum_probs=4.7
Q ss_pred ceecCccC
Q psy16775 217 SYKCTVCT 224 (306)
Q Consensus 217 ~~~C~~C~ 224 (306)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 46666665
No 134
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=45.80 E-value=23 Score=27.91 Aligned_cols=12 Identities=33% Similarity=0.833 Sum_probs=6.0
Q ss_pred ccccCccccccc
Q psy16775 33 SYKCTVCTATFG 44 (306)
Q Consensus 33 ~y~C~~C~~~f~ 44 (306)
.|-|..|-++|.
T Consensus 92 ~fGCaeCY~tf~ 103 (176)
T COG3880 92 LFGCAECYKTFE 103 (176)
T ss_pred ccchHHHHHHHH
Confidence 355555555544
No 135
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=45.71 E-value=4 Score=27.37 Aligned_cols=14 Identities=43% Similarity=0.816 Sum_probs=9.8
Q ss_pred ceecC--ccCcccCCH
Q psy16775 217 SYKCT--VCTATFGMY 230 (306)
Q Consensus 217 ~~~C~--~C~~~f~~~ 230 (306)
-++|. .||.+|...
T Consensus 27 Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 27 YHQCQNVNCSATFITY 42 (72)
T ss_pred eeecCCCCCCCEEEEE
Confidence 37787 788888753
No 136
>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=45.57 E-value=14 Score=30.69 Aligned_cols=29 Identities=17% Similarity=0.495 Sum_probs=23.3
Q ss_pred CcccccCcccccccCcHHHHHHHHhcCCC
Q psy16775 31 HLSYKCTVCTATFGMYRQFENHVYSAHSV 59 (306)
Q Consensus 31 ~~~y~C~~C~~~f~~~~~L~~H~~~hh~~ 59 (306)
+..|.|..|++.|.-..-..+|+..-|.+
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 36799999999999999999999988864
No 137
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=45.31 E-value=2 Score=30.49 Aligned_cols=37 Identities=22% Similarity=0.321 Sum_probs=23.8
Q ss_pred CCCCcCCCcchhhhHHH--HHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 182 GKDGGRCPVCGRVYQWK--LLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 182 ~~~~~~C~~C~~~f~~~--l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
-++.|.|+.||..-... ++.-. ......|..||.+|.
T Consensus 19 L~k~FtCp~Cghe~vs~ctvkk~~----------~~g~~~Cg~CGls~e 57 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVKKTV----------NIGTAVCGNCGLSFE 57 (104)
T ss_pred CCceEecCccCCeeeeEEEEEecC----------ceeEEEcccCcceEE
Confidence 46779999998754433 21111 222478999999885
No 138
>KOG0320|consensus
Probab=44.67 E-value=26 Score=27.98 Aligned_cols=50 Identities=16% Similarity=0.382 Sum_probs=33.8
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCccee
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYK 219 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~ 219 (306)
.+..|+|++|--.|..+. -.-..||-.|-.. ++.=++.. .+
T Consensus 128 ~~~~~~CPiCl~~~sek~---------------------------~vsTkCGHvFC~~Cik~alk~~-----------~~ 169 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKV---------------------------PVSTKCGHVFCSQCIKDALKNT-----------NK 169 (187)
T ss_pred cccccCCCceecchhhcc---------------------------ccccccchhHHHHHHHHHHHhC-----------CC
Confidence 345599999987775321 1224599999998 77666332 55
Q ss_pred cCccCcccC
Q psy16775 220 CTVCTATFG 228 (306)
Q Consensus 220 C~~C~~~f~ 228 (306)
|++|++...
T Consensus 170 CP~C~kkIt 178 (187)
T KOG0320|consen 170 CPTCRKKIT 178 (187)
T ss_pred CCCcccccc
Confidence 999998644
No 139
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=44.23 E-value=11 Score=28.41 Aligned_cols=24 Identities=13% Similarity=0.247 Sum_probs=20.4
Q ss_pred cccCcccccccCcHHHHHHHHhcCCCC
Q psy16775 34 YKCTVCTATFGMYRQFENHVYSAHSVA 60 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~~hh~~~ 60 (306)
..|-++|+.|. +|++|+.+|++-.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmT 100 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLT 100 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCC
Confidence 56999999995 5999999998753
No 140
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=42.65 E-value=6.2 Score=33.02 Aligned_cols=61 Identities=18% Similarity=0.437 Sum_probs=35.8
Q ss_pred CCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCccee
Q psy16775 141 NRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYK 219 (306)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~ 219 (306)
.++.|.|..|+..+-. + +......-.|..|.+.|.-- -.+-. |...|.
T Consensus 109 ~drqFaC~~Cd~~WwR--------r-------------vp~rKeVSRCr~C~~rYDPVP~dkmw----------G~aef~ 157 (278)
T PF15135_consen 109 VDRQFACSSCDHMWWR--------R-------------VPQRKEVSRCRKCRKRYDPVPCDKMW----------GIAEFH 157 (278)
T ss_pred cceeeeccccchHHHh--------c-------------cCcccccccccccccccCCCcccccc----------ceeeee
Confidence 4577999999865421 1 33344556788887655321 11110 334588
Q ss_pred cCccCcccCCHHH
Q psy16775 220 CTVCTATFGMYRQ 232 (306)
Q Consensus 220 C~~C~~~f~~~~~ 232 (306)
|+.|+..|.-...
T Consensus 158 C~~C~h~F~G~~q 170 (278)
T PF15135_consen 158 CPKCRHNFRGFAQ 170 (278)
T ss_pred cccccccchhhhh
Confidence 8888888875443
No 141
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=41.16 E-value=12 Score=28.27 Aligned_cols=36 Identities=28% Similarity=0.537 Sum_probs=22.5
Q ss_pred CcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccCC
Q psy16775 185 GGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFGM 229 (306)
Q Consensus 185 ~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~ 229 (306)
.-.|+.|+... . ..+..... |...|+|..|++.|..
T Consensus 30 ~~~cP~C~s~~-~-------~k~g~~~~-~~qRyrC~~C~~tf~~ 65 (129)
T COG3677 30 KVNCPRCKSSN-V-------VKIGGIRR-GHQRYKCKSCGSTFTV 65 (129)
T ss_pred cCcCCCCCccc-e-------eeECCccc-cccccccCCcCcceee
Confidence 36799997643 1 22221111 3457999999999974
No 142
>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=40.57 E-value=14 Score=21.01 Aligned_cols=11 Identities=27% Similarity=0.588 Sum_probs=8.2
Q ss_pred ccccccccccC
Q psy16775 145 LNCQKCQFRFF 155 (306)
Q Consensus 145 ~~C~~C~~~f~ 155 (306)
..|+.||+.|.
T Consensus 2 r~C~~Cg~~Yh 12 (36)
T PF05191_consen 2 RICPKCGRIYH 12 (36)
T ss_dssp EEETTTTEEEE
T ss_pred cCcCCCCCccc
Confidence 46888888874
No 143
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=40.34 E-value=13 Score=26.02 Aligned_cols=31 Identities=32% Similarity=0.639 Sum_probs=20.9
Q ss_pred CCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 184 DGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
..|.|+.||+.- +++. +...+.|..|++.|.
T Consensus 35 a~y~CpfCgk~~-------vkR~-------a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 35 AKYFCPFCGKHA-------VKRQ-------AVGIWRCKGCKKTVA 65 (90)
T ss_pred CCccCCCCCCCc-------eeee-------eeEEEEcCCCCCEEe
Confidence 469999998631 1011 334699999999885
No 144
>KOG3408|consensus
Probab=40.13 E-value=19 Score=26.61 Aligned_cols=28 Identities=18% Similarity=0.370 Sum_probs=24.2
Q ss_pred CCCCcccccCcccccccCcHHHHHHHHh
Q psy16775 28 KPAHLSYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 28 ~~~~~~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
.+|-.-|-|-.|.+-|.+...|..|.++
T Consensus 52 lPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 52 LPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 4455679999999999999999999875
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=38.80 E-value=5.3 Score=25.12 Aligned_cols=10 Identities=20% Similarity=0.810 Sum_probs=5.6
Q ss_pred cccccccccc
Q psy16775 145 LNCQKCQFRF 154 (306)
Q Consensus 145 ~~C~~C~~~f 154 (306)
|+|+.|+..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 4566666544
No 146
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=38.50 E-value=20 Score=25.01 Aligned_cols=28 Identities=46% Similarity=0.974 Sum_probs=21.2
Q ss_pred CCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchh
Q psy16775 143 PPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGR 193 (306)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~ 193 (306)
+|-.|..||+.|... .-.+|-.|+.|..
T Consensus 57 ~Pa~CkkCGfef~~~-----------------------~ik~pSRCP~CKS 84 (97)
T COG3357 57 RPARCKKCGFEFRDD-----------------------KIKKPSRCPKCKS 84 (97)
T ss_pred cChhhcccCcccccc-----------------------ccCCcccCCcchh
Confidence 578999999999751 1235889999954
No 147
>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=38.48 E-value=15 Score=21.07 Aligned_cols=13 Identities=38% Similarity=1.002 Sum_probs=10.9
Q ss_pred ceecCccCcccCC
Q psy16775 217 SYKCTVCTATFGM 229 (306)
Q Consensus 217 ~~~C~~C~~~f~~ 229 (306)
.|+|..||..|..
T Consensus 5 ~y~C~~Cg~~fe~ 17 (41)
T smart00834 5 EYRCEDCGHTFEV 17 (41)
T ss_pred EEEcCCCCCEEEE
Confidence 4999999998853
No 148
>PRK14873 primosome assembly protein PriA; Provisional
Probab=37.72 E-value=18 Score=35.62 Aligned_cols=27 Identities=30% Similarity=0.742 Sum_probs=18.0
Q ss_pred hcCCCCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcc
Q psy16775 180 NKGKDGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTAT 226 (306)
Q Consensus 180 h~~~~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~ 226 (306)
|.......|..||.. . .++.|+.||..
T Consensus 405 h~~~~~l~Ch~CG~~-------------------~-~p~~Cp~Cgs~ 431 (665)
T PRK14873 405 PSAGGTPRCRWCGRA-------------------A-PDWRCPRCGSD 431 (665)
T ss_pred ecCCCeeECCCCcCC-------------------C-cCccCCCCcCC
Confidence 334556888888751 1 15889999875
No 149
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=37.06 E-value=19 Score=31.39 Aligned_cols=32 Identities=22% Similarity=0.359 Sum_probs=23.7
Q ss_pred cCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHH
Q psy16775 186 GRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYR 231 (306)
Q Consensus 186 ~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~ 231 (306)
.+|+.|+.....+ |.+.. +.|+.|+.-|.-..
T Consensus 39 ~kc~~C~~~~~~~~l~~~~--------------~vcp~c~~h~rltA 71 (296)
T CHL00174 39 VQCENCYGLNYKKFLKSKM--------------NICEQCGYHLKMSS 71 (296)
T ss_pred eECCCccchhhHHHHHHcC--------------CCCCCCCCCcCCCH
Confidence 5799999877665 55432 88999999887443
No 150
>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=36.61 E-value=20 Score=31.20 Aligned_cols=33 Identities=30% Similarity=0.585 Sum_probs=24.0
Q ss_pred CcCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHH
Q psy16775 185 GGRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYR 231 (306)
Q Consensus 185 ~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~ 231 (306)
-.+|+.|+...... |.... +.|+.||+-|.-..
T Consensus 26 ~~~c~~c~~~~~~~~l~~~~--------------~vc~~c~~h~rl~a 59 (285)
T TIGR00515 26 WTKCPKCGQVLYTKELERNL--------------EVCPKCDHHMRMDA 59 (285)
T ss_pred eeECCCCcchhhHHHHHhhC--------------CCCCCCCCcCcCCH
Confidence 35899999877665 55433 78999999886433
No 151
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=36.30 E-value=22 Score=21.88 Aligned_cols=27 Identities=30% Similarity=0.646 Sum_probs=17.9
Q ss_pred CCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 187 RCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 187 ~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
-|+.||..| | ..|. ..+.|..||..+-
T Consensus 22 fCP~Cg~~~---m-----~~~~-------~r~~C~~Cgyt~~ 48 (50)
T PRK00432 22 FCPRCGSGF---M-----AEHL-------DRWHCGKCGYTEF 48 (50)
T ss_pred cCcCCCcch---h-----eccC-------CcEECCCcCCEEe
Confidence 699998642 1 2232 2499999998763
No 152
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.06 E-value=16 Score=23.51 Aligned_cols=39 Identities=8% Similarity=-0.221 Sum_probs=19.7
Q ss_pred CCCccccCCccccCCCCCCCCCCCCCCCCCcCCccCcCCC
Q psy16775 78 MLKPLKINDEITIIPQPPRPTASSSSSTSSSNNNKVKITP 117 (306)
Q Consensus 78 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~ 117 (306)
...++.|........+++..... ...+...|+.|+..|.
T Consensus 21 ~~~~l~C~g~~~p~~HPrV~L~m-g~~gev~CPYC~t~y~ 59 (62)
T COG4391 21 GDLPLMCPGPEPPNDHPRVFLDM-GDEGEVVCPYCSTRYR 59 (62)
T ss_pred CCeeEEcCCCCCCCCCCEEEEEc-CCCCcEecCccccEEE
Confidence 34455555444444444433322 3334566777777664
No 153
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=35.77 E-value=1.3e+02 Score=26.11 Aligned_cols=52 Identities=23% Similarity=0.512 Sum_probs=31.6
Q ss_pred cccCCCCCccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCCcCCCcchhhhHHH-HHHHHHhhcCCCCCCCC
Q psy16775 137 KMIYNRPPLNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDGGRCPVCGRVYQWK-LLNHVARDHNMSLKPAH 215 (306)
Q Consensus 137 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~ 215 (306)
++|..+-+.+|+.|+....+ -++ =+-|+..|... +..-+ ..-
T Consensus 267 k~~~~~i~LkCplc~~Llrn------p~k----------------------T~cC~~~fc~eci~~al-~ds-------- 309 (427)
T COG5222 267 KMQPPNISLKCPLCHCLLRN------PMK----------------------TPCCGHTFCDECIGTAL-LDS-------- 309 (427)
T ss_pred ccCCCCccccCcchhhhhhC------ccc----------------------CccccchHHHHHHhhhh-hhc--------
Confidence 34455667899998865321 122 13378888776 55443 211
Q ss_pred cceecCccCcc
Q psy16775 216 LSYKCTVCTAT 226 (306)
Q Consensus 216 k~~~C~~C~~~ 226 (306)
.|+|+.|...
T Consensus 310 -Df~CpnC~rk 319 (427)
T COG5222 310 -DFKCPNCSRK 319 (427)
T ss_pred -cccCCCcccc
Confidence 4999999873
No 154
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=35.32 E-value=15 Score=28.49 Aligned_cols=46 Identities=17% Similarity=0.373 Sum_probs=17.8
Q ss_pred hhcCCCCcCCCcchhhhHHH--------HHHHHHhhcCC-------CCCCCCcceecCccCc
Q psy16775 179 ANKGKDGGRCPVCGRVYQWK--------LLNHVARDHNM-------SLKPAHLSYKCTVCTA 225 (306)
Q Consensus 179 ~h~~~~~~~C~~C~~~f~~~--------l~~H~~~~H~~-------~~~~~~k~~~C~~C~~ 225 (306)
.|...-..+|..|++.|-+. +..|+.+.... ..- |+-.++|-.||-
T Consensus 8 ~~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~l-gdt~leCy~Cg~ 68 (152)
T PF09416_consen 8 IHDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPL-GDTVLECYNCGS 68 (152)
T ss_dssp ---CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT--S-B---TTT--
T ss_pred CCCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCC-CCcEEEEEecCC
Confidence 34445556777777776543 44454332211 111 445677877775
No 155
>KOG4124|consensus
Probab=34.91 E-value=6.1 Score=34.77 Aligned_cols=61 Identities=21% Similarity=0.259 Sum_probs=44.6
Q ss_pred CCCcC--CccCcCCCChHHHHHHHHHhcc---------ccccccccCCCCCccccccccccCChHHHHhHhh
Q psy16775 105 TSSSN--NNKVKITPDLEQLRNHMQWIHK---------VKIHPKMIYNRPPLNCQKCQFRFFTDQGLERHLL 165 (306)
Q Consensus 105 ~~~~C--~~C~~~f~~~~~l~~H~~~~H~---------~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 165 (306)
++|+| +.|.+.+.+..-|+.|...-|. -..|..--...++|+|++|.+.++....|.-|+.
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 46888 6799999999999888754444 1223333345789999999999988777776654
No 156
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.92 E-value=15 Score=27.97 Aligned_cols=15 Identities=20% Similarity=0.554 Sum_probs=10.3
Q ss_pred CCccccccccccCCh
Q psy16775 143 PPLNCQKCQFRFFTD 157 (306)
Q Consensus 143 ~~~~C~~C~~~f~~~ 157 (306)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 457888888777543
No 157
>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=33.68 E-value=27 Score=20.63 Aligned_cols=16 Identities=25% Similarity=0.702 Sum_probs=11.4
Q ss_pred ecCccCcccCCHHHHH
Q psy16775 219 KCTVCTATFGMYRQFE 234 (306)
Q Consensus 219 ~C~~C~~~f~~~~~L~ 234 (306)
.|.+||+.|+++....
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 4888888888765443
No 158
>COG1773 Rubredoxin [Energy production and conversion]
Probab=33.31 E-value=19 Score=22.66 Aligned_cols=12 Identities=25% Similarity=1.010 Sum_probs=10.4
Q ss_pred ceecCccCcccC
Q psy16775 217 SYKCTVCTATFG 228 (306)
Q Consensus 217 ~~~C~~C~~~f~ 228 (306)
.|+|.+||..|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 499999999884
No 159
>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=33.29 E-value=17 Score=19.79 Aligned_cols=14 Identities=21% Similarity=0.645 Sum_probs=9.6
Q ss_pred CCCCcccccccccc
Q psy16775 141 NRPPLNCQKCQFRF 154 (306)
Q Consensus 141 ~~~~~~C~~C~~~f 154 (306)
+...|.|+.|+..+
T Consensus 16 D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 16 DGELLVCPECGHEW 29 (30)
T ss_dssp -SSSEEETTTTEEE
T ss_pred cCCEEeCCcccccC
Confidence 45578999988643
No 160
>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=32.77 E-value=25 Score=33.37 Aligned_cols=29 Identities=24% Similarity=0.544 Sum_probs=19.1
Q ss_pred hhcCCCCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcc
Q psy16775 179 ANKGKDGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTAT 226 (306)
Q Consensus 179 ~h~~~~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~ 226 (306)
.|.......|..||.. ...|..|+.||..
T Consensus 234 ~h~~~~~l~Ch~Cg~~-------------------~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 234 YHKKEGKLRCHYCGYQ-------------------EPIPKTCPQCGSE 262 (505)
T ss_pred EecCCCeEEcCCCcCc-------------------CCCCCCCCCCCCC
Confidence 3444667889888852 1225789999864
No 161
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=32.46 E-value=8.3 Score=20.58 Aligned_cols=20 Identities=20% Similarity=0.617 Sum_probs=13.2
Q ss_pred cccCcccccccCcHHHHHHHH
Q psy16775 34 YKCTVCTATFGMYRQFENHVY 54 (306)
Q Consensus 34 y~C~~C~~~f~~~~~L~~H~~ 54 (306)
|.|-.|++.| .....+.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 5789999999 5566666643
No 162
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=32.09 E-value=20 Score=22.51 Aligned_cols=16 Identities=38% Similarity=0.754 Sum_probs=10.4
Q ss_pred CCCcCCCcchhhhHHH
Q psy16775 183 KDGGRCPVCGRVYQWK 198 (306)
Q Consensus 183 ~~~~~C~~C~~~f~~~ 198 (306)
+....|+.|+..+-+.
T Consensus 19 dDiVvCp~CgapyHR~ 34 (54)
T PF14446_consen 19 DDIVVCPECGAPYHRD 34 (54)
T ss_pred CCEEECCCCCCcccHH
Confidence 4456788888765443
No 163
>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=31.98 E-value=17 Score=25.51 Aligned_cols=31 Identities=32% Similarity=0.705 Sum_probs=20.9
Q ss_pred CCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 184 DGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
..|.|+.|++.- +++. +...+.|..|++.|.
T Consensus 34 a~y~CpfCgk~~-------vkR~-------a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKT-------VKRG-------STGIWTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCc-------eEEE-------eeEEEEcCCCCCEEe
Confidence 469999998631 1121 334699999999885
No 164
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=31.30 E-value=25 Score=25.90 Aligned_cols=14 Identities=14% Similarity=0.169 Sum_probs=10.7
Q ss_pred CCCccccccccccC
Q psy16775 142 RPPLNCQKCQFRFF 155 (306)
Q Consensus 142 ~~~~~C~~C~~~f~ 155 (306)
...+.|..|+..|.
T Consensus 68 p~~~~C~~Cg~~~~ 81 (113)
T PRK12380 68 PAQAWCWDCSQVVE 81 (113)
T ss_pred CcEEEcccCCCEEe
Confidence 34589999998775
No 165
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=31.24 E-value=25 Score=30.72 Aligned_cols=32 Identities=28% Similarity=0.659 Sum_probs=23.3
Q ss_pred cCCCcchhhhHHH-HHHHHHhhcCCCCCCCCcceecCccCcccCCHH
Q psy16775 186 GRCPVCGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTVCTATFGMYR 231 (306)
Q Consensus 186 ~~C~~C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~~~~ 231 (306)
.+|+.|+...... |.... +.|+.||+-|.-..
T Consensus 28 ~~c~~c~~~~~~~~l~~~~--------------~vc~~c~~h~rl~a 60 (292)
T PRK05654 28 TKCPSCGQVLYRKELEANL--------------NVCPKCGHHMRISA 60 (292)
T ss_pred eECCCccchhhHHHHHhcC--------------CCCCCCCCCeeCCH
Confidence 5899999876655 54332 78999999886443
No 166
>KOG2907|consensus
Probab=31.23 E-value=25 Score=25.69 Aligned_cols=13 Identities=31% Similarity=0.728 Sum_probs=11.0
Q ss_pred ceecCccCcccCC
Q psy16775 217 SYKCTVCTATFGM 229 (306)
Q Consensus 217 ~~~C~~C~~~f~~ 229 (306)
-|.|+.|++.|..
T Consensus 102 FYTC~kC~~k~~e 114 (116)
T KOG2907|consen 102 FYTCPKCKYKFTE 114 (116)
T ss_pred EEEcCccceeeec
Confidence 4899999999864
No 167
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=31.04 E-value=51 Score=19.27 Aligned_cols=24 Identities=13% Similarity=0.189 Sum_probs=18.1
Q ss_pred ccccCcccccccCc--HHHHHHHHhc
Q psy16775 33 SYKCTVCTATFGMY--RQFENHVYSA 56 (306)
Q Consensus 33 ~y~C~~C~~~f~~~--~~L~~H~~~h 56 (306)
.-+|+.||..|... .+-..|.+-|
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHH
Confidence 46899999987654 5667787765
No 168
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=30.96 E-value=31 Score=21.11 Aligned_cols=26 Identities=38% Similarity=0.925 Sum_probs=17.5
Q ss_pred cCCCcchh-hhHHHHHHHHHhhcCCCCCCCCcceecCccCcc
Q psy16775 186 GRCPVCGR-VYQWKLLNHVARDHNMSLKPAHLSYKCTVCTAT 226 (306)
Q Consensus 186 ~~C~~C~~-~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~ 226 (306)
=.|+.||- +| | ..|.. .|.|..||++
T Consensus 20 ~~CPrCG~gvf---m-----A~H~d-------R~~CGkCgyT 46 (51)
T COG1998 20 RFCPRCGPGVF---M-----ADHKD-------RWACGKCGYT 46 (51)
T ss_pred ccCCCCCCcch---h-----hhcCc-------eeEeccccce
Confidence 46999986 33 2 33421 4899999986
No 169
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=30.65 E-value=27 Score=20.20 Aligned_cols=13 Identities=31% Similarity=0.726 Sum_probs=10.9
Q ss_pred ceecCccCcccCC
Q psy16775 217 SYKCTVCTATFGM 229 (306)
Q Consensus 217 ~~~C~~C~~~f~~ 229 (306)
+|.|..|+..|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 6999999998853
No 170
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=30.32 E-value=40 Score=20.48 Aligned_cols=13 Identities=15% Similarity=0.460 Sum_probs=10.3
Q ss_pred ceecCccCcccCC
Q psy16775 217 SYKCTVCTATFGM 229 (306)
Q Consensus 217 ~~~C~~C~~~f~~ 229 (306)
.|.|+.||+.+.-
T Consensus 20 ~~vC~~Cg~~~~~ 32 (52)
T smart00661 20 RFVCRKCGYEEPI 32 (52)
T ss_pred EEECCcCCCeEEC
Confidence 5999999987643
No 171
>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=30.06 E-value=36 Score=32.36 Aligned_cols=14 Identities=21% Similarity=0.645 Sum_probs=10.0
Q ss_pred CCCCcccccccccc
Q psy16775 141 NRPPLNCQKCQFRF 154 (306)
Q Consensus 141 ~~~~~~C~~C~~~f 154 (306)
......|..||+..
T Consensus 237 ~~~~l~Ch~Cg~~~ 250 (505)
T TIGR00595 237 KEGKLRCHYCGYQE 250 (505)
T ss_pred CCCeEEcCCCcCcC
Confidence 45578899998553
No 172
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.96 E-value=16 Score=30.31 Aligned_cols=27 Identities=11% Similarity=0.288 Sum_probs=19.3
Q ss_pred CCCccccccccccCChHHHHhHhhhcc
Q psy16775 142 RPPLNCQKCQFRFFTDQGLERHLLGSH 168 (306)
Q Consensus 142 ~~~~~C~~C~~~f~~~~~l~~H~~~~h 168 (306)
++.+.||+|+..|.....+..-.++..
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiia 43 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIA 43 (267)
T ss_pred hceeccCcccchhhhhheeccceeEec
Confidence 456899999999987766555555433
No 173
>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=28.43 E-value=30 Score=25.53 Aligned_cols=14 Identities=14% Similarity=0.368 Sum_probs=11.0
Q ss_pred CCCccccccccccC
Q psy16775 142 RPPLNCQKCQFRFF 155 (306)
Q Consensus 142 ~~~~~C~~C~~~f~ 155 (306)
...+.|..|+..|.
T Consensus 68 p~~~~C~~Cg~~~~ 81 (115)
T TIGR00100 68 PVECECEDCSEEVS 81 (115)
T ss_pred CcEEEcccCCCEEe
Confidence 34589999998875
No 174
>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=28.27 E-value=25 Score=20.76 Aligned_cols=14 Identities=36% Similarity=0.990 Sum_probs=9.1
Q ss_pred cceecCccCcccCC
Q psy16775 216 LSYKCTVCTATFGM 229 (306)
Q Consensus 216 k~~~C~~C~~~f~~ 229 (306)
-+|.|..|+..|=.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 37999999999953
No 175
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=28.14 E-value=29 Score=21.34 Aligned_cols=18 Identities=22% Similarity=0.429 Sum_probs=14.0
Q ss_pred CcceecCccCcccCCHHH
Q psy16775 215 HLSYKCTVCTATFGMYRQ 232 (306)
Q Consensus 215 ~k~~~C~~C~~~f~~~~~ 232 (306)
++.+.|..||..|.....
T Consensus 2 Dk~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAG 19 (49)
T ss_pred CeeEEcccCCCeEEEehh
Confidence 356999999999976544
No 176
>KOG1842|consensus
Probab=28.09 E-value=34 Score=31.40 Aligned_cols=27 Identities=19% Similarity=0.115 Sum_probs=24.9
Q ss_pred CCCcCCccCcCCCChHHHHHHHHHhcc
Q psy16775 105 TSSSNNNKVKITPDLEQLRNHMQWIHK 131 (306)
Q Consensus 105 ~~~~C~~C~~~f~~~~~l~~H~~~~H~ 131 (306)
..|.|++|...|.+...|..|....|.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcc
Confidence 459999999999999999999998887
No 177
>KOG4727|consensus
Probab=27.25 E-value=37 Score=26.77 Aligned_cols=25 Identities=8% Similarity=-0.000 Sum_probs=21.7
Q ss_pred CCCCCcCCccCcCCCChHHHHHHHH
Q psy16775 103 SSTSSSNNNKVKITPDLEQLRNHMQ 127 (306)
Q Consensus 103 ~~~~~~C~~C~~~f~~~~~l~~H~~ 127 (306)
....|.|.+|+.+|....++..|+.
T Consensus 72 q~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 72 QKGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred ccCceeeeecceeehhhHHHHHHhc
Confidence 3356999999999999999999984
No 178
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=27.16 E-value=12 Score=36.40 Aligned_cols=58 Identities=17% Similarity=0.147 Sum_probs=38.7
Q ss_pred CcCCccCcCCCChHHHHHHHHHhccccccccccCCCCC-ccccccccccCChHHHHhHhhhccCCcchhhHHhhhcCCCC
Q psy16775 107 SSNNNKVKITPDLEQLRNHMQWIHKVKIHPKMIYNRPP-LNCQKCQFRFFTDQGLERHLLGSHGLVTSSMQEAANKGKDG 185 (306)
Q Consensus 107 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~h~~~~~~~~~-~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~h~~~~~ 185 (306)
..|..||=.|+-..+|=-=.. +|.-+. -.|+.|.+.|....+-+-|.+ |
T Consensus 124 ~~CT~CGPRfTIi~alPYDR~-----------nTsM~~F~lC~~C~~EY~dP~nRRfHAQ-------------------p 173 (750)
T COG0068 124 INCTNCGPRFTIIEALPYDRE-----------NTSMADFPLCPFCDKEYKDPLNRRFHAQ-------------------P 173 (750)
T ss_pred cccCCCCcceeeeccCCCCcc-----------cCccccCcCCHHHHHHhcCccccccccc-------------------c
Confidence 458999998865443322211 112222 379999999998888776665 7
Q ss_pred cCCCcchhh
Q psy16775 186 GRCPVCGRV 194 (306)
Q Consensus 186 ~~C~~C~~~ 194 (306)
..|+.||-.
T Consensus 174 ~aCp~CGP~ 182 (750)
T COG0068 174 IACPKCGPH 182 (750)
T ss_pred ccCcccCCC
Confidence 899999864
No 179
>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=27.06 E-value=1.1e+02 Score=18.19 Aligned_cols=28 Identities=36% Similarity=0.882 Sum_probs=17.1
Q ss_pred CcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCc
Q psy16775 185 GGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTA 225 (306)
Q Consensus 185 ~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~ 225 (306)
.+.|+.||.. . +. . -. +...|+|..|++
T Consensus 18 g~~CP~Cg~~-~-----~~-~-~~-----~~~~~~C~~C~~ 45 (46)
T PF12760_consen 18 GFVCPHCGST-K-----HY-R-LK-----TRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCe-e-----eE-E-eC-----CCCeEECCCCCC
Confidence 3789999864 1 10 0 00 234699999985
No 180
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=26.88 E-value=33 Score=25.45 Aligned_cols=14 Identities=29% Similarity=0.764 Sum_probs=10.8
Q ss_pred CCCccccccccccC
Q psy16775 142 RPPLNCQKCQFRFF 155 (306)
Q Consensus 142 ~~~~~C~~C~~~f~ 155 (306)
...+.|..|+..|.
T Consensus 69 p~~~~C~~Cg~~~~ 82 (117)
T PRK00564 69 KVELECKDCSHVFK 82 (117)
T ss_pred CCEEEhhhCCCccc
Confidence 34589999997775
No 181
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.40 E-value=57 Score=28.46 Aligned_cols=23 Identities=26% Similarity=0.443 Sum_probs=11.7
Q ss_pred ceecCccCcccCCHHHHHhhHhh
Q psy16775 217 SYKCTVCTATFGMYRQFENHVYS 239 (306)
Q Consensus 217 ~~~C~~C~~~f~~~~~L~~H~~~ 239 (306)
.|+|+.|...|-.--+.-.|...
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~L 410 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHETL 410 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHHH
Confidence 35555555555544444444433
No 182
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=25.93 E-value=38 Score=24.40 Aligned_cols=28 Identities=18% Similarity=0.195 Sum_probs=22.4
Q ss_pred CCCCCcceecCccCcccCCHHHHHhhHh
Q psy16775 211 LKPAHLSYKCTVCTATFGMYRQFENHVY 238 (306)
Q Consensus 211 ~~~~~k~~~C~~C~~~f~~~~~L~~H~~ 238 (306)
+.||..-+-|-.|.+-|.+...|..|.+
T Consensus 49 ~lPGlGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 49 ELPGLGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CCCCCceeeeehhHHHHHHHHHHHHHhc
Confidence 3446666889999999999999998875
No 183
>KOG1842|consensus
Probab=25.92 E-value=37 Score=31.19 Aligned_cols=30 Identities=20% Similarity=0.187 Sum_probs=27.0
Q ss_pred CCccccccccccCChHHHHhHhhhccCCcc
Q psy16775 143 PPLNCQKCQFRFFTDQGLERHLLGSHGLVT 172 (306)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 172 (306)
..|.||+|...|.+...|..|....|+.+.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 469999999999999999999999887554
No 184
>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=25.79 E-value=49 Score=30.91 Aligned_cols=26 Identities=23% Similarity=0.024 Sum_probs=23.6
Q ss_pred CCcCCccCcCCCChHHHHHHHHHhcc
Q psy16775 106 SSSNNNKVKITPDLEQLRNHMQWIHK 131 (306)
Q Consensus 106 ~~~C~~C~~~f~~~~~l~~H~~~~H~ 131 (306)
.+.|+.|.+.|.....+..|+...|.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~ 82 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHP 82 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhh
Confidence 47899999999999999999987776
No 185
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=25.33 E-value=25 Score=24.68 Aligned_cols=31 Identities=35% Similarity=0.708 Sum_probs=20.5
Q ss_pred CCcCCCcchhhhHHHHHHHHHhhcCCCCCCCCcceecCccCcccC
Q psy16775 184 DGGRCPVCGRVYQWKLLNHVARDHNMSLKPAHLSYKCTVCTATFG 228 (306)
Q Consensus 184 ~~~~C~~C~~~f~~~l~~H~~~~H~~~~~~~~k~~~C~~C~~~f~ 228 (306)
..|.|+.|++.-. ++. +...+.|..|++.|.
T Consensus 35 a~y~CpfCgk~~v-------kR~-------a~GIW~C~~C~~~~A 65 (90)
T PRK03976 35 AKHVCPVCGRPKV-------KRV-------GTGIWECRKCGAKFA 65 (90)
T ss_pred cCccCCCCCCCce-------EEE-------EEEEEEcCCCCCEEe
Confidence 4689999976311 111 334699999999885
No 186
>KOG0717|consensus
Probab=25.28 E-value=41 Score=31.10 Aligned_cols=21 Identities=33% Similarity=0.680 Sum_probs=19.3
Q ss_pred eecCccCcccCCHHHHHhhHh
Q psy16775 218 YKCTVCTATFGMYRQFENHVY 238 (306)
Q Consensus 218 ~~C~~C~~~f~~~~~L~~H~~ 238 (306)
+-|.+|+++|.+...|+.|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 889999999999999999964
No 187
>PRK14873 primosome assembly protein PriA; Provisional
Probab=24.83 E-value=44 Score=32.95 Aligned_cols=11 Identities=45% Similarity=0.975 Sum_probs=8.9
Q ss_pred CCcCCCcchhh
Q psy16775 184 DGGRCPVCGRV 194 (306)
Q Consensus 184 ~~~~C~~C~~~ 194 (306)
.++.|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 37899999875
No 188
>KOG2071|consensus
Probab=24.60 E-value=44 Score=31.93 Aligned_cols=26 Identities=15% Similarity=0.293 Sum_probs=21.6
Q ss_pred CcceecCccCcccCCHHHHHhhHhhh
Q psy16775 215 HLSYKCTVCTATFGMYRQFENHVYSA 240 (306)
Q Consensus 215 ~k~~~C~~C~~~f~~~~~L~~H~~~h 240 (306)
..+-+|..||.+|.......+||..|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhh
Confidence 34689999999999988888887765
No 189
>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=24.12 E-value=30 Score=28.22 Aligned_cols=52 Identities=17% Similarity=0.385 Sum_probs=30.6
Q ss_pred CcCCCc----chhhhHHH-HHHHHHhhcCCCCCCCCcceecCc----cCcccCCHHHHHhhHhhhcCCC
Q psy16775 185 GGRCPV----CGRVYQWK-LLNHVARDHNMSLKPAHLSYKCTV----CTATFGMYRQFENHVYSAHSVA 244 (306)
Q Consensus 185 ~~~C~~----C~~~f~~~-l~~H~~~~H~~~~~~~~k~~~C~~----C~~~f~~~~~L~~H~~~hh~~~ 244 (306)
.|.|.. |...+... +..|. ... .-+||.|+. |+..= ....|..|....|...
T Consensus 14 ~~pC~~~~~GC~~~~~~~~~~~HE-~~C------~~~p~~CP~~~~~C~~~G-~~~~l~~Hl~~~H~~~ 74 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPYSEKREHE-EEC------PFRPCSCPFPGSGCDWQG-SYKELLDHLRDKHSWN 74 (198)
T ss_dssp -EE-CCGGGT---EE-GGGHHHHH-HT-------TTSEEE-SSSSTT---EE-ECCCHHHHHHHHTTTS
T ss_pred eecCCCCCCCCcccccccChhhHh-ccC------CCcCCcCCCCCCCccccC-CHHHHHHHHHHHCCCc
Confidence 466765 88887777 88998 555 456899988 77653 3468999999888764
No 190
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=24.05 E-value=34 Score=19.51 Aligned_cols=12 Identities=33% Similarity=0.678 Sum_probs=6.7
Q ss_pred cceecCccCccc
Q psy16775 216 LSYKCTVCTATF 227 (306)
Q Consensus 216 k~~~C~~C~~~f 227 (306)
+.|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 469999999654
No 191
>PRK05580 primosome assembly protein PriA; Validated
Probab=23.88 E-value=42 Score=33.22 Aligned_cols=13 Identities=31% Similarity=0.582 Sum_probs=8.2
Q ss_pred cCCCCcCCCcchh
Q psy16775 181 KGKDGGRCPVCGR 193 (306)
Q Consensus 181 ~~~~~~~C~~C~~ 193 (306)
.......|..||.
T Consensus 404 ~~~~~l~Ch~Cg~ 416 (679)
T PRK05580 404 RFQRRLRCHHCGY 416 (679)
T ss_pred CCCCeEECCCCcC
Confidence 3345677777774
No 192
>KOG2636|consensus
Probab=23.67 E-value=52 Score=30.27 Aligned_cols=27 Identities=22% Similarity=0.752 Sum_probs=0.0
Q ss_pred hhcCCCCCCCCcceecCccC-cccCCHHHHHhh
Q psy16775 205 RDHNMSLKPAHLSYKCTVCT-ATFGMYRQFENH 236 (306)
Q Consensus 205 ~~H~~~~~~~~k~~~C~~C~-~~f~~~~~L~~H 236 (306)
+.|..+.. |.|.+|| +++.-+..+.+|
T Consensus 394 KLHGL~~e-----y~CEICGNy~Y~GrkaF~RH 421 (497)
T KOG2636|consen 394 KLHGLDIE-----YNCEICGNYVYKGRKAFDRH 421 (497)
T ss_pred hhcCCCcc-----cceeeccCccccCcHHHHHH
No 193
>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=23.49 E-value=56 Score=30.53 Aligned_cols=28 Identities=18% Similarity=0.402 Sum_probs=24.2
Q ss_pred ceecCccCcccCCHHHHHhhHhhhcCCC
Q psy16775 217 SYKCTVCTATFGMYRQFENHVYSAHSVA 244 (306)
Q Consensus 217 ~~~C~~C~~~f~~~~~L~~H~~~hh~~~ 244 (306)
-+.|+.|.+.|.....+..|+..-|...
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 4789999999999999999998777654
No 194
>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=23.18 E-value=28 Score=22.77 Aligned_cols=12 Identities=33% Similarity=0.681 Sum_probs=4.8
Q ss_pred CccccccccccC
Q psy16775 144 PLNCQKCQFRFF 155 (306)
Q Consensus 144 ~~~C~~C~~~f~ 155 (306)
.-.|.+|++.|.
T Consensus 9 ~~~C~~C~~~F~ 20 (69)
T PF01363_consen 9 ASNCMICGKKFS 20 (69)
T ss_dssp -SB-TTT--B-B
T ss_pred CCcCcCcCCcCC
Confidence 346777877774
No 195
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=22.90 E-value=38 Score=20.57 Aligned_cols=11 Identities=36% Similarity=1.141 Sum_probs=9.4
Q ss_pred eecCccCcccC
Q psy16775 218 YKCTVCTATFG 228 (306)
Q Consensus 218 ~~C~~C~~~f~ 228 (306)
|+|.+|++.|.
T Consensus 2 y~C~~CgyvYd 12 (47)
T PF00301_consen 2 YQCPVCGYVYD 12 (47)
T ss_dssp EEETTTSBEEE
T ss_pred cCCCCCCEEEc
Confidence 88999998874
No 196
>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=22.85 E-value=31 Score=20.14 Aligned_cols=12 Identities=33% Similarity=0.913 Sum_probs=8.2
Q ss_pred CCcccccccccc
Q psy16775 143 PPLNCQKCQFRF 154 (306)
Q Consensus 143 ~~~~C~~C~~~f 154 (306)
.+-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 356777777765
No 197
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=22.83 E-value=41 Score=30.90 Aligned_cols=17 Identities=35% Similarity=0.741 Sum_probs=11.7
Q ss_pred CCCCcCCCcchhhhHHH
Q psy16775 182 GKDGGRCPVCGRVYQWK 198 (306)
Q Consensus 182 ~~~~~~C~~C~~~f~~~ 198 (306)
|..-|+|+.||+.+...
T Consensus 364 G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 364 GRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCCcccccccccCCcc
Confidence 33478888888776654
No 198
>PTZ00448 hypothetical protein; Provisional
Probab=22.63 E-value=55 Score=29.43 Aligned_cols=23 Identities=22% Similarity=0.362 Sum_probs=21.2
Q ss_pred ccccCcccccccCcHHHHHHHHh
Q psy16775 33 SYKCTVCTATFGMYRQFENHVYS 55 (306)
Q Consensus 33 ~y~C~~C~~~f~~~~~L~~H~~~ 55 (306)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 68999999999999999999986
No 199
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=22.43 E-value=33 Score=21.28 Aligned_cols=11 Identities=18% Similarity=0.625 Sum_probs=5.9
Q ss_pred ecCccCcccCC
Q psy16775 219 KCTVCTATFGM 229 (306)
Q Consensus 219 ~C~~C~~~f~~ 229 (306)
.|++|++.|..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999999874
No 200
>KOG0717|consensus
Probab=22.01 E-value=44 Score=30.93 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=19.2
Q ss_pred ccccccccccCChHHHHhHhhh
Q psy16775 145 LNCQKCQFRFFTDQGLERHLLG 166 (306)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~ 166 (306)
+-|.+|+++|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999988764
No 201
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=21.94 E-value=37 Score=20.93 Aligned_cols=11 Identities=27% Similarity=1.096 Sum_probs=9.6
Q ss_pred eecCccCcccC
Q psy16775 218 YKCTVCTATFG 228 (306)
Q Consensus 218 ~~C~~C~~~f~ 228 (306)
|+|.+||+.|.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 88999998875
No 202
>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=21.84 E-value=17 Score=26.80 Aligned_cols=14 Identities=21% Similarity=0.619 Sum_probs=10.1
Q ss_pred CCccccccccccCC
Q psy16775 143 PPLNCQKCQFRFFT 156 (306)
Q Consensus 143 ~~~~C~~C~~~f~~ 156 (306)
..+.|..|++.|.-
T Consensus 69 ~~~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 69 ARARCRDCGHEFEP 82 (113)
T ss_dssp -EEEETTTS-EEEC
T ss_pred CcEECCCCCCEEec
Confidence 34899999999964
No 203
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.31 E-value=31 Score=26.74 Aligned_cols=15 Identities=33% Similarity=0.758 Sum_probs=10.3
Q ss_pred CCCccccccccccCCh
Q psy16775 142 RPPLNCQKCQFRFFTD 157 (306)
Q Consensus 142 ~~~~~C~~C~~~f~~~ 157 (306)
.-+|.|. |+..|.+.
T Consensus 115 ~~~Y~C~-C~q~~l~~ 129 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI 129 (156)
T ss_pred ceeEEee-cCCccchh
Confidence 4468888 88776654
No 204
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=20.74 E-value=49 Score=24.36 Aligned_cols=14 Identities=21% Similarity=0.385 Sum_probs=10.5
Q ss_pred CCCccccccccccC
Q psy16775 142 RPPLNCQKCQFRFF 155 (306)
Q Consensus 142 ~~~~~C~~C~~~f~ 155 (306)
...+.|..|+..|.
T Consensus 68 p~~~~C~~Cg~~~~ 81 (114)
T PRK03681 68 EAECWCETCQQYVT 81 (114)
T ss_pred CcEEEcccCCCeee
Confidence 34589999997664
No 205
>KOG4727|consensus
Probab=20.51 E-value=51 Score=26.07 Aligned_cols=23 Identities=26% Similarity=0.509 Sum_probs=20.6
Q ss_pred cccccCcccccccCcHHHHHHHH
Q psy16775 32 LSYKCTVCTATFGMYRQFENHVY 54 (306)
Q Consensus 32 ~~y~C~~C~~~f~~~~~L~~H~~ 54 (306)
.-|-|.+|+..|....++.-|+.
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred CceeeeecceeehhhHHHHHHhc
Confidence 45999999999999999999974
No 206
>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=20.27 E-value=56 Score=20.20 Aligned_cols=14 Identities=36% Similarity=0.835 Sum_probs=8.8
Q ss_pred CcCCCcchhhhHHH
Q psy16775 185 GGRCPVCGRVYQWK 198 (306)
Q Consensus 185 ~~~C~~C~~~f~~~ 198 (306)
.+.|..||..|-..
T Consensus 18 k~~Cr~Cg~~~C~~ 31 (57)
T cd00065 18 RHHCRNCGRIFCSK 31 (57)
T ss_pred ccccCcCcCCcChH
Confidence 45666677666655
No 207
>KOG1280|consensus
Probab=20.12 E-value=98 Score=27.55 Aligned_cols=27 Identities=15% Similarity=-0.069 Sum_probs=24.1
Q ss_pred CCCcCCccCcCCCChHHHHHHHHHhcc
Q psy16775 105 TSSSNNNKVKITPDLEQLRNHMQWIHK 131 (306)
Q Consensus 105 ~~~~C~~C~~~f~~~~~l~~H~~~~H~ 131 (306)
..|.|+.|+.+=.+...|..|....|.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hp 104 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHP 104 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCc
Confidence 369999999999999999999987876
No 208
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=20.02 E-value=12 Score=21.10 Aligned_cols=11 Identities=36% Similarity=0.682 Sum_probs=5.1
Q ss_pred CcCCCcchhhh
Q psy16775 185 GGRCPVCGRVY 195 (306)
Q Consensus 185 ~~~C~~C~~~f 195 (306)
+..|..||-.+
T Consensus 21 ~isC~~CGPr~ 31 (35)
T PF07503_consen 21 FISCTNCGPRY 31 (35)
T ss_dssp T--BTTCC-SC
T ss_pred CccCCCCCCCE
Confidence 45677777543
Done!