Query psy6598
Match_columns 154
No_of_seqs 216 out of 1616
Neff 10.3
Searched_HMMs 46136
Date Fri Aug 16 22:11:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6598.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6598hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 2.7E-25 5.8E-30 152.9 5.8 105 2-112 160-264 (279)
2 KOG2462|consensus 99.9 3.8E-24 8.1E-29 147.3 2.8 79 3-85 187-265 (279)
3 KOG3576|consensus 99.8 1.2E-19 2.5E-24 120.2 0.9 84 3-90 117-200 (267)
4 KOG3623|consensus 99.7 3.3E-19 7.2E-24 136.4 1.8 79 2-84 893-971 (1007)
5 KOG1074|consensus 99.6 3.1E-16 6.7E-21 121.8 1.1 52 3-58 353-404 (958)
6 KOG3623|consensus 99.5 5.2E-15 1.1E-19 113.8 2.6 78 4-85 241-331 (1007)
7 KOG3576|consensus 99.5 1.5E-14 3.3E-19 96.1 2.5 85 2-90 144-239 (267)
8 PHA00733 hypothetical protein 99.4 2.2E-13 4.7E-18 86.4 3.7 83 1-89 38-125 (128)
9 KOG1074|consensus 99.3 2.1E-13 4.6E-18 106.3 1.4 85 3-91 605-696 (958)
10 KOG3608|consensus 99.3 2.2E-12 4.8E-17 92.3 3.8 79 4-87 264-345 (467)
11 KOG3608|consensus 99.2 1.2E-11 2.5E-16 88.7 5.1 88 1-91 290-380 (467)
12 PHA02768 hypothetical protein; 99.2 9E-12 1.9E-16 66.3 2.0 42 34-79 6-47 (55)
13 PHA02768 hypothetical protein; 99.1 5.2E-11 1.1E-15 63.4 2.0 44 3-52 5-48 (55)
14 PLN03086 PRLI-interacting fact 99.1 4E-10 8.7E-15 86.7 6.5 92 1-102 451-552 (567)
15 PF13465 zf-H2C2_2: Zinc-finge 99.0 2.1E-10 4.6E-15 52.4 2.5 24 51-74 2-25 (26)
16 KOG3993|consensus 98.9 7.8E-10 1.7E-14 81.0 2.7 86 4-93 268-386 (500)
17 PF13465 zf-H2C2_2: Zinc-finge 98.9 2.2E-09 4.8E-14 49.0 3.0 26 20-47 1-26 (26)
18 PHA00733 hypothetical protein 98.8 6E-09 1.3E-13 66.2 4.5 54 1-60 71-124 (128)
19 PHA00616 hypothetical protein 98.8 4.5E-09 9.7E-14 53.4 1.9 34 3-38 1-34 (44)
20 PLN03086 PRLI-interacting fact 98.7 2.6E-08 5.7E-13 76.9 6.0 79 2-88 477-565 (567)
21 PHA00732 hypothetical protein 98.5 6.4E-08 1.4E-12 56.2 2.5 48 3-60 1-49 (79)
22 KOG3993|consensus 98.5 8.2E-08 1.8E-12 70.7 2.8 52 3-58 295-379 (500)
23 PHA00732 hypothetical protein 98.5 1.6E-07 3.5E-12 54.5 3.0 46 33-86 1-47 (79)
24 PHA00616 hypothetical protein 98.4 7.1E-08 1.5E-12 49.0 1.0 34 33-68 1-34 (44)
25 PF00096 zf-C2H2: Zinc finger, 98.3 3.7E-07 8.1E-12 40.3 2.0 22 64-85 1-22 (23)
26 COG5189 SFP1 Putative transcri 98.3 2.6E-07 5.7E-12 65.8 1.3 54 31-84 347-419 (423)
27 PF00096 zf-C2H2: Zinc finger, 98.3 1.1E-06 2.3E-11 38.7 2.5 23 4-28 1-23 (23)
28 PF05605 zf-Di19: Drought indu 98.2 2.2E-06 4.7E-11 46.2 3.9 49 34-87 3-53 (54)
29 PF13894 zf-C2H2_4: C2H2-type 98.2 1.2E-06 2.7E-11 38.8 2.3 24 64-87 1-24 (24)
30 PF13912 zf-C2H2_6: C2H2-type 98.1 1.8E-06 3.8E-11 39.6 1.7 25 63-87 1-25 (27)
31 PF12756 zf-C2H2_2: C2H2 type 98.0 3.3E-06 7.2E-11 51.1 2.5 74 5-87 1-74 (100)
32 PF05605 zf-Di19: Drought indu 98.0 1.2E-05 2.7E-10 43.2 3.9 50 3-59 2-53 (54)
33 PF13912 zf-C2H2_6: C2H2-type 97.9 1E-05 2.2E-10 37.0 2.1 25 3-29 1-25 (27)
34 COG5189 SFP1 Putative transcri 97.9 4.7E-06 1E-10 59.6 0.9 54 1-56 347-419 (423)
35 PF13894 zf-C2H2_4: C2H2-type 97.9 1.8E-05 3.9E-10 34.9 2.6 23 4-28 1-23 (24)
36 PF09237 GAGA: GAGA factor; I 97.6 4.8E-05 1E-09 39.6 2.2 40 52-91 12-52 (54)
37 smart00355 ZnF_C2H2 zinc finge 97.4 0.00011 2.5E-09 32.7 2.0 23 64-86 1-23 (26)
38 PF09237 GAGA: GAGA factor; I 97.4 0.00026 5.7E-09 36.9 3.0 33 29-63 20-52 (54)
39 PF13909 zf-H2C2_5: C2H2-type 97.4 0.00018 3.8E-09 31.8 2.0 23 64-87 1-23 (24)
40 smart00355 ZnF_C2H2 zinc finge 97.3 0.00024 5.2E-09 31.5 2.4 24 4-29 1-24 (26)
41 PRK04860 hypothetical protein; 97.2 0.00026 5.6E-09 46.7 2.5 39 33-77 119-157 (160)
42 PF12874 zf-met: Zinc-finger o 97.2 0.00029 6.3E-09 31.4 1.6 22 64-85 1-22 (25)
43 PF12874 zf-met: Zinc-finger o 97.1 0.0005 1.1E-08 30.6 2.0 22 4-27 1-22 (25)
44 PF13909 zf-H2C2_5: C2H2-type 96.9 0.0013 2.8E-08 29.0 2.3 23 4-29 1-23 (24)
45 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.00069 1.5E-08 30.8 0.1 22 64-85 2-23 (27)
46 PF13913 zf-C2HC_2: zinc-finge 96.3 0.0035 7.5E-08 28.0 1.7 21 64-85 3-23 (25)
47 PF12171 zf-C2H2_jaz: Zinc-fin 96.3 0.0011 2.3E-08 30.2 -0.0 21 4-26 2-22 (27)
48 COG5048 FOG: Zn-finger [Genera 96.0 0.0018 3.9E-08 48.8 -0.1 57 10-66 294-354 (467)
49 COG5236 Uncharacterized conser 95.5 0.055 1.2E-06 39.9 5.9 83 5-94 222-312 (493)
50 smart00451 ZnF_U1 U1-like zinc 95.4 0.012 2.5E-07 28.3 1.7 23 63-85 3-25 (35)
51 COG5048 FOG: Zn-finger [Genera 95.2 0.0066 1.4E-07 45.7 0.5 62 32-95 288-355 (467)
52 smart00451 ZnF_U1 U1-like zinc 95.0 0.021 4.7E-07 27.3 1.9 22 3-26 3-24 (35)
53 KOG1146|consensus 94.7 0.013 2.9E-07 49.8 1.0 75 10-86 441-541 (1406)
54 PF13913 zf-C2HC_2: zinc-finge 94.5 0.04 8.6E-07 24.5 2.0 20 4-26 3-22 (25)
55 KOG2482|consensus 94.2 0.071 1.5E-06 39.2 3.6 23 3-27 195-217 (423)
56 COG5236 Uncharacterized conser 94.1 0.038 8.2E-07 40.7 2.1 27 3-29 151-177 (493)
57 KOG1146|consensus 93.8 0.016 3.5E-07 49.3 -0.2 81 4-93 1261-1358(1406)
58 KOG2893|consensus 93.7 0.021 4.6E-07 39.8 0.3 52 31-89 9-60 (341)
59 PF12013 DUF3505: Protein of u 93.6 0.21 4.5E-06 30.8 4.6 25 64-88 81-109 (109)
60 KOG2231|consensus 93.6 0.084 1.8E-06 42.4 3.4 13 17-29 126-139 (669)
61 COG4049 Uncharacterized protei 93.4 0.04 8.6E-07 29.3 0.9 33 58-90 12-44 (65)
62 PF12756 zf-C2H2_2: C2H2 type 93.4 0.098 2.1E-06 31.2 2.8 20 35-56 52-71 (100)
63 KOG4173|consensus 92.9 0.065 1.4E-06 36.6 1.6 81 4-89 80-172 (253)
64 cd00350 rubredoxin_like Rubred 92.4 0.1 2.2E-06 24.8 1.6 10 62-71 16-25 (33)
65 KOG2231|consensus 92.0 0.21 4.6E-06 40.2 3.7 71 5-85 184-261 (669)
66 KOG2893|consensus 92.0 0.052 1.1E-06 37.9 0.3 45 8-58 13-58 (341)
67 PRK04860 hypothetical protein; 91.0 0.2 4.4E-06 33.2 2.3 36 63-102 119-154 (160)
68 PF02892 zf-BED: BED zinc fing 90.7 0.3 6.4E-06 24.8 2.4 26 60-85 13-42 (45)
69 KOG4173|consensus 90.1 0.078 1.7E-06 36.2 -0.2 53 5-59 108-171 (253)
70 PF12013 DUF3505: Protein of u 90.0 0.93 2E-05 27.9 4.5 25 34-60 81-109 (109)
71 KOG2482|consensus 89.0 0.41 8.9E-06 35.4 2.7 81 4-88 145-304 (423)
72 smart00614 ZnF_BED BED zinc fi 88.6 0.43 9.2E-06 24.9 2.0 21 64-84 19-44 (50)
73 PF05443 ROS_MUCR: ROS/MUCR tr 86.6 0.46 9.9E-06 30.4 1.6 26 62-90 71-96 (132)
74 KOG2186|consensus 85.9 0.56 1.2E-05 33.2 1.8 47 4-57 4-50 (276)
75 KOG2785|consensus 85.7 1.2 2.6E-05 33.4 3.5 74 3-85 166-242 (390)
76 cd00729 rubredoxin_SM Rubredox 85.1 0.67 1.4E-05 22.2 1.4 9 63-71 18-26 (34)
77 KOG2785|consensus 84.8 1.1 2.4E-05 33.7 3.0 22 3-26 68-89 (390)
78 TIGR00373 conserved hypothetic 84.2 1.6 3.4E-05 28.9 3.3 39 28-77 104-142 (158)
79 PF09986 DUF2225: Uncharacteri 83.4 0.43 9.3E-06 33.2 0.4 13 64-76 49-61 (214)
80 PF13717 zinc_ribbon_4: zinc-r 82.5 1.8 4E-05 20.9 2.3 32 35-73 4-35 (36)
81 COG4049 Uncharacterized protei 82.3 0.77 1.7E-05 24.5 1.0 27 28-56 12-38 (65)
82 COG1592 Rubrerythrin [Energy p 82.3 1 2.2E-05 30.0 1.8 25 32-71 133-157 (166)
83 PF04959 ARS2: Arsenite-resist 81.7 0.63 1.4E-05 32.4 0.7 29 62-90 76-104 (214)
84 smart00659 RPOLCX RNA polymera 81.6 1.6 3.4E-05 22.3 2.0 26 34-72 3-28 (44)
85 PF13719 zinc_ribbon_5: zinc-r 81.6 1.7 3.8E-05 21.1 2.1 28 41-73 8-35 (37)
86 smart00531 TFIIE Transcription 81.5 2.3 4.9E-05 27.7 3.3 41 30-76 96-136 (147)
87 smart00734 ZnF_Rad18 Rad18-lik 81.2 1.3 2.9E-05 19.7 1.5 21 64-85 2-22 (26)
88 KOG2186|consensus 81.0 1.3 2.7E-05 31.5 2.0 58 33-95 3-60 (276)
89 TIGR02098 MJ0042_CXXC MJ0042 f 80.6 1.9 4.2E-05 20.9 2.1 10 64-73 26-35 (38)
90 PRK06266 transcription initiat 80.5 2.1 4.5E-05 28.9 2.9 37 30-77 114-150 (178)
91 KOG4167|consensus 80.4 0.37 8E-06 39.1 -0.8 26 63-88 792-817 (907)
92 TIGR00622 ssl1 transcription f 80.3 3.2 7E-05 25.7 3.4 79 3-87 15-105 (112)
93 KOG4124|consensus 79.8 0.29 6.3E-06 36.2 -1.5 53 31-83 347-418 (442)
94 PRK00398 rpoP DNA-directed RNA 76.9 1 2.2E-05 23.0 0.5 11 63-73 21-31 (46)
95 PF05290 Baculo_IE-1: Baculovi 76.0 1.5 3.2E-05 28.0 1.1 25 49-78 112-136 (140)
96 PF09986 DUF2225: Uncharacteri 75.8 0.57 1.2E-05 32.6 -0.9 44 1-48 3-61 (214)
97 KOG4167|consensus 75.6 0.79 1.7E-05 37.3 -0.3 24 4-29 793-816 (907)
98 PF02176 zf-TRAF: TRAF-type zi 75.0 2.7 5.8E-05 22.5 1.8 44 31-75 7-54 (60)
99 PF15269 zf-C2H2_7: Zinc-finge 74.9 2.7 5.8E-05 21.4 1.6 22 4-27 21-42 (54)
100 TIGR02605 CxxC_CxxC_SSSS putat 72.7 1.4 3E-05 23.0 0.3 7 64-70 27-33 (52)
101 PF10571 UPF0547: Uncharacteri 71.6 2.1 4.6E-05 19.1 0.7 10 65-74 16-25 (26)
102 PF09538 FYDLN_acid: Protein o 71.1 2.2 4.8E-05 26.3 1.0 30 34-76 10-39 (108)
103 COG1996 RPC10 DNA-directed RNA 70.4 3.6 7.8E-05 21.5 1.5 11 33-45 6-16 (49)
104 COG1997 RPL43A Ribosomal prote 70.2 2.1 4.5E-05 25.2 0.7 33 32-76 34-66 (89)
105 PF05443 ROS_MUCR: ROS/MUCR tr 70.1 3.1 6.8E-05 26.6 1.5 21 5-30 74-94 (132)
106 KOG4377|consensus 69.4 5 0.00011 30.7 2.6 26 64-89 402-429 (480)
107 COG2888 Predicted Zn-ribbon RN 68.7 6.6 0.00014 21.3 2.3 33 32-71 26-58 (61)
108 PRK09678 DNA-binding transcrip 64.1 1.8 3.8E-05 24.6 -0.4 18 32-49 26-43 (72)
109 PF08790 zf-LYAR: LYAR-type C2 61.7 1.6 3.4E-05 19.9 -0.7 19 4-25 1-19 (28)
110 KOG1842|consensus 60.5 5.1 0.00011 30.9 1.3 30 62-91 14-43 (505)
111 PF11789 zf-Nse: Zinc-finger o 60.1 7.3 0.00016 21.0 1.6 31 32-68 23-53 (57)
112 KOG2593|consensus 59.5 12 0.00026 28.9 3.1 38 29-71 124-161 (436)
113 PF01428 zf-AN1: AN1-like Zinc 59.1 4.4 9.6E-05 20.3 0.6 15 62-76 12-26 (43)
114 PRK00464 nrdR transcriptional 57.5 1.2 2.7E-05 29.3 -2.0 16 34-51 29-44 (154)
115 TIGR00373 conserved hypothetic 57.2 6.7 0.00015 25.9 1.3 31 4-47 110-140 (158)
116 PRK14890 putative Zn-ribbon RN 57.2 13 0.00028 20.2 2.2 33 32-71 24-56 (59)
117 TIGR02300 FYDLN_acid conserved 56.8 6.3 0.00014 25.0 1.1 33 34-79 10-42 (129)
118 PRK06266 transcription initiat 54.7 7.2 0.00016 26.4 1.2 33 3-48 117-149 (178)
119 PF03604 DNA_RNApol_7kD: DNA d 52.9 12 0.00026 17.6 1.5 10 63-72 17-26 (32)
120 COG4957 Predicted transcriptio 52.1 12 0.00026 24.1 1.7 20 6-30 79-98 (148)
121 PF04959 ARS2: Arsenite-resist 51.9 5.5 0.00012 27.8 0.3 27 30-58 74-100 (214)
122 smart00154 ZnF_AN1 AN1-like Zi 51.7 8 0.00017 19.0 0.8 14 3-18 12-25 (39)
123 KOG3408|consensus 51.6 9.3 0.0002 24.0 1.2 25 61-85 55-79 (129)
124 KOG4124|consensus 51.5 2 4.4E-05 32.0 -1.9 53 1-55 347-418 (442)
125 COG1198 PriA Primosomal protei 51.0 10 0.00022 31.6 1.6 13 60-72 472-484 (730)
126 KOG3408|consensus 49.3 11 0.00024 23.7 1.3 16 41-56 63-78 (129)
127 KOG2071|consensus 49.2 12 0.00026 30.0 1.8 27 61-87 416-442 (579)
128 PF10276 zf-CHCC: Zinc-finger 49.2 9.2 0.0002 19.0 0.8 12 62-73 28-39 (40)
129 PF13878 zf-C2H2_3: zinc-finge 49.1 23 0.00049 17.6 2.2 24 4-29 14-39 (41)
130 PLN02294 cytochrome c oxidase 49.0 10 0.00022 25.4 1.1 21 55-76 134-154 (174)
131 PLN03238 probable histone acet 48.9 20 0.00043 26.2 2.7 29 61-89 46-74 (290)
132 PF09723 Zn-ribbon_8: Zinc rib 48.6 8.8 0.00019 19.1 0.7 11 4-16 6-16 (42)
133 PHA00626 hypothetical protein 48.1 9.8 0.00021 20.4 0.8 13 3-17 23-35 (59)
134 cd00924 Cyt_c_Oxidase_Vb Cytoc 48.0 11 0.00024 22.8 1.1 20 55-75 72-91 (97)
135 COG5151 SSL1 RNA polymerase II 47.6 14 0.00031 27.2 1.8 48 36-87 365-412 (421)
136 PF06220 zf-U1: U1 zinc finger 46.9 17 0.00036 17.8 1.5 12 2-15 2-13 (38)
137 smart00834 CxxC_CXXC_SSSS Puta 46.9 9.6 0.00021 18.5 0.7 11 4-16 6-16 (41)
138 PF15135 UPF0515: Uncharacteri 46.0 13 0.00029 26.5 1.4 15 62-76 154-168 (278)
139 PF04780 DUF629: Protein of un 44.9 18 0.00038 28.5 2.0 32 59-90 53-84 (466)
140 PF09845 DUF2072: Zn-ribbon co 44.8 11 0.00023 24.2 0.7 15 33-49 1-15 (131)
141 COG3677 Transposase and inacti 44.2 11 0.00025 24.0 0.8 46 22-76 21-66 (129)
142 PF07754 DUF1610: Domain of un 43.5 11 0.00024 16.5 0.5 8 3-12 16-23 (24)
143 KOG0717|consensus 42.8 14 0.00031 28.9 1.2 21 64-84 293-313 (508)
144 COG4888 Uncharacterized Zn rib 41.7 10 0.00022 23.0 0.3 39 31-75 20-58 (104)
145 PF08274 PhnA_Zn_Ribbon: PhnA 41.5 16 0.00034 16.9 0.8 9 63-71 19-27 (30)
146 PRK14873 primosome assembly pr 41.0 18 0.0004 29.8 1.7 10 63-72 422-431 (665)
147 KOG0782|consensus 40.9 3.9 8.4E-05 32.8 -2.0 53 18-77 238-290 (1004)
148 KOG0717|consensus 40.3 20 0.00043 28.1 1.7 21 4-26 293-313 (508)
149 PF05191 ADK_lid: Adenylate ki 40.2 6.6 0.00014 19.0 -0.6 9 5-15 3-11 (36)
150 PLN00104 MYST -like histone ac 39.4 24 0.00051 27.6 2.0 30 61-90 196-225 (450)
151 KOG2593|consensus 39.3 26 0.00055 27.2 2.1 36 3-45 128-163 (436)
152 PRK03824 hypA hydrogenase nick 39.2 15 0.00032 23.7 0.8 15 32-48 69-83 (135)
153 PF04423 Rad50_zn_hook: Rad50 39.1 14 0.0003 19.5 0.5 12 65-76 22-33 (54)
154 PTZ00064 histone acetyltransfe 39.0 28 0.0006 27.7 2.3 30 61-90 278-307 (552)
155 COG0068 HypF Hydrogenase matur 38.6 4.2 9.1E-05 33.4 -2.1 57 6-72 126-182 (750)
156 PF13451 zf-trcl: Probable zin 38.2 15 0.00032 19.2 0.5 12 2-15 3-14 (49)
157 TIGR00100 hypA hydrogenase nic 37.7 20 0.00043 22.3 1.2 24 34-71 71-94 (115)
158 PF05495 zf-CHY: CHY zinc fing 37.7 9.7 0.00021 21.5 -0.2 31 32-72 40-70 (71)
159 PF01780 Ribosomal_L37ae: Ribo 37.3 18 0.00039 21.5 0.9 31 32-74 34-64 (90)
160 KOG2636|consensus 36.3 25 0.00055 27.4 1.7 28 56-83 394-422 (497)
161 PF12760 Zn_Tnp_IS1595: Transp 36.2 49 0.0011 16.7 2.3 11 61-71 35-45 (46)
162 KOG2747|consensus 36.1 22 0.00047 27.3 1.4 33 61-93 156-188 (396)
163 COG3364 Zn-ribbon containing p 35.9 22 0.00049 21.6 1.1 13 3-17 2-14 (112)
164 KOG2807|consensus 35.9 77 0.0017 23.8 4.0 25 63-87 345-369 (378)
165 COG1773 Rubredoxin [Energy pro 35.6 19 0.00042 19.3 0.7 13 2-16 2-14 (55)
166 PTZ00255 60S ribosomal protein 35.4 19 0.00041 21.5 0.7 32 32-75 35-66 (90)
167 COG1655 Uncharacterized protei 35.2 9.7 0.00021 26.9 -0.5 39 31-71 17-70 (267)
168 COG4530 Uncharacterized protei 35.0 16 0.00036 22.5 0.5 25 39-74 13-37 (129)
169 KOG2071|consensus 34.4 26 0.00057 28.2 1.6 26 2-29 417-442 (579)
170 PF06524 NOA36: NOA36 protein; 33.9 29 0.00064 25.0 1.6 24 62-85 208-231 (314)
171 COG4391 Uncharacterized protei 33.8 19 0.00041 19.7 0.5 43 24-75 15-60 (62)
172 PF09963 DUF2197: Uncharacteri 32.9 37 0.00081 18.3 1.6 6 10-15 7-12 (56)
173 PLN03238 probable histone acet 32.5 49 0.0011 24.3 2.6 25 31-57 46-70 (290)
174 PF01215 COX5B: Cytochrome c o 32.3 20 0.00043 23.2 0.5 19 57-76 107-125 (136)
175 TIGR00280 L37a ribosomal prote 32.3 20 0.00044 21.4 0.5 33 32-76 34-66 (91)
176 PRK12380 hydrogenase nickel in 32.2 29 0.00063 21.5 1.3 24 34-71 71-94 (113)
177 smart00440 ZnF_C2C2 C2C2 Zinc 32.1 8.8 0.00019 19.0 -0.9 10 64-73 29-38 (40)
178 PF10537 WAC_Acf1_DNA_bd: ATP- 32.0 1.1E+02 0.0023 18.7 3.7 42 1-47 1-42 (102)
179 PF04780 DUF629: Protein of un 31.7 42 0.00091 26.5 2.3 25 4-30 58-83 (466)
180 PTZ00448 hypothetical protein; 31.7 30 0.00064 26.3 1.4 24 63-86 314-337 (373)
181 PF14446 Prok-RING_1: Prokaryo 31.5 21 0.00045 19.1 0.5 9 64-72 22-30 (54)
182 COG1675 TFA1 Transcription ini 30.6 74 0.0016 21.6 3.0 40 25-75 105-144 (176)
183 KOG1994|consensus 30.3 34 0.00074 24.1 1.4 23 32-56 238-260 (268)
184 PF08209 Sgf11: Sgf11 (transcr 30.2 69 0.0015 15.1 2.1 24 63-87 4-27 (33)
185 smart00647 IBR In Between Ring 30.1 41 0.00089 17.8 1.6 34 35-76 20-53 (64)
186 KOG4377|consensus 29.8 18 0.00039 27.8 0.1 25 34-58 402-426 (480)
187 PF10263 SprT-like: SprT-like 29.8 20 0.00044 23.2 0.3 32 33-74 123-154 (157)
188 KOG4727|consensus 29.5 35 0.00077 22.9 1.4 22 3-26 75-96 (193)
189 COG3091 SprT Zn-dependent meta 29.4 41 0.00089 22.2 1.6 32 33-71 117-148 (156)
190 PLN03239 histone acetyltransfe 28.9 36 0.00078 25.7 1.5 25 61-85 104-128 (351)
191 PF03145 Sina: Seven in absent 28.2 83 0.0018 21.4 3.1 47 40-89 23-73 (198)
192 PTZ00043 cytochrome c oxidase 28.1 31 0.00066 24.4 0.9 17 60-76 178-194 (268)
193 PRK00564 hypA hydrogenase nick 27.9 34 0.00073 21.4 1.1 13 34-48 72-84 (117)
194 PF07975 C1_4: TFIIH C1-like d 27.7 19 0.00042 18.9 -0.1 26 31-58 19-44 (51)
195 PF04606 Ogr_Delta: Ogr/Delta- 27.6 12 0.00026 19.2 -0.9 17 32-48 24-40 (47)
196 PF13821 DUF4187: Domain of un 27.3 1E+02 0.0023 16.4 2.7 19 34-54 28-46 (55)
197 PF07150 DUF1390: Protein of u 27.1 60 0.0013 23.0 2.2 21 64-85 8-28 (229)
198 PF14447 Prok-RING_4: Prokaryo 26.8 35 0.00076 18.3 0.8 13 64-76 40-52 (55)
199 KOG1280|consensus 26.6 71 0.0015 24.2 2.6 41 28-70 74-116 (381)
200 PLN02748 tRNA dimethylallyltra 26.5 48 0.001 26.2 1.8 21 34-56 419-440 (468)
201 PRK03976 rpl37ae 50S ribosomal 26.5 28 0.0006 20.8 0.4 32 32-75 35-66 (90)
202 PRK00432 30S ribosomal protein 26.4 48 0.001 17.3 1.3 12 62-73 36-47 (50)
203 KOG1813|consensus 26.3 41 0.00089 24.8 1.3 22 65-86 277-302 (313)
204 PF09082 DUF1922: Domain of un 26.2 33 0.00072 19.2 0.7 16 57-73 14-29 (68)
205 PF01155 HypA: Hydrogenase exp 26.1 36 0.00078 21.1 0.9 25 34-72 71-95 (113)
206 TIGR00595 priA primosomal prot 25.1 22 0.00048 28.2 -0.2 11 61-71 251-261 (505)
207 PF12230 PRP21_like_P: Pre-mRN 24.9 24 0.00053 24.7 0.0 34 61-95 166-199 (229)
208 KOG2807|consensus 24.8 1.5E+02 0.0032 22.4 3.9 30 33-70 345-374 (378)
209 PF00301 Rubredoxin: Rubredoxi 24.7 32 0.0007 17.7 0.5 7 64-70 35-41 (47)
210 COG5027 SAS2 Histone acetyltra 24.7 47 0.001 25.1 1.4 31 62-92 157-187 (395)
211 PTZ00448 hypothetical protein; 24.3 59 0.0013 24.8 1.9 21 4-26 315-335 (373)
212 PRK03681 hypA hydrogenase nick 24.2 35 0.00075 21.2 0.6 25 34-71 71-95 (114)
213 PF07800 DUF1644: Protein of u 24.2 2.3E+02 0.0049 19.0 5.6 81 8-92 29-137 (162)
214 cd00065 FYVE FYVE domain; Zinc 24.0 54 0.0012 17.0 1.3 7 10-16 7-13 (57)
215 KOG2636|consensus 23.6 68 0.0015 25.2 2.1 29 26-56 394-423 (497)
216 PF04641 Rtf2: Rtf2 RING-finge 23.2 92 0.002 22.4 2.7 36 33-76 128-163 (260)
217 PF03811 Zn_Tnp_IS1: InsA N-te 23.0 31 0.00068 16.6 0.2 19 51-69 17-35 (36)
218 TIGR00627 tfb4 transcription f 23.0 64 0.0014 23.6 1.8 11 64-74 256-266 (279)
219 PF14311 DUF4379: Domain of un 22.9 70 0.0015 16.7 1.6 13 34-48 29-41 (55)
220 KOG2312|consensus 22.9 26 0.00057 28.9 -0.2 24 4-27 644-667 (847)
221 PF13824 zf-Mss51: Zinc-finger 22.8 64 0.0014 17.3 1.3 10 62-71 13-22 (55)
222 PTZ00064 histone acetyltransfe 22.6 75 0.0016 25.4 2.2 25 31-57 278-302 (552)
223 TIGR01206 lysW lysine biosynth 22.5 40 0.00088 17.9 0.6 13 64-76 3-15 (54)
224 smart00064 FYVE Protein presen 22.4 56 0.0012 17.8 1.2 10 64-73 27-36 (68)
225 PF06397 Desulfoferrod_N: Desu 22.3 42 0.0009 16.3 0.5 26 3-43 6-31 (36)
226 PLN00104 MYST -like histone ac 22.0 71 0.0015 25.1 2.0 24 32-57 197-220 (450)
227 cd00730 rubredoxin Rubredoxin; 21.9 41 0.00088 17.6 0.5 7 64-70 35-41 (50)
228 PF12907 zf-met2: Zinc-binding 21.7 51 0.0011 16.4 0.8 25 4-30 2-30 (40)
229 KOG2907|consensus 21.6 57 0.0012 20.3 1.2 38 34-75 75-114 (116)
230 PF14634 zf-RING_5: zinc-RING 21.4 1.1E+02 0.0025 15.0 2.1 11 61-71 34-44 (44)
231 KOG0696|consensus 21.0 34 0.00074 26.9 0.1 47 21-70 81-128 (683)
232 KOG0978|consensus 20.2 36 0.00077 28.3 0.1 21 62-82 677-697 (698)
No 1
>KOG2462|consensus
Probab=99.92 E-value=2.7e-25 Score=152.94 Aligned_cols=105 Identities=25% Similarity=0.464 Sum_probs=97.1
Q ss_pred CCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHH
Q psy6598 2 KPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNV 81 (154)
Q Consensus 2 k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 81 (154)
+.+.|+ +|||.|.+...|..|+++|+ -+++|.+ |||.|.+...|+.|+|+|+|+|||.|+.|+|.|.-+++|+.
T Consensus 160 ka~~C~--~C~K~YvSmpALkMHirTH~--l~c~C~i--CGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRA 233 (279)
T KOG2462|consen 160 KAFSCK--YCGKVYVSMPALKMHIRTHT--LPCECGI--CGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRA 233 (279)
T ss_pred ccccCC--CCCceeeehHHHhhHhhccC--CCccccc--ccccccchHHhhcccccccCCCCccCCcccchhcchHHHHH
Confidence 568899 99999999999999999996 6799999 99999999999999999999999999999999999999999
Q ss_pred HHHhhcCcCCCCCCCCCcchhhhHHhhhhcC
Q psy6598 82 HKKTNHRESKNKKPSNRNNIVKQECVQKINS 112 (154)
Q Consensus 82 H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 112 (154)
||++|...+++.+..+.+.+....-+.++..
T Consensus 234 HmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 234 HMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred HHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 9999999999999999998887766666544
No 2
>KOG2462|consensus
Probab=99.89 E-value=3.8e-24 Score=147.30 Aligned_cols=79 Identities=34% Similarity=0.640 Sum_probs=76.7
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNVH 82 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 82 (154)
++.|. +|||.|...+.|+.|+|+|+|+|||.|.. |+++|..++.|+.|+++|.+.|+|+|..|+|.|.+.+.|.+|
T Consensus 187 ~c~C~--iCGKaFSRPWLLQGHiRTHTGEKPF~C~h--C~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH 262 (279)
T KOG2462|consen 187 PCECG--ICGKAFSRPWLLQGHIRTHTGEKPFSCPH--CGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKH 262 (279)
T ss_pred Ccccc--cccccccchHHhhcccccccCCCCccCCc--ccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHh
Confidence 67899 99999999999999999999999999988 999999999999999999999999999999999999999999
Q ss_pred HHh
Q psy6598 83 KKT 85 (154)
Q Consensus 83 ~~~ 85 (154)
...
T Consensus 263 ~ES 265 (279)
T KOG2462|consen 263 SES 265 (279)
T ss_pred hhh
Confidence 875
No 3
>KOG3576|consensus
Probab=99.76 E-value=1.2e-19 Score=120.15 Aligned_cols=84 Identities=30% Similarity=0.604 Sum_probs=80.6
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNVH 82 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 82 (154)
.|.|. +|+|.|.-...|.+|++.|...+.|.|.. ||++|...-.|.+|+++|+|.+||+|..|+|.|.+.-+|..|
T Consensus 117 ~ftCr--vCgK~F~lQRmlnrh~kch~~vkr~lct~--cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 117 SFTCR--VCGKKFGLQRMLNRHLKCHSDVKRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred eeeee--hhhhhhhHHHHHHHHhhhccHHHHHHHhh--ccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHH
Confidence 58999 99999999999999999999999999999 999999999999999999999999999999999999999999
Q ss_pred HHhhcCcC
Q psy6598 83 KKTNHRES 90 (154)
Q Consensus 83 ~~~~~~~~ 90 (154)
++..|+..
T Consensus 193 l~kvhgv~ 200 (267)
T KOG3576|consen 193 LKKVHGVQ 200 (267)
T ss_pred HHHHcCch
Confidence 99888754
No 4
>KOG3623|consensus
Probab=99.74 E-value=3.3e-19 Score=136.37 Aligned_cols=79 Identities=28% Similarity=0.636 Sum_probs=76.7
Q ss_pred CCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHH
Q psy6598 2 KPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNV 81 (154)
Q Consensus 2 k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 81 (154)
-+|-|+ .|+|+|...+.|.+|.--|+|.+||.|.+ |.|+|..+-+|..|.|.|.|+|||+|+.|+|+|+...++.+
T Consensus 893 gmyaCD--qCDK~FqKqSSLaRHKYEHsGqRPyqC~i--CkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQ 968 (1007)
T KOG3623|consen 893 GMYACD--QCDKAFQKQSSLARHKYEHSGQRPYQCII--CKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQ 968 (1007)
T ss_pred ccchHH--HHHHHHHhhHHHHHhhhhhcCCCCcccch--hhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHh
Confidence 368999 99999999999999999999999999999 99999999999999999999999999999999999999999
Q ss_pred HHH
Q psy6598 82 HKK 84 (154)
Q Consensus 82 H~~ 84 (154)
||.
T Consensus 969 HMN 971 (1007)
T KOG3623|consen 969 HMN 971 (1007)
T ss_pred hhc
Confidence 986
No 5
>KOG1074|consensus
Probab=99.58 E-value=3.1e-16 Score=121.80 Aligned_cols=52 Identities=33% Similarity=0.603 Sum_probs=46.4
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhh
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVH 58 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h 58 (154)
+++|. .|.++|.+.+.|+.|+|.|+|++||+|.+ ||..|.++..|..|...|
T Consensus 353 khkCr--~CakvfgS~SaLqiHlRSHTGERPfqCnv--CG~~FSTkGNLKvH~~rH 404 (958)
T KOG1074|consen 353 KHKCR--FCAKVFGSDSALQIHLRSHTGERPFQCNV--CGNRFSTKGNLKVHFQRH 404 (958)
T ss_pred cchhh--hhHhhcCchhhhhhhhhccCCCCCeeecc--cccccccccceeeeeeec
Confidence 46799 99999999999999999999999999998 999999999998887665
No 6
>KOG3623|consensus
Probab=99.51 E-value=5.2e-15 Score=113.78 Aligned_cols=78 Identities=27% Similarity=0.571 Sum_probs=59.4
Q ss_pred eecccccccccccCHHHHHHHHHHhcC-------------CCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCc
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHSG-------------EKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCP 70 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~~-------------~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 70 (154)
|.|. .|..+|.+...|.+|+..|.. .+.|+|.. |||+|..+-+|..|+|+|.|+|||.|+-|+
T Consensus 241 fsC~--lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtE--CgKAFKfKHHLKEHlRIHSGEKPfeCpnCk 316 (1007)
T KOG3623|consen 241 FSCM--LCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTE--CGKAFKFKHHLKEHLRIHSGEKPFECPNCK 316 (1007)
T ss_pred Ccch--hhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccc--cchhhhhHHHHHhhheeecCCCCcCCcccc
Confidence 6677 788888888888888777742 25578866 888888888888888888888888888888
Q ss_pred ccccCchhHHHHHHh
Q psy6598 71 RSYRQLCTLNVHKKT 85 (154)
Q Consensus 71 ~~f~~~~~l~~H~~~ 85 (154)
|+|+...++..||..
T Consensus 317 KRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 317 KRFSHSGSYSSHMSS 331 (1007)
T ss_pred cccccCCcccccccc
Confidence 888888777777654
No 7
>KOG3576|consensus
Probab=99.48 E-value=1.5e-14 Score=96.06 Aligned_cols=85 Identities=29% Similarity=0.555 Sum_probs=76.1
Q ss_pred CCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhh-hc----------CCCceeCCCCc
Q psy6598 2 KPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLV-HS----------DIRPFICDRCP 70 (154)
Q Consensus 2 k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~-h~----------~~~~~~C~~C~ 70 (154)
|.|-|. .||+.|.+.-.|++|+++|+|.+||+|.. |+++|+.+..|..|.+. |. ..|.|.|..||
T Consensus 144 kr~lct--~cgkgfndtfdlkrh~rthtgvrpykc~~--c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg 219 (267)
T KOG3576|consen 144 KRHLCT--FCGKGFNDTFDLKRHTRTHTGVRPYKCSL--CEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCG 219 (267)
T ss_pred HHHHHh--hccCcccchhhhhhhhccccCccccchhh--hhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccC
Confidence 457799 99999999999999999999999999999 99999999999999873 42 24779999999
Q ss_pred ccccCchhHHHHHHhhcCcC
Q psy6598 71 RSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 71 ~~f~~~~~l~~H~~~~~~~~ 90 (154)
.+-.....+..|+..||...
T Consensus 220 ~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 220 YTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred CCCCChhHHHHHHHhcCCCC
Confidence 99999999999999987653
No 8
>PHA00733 hypothetical protein
Probab=99.40 E-value=2.2e-13 Score=86.45 Aligned_cols=83 Identities=19% Similarity=0.297 Sum_probs=70.7
Q ss_pred CCCeecccccccccccCHHHHHHH--HH---HhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccC
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNH--MR---IHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 75 (154)
+|++.|. .|++.|.....|..+ ++ .+.+.++|.|.. |++.|.....|..|++.| ..+|.|..|++.|..
T Consensus 38 ~~~~~~~--~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~--Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~ 111 (128)
T PHA00733 38 QKRLIRA--VVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPL--CLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRN 111 (128)
T ss_pred hhhHHHH--HHhhhccChhhhcchHHHHhhcccCCCCCccCCC--CCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCC
Confidence 3678899 999998888777665 22 234578999988 999999999999999977 457999999999999
Q ss_pred chhHHHHHHhhcCc
Q psy6598 76 LCTLNVHKKTNHRE 89 (154)
Q Consensus 76 ~~~l~~H~~~~~~~ 89 (154)
...|..|+...|+.
T Consensus 112 ~~sL~~H~~~~h~~ 125 (128)
T PHA00733 112 TDSTLDHVCKKHNI 125 (128)
T ss_pred HHHHHHHHHHhcCc
Confidence 99999999988764
No 9
>KOG1074|consensus
Probab=99.35 E-value=2.1e-13 Score=106.33 Aligned_cols=85 Identities=26% Similarity=0.529 Sum_probs=77.4
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCC----CceeCC---CCcccccC
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDI----RPFICD---RCPRSYRQ 75 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~----~~~~C~---~C~~~f~~ 75 (154)
|-+|. .|-++..-.+.|+.|++.|+|+|||+|.+ ||++|+++..|+.|+-+|... .+|.|+ +|-+.|..
T Consensus 605 PNqCi--iC~rVlSC~saLqmHyrtHtGERPFkCKi--CgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn 680 (958)
T KOG1074|consen 605 PNQCI--ICLRVLSCPSALQMHYRTHTGERPFKCKI--CGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTN 680 (958)
T ss_pred cccee--eeeecccchhhhhhhhhcccCcCcccccc--ccchhccccchhhcccccccCccccccccCCchhhhcccccc
Confidence 45799 99999999999999999999999999999 999999999999999988643 458999 99999999
Q ss_pred chhHHHHHHhhcCcCC
Q psy6598 76 LCTLNVHKKTNHRESK 91 (154)
Q Consensus 76 ~~~l~~H~~~~~~~~~ 91 (154)
.-.|..|++.|.+...
T Consensus 681 ~V~lpQhIriH~~~~~ 696 (958)
T KOG1074|consen 681 AVTLPQHIRIHLGGQI 696 (958)
T ss_pred cccccceEEeecCCCC
Confidence 9999999999985543
No 10
>KOG3608|consensus
Probab=99.29 E-value=2.2e-12 Score=92.32 Aligned_cols=79 Identities=32% Similarity=0.565 Sum_probs=47.8
Q ss_pred eecccccccccccCHHHHHHHHH-HhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCC--CcccccCchhHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMR-IHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDR--CPRSYRQLCTLN 80 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~ 80 (154)
|+|+ .|+.+....+.|.+|++ .|..++||+|+. |.+.|.+.+.|.+|...|. +.-|.|.. |...|.+...|.
T Consensus 264 ykCp--lCdmtc~~~ssL~~H~r~rHs~dkpfKCd~--Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~ 338 (467)
T KOG3608|consen 264 YKCP--LCDMTCSSASSLTTHIRYRHSKDKPFKCDE--CDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMR 338 (467)
T ss_pred cccc--ccccCCCChHHHHHHHHhhhccCCCccccc--hhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHH
Confidence 5555 55555555555666655 355566666665 6666666666666666555 34466655 666666666666
Q ss_pred HHHHhhc
Q psy6598 81 VHKKTNH 87 (154)
Q Consensus 81 ~H~~~~~ 87 (154)
+|++.+|
T Consensus 339 ~H~~evh 345 (467)
T KOG3608|consen 339 RHFLEVH 345 (467)
T ss_pred HHHHHhc
Confidence 6666655
No 11
>KOG3608|consensus
Probab=99.24 E-value=1.2e-11 Score=88.67 Aligned_cols=88 Identities=23% Similarity=0.448 Sum_probs=79.4
Q ss_pred CCCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhc-C--CCceeCCCCcccccCch
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHS-D--IRPFICDRCPRSYRQLC 77 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~-~--~~~~~C~~C~~~f~~~~ 77 (154)
.|||+|+ .|++.|...+.|..|...|. +..|.|..++|...|.....+++|++.+. | +.+|.|-.|.+.|.+..
T Consensus 290 dkpfKCd--~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~ 366 (467)
T KOG3608|consen 290 DKPFKCD--ECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGK 366 (467)
T ss_pred CCCcccc--chhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccch
Confidence 4899999 99999999999999999998 67899999999999999999999998644 4 46799999999999999
Q ss_pred hHHHHHHhhcCcCC
Q psy6598 78 TLNVHKKTNHRESK 91 (154)
Q Consensus 78 ~l~~H~~~~~~~~~ 91 (154)
+|..|++..|+-+.
T Consensus 367 ~L~~HL~kkH~f~~ 380 (467)
T KOG3608|consen 367 SLSAHLMKKHGFRL 380 (467)
T ss_pred hHHHHHHHhhcccC
Confidence 99999998776543
No 12
>PHA02768 hypothetical protein; Provisional
Probab=99.19 E-value=9e-12 Score=66.29 Aligned_cols=42 Identities=19% Similarity=0.411 Sum_probs=25.5
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhH
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTL 79 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 79 (154)
|.|+. ||+.|...+.|.+|+++|+ ++|+|..|++.|.+.+.|
T Consensus 6 y~C~~--CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPI--CGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcch--hCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 55655 6666666666666666665 456666666666655444
No 13
>PHA02768 hypothetical protein; Provisional
Probab=99.09 E-value=5.2e-11 Score=63.39 Aligned_cols=44 Identities=11% Similarity=0.156 Sum_probs=39.6
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLY 52 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~ 52 (154)
.|.|+ .||+.|...+.|..|+++|+ ++|+|.. |++.|...+.|.
T Consensus 5 ~y~C~--~CGK~Fs~~~~L~~H~r~H~--k~~kc~~--C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECP--ICGEIYIKRKSMITHLRKHN--TNLKLSN--CKRISLRTGEYI 48 (55)
T ss_pred ccCcc--hhCCeeccHHHHHHHHHhcC--CcccCCc--ccceecccceeE
Confidence 48999 99999999999999999998 6899977 999999877664
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.06 E-value=4e-10 Score=86.67 Aligned_cols=92 Identities=16% Similarity=0.338 Sum_probs=75.4
Q ss_pred CCCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccC-----
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQ----- 75 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~----- 75 (154)
++.+.|+ .|++.|. ...|..|+..|+ +++.|. ||+.+ .+..|..|+.+|.+.+++.|.+|++.|..
T Consensus 451 ~~H~~C~--~Cgk~f~-~s~LekH~~~~H--kpv~Cp---Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~ 521 (567)
T PLN03086 451 KNHVHCE--KCGQAFQ-QGEMEKHMKVFH--EPLQCP---CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAM 521 (567)
T ss_pred ccCccCC--CCCCccc-hHHHHHHHHhcC--CCccCC---CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCcccc
Confidence 3567899 9999995 688999999875 789994 99755 66899999999999999999999999952
Q ss_pred -----chhHHHHHHhhcCcCCCCCCCCCcchh
Q psy6598 76 -----LCTLNVHKKTNHRESKNKKPSNRNNIV 102 (154)
Q Consensus 76 -----~~~l~~H~~~~~~~~~~~~~~~~~~~~ 102 (154)
...|..|+..+ +.+...|..|...+.
T Consensus 522 d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vr 552 (567)
T PLN03086 522 DVRDRLRGMSEHESIC-GSRTAPCDSCGRSVM 552 (567)
T ss_pred chhhhhhhHHHHHHhc-CCcceEccccCCeee
Confidence 35799999884 777777776665443
No 15
>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=99.03 E-value=2.1e-10 Score=52.44 Aligned_cols=24 Identities=29% Similarity=0.764 Sum_probs=12.6
Q ss_pred HHHHhhhhcCCCceeCCCCccccc
Q psy6598 51 LYKHTLVHSDIRPFICDRCPRSYR 74 (154)
Q Consensus 51 l~~H~~~h~~~~~~~C~~C~~~f~ 74 (154)
|.+|+++|++++||.|+.|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 445555555555555555555553
No 16
>KOG3993|consensus
Probab=98.90 E-value=7.8e-10 Score=81.04 Aligned_cols=86 Identities=24% Similarity=0.400 Sum_probs=71.8
Q ss_pred eecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcC-----------------------
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSD----------------------- 60 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~----------------------- 60 (154)
|.|. .|...|.+.-.|.+|.-...-..-|+|.. |+|.|....+|..|.|+|..
T Consensus 268 yiCq--LCK~kYeD~F~LAQHrC~RIV~vEYrCPE--C~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ 343 (500)
T KOG3993|consen 268 YICQ--LCKEKYEDAFALAQHRCPRIVHVEYRCPE--CDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQ 343 (500)
T ss_pred HHHH--HHHHhhhhHHHHhhccCCeeEEeeecCCc--ccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhh
Confidence 7899 99999999999999965433334599976 99999999999999999931
Q ss_pred ----------CCceeCCCCcccccCchhHHHHHHhhcCcCCCC
Q psy6598 61 ----------IRPFICDRCPRSYRQLCTLNVHKKTNHRESKNK 93 (154)
Q Consensus 61 ----------~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~ 93 (154)
+-.|.|..|+|.|.+...|++|+.+|+......
T Consensus 344 ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k 386 (500)
T KOG3993|consen 344 EAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAK 386 (500)
T ss_pred hccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccch
Confidence 123999999999999999999999988665444
No 17
>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=98.88 E-value=2.2e-09 Score=49.03 Aligned_cols=26 Identities=54% Similarity=1.138 Sum_probs=23.8
Q ss_pred HHHHHHHHhcCCCceeecccccCcccCC
Q psy6598 20 NYKNHMRIHSGEKPYVCQVRDCQKRFTE 47 (154)
Q Consensus 20 ~l~~H~~~h~~~~~~~C~~~~C~~~f~~ 47 (154)
+|.+|++.|+|++||.|.. |++.|..
T Consensus 1 ~l~~H~~~H~~~k~~~C~~--C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPY--CGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESS--SSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCC--CcCeeCc
Confidence 5899999999999999988 9999964
No 18
>PHA00733 hypothetical protein
Probab=98.82 E-value=6e-09 Score=66.19 Aligned_cols=54 Identities=30% Similarity=0.585 Sum_probs=47.9
Q ss_pred CCCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcC
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSD 60 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~ 60 (154)
++||.|. .||+.|.+...|..|++.| ..+|.|.. |++.|.....|..|+...++
T Consensus 71 ~kPy~C~--~Cgk~Fss~s~L~~H~r~h--~~~~~C~~--CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 71 VSPYVCP--LCLMPFSSSVSLKQHIRYT--EHSKVCPV--CGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCccCC--CCCCcCCCHHHHHHHHhcC--CcCccCCC--CCCccCCHHHHHHHHHHhcC
Confidence 3689999 9999999999999999987 35799988 99999999999999886543
No 19
>PHA00616 hypothetical protein
Probab=98.76 E-value=4.5e-09 Score=53.36 Aligned_cols=34 Identities=9% Similarity=0.127 Sum_probs=28.6
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQV 38 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 38 (154)
||+|. .||+.|..++.|..|++.|+|++++.|++
T Consensus 1 pYqC~--~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCL--RCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccc--hhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 68888 88888888888888888888888888764
No 20
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.72 E-value=2.6e-08 Score=76.86 Aligned_cols=79 Identities=18% Similarity=0.379 Sum_probs=65.9
Q ss_pred CCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCC----------hhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 2 KPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTE----------YSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 2 k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~----------~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
+++.|+ ||+.+ ....|..|+..|.+.+++.|.+ |++.|.. ...|..|...+ |.+++.|..||+
T Consensus 477 kpv~Cp---Cg~~~-~R~~L~~H~~thCp~Kpi~C~f--C~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk 549 (567)
T PLN03086 477 EPLQCP---CGVVL-EKEQMVQHQASTCPLRLITCRF--CGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGR 549 (567)
T ss_pred CCccCC---CCCCc-chhHHHhhhhccCCCCceeCCC--CCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCC
Confidence 577886 99755 6789999999999999999998 9999852 35799998885 899999999999
Q ss_pred cccCchhHHHHHHhhcC
Q psy6598 72 SYRQLCTLNVHKKTNHR 88 (154)
Q Consensus 72 ~f~~~~~l~~H~~~~~~ 88 (154)
.|..+ .|..|+...|.
T Consensus 550 ~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 550 SVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eeeeh-hHHHHHHHhhc
Confidence 87655 57888877664
No 21
>PHA00732 hypothetical protein
Probab=98.53 E-value=6.4e-08 Score=56.16 Aligned_cols=48 Identities=27% Similarity=0.406 Sum_probs=39.1
Q ss_pred CeecccccccccccCHHHHHHHHHH-hcCCCceeecccccCcccCChhhHHHHhhhhcC
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRI-HSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSD 60 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~ 60 (154)
||.|. .||+.|.+...|..|++. |.+ +.|.. |++.|. .|..|.+++..
T Consensus 1 py~C~--~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~--CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCP--ICGFTTVTLFALKQHARRNHTL---TKCPV--CNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCC--CCCCccCCHHHHHHHhhcccCC---CccCC--CCCEeC---ChhhhhcccCC
Confidence 68899 999999999999999984 653 57987 999998 47888876543
No 22
>KOG3993|consensus
Probab=98.49 E-value=8.2e-08 Score=70.70 Aligned_cols=52 Identities=29% Similarity=0.578 Sum_probs=45.9
Q ss_pred CeecccccccccccCHHHHHHHHHHhcC--------CC-------------------------ceeecccccCcccCChh
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSG--------EK-------------------------PYVCQVRDCQKRFTEYS 49 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~--------~~-------------------------~~~C~~~~C~~~f~~~~ 49 (154)
-|+|. .|+|+|.-..+|..|+|.|.. .. .|.|.. |++.|.+..
T Consensus 295 EYrCP--EC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~--C~KkFrRqA 370 (500)
T KOG3993|consen 295 EYRCP--ECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHT--CGKKFRRQA 370 (500)
T ss_pred eecCC--cccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHH--hhhhhHHHH
Confidence 38999 999999999999999999942 11 289998 999999999
Q ss_pred hHHHHhhhh
Q psy6598 50 SLYKHTLVH 58 (154)
Q Consensus 50 ~l~~H~~~h 58 (154)
.|+.|+.+|
T Consensus 371 YLrKHqlth 379 (500)
T KOG3993|consen 371 YLRKHQLTH 379 (500)
T ss_pred HHHHhHHhh
Confidence 999998877
No 23
>PHA00732 hypothetical protein
Probab=98.46 E-value=1.6e-07 Score=54.49 Aligned_cols=46 Identities=28% Similarity=0.501 Sum_probs=39.1
Q ss_pred ceeecccccCcccCChhhHHHHhhh-hcCCCceeCCCCcccccCchhHHHHHHhh
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLV-HSDIRPFICDRCPRSYRQLCTLNVHKKTN 86 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 86 (154)
||.|.. |++.|.....|..|++. |.+ +.|+.|++.|. .|..|.++.
T Consensus 1 py~C~~--Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPI--CGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCC--CCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhccc
Confidence 588988 99999999999999984 653 68999999998 588888653
No 24
>PHA00616 hypothetical protein
Probab=98.44 E-value=7.1e-08 Score=48.99 Aligned_cols=34 Identities=18% Similarity=0.314 Sum_probs=23.3
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCC
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDR 68 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 68 (154)
||.|.. ||+.|..+..|.+|++.|++++++.|+.
T Consensus 1 pYqC~~--CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLR--CGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccch--hhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 466755 7777777777777777777777776654
No 25
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.34 E-value=3.7e-07 Score=40.28 Aligned_cols=22 Identities=23% Similarity=0.602 Sum_probs=15.1
Q ss_pred eeCCCCcccccCchhHHHHHHh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
|.|+.|++.|.....|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5666777777777777777665
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.29 E-value=2.6e-07 Score=65.84 Aligned_cols=54 Identities=35% Similarity=0.818 Sum_probs=44.8
Q ss_pred CCceeecccccCcccCChhhHHHHhhh-h------------------cCCCceeCCCCcccccCchhHHHHHH
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLV-H------------------SDIRPFICDRCPRSYRQLCTLNVHKK 84 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~-h------------------~~~~~~~C~~C~~~f~~~~~l~~H~~ 84 (154)
+|||+|.+++|.|.|+....|.-|+.- | ...|||.|.+|+|.|+..-.|+.|+.
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 488999888999999988888888762 3 12489999999999999999988865
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.25 E-value=1.1e-06 Score=38.75 Aligned_cols=23 Identities=43% Similarity=0.602 Sum_probs=17.0
Q ss_pred eecccccccccccCHHHHHHHHHHh
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIH 28 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h 28 (154)
|+|+ .|++.|.+...|..|++.|
T Consensus 1 y~C~--~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCP--ICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEET--TTTEEESSHHHHHHHHHHH
T ss_pred CCCC--CCCCccCCHHHHHHHHhHC
Confidence 5677 7777777777777777654
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.23 E-value=2.2e-06 Score=46.22 Aligned_cols=49 Identities=27% Similarity=0.442 Sum_probs=24.4
Q ss_pred eeecccccCcccCChhhHHHHhhh-hcC-CCceeCCCCcccccCchhHHHHHHhhc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLV-HSD-IRPFICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~-h~~-~~~~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
|.|.+ |++ ......|..|... |.. .+.+.|++|...+. .+|..|+..+|
T Consensus 3 f~CP~--C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPY--CGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCC--CCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 45555 555 3334455555442 332 23455666655433 35666665554
No 29
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.21 E-value=1.2e-06 Score=38.77 Aligned_cols=24 Identities=38% Similarity=0.778 Sum_probs=16.0
Q ss_pred eeCCCCcccccCchhHHHHHHhhc
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
|.|++|++.|.....|..|++++|
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 567777777777777777777664
No 30
>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=98.11 E-value=1.8e-06 Score=39.63 Aligned_cols=25 Identities=36% Similarity=0.907 Sum_probs=17.3
Q ss_pred ceeCCCCcccccCchhHHHHHHhhc
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
||.|..|++.|.....|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4667777777777777777776654
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.05 E-value=3.3e-06 Score=51.10 Aligned_cols=74 Identities=23% Similarity=0.348 Sum_probs=22.4
Q ss_pred ecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHHHHH
Q psy6598 5 FYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNVHKK 84 (154)
Q Consensus 5 ~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 84 (154)
+|. .|+..|.+...|..|+...++-..- ....+.....+..+.+.-. ...+.|..|++.|.....|..||+
T Consensus 1 ~C~--~C~~~f~~~~~l~~H~~~~H~~~~~------~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 1 QCL--FCDESFSSVDDLLQHMKKKHGFDIP------DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMR 71 (100)
T ss_dssp ---------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHH
T ss_pred Ccc--ccccccccccccccccccccccccc------ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHc
Confidence 488 9999999999999999754432211 1122233444444443221 226999999999999999999999
Q ss_pred hhc
Q psy6598 85 TNH 87 (154)
Q Consensus 85 ~~~ 87 (154)
.++
T Consensus 72 ~~~ 74 (100)
T PF12756_consen 72 SKH 74 (100)
T ss_dssp HTT
T ss_pred Ccc
Confidence 753
No 32
>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=98.00 E-value=1.2e-05 Score=43.22 Aligned_cols=50 Identities=28% Similarity=0.418 Sum_probs=39.8
Q ss_pred CeecccccccccccCHHHHHHHHH-HhcCC-CceeecccccCcccCChhhHHHHhhhhc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMR-IHSGE-KPYVCQVRDCQKRFTEYSSLYKHTLVHS 59 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~-~h~~~-~~~~C~~~~C~~~f~~~~~l~~H~~~h~ 59 (154)
.|.|+ +|++ ..+...|..|.. .|..+ +.+.|.+ |...+. ..|.+|+..+.
T Consensus 2 ~f~CP--~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCP--YCGK-GFSESSLVEHCEDEHRSESKNVVCPI--CSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCC--CCCC-ccCHHHHHHHHHhHCcCCCCCccCCC--chhhhh--hHHHHHHHHhc
Confidence 58999 9999 667889999977 46553 5799988 998655 48999988654
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=97.90 E-value=1e-05 Score=37.04 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=16.8
Q ss_pred CeecccccccccccCHHHHHHHHHHhc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHS 29 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~ 29 (154)
+|+|. .|++.|.+...|..|++.|.
T Consensus 1 ~~~C~--~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECD--ECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEET--TTTEEESSHHHHHHHHCTTT
T ss_pred CCCCC--ccCCccCChhHHHHHhHHhc
Confidence 46677 77777777777777766553
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.86 E-value=4.7e-06 Score=59.64 Aligned_cols=54 Identities=31% Similarity=0.575 Sum_probs=46.6
Q ss_pred CCCeecccccccccccCHHHHHHHHH-Hhc------------------CCCceeecccccCcccCChhhHHHHhh
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMR-IHS------------------GEKPYVCQVRDCQKRFTEYSSLYKHTL 56 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~-~h~------------------~~~~~~C~~~~C~~~f~~~~~l~~H~~ 56 (154)
+|||+|+-..|.|+|+....|+.|+. -|. ..|||.|.+ |+|.|+....|.-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCev--C~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEV--CDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccc--cchhhccCccceeccc
Confidence 58999998899999999999999976 341 248999999 9999999999988864
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.86 E-value=1.8e-05 Score=34.86 Aligned_cols=23 Identities=39% Similarity=0.598 Sum_probs=14.7
Q ss_pred eecccccccccccCHHHHHHHHHHh
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIH 28 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h 28 (154)
|.|+ .|++.|.+...|..|++.|
T Consensus 1 ~~C~--~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCP--ICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-S--STS-EESSHHHHHHHHHHH
T ss_pred CCCc--CCCCcCCcHHHHHHHHHhh
Confidence 5677 7777777777777777654
No 36
>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=97.63 E-value=4.8e-05 Score=39.59 Aligned_cols=40 Identities=23% Similarity=0.277 Sum_probs=23.5
Q ss_pred HHHhhh-hcCCCceeCCCCcccccCchhHHHHHHhhcCcCC
Q psy6598 52 YKHTLV-HSDIRPFICDRCPRSYRQLCTLNVHKKTNHRESK 91 (154)
Q Consensus 52 ~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 91 (154)
..+.+. +..+.|-.|++|+..+.+..+|.+|+.+.|+.++
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 334433 3456788999999999999999999988887654
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.45 E-value=0.00011 Score=32.68 Aligned_cols=23 Identities=22% Similarity=0.667 Sum_probs=13.9
Q ss_pred eeCCCCcccccCchhHHHHHHhh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKTN 86 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~~ 86 (154)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 35666666666666666666543
No 38
>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=97.37 E-value=0.00026 Score=36.89 Aligned_cols=33 Identities=21% Similarity=0.495 Sum_probs=20.3
Q ss_pred cCCCceeecccccCcccCChhhHHHHhhhhcCCCc
Q psy6598 29 SGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRP 63 (154)
Q Consensus 29 ~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~ 63 (154)
..+.|..|.+ |+..+.....|.+|+..+++.||
T Consensus 20 ~S~~PatCP~--C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPI--CGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TT--T--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCc--chhhccchhhHHHHHHHHhcccC
Confidence 3456788877 88888888888888877666654
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.36 E-value=0.00018 Score=31.82 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=14.4
Q ss_pred eeCCCCcccccCchhHHHHHHhhc
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
|+|+.|+.... ...|..|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56777776666 667777777665
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.33 E-value=0.00024 Score=31.55 Aligned_cols=24 Identities=33% Similarity=0.588 Sum_probs=16.2
Q ss_pred eecccccccccccCHHHHHHHHHHhc
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHS 29 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~ 29 (154)
|.|. .|++.|.....|..|++.|.
T Consensus 1 ~~C~--~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCP--ECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCC--CCcchhCCHHHHHHHHHHhc
Confidence 4566 77777777777777766553
No 41
>PRK04860 hypothetical protein; Provisional
Probab=97.22 E-value=0.00026 Score=46.72 Aligned_cols=39 Identities=26% Similarity=0.554 Sum_probs=32.9
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCch
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLC 77 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 77 (154)
+|.|. |+. ....+.+|.++|+++++|.|..|+..|....
T Consensus 119 ~Y~C~---C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK---CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC---CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 58885 886 6778899999999999999999999887653
No 42
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.16 E-value=0.00029 Score=31.39 Aligned_cols=22 Identities=32% Similarity=0.735 Sum_probs=13.9
Q ss_pred eeCCCCcccccCchhHHHHHHh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
|.|.+|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666654
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.07 E-value=0.0005 Score=30.58 Aligned_cols=22 Identities=32% Similarity=0.644 Sum_probs=14.3
Q ss_pred eecccccccccccCHHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRI 27 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~ 27 (154)
|.|. .|++.|.+...|..|++.
T Consensus 1 ~~C~--~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCD--ICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEET--TTTEEESSHHHHHHHHTT
T ss_pred CCCC--CCCCCcCCHHHHHHHHCc
Confidence 4566 666666666666666654
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.86 E-value=0.0013 Score=28.95 Aligned_cols=23 Identities=26% Similarity=0.482 Sum_probs=14.3
Q ss_pred eecccccccccccCHHHHHHHHHHhc
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHS 29 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~ 29 (154)
|+|. .|+.... ...|..|++.|.
T Consensus 1 y~C~--~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCP--HCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-S--SSS-EES-HHHHHHHHHHHH
T ss_pred CCCC--CCCCcCC-HHHHHHHHHhhC
Confidence 5677 7776666 667777776653
No 45
>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=96.52 E-value=0.00069 Score=30.82 Aligned_cols=22 Identities=32% Similarity=0.706 Sum_probs=13.3
Q ss_pred eeCCCCcccccCchhHHHHHHh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
|.|..|++.|.....|..|++.
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 4566666666666666666543
No 46
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.28 E-value=0.0035 Score=27.97 Aligned_cols=21 Identities=29% Similarity=0.536 Sum_probs=14.6
Q ss_pred eeCCCCcccccCchhHHHHHHh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
..|+.||+.| ..+.|..|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4677777777 56677777654
No 47
>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=96.26 E-value=0.0011 Score=30.17 Aligned_cols=21 Identities=33% Similarity=0.686 Sum_probs=13.9
Q ss_pred eecccccccccccCHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
|.|. .|++.|.+...|..|++
T Consensus 2 ~~C~--~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCD--ACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBT--TTTBBBSSHHHHHCCTT
T ss_pred CCcc--cCCCCcCCHHHHHHHHc
Confidence 5566 66766666666666655
No 48
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.96 E-value=0.0018 Score=48.82 Aligned_cols=57 Identities=39% Similarity=0.747 Sum_probs=26.8
Q ss_pred cccccccCHHHHHHHHH--HhcCC--CceeecccccCcccCChhhHHHHhhhhcCCCceeC
Q psy6598 10 DCKISFASATNYKNHMR--IHSGE--KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFIC 66 (154)
Q Consensus 10 ~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C 66 (154)
.|...|.....|.+|.+ .|.++ +++.|.+..|++.|.....+.+|...|.+..++.+
T Consensus 294 ~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 294 QCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred cccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 44445544444555544 44444 44544411155555555555555444444444444
No 49
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.50 E-value=0.055 Score=39.86 Aligned_cols=83 Identities=20% Similarity=0.341 Sum_probs=60.3
Q ss_pred ecccccccccccCHHHHHHHHHHhcCCCceeecccc--cCcccCChhhHHHHhhhhcCCCceeCCC--C--c--ccccCc
Q psy6598 5 FYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRD--CQKRFTEYSSLYKHTLVHSDIRPFICDR--C--P--RSYRQL 76 (154)
Q Consensus 5 ~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C--~--~~f~~~ 76 (154)
.|. .|.+.|-+...|..|++..+ ++.|.|+..+ -...|.....|.+|.+.- -|.|.+ | | ..|...
T Consensus 222 ~C~--FC~~~FYdDDEL~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~~~----hy~ct~qtc~~~k~~vf~~~ 294 (493)
T COG5236 222 LCI--FCKIYFYDDDELRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFRNA----HYCCTFQTCRVGKCYVFPYH 294 (493)
T ss_pred hhh--hccceecChHHHHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhhcC----ceEEEEEEEecCcEEEeccH
Confidence 488 99999999999999998543 5677776511 113688889999998732 266653 4 2 368889
Q ss_pred hhHHHHHHhhcCcCCCCC
Q psy6598 77 CTLNVHKKTNHRESKNKK 94 (154)
Q Consensus 77 ~~l~~H~~~~~~~~~~~~ 94 (154)
..|..|+-..|+......
T Consensus 295 ~el~~h~~~~h~~~~~~~ 312 (493)
T COG5236 295 TELLEHLTRFHKVNARLS 312 (493)
T ss_pred HHHHHHHHHHhhcccccC
Confidence 999999988887654443
No 50
>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=95.43 E-value=0.012 Score=28.26 Aligned_cols=23 Identities=22% Similarity=0.534 Sum_probs=18.0
Q ss_pred ceeCCCCcccccCchhHHHHHHh
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
+|.|.+|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788888888888888888764
No 51
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.19 E-value=0.0066 Score=45.74 Aligned_cols=62 Identities=26% Similarity=0.405 Sum_probs=55.3
Q ss_pred CceeecccccCcccCChhhHHHHhh--hhcCC--CceeCC--CCcccccCchhHHHHHHhhcCcCCCCCC
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTL--VHSDI--RPFICD--RCPRSYRQLCTLNVHKKTNHRESKNKKP 95 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 95 (154)
.++.|.. |...|.....|.+|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+.......
T Consensus 288 ~~~~~~~--~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 288 LPIKSKQ--CNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred cCCCCcc--ccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 3678877 9999999999999999 89999 999999 7999999999999999999887755443
No 52
>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=95.03 E-value=0.021 Score=27.30 Aligned_cols=22 Identities=18% Similarity=0.596 Sum_probs=15.5
Q ss_pred CeecccccccccccCHHHHHHHHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
+|.|+ .|++.|.+...+..|+.
T Consensus 3 ~~~C~--~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCK--LCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEcc--ccCCccCCHHHHHHHHC
Confidence 46677 77777777777777765
No 53
>KOG1146|consensus
Probab=94.69 E-value=0.013 Score=49.77 Aligned_cols=75 Identities=20% Similarity=0.325 Sum_probs=47.6
Q ss_pred cccccccCHHHHHHHHH-HhcCCCceeecccccCcccCChhhHHHHhhh-h------------------------cCCCc
Q psy6598 10 DCKISFASATNYKNHMR-IHSGEKPYVCQVRDCQKRFTEYSSLYKHTLV-H------------------------SDIRP 63 (154)
Q Consensus 10 ~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~-h------------------------~~~~~ 63 (154)
.|+..+..+..+-.|+. .|.-.+.|+|.. |+..|+....|..|+|. | .+.++
T Consensus 441 ~~e~~~~s~r~~~~~t~~L~S~~kt~~cpk--c~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 441 KAEPLLESKRSLEGQTVVLHSFFKTLKCPK--CNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred chhhhhhhhcccccceeeeecccccccCCc--cchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 34444444444444433 233345566644 66666666666666654 1 23478
Q ss_pred eeCCCCcccccCchhHHHHHHhh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKTN 86 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~~ 86 (154)
|.|..|...+....+|..||+.-
T Consensus 519 ~~C~~C~~stttng~LsihlqS~ 541 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQSD 541 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHHH
Confidence 99999999999999999998853
No 54
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.54 E-value=0.04 Score=24.48 Aligned_cols=20 Identities=15% Similarity=0.227 Sum_probs=14.0
Q ss_pred eecccccccccccCHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
.+|. .||+.| ....|..|+.
T Consensus 3 ~~C~--~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCP--ICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCC--CCCCEE-CHHHHHHHHH
Confidence 4577 888888 4566777765
No 55
>KOG2482|consensus
Probab=94.16 E-value=0.071 Score=39.20 Aligned_cols=23 Identities=26% Similarity=0.434 Sum_probs=20.9
Q ss_pred CeecccccccccccCHHHHHHHHHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRI 27 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~ 27 (154)
.+.|- .|.+.|..+..|..||+.
T Consensus 195 r~~CL--yCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCL--YCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheee--eeccccCCcHHHHHHHHh
Confidence 47899 999999999999999985
No 56
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.06 E-value=0.038 Score=40.66 Aligned_cols=27 Identities=19% Similarity=0.252 Sum_probs=19.2
Q ss_pred CeecccccccccccCHHHHHHHHHHhc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHS 29 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~ 29 (154)
.|.|+...|..+......|..|.+..+
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H 177 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQH 177 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhc
Confidence 367777777777777777888877543
No 57
>KOG1146|consensus
Probab=93.81 E-value=0.016 Score=49.29 Aligned_cols=81 Identities=15% Similarity=0.230 Sum_probs=58.0
Q ss_pred eecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhh-----------------hcCCCceeC
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLV-----------------HSDIRPFIC 66 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~-----------------h~~~~~~~C 66 (154)
+.|. .|++.|.....+. |+.. ..+|.|.. |...|.....|..|.+. +....+| |
T Consensus 1261 ~~c~--~~~~~~~~~~~~~-~l~~---~~~~~~~~--~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c 1331 (1406)
T KOG1146|consen 1261 GECG--AVDELLTPSFGIS-TLDV---THRYLCRQ--CKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-C 1331 (1406)
T ss_pred chhh--hccccccCcccee-eccc---chhHHHHH--HHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-c
Confidence 5577 7777776666665 5443 34577877 88888888888877642 2223456 9
Q ss_pred CCCcccccCchhHHHHHHhhcCcCCCC
Q psy6598 67 DRCPRSYRQLCTLNVHKKTNHRESKNK 93 (154)
Q Consensus 67 ~~C~~~f~~~~~l~~H~~~~~~~~~~~ 93 (154)
..|...|.....|..||+..++..+..
T Consensus 1332 ~~c~~~~~~~~alqihm~~~~~~~kt~ 1358 (1406)
T KOG1146|consen 1332 LACEVLLSGREALQIHMRSSAHRRKTA 1358 (1406)
T ss_pred hHHHhhcchhHHHHHHHHHhhhcccCC
Confidence 999999999999999999876655443
No 58
>KOG2893|consensus
Probab=93.72 E-value=0.021 Score=39.79 Aligned_cols=52 Identities=27% Similarity=0.586 Sum_probs=34.6
Q ss_pred CCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHHHHHhhcCc
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNVHKKTNHRE 89 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 89 (154)
.++| |=+ |++.|....-|.+|++ .|-|+|.+|.|..-+...|..|-...|++
T Consensus 9 ~kpw-cwy--cnrefddekiliqhqk----akhfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 9 DKPW-CWY--CNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred CCce-eee--cccccchhhhhhhhhh----hccceeeeehhhhccCCCceeehhhhhhh
Confidence 3455 545 7788888777777766 33488888877776777777775544444
No 59
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.59 E-value=0.21 Score=30.78 Aligned_cols=25 Identities=24% Similarity=0.449 Sum_probs=23.4
Q ss_pred eeC----CCCcccccCchhHHHHHHhhcC
Q psy6598 64 FIC----DRCPRSYRQLCTLNVHKKTNHR 88 (154)
Q Consensus 64 ~~C----~~C~~~f~~~~~l~~H~~~~~~ 88 (154)
|.| ..|+....+...+..|.+.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 999 9999999999999999999875
No 60
>KOG2231|consensus
Probab=93.58 E-value=0.084 Score=42.40 Aligned_cols=13 Identities=62% Similarity=0.825 Sum_probs=9.3
Q ss_pred CHHHHHHHHH-Hhc
Q psy6598 17 SATNYKNHMR-IHS 29 (154)
Q Consensus 17 ~~~~l~~H~~-~h~ 29 (154)
....|+.|+. .|.
T Consensus 126 s~~~Lk~H~~~~H~ 139 (669)
T KOG2231|consen 126 SVENLKNHMRDQHK 139 (669)
T ss_pred HHHHHHHHHHHhhh
Confidence 6778888884 453
No 61
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.40 E-value=0.04 Score=29.33 Aligned_cols=33 Identities=18% Similarity=0.228 Sum_probs=23.7
Q ss_pred hcCCCceeCCCCcccccCchhHHHHHHhhcCcC
Q psy6598 58 HSDIRPFICDRCPRSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 58 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 90 (154)
..|+..+.|+-||..|.......+|....|+-.
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~~ 44 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHGWL 44 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhhhh
Confidence 446667788888888888888888877665543
No 62
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=93.37 E-value=0.098 Score=31.17 Aligned_cols=20 Identities=30% Similarity=0.610 Sum_probs=10.0
Q ss_pred eecccccCcccCChhhHHHHhh
Q psy6598 35 VCQVRDCQKRFTEYSSLYKHTL 56 (154)
Q Consensus 35 ~C~~~~C~~~f~~~~~l~~H~~ 56 (154)
.|.+ |++.|.+...|..|++
T Consensus 52 ~C~~--C~~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 52 RCPY--CNKTFRSREALQEHMR 71 (100)
T ss_dssp EBSS--SS-EESSHHHHHHHHH
T ss_pred CCCc--cCCCCcCHHHHHHHHc
Confidence 4544 5555555555555554
No 63
>KOG4173|consensus
Probab=92.93 E-value=0.065 Score=36.59 Aligned_cols=81 Identities=21% Similarity=0.382 Sum_probs=61.1
Q ss_pred eecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhh-hh---------cCCCceeCC--CCcc
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTL-VH---------SDIRPFICD--RCPR 71 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~-~h---------~~~~~~~C~--~C~~ 71 (154)
|-|+-..|...|........|...-++ -.|.+ |.+.|.+.-.|..|+. +| .|.--|.|- .|+-
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~--C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG---NSCSF--CKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc---chhHH--HHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 557655777888888888888764333 25988 9999999999999976 34 233448885 4999
Q ss_pred cccCchhHHHHHHhhcCc
Q psy6598 72 SYRQLCTLNVHKKTNHRE 89 (154)
Q Consensus 72 ~f~~~~~l~~H~~~~~~~ 89 (154)
.|.+......||-..|.-
T Consensus 155 KFkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMHKY 172 (253)
T ss_pred hhhhhhhhhhHHHHhccC
Confidence 999999999998887754
No 64
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=92.42 E-value=0.1 Score=24.78 Aligned_cols=10 Identities=30% Similarity=1.059 Sum_probs=5.0
Q ss_pred CceeCCCCcc
Q psy6598 62 RPFICDRCPR 71 (154)
Q Consensus 62 ~~~~C~~C~~ 71 (154)
.++.|+.||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 3455555543
No 65
>KOG2231|consensus
Probab=92.04 E-value=0.21 Score=40.23 Aligned_cols=71 Identities=18% Similarity=0.435 Sum_probs=49.0
Q ss_pred ecccccccccccCHHHHHHHHHHhcCCCceeecc----cccCcccCChhhHHHHhhhhcCCCceeCC--CCc-ccccCch
Q psy6598 5 FYFPWDCKISFASATNYKNHMRIHSGEKPYVCQV----RDCQKRFTEYSSLYKHTLVHSDIRPFICD--RCP-RSYRQLC 77 (154)
Q Consensus 5 ~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----~~C~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~-~~f~~~~ 77 (154)
.|. .|...|.....|.+|++.++ |.|.+ .+++..|.....|..|.+.++ |.|. .|. +.|....
T Consensus 184 ~C~--~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~~f~~~~ 253 (669)
T KOG2231|consen 184 LCK--FCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTKKFYVAF 253 (669)
T ss_pred cch--hhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccceeeehh
Confidence 377 89999999999999988654 44544 123456777788988888543 7787 564 4555555
Q ss_pred hHHHHHHh
Q psy6598 78 TLNVHKKT 85 (154)
Q Consensus 78 ~l~~H~~~ 85 (154)
.+..|++.
T Consensus 254 ~~ei~lk~ 261 (669)
T KOG2231|consen 254 ELEIELKA 261 (669)
T ss_pred HHHHHHHh
Confidence 66666663
No 66
>KOG2893|consensus
Probab=92.01 E-value=0.052 Score=37.94 Aligned_cols=45 Identities=27% Similarity=0.614 Sum_probs=36.8
Q ss_pred cccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhh-hh
Q psy6598 8 PWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTL-VH 58 (154)
Q Consensus 8 ~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~-~h 58 (154)
+|+|++-|.+..-|..|++. +-|+|.+ |-+...+-..|..|.. +|
T Consensus 13 cwycnrefddekiliqhqka----khfkchi--chkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHI--CHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeee--ehhhhccCCCceeehhhhh
Confidence 34999999999999999885 4489999 9998888888887754 44
No 67
>PRK04860 hypothetical protein; Provisional
Probab=91.03 E-value=0.2 Score=33.17 Aligned_cols=36 Identities=19% Similarity=0.434 Sum_probs=30.7
Q ss_pred ceeCCCCcccccCchhHHHHHHhhcCcCCCCCCCCCcchh
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKTNHRESKNKKPSNRNNIV 102 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~ 102 (154)
+|.|. |+. ....+.+|.++|.++.++.+..|...+.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 69998 997 7788999999999999999988776543
No 68
>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=90.74 E-value=0.3 Score=24.75 Aligned_cols=26 Identities=23% Similarity=0.397 Sum_probs=14.0
Q ss_pred CCCceeCCCCcccccCc----hhHHHHHHh
Q psy6598 60 DIRPFICDRCPRSYRQL----CTLNVHKKT 85 (154)
Q Consensus 60 ~~~~~~C~~C~~~f~~~----~~l~~H~~~ 85 (154)
+.....|..|++.+... ++|..|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 34456777777776653 567777744
No 69
>KOG4173|consensus
Probab=90.12 E-value=0.078 Score=36.20 Aligned_cols=53 Identities=25% Similarity=0.500 Sum_probs=44.8
Q ss_pred ecccccccccccCHHHHHHHHH-Hhc---------CCCceeecccccCcccCChhhHHHHhh-hhc
Q psy6598 5 FYFPWDCKISFASATNYKNHMR-IHS---------GEKPYVCQVRDCQKRFTEYSSLYKHTL-VHS 59 (154)
Q Consensus 5 ~C~~~~C~~~f~~~~~l~~H~~-~h~---------~~~~~~C~~~~C~~~f~~~~~l~~H~~-~h~ 59 (154)
.|. .|.+.|.+...|..|+. .|. |...|.|-+++|+..|.+...-..|+- .|.
T Consensus 108 sCs--~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 108 SCS--FCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhH--HHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 688 99999999999999976 452 556799999999999999999889975 564
No 70
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=89.99 E-value=0.93 Score=27.85 Aligned_cols=25 Identities=20% Similarity=0.288 Sum_probs=21.7
Q ss_pred eee----cccccCcccCChhhHHHHhhhhcC
Q psy6598 34 YVC----QVRDCQKRFTEYSSLYKHTLVHSD 60 (154)
Q Consensus 34 ~~C----~~~~C~~~f~~~~~l~~H~~~h~~ 60 (154)
|.| .. |+..+.+...+.+|.+.++|
T Consensus 81 ~~C~~~~~~--C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPH--CGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCC--CCcEeccHHHHHHHHHHhcC
Confidence 899 66 99999999999999987653
No 71
>KOG2482|consensus
Probab=88.99 E-value=0.41 Score=35.37 Aligned_cols=81 Identities=25% Similarity=0.428 Sum_probs=58.6
Q ss_pred eeccccccccccc-CHHHHHHHHH-Hhc---C------------------CCceeecccccCcccCChhhHHHHhhh--h
Q psy6598 4 FFYFPWDCKISFA-SATNYKNHMR-IHS---G------------------EKPYVCQVRDCQKRFTEYSSLYKHTLV--H 58 (154)
Q Consensus 4 ~~C~~~~C~~~f~-~~~~l~~H~~-~h~---~------------------~~~~~C~~~~C~~~f~~~~~l~~H~~~--h 58 (154)
.+|- .|..-+. ..+..-.|+- .|. | -..+.|-+ |.+.|..+..|+.||+. |
T Consensus 145 lqCl--FCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLy--CekifrdkntLkeHMrkK~H 220 (423)
T KOG2482|consen 145 LQCL--FCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLY--CEKIFRDKNTLKEHMRKKRH 220 (423)
T ss_pred eEEE--EecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeee--eccccCCcHHHHHHHHhccC
Confidence 4677 8876664 3455555643 342 1 12388988 99999999999999983 5
Q ss_pred cCCCc------------------------------------------------------eeCCCCcccccCchhHHHHHH
Q psy6598 59 SDIRP------------------------------------------------------FICDRCPRSYRQLCTLNVHKK 84 (154)
Q Consensus 59 ~~~~~------------------------------------------------------~~C~~C~~~f~~~~~l~~H~~ 84 (154)
....| ..|-+|....-....|..||+
T Consensus 221 rrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk 300 (423)
T KOG2482|consen 221 RRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMK 300 (423)
T ss_pred cccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHH
Confidence 22111 589999998888999999999
Q ss_pred hhcC
Q psy6598 85 TNHR 88 (154)
Q Consensus 85 ~~~~ 88 (154)
..|.
T Consensus 301 ~vHe 304 (423)
T KOG2482|consen 301 IVHE 304 (423)
T ss_pred HHHH
Confidence 8874
No 72
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=88.58 E-value=0.43 Score=24.93 Aligned_cols=21 Identities=19% Similarity=0.433 Sum_probs=13.6
Q ss_pred eeCCCCcccccCc-----hhHHHHHH
Q psy6598 64 FICDRCPRSYRQL-----CTLNVHKK 84 (154)
Q Consensus 64 ~~C~~C~~~f~~~-----~~l~~H~~ 84 (154)
-.|..|++.+... ++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 5667777766554 46777766
No 73
>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=86.64 E-value=0.46 Score=30.41 Aligned_cols=26 Identities=27% Similarity=0.600 Sum_probs=16.6
Q ss_pred CceeCCCCcccccCchhHHHHHHhhcCcC
Q psy6598 62 RPFICDRCPRSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 90 (154)
.-..|-+||+.|.. |.+|++.|||..
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 34899999998865 599999998753
No 74
>KOG2186|consensus
Probab=85.92 E-value=0.56 Score=33.18 Aligned_cols=47 Identities=26% Similarity=0.362 Sum_probs=33.6
Q ss_pred eecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhh
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLV 57 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~ 57 (154)
|.|. .||...... .+.+|+..-.+ ..|.|.- |++.|.. ..+..|..-
T Consensus 4 FtCn--vCgEsvKKp-~vekH~srCrn-~~fSCID--C~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCN--VCGESVKKP-QVEKHMSRCRN-AYFSCID--CGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehh--hhhhhcccc-chHHHHHhccC-CeeEEee--ccccccc-chhhhhhhh
Confidence 6788 888776544 46668776555 6688876 8888888 666777653
No 75
>KOG2785|consensus
Probab=85.70 E-value=1.2 Score=33.45 Aligned_cols=74 Identities=22% Similarity=0.253 Sum_probs=47.7
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCc---ccccCchhH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCP---RSYRQLCTL 79 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~f~~~~~l 79 (154)
|-.|- .|++.|.+...-..||..++|- |.-+. ...+....|..-+..-. ..-|.|-.|+ +.|.+..+.
T Consensus 166 Pt~CL--fC~~~~k~~e~~~~HM~~~Hgf--fIPdr----eYL~D~~GLl~YLgeKV-~~~~~CL~CN~~~~~f~sleav 236 (390)
T KOG2785|consen 166 PTDCL--FCDKKSKSLEENLKHMFKEHGF--FIPDR----EYLTDEKGLLKYLGEKV-GIGFICLFCNELGRPFSSLEAV 236 (390)
T ss_pred Cccee--ecCCCcccHHHHHHHHhhccCC--cCCch----HhhhchhHHHHHHHHHh-ccCceEEEeccccCcccccHHH
Confidence 34688 9999999999999999987763 22111 11222223333222111 2347888888 889999999
Q ss_pred HHHHHh
Q psy6598 80 NVHKKT 85 (154)
Q Consensus 80 ~~H~~~ 85 (154)
..||..
T Consensus 237 r~HM~~ 242 (390)
T KOG2785|consen 237 RAHMRD 242 (390)
T ss_pred HHHHhh
Confidence 999875
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=85.13 E-value=0.67 Score=22.16 Aligned_cols=9 Identities=33% Similarity=0.715 Sum_probs=4.9
Q ss_pred ceeCCCCcc
Q psy6598 63 PFICDRCPR 71 (154)
Q Consensus 63 ~~~C~~C~~ 71 (154)
|..|+.||.
T Consensus 18 p~~CP~Cg~ 26 (34)
T cd00729 18 PEKCPICGA 26 (34)
T ss_pred CCcCcCCCC
Confidence 445666653
No 77
>KOG2785|consensus
Probab=84.84 E-value=1.1 Score=33.67 Aligned_cols=22 Identities=32% Similarity=0.563 Sum_probs=16.4
Q ss_pred CeecccccccccccCHHHHHHHHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
++.|. .|.+.|.+......|+.
T Consensus 68 ~~~c~--~c~k~~~s~~a~~~hl~ 89 (390)
T KOG2785|consen 68 VVYCE--ACNKSFASPKAHENHLK 89 (390)
T ss_pred ceehH--HhhccccChhhHHHHHH
Confidence 56788 88888887777776654
No 78
>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=84.16 E-value=1.6 Score=28.91 Aligned_cols=39 Identities=23% Similarity=0.395 Sum_probs=29.1
Q ss_pred hcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCch
Q psy6598 28 HSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLC 77 (154)
Q Consensus 28 h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 77 (154)
.....-|.|.. |+..|+....+. .-|.|+.||.......
T Consensus 104 e~~~~~Y~Cp~--c~~r~tf~eA~~---------~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 104 ETNNMFFICPN--MCVRFTFNEAME---------LNFTCPRCGAMLDYLD 142 (158)
T ss_pred ccCCCeEECCC--CCcEeeHHHHHH---------cCCcCCCCCCEeeecc
Confidence 34556799965 999999988875 2499999998755443
No 79
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=83.43 E-value=0.43 Score=33.20 Aligned_cols=13 Identities=15% Similarity=0.534 Sum_probs=10.0
Q ss_pred eeCCCCcccccCc
Q psy6598 64 FICDRCPRSYRQL 76 (154)
Q Consensus 64 ~~C~~C~~~f~~~ 76 (154)
..|+.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 6899999876644
No 80
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=82.50 E-value=1.8 Score=20.91 Aligned_cols=32 Identities=19% Similarity=0.515 Sum_probs=17.3
Q ss_pred eecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccc
Q psy6598 35 VCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSY 73 (154)
Q Consensus 35 ~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 73 (154)
.|.. |+..|.-.+... -......+|+.|+..|
T Consensus 4 ~Cp~--C~~~y~i~d~~i-----p~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPN--CQAKYEIDDEKI-----PPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCC--CCCEEeCCHHHC-----CCCCcEEECCCCCCEe
Confidence 4543 666666655431 1223346777776665
No 81
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=82.33 E-value=0.77 Score=24.52 Aligned_cols=27 Identities=22% Similarity=0.422 Sum_probs=18.8
Q ss_pred hcCCCceeecccccCcccCChhhHHHHhh
Q psy6598 28 HSGEKPYVCQVRDCQKRFTEYSSLYKHTL 56 (154)
Q Consensus 28 h~~~~~~~C~~~~C~~~f~~~~~l~~H~~ 56 (154)
..|+.-+.|.- |+..|.......+|..
T Consensus 12 RDGE~~lrCPR--C~~~FR~~K~Y~RHVN 38 (65)
T COG4049 12 RDGEEFLRCPR--CGMVFRRRKDYIRHVN 38 (65)
T ss_pred cCCceeeeCCc--hhHHHHHhHHHHHHhh
Confidence 35666677755 7777777777777765
No 82
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=82.27 E-value=1 Score=30.01 Aligned_cols=25 Identities=36% Similarity=0.790 Sum_probs=19.9
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
+-|.|.+ ||.. |.++-|-.|++||.
T Consensus 133 ~~~vC~v--CGy~-------------~~ge~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPV--CGYT-------------HEGEAPEVCPICGA 157 (166)
T ss_pred CEEEcCC--CCCc-------------ccCCCCCcCCCCCC
Confidence 3699988 9865 55678899999984
No 83
>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=81.74 E-value=0.63 Score=32.35 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=18.3
Q ss_pred CceeCCCCcccccCchhHHHHHHhhcCcC
Q psy6598 62 RPFICDRCPRSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 90 (154)
..|.|..|+|.|.-..-..+|+..-|.+.
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 34777777777777777777777666543
No 84
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=81.62 E-value=1.6 Score=22.25 Aligned_cols=26 Identities=19% Similarity=0.496 Sum_probs=15.2
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCccc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRS 72 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 72 (154)
|.|.. ||..|... ...+..|+.||..
T Consensus 3 Y~C~~--Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGE--CGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EECCC--CCCEeecC-----------CCCceECCCCCce
Confidence 66655 77665543 2344677777654
No 85
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.58 E-value=1.7 Score=21.09 Aligned_cols=28 Identities=25% Similarity=0.560 Sum_probs=14.4
Q ss_pred cCcccCChhhHHHHhhhhcCCCceeCCCCcccc
Q psy6598 41 CQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSY 73 (154)
Q Consensus 41 C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 73 (154)
|+..|.-...- .-.+....+|+.|+..|
T Consensus 8 C~~~f~v~~~~-----l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 8 CQTRFRVPDDK-----LPAGGRKVRCPKCGHVF 35 (37)
T ss_pred CCceEEcCHHH-----cccCCcEEECCCCCcEe
Confidence 66666655431 11223346666666655
No 86
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=81.50 E-value=2.3 Score=27.72 Aligned_cols=41 Identities=22% Similarity=0.417 Sum_probs=27.1
Q ss_pred CCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 30 GEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 30 ~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
...-|.|.. |+..|.....+..- .. ...|.|+.||......
T Consensus 96 ~~~~Y~Cp~--C~~~y~~~ea~~~~---d~-~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 96 NNAYYKCPN--CQSKYTFLEANQLL---DM-DGTFTCPRCGEELEED 136 (147)
T ss_pred CCcEEECcC--CCCEeeHHHHHHhc---CC-CCcEECCCCCCEEEEc
Confidence 455799966 99999876554321 11 3339999999875443
No 87
>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=81.18 E-value=1.3 Score=19.71 Aligned_cols=21 Identities=24% Similarity=0.381 Sum_probs=15.1
Q ss_pred eeCCCCcccccCchhHHHHHHh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
..|++|++.+ ....+..|+..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHHH
Confidence 4688888887 55677777753
No 88
>KOG2186|consensus
Probab=80.95 E-value=1.3 Score=31.50 Aligned_cols=58 Identities=21% Similarity=0.429 Sum_probs=44.4
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHHHHHhhcCcCCCCCC
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNVHKKTNHRESKNKKP 95 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 95 (154)
.|.|.. ||..... ..+.+|+...++ .-|.|--|++.|.+ .....|..--.....|...
T Consensus 3 ~FtCnv--CgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITEaQKYg~~ 60 (276)
T KOG2186|consen 3 FFTCNV--CGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITEAQKYGKK 60 (276)
T ss_pred EEehhh--hhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcchHHHhhhh
Confidence 378988 9987665 456779887777 56999999999998 6778887766665555544
No 89
>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=80.56 E-value=1.9 Score=20.85 Aligned_cols=10 Identities=20% Similarity=0.853 Sum_probs=5.8
Q ss_pred eeCCCCcccc
Q psy6598 64 FICDRCPRSY 73 (154)
Q Consensus 64 ~~C~~C~~~f 73 (154)
+.|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 5566666554
No 90
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.53 E-value=2.1 Score=28.94 Aligned_cols=37 Identities=22% Similarity=0.462 Sum_probs=27.8
Q ss_pred CCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCch
Q psy6598 30 GEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLC 77 (154)
Q Consensus 30 ~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 77 (154)
...-|.|.. |+..|+....+. .-|.|+.||.......
T Consensus 114 ~~~~Y~Cp~--C~~rytf~eA~~---------~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 114 NNMFFFCPN--CHIRFTFDEAME---------YGFRCPQCGEMLEEYD 150 (178)
T ss_pred CCCEEECCC--CCcEEeHHHHhh---------cCCcCCCCCCCCeecc
Confidence 446699965 999999888763 2599999998765543
No 91
>KOG4167|consensus
Probab=80.44 E-value=0.37 Score=39.12 Aligned_cols=26 Identities=27% Similarity=0.580 Sum_probs=23.7
Q ss_pred ceeCCCCcccccCchhHHHHHHhhcC
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKTNHR 88 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~~~~ 88 (154)
.|.|..|+|.|-.-.++..||++|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 39999999999999999999999853
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=80.34 E-value=3.2 Score=25.74 Aligned_cols=79 Identities=18% Similarity=0.276 Sum_probs=46.4
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCce------------eecccccCcccCChhhHHHHhhhhcCCCceeCCCCc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPY------------VCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCP 70 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~------------~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 70 (154)
|-.|+ .||-+......|.+-..--...++| .|-- |...|........ ..-.....|.|+.|.
T Consensus 15 P~~Cp--iCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~--C~~~f~~~~~~~~--~~~~~~~~y~C~~C~ 88 (112)
T TIGR00622 15 PVECP--ICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFG--CQGPFPKPPVSPF--DELKDSHRYVCAVCK 88 (112)
T ss_pred CCcCC--cCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccC--cCCCCCCcccccc--cccccccceeCCCCC
Confidence 55677 8888777777776532111111111 3755 8888876431110 001223458999999
Q ss_pred ccccCchhHHHHHHhhc
Q psy6598 71 RSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 71 ~~f~~~~~l~~H~~~~~ 87 (154)
..|-..-..-.|...|.
T Consensus 89 ~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 89 NVFCVDCDVFVHESLHC 105 (112)
T ss_pred CccccccchhhhhhccC
Confidence 98888877777877654
No 93
>KOG4124|consensus
Probab=79.81 E-value=0.29 Score=36.21 Aligned_cols=53 Identities=34% Similarity=0.839 Sum_probs=38.4
Q ss_pred CCceeecccccCcccCChhhHHHHhhh-h------------------cCCCceeCCCCcccccCchhHHHHH
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLV-H------------------SDIRPFICDRCPRSYRQLCTLNVHK 83 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~-h------------------~~~~~~~C~~C~~~f~~~~~l~~H~ 83 (154)
.++|.|.++.|.+.+.....|.-|... | ...|+|+|++|.+.++-...|..|.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 467888888888888877777666432 2 1247899999999888777665553
No 94
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=76.89 E-value=1 Score=23.00 Aligned_cols=11 Identities=18% Similarity=0.374 Sum_probs=6.0
Q ss_pred ceeCCCCcccc
Q psy6598 63 PFICDRCPRSY 73 (154)
Q Consensus 63 ~~~C~~C~~~f 73 (154)
.+.|+.||..+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 35666666443
No 95
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=76.02 E-value=1.5 Score=27.99 Aligned_cols=25 Identities=20% Similarity=0.505 Sum_probs=16.1
Q ss_pred hhHHHHhhhhcCCCceeCCCCcccccCchh
Q psy6598 49 SSLYKHTLVHSDIRPFICDRCPRSYRQLCT 78 (154)
Q Consensus 49 ~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 78 (154)
..|..|-..| =.|+.|.-+|++.+.
T Consensus 112 a~LWK~~~~y-----pvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 112 ANLWKFCNLY-----PVCPVCKTSFKSSSS 136 (140)
T ss_pred HHHHHHcccC-----CCCCccccccccccc
Confidence 4455555444 478888888877643
No 96
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.83 E-value=0.57 Score=32.60 Aligned_cols=44 Identities=23% Similarity=0.378 Sum_probs=30.2
Q ss_pred CCCeecccccccccccCHHHHHHHHHH-h---------cCCCc-----eeecccccCcccCCh
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMRI-H---------SGEKP-----YVCQVRDCQKRFTEY 48 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~~-h---------~~~~~-----~~C~~~~C~~~f~~~ 48 (154)
+|.++|+ +|++.|..+.-.....+. . .+..| ..|.. ||.+|...
T Consensus 3 ~k~~~CP--vC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~--CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCP--VCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPH--CGYAAFEE 61 (214)
T ss_pred CCceECC--CCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCC--CCCccccc
Confidence 4778999 999999887655554432 1 12223 68966 99887765
No 97
>KOG4167|consensus
Probab=75.64 E-value=0.79 Score=37.32 Aligned_cols=24 Identities=25% Similarity=0.437 Sum_probs=19.7
Q ss_pred eecccccccccccCHHHHHHHHHHhc
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHS 29 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~ 29 (154)
|.|. .|+|+|.....+..||+.|.
T Consensus 793 FpCr--eC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 793 FPCR--ECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eehH--HHHHHHHHHhhhhHHHHHHH
Confidence 7788 88888888888888888874
No 98
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=75.01 E-value=2.7 Score=22.52 Aligned_cols=44 Identities=20% Similarity=0.384 Sum_probs=23.4
Q ss_pred CCceeecccccCcccCChhhHHHHhhhhcCCCceeCCC----CcccccC
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDR----CPRSYRQ 75 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~ 75 (154)
..+-.|.. +|+..-..+..|..|...--..++..|++ |+..+.+
T Consensus 7 ~~~v~C~~-~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 7 FRPVPCPN-GCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp TSEEE-TT---S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEH
T ss_pred CCEeeCCC-CCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccch
Confidence 34556653 34444344567888887666667788888 7776543
No 99
>PF15269 zf-C2H2_7: Zinc-finger
Probab=74.85 E-value=2.7 Score=21.38 Aligned_cols=22 Identities=23% Similarity=0.558 Sum_probs=17.2
Q ss_pred eecccccccccccCHHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRI 27 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~ 27 (154)
|+|- +|..+...++.|-.||+.
T Consensus 21 ykcf--qcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCF--QCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceee--cCCcccchHHHHHHHHHH
Confidence 5676 888888888888888774
No 100
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=72.71 E-value=1.4 Score=23.02 Aligned_cols=7 Identities=29% Similarity=0.866 Sum_probs=3.4
Q ss_pred eeCCCCc
Q psy6598 64 FICDRCP 70 (154)
Q Consensus 64 ~~C~~C~ 70 (154)
..|+.||
T Consensus 27 ~~CP~Cg 33 (52)
T TIGR02605 27 ATCPECG 33 (52)
T ss_pred CCCCCCC
Confidence 3455554
No 101
>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=71.60 E-value=2.1 Score=19.11 Aligned_cols=10 Identities=20% Similarity=0.883 Sum_probs=6.0
Q ss_pred eCCCCccccc
Q psy6598 65 ICDRCPRSYR 74 (154)
Q Consensus 65 ~C~~C~~~f~ 74 (154)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5666666653
No 102
>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=71.13 E-value=2.2 Score=26.33 Aligned_cols=30 Identities=20% Similarity=0.710 Sum_probs=22.6
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
..|.. ||+.|.-.. ..|..|+.||..|...
T Consensus 10 R~Cp~--CG~kFYDLn-----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPS--CGAKFYDLN-----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCC--CcchhccCC-----------CCCccCCCCCCccCcc
Confidence 46855 998887633 2578899999988776
No 103
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=70.38 E-value=3.6 Score=21.47 Aligned_cols=11 Identities=27% Similarity=0.866 Sum_probs=7.3
Q ss_pred ceeecccccCccc
Q psy6598 33 PYVCQVRDCQKRF 45 (154)
Q Consensus 33 ~~~C~~~~C~~~f 45 (154)
.|.|.. ||+.|
T Consensus 6 ~Y~C~~--Cg~~~ 16 (49)
T COG1996 6 EYKCAR--CGREV 16 (49)
T ss_pred EEEhhh--cCCee
Confidence 467765 77766
No 104
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=70.15 E-value=2.1 Score=25.19 Aligned_cols=33 Identities=15% Similarity=0.452 Sum_probs=21.4
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
..|.|.. |++. .+.+.-+ ..+.|..||..|.=.
T Consensus 34 ~~~~Cp~--C~~~--------~VkR~a~--GIW~C~kCg~~fAGg 66 (89)
T COG1997 34 AKHVCPF--CGRT--------TVKRIAT--GIWKCRKCGAKFAGG 66 (89)
T ss_pred cCCcCCC--CCCc--------ceeeecc--CeEEcCCCCCeeccc
Confidence 4588977 9865 2233333 348999999887543
No 105
>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=70.08 E-value=3.1 Score=26.65 Aligned_cols=21 Identities=33% Similarity=0.801 Sum_probs=9.4
Q ss_pred ecccccccccccCHHHHHHHHHHhcC
Q psy6598 5 FYFPWDCKISFASATNYKNHMRIHSG 30 (154)
Q Consensus 5 ~C~~~~C~~~f~~~~~l~~H~~~h~~ 30 (154)
.|- .||+.|+. |.+|++.|+|
T Consensus 74 ~cl--ecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 74 ICL--ECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp E-T--BT--EESB---HHHHHHHTT-
T ss_pred EEc--cCCcccch---HHHHHHHccC
Confidence 355 66666643 3566666644
No 106
>KOG4377|consensus
Probab=69.37 E-value=5 Score=30.68 Aligned_cols=26 Identities=27% Similarity=0.689 Sum_probs=18.9
Q ss_pred eeCC--CCcccccCchhHHHHHHhhcCc
Q psy6598 64 FICD--RCPRSYRQLCTLNVHKKTNHRE 89 (154)
Q Consensus 64 ~~C~--~C~~~f~~~~~l~~H~~~~~~~ 89 (154)
|.|. -|+..|...+.+..|.|.|.+.
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhhh
Confidence 4453 3788888888888888887554
No 107
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=68.66 E-value=6.6 Score=21.35 Aligned_cols=33 Identities=15% Similarity=0.334 Sum_probs=19.7
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
-.|.|.. ||..-..+.. +-.....+|.|+.||.
T Consensus 26 v~F~CPn--CGe~~I~Rc~-----~CRk~g~~Y~Cp~CGF 58 (61)
T COG2888 26 VKFPCPN--CGEVEIYRCA-----KCRKLGNPYRCPKCGF 58 (61)
T ss_pred eEeeCCC--CCceeeehhh-----hHHHcCCceECCCcCc
Confidence 3478844 9866544432 2222356799988873
No 108
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=64.09 E-value=1.8 Score=24.64 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=8.0
Q ss_pred CceeecccccCcccCChh
Q psy6598 32 KPYVCQVRDCQKRFTEYS 49 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~ 49 (154)
+-+.|.-.+||..|....
T Consensus 26 ~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 26 RYHQCQNVNCSATFITYE 43 (72)
T ss_pred eeeecCCCCCCCEEEEEE
Confidence 334454223555554443
No 109
>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=61.74 E-value=1.6 Score=19.92 Aligned_cols=19 Identities=37% Similarity=0.800 Sum_probs=9.1
Q ss_pred eecccccccccccCHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHM 25 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~ 25 (154)
|.|. .|++.| .....+.|.
T Consensus 1 ~sCi--DC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCI--DCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEET--TTTEEE-EGGGTTT--
T ss_pred Ceee--cCCCCc-CcCCcCCCC
Confidence 4566 666666 333344443
No 110
>KOG1842|consensus
Probab=60.48 E-value=5.1 Score=30.94 Aligned_cols=30 Identities=30% Similarity=0.515 Sum_probs=23.8
Q ss_pred CceeCCCCcccccCchhHHHHHHhhcCcCC
Q psy6598 62 RPFICDRCPRSYRQLCTLNVHKKTNHRESK 91 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 91 (154)
..|.|++|...|.....|..|.-.-|.+..
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 458888888888888888888877666554
No 111
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=60.07 E-value=7.3 Score=20.96 Aligned_cols=31 Identities=13% Similarity=0.207 Sum_probs=13.2
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCC
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDR 68 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 68 (154)
.|..... |+..|....- ...+ ...+...|+.
T Consensus 23 ~PV~s~~--C~H~fek~aI-~~~i---~~~~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKK--CGHTFEKEAI-LQYI---QRNGSKRCPV 53 (57)
T ss_dssp SEEEESS--S--EEEHHHH-HHHC---TTTS-EE-SC
T ss_pred CCcCcCC--CCCeecHHHH-HHHH---HhcCCCCCCC
Confidence 4555544 7766665433 2233 2344566665
No 112
>KOG2593|consensus
Probab=59.49 E-value=12 Score=28.88 Aligned_cols=38 Identities=29% Similarity=0.698 Sum_probs=25.9
Q ss_pred cCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 29 SGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 29 ~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
+...-|.|.. |.+.|+....++- .-...-.|.|..|+-
T Consensus 124 t~~~~Y~Cp~--C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPN--CQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCc--cccchhhhHHHHh---hcccCceEEEecCCC
Confidence 4456799976 9999988877643 222233499998864
No 113
>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=59.05 E-value=4.4 Score=20.33 Aligned_cols=15 Identities=33% Similarity=0.820 Sum_probs=9.5
Q ss_pred CceeCCCCcccccCc
Q psy6598 62 RPFICDRCPRSYRQL 76 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~ 76 (154)
.||.|..|++.|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 479999999988544
No 114
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=57.54 E-value=1.2 Score=29.26 Aligned_cols=16 Identities=38% Similarity=0.854 Sum_probs=10.0
Q ss_pred eeecccccCcccCChhhH
Q psy6598 34 YVCQVRDCQKRFTEYSSL 51 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l 51 (154)
+.|.. ||+.|.....+
T Consensus 29 ~~c~~--c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLA--CGKRFTTFERV 44 (154)
T ss_pred eeccc--cCCcceEeEec
Confidence 66754 77777666544
No 115
>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=57.22 E-value=6.7 Score=25.93 Aligned_cols=31 Identities=13% Similarity=0.316 Sum_probs=24.1
Q ss_pred eecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCC
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTE 47 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~ 47 (154)
|.|+ .|+..|.....+. .-|.|+. ||.....
T Consensus 110 Y~Cp--~c~~r~tf~eA~~---------~~F~Cp~--Cg~~L~~ 140 (158)
T TIGR00373 110 FICP--NMCVRFTFNEAME---------LNFTCPR--CGAMLDY 140 (158)
T ss_pred EECC--CCCcEeeHHHHHH---------cCCcCCC--CCCEeee
Confidence 8899 9999988777664 2599977 9986543
No 116
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=57.16 E-value=13 Score=20.23 Aligned_cols=33 Identities=15% Similarity=0.505 Sum_probs=19.7
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
-.|.|.. ||.....+-. +-.....+|.|+.||.
T Consensus 24 ~~F~CPn--CG~~~I~RC~-----~CRk~~~~Y~CP~CGF 56 (59)
T PRK14890 24 VKFLCPN--CGEVIIYRCE-----KCRKQSNPYTCPKCGF 56 (59)
T ss_pred CEeeCCC--CCCeeEeech-----hHHhcCCceECCCCCC
Confidence 4588954 9876333321 2222356799999984
No 117
>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=56.82 E-value=6.3 Score=25.02 Aligned_cols=33 Identities=15% Similarity=0.304 Sum_probs=21.9
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhH
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTL 79 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 79 (154)
..|.. ||+.|.-.. ..|..|+.||..|.....+
T Consensus 10 r~Cp~--cg~kFYDLn-----------k~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 10 RICPN--TGSKFYDLN-----------RRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred ccCCC--cCccccccC-----------CCCccCCCcCCccCcchhh
Confidence 46755 888876532 2568888888887665443
No 118
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=54.74 E-value=7.2 Score=26.37 Aligned_cols=33 Identities=27% Similarity=0.623 Sum_probs=24.5
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCCh
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEY 48 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~ 48 (154)
-|.|+ .|+..|.....+. .-|.|+. ||......
T Consensus 117 ~Y~Cp--~C~~rytf~eA~~---------~~F~Cp~--Cg~~L~~~ 149 (178)
T PRK06266 117 FFFCP--NCHIRFTFDEAME---------YGFRCPQ--CGEMLEEY 149 (178)
T ss_pred EEECC--CCCcEEeHHHHhh---------cCCcCCC--CCCCCeec
Confidence 38899 9999987776553 3599977 99865543
No 119
>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=52.90 E-value=12 Score=17.57 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=5.5
Q ss_pred ceeCCCCccc
Q psy6598 63 PFICDRCPRS 72 (154)
Q Consensus 63 ~~~C~~C~~~ 72 (154)
+.+|+.||..
T Consensus 17 ~irC~~CG~R 26 (32)
T PF03604_consen 17 PIRCPECGHR 26 (32)
T ss_dssp TSSBSSSS-S
T ss_pred cEECCcCCCe
Confidence 4566666654
No 120
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=52.09 E-value=12 Score=24.07 Aligned_cols=20 Identities=25% Similarity=0.461 Sum_probs=11.3
Q ss_pred cccccccccccCHHHHHHHHHHhcC
Q psy6598 6 YFPWDCKISFASATNYKNHMRIHSG 30 (154)
Q Consensus 6 C~~~~C~~~f~~~~~l~~H~~~h~~ 30 (154)
|- .+|+.|+ .|++|+.+|.|
T Consensus 79 cL--EDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 79 CL--EDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred Ee--ccCcchH---HHHHHHhcccC
Confidence 55 5666653 35666666554
No 121
>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=51.87 E-value=5.5 Score=27.80 Aligned_cols=27 Identities=26% Similarity=0.493 Sum_probs=20.4
Q ss_pred CCCceeecccccCcccCChhhHHHHhhhh
Q psy6598 30 GEKPYVCQVRDCQKRFTEYSSLYKHTLVH 58 (154)
Q Consensus 30 ~~~~~~C~~~~C~~~f~~~~~l~~H~~~h 58 (154)
.+..|.|.. |+|.|.....+..|+..-
T Consensus 74 ~~~K~~C~l--c~KlFkg~eFV~KHI~nK 100 (214)
T PF04959_consen 74 DEDKWRCPL--CGKLFKGPEFVRKHIFNK 100 (214)
T ss_dssp SSEEEEE-S--SS-EESSHHHHHHHHHHH
T ss_pred cCCEECCCC--CCcccCChHHHHHHHhhc
Confidence 455799987 999999999999998753
No 122
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=51.66 E-value=8 Score=19.02 Aligned_cols=14 Identities=21% Similarity=0.292 Sum_probs=9.3
Q ss_pred CeecccccccccccCH
Q psy6598 3 PFFYFPWDCKISFASA 18 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~ 18 (154)
||+|. .|++.|-..
T Consensus 12 ~f~C~--~C~~~FC~~ 25 (39)
T smart00154 12 GFKCR--HCGNLFCGE 25 (39)
T ss_pred CeECC--ccCCccccc
Confidence 56777 777777543
No 123
>KOG3408|consensus
Probab=51.57 E-value=9.3 Score=24.04 Aligned_cols=25 Identities=32% Similarity=0.490 Sum_probs=21.5
Q ss_pred CCceeCCCCcccccCchhHHHHHHh
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
.-.|-|-.|.+-|.....|..|.++
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 3458999999999999999999876
No 124
>KOG4124|consensus
Probab=51.54 E-value=2 Score=31.98 Aligned_cols=53 Identities=30% Similarity=0.565 Sum_probs=40.4
Q ss_pred CCCeecccccccccccCHHHHHHHHH-Hhc------------------CCCceeecccccCcccCChhhHHHHh
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMR-IHS------------------GEKPYVCQVRDCQKRFTEYSSLYKHT 55 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~-~h~------------------~~~~~~C~~~~C~~~f~~~~~l~~H~ 55 (154)
.++|+|.-+.|.+.+....+|..|.. .|. ..|+|.|.+ |.+.++....|.-|.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i--~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEV--CSKRYKNLNGLKYHR 418 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChh--hhhhhccCCCCCcee
Confidence 47899998899999998888887743 232 147899988 998888777665553
No 125
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=50.98 E-value=10 Score=31.58 Aligned_cols=13 Identities=23% Similarity=0.565 Sum_probs=9.6
Q ss_pred CCCceeCCCCccc
Q psy6598 60 DIRPFICDRCPRS 72 (154)
Q Consensus 60 ~~~~~~C~~C~~~ 72 (154)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 4667888888864
No 126
>KOG3408|consensus
Probab=49.34 E-value=11 Score=23.70 Aligned_cols=16 Identities=25% Similarity=0.501 Sum_probs=9.2
Q ss_pred cCcccCChhhHHHHhh
Q psy6598 41 CQKRFTEYSSLYKHTL 56 (154)
Q Consensus 41 C~~~f~~~~~l~~H~~ 56 (154)
|.+.|.....|..|.+
T Consensus 63 CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 63 CARYFIDAKALKTHFK 78 (129)
T ss_pred hhhhhcchHHHHHHHh
Confidence 5555555555555554
No 127
>KOG2071|consensus
Probab=49.25 E-value=12 Score=30.01 Aligned_cols=27 Identities=15% Similarity=0.267 Sum_probs=21.3
Q ss_pred CCceeCCCCcccccCchhHHHHHHhhc
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
..|-.|..||.+|........||..|-
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 456889999999988888777777664
No 128
>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=49.24 E-value=9.2 Score=19.02 Aligned_cols=12 Identities=33% Similarity=1.002 Sum_probs=9.4
Q ss_pred CceeCCCCcccc
Q psy6598 62 RPFICDRCPRSY 73 (154)
Q Consensus 62 ~~~~C~~C~~~f 73 (154)
++..|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 467888888877
No 129
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=49.14 E-value=23 Score=17.60 Aligned_cols=24 Identities=21% Similarity=0.328 Sum_probs=16.1
Q ss_pred eeccccccccccc--CHHHHHHHHHHhc
Q psy6598 4 FFYFPWDCKISFA--SATNYKNHMRIHS 29 (154)
Q Consensus 4 ~~C~~~~C~~~f~--~~~~l~~H~~~h~ 29 (154)
-+|. .||..|. ....-..|.+.|.
T Consensus 14 ~~C~--~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCP--TCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCC--CCCCEECCCCHHHHHHHHHHHh
Confidence 4688 8887774 4456667777663
No 130
>PLN02294 cytochrome c oxidase subunit Vb
Probab=49.01 E-value=10 Score=25.43 Aligned_cols=21 Identities=14% Similarity=0.373 Sum_probs=15.3
Q ss_pred hhhhcCCCceeCCCCcccccCc
Q psy6598 55 TLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 55 ~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
+..+. .+|+.|+.||..|...
T Consensus 134 f~L~k-Gkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 134 FWLEK-GKSFECPVCTQYFELE 154 (174)
T ss_pred EEecC-CCceeCCCCCCEEEEE
Confidence 33444 4789999999998654
No 131
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=48.92 E-value=20 Score=26.24 Aligned_cols=29 Identities=21% Similarity=0.382 Sum_probs=23.6
Q ss_pred CCceeCCCCcccccCchhHHHHHHhhcCc
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKTNHRE 89 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 89 (154)
...|.|..|-+.|.....|.+|+....-.
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~~C~~r 74 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLAKCDIR 74 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHHhCCCC
Confidence 55699999999999999999998865433
No 132
>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=48.55 E-value=8.8 Score=19.13 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=6.1
Q ss_pred eeccccccccccc
Q psy6598 4 FFYFPWDCKISFA 16 (154)
Q Consensus 4 ~~C~~~~C~~~f~ 16 (154)
|+|. .||..|.
T Consensus 6 y~C~--~Cg~~fe 16 (42)
T PF09723_consen 6 YRCE--ECGHEFE 16 (42)
T ss_pred EEeC--CCCCEEE
Confidence 5555 5665554
No 133
>PHA00626 hypothetical protein
Probab=48.09 E-value=9.8 Score=20.43 Aligned_cols=13 Identities=15% Similarity=0.391 Sum_probs=8.6
Q ss_pred CeecccccccccccC
Q psy6598 3 PFFYFPWDCKISFAS 17 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~ 17 (154)
.|.|. .||..|..
T Consensus 23 rYkCk--dCGY~ft~ 35 (59)
T PHA00626 23 DYVCC--DCGYNDSK 35 (59)
T ss_pred ceEcC--CCCCeech
Confidence 47777 77776653
No 134
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=48.04 E-value=11 Score=22.81 Aligned_cols=20 Identities=15% Similarity=0.544 Sum_probs=15.3
Q ss_pred hhhhcCCCceeCCCCcccccC
Q psy6598 55 TLVHSDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 55 ~~~h~~~~~~~C~~C~~~f~~ 75 (154)
+..+.+ ++.+|..||..|..
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEE
Confidence 334555 79999999999864
No 135
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=47.63 E-value=14 Score=27.25 Aligned_cols=48 Identities=19% Similarity=0.446 Sum_probs=30.6
Q ss_pred ecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCchhHHHHHHhhc
Q psy6598 36 CQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 36 C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
|-. |...|.....-..- .-+..-.|.|..|...|-..-..-.|...|.
T Consensus 365 Cf~--CQ~~fp~~~~~~~~--~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 365 CFV--CQGPFPKPPVSPFD--ESTSSGRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred cee--ccCCCCCCCCCccc--ccccccceechhhhhhhhhhhHHHHHHHHhh
Confidence 555 66666654321111 1122345999999999998888888887764
No 136
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=46.89 E-value=17 Score=17.78 Aligned_cols=12 Identities=17% Similarity=0.379 Sum_probs=4.0
Q ss_pred CCeecccccccccc
Q psy6598 2 KPFFYFPWDCKISF 15 (154)
Q Consensus 2 k~~~C~~~~C~~~f 15 (154)
+.|-|+ .|...|
T Consensus 2 ~ryyCd--yC~~~~ 13 (38)
T PF06220_consen 2 PRYYCD--YCKKYL 13 (38)
T ss_dssp -S-B-T--TT--B-
T ss_pred cCeecc--ccccee
Confidence 456667 777666
No 137
>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=46.86 E-value=9.6 Score=18.46 Aligned_cols=11 Identities=27% Similarity=0.573 Sum_probs=6.2
Q ss_pred eeccccccccccc
Q psy6598 4 FFYFPWDCKISFA 16 (154)
Q Consensus 4 ~~C~~~~C~~~f~ 16 (154)
|+|. .||..|.
T Consensus 6 y~C~--~Cg~~fe 16 (41)
T smart00834 6 YRCE--DCGHTFE 16 (41)
T ss_pred EEcC--CCCCEEE
Confidence 5555 6666553
No 138
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=45.97 E-value=13 Score=26.47 Aligned_cols=15 Identities=27% Similarity=0.890 Sum_probs=11.6
Q ss_pred CceeCCCCcccccCc
Q psy6598 62 RPFICDRCPRSYRQL 76 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~ 76 (154)
--|.|+.|+..|.-.
T Consensus 154 aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 154 AEFHCPKCRHNFRGF 168 (278)
T ss_pred eeeecccccccchhh
Confidence 348999999888754
No 139
>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=44.90 E-value=18 Score=28.47 Aligned_cols=32 Identities=22% Similarity=0.494 Sum_probs=25.4
Q ss_pred cCCCceeCCCCcccccCchhHHHHHHhhcCcC
Q psy6598 59 SDIRPFICDRCPRSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 59 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 90 (154)
..-+-+.|+.|.+.|.....+..|+..-|...
T Consensus 53 ~sWrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 53 KSWRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred CceeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 33455899999999999999999998665443
No 140
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=44.85 E-value=11 Score=24.15 Aligned_cols=15 Identities=33% Similarity=0.727 Sum_probs=8.8
Q ss_pred ceeecccccCcccCChh
Q psy6598 33 PYVCQVRDCQKRFTEYS 49 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~ 49 (154)
|+.|.. ||+.|..-+
T Consensus 1 PH~Ct~--Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTK--CGRVFEDGS 15 (131)
T ss_pred CcccCc--CCCCcCCCc
Confidence 455655 666666544
No 141
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=44.17 E-value=11 Score=23.99 Aligned_cols=46 Identities=13% Similarity=0.325 Sum_probs=25.5
Q ss_pred HHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 22 KNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 22 ~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
..+++...+. -.|.. |+..... .+-..-.+...|+|+.|++.|...
T Consensus 21 ~~~~~~~~~~--~~cP~--C~s~~~~-----k~g~~~~~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 21 AYAIRMQITK--VNCPR--CKSSNVV-----KIGGIRRGHQRYKCKSCGSTFTVE 66 (129)
T ss_pred HHHHhhhccc--CcCCC--CCcccee-----eECCccccccccccCCcCcceeee
Confidence 3455554432 24755 7755311 111122235569999999998754
No 142
>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=43.53 E-value=11 Score=16.48 Aligned_cols=8 Identities=38% Similarity=0.795 Sum_probs=5.0
Q ss_pred Ceeccccccc
Q psy6598 3 PFFYFPWDCK 12 (154)
Q Consensus 3 ~~~C~~~~C~ 12 (154)
+|.|+ .||
T Consensus 16 ~f~CP--nCG 23 (24)
T PF07754_consen 16 PFPCP--NCG 23 (24)
T ss_pred eEeCC--CCC
Confidence 36666 666
No 143
>KOG0717|consensus
Probab=42.77 E-value=14 Score=28.87 Aligned_cols=21 Identities=24% Similarity=0.578 Sum_probs=17.6
Q ss_pred eeCCCCcccccCchhHHHHHH
Q psy6598 64 FICDRCPRSYRQLCTLNVHKK 84 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~ 84 (154)
+-|.+|.|.|.+..+|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 788889999998888888854
No 144
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=41.68 E-value=10 Score=23.04 Aligned_cols=39 Identities=18% Similarity=0.454 Sum_probs=22.9
Q ss_pred CCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccC
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 75 (154)
++.|.|.. |+..-.....+. .-...-...|..||..|..
T Consensus 20 ~k~FtCp~--Cghe~vs~ctvk----k~~~~g~~~Cg~CGls~e~ 58 (104)
T COG4888 20 PKTFTCPR--CGHEKVSSCTVK----KTVNIGTAVCGNCGLSFEC 58 (104)
T ss_pred CceEecCc--cCCeeeeEEEEE----ecCceeEEEcccCcceEEE
Confidence 45688877 887655443322 1122234688888887743
No 145
>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=41.55 E-value=16 Score=16.94 Aligned_cols=9 Identities=22% Similarity=0.907 Sum_probs=4.8
Q ss_pred ceeCCCCcc
Q psy6598 63 PFICDRCPR 71 (154)
Q Consensus 63 ~~~C~~C~~ 71 (154)
.|.|+.|+.
T Consensus 19 ~~vCp~C~~ 27 (30)
T PF08274_consen 19 LLVCPECGH 27 (30)
T ss_dssp SEEETTTTE
T ss_pred EEeCCcccc
Confidence 355555554
No 146
>PRK14873 primosome assembly protein PriA; Provisional
Probab=40.99 E-value=18 Score=29.81 Aligned_cols=10 Identities=30% Similarity=0.873 Sum_probs=7.6
Q ss_pred ceeCCCCccc
Q psy6598 63 PFICDRCPRS 72 (154)
Q Consensus 63 ~~~C~~C~~~ 72 (154)
|+.|+.||..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 5788888764
No 147
>KOG0782|consensus
Probab=40.88 E-value=3.9 Score=32.77 Aligned_cols=53 Identities=19% Similarity=0.433 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCch
Q psy6598 18 ATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQLC 77 (154)
Q Consensus 18 ~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 77 (154)
.+.+.+|--+|.-..--+|.. ||++|..+-.+..-. .....|..|...|-.+-
T Consensus 238 E~~fvrHHWVHrrRqeGkC~~--CgKgFQQKf~FhsKE-----ivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 238 ESGFVRHHWVHRRRQEGKCNT--CGKGFQQKFFFHSKE-----IVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cccchHHhHhhHhhhccccch--hhhhhhhheeecccc-----EEEEEehHHHHHhhcch
Confidence 346777766665555567987 999998876653322 34578888988876664
No 148
>KOG0717|consensus
Probab=40.31 E-value=20 Score=28.11 Aligned_cols=21 Identities=33% Similarity=0.589 Sum_probs=17.7
Q ss_pred eecccccccccccCHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
+-|. .|.++|.+...|..|..
T Consensus 293 lyC~--vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCV--VCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEe--eccccccchHHHHhhHH
Confidence 6788 99999999888888865
No 149
>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=40.19 E-value=6.6 Score=19.00 Aligned_cols=9 Identities=11% Similarity=0.316 Sum_probs=5.2
Q ss_pred ecccccccccc
Q psy6598 5 FYFPWDCKISF 15 (154)
Q Consensus 5 ~C~~~~C~~~f 15 (154)
.|. .||+.|
T Consensus 3 ~C~--~Cg~~Y 11 (36)
T PF05191_consen 3 ICP--KCGRIY 11 (36)
T ss_dssp EET--TTTEEE
T ss_pred CcC--CCCCcc
Confidence 455 666655
No 150
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=39.39 E-value=24 Score=27.63 Aligned_cols=30 Identities=17% Similarity=0.353 Sum_probs=24.5
Q ss_pred CCceeCCCCcccccCchhHHHHHHhhcCcC
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 90 (154)
...|.|..|-+-|.....|.+|+....-..
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~C~~~~ 225 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKKCDLKH 225 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhcCCCCC
Confidence 345999999999999999999998654333
No 151
>KOG2593|consensus
Probab=39.25 E-value=26 Score=27.17 Aligned_cols=36 Identities=11% Similarity=0.372 Sum_probs=25.0
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCccc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRF 45 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f 45 (154)
.|.|+ .|.+.|.....++.- -...-.|.|.. |+.-.
T Consensus 128 ~Y~Cp--~C~kkyt~Lea~~L~---~~~~~~F~C~~--C~gel 163 (436)
T KOG2593|consen 128 GYVCP--NCQKKYTSLEALQLL---DNETGEFHCEN--CGGEL 163 (436)
T ss_pred cccCC--ccccchhhhHHHHhh---cccCceEEEec--CCCch
Confidence 59999 999999876655532 22233599988 98543
No 152
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=39.18 E-value=15 Score=23.66 Aligned_cols=15 Identities=13% Similarity=0.419 Sum_probs=10.7
Q ss_pred CceeecccccCcccCCh
Q psy6598 32 KPYVCQVRDCQKRFTEY 48 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~ 48 (154)
..+.|.. ||..|...
T Consensus 69 ~~~~C~~--CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRN--CGNEWSLK 83 (135)
T ss_pred eEEECCC--CCCEEecc
Confidence 3488866 99887664
No 153
>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=39.08 E-value=14 Score=19.46 Aligned_cols=12 Identities=25% Similarity=0.587 Sum_probs=6.4
Q ss_pred eCCCCcccccCc
Q psy6598 65 ICDRCPRSYRQL 76 (154)
Q Consensus 65 ~C~~C~~~f~~~ 76 (154)
.|+.|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999988644
No 154
>PTZ00064 histone acetyltransferase; Provisional
Probab=38.96 E-value=28 Score=27.69 Aligned_cols=30 Identities=13% Similarity=0.088 Sum_probs=24.6
Q ss_pred CCceeCCCCcccccCchhHHHHHHhhcCcC
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKTNHRES 90 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 90 (154)
...|.|..|-+.|.....|.+|+....-..
T Consensus 278 d~LYICEfCLkY~~s~~~l~rH~~~C~~rh 307 (552)
T PTZ00064 278 DTLHFCEYCLDFFCFEDELIRHLSRCQLRH 307 (552)
T ss_pred CeEEEccchhhhhCCHHHHHHHHhcCCCCC
Confidence 345999999999999999999988654333
No 155
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=38.58 E-value=4.2 Score=33.35 Aligned_cols=57 Identities=18% Similarity=0.354 Sum_probs=35.9
Q ss_pred cccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCccc
Q psy6598 6 YFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRS 72 (154)
Q Consensus 6 C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 72 (154)
|. .||-.|+-...|-.-+..-+-..--.|+. |.+.|.....-+- | ..|..|+.||..
T Consensus 126 CT--~CGPRfTIi~alPYDR~nTsM~~F~lC~~--C~~EY~dP~nRRf----H--AQp~aCp~CGP~ 182 (750)
T COG0068 126 CT--NCGPRFTIIEALPYDRENTSMADFPLCPF--CDKEYKDPLNRRF----H--AQPIACPKCGPH 182 (750)
T ss_pred cC--CCCcceeeeccCCCCcccCccccCcCCHH--HHHHhcCcccccc----c--cccccCcccCCC
Confidence 88 89988876665544322111112235876 8888877765333 4 457899999974
No 156
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=38.18 E-value=15 Score=19.21 Aligned_cols=12 Identities=33% Similarity=0.578 Sum_probs=5.8
Q ss_pred CCeecccccccccc
Q psy6598 2 KPFFYFPWDCKISF 15 (154)
Q Consensus 2 k~~~C~~~~C~~~f 15 (154)
+.+.|. .||..|
T Consensus 3 k~l~C~--dCg~~F 14 (49)
T PF13451_consen 3 KTLTCK--DCGAEF 14 (49)
T ss_pred eeEEcc--cCCCeE
Confidence 344555 555444
No 157
>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=37.68 E-value=20 Score=22.33 Aligned_cols=24 Identities=17% Similarity=0.578 Sum_probs=14.3
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
..|.. |+..|..... .+.|+.||.
T Consensus 71 ~~C~~--Cg~~~~~~~~------------~~~CP~Cgs 94 (115)
T TIGR00100 71 CECED--CSEEVSPEID------------LYRCPKCHG 94 (115)
T ss_pred EEccc--CCCEEecCCc------------CccCcCCcC
Confidence 66755 7766655432 256777764
No 158
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=37.67 E-value=9.7 Score=21.47 Aligned_cols=31 Identities=16% Similarity=0.387 Sum_probs=13.1
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCccc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRS 72 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 72 (154)
..-.|.. |+..+..... ..+ ..+.|+.|+..
T Consensus 40 ~~v~Cg~--C~~~~~~~~~-------~c~-~~~~C~~C~~~ 70 (71)
T PF05495_consen 40 KRVICGK--CRTEQPIDEY-------SCG-ADYFCPICGLY 70 (71)
T ss_dssp -EEEETT--T--EEES-SB-------TT---SEEETTTTEE
T ss_pred cCeECCC--CCCccChhhh-------hcC-CCccCcCcCCC
Confidence 3456655 6665554433 011 34666666544
No 159
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=37.29 E-value=18 Score=21.53 Aligned_cols=31 Identities=23% Similarity=0.676 Sum_probs=20.3
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCccccc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYR 74 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 74 (154)
..|.|.+ |++.-.. +...| .+.|..|++.|.
T Consensus 34 ~ky~Cp~--Cgk~~vk--------R~a~G--IW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPF--CGKTSVK--------RVATG--IWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESS--SSSSEEE--------EEETT--EEEETTTTEEEE
T ss_pred CCCcCCC--CCCceeE--------EeeeE--EeecCCCCCEEe
Confidence 4589988 9976322 22333 389999998875
No 160
>KOG2636|consensus
Probab=36.29 E-value=25 Score=27.37 Aligned_cols=28 Identities=18% Similarity=0.318 Sum_probs=22.6
Q ss_pred hhhcCCCceeCCCCc-ccccCchhHHHHH
Q psy6598 56 LVHSDIRPFICDRCP-RSYRQLCTLNVHK 83 (154)
Q Consensus 56 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~ 83 (154)
+.|--..-|.|.+|| +++.=..++.+|-
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHh
Confidence 345556679999999 8899999999994
No 161
>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=36.16 E-value=49 Score=16.67 Aligned_cols=11 Identities=18% Similarity=0.700 Sum_probs=7.8
Q ss_pred CCceeCCCCcc
Q psy6598 61 IRPFICDRCPR 71 (154)
Q Consensus 61 ~~~~~C~~C~~ 71 (154)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 45688888765
No 162
>KOG2747|consensus
Probab=36.14 E-value=22 Score=27.27 Aligned_cols=33 Identities=18% Similarity=0.328 Sum_probs=26.8
Q ss_pred CCceeCCCCcccccCchhHHHHHHhhcCcCCCC
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKTNHRESKNK 93 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~ 93 (154)
...|.|.+|.+.+.....|.+|+....-..++.
T Consensus 156 ~~lYiCEfCLkY~~s~~~l~rH~~kC~~rhPPG 188 (396)
T KOG2747|consen 156 DKLYICEFCLKYMKSRTSLQRHLKKCKLRHPPG 188 (396)
T ss_pred CeEEEehHHHhHhchHHHHHHHHHhcCCCCCCc
Confidence 456999999999999999999999875544443
No 163
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=35.89 E-value=22 Score=21.63 Aligned_cols=13 Identities=23% Similarity=0.406 Sum_probs=5.9
Q ss_pred CeecccccccccccC
Q psy6598 3 PFFYFPWDCKISFAS 17 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~ 17 (154)
|++|. .||..|.+
T Consensus 2 pH~Ct--rCG~vf~~ 14 (112)
T COG3364 2 PHQCT--RCGEVFDD 14 (112)
T ss_pred Cceec--cccccccc
Confidence 34444 44444443
No 164
>KOG2807|consensus
Probab=35.87 E-value=77 Score=23.81 Aligned_cols=25 Identities=16% Similarity=0.600 Sum_probs=18.8
Q ss_pred ceeCCCCcccccCchhHHHHHHhhc
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
.|.|..|...|-..-..-.|...|.
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred cEEchhccceeeccchHHHHhhhhc
Confidence 4888888888887777777777653
No 165
>COG1773 Rubredoxin [Energy production and conversion]
Probab=35.57 E-value=19 Score=19.27 Aligned_cols=13 Identities=15% Similarity=0.258 Sum_probs=8.0
Q ss_pred CCeeccccccccccc
Q psy6598 2 KPFFYFPWDCKISFA 16 (154)
Q Consensus 2 k~~~C~~~~C~~~f~ 16 (154)
+.|+|. .||..|.
T Consensus 2 ~~~~C~--~CG~vYd 14 (55)
T COG1773 2 KRWRCS--VCGYVYD 14 (55)
T ss_pred CceEec--CCceEec
Confidence 356666 6666664
No 166
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=35.35 E-value=19 Score=21.47 Aligned_cols=32 Identities=19% Similarity=0.537 Sum_probs=20.5
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccC
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 75 (154)
..|.|.+ |++.-..+ .. .-.+.|..|++.|.=
T Consensus 35 a~y~Cpf--Cgk~~vkR--------~a--~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 35 AKYFCPF--CGKHAVKR--------QA--VGIWRCKGCKKTVAG 66 (90)
T ss_pred CCccCCC--CCCCceee--------ee--eEEEEcCCCCCEEeC
Confidence 4588988 98642221 11 234899999988754
No 167
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.24 E-value=9.7 Score=26.87 Aligned_cols=39 Identities=21% Similarity=0.430 Sum_probs=24.2
Q ss_pred CCceeecccccCcccCChhhHHHHhhhhcCCC----------c-----eeCCCCcc
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIR----------P-----FICDRCPR 71 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~----------~-----~~C~~C~~ 71 (154)
++.+.|++ |+..|....-+..-.|+-.|+- | ..|+.|+.
T Consensus 17 kk~ieCPv--C~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~y 70 (267)
T COG1655 17 KKTIECPV--CNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYY 70 (267)
T ss_pred hceeccCc--ccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhH
Confidence 34577877 8877777666555555433321 1 58999975
No 168
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.95 E-value=16 Score=22.52 Aligned_cols=25 Identities=20% Similarity=0.417 Sum_probs=17.5
Q ss_pred cccCcccCChhhHHHHhhhhcCCCceeCCCCccccc
Q psy6598 39 RDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYR 74 (154)
Q Consensus 39 ~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 74 (154)
|+||+.|.-.. ..|..|++||++|.
T Consensus 13 Petg~KFYDLN-----------rdPiVsPytG~s~P 37 (129)
T COG4530 13 PETGKKFYDLN-----------RDPIVSPYTGKSYP 37 (129)
T ss_pred ccccchhhccC-----------CCccccCcccccch
Confidence 34888776532 35788899999884
No 169
>KOG2071|consensus
Probab=34.44 E-value=26 Score=28.24 Aligned_cols=26 Identities=27% Similarity=0.519 Sum_probs=20.0
Q ss_pred CCeecccccccccccCHHHHHHHHHHhc
Q psy6598 2 KPFFYFPWDCKISFASATNYKNHMRIHS 29 (154)
Q Consensus 2 k~~~C~~~~C~~~f~~~~~l~~H~~~h~ 29 (154)
++-.|. .||..|........||..|.
T Consensus 417 ~pnqC~--~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 417 SPNQCK--SCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred Ccchhc--ccccccccchhhhhHhhhhh
Confidence 467899 99999988877777666653
No 170
>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=33.94 E-value=29 Score=25.04 Aligned_cols=24 Identities=17% Similarity=0.533 Sum_probs=11.6
Q ss_pred CceeCCCCcccccCchhHHHHHHh
Q psy6598 62 RPFICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
+++.|+.||........|..-.|+
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTRS 231 (314)
T ss_pred CCCCCCCCCCcccccccceeeeec
Confidence 455555555554444444433333
No 171
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.83 E-value=19 Score=19.75 Aligned_cols=43 Identities=28% Similarity=0.528 Sum_probs=25.5
Q ss_pred HHHHhcCCCceeecccccCcccCChhhHHHHhhhh---cCCCceeCCCCcccccC
Q psy6598 24 HMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVH---SDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 24 H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h---~~~~~~~C~~C~~~f~~ 75 (154)
|..++.+..++.|.- =+-.| .|-++. -.+.-..|++|+..|..
T Consensus 15 ~~~I~~~~~~l~C~g--~~~p~-------~HPrV~L~mg~~gev~CPYC~t~y~l 60 (62)
T COG4391 15 HETIEIGDLPLMCPG--PEPPN-------DHPRVFLDMGDEGEVVCPYCSTRYRL 60 (62)
T ss_pred ceEEEeCCeeEEcCC--CCCCC-------CCCEEEEEcCCCCcEecCccccEEEe
Confidence 555667788888854 32222 232221 22344799999998864
No 172
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=32.91 E-value=37 Score=18.27 Aligned_cols=6 Identities=17% Similarity=0.119 Sum_probs=2.7
Q ss_pred cccccc
Q psy6598 10 DCKISF 15 (154)
Q Consensus 10 ~C~~~f 15 (154)
.|++.+
T Consensus 7 lCdk~~ 12 (56)
T PF09963_consen 7 LCDKKE 12 (56)
T ss_pred ecCCEE
Confidence 454443
No 173
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=32.53 E-value=49 Score=24.29 Aligned_cols=25 Identities=32% Similarity=0.619 Sum_probs=20.7
Q ss_pred CCceeecccccCcccCChhhHHHHhhh
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLV 57 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~ 57 (154)
..-|.|.. |-+.|.+...|.+|+..
T Consensus 46 ~~lyiCe~--Clky~~~~~~l~~H~~~ 70 (290)
T PLN03238 46 TKLYICEY--CLKYMRKKKSLLRHLAK 70 (290)
T ss_pred CeEEEcCC--CcchhCCHHHHHHHHHh
Confidence 34589988 99999999999999763
No 174
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=32.33 E-value=20 Score=23.17 Aligned_cols=19 Identities=21% Similarity=0.684 Sum_probs=14.6
Q ss_pred hhcCCCceeCCCCcccccCc
Q psy6598 57 VHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 57 ~h~~~~~~~C~~C~~~f~~~ 76 (154)
.+.+ ++.+|..||..|...
T Consensus 107 l~~g-~~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 107 LHKG-KPQRCPECGQVFKLK 125 (136)
T ss_dssp EETT-SEEEETTTEEEEEEE
T ss_pred EeCC-CccCCCCCCeEEEEE
Confidence 4444 589999999998754
No 175
>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=32.27 E-value=20 Score=21.39 Aligned_cols=33 Identities=21% Similarity=0.531 Sum_probs=20.8
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
..|.|.+ |++.-.. +.- .-.+.|..|++.|.=.
T Consensus 34 a~y~Cpf--Cgk~~vk--------R~a--~GIW~C~~C~~~~AGG 66 (91)
T TIGR00280 34 AKYVCPF--CGKKTVK--------RGS--TGIWTCRKCGAKFAGG 66 (91)
T ss_pred cCccCCC--CCCCceE--------EEe--eEEEEcCCCCCEEeCC
Confidence 4588988 9865222 112 3348999999887543
No 176
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=32.17 E-value=29 Score=21.51 Aligned_cols=24 Identities=17% Similarity=0.336 Sum_probs=14.0
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
+.|.. ||..|.... ..+.|+.||.
T Consensus 71 ~~C~~--Cg~~~~~~~------------~~~~CP~Cgs 94 (113)
T PRK12380 71 AWCWD--CSQVVEIHQ------------HDAQCPHCHG 94 (113)
T ss_pred EEccc--CCCEEecCC------------cCccCcCCCC
Confidence 66755 776655432 2255777773
No 177
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=32.10 E-value=8.8 Score=18.96 Aligned_cols=10 Identities=20% Similarity=1.225 Sum_probs=4.5
Q ss_pred eeCCCCcccc
Q psy6598 64 FICDRCPRSY 73 (154)
Q Consensus 64 ~~C~~C~~~f 73 (154)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 4444444433
No 178
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=32.00 E-value=1.1e+02 Score=18.72 Aligned_cols=42 Identities=14% Similarity=0.239 Sum_probs=27.4
Q ss_pred CCCeecccccccccccCHHHHHHHHHHhcCCCceeecccccCcccCC
Q psy6598 1 MKPFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQKRFTE 47 (154)
Q Consensus 1 ~k~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~~f~~ 47 (154)
|..|.|+ .-|..|.+...+...+..- ..+.|.|.. .|+.-.+
T Consensus 1 eeVf~i~--~T~EiF~dYe~Y~~R~~~y-~~~vwtC~~--TGk~~LT 42 (102)
T PF10537_consen 1 EEVFYIP--FTGEIFRDYEEYLKRMILY-NQRVWTCEI--TGKSNLT 42 (102)
T ss_pred CceEEeC--CCCcccCCHHHHHHHHHHH-hCCeeEEec--CCCCCCC
Confidence 4567777 7888887776666555443 356688877 7764333
No 179
>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=31.72 E-value=42 Score=26.48 Aligned_cols=25 Identities=24% Similarity=0.462 Sum_probs=21.5
Q ss_pred eecccccccccccCHHHHHHHHH-HhcC
Q psy6598 4 FFYFPWDCKISFASATNYKNHMR-IHSG 30 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~-~h~~ 30 (154)
+.|+ .|.+.|.+...+..|+. .|.+
T Consensus 58 WiCp--~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICP--RCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCC--cccceeCCHHHHHHHHHHhhhh
Confidence 5688 99999999999999987 5654
No 180
>PTZ00448 hypothetical protein; Provisional
Probab=31.70 E-value=30 Score=26.31 Aligned_cols=24 Identities=13% Similarity=0.433 Sum_probs=21.1
Q ss_pred ceeCCCCcccccCchhHHHHHHhh
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKTN 86 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~~ 86 (154)
.|.|..|+-.|......+.|+++-
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 588999999999889999998864
No 181
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=31.52 E-value=21 Score=19.07 Aligned_cols=9 Identities=22% Similarity=0.892 Sum_probs=4.4
Q ss_pred eeCCCCccc
Q psy6598 64 FICDRCPRS 72 (154)
Q Consensus 64 ~~C~~C~~~ 72 (154)
..|+.|+..
T Consensus 22 VvCp~Cgap 30 (54)
T PF14446_consen 22 VVCPECGAP 30 (54)
T ss_pred EECCCCCCc
Confidence 455555543
No 182
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=30.57 E-value=74 Score=21.57 Aligned_cols=40 Identities=18% Similarity=0.544 Sum_probs=24.6
Q ss_pred HHHhcCCCceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccC
Q psy6598 25 MRIHSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 25 ~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 75 (154)
+..-....-|.|.. |.-.|+.-.+.. . .|.|+.||-....
T Consensus 105 le~~~~~~~y~C~~--~~~r~sfdeA~~------~---~F~Cp~Cg~~L~~ 144 (176)
T COG1675 105 LEKETENNYYVCPN--CHVKYSFDEAME------L---GFTCPKCGEDLEE 144 (176)
T ss_pred HHhhccCCceeCCC--CCCcccHHHHHH------h---CCCCCCCCchhhh
Confidence 33345567799954 776666544432 1 2999999975433
No 183
>KOG1994|consensus
Probab=30.33 E-value=34 Score=24.15 Aligned_cols=23 Identities=26% Similarity=0.710 Sum_probs=19.7
Q ss_pred CceeecccccCcccCChhhHHHHhh
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTL 56 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~ 56 (154)
-.|-|-+ ||..|.....|..|..
T Consensus 238 eh~YC~f--CG~~y~~~edl~ehCP 260 (268)
T KOG1994|consen 238 EHYYCFF--CGIKYKDEEDLYEHCP 260 (268)
T ss_pred cceEEEE--eccccCCHHHHHHhCC
Confidence 3488999 9999999999998853
No 184
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=30.21 E-value=69 Score=15.13 Aligned_cols=24 Identities=17% Similarity=0.271 Sum_probs=13.4
Q ss_pred ceeCCCCcccccCchhHHHHHHhhc
Q psy6598 63 PFICDRCPRSYRQLCTLNVHKKTNH 87 (154)
Q Consensus 63 ~~~C~~C~~~f~~~~~l~~H~~~~~ 87 (154)
-|.|+.|++.+. ...+..|+...-
T Consensus 4 ~~~C~nC~R~v~-a~RfA~HLekCm 27 (33)
T PF08209_consen 4 YVECPNCGRPVA-ASRFAPHLEKCM 27 (33)
T ss_dssp EEE-TTTSSEEE-GGGHHHHHHHHT
T ss_pred eEECCCCcCCcc-hhhhHHHHHHHH
Confidence 367777777543 344566666543
No 185
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=30.06 E-value=41 Score=17.79 Aligned_cols=34 Identities=18% Similarity=0.385 Sum_probs=20.9
Q ss_pred eecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 35 VCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 35 ~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
-|..++|+....... ..+.....|+.|+..|=..
T Consensus 20 ~CP~~~C~~~~~~~~--------~~~~~~v~C~~C~~~fC~~ 53 (64)
T smart00647 20 WCPAPDCSAAIIVTE--------EEGCNRVTCPKCGFSFCFR 53 (64)
T ss_pred CCCCCCCcceEEecC--------CCCCCeeECCCCCCeECCC
Confidence 376456877655432 2234568888888877544
No 186
>KOG4377|consensus
Probab=29.83 E-value=18 Score=27.83 Aligned_cols=25 Identities=20% Similarity=0.461 Sum_probs=17.6
Q ss_pred eeecccccCcccCChhhHHHHhhhh
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVH 58 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h 58 (154)
|.|.+++|+..+...+.+..|.+.|
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkh 426 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKH 426 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhh
Confidence 5666677777777777777776655
No 187
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=29.78 E-value=20 Score=23.20 Aligned_cols=32 Identities=19% Similarity=0.564 Sum_probs=17.4
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCccccc
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYR 74 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 74 (154)
.|.|.. |+..+... .+. ....|.|..|+..|.
T Consensus 123 ~~~C~~--C~~~~~r~------~~~--~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPS--CGREYKRH------RRS--KRKRYRCGRCGGPLV 154 (157)
T ss_pred EEEcCC--CCCEeeee------ccc--chhhEECCCCCCEEE
Confidence 467754 77665332 222 223377887876553
No 188
>KOG4727|consensus
Probab=29.49 E-value=35 Score=22.93 Aligned_cols=22 Identities=14% Similarity=0.442 Sum_probs=19.0
Q ss_pred CeecccccccccccCHHHHHHHHH
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
-|-|. +|+-+|...-++..|+.
T Consensus 75 GyyCd--VCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 75 GYYCD--VCDCVVKDSINFLDHIN 96 (193)
T ss_pred ceeee--ecceeehhhHHHHHHhc
Confidence 38899 99999999988888875
No 189
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=29.37 E-value=41 Score=22.17 Aligned_cols=32 Identities=31% Similarity=0.857 Sum_probs=17.2
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
+|.|. |+..|.+ ..+|-..-.|+ .|.|..|+-
T Consensus 117 ~Y~C~---C~q~~l~---~RRhn~~~~g~-~YrC~~C~g 148 (156)
T COG3091 117 PYRCQ---CQQHYLR---IRRHNTVRRGE-VYRCGKCGG 148 (156)
T ss_pred eEEee---cCCccch---hhhcccccccc-eEEeccCCc
Confidence 46664 6665444 23343444444 577777754
No 190
>PLN03239 histone acetyltransferase; Provisional
Probab=28.87 E-value=36 Score=25.70 Aligned_cols=25 Identities=8% Similarity=0.103 Sum_probs=22.2
Q ss_pred CCceeCCCCcccccCchhHHHHHHh
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
...|.|..|.+-|.+...|.+|+..
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~~ 128 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQAK 128 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHHh
Confidence 4679999999999999999999864
No 191
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=28.24 E-value=83 Score=21.42 Aligned_cols=47 Identities=23% Similarity=0.334 Sum_probs=17.5
Q ss_pred ccCcccCChhhHHHHhhhhcCCCceeCCC----CcccccCchhHHHHHHhhcCc
Q psy6598 40 DCQKRFTEYSSLYKHTLVHSDIRPFICDR----CPRSYRQLCTLNVHKKTNHRE 89 (154)
Q Consensus 40 ~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~~~~~ 89 (154)
||...+.. .....|.... .-+|+.|+. |+-. .....|..|....|..
T Consensus 23 GC~~~~~~-~~~~~HE~~C-~~~p~~CP~~~~~C~~~-G~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 23 GCTETFPY-SEKREHEEEC-PFRPCSCPFPGSGCDWQ-GSYKELLDHLRDKHSW 73 (198)
T ss_dssp T---EE-G-GGHHHHHHT--TTSEEE-SSSSTT---E-EECCCHHHHHHHHTTT
T ss_pred CCcccccc-cChhhHhccC-CCcCCcCCCCCCCcccc-CCHHHHHHHHHHHCCC
Confidence 35444322 2344454432 234566655 4321 2334566666655554
No 192
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=28.10 E-value=31 Score=24.38 Aligned_cols=17 Identities=12% Similarity=0.423 Sum_probs=13.9
Q ss_pred CCCceeCCCCcccccCc
Q psy6598 60 DIRPFICDRCPRSYRQL 76 (154)
Q Consensus 60 ~~~~~~C~~C~~~f~~~ 76 (154)
..++.+|..||..|...
T Consensus 178 EGkpqRCpECGqVFKLV 194 (268)
T PTZ00043 178 EGFLYRCGECDQIFMLV 194 (268)
T ss_pred CCCCccCCCCCcEEEEE
Confidence 45689999999999764
No 193
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.93 E-value=34 Score=21.36 Aligned_cols=13 Identities=23% Similarity=0.608 Sum_probs=7.5
Q ss_pred eeecccccCcccCCh
Q psy6598 34 YVCQVRDCQKRFTEY 48 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~ 48 (154)
+.|.. ||..|...
T Consensus 72 ~~C~~--Cg~~~~~~ 84 (117)
T PRK00564 72 LECKD--CSHVFKPN 84 (117)
T ss_pred EEhhh--CCCccccC
Confidence 56655 77655543
No 194
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=27.65 E-value=19 Score=18.94 Aligned_cols=26 Identities=23% Similarity=0.616 Sum_probs=11.8
Q ss_pred CCceeecccccCcccCChhhHHHHhhhh
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLVH 58 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~h 58 (154)
...|.|.. |+..|-..-.+-.|...|
T Consensus 19 ~~~y~C~~--C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPK--CKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TT--TT--B-HHHHHTTTTTS-
T ss_pred CCeEECCC--CCCccccCcChhhhcccc
Confidence 34577765 777777766666664443
No 195
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=27.63 E-value=12 Score=19.17 Aligned_cols=17 Identities=18% Similarity=0.401 Sum_probs=10.1
Q ss_pred CceeecccccCcccCCh
Q psy6598 32 KPYVCQVRDCQKRFTEY 48 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~ 48 (154)
.-|.|....||..|...
T Consensus 24 ~Y~qC~N~~Cg~tfv~~ 40 (47)
T PF04606_consen 24 LYCQCTNPECGHTFVAN 40 (47)
T ss_pred EEEEECCCcCCCEEEEE
Confidence 34666655677766543
No 196
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=27.30 E-value=1e+02 Score=16.38 Aligned_cols=19 Identities=16% Similarity=0.494 Sum_probs=15.0
Q ss_pred eeecccccCcccCChhhHHHH
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKH 54 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H 54 (154)
+-|-+ ||..|.....|.++
T Consensus 28 ~YC~~--Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 28 NYCFW--CGTKYDDEEDLERN 46 (55)
T ss_pred ceeee--eCCccCCHHHHHhC
Confidence 56888 99888888887654
No 197
>PF07150 DUF1390: Protein of unknown function (DUF1390); InterPro: IPR009820 This entry is represented by Paramecium bursaria Chlorella virus 1, A79R; it is a family of uncharacterised viral proteins.
Probab=27.13 E-value=60 Score=23.00 Aligned_cols=21 Identities=29% Similarity=0.494 Sum_probs=10.2
Q ss_pred eeCCCCcccccCchhHHHHHHh
Q psy6598 64 FICDRCPRSYRQLCTLNVHKKT 85 (154)
Q Consensus 64 ~~C~~C~~~f~~~~~l~~H~~~ 85 (154)
|.| .||+.-...++..+|.++
T Consensus 8 Y~C-~CGYkT~~~gnAsKHkKt 28 (229)
T PF07150_consen 8 YTC-GCGYKTTNKGNASKHKKT 28 (229)
T ss_pred EEe-cCCceecCCccccccCCC
Confidence 445 255544444555555443
No 198
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=26.82 E-value=35 Score=18.28 Aligned_cols=13 Identities=15% Similarity=0.232 Sum_probs=8.7
Q ss_pred eeCCCCcccccCc
Q psy6598 64 FICDRCPRSYRQL 76 (154)
Q Consensus 64 ~~C~~C~~~f~~~ 76 (154)
=-|++|++.|...
T Consensus 40 ngCPfC~~~~~~~ 52 (55)
T PF14447_consen 40 NGCPFCGTPFEFD 52 (55)
T ss_pred cCCCCCCCcccCC
Confidence 4677888777543
No 199
>KOG1280|consensus
Probab=26.59 E-value=71 Score=24.16 Aligned_cols=41 Identities=20% Similarity=0.378 Sum_probs=0.0
Q ss_pred hcCCCceeecccccCcccCChhhHHHHhhhhcCCCc--eeCCCCc
Q psy6598 28 HSGEKPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRP--FICDRCP 70 (154)
Q Consensus 28 h~~~~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~--~~C~~C~ 70 (154)
|.....|.|.+ |+..-.+...|..|...-+.+-. ..|++|+
T Consensus 74 ~y~~qSftCPy--C~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 74 HYDPQSFTCPY--CGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccccccCCc--ccccccchhHHHHHhhhcCcccCcceeeeccc
No 200
>PLN02748 tRNA dimethylallyltransferase
Probab=26.52 E-value=48 Score=26.23 Aligned_cols=21 Identities=24% Similarity=0.559 Sum_probs=10.7
Q ss_pred eeecccccCc-ccCChhhHHHHhh
Q psy6598 34 YVCQVRDCQK-RFTEYSSLYKHTL 56 (154)
Q Consensus 34 ~~C~~~~C~~-~f~~~~~l~~H~~ 56 (154)
|.|.. |++ .+........|++
T Consensus 419 ~~Ce~--C~~~~~~G~~eW~~Hlk 440 (468)
T PLN02748 419 YVCEA--CGNKVLRGAHEWEQHKQ 440 (468)
T ss_pred ccccC--CCCcccCCHHHHHHHhc
Confidence 34555 554 4555555555544
No 201
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=26.50 E-value=28 Score=20.77 Aligned_cols=32 Identities=22% Similarity=0.509 Sum_probs=20.1
Q ss_pred CceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccC
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQ 75 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 75 (154)
..|.|.+ |++.-..+ .. .-.+.|..|++.|.-
T Consensus 35 a~y~Cpf--Cgk~~vkR--------~a--~GIW~C~~C~~~~AG 66 (90)
T PRK03976 35 AKHVCPV--CGRPKVKR--------VG--TGIWECRKCGAKFAG 66 (90)
T ss_pred cCccCCC--CCCCceEE--------EE--EEEEEcCCCCCEEeC
Confidence 4588987 97652221 12 234889999988753
No 202
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=26.42 E-value=48 Score=17.27 Aligned_cols=12 Identities=17% Similarity=0.595 Sum_probs=8.2
Q ss_pred CceeCCCCcccc
Q psy6598 62 RPFICDRCPRSY 73 (154)
Q Consensus 62 ~~~~C~~C~~~f 73 (154)
..+.|..||..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 457888887654
No 203
>KOG1813|consensus
Probab=26.26 E-value=41 Score=24.76 Aligned_cols=22 Identities=27% Similarity=0.377 Sum_probs=12.3
Q ss_pred eCCCCcc----cccCchhHHHHHHhh
Q psy6598 65 ICDRCPR----SYRQLCTLNVHKKTN 86 (154)
Q Consensus 65 ~C~~C~~----~f~~~~~l~~H~~~~ 86 (154)
.|.+|++ .|.....|..-|...
T Consensus 277 ~c~vC~~~t~g~~~~akeL~~~L~~k 302 (313)
T KOG1813|consen 277 KCYVCSQQTHGSFNVAKELLVSLKLK 302 (313)
T ss_pred cceecccccccccchHHHHHHHHHhh
Confidence 5556665 355555666555543
No 204
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=26.17 E-value=33 Score=19.25 Aligned_cols=16 Identities=13% Similarity=0.443 Sum_probs=9.1
Q ss_pred hhcCCCceeCCCCcccc
Q psy6598 57 VHSDIRPFICDRCPRSY 73 (154)
Q Consensus 57 ~h~~~~~~~C~~C~~~f 73 (154)
...+.+.-+| .||+..
T Consensus 14 a~e~~kTkkC-~CG~~l 29 (68)
T PF09082_consen 14 AKEGAKTKKC-VCGKTL 29 (68)
T ss_dssp EETT-SEEEE-TTTEEE
T ss_pred ecCCcceeEe-cCCCee
Confidence 3444566677 777753
No 205
>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=26.14 E-value=36 Score=21.05 Aligned_cols=25 Identities=28% Similarity=0.603 Sum_probs=14.2
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCccc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRS 72 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 72 (154)
+.|.. ||..|...... +.|+.||..
T Consensus 71 ~~C~~--Cg~~~~~~~~~------------~~CP~Cgs~ 95 (113)
T PF01155_consen 71 ARCRD--CGHEFEPDEFD------------FSCPRCGSP 95 (113)
T ss_dssp EEETT--TS-EEECHHCC------------HH-SSSSSS
T ss_pred EECCC--CCCEEecCCCC------------CCCcCCcCC
Confidence 67766 88777664321 448888754
No 206
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.11 E-value=22 Score=28.22 Aligned_cols=11 Identities=27% Similarity=0.628 Sum_probs=7.2
Q ss_pred CCceeCCCCcc
Q psy6598 61 IRPFICDRCPR 71 (154)
Q Consensus 61 ~~~~~C~~C~~ 71 (154)
..|..|+.||.
T Consensus 251 ~~~~~Cp~C~s 261 (505)
T TIGR00595 251 PIPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCCC
Confidence 34567777765
No 207
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=24.86 E-value=24 Score=24.72 Aligned_cols=34 Identities=12% Similarity=0.147 Sum_probs=0.0
Q ss_pred CCceeCCCCcccccCchhHHHHHHhhcCcCCCCCC
Q psy6598 61 IRPFICDRCPRSYRQLCTLNVHKKTNHRESKNKKP 95 (154)
Q Consensus 61 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 95 (154)
..-..|++||.... .+.|..|||+..-+..++..
T Consensus 166 ~~~~~cPitGe~IP-~~e~~eHmRi~LlDP~wkEq 199 (229)
T PF12230_consen 166 EKMIICPITGEMIP-ADEMDEHMRIELLDPRWKEQ 199 (229)
T ss_dssp -----------------------------------
T ss_pred cccccccccccccc-cccccccccccccccccccc
Confidence 34589999998754 56799999999888877643
No 208
>KOG2807|consensus
Probab=24.77 E-value=1.5e+02 Score=22.42 Aligned_cols=30 Identities=27% Similarity=0.720 Sum_probs=21.9
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCc
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCP 70 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 70 (154)
.|.|.. |...|...-....|...| .|+.|.
T Consensus 345 ~y~C~~--Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 345 RYRCES--CKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred cEEchh--ccceeeccchHHHHhhhh------cCCCcC
Confidence 377766 888888888877776655 566664
No 209
>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=24.74 E-value=32 Score=17.71 Aligned_cols=7 Identities=29% Similarity=1.208 Sum_probs=2.7
Q ss_pred eeCCCCc
Q psy6598 64 FICDRCP 70 (154)
Q Consensus 64 ~~C~~C~ 70 (154)
|.|+.|+
T Consensus 35 w~CP~C~ 41 (47)
T PF00301_consen 35 WVCPVCG 41 (47)
T ss_dssp -B-TTTS
T ss_pred CcCcCCC
Confidence 5555554
No 210
>COG5027 SAS2 Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=24.69 E-value=47 Score=25.14 Aligned_cols=31 Identities=23% Similarity=0.430 Sum_probs=25.0
Q ss_pred CceeCCCCcccccCchhHHHHHHhhcCcCCC
Q psy6598 62 RPFICDRCPRSYRQLCTLNVHKKTNHRESKN 92 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~ 92 (154)
.-|.|..|-+.|.....|.+|.+.+.-..++
T Consensus 157 ~vyICefClkY~~s~~~~~rH~~kC~~~~pP 187 (395)
T COG5027 157 IVYICEFCLKYYGSQTSLVRHRKKCSLQHPP 187 (395)
T ss_pred eEEEhhhhHHHhcchhHHHHHHhcCcCcCCC
Confidence 3499999999999999999999876544333
No 211
>PTZ00448 hypothetical protein; Provisional
Probab=24.26 E-value=59 Score=24.78 Aligned_cols=21 Identities=24% Similarity=0.604 Sum_probs=9.9
Q ss_pred eecccccccccccCHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMR 26 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~ 26 (154)
|.|. .|+..|.+....+.|++
T Consensus 315 ~tC~--~C~v~F~~~~~qR~H~K 335 (373)
T PTZ00448 315 LLCR--KCNIQLMDHNAFKQHYR 335 (373)
T ss_pred cccc--ccccccCCHHHHHHHhh
Confidence 4455 55555544444444443
No 212
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=24.25 E-value=35 Score=21.21 Aligned_cols=25 Identities=28% Similarity=0.594 Sum_probs=14.0
Q ss_pred eeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcc
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPR 71 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 71 (154)
+.|.. |+..|..... ..+.|+.||.
T Consensus 71 ~~C~~--Cg~~~~~~~~-----------~~~~CP~Cgs 95 (114)
T PRK03681 71 CWCET--CQQYVTLLTQ-----------RVRRCPQCHG 95 (114)
T ss_pred EEccc--CCCeeecCCc-----------cCCcCcCcCC
Confidence 66755 8765544221 1156888874
No 213
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=24.24 E-value=2.3e+02 Score=18.97 Aligned_cols=81 Identities=14% Similarity=0.369 Sum_probs=45.5
Q ss_pred cccccccccCHHHHHHHHHHhcCC--------------------------CceeecccccCcccCChhhHHHHhhhhcCC
Q psy6598 8 PWDCKISFASATNYKNHMRIHSGE--------------------------KPYVCQVRDCQKRFTEYSSLYKHTLVHSDI 61 (154)
Q Consensus 8 ~~~C~~~f~~~~~l~~H~~~h~~~--------------------------~~~~C~~~~C~~~f~~~~~l~~H~~~h~~~ 61 (154)
+..|+..|....-|.+-.+.+... ....|.. |.....-..-.. --+.+...
T Consensus 29 pymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~CPL--CRG~V~GWtvve-~AR~~LN~ 105 (162)
T PF07800_consen 29 PYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPELACPL--CRGEVKGWTVVE-PARRFLNA 105 (162)
T ss_pred ccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccccCcc--ccCceeceEEch-HHHHHhcc
Confidence 345666777666666555544321 1356766 765433333222 23455556
Q ss_pred CceeCCC--CcccccCchhHHHHHHhhcCcCCC
Q psy6598 62 RPFICDR--CPRSYRQLCTLNVHKKTNHRESKN 92 (154)
Q Consensus 62 ~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~ 92 (154)
|+-.|.. |... .+...|.+|.+.-|....+
T Consensus 106 K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~rP 137 (162)
T PF07800_consen 106 KKRSCSQESCSFS-GTYSELRKHARSEHPSARP 137 (162)
T ss_pred CCccCcccccccc-cCHHHHHHHHHhhCCCCCC
Confidence 6666654 4422 3667899999987765443
No 214
>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=24.03 E-value=54 Score=17.02 Aligned_cols=7 Identities=29% Similarity=0.781 Sum_probs=3.7
Q ss_pred ccccccc
Q psy6598 10 DCKISFA 16 (154)
Q Consensus 10 ~C~~~f~ 16 (154)
.|++.|.
T Consensus 7 ~C~~~F~ 13 (57)
T cd00065 7 GCGKPFT 13 (57)
T ss_pred ccCcccc
Confidence 5555554
No 215
>KOG2636|consensus
Probab=23.56 E-value=68 Score=25.17 Aligned_cols=29 Identities=17% Similarity=0.488 Sum_probs=24.4
Q ss_pred HHhcCCCceeecccccC-cccCChhhHHHHhh
Q psy6598 26 RIHSGEKPYVCQVRDCQ-KRFTEYSSLYKHTL 56 (154)
Q Consensus 26 ~~h~~~~~~~C~~~~C~-~~f~~~~~l~~H~~ 56 (154)
+.|.-...|.|.+ || +++.-+..+.+|..
T Consensus 394 KLHGL~~ey~CEI--CGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEI--CGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceee--ccCccccCcHHHHHHhH
Confidence 4566677899999 99 89999999999976
No 216
>PF04641 Rtf2: Rtf2 RING-finger
Probab=23.22 E-value=92 Score=22.38 Aligned_cols=36 Identities=19% Similarity=0.404 Sum_probs=19.7
Q ss_pred ceeecccccCcccCChhhHHHHhhhhcCCCceeCCCCcccccCc
Q psy6598 33 PYVCQVRDCQKRFTEYSSLYKHTLVHSDIRPFICDRCPRSYRQL 76 (154)
Q Consensus 33 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 76 (154)
.|.+. ..||-.|..... .. +. +--.|+.|+..|...
T Consensus 128 ~fv~l-~~cG~V~s~~al-ke-~k-----~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 128 KFVYL-RPCGCVFSEKAL-KE-LK-----KSKKCPVCGKPFTEE 163 (260)
T ss_pred eEEEE-cCCCCEeeHHHH-Hh-hc-----ccccccccCCccccC
Confidence 34444 257766655432 11 11 224599999988755
No 217
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=23.01 E-value=31 Score=16.63 Aligned_cols=19 Identities=21% Similarity=0.447 Sum_probs=9.9
Q ss_pred HHHHhhhhcCCCceeCCCC
Q psy6598 51 LYKHTLVHSDIRPFICDRC 69 (154)
Q Consensus 51 l~~H~~~h~~~~~~~C~~C 69 (154)
+.+|-+...|...|.|..|
T Consensus 17 v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 17 VKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred ceeCCCCCCCCEeEecCcC
Confidence 3444444455555666655
No 218
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.97 E-value=64 Score=23.63 Aligned_cols=11 Identities=27% Similarity=0.785 Sum_probs=6.2
Q ss_pred eeCCCCccccc
Q psy6598 64 FICDRCPRSYR 74 (154)
Q Consensus 64 ~~C~~C~~~f~ 74 (154)
|.|+.|.-.|-
T Consensus 256 yvCs~Clsi~C 266 (279)
T TIGR00627 256 FVCSVCLSVLC 266 (279)
T ss_pred EECCCccCCcC
Confidence 66666655443
No 219
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.94 E-value=70 Score=16.73 Aligned_cols=13 Identities=15% Similarity=0.649 Sum_probs=5.9
Q ss_pred eeecccccCcccCCh
Q psy6598 34 YVCQVRDCQKRFTEY 48 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~ 48 (154)
++|.. ||..|...
T Consensus 29 W~C~~--Cgh~w~~~ 41 (55)
T PF14311_consen 29 WKCPK--CGHEWKAS 41 (55)
T ss_pred EECCC--CCCeeEcc
Confidence 44544 54444443
No 220
>KOG2312|consensus
Probab=22.91 E-value=26 Score=28.94 Aligned_cols=24 Identities=21% Similarity=0.314 Sum_probs=20.1
Q ss_pred eecccccccccccCHHHHHHHHHH
Q psy6598 4 FFYFPWDCKISFASATNYKNHMRI 27 (154)
Q Consensus 4 ~~C~~~~C~~~f~~~~~l~~H~~~ 27 (154)
|.|.|..|.+.|...+.+-.|...
T Consensus 644 ~mc~w~~c~~~~~tPs~vl~h~~~ 667 (847)
T KOG2312|consen 644 FMCLWQSCKKWFQTPSQVLYHAAT 667 (847)
T ss_pred eeecccccchhhcCcchhheecch
Confidence 778888888888888888888764
No 221
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=22.76 E-value=64 Score=17.31 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=5.6
Q ss_pred CceeCCCCcc
Q psy6598 62 RPFICDRCPR 71 (154)
Q Consensus 62 ~~~~C~~C~~ 71 (154)
..|.|+.||-
T Consensus 13 v~~~Cp~cGi 22 (55)
T PF13824_consen 13 VNFECPDCGI 22 (55)
T ss_pred cCCcCCCCCC
Confidence 3466666664
No 222
>PTZ00064 histone acetyltransferase; Provisional
Probab=22.62 E-value=75 Score=25.43 Aligned_cols=25 Identities=20% Similarity=0.333 Sum_probs=21.1
Q ss_pred CCceeecccccCcccCChhhHHHHhhh
Q psy6598 31 EKPYVCQVRDCQKRFTEYSSLYKHTLV 57 (154)
Q Consensus 31 ~~~~~C~~~~C~~~f~~~~~l~~H~~~ 57 (154)
+.-|.|.+ |-+.|.....|.+|+..
T Consensus 278 d~LYICEf--CLkY~~s~~~l~rH~~~ 302 (552)
T PTZ00064 278 DTLHFCEY--CLDFFCFEDELIRHLSR 302 (552)
T ss_pred CeEEEccc--hhhhhCCHHHHHHHHhc
Confidence 34599988 99999999999999863
No 223
>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=22.55 E-value=40 Score=17.94 Aligned_cols=13 Identities=23% Similarity=0.503 Sum_probs=9.8
Q ss_pred eeCCCCcccccCc
Q psy6598 64 FICDRCPRSYRQL 76 (154)
Q Consensus 64 ~~C~~C~~~f~~~ 76 (154)
|.|+.||..+.-.
T Consensus 3 ~~CP~CG~~iev~ 15 (54)
T TIGR01206 3 FECPDCGAEIELE 15 (54)
T ss_pred cCCCCCCCEEecC
Confidence 7899999876543
No 224
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the 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=22.28 E-value=42 Score=16.27 Aligned_cols=26 Identities=27% Similarity=0.595 Sum_probs=12.1
Q ss_pred CeecccccccccccCHHHHHHHHHHhcCCCceeecccccCc
Q psy6598 3 PFFYFPWDCKISFASATNYKNHMRIHSGEKPYVCQVRDCQK 43 (154)
Q Consensus 3 ~~~C~~~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~~~C~~ 43 (154)
-|+|. .||.... -.+.|.-+..| ||.
T Consensus 6 ~YkC~--~CGniVe---------v~~~g~g~lvC----CGe 31 (36)
T PF06397_consen 6 FYKCE--HCGNIVE---------VVHDGGGPLVC----CGE 31 (36)
T ss_dssp EEE-T--TT--EEE---------EEE--SS-EEE----TTE
T ss_pred EEEcc--CCCCEEE---------EEECCCCCEEe----CCc
Confidence 48888 8987642 23445555666 664
No 226
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=22.03 E-value=71 Score=25.14 Aligned_cols=24 Identities=29% Similarity=0.542 Sum_probs=20.8
Q ss_pred CceeecccccCcccCChhhHHHHhhh
Q psy6598 32 KPYVCQVRDCQKRFTEYSSLYKHTLV 57 (154)
Q Consensus 32 ~~~~C~~~~C~~~f~~~~~l~~H~~~ 57 (154)
.-|.|.+ |-+.|.....|.+|+..
T Consensus 197 ~lyiCe~--Cl~y~~~~~~~~~H~~~ 220 (450)
T PLN00104 197 KLYFCEF--CLKFMKRKEQLQRHMKK 220 (450)
T ss_pred eEEEchh--hhhhhcCHHHHHHHHhc
Confidence 4599988 99999999999999863
No 227
>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=21.88 E-value=41 Score=17.58 Aligned_cols=7 Identities=29% Similarity=1.208 Sum_probs=3.9
Q ss_pred eeCCCCc
Q psy6598 64 FICDRCP 70 (154)
Q Consensus 64 ~~C~~C~ 70 (154)
|.|+.|+
T Consensus 35 w~CP~C~ 41 (50)
T cd00730 35 WVCPVCG 41 (50)
T ss_pred CCCCCCC
Confidence 5555554
No 228
>PF12907 zf-met2: Zinc-binding
Probab=21.75 E-value=51 Score=16.38 Aligned_cols=25 Identities=20% Similarity=0.390 Sum_probs=14.3
Q ss_pred eeccccccccccc---CHHHHHHHHH-HhcC
Q psy6598 4 FFYFPWDCKISFA---SATNYKNHMR-IHSG 30 (154)
Q Consensus 4 ~~C~~~~C~~~f~---~~~~l~~H~~-~h~~ 30 (154)
+.|. +|-.+|. ....|..|.. .|..
T Consensus 2 i~C~--iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 2 IICK--ICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred cCcH--HhhHHHHhcCCHHHHHHHHHccCCC
Confidence 4567 7775553 3455777755 4544
No 229
>KOG2907|consensus
Probab=21.65 E-value=57 Score=20.31 Aligned_cols=38 Identities=16% Similarity=0.413 Sum_probs=21.0
Q ss_pred eeecccccCcccCChhhHHHHhhhhc--CCCceeCCCCcccccC
Q psy6598 34 YVCQVRDCQKRFTEYSSLYKHTLVHS--DIRPFICDRCPRSYRQ 75 (154)
Q Consensus 34 ~~C~~~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~ 75 (154)
.+|.. ||..=.....|+. |+.- .-.-|.|+.|++.|..
T Consensus 75 ~kCpk--Cghe~m~Y~T~Ql--RSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPK--CGHEEMSYHTLQL--RSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcc--cCCchhhhhhhhc--ccccCCceEEEEcCccceeeec
Confidence 67855 8865333333322 2221 1234899999888764
No 230
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=21.43 E-value=1.1e+02 Score=14.96 Aligned_cols=11 Identities=18% Similarity=0.555 Sum_probs=6.9
Q ss_pred CCceeCCCCcc
Q psy6598 61 IRPFICDRCPR 71 (154)
Q Consensus 61 ~~~~~C~~C~~ 71 (154)
.....|++|++
T Consensus 34 ~~~~~CP~C~k 44 (44)
T PF14634_consen 34 GKSVKCPICRK 44 (44)
T ss_pred CCCCCCcCCCC
Confidence 44567777753
No 231
>KOG0696|consensus
Probab=21.01 E-value=34 Score=26.87 Aligned_cols=47 Identities=26% Similarity=0.460 Sum_probs=27.0
Q ss_pred HHHHHHHhcCCCceeecccccCcccCChhhHHHHh-hhhcCCCceeCCCCc
Q psy6598 21 YKNHMRIHSGEKPYVCQVRDCQKRFTEYSSLYKHT-LVHSDIRPFICDRCP 70 (154)
Q Consensus 21 l~~H~~~h~~~~~~~C~~~~C~~~f~~~~~l~~H~-~~h~~~~~~~C~~C~ 70 (154)
+..|.+.|. =..|.| |+-++.+.+-..-..|. +.|+-.-|--|+.||
T Consensus 81 fvvHkrChe-fVtF~C--PGadkg~dtDdpr~kHkf~~~tYssPTFCDhCG 128 (683)
T KOG0696|consen 81 FVVHKRCHE-FVTFSC--PGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCG 128 (683)
T ss_pred ehhhhhhcc-eEEEEC--CCCCCCCCCCCcccccceeeeecCCCchhhhHH
Confidence 567777774 235777 34666666665555553 245555555555555
No 232
>KOG0978|consensus
Probab=20.24 E-value=36 Score=28.28 Aligned_cols=21 Identities=19% Similarity=0.461 Sum_probs=15.8
Q ss_pred CceeCCCCcccccCchhHHHH
Q psy6598 62 RPFICDRCPRSYRQLCTLNVH 82 (154)
Q Consensus 62 ~~~~C~~C~~~f~~~~~l~~H 82 (154)
+.-+||.|+..|...+-+..|
T Consensus 677 RqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred hcCCCCCCCCCCCcccccccC
Confidence 345899999999887765544
Done!