Query psy7450
Match_columns 161
No_of_seqs 230 out of 1849
Neff 10.0
Searched_HMMs 46136
Date Fri Aug 16 18:39:13 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7450.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7450hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 5.6E-27 1.2E-31 165.8 2.7 122 2-152 141-265 (279)
2 KOG2462|consensus 99.9 4.2E-23 9.2E-28 146.2 3.2 114 17-157 127-242 (279)
3 KOG1074|consensus 99.7 1.3E-17 2.8E-22 133.0 1.9 81 49-154 605-692 (958)
4 KOG3576|consensus 99.6 3.4E-17 7.3E-22 111.6 -2.1 119 16-155 113-237 (267)
5 KOG1074|consensus 99.6 4.6E-16 1E-20 124.2 1.1 56 20-76 353-408 (958)
6 KOG3623|consensus 99.5 5.6E-15 1.2E-19 116.8 1.9 76 16-93 890-965 (1007)
7 KOG3623|consensus 99.5 2.9E-15 6.2E-20 118.4 -0.0 82 47-153 892-973 (1007)
8 KOG3608|consensus 99.5 5.3E-15 1.2E-19 108.4 -0.4 142 1-152 189-374 (467)
9 KOG3576|consensus 99.3 5.2E-14 1.1E-18 96.2 -1.8 84 5-90 131-224 (267)
10 KOG3608|consensus 99.3 3E-13 6.5E-18 99.4 -1.6 89 3-93 275-367 (467)
11 PHA02768 hypothetical protein; 99.1 1.4E-10 3.1E-15 63.4 2.9 42 49-93 5-46 (55)
12 PHA00733 hypothetical protein 98.9 4.8E-10 1E-14 73.2 1.9 73 17-93 37-114 (128)
13 PHA00733 hypothetical protein 98.9 1.7E-09 3.7E-14 70.6 4.0 63 7-74 62-124 (128)
14 PLN03086 PRLI-interacting fact 98.9 2.3E-09 5E-14 84.9 5.1 111 16-149 449-559 (567)
15 PHA02768 hypothetical protein; 98.9 1E-09 2.2E-14 60.1 2.0 44 20-66 5-48 (55)
16 PF13465 zf-H2C2_2: Zinc-finge 98.8 3.1E-09 6.6E-14 49.9 2.1 25 64-89 1-25 (26)
17 PF13465 zf-H2C2_2: Zinc-finge 98.7 2.3E-08 4.9E-13 46.9 2.5 26 35-61 1-26 (26)
18 PLN03086 PRLI-interacting fact 98.6 4.1E-08 8.8E-13 78.0 3.4 79 5-91 466-554 (567)
19 PHA00616 hypothetical protein 98.5 3.5E-08 7.6E-13 51.5 1.5 34 49-83 1-34 (44)
20 KOG3993|consensus 98.4 1.3E-07 2.8E-12 71.6 2.9 140 4-152 280-480 (500)
21 PHA00732 hypothetical protein 98.3 4.2E-07 9.2E-12 54.2 3.0 38 49-89 1-38 (79)
22 PHA00616 hypothetical protein 98.3 3E-07 6.6E-12 48.0 1.8 34 20-54 1-34 (44)
23 PHA00732 hypothetical protein 98.2 9.8E-07 2.1E-11 52.6 2.5 46 20-72 1-47 (79)
24 KOG3993|consensus 98.1 3.4E-07 7.3E-12 69.4 -0.6 113 20-153 267-379 (500)
25 PF00096 zf-C2H2: Zinc finger, 97.9 8.4E-06 1.8E-10 36.8 2.0 22 50-71 1-22 (23)
26 PF05605 zf-Di19: Drought indu 97.9 2.6E-05 5.7E-10 43.1 4.4 52 20-74 2-54 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.8 1.8E-05 3.9E-10 35.6 2.1 23 21-43 1-23 (23)
28 PF13894 zf-C2H2_4: C2H2-type 97.7 5E-05 1.1E-09 34.2 2.6 24 50-73 1-24 (24)
29 PF13912 zf-C2H2_6: C2H2-type 97.6 4.5E-05 9.7E-10 35.8 1.7 25 49-73 1-25 (27)
30 COG5189 SFP1 Putative transcri 97.4 3.9E-05 8.5E-10 56.5 0.4 24 18-41 347-372 (423)
31 PF13912 zf-C2H2_6: C2H2-type 97.4 9.6E-05 2.1E-09 34.6 1.5 25 20-44 1-25 (27)
32 PF09237 GAGA: GAGA factor; I 97.3 0.00023 4.9E-09 38.1 2.4 31 47-77 22-52 (54)
33 PF12756 zf-C2H2_2: C2H2 type 97.3 0.00023 5E-09 44.0 2.9 24 49-72 50-73 (100)
34 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00027 5.8E-09 31.7 2.2 23 21-43 1-23 (24)
35 PF09237 GAGA: GAGA factor; I 97.2 0.00064 1.4E-08 36.4 3.6 41 8-49 12-52 (54)
36 PRK04860 hypothetical protein; 97.0 0.00056 1.2E-08 46.4 2.8 39 48-91 118-156 (160)
37 smart00355 ZnF_C2H2 zinc finge 97.0 0.00094 2E-08 30.3 2.5 22 51-72 2-23 (26)
38 PF05605 zf-Di19: Drought indu 96.7 0.0022 4.8E-08 35.3 3.2 39 49-88 2-41 (54)
39 smart00355 ZnF_C2H2 zinc finge 96.7 0.0017 3.7E-08 29.4 2.3 24 21-44 1-24 (26)
40 COG5189 SFP1 Putative transcri 96.7 0.0016 3.4E-08 48.3 3.2 31 113-151 389-419 (423)
41 PRK04860 hypothetical protein; 96.7 0.0011 2.3E-08 45.0 1.8 40 19-63 118-157 (160)
42 PF12756 zf-C2H2_2: C2H2 type 96.6 0.0002 4.3E-09 44.3 -1.7 23 122-152 50-72 (100)
43 PF13909 zf-H2C2_5: C2H2-type 96.4 0.0036 7.8E-08 28.2 2.1 23 50-73 1-23 (24)
44 PF12874 zf-met: Zinc-finger o 96.3 0.003 6.5E-08 28.7 1.6 22 50-71 1-22 (25)
45 PF12874 zf-met: Zinc-finger o 96.3 0.00044 9.5E-09 31.6 -1.3 24 123-154 1-24 (25)
46 PF12171 zf-C2H2_jaz: Zinc-fin 96.0 0.0021 4.6E-08 30.0 0.3 24 123-154 2-25 (27)
47 PF13909 zf-H2C2_5: C2H2-type 95.3 0.018 3.8E-07 25.9 1.9 23 21-44 1-23 (24)
48 PF12171 zf-C2H2_jaz: Zinc-fin 94.8 0.0074 1.6E-07 28.1 -0.1 21 50-70 2-22 (27)
49 PF13913 zf-C2HC_2: zinc-finge 94.3 0.048 1E-06 24.9 2.0 19 51-70 4-22 (25)
50 smart00451 ZnF_U1 U1-like zinc 93.3 0.083 1.8E-06 25.9 2.0 22 49-70 3-24 (35)
51 smart00451 ZnF_U1 U1-like zinc 93.2 0.023 4.9E-07 28.0 -0.2 27 122-156 3-29 (35)
52 cd00350 rubredoxin_like Rubred 92.0 0.12 2.7E-06 25.2 1.6 24 50-86 2-25 (33)
53 KOG1146|consensus 91.6 0.14 3.1E-06 45.0 2.5 67 5-71 450-540 (1406)
54 COG5048 FOG: Zn-finger [Genera 91.0 0.044 9.6E-07 42.3 -0.9 62 19-82 288-355 (467)
55 cd00729 rubredoxin_SM Rubredox 90.3 0.25 5.3E-06 24.3 1.7 25 49-86 2-26 (34)
56 COG5048 FOG: Zn-finger [Genera 90.1 0.28 6.1E-06 37.8 2.8 52 1-54 299-356 (467)
57 PF13719 zinc_ribbon_5: zinc-r 88.3 0.46 1E-05 23.8 1.9 32 51-88 4-35 (37)
58 TIGR02098 MJ0042_CXXC MJ0042 f 87.6 0.52 1.1E-05 23.6 1.9 34 50-89 3-36 (38)
59 COG1592 Rubrerythrin [Energy p 87.2 0.49 1.1E-05 32.3 2.1 24 48-85 133-156 (166)
60 PF13717 zinc_ribbon_4: zinc-r 87.1 0.63 1.4E-05 23.2 1.9 32 51-88 4-35 (36)
61 KOG2893|consensus 86.6 0.43 9.2E-06 34.4 1.6 33 52-89 13-45 (341)
62 KOG2186|consensus 85.9 0.42 9E-06 34.7 1.2 53 21-77 4-56 (276)
63 KOG2231|consensus 84.3 0.94 2E-05 37.6 2.7 103 31-158 125-240 (669)
64 KOG1146|consensus 83.6 0.26 5.7E-06 43.5 -0.7 104 26-158 442-546 (1406)
65 PF09986 DUF2225: Uncharacteri 83.5 0.21 4.6E-06 35.6 -1.1 13 79-91 49-61 (214)
66 COG4049 Uncharacterized protei 82.5 0.72 1.6E-05 25.3 1.0 23 48-70 16-38 (65)
67 TIGR00373 conserved hypothetic 82.3 2.3 4.9E-05 28.9 3.6 34 47-90 107-140 (158)
68 PF09538 FYDLN_acid: Protein o 82.3 0.98 2.1E-05 28.6 1.7 16 47-62 24-39 (108)
69 PF14353 CpXC: CpXC protein 79.7 0.89 1.9E-05 29.5 0.9 63 79-157 2-65 (128)
70 KOG2893|consensus 79.2 0.57 1.2E-05 33.8 -0.1 45 18-68 9-53 (341)
71 smart00531 TFIIE Transcription 79.0 4.8 0.0001 26.9 4.3 39 47-90 97-135 (147)
72 smart00659 RPOLCX RNA polymera 78.0 1.6 3.4E-05 22.9 1.3 11 50-60 3-13 (44)
73 PF09723 Zn-ribbon_8: Zinc rib 77.9 1.5 3.3E-05 22.6 1.3 12 79-90 6-17 (42)
74 PRK06266 transcription initiat 77.4 3.2 6.9E-05 28.8 3.1 35 47-91 115-149 (178)
75 PRK00464 nrdR transcriptional 77.0 1.7 3.7E-05 29.4 1.7 17 121-145 27-43 (154)
76 smart00834 CxxC_CXXC_SSSS Puta 76.4 0.93 2E-05 22.9 0.2 13 50-62 6-18 (41)
77 TIGR02605 CxxC_CxxC_SSSS putat 75.6 0.98 2.1E-05 24.3 0.2 29 50-86 6-34 (52)
78 COG1198 PriA Primosomal protei 75.4 3.5 7.5E-05 35.0 3.3 15 117-131 470-484 (730)
79 KOG2186|consensus 75.0 1.7 3.8E-05 31.6 1.3 40 49-91 3-42 (276)
80 PRK00398 rpoP DNA-directed RNA 74.3 1.5 3.2E-05 23.0 0.6 30 49-89 3-32 (46)
81 COG2888 Predicted Zn-ribbon RN 73.5 3.4 7.3E-05 23.1 1.9 33 48-86 26-58 (61)
82 TIGR00622 ssl1 transcription f 73.1 8.2 0.00018 24.6 3.9 19 20-38 15-33 (112)
83 COG1997 RPL43A Ribosomal prote 73.0 1.4 3E-05 26.6 0.4 36 47-93 33-68 (89)
84 PRK06266 transcription initiat 70.7 2.5 5.4E-05 29.3 1.3 34 18-61 115-148 (178)
85 TIGR02300 FYDLN_acid conserved 69.8 2.9 6.3E-05 27.2 1.3 33 20-64 9-41 (129)
86 PRK14890 putative Zn-ribbon RN 69.5 3.9 8.4E-05 22.8 1.6 32 48-86 24-56 (59)
87 smart00614 ZnF_BED BED zinc fi 69.2 5.5 0.00012 21.2 2.2 21 50-70 19-44 (50)
88 COG4049 Uncharacterized protei 69.1 1.6 3.4E-05 24.0 0.0 28 117-152 12-39 (65)
89 COG1996 RPC10 DNA-directed RNA 68.8 3 6.5E-05 22.4 1.0 10 50-59 7-16 (49)
90 PF12013 DUF3505: Protein of u 68.6 5.2 0.00011 25.1 2.3 26 49-74 80-109 (109)
91 PF04959 ARS2: Arsenite-resist 67.4 4.8 0.0001 28.8 2.2 30 16-45 73-102 (214)
92 PF02892 zf-BED: BED zinc fing 63.6 8.8 0.00019 19.6 2.3 23 47-69 14-40 (45)
93 PF03604 DNA_RNApol_7kD: DNA d 63.5 3.8 8.3E-05 19.8 0.8 7 50-56 18-24 (32)
94 KOG2785|consensus 63.1 11 0.00024 29.2 3.5 54 19-72 165-243 (390)
95 KOG4173|consensus 60.6 0.78 1.7E-05 32.3 -2.7 86 48-150 78-166 (253)
96 PF07754 DUF1610: Domain of un 60.5 4.2 9.2E-05 18.3 0.6 7 79-85 17-23 (24)
97 COG3364 Zn-ribbon containing p 60.1 7 0.00015 24.4 1.6 15 49-63 2-16 (112)
98 PF09845 DUF2072: Zn-ribbon co 59.6 4.9 0.00011 26.3 1.0 11 79-89 2-12 (131)
99 smart00734 ZnF_Rad18 Rad18-lik 59.3 11 0.00024 17.1 1.9 19 51-70 3-21 (26)
100 PF05443 ROS_MUCR: ROS/MUCR tr 58.4 6.3 0.00014 25.9 1.3 26 49-77 72-97 (132)
101 PHA00626 hypothetical protein 56.8 9.2 0.0002 21.1 1.6 16 120-143 21-36 (59)
102 PF10571 UPF0547: Uncharacteri 56.5 6.4 0.00014 18.0 0.8 9 80-88 16-24 (26)
103 smart00440 ZnF_C2C2 C2C2 Zinc 56.0 7.8 0.00017 19.7 1.2 14 120-141 26-39 (40)
104 PF01096 TFIIS_C: Transcriptio 54.2 5 0.00011 20.2 0.3 14 119-140 25-38 (39)
105 KOG4173|consensus 53.2 4.4 9.6E-05 28.7 -0.0 68 20-91 79-159 (253)
106 PF04959 ARS2: Arsenite-resist 52.4 7.5 0.00016 27.8 1.0 29 47-75 75-103 (214)
107 PF13451 zf-trcl: Probable zin 52.3 11 0.00024 20.2 1.4 14 48-61 3-16 (49)
108 PF05290 Baculo_IE-1: Baculovi 50.6 13 0.00029 24.4 1.9 59 16-93 76-136 (140)
109 PRK09678 DNA-binding transcrip 50.5 9.4 0.0002 22.3 1.1 21 118-146 23-45 (72)
110 PRK03824 hypA hydrogenase nick 50.3 14 0.00031 24.3 2.0 44 78-128 70-113 (135)
111 COG1198 PriA Primosomal protei 49.3 16 0.00034 31.2 2.6 48 22-87 437-484 (730)
112 KOG4167|consensus 49.1 4.1 8.9E-05 34.3 -0.8 26 49-74 792-817 (907)
113 PF15269 zf-C2H2_7: Zinc-finge 48.8 15 0.00033 19.2 1.6 22 50-71 21-42 (54)
114 COG5236 Uncharacterized conser 48.7 27 0.00059 27.0 3.5 65 3-70 200-272 (493)
115 PF00301 Rubredoxin: Rubredoxi 48.5 14 0.00031 19.5 1.5 12 79-90 2-13 (47)
116 COG3357 Predicted transcriptio 46.7 10 0.00022 23.2 0.8 28 48-86 57-84 (97)
117 cd00730 rubredoxin Rubredoxin; 46.3 25 0.00054 18.9 2.2 11 79-89 2-12 (50)
118 smart00154 ZnF_AN1 AN1-like Zi 45.6 11 0.00024 19.0 0.7 11 79-89 13-23 (39)
119 COG2331 Uncharacterized protei 44.4 6.7 0.00015 23.0 -0.2 10 21-30 13-22 (82)
120 PF12013 DUF3505: Protein of u 44.3 21 0.00046 22.3 2.1 25 21-45 81-109 (109)
121 KOG2785|consensus 43.7 4.2 9.2E-05 31.4 -1.4 30 117-154 63-92 (390)
122 TIGR00100 hypA hydrogenase nic 42.1 14 0.0003 23.6 1.0 28 49-89 70-97 (115)
123 KOG2593|consensus 41.7 20 0.00043 28.4 1.9 15 19-33 127-141 (436)
124 COG5236 Uncharacterized conser 41.6 40 0.00086 26.1 3.4 23 51-73 222-244 (493)
125 cd00924 Cyt_c_Oxidase_Vb Cytoc 41.6 11 0.00024 23.3 0.5 13 19-31 78-90 (97)
126 KOG1280|consensus 41.6 44 0.00095 25.8 3.6 38 48-85 78-116 (381)
127 PRK12380 hydrogenase nickel in 41.5 16 0.00035 23.3 1.2 26 49-87 70-95 (113)
128 KOG2231|consensus 41.0 30 0.00065 29.2 2.9 19 23-41 185-203 (669)
129 KOG2593|consensus 40.6 35 0.00076 27.1 3.1 37 47-88 126-163 (436)
130 PRK00432 30S ribosomal protein 40.6 16 0.00034 19.6 0.9 9 79-87 38-46 (50)
131 COG3091 SprT Zn-dependent meta 40.0 14 0.0003 24.9 0.8 36 47-88 115-150 (156)
132 PF01428 zf-AN1: AN1-like Zinc 39.7 9.9 0.00021 19.5 0.0 12 78-89 13-24 (43)
133 PF01363 FYVE: FYVE zinc finge 39.6 14 0.0003 20.9 0.7 11 79-89 10-20 (69)
134 COG4888 Uncharacterized Zn rib 39.0 3.5 7.5E-05 25.6 -2.0 53 47-104 20-72 (104)
135 PRK14892 putative transcriptio 38.4 16 0.00036 22.7 0.9 49 48-104 20-68 (99)
136 PTZ00255 60S ribosomal protein 38.4 16 0.00035 22.3 0.8 34 47-91 34-67 (90)
137 PRK00564 hypA hydrogenase nick 37.7 18 0.00038 23.2 1.0 29 49-89 71-99 (117)
138 KOG3408|consensus 37.2 23 0.00049 22.9 1.4 25 47-71 55-79 (129)
139 cd00065 FYVE FYVE domain; Zinc 36.2 32 0.00069 18.4 1.8 11 79-89 19-29 (57)
140 COG0068 HypF Hydrogenase matur 36.2 3.3 7.2E-05 34.7 -3.1 61 22-91 125-186 (750)
141 PF06524 NOA36: NOA36 protein; 35.3 50 0.0011 24.5 3.0 26 120-153 207-232 (314)
142 PF12907 zf-met2: Zinc-binding 35.1 8.5 0.00018 19.7 -0.6 23 51-73 3-28 (40)
143 PRK03681 hypA hydrogenase nick 34.1 16 0.00035 23.3 0.4 28 49-88 70-97 (114)
144 KOG4167|consensus 34.0 9 0.0002 32.4 -1.0 26 120-153 790-815 (907)
145 PF09963 DUF2197: Uncharacteri 33.7 17 0.00036 20.1 0.3 8 49-56 31-38 (56)
146 PF07282 OrfB_Zn_ribbon: Putat 32.1 31 0.00067 19.4 1.3 10 79-88 47-56 (69)
147 KOG2482|consensus 32.0 29 0.00064 26.7 1.5 24 49-72 195-218 (423)
148 PF11672 DUF3268: Protein of u 31.8 20 0.00042 22.5 0.5 7 79-85 32-38 (102)
149 PF10263 SprT-like: SprT-like 31.2 17 0.00036 24.2 0.1 32 49-89 123-154 (157)
150 PF08274 PhnA_Zn_Ribbon: PhnA 31.1 26 0.00056 16.6 0.7 7 79-85 20-26 (30)
151 smart00064 FYVE Protein presen 31.0 34 0.00075 19.1 1.4 11 79-89 27-37 (68)
152 PRK14873 primosome assembly pr 30.9 38 0.00083 28.7 2.1 45 22-88 385-432 (665)
153 PF15135 UPF0515: Uncharacteri 30.2 1.1E+02 0.0023 22.7 3.9 13 79-91 156-168 (278)
154 PF14311 DUF4379: Domain of un 29.9 52 0.0011 17.7 1.9 12 50-61 29-40 (55)
155 KOG3214|consensus 29.8 17 0.00036 22.6 -0.1 24 79-102 48-71 (109)
156 PF10276 zf-CHCC: Zinc-finger 29.4 20 0.00042 18.3 0.1 10 79-88 30-39 (40)
157 COG4530 Uncharacterized protei 28.9 41 0.00088 21.4 1.5 13 47-59 24-36 (129)
158 TIGR03831 YgiT_finger YgiT-typ 28.8 31 0.00068 17.4 0.9 12 78-89 32-43 (46)
159 COG4957 Predicted transcriptio 28.6 27 0.00059 23.0 0.7 22 21-45 77-98 (148)
160 PF12760 Zn_Tnp_IS1595: Transp 28.5 15 0.00033 19.1 -0.4 8 79-86 38-45 (46)
161 PF04423 Rad50_zn_hook: Rad50 27.9 23 0.0005 19.1 0.3 11 80-90 22-32 (54)
162 COG1655 Uncharacterized protei 27.8 11 0.00024 27.2 -1.2 24 47-70 17-40 (267)
163 PF05191 ADK_lid: Adenylate ki 27.6 45 0.00097 16.5 1.3 11 79-89 2-12 (36)
164 PF13878 zf-C2H2_3: zinc-finge 27.5 78 0.0017 16.0 2.2 23 50-72 14-38 (41)
165 COG5112 UFD2 U1-like Zn-finger 27.2 15 0.00033 23.0 -0.6 26 119-152 52-77 (126)
166 PF01155 HypA: Hydrogenase exp 27.0 26 0.00056 22.2 0.4 28 49-89 70-97 (113)
167 PF10013 DUF2256: Uncharacteri 26.8 48 0.001 17.1 1.3 15 51-65 10-24 (42)
168 PF13824 zf-Mss51: Zinc-finger 26.6 60 0.0013 17.9 1.7 8 79-86 15-22 (55)
169 COG4306 Uncharacterized protei 26.5 33 0.00073 22.3 0.8 51 42-92 32-82 (160)
170 PF02176 zf-TRAF: TRAF-type zi 26.5 39 0.00085 18.3 1.1 7 64-70 25-31 (60)
171 COG5151 SSL1 RNA polymerase II 26.2 55 0.0012 25.0 2.0 11 118-128 384-394 (421)
172 KOG2071|consensus 26.0 49 0.0011 27.4 1.9 27 47-73 416-442 (579)
173 KOG2482|consensus 25.5 45 0.00097 25.8 1.5 23 20-42 195-217 (423)
174 PF06220 zf-U1: U1 zinc finger 25.3 54 0.0012 16.4 1.3 12 20-31 3-14 (38)
175 COG1675 TFA1 Transcription ini 25.3 1.2E+02 0.0027 21.0 3.5 33 47-89 111-143 (176)
176 COG1998 RPS31 Ribosomal protei 25.0 53 0.0011 17.6 1.3 8 79-86 38-45 (51)
177 KOG2907|consensus 24.9 36 0.00078 21.7 0.8 39 49-89 74-113 (116)
178 KOG0717|consensus 24.5 17 0.00038 29.1 -0.8 29 123-159 293-323 (508)
179 KOG3507|consensus 24.4 33 0.00071 19.1 0.4 27 21-59 21-47 (62)
180 KOG2932|consensus 24.3 16 0.00035 27.7 -1.0 32 119-155 141-172 (389)
181 COG1571 Predicted DNA-binding 24.1 56 0.0012 26.0 1.8 29 51-91 352-380 (421)
182 PRK04351 hypothetical protein; 23.8 32 0.00069 23.1 0.4 32 49-89 112-143 (149)
183 PF08209 Sgf11: Sgf11 (transcr 23.8 35 0.00076 16.6 0.4 11 79-89 5-15 (33)
184 COG1773 Rubredoxin [Energy pro 23.5 38 0.00083 18.6 0.6 11 79-89 4-14 (55)
185 COG3677 Transposase and inacti 23.5 45 0.00098 21.8 1.1 41 50-96 31-71 (129)
186 PRK04023 DNA polymerase II lar 23.1 73 0.0016 28.5 2.4 10 20-29 626-635 (1121)
187 TIGR00686 phnA alkylphosphonat 22.6 49 0.0011 20.9 1.0 11 80-90 4-14 (109)
188 PF01780 Ribosomal_L37ae: Ribo 22.0 33 0.00072 21.0 0.2 10 79-88 36-45 (90)
189 KOG2636|consensus 21.8 65 0.0014 25.9 1.7 25 15-39 396-421 (497)
190 smart00731 SprT SprT homologue 21.8 44 0.00096 22.1 0.8 10 79-88 134-143 (146)
191 PRK14714 DNA polymerase II lar 21.5 72 0.0016 29.2 2.1 9 21-29 668-676 (1337)
192 PRK00762 hypA hydrogenase nick 21.0 41 0.0009 21.8 0.5 34 49-89 70-103 (124)
193 COG4640 Predicted membrane pro 20.6 55 0.0012 25.9 1.1 12 80-91 17-28 (465)
194 PF01927 Mut7-C: Mut7-C RNAse 20.2 82 0.0018 20.9 1.8 47 21-68 92-143 (147)
No 1
>KOG2462|consensus
Probab=99.93 E-value=5.6e-27 Score=165.80 Aligned_cols=122 Identities=22% Similarity=0.283 Sum_probs=111.9
Q ss_pred CCCCCCCCccccCCCC---CcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCc
Q psy7450 2 FSEFNLPPHTLFNPLL---QFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEM 78 (161)
Q Consensus 2 ~~~~~l~~H~~~~h~~---~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~ 78 (161)
.+.++|.+|... |-. .+.+.|.+|++.|.+...|..|+++|+ -+++|.+||+.|.++--|+-|+|+|+||||
T Consensus 141 sT~snLsrHkQ~-H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~---l~c~C~iCGKaFSRPWLLQGHiRTHTGEKP- 215 (279)
T KOG2462|consen 141 STSSNLSRHKQT-HRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT---LPCECGICGKAFSRPWLLQGHIRTHTGEKP- 215 (279)
T ss_pred ccccccchhhcc-cccccccccccCCCCCceeeehHHHhhHhhccC---CCcccccccccccchHHhhcccccccCCCC-
Confidence 466789999988 633 567999999999999999999999985 479999999999999999999999999999
Q ss_pred cccCCCCCccccccccCCCccchhhhhhhhhhcccCCCCCcCcccCCCcccCcCcCCCcchhhccccccccccC
Q psy7450 79 LSVKHQGPEMLSIKHQGPETLSIKHQVSEMLSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNG 152 (161)
Q Consensus 79 ~~C~~C~k~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~ 152 (161)
|.|+.|+|+|+.+++ | ..|+.+|.+.++|+|+.| +|+|..++.|..|.-+
T Consensus 216 F~C~hC~kAFADRSN---------------L-RAHmQTHS~~K~~qC~~C--------~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 216 FSCPHCGKAFADRSN---------------L-RAHMQTHSDVKKHQCPRC--------GKSFALKSYLNKHSES 265 (279)
T ss_pred ccCCcccchhcchHH---------------H-HHHHHhhcCCccccCcch--------hhHHHHHHHHHHhhhh
Confidence 999999999999999 7 779999999999999999 9999999999999743
No 2
>KOG2462|consensus
Probab=99.87 E-value=4.2e-23 Score=146.23 Aligned_cols=114 Identities=24% Similarity=0.309 Sum_probs=100.7
Q ss_pred CCcccccccccccccCHHHHHHHHHHhcC--CCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcccccccc
Q psy7450 17 LQFRYTCDSCGKVYKLKRSLYRHRTLECG--KEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQ 94 (161)
Q Consensus 17 ~~k~~~C~~C~~~f~~~~~l~~H~~~h~~--~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~ 94 (161)
....|.|+.||+.+.+.++|.+|+.+|-. +.+.+.|+.||+.+..-..|..|+|+|+ -+ ++|.+|||.|+++=-
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~-c~C~iCGKaFSRPWL- 202 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LP-CECGICGKAFSRPWL- 202 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CC-cccccccccccchHH-
Confidence 34569999999999999999999998754 2578999999999999999999999998 34 999999999986533
Q ss_pred CCCccchhhhhhhhhhcccCCCCCcCcccCCCcccCcCcCCCcchhhccccccccccChhhhh
Q psy7450 95 GPETLSIKHQVSEMLSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKDMM 157 (161)
Q Consensus 95 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~~~ 157 (161)
| ..|.++||||+||.|+.| +|+|.-|+||++||..+-+..
T Consensus 203 --------------L-QGHiRTHTGEKPF~C~hC--------~kAFADRSNLRAHmQTHS~~K 242 (279)
T KOG2462|consen 203 --------------L-QGHIRTHTGEKPFSCPHC--------GKAFADRSNLRAHMQTHSDVK 242 (279)
T ss_pred --------------h-hcccccccCCCCccCCcc--------cchhcchHHHHHHHHhhcCCc
Confidence 4 779999999999999999 999999999999998776543
No 3
>KOG1074|consensus
Probab=99.67 E-value=1.3e-17 Score=133.00 Aligned_cols=81 Identities=15% Similarity=0.122 Sum_probs=68.9
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCccchhhhhhhhhhcccCCCCC----cCcccC
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETLSIKHQVSEMLSIKHQGPET----LSIKHQ 124 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~ 124 (161)
|-+|.+|-++..-.+.|+.|.|+|+||+| |+|.+||++|.++.+ | ..|+.+|. ....+.
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERP-FkCKiCgRAFtTkGN---------------L-kaH~~vHka~p~~R~q~S 667 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERP-FKCKICGRAFTTKGN---------------L-KAHMSVHKAKPPARVQFS 667 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCc-cccccccchhccccc---------------h-hhcccccccCcccccccc
Confidence 56899999999999999999999999999 999999999998887 4 44554444 346788
Q ss_pred CC---cccCcCcCCCcchhhccccccccccChh
Q psy7450 125 GP---EMLSIKHQGPESAFDLRRNNQAHLNGRK 154 (161)
Q Consensus 125 c~---~c~~~~~~~~~~~f~~~~~l~~H~~~~~ 154 (161)
|| .| -+-|.....|..|.|.|-
T Consensus 668 cP~~~ic--------~~kftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 668 CPSTFIC--------QKKFTNAVTLPQHIRIHL 692 (958)
T ss_pred CCchhhh--------cccccccccccceEEeec
Confidence 99 99 999999999999987653
No 4
>KOG3576|consensus
Probab=99.60 E-value=3.4e-17 Score=111.65 Aligned_cols=119 Identities=18% Similarity=0.133 Sum_probs=94.1
Q ss_pred CCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccC
Q psy7450 16 LLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQG 95 (161)
Q Consensus 16 ~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~ 95 (161)
++...|.|.+|++.|.....|.+|++.|.. .+.+.|..||+.|...-+|++|+|+|+|.+| |+|..|+++|...-++.
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~-vkr~lct~cgkgfndtfdlkrh~rthtgvrp-ykc~~c~kaftqrcsle 190 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSD-VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRP-YKCSLCEKAFTQRCSLE 190 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccH-HHHHHHhhccCcccchhhhhhhhccccCccc-cchhhhhHHHHhhccHH
Confidence 345569999999999999999999999999 9999999999999999999999999999999 99999999998653311
Q ss_pred CCccchhhhhhhhhhcccCCCC------CcCcccCCCcccCcCcCCCcchhhccccccccccChhh
Q psy7450 96 PETLSIKHQVSEMLSIKHQGPE------TLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKD 155 (161)
Q Consensus 96 ~~~~~~~~~~~~~l~~~~~~~~------~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~ 155 (161)
. .+...|...+ ..++.|.|.+| |.+-.....+..|++.++.
T Consensus 191 s-----------hl~kvhgv~~~yaykerr~kl~vcedc--------g~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 191 S-----------HLKKVHGVQHQYAYKERRAKLYVCEDC--------GYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred H-----------HHHHHcCchHHHHHHHhhhheeeeccc--------CCCCCChhHHHHHHHhcCC
Confidence 1 1111122111 13678999999 8887777777777765443
No 5
>KOG1074|consensus
Probab=99.57 E-value=4.6e-16 Score=124.25 Aligned_cols=56 Identities=29% Similarity=0.451 Sum_probs=51.7
Q ss_pred ccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCC
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGP 76 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~ 76 (161)
+.+|..|++.|...+.|+.|.++|+| ++||+|++||..|..+.+|+.|...|+...
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHTG-ERPfqCnvCG~~FSTkGNLKvH~~rH~e~~ 408 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHTG-ERPFQCNVCGNRFSTKGNLKVHFQRHREKY 408 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccCC-CCCeeecccccccccccceeeeeeeccccC
Confidence 46899999999999999999999999 999999999999999999999988776544
No 6
>KOG3623|consensus
Probab=99.50 E-value=5.6e-15 Score=116.78 Aligned_cols=76 Identities=25% Similarity=0.385 Sum_probs=70.8
Q ss_pred CCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccc
Q psy7450 16 LLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKH 93 (161)
Q Consensus 16 ~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~ 93 (161)
+....|.|+.|++.|...+.|.+|.-.|+| .+||+|.+|.++|..+..|..|+|.|.|+|| |+|+.|+|.|+...+
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsG-qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKP-fQCdKClKRFSHSGS 965 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSG-QRPYQCIICKKAFKHKHHLTEHKRLHSGEKP-FQCDKCLKRFSHSGS 965 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcC-CCCcccchhhHhhhhhhhhhhhhhhccCCCc-chhhhhhhhcccccc
Confidence 345689999999999999999999999999 9999999999999999999999999999999 999999999985443
No 7
>KOG3623|consensus
Probab=99.50 E-value=2.9e-15 Score=118.36 Aligned_cols=82 Identities=16% Similarity=0.169 Sum_probs=77.5
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCccchhhhhhhhhhcccCCCCCcCcccCCC
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETLSIKHQVSEMLSIKHQGPETLSIKHQGP 126 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~c~ 126 (161)
+-+|.|+.|+++|...+.|.+|.--|+|.+| |+|.+|.|+|..+.+ | ..|.+.|.|++||+|+
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRP-yqC~iCkKAFKHKHH---------------L-tEHkRLHSGEKPfQCd 954 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRP-YQCIICKKAFKHKHH---------------L-TEHKRLHSGEKPFQCD 954 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCC-cccchhhHhhhhhhh---------------h-hhhhhhccCCCcchhh
Confidence 5689999999999999999999999999998 999999999997777 7 7899999999999999
Q ss_pred cccCcCcCCCcchhhccccccccccCh
Q psy7450 127 EMLSIKHQGPESAFDLRRNNQAHLNGR 153 (161)
Q Consensus 127 ~c~~~~~~~~~~~f~~~~~l~~H~~~~ 153 (161)
.| +|.|.....+.+||+.|
T Consensus 955 KC--------lKRFSHSGSYSQHMNHR 973 (1007)
T KOG3623|consen 955 KC--------LKRFSHSGSYSQHMNHR 973 (1007)
T ss_pred hh--------hhhcccccchHhhhccc
Confidence 99 99999999999999865
No 8
>KOG3608|consensus
Probab=99.47 E-value=5.3e-15 Score=108.44 Aligned_cols=142 Identities=18% Similarity=0.270 Sum_probs=94.8
Q ss_pred CCCCCCCCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCC---------------------------CCCeecC
Q psy7450 1 MFSEFNLPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGK---------------------------EPRYQCP 53 (161)
Q Consensus 1 f~~~~~l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~---------------------------~k~~~C~ 53 (161)
|.+++.|+.|++. |+++|...|+.||..|..+..|..|.+..+.- ..-|.|+
T Consensus 189 ~~~k~~LreH~r~-Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCp 267 (467)
T KOG3608|consen 189 MGNKYRLREHIRT-HSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCP 267 (467)
T ss_pred hccHHHHHHHHHh-cCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhccccc
Confidence 4567788999999 99998888888887777777777766533221 2356777
Q ss_pred CcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCcc-------chhh-----hhhhh--hhccc-CCCC-
Q psy7450 54 HCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETL-------SIKH-----QVSEM--LSIKH-QGPE- 117 (161)
Q Consensus 54 ~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~-------~~~~-----~~~~~--l~~~~-~~~~- 117 (161)
.|+......++|.+|++.-+.+.+||+|+.|++.|.+.+.+..+.. ...+ .+..+ + ..| ..+|
T Consensus 268 lCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~-~~H~~evhE 346 (467)
T KOG3608|consen 268 LCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQM-RRHFLEVHE 346 (467)
T ss_pred ccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHH-HHHHHHhcc
Confidence 7888888888899998876655555999999999987665322111 1111 00000 0 111 1122
Q ss_pred -CcCcccCCCcccCcCcCCCcchhhccccccccccC
Q psy7450 118 -TLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNG 152 (161)
Q Consensus 118 -~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~ 152 (161)
..+.+|.|-.| ++.|+...+|.+|++.
T Consensus 347 g~np~~Y~CH~C--------dr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 347 GNNPILYACHCC--------DRFFTSGKSLSAHLMK 374 (467)
T ss_pred CCCCCceeeecc--------hhhhccchhHHHHHHH
Confidence 23578999999 9999999999999753
No 9
>KOG3576|consensus
Probab=99.35 E-value=5.2e-14 Score=96.20 Aligned_cols=84 Identities=23% Similarity=0.272 Sum_probs=74.2
Q ss_pred CCCCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCC--------
Q psy7450 5 FNLPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGP-------- 76 (161)
Q Consensus 5 ~~l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~-------- 76 (161)
.-|.+|++. |+..+.+.|..||+.|.....|++|.++|+| .+||.|..|+++|.+...|..|.+..+|..
T Consensus 131 Rmlnrh~kc-h~~vkr~lct~cgkgfndtfdlkrh~rthtg-vrpykc~~c~kaftqrcsleshl~kvhgv~~~yayker 208 (267)
T KOG3576|consen 131 RMLNRHLKC-HSDVKRHLCTFCGKGFNDTFDLKRHTRTHTG-VRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKER 208 (267)
T ss_pred HHHHHHhhh-ccHHHHHHHhhccCcccchhhhhhhhccccC-ccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHh
Confidence 346789999 9999999999999999999999999999999 999999999999999999999998766531
Q ss_pred --CccccCCCCCcccc
Q psy7450 77 --EMLSVKHQGPEMLS 90 (161)
Q Consensus 77 --~~~~C~~C~k~f~~ 90 (161)
+.|.|..||.+-..
T Consensus 209 r~kl~vcedcg~t~~~ 224 (267)
T KOG3576|consen 209 RAKLYVCEDCGYTSER 224 (267)
T ss_pred hhheeeecccCCCCCC
Confidence 23899999975543
No 10
>KOG3608|consensus
Probab=99.27 E-value=3e-13 Score=99.37 Aligned_cols=89 Identities=20% Similarity=0.345 Sum_probs=76.5
Q ss_pred CCCCCCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCC--cCCccCchHHHHHHHHhhC-CCC-Cc
Q psy7450 3 SEFNLPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPH--CPYRGKQKVHLKTHVAIKH-QGP-EM 78 (161)
Q Consensus 3 ~~~~l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~--C~~~f~~~~~l~~H~r~h~-~~~-~~ 78 (161)
..++|.+|++..|+..+||+|+.|++.|...+.|.+|...|. +..|.|.. |..++.+...+.+|++-++ |.. ++
T Consensus 275 ~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS--~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~ 352 (467)
T KOG3608|consen 275 SASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS--KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPIL 352 (467)
T ss_pred ChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc--ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCc
Confidence 456788998877999999999999999999999999999776 67899987 9999999999999998877 433 35
Q ss_pred cccCCCCCccccccc
Q psy7450 79 LSVKHQGPEMLSIKH 93 (161)
Q Consensus 79 ~~C~~C~k~f~~~~~ 93 (161)
|.|-.|++.|.+-.+
T Consensus 353 Y~CH~Cdr~ft~G~~ 367 (467)
T KOG3608|consen 353 YACHCCDRFFTSGKS 367 (467)
T ss_pred eeeecchhhhccchh
Confidence 999999999987655
No 11
>PHA02768 hypothetical protein; Provisional
Probab=99.06 E-value=1.4e-10 Score=63.45 Aligned_cols=42 Identities=19% Similarity=0.309 Sum_probs=36.9
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKH 93 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~ 93 (161)
.|.|+.||+.|...++|..|+++|+ ++ |+|..|++.|...+.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~-~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TN-LKLSNCKRISLRTGE 46 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--Cc-ccCCcccceecccce
Confidence 4889999999999999999999988 45 999999999986655
No 12
>PHA00733 hypothetical protein
Probab=98.92 E-value=4.8e-10 Score=73.20 Aligned_cols=73 Identities=18% Similarity=0.130 Sum_probs=59.0
Q ss_pred CCcccccccccccccCHHHHHHH--H---HHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 17 LQFRYTCDSCGKVYKLKRSLYRH--R---TLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 17 ~~k~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
.++++.|.+|.+.|.....|..+ . ..+.+ ++||.|+.|++.|.....|..|++.+ +.+ |.|+.|++.|...
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~-~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~-~~C~~CgK~F~~~ 112 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKA-VSPYVCPLCLMPFSSSVSLKQHIRYT--EHS-KVCPVCGKEFRNT 112 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCC-CCCccCCCCCCcCCCHHHHHHHHhcC--CcC-ccCCCCCCccCCH
Confidence 46789999999988877666554 1 12345 78999999999999999999999976 345 9999999999876
Q ss_pred cc
Q psy7450 92 KH 93 (161)
Q Consensus 92 ~~ 93 (161)
..
T Consensus 113 ~s 114 (128)
T PHA00733 113 DS 114 (128)
T ss_pred HH
Confidence 65
No 13
>PHA00733 hypothetical protein
Probab=98.90 E-value=1.7e-09 Score=70.60 Aligned_cols=63 Identities=24% Similarity=0.258 Sum_probs=53.2
Q ss_pred CCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCC
Q psy7450 7 LPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQ 74 (161)
Q Consensus 7 l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~ 74 (161)
|..|+.. .+.+||.|+.|++.|.....|..|++.+ ..+|.|..|++.|.....|..|+...++
T Consensus 62 l~~~~~~--~~~kPy~C~~Cgk~Fss~s~L~~H~r~h---~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 62 LYKLLTS--KAVSPYVCPLCLMPFSSSVSLKQHIRYT---EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHhhccc--CCCCCccCCCCCCcCCCHHHHHHHHhcC---CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 4445433 4578999999999999999999999875 3579999999999999999999987665
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.89 E-value=2.3e-09 Score=84.90 Aligned_cols=111 Identities=14% Similarity=0.249 Sum_probs=80.0
Q ss_pred CCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccC
Q psy7450 16 LLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQG 95 (161)
Q Consensus 16 ~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~ 95 (161)
..+..+.|+.|++.|. ...|..|+..++ +++.|+ ||+.+ ....|..|+.+|.+.++ +.|+.|++.|..-..
T Consensus 449 el~~H~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp-i~C~fC~~~v~~g~~-- 519 (567)
T PLN03086 449 EAKNHVHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQASTCPLRL-ITCRFCGDMVQAGGS-- 519 (567)
T ss_pred ccccCccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhccCCCCc-eeCCCCCCccccCcc--
Confidence 4456689999999996 677999999873 689999 99755 66899999999999888 999999999952211
Q ss_pred CCccchhhhhhhhhhcccCCCCCcCcccCCCcccCcCcCCCcchhhcccccccc
Q psy7450 96 PETLSIKHQVSEMLSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAH 149 (161)
Q Consensus 96 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H 149 (161)
........+. | ..|.... +.+++.|..| |+.|..+. +..|
T Consensus 520 --~~d~~d~~s~-L-t~HE~~C-G~rt~~C~~C--------gk~Vrlrd-m~~H 559 (567)
T PLN03086 520 --AMDVRDRLRG-M-SEHESIC-GSRTAPCDSC--------GRSVMLKE-MDIH 559 (567)
T ss_pred --ccchhhhhhh-H-HHHHHhc-CCcceEcccc--------CCeeeehh-HHHH
Confidence 0000111111 3 3455553 7889999999 99887663 4444
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.88 E-value=1e-09 Score=60.08 Aligned_cols=44 Identities=18% Similarity=0.417 Sum_probs=39.5
Q ss_pred ccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHH
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLK 66 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~ 66 (161)
-|.|+.||+.|...++|..|+++|+ +++.|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~---k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN---TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC---CcccCCcccceecccceeE
Confidence 4799999999999999999999986 5789999999999887663
No 16
>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=98.81 E-value=3.1e-09 Score=49.89 Aligned_cols=25 Identities=12% Similarity=0.163 Sum_probs=16.8
Q ss_pred HHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 64 HLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 64 ~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
+|.+|+++|++++| |.|+.|+++|.
T Consensus 1 ~l~~H~~~H~~~k~-~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKP-YKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSS-EEESSSSEEES
T ss_pred CHHHHhhhcCCCCC-CCCCCCcCeeC
Confidence 35667777777666 77777777664
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=98.66 E-value=2.3e-08 Score=46.89 Aligned_cols=26 Identities=35% Similarity=0.623 Sum_probs=21.5
Q ss_pred HHHHHHHHhcCCCCCeecCCcCCccCc
Q psy7450 35 SLYRHRTLECGKEPRYQCPHCPYRGKQ 61 (161)
Q Consensus 35 ~l~~H~~~h~~~~k~~~C~~C~~~f~~ 61 (161)
+|.+|+++|+| ++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~-~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG-EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS-SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC-CCCCCCCCCcCeeCc
Confidence 47788888888 888999999888863
No 18
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.58 E-value=4.1e-08 Score=77.96 Aligned_cols=79 Identities=16% Similarity=0.235 Sum_probs=65.7
Q ss_pred CCCCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccC----------chHHHHHHHHhhCC
Q psy7450 5 FNLPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGK----------QKVHLKTHVAIKHQ 74 (161)
Q Consensus 5 ~~l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~----------~~~~l~~H~r~h~~ 74 (161)
..|..|+.+ +. +++.|+ ||+.+ ....|..|+..+.+ .+++.|..|+..+. ..+.|..|..+. |
T Consensus 466 s~LekH~~~-~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp-~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G 538 (567)
T PLN03086 466 GEMEKHMKV-FH--EPLQCP-CGVVL-EKEQMVQHQASTCP-LRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-G 538 (567)
T ss_pred HHHHHHHHh-cC--CCccCC-CCCCc-chhHHHhhhhccCC-CCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-C
Confidence 456788888 43 789999 99765 56889999999999 99999999999885 245899999885 7
Q ss_pred CCCccccCCCCCccccc
Q psy7450 75 GPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 75 ~~~~~~C~~C~k~f~~~ 91 (161)
.++ +.|..||+.|..+
T Consensus 539 ~rt-~~C~~Cgk~Vrlr 554 (567)
T PLN03086 539 SRT-APCDSCGRSVMLK 554 (567)
T ss_pred Ccc-eEccccCCeeeeh
Confidence 788 9999999988643
No 19
>PHA00616 hypothetical protein
Probab=98.54 E-value=3.5e-08 Score=51.51 Aligned_cols=34 Identities=24% Similarity=0.382 Sum_probs=25.2
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCC
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKH 83 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~ 83 (161)
||+|..||+.|...+.|..|++.|+++++ +.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~-~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK-LTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc-cceeE
Confidence 56777777777777777777777777776 66654
No 20
>KOG3993|consensus
Probab=98.44 E-value=1.3e-07 Score=71.62 Aligned_cols=140 Identities=17% Similarity=0.244 Sum_probs=88.4
Q ss_pred CCCCCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCC--------------------------------CCCee
Q psy7450 4 EFNLPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGK--------------------------------EPRYQ 51 (161)
Q Consensus 4 ~~~l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~--------------------------------~k~~~ 51 (161)
.+.|.+|.-. -...-.|+|.+|+|.|+-..+|..|+++|--. +--|.
T Consensus 280 ~F~LAQHrC~-RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~ 358 (500)
T KOG3993|consen 280 AFALAQHRCP-RIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFS 358 (500)
T ss_pred HHHHhhccCC-eeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceee
Confidence 3456666533 33445799999999999999999999987421 12488
Q ss_pred cCCcCCccCchHHHHHHHHhhCCCCC----------------ccccCCCCCccccccccCCCccchhhh----hhhh---
Q psy7450 52 CPHCPYRGKQKVHLKTHVAIKHQGPE----------------MLSVKHQGPEMLSIKHQGPETLSIKHQ----VSEM--- 108 (161)
Q Consensus 52 C~~C~~~f~~~~~l~~H~r~h~~~~~----------------~~~C~~C~k~f~~~~~~~~~~~~~~~~----~~~~--- 108 (161)
|..|++.|.+...|+.|+.+|+.... .+-|..|+-.+...+..++....+.-. ...+
T Consensus 359 C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ 438 (500)
T KOG3993|consen 359 CHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGS 438 (500)
T ss_pred cHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCCCC
Confidence 99999999999999999888873211 133555555554333322222221111 0000
Q ss_pred ------hhcccCCCCCcCcccCCCcccCcCcCCCcchhhccccccccccC
Q psy7450 109 ------LSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNG 152 (161)
Q Consensus 109 ------l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~ 152 (161)
.+..+.+.-..+..+.|..| .-+|....+|.+|.+.
T Consensus 439 ppsss~~sgg~~rlg~~~q~f~~ky~--------~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 439 PPSSSGSSGGYGRLGIAEQGFTCKYC--------PATFYSSPGLTRHINK 480 (500)
T ss_pred CcccCCCCCccccccchhhccccccc--------hHhhhcCcchHhHhhh
Confidence 01122233334556778888 9999999999998764
No 21
>PHA00732 hypothetical protein
Probab=98.35 E-value=4.2e-07 Score=54.20 Aligned_cols=38 Identities=18% Similarity=0.323 Sum_probs=20.0
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
||.|..|++.|.+.+.|..|++.++. + +.|+.||+.|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--~-~~C~~CgKsF~ 38 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--L-TKCPVCNKSYR 38 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--C-CccCCCCCEeC
Confidence 35555555555555555555553211 1 45566666555
No 22
>PHA00616 hypothetical protein
Probab=98.33 E-value=3e-07 Score=48.00 Aligned_cols=34 Identities=18% Similarity=0.415 Sum_probs=31.6
Q ss_pred ccccccccccccCHHHHHHHHHHhcCCCCCeecCC
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPH 54 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~ 54 (161)
||+|..||+.|...+.|..|++.++| ++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg-~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK-QNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC-CCccceeE
Confidence 68999999999999999999999999 99998764
No 23
>PHA00732 hypothetical protein
Probab=98.22 E-value=9.8e-07 Score=52.64 Aligned_cols=46 Identities=22% Similarity=0.384 Sum_probs=38.5
Q ss_pred ccccccccccccCHHHHHHHHHH-hcCCCCCeecCCcCCccCchHHHHHHHHhh
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTL-ECGKEPRYQCPHCPYRGKQKVHLKTHVAIK 72 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h 72 (161)
||.|+.|++.|.....|..|++. |.+ +.|+.|++.|. .+..|..+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~----~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL----TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC----CccCCCCCEeC---Chhhhhccc
Confidence 68899999999999999999984 544 58999999998 467787543
No 24
>KOG3993|consensus
Probab=98.15 E-value=3.4e-07 Score=69.38 Aligned_cols=113 Identities=19% Similarity=0.268 Sum_probs=74.9
Q ss_pred ccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCcc
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETL 99 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~ 99 (161)
.|.|..|...|.....|.+|...--. ..-|.|+.|++.|.-..+|..|.|=|.-....- ++=...... ..
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV-~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa------~a~~~P~k~---~~ 336 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIV-HVEYRCPECDKVFSCPANLASHRRWHKPRPEAA------KAGSPPPKQ---AV 336 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeE-EeeecCCcccccccCchhhhhhhcccCCchhhh------hcCCCChhh---hh
Confidence 49999999999999999999764333 446999999999999999999999775322100 000000000 00
Q ss_pred chhhhhhhhhhcccCCCCCcCcccCCCcccCcCcCCCcchhhccccccccccCh
Q psy7450 100 SIKHQVSEMLSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGR 153 (161)
Q Consensus 100 ~~~~~~~~~l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~ 153 (161)
.....+.+ ....+....+..|.|..| +|.|....+|+.|+-++
T Consensus 337 ~~rae~~e---a~rsg~dss~gi~~C~~C--------~KkFrRqAYLrKHqlth 379 (500)
T KOG3993|consen 337 ETRAEVQE---AERSGDDSSSGIFSCHTC--------GKKFRRQAYLRKHQLTH 379 (500)
T ss_pred hhhhhhhh---ccccCCcccCceeecHHh--------hhhhHHHHHHHHhHHhh
Confidence 00001111 122444456679999999 99999999999996543
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=97.92 E-value=8.4e-06 Score=36.77 Aligned_cols=22 Identities=36% Similarity=0.665 Sum_probs=12.4
Q ss_pred eecCCcCCccCchHHHHHHHHh
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAI 71 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~ 71 (161)
|.|+.|++.|...+.|..|++.
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 4455555555555555555554
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.92 E-value=2.6e-05 Score=43.11 Aligned_cols=52 Identities=29% Similarity=0.484 Sum_probs=37.4
Q ss_pred ccccccccccccCHHHHHHHHHH-hcCCCCCeecCCcCCccCchHHHHHHHHhhCC
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTL-ECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQ 74 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~ 74 (161)
.|.|+.|++. .+...|..|... |....+.+.|++|...+. .+|..|+..+++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 4789999994 456778888654 555345788999987544 488888887653
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.80 E-value=1.8e-05 Score=35.64 Aligned_cols=23 Identities=39% Similarity=0.769 Sum_probs=21.2
Q ss_pred cccccccccccCHHHHHHHHHHh
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLE 43 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h 43 (161)
|.|+.|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 68999999999999999999864
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.67 E-value=5e-05 Score=34.24 Aligned_cols=24 Identities=33% Similarity=0.726 Sum_probs=14.6
Q ss_pred eecCCcCCccCchHHHHHHHHhhC
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAIKH 73 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~h~ 73 (161)
|.|+.|++.|.+...|..|++.++
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 456677777777777777766553
No 29
>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=97.59 E-value=4.5e-05 Score=35.76 Aligned_cols=25 Identities=16% Similarity=0.317 Sum_probs=15.5
Q ss_pred CeecCCcCCccCchHHHHHHHHhhC
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKH 73 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~ 73 (161)
||.|..|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4566666666666666666665553
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.42 E-value=3.9e-05 Score=56.54 Aligned_cols=24 Identities=33% Similarity=0.545 Sum_probs=18.5
Q ss_pred Cccccccc--ccccccCHHHHHHHHH
Q psy7450 18 QFRYTCDS--CGKVYKLKRSLYRHRT 41 (161)
Q Consensus 18 ~k~~~C~~--C~~~f~~~~~l~~H~~ 41 (161)
+|||.|++ |.+.++....|+.|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhh
Confidence 47888876 8888888888887765
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.40 E-value=9.6e-05 Score=34.59 Aligned_cols=25 Identities=32% Similarity=0.861 Sum_probs=22.9
Q ss_pred ccccccccccccCHHHHHHHHHHhc
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTLEC 44 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~ 44 (161)
||.|..|++.|.....|..|++.|.
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 6899999999999999999998764
No 32
>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=97.31 E-value=0.00023 Score=38.14 Aligned_cols=31 Identities=29% Similarity=0.488 Sum_probs=18.6
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCC
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPE 77 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~ 77 (161)
+.|..|++|+..+.+..+|++|+...++.+|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 6677777777777777777777777776654
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.30 E-value=0.00023 Score=44.05 Aligned_cols=24 Identities=25% Similarity=0.599 Sum_probs=16.2
Q ss_pred CeecCCcCCccCchHHHHHHHHhh
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIK 72 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h 72 (161)
.+.|..|++.|.....|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 467777777777777777777654
No 34
>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=97.27 E-value=0.00027 Score=31.74 Aligned_cols=23 Identities=30% Similarity=0.728 Sum_probs=19.4
Q ss_pred cccccccccccCHHHHHHHHHHh
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLE 43 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h 43 (161)
|.|+.|++.|.....|..|+..+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 68999999999999999999876
No 35
>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=97.24 E-value=0.00064 Score=36.45 Aligned_cols=41 Identities=22% Similarity=0.282 Sum_probs=26.2
Q ss_pred CCccccCCCCCcccccccccccccCHHHHHHHHHHhcCCCCC
Q psy7450 8 PPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPR 49 (161)
Q Consensus 8 ~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~ 49 (161)
..+.+.+...+.|-.|++|+..+....+|.+|+.+.++ .+|
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~-~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHF-KKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTT-TS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhc-ccC
Confidence 44455545667899999999999999999999988877 654
No 36
>PRK04860 hypothetical protein; Provisional
Probab=97.04 E-value=0.00056 Score=46.39 Aligned_cols=39 Identities=13% Similarity=0.350 Sum_probs=33.3
Q ss_pred CCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
-+|.|. |+. ....+.+|.+++.++++ |.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~-YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAV-YRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCcc-EECCCCCceeEEe
Confidence 368997 987 67778999999999998 9999999988754
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.96 E-value=0.00094 Score=30.32 Aligned_cols=22 Identities=36% Similarity=0.614 Sum_probs=12.0
Q ss_pred ecCCcCCccCchHHHHHHHHhh
Q psy7450 51 QCPHCPYRGKQKVHLKTHVAIK 72 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r~h 72 (161)
.|..|++.|.....|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4555555555555555555543
No 38
>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=96.74 E-value=0.0022 Score=35.30 Aligned_cols=39 Identities=18% Similarity=0.359 Sum_probs=29.8
Q ss_pred CeecCCcCCccCchHHHHHHHHhhC-CCCCccccCCCCCcc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKH-QGPEMLSVKHQGPEM 88 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~-~~~~~~~C~~C~k~f 88 (161)
.|.|+.|++ ......|..|....+ .+...+.|++|...+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhh
Confidence 489999999 555678999987755 433449999998744
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.73 E-value=0.0017 Score=29.40 Aligned_cols=24 Identities=42% Similarity=0.818 Sum_probs=21.5
Q ss_pred cccccccccccCHHHHHHHHHHhc
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLEC 44 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h~ 44 (161)
|.|..|++.|.....|..|+..|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999998664
No 40
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.72 E-value=0.0016 Score=48.31 Aligned_cols=31 Identities=3% Similarity=-0.150 Sum_probs=25.7
Q ss_pred cCCCCCcCcccCCCcccCcCcCCCcchhhcccccccccc
Q psy7450 113 HQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLN 151 (161)
Q Consensus 113 ~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~ 151 (161)
++.-...++||.|+.| +|.|+....|.-|+.
T Consensus 389 ~~~F~~~~KPYrCevC--------~KRYKNlNGLKYHr~ 419 (423)
T COG5189 389 MNIFSAKDKPYRCEVC--------DKRYKNLNGLKYHRK 419 (423)
T ss_pred cccccccCCceecccc--------chhhccCccceeccc
Confidence 3333456899999999 999999999999975
No 41
>PRK04860 hypothetical protein; Provisional
Probab=96.65 E-value=0.0011 Score=45.01 Aligned_cols=40 Identities=30% Similarity=0.600 Sum_probs=34.0
Q ss_pred cccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchH
Q psy7450 19 FRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKV 63 (161)
Q Consensus 19 k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~ 63 (161)
-+|.|. |+. ....+.+|.+++++ +++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g-~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG-EAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC-CccEECCCCCceeEEec
Confidence 469998 987 56678999999999 99999999999886543
No 42
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.64 E-value=0.0002 Score=44.31 Aligned_cols=23 Identities=22% Similarity=0.345 Sum_probs=16.7
Q ss_pred ccCCCcccCcCcCCCcchhhccccccccccC
Q psy7450 122 KHQGPEMLSIKHQGPESAFDLRRNNQAHLNG 152 (161)
Q Consensus 122 ~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~ 152 (161)
.+.|..| ++.|.....|..|+++
T Consensus 50 ~~~C~~C--------~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPYC--------NKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSSS--------S-EESSHHHHHHHHHH
T ss_pred CCCCCcc--------CCCCcCHHHHHHHHcC
Confidence 5777777 8888888888888764
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.37 E-value=0.0036 Score=28.23 Aligned_cols=23 Identities=48% Similarity=1.084 Sum_probs=13.1
Q ss_pred eecCCcCCccCchHHHHHHHHhhC
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAIKH 73 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~h~ 73 (161)
|.|+.|+.... ...|..|++.++
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 45666666665 666666666654
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.28 E-value=0.003 Score=28.73 Aligned_cols=22 Identities=18% Similarity=0.400 Sum_probs=12.6
Q ss_pred eecCCcCCccCchHHHHHHHHh
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAI 71 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~ 71 (161)
|.|..|+..|.+...+..|++.
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 3455666666666666655543
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.27 E-value=0.00044 Score=31.63 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=21.7
Q ss_pred cCCCcccCcCcCCCcchhhccccccccccChh
Q psy7450 123 HQGPEMLSIKHQGPESAFDLRRNNQAHLNGRK 154 (161)
Q Consensus 123 ~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~ 154 (161)
|.|+.| ++.|.....|+.|++|++
T Consensus 1 ~~C~~C--------~~~f~s~~~~~~H~~s~~ 24 (25)
T PF12874_consen 1 FYCDIC--------NKSFSSENSLRQHLRSKK 24 (25)
T ss_dssp EEETTT--------TEEESSHHHHHHHHTTHH
T ss_pred CCCCCC--------CCCcCCHHHHHHHHCcCC
Confidence 468888 999999999999999976
No 46
>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=96.00 E-value=0.0021 Score=29.97 Aligned_cols=24 Identities=13% Similarity=0.227 Sum_probs=21.8
Q ss_pred cCCCcccCcCcCCCcchhhccccccccccChh
Q psy7450 123 HQGPEMLSIKHQGPESAFDLRRNNQAHLNGRK 154 (161)
Q Consensus 123 ~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~ 154 (161)
|.|..| ++.|.....++.|+++.+
T Consensus 2 ~~C~~C--------~k~f~~~~~~~~H~~sk~ 25 (27)
T PF12171_consen 2 FYCDAC--------DKYFSSENQLKQHMKSKK 25 (27)
T ss_dssp CBBTTT--------TBBBSSHHHHHCCTTSHH
T ss_pred CCcccC--------CCCcCCHHHHHHHHccCC
Confidence 678899 999999999999999865
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.29 E-value=0.018 Score=25.87 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=18.0
Q ss_pred cccccccccccCHHHHHHHHHHhc
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLEC 44 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h~ 44 (161)
|.|+.|+.... ...|..|++.+.
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 68999998887 889999998764
No 48
>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=94.83 E-value=0.0074 Score=28.07 Aligned_cols=21 Identities=24% Similarity=0.477 Sum_probs=11.4
Q ss_pred eecCCcCCccCchHHHHHHHH
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVA 70 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r 70 (161)
|.|..|++.|.+...+..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 445555555555555555543
No 49
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.27 E-value=0.048 Score=24.88 Aligned_cols=19 Identities=26% Similarity=0.511 Sum_probs=10.5
Q ss_pred ecCCcCCccCchHHHHHHHH
Q psy7450 51 QCPHCPYRGKQKVHLKTHVA 70 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r 70 (161)
.|+.||+.| ..+.|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 456666666 4445555544
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=93.29 E-value=0.083 Score=25.85 Aligned_cols=22 Identities=14% Similarity=0.480 Sum_probs=14.9
Q ss_pred CeecCCcCCccCchHHHHHHHH
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVA 70 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r 70 (161)
+|.|..|+..|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4667777777776666666654
No 51
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.17 E-value=0.023 Score=27.97 Aligned_cols=27 Identities=22% Similarity=0.217 Sum_probs=23.6
Q ss_pred ccCCCcccCcCcCCCcchhhccccccccccChhhh
Q psy7450 122 KHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKDM 156 (161)
Q Consensus 122 ~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~~ 156 (161)
+|.|..| ++.|.....+..|++|++..
T Consensus 3 ~~~C~~C--------~~~~~~~~~~~~H~~gk~H~ 29 (35)
T smart00451 3 GFYCKLC--------NVTFTDEISVEAHLKGKKHK 29 (35)
T ss_pred CeEcccc--------CCccCCHHHHHHHHChHHHH
Confidence 5789999 99999999999999986654
No 52
>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=92.03 E-value=0.12 Score=25.19 Aligned_cols=24 Identities=25% Similarity=0.436 Sum_probs=13.7
Q ss_pred eecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCC
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGP 86 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k 86 (161)
|.|..||..+.... +++.|+.||.
T Consensus 2 ~~C~~CGy~y~~~~-------------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE-------------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc-------------CCCcCcCCCC
Confidence 56777776543321 3377777764
No 53
>KOG1146|consensus
Probab=91.60 E-value=0.14 Score=45.03 Aligned_cols=67 Identities=22% Similarity=0.348 Sum_probs=45.3
Q ss_pred CCCCCccccCCCCCcccccccccccccCHHHHHHHHHHhcCC------------------------CCCeecCCcCCccC
Q psy7450 5 FNLPPHTLFNPLLQFRYTCDSCGKVYKLKRSLYRHRTLECGK------------------------EPRYQCPHCPYRGK 60 (161)
Q Consensus 5 ~~l~~H~~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~------------------------~k~~~C~~C~~~f~ 60 (161)
..+..++.+.++..+.+.|..|+..|+....|..|+++-+.+ .++|.|..|..++.
T Consensus 450 r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stt 529 (1406)
T KOG1146|consen 450 RSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTT 529 (1406)
T ss_pred cccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeee
Confidence 344455555467778888888888888888888888762210 34666777777777
Q ss_pred chHHHHHHHHh
Q psy7450 61 QKVHLKTHVAI 71 (161)
Q Consensus 61 ~~~~l~~H~r~ 71 (161)
...+|.+|+..
T Consensus 530 tng~LsihlqS 540 (1406)
T KOG1146|consen 530 TNGNLSIHLQS 540 (1406)
T ss_pred cchHHHHHHHH
Confidence 76677776654
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.03 E-value=0.044 Score=42.32 Aligned_cols=62 Identities=21% Similarity=0.353 Sum_probs=55.2
Q ss_pred cccccccccccccCHHHHHHHHH--HhcCCC--CCeecC--CcCCccCchHHHHHHHHhhCCCCCccccC
Q psy7450 19 FRYTCDSCGKVYKLKRSLYRHRT--LECGKE--PRYQCP--HCPYRGKQKVHLKTHVAIKHQGPEMLSVK 82 (161)
Q Consensus 19 k~~~C~~C~~~f~~~~~l~~H~~--~h~~~~--k~~~C~--~C~~~f~~~~~l~~H~r~h~~~~~~~~C~ 82 (161)
.++.|..|...|.....|..|.. .|.+ + +++.|+ .|++.|.+...+..|...|.+..+ +.+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~-~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 355 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSG-ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP-AKEK 355 (467)
T ss_pred cCCCCccccCCcccccccccccccccccc-ccCCceeeeccCCCccccccccccCCcccccCCCc-cccc
Confidence 46889999999999999999999 7999 8 999999 799999999999999999998776 5554
No 55
>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=90.34 E-value=0.25 Score=24.34 Aligned_cols=25 Identities=20% Similarity=0.363 Sum_probs=15.5
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCC
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGP 86 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k 86 (161)
.|.|..||..+.. +.+|..|+.||.
T Consensus 2 ~~~C~~CG~i~~g-------------~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEG-------------EEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeEC-------------CcCCCcCcCCCC
Confidence 3678888765332 223478888874
No 56
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.09 E-value=0.28 Score=37.83 Aligned_cols=52 Identities=19% Similarity=0.222 Sum_probs=44.1
Q ss_pred CCCCCCCCCccc--cCCCCC--cccccc--cccccccCHHHHHHHHHHhcCCCCCeecCC
Q psy7450 1 MFSEFNLPPHTL--FNPLLQ--FRYTCD--SCGKVYKLKRSLYRHRTLECGKEPRYQCPH 54 (161)
Q Consensus 1 f~~~~~l~~H~~--~~h~~~--k~~~C~--~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~ 54 (161)
|.....|..|.. . |+++ +++.|. .|++.|.....+..|...+.+ ..++.+..
T Consensus 299 ~s~~~~l~~~~~~~~-h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 356 (467)
T COG5048 299 FSRSSPLTRHLRSVN-HSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTS-ISPAKEKL 356 (467)
T ss_pred ccccccccccccccc-cccccCCceeeeccCCCccccccccccCCcccccC-CCcccccc
Confidence 456677889988 7 9999 999999 799999999999999999998 77666643
No 57
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=88.25 E-value=0.46 Score=23.80 Aligned_cols=32 Identities=19% Similarity=0.386 Sum_probs=15.4
Q ss_pred ecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcc
Q psy7450 51 QCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEM 88 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f 88 (161)
.|+.|+..|.-..+- +-.+... ..|+.|+..|
T Consensus 4 ~CP~C~~~f~v~~~~-----l~~~~~~-vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDK-----LPAGGRK-VRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHHH-----cccCCcE-EECCCCCcEe
Confidence 456666555554431 1122233 5666666555
No 58
>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=87.61 E-value=0.52 Score=23.56 Aligned_cols=34 Identities=18% Similarity=0.246 Sum_probs=17.1
Q ss_pred eecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
+.|+.|+..|.-..... ...... ..|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~-v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGK-VRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCE-EECCCCCCEEE
Confidence 45666666665554321 111122 56777766553
No 59
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=87.20 E-value=0.49 Score=32.31 Aligned_cols=24 Identities=21% Similarity=0.408 Sum_probs=18.9
Q ss_pred CCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCC
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQG 85 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~ 85 (161)
+-|.|++||.. +-+ .+|-.||+||
T Consensus 133 ~~~vC~vCGy~-------------~~g-e~P~~CPiCg 156 (166)
T COG1592 133 KVWVCPVCGYT-------------HEG-EAPEVCPICG 156 (166)
T ss_pred CEEEcCCCCCc-------------ccC-CCCCcCCCCC
Confidence 36999999974 456 4559999998
No 60
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=87.08 E-value=0.63 Score=23.18 Aligned_cols=32 Identities=19% Similarity=0.408 Sum_probs=15.5
Q ss_pred ecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcc
Q psy7450 51 QCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEM 88 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f 88 (161)
.|+.|+..|.-.+.. +-..... .+|+.|+..|
T Consensus 4 ~Cp~C~~~y~i~d~~-----ip~~g~~-v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEK-----IPPKGRK-VRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHH-----CCCCCcE-EECCCCCCEe
Confidence 455666555555432 1122223 5666666554
No 61
>KOG2893|consensus
Probab=86.63 E-value=0.43 Score=34.40 Aligned_cols=33 Identities=18% Similarity=0.239 Sum_probs=16.0
Q ss_pred cCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 52 CPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 52 C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
|=.|++-|.....|.+|++.-+ |+|.+|-|...
T Consensus 13 cwycnrefddekiliqhqkakh-----fkchichkkl~ 45 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLF 45 (341)
T ss_pred eeecccccchhhhhhhhhhhcc-----ceeeeehhhhc
Confidence 3345555555555555554322 55555554433
No 62
>KOG2186|consensus
Probab=85.88 E-value=0.42 Score=34.69 Aligned_cols=53 Identities=21% Similarity=0.436 Sum_probs=38.4
Q ss_pred cccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCC
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPE 77 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~ 77 (161)
|.|.+||....-+ .+.+|+..-++ .-|.|..|++.|.. .++..|..--+...+
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn--~~fSCIDC~k~F~~-~sYknH~kCITEaQK 56 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN--AYFSCIDCGKTFER-VSYKNHTKCITEAQK 56 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC--CeeEEeeccccccc-chhhhhhhhcchHHH
Confidence 6899999887654 47778877666 45899999999988 456677665554333
No 63
>KOG2231|consensus
Probab=84.30 E-value=0.94 Score=37.63 Aligned_cols=103 Identities=14% Similarity=0.075 Sum_probs=57.5
Q ss_pred cCHHHHHHHHHHhcCCCCCeecCCcCC---cc------CchHHHHHHHHhhCC-CCC---ccccCCCCCccccccccCCC
Q psy7450 31 KLKRSLYRHRTLECGKEPRYQCPHCPY---RG------KQKVHLKTHVAIKHQ-GPE---MLSVKHQGPEMLSIKHQGPE 97 (161)
Q Consensus 31 ~~~~~l~~H~~~h~~~~k~~~C~~C~~---~f------~~~~~l~~H~r~h~~-~~~---~~~C~~C~k~f~~~~~~~~~ 97 (161)
.+...|..|+...+. .+.|..|-. .| -....|..|+..-.. ++. --.|..|...|.....
T Consensus 125 ~s~~~Lk~H~~~~H~---~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~e---- 197 (669)
T KOG2231|consen 125 KSVENLKNHMRDQHK---LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDE---- 197 (669)
T ss_pred hHHHHHHHHHHHhhh---hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHH----
Confidence 366778888854332 244444432 12 124556666654322 111 0246677777764443
Q ss_pred ccchhhhhhhhhhcccCCCCCcCcccCCCcccCcCcCCCcchhhccccccccccChhhhhh
Q psy7450 98 TLSIKHQVSEMLSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKDMME 158 (161)
Q Consensus 98 ~~~~~~~~~~~l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~~~~ 158 (161)
+ ..|++. ..+.|..| +. ..+.+..|..-.+|..|-|..+.++|
T Consensus 198 -----------l-~rH~~~----~h~~chfC-~~-~~~~neyy~~~~dLe~HfR~~HflCE 240 (669)
T KOG2231|consen 198 -----------L-YRHLRF----DHEFCHFC-DY-KTGQNEYYNDYDDLEEHFRKGHFLCE 240 (669)
T ss_pred -----------H-HHhhcc----ceeheeec-Cc-ccccchhcccchHHHHHhhhcCcccc
Confidence 3 334432 23555555 22 45557788888999999888887776
No 64
>KOG1146|consensus
Probab=83.60 E-value=0.26 Score=43.49 Aligned_cols=104 Identities=18% Similarity=0.140 Sum_probs=62.3
Q ss_pred ccccccCHHHHHHHHH-HhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCccchhhh
Q psy7450 26 CGKVYKLKRSLYRHRT-LECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETLSIKHQ 104 (161)
Q Consensus 26 C~~~f~~~~~l~~H~~-~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~ 104 (161)
|+..+.+...+..++. .+.- .+.+.|+.|+..|.....|..|+|..+-+-. - .+|- .+.. + .
T Consensus 442 ~e~~~~s~r~~~~~t~~L~S~-~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~-~--~~c~-~gq~--~--~-------- 504 (1406)
T KOG1146|consen 442 AEPLLESKRSLEGQTVVLHSF-FKTLKCPKCNWHYKLAQTLGVHMRSKHPESQ-S--AYCK-AGQN--H--P-------- 504 (1406)
T ss_pred hhhhhhhhcccccceeeeecc-cccccCCccchhhhhHHHhhhcccccccccc-h--hHhH-hccc--c--c--------
Confidence 3333433333433333 2333 6788999999999999999999998554433 1 2221 1110 0 0
Q ss_pred hhhhhhcccCCCCCcCcccCCCcccCcCcCCCcchhhccccccccccChhhhhh
Q psy7450 105 VSEMLSIKHQGPETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKDMME 158 (161)
Q Consensus 105 ~~~~l~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~~~~ 158 (161)
...+...-...-++|.|..| ..++....+|..|+.+-++.+|
T Consensus 505 ----~~arg~~~~~~~~p~~C~~C--------~~stttng~LsihlqS~~h~~~ 546 (1406)
T KOG1146|consen 505 ----RLARGEVYRCPGKPYPCRAC--------NYSTTTNGNLSIHLQSDLHRNE 546 (1406)
T ss_pred ----cccccccccCCCCcccceee--------eeeeecchHHHHHHHHHhhHHH
Confidence 00111122234568999999 9999999999999976544443
No 65
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=83.47 E-value=0.21 Score=35.63 Aligned_cols=13 Identities=15% Similarity=0.095 Sum_probs=10.5
Q ss_pred cccCCCCCccccc
Q psy7450 79 LSVKHQGPEMLSI 91 (161)
Q Consensus 79 ~~C~~C~k~f~~~ 91 (161)
..|+.||-+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5799999988754
No 66
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=82.50 E-value=0.72 Score=25.30 Aligned_cols=23 Identities=22% Similarity=0.470 Sum_probs=10.9
Q ss_pred CCeecCCcCCccCchHHHHHHHH
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVA 70 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r 70 (161)
.-+.|+.||..|....++.+|..
T Consensus 16 ~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 16 EFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred eeeeCCchhHHHHHhHHHHHHhh
Confidence 33445555555554444444443
No 67
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=82.34 E-value=2.3 Score=28.88 Aligned_cols=34 Identities=12% Similarity=0.142 Sum_probs=27.3
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcccc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLS 90 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~ 90 (161)
..-|.|+.|+..|+...++. .- |.|+.||.....
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~-F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LN-FTCPRCGAMLDY 140 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cC-CcCCCCCCEeee
Confidence 46689999999999888875 13 999999987653
No 68
>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=82.31 E-value=0.98 Score=28.62 Aligned_cols=16 Identities=19% Similarity=0.432 Sum_probs=8.3
Q ss_pred CCCeecCCcCCccCch
Q psy7450 47 EPRYQCPHCPYRGKQK 62 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~ 62 (161)
..|..|+.||..|...
T Consensus 24 k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCccCCCCCCccCcc
Confidence 3455555555555443
No 69
>PF14353 CpXC: CpXC protein
Probab=79.67 E-value=0.89 Score=29.54 Aligned_cols=63 Identities=16% Similarity=0.063 Sum_probs=36.0
Q ss_pred cccCCCCCccccccccCCCccchhhhhhhhhhcccCCCCCc-CcccCCCcccCcCcCCCcchhhccccccccccChhhhh
Q psy7450 79 LSVKHQGPEMLSIKHQGPETLSIKHQVSEMLSIKHQGPETL-SIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKDMM 157 (161)
Q Consensus 79 ~~C~~C~k~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~~~ 157 (161)
..|+.||..|........-.-........++ .+ =-.+.||.| |..|..-..+.-|-.+++-|+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il--------~g~l~~~~CP~C--------g~~~~~~~p~lY~D~~~~~~i 65 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKIL--------DGSLFSFTCPSC--------GHKFRLEYPLLYHDPEKKFMI 65 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH--------cCCcCEEECCCC--------CCceecCCCEEEEcCCCCEEE
Confidence 4799999988644331110000011122222 11 125799999 999998888877776665543
No 70
>KOG2893|consensus
Probab=79.22 E-value=0.57 Score=33.76 Aligned_cols=45 Identities=18% Similarity=0.427 Sum_probs=35.0
Q ss_pred CcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHH
Q psy7450 18 QFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTH 68 (161)
Q Consensus 18 ~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H 68 (161)
.+|| |=+|.+.|.....|.+|++ .+.|.|-+|.+.+-+-..|..|
T Consensus 9 ~kpw-cwycnrefddekiliqhqk-----akhfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQK-----AKHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred CCce-eeecccccchhhhhhhhhh-----hccceeeeehhhhccCCCceee
Confidence 3555 8889999999999999887 5779999999765555555555
No 71
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=79.02 E-value=4.8 Score=26.86 Aligned_cols=39 Identities=15% Similarity=0.290 Sum_probs=26.7
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcccc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLS 90 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~ 90 (161)
..-|.|+.|+..|.....+.. ...... |.|+.||.....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~----~d~~~~-f~Cp~Cg~~l~~ 135 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL----LDMDGT-FTCPRCGEELEE 135 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh----cCCCCc-EECCCCCCEEEE
Confidence 457899999998886554331 112344 999999986653
No 72
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=78.04 E-value=1.6 Score=22.88 Aligned_cols=11 Identities=27% Similarity=0.797 Sum_probs=5.8
Q ss_pred eecCCcCCccC
Q psy7450 50 YQCPHCPYRGK 60 (161)
Q Consensus 50 ~~C~~C~~~f~ 60 (161)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 45555555444
No 73
>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=77.87 E-value=1.5 Score=22.57 Aligned_cols=12 Identities=17% Similarity=0.166 Sum_probs=10.4
Q ss_pred cccCCCCCcccc
Q psy7450 79 LSVKHQGPEMLS 90 (161)
Q Consensus 79 ~~C~~C~k~f~~ 90 (161)
|.|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 899999999963
No 74
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=77.40 E-value=3.2 Score=28.79 Aligned_cols=35 Identities=14% Similarity=0.252 Sum_probs=27.2
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
..-|.|+.|+..|+...++. .- |.|+.||......
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~-F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YG-FRCPQCGEMLEEY 149 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cC-CcCCCCCCCCeec
Confidence 45689999999998887763 23 9999999876543
No 75
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=77.00 E-value=1.7 Score=29.36 Aligned_cols=17 Identities=6% Similarity=-0.011 Sum_probs=13.0
Q ss_pred cccCCCcccCcCcCCCcchhhcccc
Q psy7450 121 IKHQGPEMLSIKHQGPESAFDLRRN 145 (161)
Q Consensus 121 ~~~~c~~c~~~~~~~~~~~f~~~~~ 145 (161)
+.++|+.| |.+|..--.
T Consensus 27 ~~~~c~~c--------~~~f~~~e~ 43 (154)
T PRK00464 27 RRRECLAC--------GKRFTTFER 43 (154)
T ss_pred eeeecccc--------CCcceEeEe
Confidence 34899999 999986543
No 76
>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=76.39 E-value=0.93 Score=22.89 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=7.8
Q ss_pred eecCCcCCccCch
Q psy7450 50 YQCPHCPYRGKQK 62 (161)
Q Consensus 50 ~~C~~C~~~f~~~ 62 (161)
|.|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (41)
T smart00834 6 YRCEDCGHTFEVL 18 (41)
T ss_pred EEcCCCCCEEEEE
Confidence 5666666665543
No 77
>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=75.59 E-value=0.98 Score=24.26 Aligned_cols=29 Identities=21% Similarity=0.402 Sum_probs=15.9
Q ss_pred eecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCC
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGP 86 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k 86 (161)
|.|..||..|.....+. . ... -.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~------~-~~~-~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMS------D-DPL-ATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEecC------C-CCC-CCCCCCCC
Confidence 66777777666442211 1 222 56777775
No 78
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=75.37 E-value=3.5 Score=34.99 Aligned_cols=15 Identities=27% Similarity=0.071 Sum_probs=10.4
Q ss_pred CCcCcccCCCcccCc
Q psy7450 117 ETLSIKHQGPEMLSI 131 (161)
Q Consensus 117 ~~~~~~~~c~~c~~~ 131 (161)
+..+.|..||.|-+.
T Consensus 470 ~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 470 YQEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCCC
Confidence 345778899999333
No 79
>KOG2186|consensus
Probab=75.04 E-value=1.7 Score=31.60 Aligned_cols=40 Identities=15% Similarity=0.274 Sum_probs=32.0
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
-|.|..||.+..-+ .+.+|+-..++ .. |.|-.||+.|-.-
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn-~~-fSCIDC~k~F~~~ 42 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN-AY-FSCIDCGKTFERV 42 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC-Ce-eEEeecccccccc
Confidence 37899999986654 56779988777 44 9999999999763
No 80
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=74.34 E-value=1.5 Score=23.03 Aligned_cols=30 Identities=20% Similarity=0.401 Sum_probs=18.0
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
.|.|+.||..|..... ... ..|+.||..+.
T Consensus 3 ~y~C~~CG~~~~~~~~----------~~~-~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEY----------GTG-VRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCC----------CCc-eECCCCCCeEE
Confidence 4677777776654321 113 77888876555
No 81
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=73.48 E-value=3.4 Score=23.05 Aligned_cols=33 Identities=15% Similarity=0.313 Sum_probs=18.6
Q ss_pred CCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCC
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGP 86 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k 86 (161)
..|.|+.||+.--....-- .....+ |.|+.||-
T Consensus 26 v~F~CPnCGe~~I~Rc~~C-----Rk~g~~-Y~Cp~CGF 58 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKC-----RKLGNP-YRCPKCGF 58 (61)
T ss_pred eEeeCCCCCceeeehhhhH-----HHcCCc-eECCCcCc
Confidence 4578888886544333211 112344 88888873
No 82
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.13 E-value=8.2 Score=24.62 Aligned_cols=19 Identities=32% Similarity=0.544 Sum_probs=10.6
Q ss_pred ccccccccccccCHHHHHH
Q psy7450 20 RYTCDSCGKVYKLKRSLYR 38 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~ 38 (161)
|-.|+.||-+..+...|.+
T Consensus 15 P~~CpiCgLtLVss~HLAR 33 (112)
T TIGR00622 15 PVECPICGLTLILSTHLAR 33 (112)
T ss_pred CCcCCcCCCEEeccchHHH
Confidence 4556666665555555543
No 83
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=73.00 E-value=1.4 Score=26.61 Aligned_cols=36 Identities=17% Similarity=0.289 Sum_probs=23.9
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKH 93 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~ 93 (161)
...|.|+.|++. .+.|.-. . .+.|..||..|.....
T Consensus 33 ~~~~~Cp~C~~~--------~VkR~a~--G-IW~C~kCg~~fAGgay 68 (89)
T COG1997 33 RAKHVCPFCGRT--------TVKRIAT--G-IWKCRKCGAKFAGGAY 68 (89)
T ss_pred hcCCcCCCCCCc--------ceeeecc--C-eEEcCCCCCeeccccc
Confidence 356899999875 1223222 2 3999999999985443
No 84
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=70.71 E-value=2.5 Score=29.30 Aligned_cols=34 Identities=18% Similarity=0.609 Sum_probs=25.2
Q ss_pred CcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCc
Q psy7450 18 QFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQ 61 (161)
Q Consensus 18 ~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~ 61 (161)
..-|.|+.|+..|+....+ +..|.|+.||.....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~----------~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAM----------EYGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHHHHh----------hcCCcCCCCCCCCee
Confidence 3569999999988766543 235999999986543
No 85
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=69.82 E-value=2.9 Score=27.18 Aligned_cols=33 Identities=9% Similarity=0.043 Sum_probs=21.3
Q ss_pred ccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHH
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVH 64 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~ 64 (161)
...|+.||+.|.. .+ ..|..|+.||..|.....
T Consensus 9 Kr~Cp~cg~kFYD-----------Ln-k~p~vcP~cg~~~~~~~~ 41 (129)
T TIGR02300 9 KRICPNTGSKFYD-----------LN-RRPAVSPYTGEQFPPEEA 41 (129)
T ss_pred cccCCCcCccccc-----------cC-CCCccCCCcCCccCcchh
Confidence 4568888877743 23 567778888877655533
No 86
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=69.55 E-value=3.9 Score=22.80 Aligned_cols=32 Identities=16% Similarity=0.297 Sum_probs=17.4
Q ss_pred CCeecCCcCCccCch-HHHHHHHHhhCCCCCccccCCCCC
Q psy7450 48 PRYQCPHCPYRGKQK-VHLKTHVAIKHQGPEMLSVKHQGP 86 (161)
Q Consensus 48 k~~~C~~C~~~f~~~-~~l~~H~r~h~~~~~~~~C~~C~k 86 (161)
..|.|+.||+..... ..-+ ....+ |.|+.||-
T Consensus 24 ~~F~CPnCG~~~I~RC~~CR------k~~~~-Y~CP~CGF 56 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCR------KQSNP-YTCPKCGF 56 (59)
T ss_pred CEeeCCCCCCeeEeechhHH------hcCCc-eECCCCCC
Confidence 457788888762222 1111 11234 88888873
No 87
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=69.16 E-value=5.5 Score=21.18 Aligned_cols=21 Identities=19% Similarity=0.472 Sum_probs=11.7
Q ss_pred eecCCcCCccCc-----hHHHHHHHH
Q psy7450 50 YQCPHCPYRGKQ-----KVHLKTHVA 70 (161)
Q Consensus 50 ~~C~~C~~~f~~-----~~~l~~H~r 70 (161)
-.|..|++.+.. .++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 345666655433 356666665
No 88
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=69.06 E-value=1.6 Score=23.99 Aligned_cols=28 Identities=18% Similarity=0.163 Sum_probs=23.9
Q ss_pred CCcCcccCCCcccCcCcCCCcchhhccccccccccC
Q psy7450 117 ETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNG 152 (161)
Q Consensus 117 ~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~ 152 (161)
-.++.-..||-| |..|..+.++.+|.+.
T Consensus 12 RDGE~~lrCPRC--------~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 12 RDGEEFLRCPRC--------GMVFRRRKDYIRHVNK 39 (65)
T ss_pred cCCceeeeCCch--------hHHHHHhHHHHHHhhH
Confidence 346778899999 9999999999998764
No 89
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=68.77 E-value=3 Score=22.37 Aligned_cols=10 Identities=30% Similarity=0.896 Sum_probs=5.2
Q ss_pred eecCCcCCcc
Q psy7450 50 YQCPHCPYRG 59 (161)
Q Consensus 50 ~~C~~C~~~f 59 (161)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4555555544
No 90
>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=68.61 E-value=5.2 Score=25.14 Aligned_cols=26 Identities=35% Similarity=0.823 Sum_probs=23.1
Q ss_pred Ceec----CCcCCccCchHHHHHHHHhhCC
Q psy7450 49 RYQC----PHCPYRGKQKVHLKTHVAIKHQ 74 (161)
Q Consensus 49 ~~~C----~~C~~~f~~~~~l~~H~r~h~~ 74 (161)
.|.| ..|+..+.+...+..|.+.+||
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 4789 9999999999999999998775
No 91
>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=67.40 E-value=4.8 Score=28.78 Aligned_cols=30 Identities=20% Similarity=0.325 Sum_probs=21.8
Q ss_pred CCCcccccccccccccCHHHHHHHHHHhcC
Q psy7450 16 LLQFRYTCDSCGKVYKLKRSLYRHRTLECG 45 (161)
Q Consensus 16 ~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~ 45 (161)
..+..|.|..|+|.|.....+..|+..-+.
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 455679999999999999999999876544
No 92
>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=63.64 E-value=8.8 Score=19.64 Aligned_cols=23 Identities=26% Similarity=0.424 Sum_probs=11.1
Q ss_pred CCCeecCCcCCccCc----hHHHHHHH
Q psy7450 47 EPRYQCPHCPYRGKQ----KVHLKTHV 69 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~----~~~l~~H~ 69 (161)
.....|..|++.+.. .+.|..|+
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 344556666655443 35666666
No 93
>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=63.52 E-value=3.8 Score=19.82 Aligned_cols=7 Identities=43% Similarity=1.435 Sum_probs=3.2
Q ss_pred eecCCcC
Q psy7450 50 YQCPHCP 56 (161)
Q Consensus 50 ~~C~~C~ 56 (161)
..|..||
T Consensus 18 irC~~CG 24 (32)
T PF03604_consen 18 IRCPECG 24 (32)
T ss_dssp SSBSSSS
T ss_pred EECCcCC
Confidence 3444444
No 94
>KOG2785|consensus
Probab=63.15 E-value=11 Score=29.23 Aligned_cols=54 Identities=20% Similarity=0.228 Sum_probs=43.4
Q ss_pred cccccccccccccCHHHHHHHHHHhcCC----------------------CCCeecCCcC---CccCchHHHHHHHHhh
Q psy7450 19 FRYTCDSCGKVYKLKRSLYRHRTLECGK----------------------EPRYQCPHCP---YRGKQKVHLKTHVAIK 72 (161)
Q Consensus 19 k~~~C~~C~~~f~~~~~l~~H~~~h~~~----------------------~k~~~C~~C~---~~f~~~~~l~~H~r~h 72 (161)
.|-.|-.|++.+..-..-..||..++|- ...+.|-.|+ +.|......+.||..-
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 3567899999999888888899887773 3456788888 8899999999998753
No 95
>KOG4173|consensus
Probab=60.61 E-value=0.78 Score=32.32 Aligned_cols=86 Identities=16% Similarity=0.174 Sum_probs=47.5
Q ss_pred CCeecCC--cCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCccchhhh-hhhhhhcccCCCCCcCcccC
Q psy7450 48 PRYQCPH--CPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETLSIKHQ-VSEMLSIKHQGPETLSIKHQ 124 (161)
Q Consensus 48 k~~~C~~--C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~ 124 (161)
..+.|.+ |.+.|...+....|-.+-++ -.|..|.+.|.+..-+.. ++...+. .-..+ +..|
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~-HI~E~HDs~Fqa~------veRG----- 141 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDA-HILEWHDSLFQAL------VERG----- 141 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhH-HHHHHHHHHHHHH------HHcC-----
Confidence 3466765 66777777777777666555 578888888875432221 1111111 11111 1111
Q ss_pred CCcccCcCcCCCcchhhccccccccc
Q psy7450 125 GPEMLSIKHQGPESAFDLRRNNQAHL 150 (161)
Q Consensus 125 c~~c~~~~~~~~~~~f~~~~~l~~H~ 150 (161)
.+++.+..-||+.-|.+.+.-..|+
T Consensus 142 -~dMy~ClvEgCt~KFkT~r~RkdH~ 166 (253)
T KOG4173|consen 142 -QDMYQCLVEGCTEKFKTSRDRKDHM 166 (253)
T ss_pred -ccHHHHHHHhhhhhhhhhhhhhhHH
Confidence 2344445556688888777766664
No 96
>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=60.52 E-value=4.2 Score=18.28 Aligned_cols=7 Identities=14% Similarity=0.344 Sum_probs=4.3
Q ss_pred cccCCCC
Q psy7450 79 LSVKHQG 85 (161)
Q Consensus 79 ~~C~~C~ 85 (161)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 6666665
No 97
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=60.06 E-value=7 Score=24.36 Aligned_cols=15 Identities=20% Similarity=0.248 Sum_probs=9.5
Q ss_pred CeecCCcCCccCchH
Q psy7450 49 RYQCPHCPYRGKQKV 63 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~ 63 (161)
|++|..||..|...+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 456677777766643
No 98
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=59.64 E-value=4.9 Score=26.30 Aligned_cols=11 Identities=9% Similarity=-0.021 Sum_probs=6.9
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
++|..||+.|.
T Consensus 2 H~Ct~Cg~~f~ 12 (131)
T PF09845_consen 2 HQCTKCGRVFE 12 (131)
T ss_pred cccCcCCCCcC
Confidence 56666666665
No 99
>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=59.29 E-value=11 Score=17.11 Aligned_cols=19 Identities=26% Similarity=0.567 Sum_probs=10.8
Q ss_pred ecCCcCCccCchHHHHHHHH
Q psy7450 51 QCPHCPYRGKQKVHLKTHVA 70 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r 70 (161)
.|++|++.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666665 3445555554
No 100
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=58.38 E-value=6.3 Score=25.94 Aligned_cols=26 Identities=23% Similarity=0.283 Sum_probs=16.2
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCC
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPE 77 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~ 77 (161)
-..|-+||+.|... .+|++.|+|..|
T Consensus 72 ~i~clecGk~~k~L---krHL~~~~gltp 97 (132)
T PF05443_consen 72 YIICLECGKKFKTL---KRHLRTHHGLTP 97 (132)
T ss_dssp -EE-TBT--EESBH---HHHHHHTT-S-H
T ss_pred eeEEccCCcccchH---HHHHHHccCCCH
Confidence 46899999988865 799999987654
No 101
>PHA00626 hypothetical protein
Probab=56.81 E-value=9.2 Score=21.08 Aligned_cols=16 Identities=6% Similarity=-0.361 Sum_probs=12.3
Q ss_pred CcccCCCcccCcCcCCCcchhhcc
Q psy7450 120 SIKHQGPEMLSIKHQGPESAFDLR 143 (161)
Q Consensus 120 ~~~~~c~~c~~~~~~~~~~~f~~~ 143 (161)
...|.|++| |..|..-
T Consensus 21 snrYkCkdC--------GY~ft~~ 36 (59)
T PHA00626 21 SDDYVCCDC--------GYNDSKD 36 (59)
T ss_pred CcceEcCCC--------CCeechh
Confidence 457999999 8887643
No 102
>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=56.50 E-value=6.4 Score=18.01 Aligned_cols=9 Identities=22% Similarity=0.298 Sum_probs=4.9
Q ss_pred ccCCCCCcc
Q psy7450 80 SVKHQGPEM 88 (161)
Q Consensus 80 ~C~~C~k~f 88 (161)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 455555555
No 103
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=56.04 E-value=7.8 Score=19.67 Aligned_cols=14 Identities=0% Similarity=-0.052 Sum_probs=10.2
Q ss_pred CcccCCCcccCcCcCCCcchhh
Q psy7450 120 SIKHQGPEMLSIKHQGPESAFD 141 (161)
Q Consensus 120 ~~~~~c~~c~~~~~~~~~~~f~ 141 (161)
-.-|.|..| +..|.
T Consensus 26 T~fy~C~~C--------~~~w~ 39 (40)
T smart00440 26 TVFYVCTKC--------GHRWR 39 (40)
T ss_pred eEEEEeCCC--------CCEeC
Confidence 457889888 87664
No 104
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=54.18 E-value=5 Score=20.24 Aligned_cols=14 Identities=0% Similarity=-0.069 Sum_probs=9.9
Q ss_pred cCcccCCCcccCcCcCCCcchh
Q psy7450 119 LSIKHQGPEMLSIKHQGPESAF 140 (161)
Q Consensus 119 ~~~~~~c~~c~~~~~~~~~~~f 140 (161)
.-.-|.|..| +..|
T Consensus 25 ~T~fy~C~~C--------~~~w 38 (39)
T PF01096_consen 25 MTLFYVCCNC--------GHRW 38 (39)
T ss_dssp SEEEEEESSS--------TEEE
T ss_pred CeEEEEeCCC--------CCee
Confidence 3456788888 7766
No 105
>KOG4173|consensus
Probab=53.24 E-value=4.4 Score=28.67 Aligned_cols=68 Identities=18% Similarity=0.339 Sum_probs=40.7
Q ss_pred cccccc--ccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhC---------CCCCcccc--CCCCC
Q psy7450 20 RYTCDS--CGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKH---------QGPEMLSV--KHQGP 86 (161)
Q Consensus 20 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~---------~~~~~~~C--~~C~k 86 (161)
.+.|++ |.+.|........|-.+-+| -.|..|.+.|....-|..|+.-.+ .+.+-|+| ..|+.
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 366765 55666666666665543333 257778888877777777764332 22344777 34777
Q ss_pred ccccc
Q psy7450 87 EMLSI 91 (161)
Q Consensus 87 ~f~~~ 91 (161)
.|.+.
T Consensus 155 KFkT~ 159 (253)
T KOG4173|consen 155 KFKTS 159 (253)
T ss_pred hhhhh
Confidence 77543
No 106
>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=52.41 E-value=7.5 Score=27.84 Aligned_cols=29 Identities=28% Similarity=0.520 Sum_probs=22.5
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCC
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQG 75 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~ 75 (161)
+..|.|..|++.|.-......|+..-|.+
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 45699999999999999999999887754
No 107
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=52.27 E-value=11 Score=20.21 Aligned_cols=14 Identities=14% Similarity=0.218 Sum_probs=6.4
Q ss_pred CCeecCCcCCccCc
Q psy7450 48 PRYQCPHCPYRGKQ 61 (161)
Q Consensus 48 k~~~C~~C~~~f~~ 61 (161)
+.+.|..||..|..
T Consensus 3 k~l~C~dCg~~Fvf 16 (49)
T PF13451_consen 3 KTLTCKDCGAEFVF 16 (49)
T ss_pred eeEEcccCCCeEEE
Confidence 34445555544443
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=50.56 E-value=13 Score=24.39 Aligned_cols=59 Identities=17% Similarity=0.191 Sum_probs=34.0
Q ss_pred CCCcccccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCc--hHHHHHHHHhhCCCCCccccCCCCCccccccc
Q psy7450 16 LLQFRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQ--KVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKH 93 (161)
Q Consensus 16 ~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~--~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~ 93 (161)
.+.+-|+|..|..+...... -||-+| ||.+--. -.+|+++-.+ -| .|+.|.-+|.+.+.
T Consensus 76 ~d~~lYeCnIC~etS~ee~F-----------LKPneC--CgY~iCn~Cya~LWK~~~~----yp--vCPvCkTSFKss~~ 136 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERF-----------LKPNEC--CGYSICNACYANLWKFCNL----YP--VCPVCKTSFKSSSS 136 (140)
T ss_pred cCCCceeccCcccccchhhc-----------CCcccc--cchHHHHHHHHHHHHHccc----CC--CCCccccccccccc
Confidence 34466888888776554333 244455 4443222 3455555443 23 79999999986544
No 109
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=50.51 E-value=9.4 Score=22.27 Aligned_cols=21 Identities=19% Similarity=0.061 Sum_probs=14.9
Q ss_pred CcCcccCCC--cccCcCcCCCcchhhccccc
Q psy7450 118 TLSIKHQGP--EMLSIKHQGPESAFDLRRNN 146 (161)
Q Consensus 118 ~~~~~~~c~--~c~~~~~~~~~~~f~~~~~l 146 (161)
+.+.-++|. +| |.+|..--.+
T Consensus 23 ~~~~Y~qC~N~eC--------g~tF~t~es~ 45 (72)
T PRK09678 23 TKERYHQCQNVNC--------SATFITYESV 45 (72)
T ss_pred hheeeeecCCCCC--------CCEEEEEEEE
Confidence 456677887 88 9888765443
No 110
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=50.29 E-value=14 Score=24.32 Aligned_cols=44 Identities=20% Similarity=0.222 Sum_probs=23.4
Q ss_pred ccccCCCCCccccccccCCCccchhhhhhhhhhcccCCCCCcCcccCCCcc
Q psy7450 78 MLSVKHQGPEMLSIKHQGPETLSIKHQVSEMLSIKHQGPETLSIKHQGPEM 128 (161)
Q Consensus 78 ~~~C~~C~k~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~c~~c 128 (161)
.+.|..||..|....... .+- .++-...|..+.+....+.||.|
T Consensus 70 ~~~C~~CG~~~~~~~~~~----~~~---~~~~~~~~~~~~~~~~~~~CP~C 113 (135)
T PRK03824 70 VLKCRNCGNEWSLKEVKE----SLD---EEIREAIHFIPEVVHAFLKCPKC 113 (135)
T ss_pred EEECCCCCCEEecccccc----ccc---ccccccccccccccccCcCCcCC
Confidence 389999998886431000 000 00011234444445566789999
No 111
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=49.26 E-value=16 Score=31.24 Aligned_cols=48 Identities=25% Similarity=0.446 Sum_probs=25.2
Q ss_pred ccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCc
Q psy7450 22 TCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPE 87 (161)
Q Consensus 22 ~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~ 87 (161)
.|..||..+..+.. ...+..|.. .....|..||.. +..|..|+.||..
T Consensus 437 ~C~~Cg~v~~Cp~C-d~~lt~H~~-~~~L~CH~Cg~~----------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 437 LCRDCGYIAECPNC-DSPLTLHKA-TGQLRCHYCGYQ----------------EPIPQSCPECGSE 484 (730)
T ss_pred ecccCCCcccCCCC-CcceEEecC-CCeeEeCCCCCC----------------CCCCCCCCCCCCC
Confidence 46666655433211 001222333 445677777642 2334899999865
No 112
>KOG4167|consensus
Probab=49.06 E-value=4.1 Score=34.30 Aligned_cols=26 Identities=15% Similarity=0.232 Sum_probs=23.4
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCC
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQ 74 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~ 74 (161)
-|.|..|++.|....++..||++|..
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48899999999999999999999863
No 113
>PF15269 zf-C2H2_7: Zinc-finger
Probab=48.82 E-value=15 Score=19.19 Aligned_cols=22 Identities=36% Similarity=0.887 Sum_probs=16.1
Q ss_pred eecCCcCCccCchHHHHHHHHh
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAI 71 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~ 71 (161)
|.|-+|......++.|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5677777777777888877763
No 114
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=48.75 E-value=27 Score=26.95 Aligned_cols=65 Identities=22% Similarity=0.121 Sum_probs=39.0
Q ss_pred CCCCCCCccccCCCCC----cccccccccccccCHHHHHHHHHHhcCCCCCeecCCcC----CccCchHHHHHHHH
Q psy7450 3 SEFNLPPHTLFNPLLQ----FRYTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCP----YRGKQKVHLKTHVA 70 (161)
Q Consensus 3 ~~~~l~~H~~~~h~~~----k~~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~----~~f~~~~~l~~H~r 70 (161)
++..|+.|... -..+ .--.|..|...|.....|..|++..+ ++=+.|+.-+ ..|..-..|..|-+
T Consensus 200 ~~~~Lr~H~~~-G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~H--E~ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 200 RSSTLRDHKNG-GLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRH--EACHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred ecccccccccC-CccccCcCCCchhhhccceecChHHHHHHHHhhh--hhhhhhhccCccchhhhhCHHHHHHHhh
Confidence 34556677654 2222 12358889999999999999988654 3334443322 23566666666655
No 115
>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=48.54 E-value=14 Score=19.54 Aligned_cols=12 Identities=8% Similarity=-0.191 Sum_probs=8.9
Q ss_pred cccCCCCCcccc
Q psy7450 79 LSVKHQGPEMLS 90 (161)
Q Consensus 79 ~~C~~C~k~f~~ 90 (161)
|.|..||..+..
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 788999866653
No 116
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=46.67 E-value=10 Score=23.17 Aligned_cols=28 Identities=7% Similarity=0.120 Sum_probs=19.7
Q ss_pred CCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCC
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGP 86 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k 86 (161)
.|-.|..||..|.... -++|-.|+.|..
T Consensus 57 ~Pa~CkkCGfef~~~~-----------ik~pSRCP~CKS 84 (97)
T COG3357 57 RPARCKKCGFEFRDDK-----------IKKPSRCPKCKS 84 (97)
T ss_pred cChhhcccCccccccc-----------cCCcccCCcchh
Confidence 5778999998887621 233488888864
No 117
>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=46.30 E-value=25 Score=18.89 Aligned_cols=11 Identities=9% Similarity=-0.151 Sum_probs=8.5
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
|.|..||..+.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 78888887665
No 118
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=45.64 E-value=11 Score=19.03 Aligned_cols=11 Identities=18% Similarity=0.347 Sum_probs=10.0
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
+.|..|++.|-
T Consensus 13 f~C~~C~~~FC 23 (39)
T smart00154 13 FKCRHCGNLFC 23 (39)
T ss_pred eECCccCCccc
Confidence 99999999986
No 119
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.43 E-value=6.7 Score=23.04 Aligned_cols=10 Identities=40% Similarity=1.378 Sum_probs=5.5
Q ss_pred cccccccccc
Q psy7450 21 YTCDSCGKVY 30 (161)
Q Consensus 21 ~~C~~C~~~f 30 (161)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 5566665543
No 120
>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=44.32 E-value=21 Score=22.29 Aligned_cols=25 Identities=32% Similarity=0.775 Sum_probs=21.9
Q ss_pred ccc----ccccccccCHHHHHHHHHHhcC
Q psy7450 21 YTC----DSCGKVYKLKRSLYRHRTLECG 45 (161)
Q Consensus 21 ~~C----~~C~~~f~~~~~l~~H~~~h~~ 45 (161)
|.| ..|+..+.+...+..|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999887654
No 121
>KOG2785|consensus
Probab=43.68 E-value=4.2 Score=31.44 Aligned_cols=30 Identities=17% Similarity=0.222 Sum_probs=25.1
Q ss_pred CCcCcccCCCcccCcCcCCCcchhhccccccccccChh
Q psy7450 117 ETLSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRK 154 (161)
Q Consensus 117 ~~~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~ 154 (161)
.....++.|..| .+.|........|+.+++
T Consensus 63 e~~~~~~~c~~c--------~k~~~s~~a~~~hl~Sk~ 92 (390)
T KOG2785|consen 63 EEAESVVYCEAC--------NKSFASPKAHENHLKSKK 92 (390)
T ss_pred hhcccceehHHh--------hccccChhhHHHHHHHhh
Confidence 345678899999 999999999999987644
No 122
>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=42.09 E-value=14 Score=23.61 Aligned_cols=28 Identities=14% Similarity=0.253 Sum_probs=19.3
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
...|..|+..|..... - +.|+.||....
T Consensus 70 ~~~C~~Cg~~~~~~~~------------~-~~CP~Cgs~~~ 97 (115)
T TIGR00100 70 ECECEDCSEEVSPEID------------L-YRCPKCHGIML 97 (115)
T ss_pred EEEcccCCCEEecCCc------------C-ccCcCCcCCCc
Confidence 4689999977765421 2 78999986443
No 123
>KOG2593|consensus
Probab=41.70 E-value=20 Score=28.39 Aligned_cols=15 Identities=33% Similarity=0.709 Sum_probs=7.6
Q ss_pred cccccccccccccCH
Q psy7450 19 FRYTCDSCGKVYKLK 33 (161)
Q Consensus 19 k~~~C~~C~~~f~~~ 33 (161)
.-|.|+.|.+.|+..
T Consensus 127 ~~Y~Cp~C~kkyt~L 141 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSL 141 (436)
T ss_pred ccccCCccccchhhh
Confidence 345555555555443
No 124
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=41.62 E-value=40 Score=26.10 Aligned_cols=23 Identities=22% Similarity=0.444 Sum_probs=19.4
Q ss_pred ecCCcCCccCchHHHHHHHHhhC
Q psy7450 51 QCPHCPYRGKQKVHLKTHVAIKH 73 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r~h~ 73 (161)
.|..|...|-..+.|..|+|..+
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H 244 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH 244 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh
Confidence 58888888888999999988765
No 125
>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=41.61 E-value=11 Score=23.34 Aligned_cols=13 Identities=38% Similarity=0.894 Sum_probs=7.7
Q ss_pred ccccccccccccc
Q psy7450 19 FRYTCDSCGKVYK 31 (161)
Q Consensus 19 k~~~C~~C~~~f~ 31 (161)
++.+|.+||..|.
T Consensus 78 ~~~rC~eCG~~fk 90 (97)
T cd00924 78 KPKRCPECGHVFK 90 (97)
T ss_pred CceeCCCCCcEEE
Confidence 4666666666554
No 126
>KOG1280|consensus
Probab=41.57 E-value=44 Score=25.82 Aligned_cols=38 Identities=21% Similarity=0.385 Sum_probs=26.5
Q ss_pred CCeecCCcCCccCchHHHHHHHHhhCCCCC-ccccCCCC
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVAIKHQGPE-MLSVKHQG 85 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~-~~~C~~C~ 85 (161)
..|.|++|+..-.....|..|....+.+-+ ...|+.|+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 457888888887778888888766554433 24567775
No 127
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=41.50 E-value=16 Score=23.26 Aligned_cols=26 Identities=15% Similarity=0.143 Sum_probs=17.7
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPE 87 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~ 87 (161)
.+.|..||..|.... .. +.|+.||..
T Consensus 70 ~~~C~~Cg~~~~~~~------------~~-~~CP~Cgs~ 95 (113)
T PRK12380 70 QAWCWDCSQVVEIHQ------------HD-AQCPHCHGE 95 (113)
T ss_pred EEEcccCCCEEecCC------------cC-ccCcCCCCC
Confidence 468889987765432 22 679999853
No 128
>KOG2231|consensus
Probab=41.05 E-value=30 Score=29.19 Aligned_cols=19 Identities=32% Similarity=0.667 Sum_probs=9.6
Q ss_pred cccccccccCHHHHHHHHH
Q psy7450 23 CDSCGKVYKLKRSLYRHRT 41 (161)
Q Consensus 23 C~~C~~~f~~~~~l~~H~~ 41 (161)
|..|...|.....|.+|++
T Consensus 185 C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLR 203 (669)
T ss_pred chhhhhhhccHHHHHHhhc
Confidence 4455555555555555544
No 129
>KOG2593|consensus
Probab=40.59 E-value=35 Score=27.09 Aligned_cols=37 Identities=22% Similarity=0.441 Sum_probs=27.1
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCC-CCCccccCCCCCcc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQ-GPEMLSVKHQGPEM 88 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~-~~~~~~C~~C~k~f 88 (161)
...|.|+.|.+.|.....++ .... ... |.|..|+-..
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~----L~~~~~~~-F~C~~C~gel 163 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQ----LLDNETGE-FHCENCGGEL 163 (436)
T ss_pred cccccCCccccchhhhHHHH----hhcccCce-EEEecCCCch
Confidence 56799999999998877664 2232 334 9999998644
No 130
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=40.57 E-value=16 Score=19.65 Aligned_cols=9 Identities=11% Similarity=-0.012 Sum_probs=4.9
Q ss_pred cccCCCCCc
Q psy7450 79 LSVKHQGPE 87 (161)
Q Consensus 79 ~~C~~C~k~ 87 (161)
+.|..||..
T Consensus 38 ~~C~~Cgyt 46 (50)
T PRK00432 38 WHCGKCGYT 46 (50)
T ss_pred EECCCcCCE
Confidence 555555543
No 131
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=40.01 E-value=14 Score=24.89 Aligned_cols=36 Identities=14% Similarity=0.330 Sum_probs=22.2
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEM 88 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f 88 (161)
.-+|.|. |+..+.+. ++|-.+-.|+ . |.|..|+-..
T Consensus 115 ~~~Y~C~-C~q~~l~~---RRhn~~~~g~-~-YrC~~C~gkL 150 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI---RRHNTVRRGE-V-YRCGKCGGKL 150 (156)
T ss_pred ceeEEee-cCCccchh---hhcccccccc-e-EEeccCCceE
Confidence 3468888 88775544 2333333455 5 8888887543
No 132
>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=39.68 E-value=9.9 Score=19.53 Aligned_cols=12 Identities=25% Similarity=0.357 Sum_probs=7.9
Q ss_pred ccccCCCCCccc
Q psy7450 78 MLSVKHQGPEML 89 (161)
Q Consensus 78 ~~~C~~C~k~f~ 89 (161)
++.|+.|++.|=
T Consensus 13 ~~~C~~C~~~FC 24 (43)
T PF01428_consen 13 PFKCKHCGKSFC 24 (43)
T ss_dssp HEE-TTTS-EE-
T ss_pred CeECCCCCcccC
Confidence 389999999996
No 133
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=39.64 E-value=14 Score=20.90 Aligned_cols=11 Identities=9% Similarity=-0.013 Sum_probs=5.3
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
-.|..|++.|.
T Consensus 10 ~~C~~C~~~F~ 20 (69)
T PF01363_consen 10 SNCMICGKKFS 20 (69)
T ss_dssp SB-TTT--B-B
T ss_pred CcCcCcCCcCC
Confidence 46888999885
No 134
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=38.96 E-value=3.5 Score=25.62 Aligned_cols=53 Identities=11% Similarity=0.140 Sum_probs=27.9
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCccchhhh
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETLSIKHQ 104 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~ 104 (161)
++.|.|+.|+..-.....+. .-.+..- -.|..||.+|.-........+.+-..
T Consensus 20 ~k~FtCp~Cghe~vs~ctvk----k~~~~g~-~~Cg~CGls~e~ev~~l~~~vDvYs~ 72 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVK----KTVNIGT-AVCGNCGLSFECEVPELSEPVDVYSA 72 (104)
T ss_pred CceEecCccCCeeeeEEEEE----ecCceeE-EEcccCcceEEEeccccccchhHHHH
Confidence 45678888876544332221 0111112 57888888886554444444444443
No 135
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=38.42 E-value=16 Score=22.70 Aligned_cols=49 Identities=12% Similarity=0.225 Sum_probs=28.6
Q ss_pred CCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCCCccchhhh
Q psy7450 48 PRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGPETLSIKHQ 104 (161)
Q Consensus 48 k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~ 104 (161)
..|.|+.|+.. ...-.+. . ...-..|+.||..+...-....+.+.+-..
T Consensus 20 t~f~CP~Cge~-~v~v~~~------k-~~~h~~C~~CG~y~~~~V~~l~epIDVY~~ 68 (99)
T PRK14892 20 KIFECPRCGKV-SISVKIK------K-NIAIITCGNCGLYTEFEVPSVYDEVDVYNK 68 (99)
T ss_pred cEeECCCCCCe-EeeeecC------C-CcceEECCCCCCccCEECCccccchhhHHH
Confidence 45788888832 2111111 1 233378888988887666666666666554
No 136
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=38.38 E-value=16 Score=22.29 Aligned_cols=34 Identities=15% Similarity=0.220 Sum_probs=22.5
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
...|.|+.|++.-... . +... +.|..|++.|+.-
T Consensus 34 ~a~y~CpfCgk~~vkR--------~--a~GI-W~C~~C~~~~AGG 67 (90)
T PTZ00255 34 HAKYFCPFCGKHAVKR--------Q--AVGI-WRCKGCKKTVAGG 67 (90)
T ss_pred hCCccCCCCCCCceee--------e--eeEE-EEcCCCCCEEeCC
Confidence 4569999998642211 1 1233 9999999999754
No 137
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.69 E-value=18 Score=23.22 Aligned_cols=29 Identities=10% Similarity=0.165 Sum_probs=18.1
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
.+.|..||..|..... ....|+.||....
T Consensus 71 ~~~C~~Cg~~~~~~~~------------~~~~CP~Cgs~~~ 99 (117)
T PRK00564 71 ELECKDCSHVFKPNAL------------DYGVCEKCHSKNV 99 (117)
T ss_pred EEEhhhCCCccccCCc------------cCCcCcCCCCCce
Confidence 4688899877654421 2134999986443
No 138
>KOG3408|consensus
Probab=37.18 E-value=23 Score=22.92 Aligned_cols=25 Identities=24% Similarity=0.341 Sum_probs=21.3
Q ss_pred CCCeecCCcCCccCchHHHHHHHHh
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAI 71 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~ 71 (161)
--.|.|-.|.+-|.....|..|.++
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 3458899999999999999999775
No 139
>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=36.20 E-value=32 Score=18.41 Aligned_cols=11 Identities=9% Similarity=0.078 Sum_probs=6.9
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
+.|..||+.|-
T Consensus 19 ~~Cr~Cg~~~C 29 (57)
T cd00065 19 HHCRNCGRIFC 29 (57)
T ss_pred cccCcCcCCcC
Confidence 56666666654
No 140
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=36.17 E-value=3.3 Score=34.71 Aligned_cols=61 Identities=18% Similarity=0.497 Sum_probs=37.1
Q ss_pred ccccccccccCHHHHHHHHHHhcCCCCCe-ecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 22 TCDSCGKVYKLKRSLYRHRTLECGKEPRY-QCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 22 ~C~~C~~~f~~~~~l~~H~~~h~~~~k~~-~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
.|..||-.|+....|--- +..|. -..| .|+.|.+-+.++.+-+-|. .+ ..|+.||......
T Consensus 125 ~CT~CGPRfTIi~alPYD-R~nTs-M~~F~lC~~C~~EY~dP~nRRfHA------Qp-~aCp~CGP~~~l~ 186 (750)
T COG0068 125 NCTNCGPRFTIIEALPYD-RENTS-MADFPLCPFCDKEYKDPLNRRFHA------QP-IACPKCGPHLFLV 186 (750)
T ss_pred ccCCCCcceeeeccCCCC-cccCc-cccCcCCHHHHHHhcCcccccccc------cc-ccCcccCCCeEEE
Confidence 588888888765554321 22222 2222 5888888777776644332 34 8999999755443
No 141
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=35.32 E-value=50 Score=24.51 Aligned_cols=26 Identities=4% Similarity=-0.056 Sum_probs=18.9
Q ss_pred CcccCCCcccCcCcCCCcchhhccccccccccCh
Q psy7450 120 SIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGR 153 (161)
Q Consensus 120 ~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~ 153 (161)
.++..||.| |..-....+|..-.|.+
T Consensus 207 ~k~~PCPKC--------g~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 207 GKPIPCPKC--------GYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCC--------CCcccccccceeeeecc
Confidence 367889999 88877777776655544
No 142
>PF12907 zf-met2: Zinc-binding
Probab=35.08 E-value=8.5 Score=19.68 Aligned_cols=23 Identities=35% Similarity=0.462 Sum_probs=11.3
Q ss_pred ecCCcCCccCc---hHHHHHHHHhhC
Q psy7450 51 QCPHCPYRGKQ---KVHLKTHVAIKH 73 (161)
Q Consensus 51 ~C~~C~~~f~~---~~~l~~H~r~h~ 73 (161)
.|.+|-..|.. ...|..|...-|
T Consensus 3 ~C~iC~qtF~~t~~~~~L~eH~enKH 28 (40)
T PF12907_consen 3 ICKICRQTFMQTTNEPQLKEHAENKH 28 (40)
T ss_pred CcHHhhHHHHhcCCHHHHHHHHHccC
Confidence 45556544432 344666655433
No 143
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=34.11 E-value=16 Score=23.27 Aligned_cols=28 Identities=11% Similarity=0.086 Sum_probs=17.2
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEM 88 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f 88 (161)
.+.|..|+..|..... .. +.|+.||...
T Consensus 70 ~~~C~~Cg~~~~~~~~-----------~~-~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYVTLLTQ-----------RV-RRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCeeecCCc-----------cC-CcCcCcCCCC
Confidence 4678889875543211 11 6799998543
No 144
>KOG4167|consensus
Probab=33.95 E-value=9 Score=32.40 Aligned_cols=26 Identities=15% Similarity=0.103 Sum_probs=23.5
Q ss_pred CcccCCCcccCcCcCCCcchhhccccccccccCh
Q psy7450 120 SIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGR 153 (161)
Q Consensus 120 ~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~ 153 (161)
+..|-|.+| +|.|.....+.+||+.|
T Consensus 790 ~giFpCreC--------~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 790 TGIFPCREC--------GKVFFKIKSRNAHMKTH 815 (907)
T ss_pred CceeehHHH--------HHHHHHHhhhhHHHHHH
Confidence 568899999 99999999999999864
No 145
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=33.72 E-value=17 Score=20.13 Aligned_cols=8 Identities=38% Similarity=1.194 Sum_probs=3.8
Q ss_pred CeecCCcC
Q psy7450 49 RYQCPHCP 56 (161)
Q Consensus 49 ~~~C~~C~ 56 (161)
.|.|+.|.
T Consensus 31 tYmC~eC~ 38 (56)
T PF09963_consen 31 TYMCDECK 38 (56)
T ss_pred ceeChhHH
Confidence 34555543
No 146
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=32.05 E-value=31 Score=19.44 Aligned_cols=10 Identities=30% Similarity=0.414 Sum_probs=6.1
Q ss_pred cccCCCCCcc
Q psy7450 79 LSVKHQGPEM 88 (161)
Q Consensus 79 ~~C~~C~k~f 88 (161)
|.|+.||..+
T Consensus 47 ~~C~~Cg~~~ 56 (69)
T PF07282_consen 47 FTCPNCGFEM 56 (69)
T ss_pred EEcCCCCCEE
Confidence 6666666543
No 147
>KOG2482|consensus
Probab=32.00 E-value=29 Score=26.72 Aligned_cols=24 Identities=33% Similarity=0.473 Sum_probs=21.5
Q ss_pred CeecCCcCCccCchHHHHHHHHhh
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIK 72 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h 72 (161)
.+.|-.|.+.|..+..|..|||.-
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhc
Confidence 468999999999999999999863
No 148
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=31.84 E-value=20 Score=22.52 Aligned_cols=7 Identities=0% Similarity=-0.201 Sum_probs=4.8
Q ss_pred cccCCCC
Q psy7450 79 LSVKHQG 85 (161)
Q Consensus 79 ~~C~~C~ 85 (161)
|.|+.|+
T Consensus 32 y~C~~C~ 38 (102)
T PF11672_consen 32 YVCTPCD 38 (102)
T ss_pred EECCCCC
Confidence 6777765
No 149
>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=31.25 E-value=17 Score=24.22 Aligned_cols=32 Identities=19% Similarity=0.396 Sum_probs=18.3
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
.|.|..|+..+.... +. .... |.|..|+..+.
T Consensus 123 ~~~C~~C~~~~~r~~------~~--~~~~-~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREYKRHR------RS--KRKR-YRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEeeeec------cc--chhh-EECCCCCCEEE
Confidence 467877876653322 22 2223 78888886554
No 150
>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=31.09 E-value=26 Score=16.63 Aligned_cols=7 Identities=29% Similarity=0.335 Sum_probs=3.7
Q ss_pred cccCCCC
Q psy7450 79 LSVKHQG 85 (161)
Q Consensus 79 ~~C~~C~ 85 (161)
+.|+.|+
T Consensus 20 ~vCp~C~ 26 (30)
T PF08274_consen 20 LVCPECG 26 (30)
T ss_dssp EEETTTT
T ss_pred EeCCccc
Confidence 5555554
No 151
>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 PRK14873 primosome assembly protein PriA; Provisional
Probab=30.92 E-value=38 Score=28.70 Aligned_cols=45 Identities=16% Similarity=0.357 Sum_probs=24.9
Q ss_pred ccccccccccCH---HHHHHHHHHhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcc
Q psy7450 22 TCDSCGKVYKLK---RSLYRHRTLECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEM 88 (161)
Q Consensus 22 ~C~~C~~~f~~~---~~l~~H~~~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f 88 (161)
.|..||..+.-. ..|.. |.. .....|..||.. ..+ +.|+.||...
T Consensus 385 ~C~~Cg~~~~C~~C~~~L~~----h~~-~~~l~Ch~CG~~----------------~~p-~~Cp~Cgs~~ 432 (665)
T PRK14873 385 ACARCRTPARCRHCTGPLGL----PSA-GGTPRCRWCGRA----------------APD-WRCPRCGSDR 432 (665)
T ss_pred EhhhCcCeeECCCCCCceeE----ecC-CCeeECCCCcCC----------------CcC-ccCCCCcCCc
Confidence 566666544322 12222 333 455678888742 123 8899998653
No 153
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=30.24 E-value=1.1e+02 Score=22.68 Aligned_cols=13 Identities=0% Similarity=-0.023 Sum_probs=9.3
Q ss_pred cccCCCCCccccc
Q psy7450 79 LSVKHQGPEMLSI 91 (161)
Q Consensus 79 ~~C~~C~k~f~~~ 91 (161)
|.|+.|+..|...
T Consensus 156 f~C~~C~h~F~G~ 168 (278)
T PF15135_consen 156 FHCPKCRHNFRGF 168 (278)
T ss_pred eecccccccchhh
Confidence 7777777777643
No 154
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=29.86 E-value=52 Score=17.70 Aligned_cols=12 Identities=33% Similarity=0.899 Sum_probs=6.1
Q ss_pred eecCCcCCccCc
Q psy7450 50 YQCPHCPYRGKQ 61 (161)
Q Consensus 50 ~~C~~C~~~f~~ 61 (161)
+.|..||..|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 455555554443
No 155
>KOG3214|consensus
Probab=29.78 E-value=17 Score=22.64 Aligned_cols=24 Identities=8% Similarity=0.007 Sum_probs=16.2
Q ss_pred cccCCCCCccccccccCCCccchh
Q psy7450 79 LSVKHQGPEMLSIKHQGPETLSIK 102 (161)
Q Consensus 79 ~~C~~C~k~f~~~~~~~~~~~~~~ 102 (161)
..|.+|+.+|..........+.+-
T Consensus 48 ~sC~iC~esFqt~it~LsepIDVY 71 (109)
T KOG3214|consen 48 ASCRICEESFQTTITALSEPIDVY 71 (109)
T ss_pred eeeeehhhhhccchHhhccchHHH
Confidence 678899998877655444455443
No 156
>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=29.36 E-value=20 Score=18.33 Aligned_cols=10 Identities=10% Similarity=0.086 Sum_probs=6.9
Q ss_pred cccCCCCCcc
Q psy7450 79 LSVKHQGPEM 88 (161)
Q Consensus 79 ~~C~~C~k~f 88 (161)
-.|++||..|
T Consensus 30 ~~CpYCg~~y 39 (40)
T PF10276_consen 30 VVCPYCGTRY 39 (40)
T ss_dssp EEETTTTEEE
T ss_pred EECCCCCCEE
Confidence 5677777665
No 157
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.90 E-value=41 Score=21.38 Aligned_cols=13 Identities=8% Similarity=-0.159 Sum_probs=8.8
Q ss_pred CCCeecCCcCCcc
Q psy7450 47 EPRYQCPHCPYRG 59 (161)
Q Consensus 47 ~k~~~C~~C~~~f 59 (161)
..|..|+.||++|
T Consensus 24 rdPiVsPytG~s~ 36 (129)
T COG4530 24 RDPIVSPYTGKSY 36 (129)
T ss_pred CCccccCcccccc
Confidence 4566677777776
No 158
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=28.77 E-value=31 Score=17.39 Aligned_cols=12 Identities=33% Similarity=0.390 Sum_probs=7.2
Q ss_pred ccccCCCCCccc
Q psy7450 78 MLSVKHQGPEML 89 (161)
Q Consensus 78 ~~~C~~C~k~f~ 89 (161)
.+.|+.||..+.
T Consensus 32 ~~~C~~CGE~~~ 43 (46)
T TIGR03831 32 ALVCPQCGEEYL 43 (46)
T ss_pred ccccccCCCEee
Confidence 356677766554
No 159
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=28.55 E-value=27 Score=23.03 Aligned_cols=22 Identities=45% Similarity=0.605 Sum_probs=18.1
Q ss_pred cccccccccccCHHHHHHHHHHhcC
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLECG 45 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h~~ 45 (161)
..|-++|+.|+ .|++|..+|.|
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccC
Confidence 46888999985 58899998877
No 160
>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=28.52 E-value=15 Score=19.11 Aligned_cols=8 Identities=13% Similarity=-0.072 Sum_probs=6.1
Q ss_pred cccCCCCC
Q psy7450 79 LSVKHQGP 86 (161)
Q Consensus 79 ~~C~~C~k 86 (161)
|.|..|++
T Consensus 38 ~~C~~C~~ 45 (46)
T PF12760_consen 38 YRCKACRK 45 (46)
T ss_pred EECCCCCC
Confidence 88888765
No 161
>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=27.88 E-value=23 Score=19.06 Aligned_cols=11 Identities=9% Similarity=-0.016 Sum_probs=5.6
Q ss_pred ccCCCCCcccc
Q psy7450 80 SVKHQGPEMLS 90 (161)
Q Consensus 80 ~C~~C~k~f~~ 90 (161)
.|+.|++.|..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999988863
No 162
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.76 E-value=11 Score=27.23 Aligned_cols=24 Identities=17% Similarity=0.361 Sum_probs=12.1
Q ss_pred CCCeecCCcCCccCchHHHHHHHH
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVA 70 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r 70 (161)
++.+.|++|+..|.....+..-.|
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiR 40 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIR 40 (267)
T ss_pred hceeccCcccchhhhhheecccee
Confidence 344566666666555443333333
No 163
>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=27.64 E-value=45 Score=16.47 Aligned_cols=11 Identities=9% Similarity=-0.164 Sum_probs=8.4
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
..|+.||+.|.
T Consensus 2 r~C~~Cg~~Yh 12 (36)
T PF05191_consen 2 RICPKCGRIYH 12 (36)
T ss_dssp EEETTTTEEEE
T ss_pred cCcCCCCCccc
Confidence 46888888775
No 164
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=27.49 E-value=78 Score=16.03 Aligned_cols=23 Identities=22% Similarity=0.307 Sum_probs=13.6
Q ss_pred eecCCcCCccCc--hHHHHHHHHhh
Q psy7450 50 YQCPHCPYRGKQ--KVHLKTHVAIK 72 (161)
Q Consensus 50 ~~C~~C~~~f~~--~~~l~~H~r~h 72 (161)
..|+.||-.+.. ...-..|.+-|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 467777765543 45555666554
No 165
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=27.20 E-value=15 Score=23.05 Aligned_cols=26 Identities=19% Similarity=0.034 Sum_probs=22.2
Q ss_pred cCcccCCCcccCcCcCCCcchhhccccccccccC
Q psy7450 119 LSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNG 152 (161)
Q Consensus 119 ~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~ 152 (161)
+-..|.|-+| .+.|.+...|..|.+|
T Consensus 52 GlGqhYCieC--------aryf~t~~aL~~Hkkg 77 (126)
T COG5112 52 GLGQHYCIEC--------ARYFITEKALMEHKKG 77 (126)
T ss_pred CCceeeeehh--------HHHHHHHHHHHHHhcc
Confidence 3446789999 9999999999999876
No 166
>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=27.00 E-value=26 Score=22.24 Aligned_cols=28 Identities=18% Similarity=0.325 Sum_probs=17.1
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
.+.|..||..|..... . +.|+.||....
T Consensus 70 ~~~C~~Cg~~~~~~~~------------~-~~CP~Cgs~~~ 97 (113)
T PF01155_consen 70 RARCRDCGHEFEPDEF------------D-FSCPRCGSPDV 97 (113)
T ss_dssp EEEETTTS-EEECHHC------------C-HH-SSSSSS-E
T ss_pred cEECCCCCCEEecCCC------------C-CCCcCCcCCCc
Confidence 4678889988775532 1 56999987644
No 167
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=26.78 E-value=48 Score=17.12 Aligned_cols=15 Identities=20% Similarity=0.346 Sum_probs=9.2
Q ss_pred ecCCcCCccCchHHH
Q psy7450 51 QCPHCPYRGKQKVHL 65 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l 65 (161)
.|.+|++.|......
T Consensus 10 ~C~~C~rpf~WRKKW 24 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKW 24 (42)
T ss_pred cCcccCCcchHHHHH
Confidence 466777777665443
No 168
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=26.61 E-value=60 Score=17.86 Aligned_cols=8 Identities=13% Similarity=0.152 Sum_probs=4.8
Q ss_pred cccCCCCC
Q psy7450 79 LSVKHQGP 86 (161)
Q Consensus 79 ~~C~~C~k 86 (161)
|.|+.||-
T Consensus 15 ~~Cp~cGi 22 (55)
T PF13824_consen 15 FECPDCGI 22 (55)
T ss_pred CcCCCCCC
Confidence 66666664
No 169
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.52 E-value=33 Score=22.31 Aligned_cols=51 Identities=14% Similarity=0.212 Sum_probs=24.7
Q ss_pred HhcCCCCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCcccccc
Q psy7450 42 LECGKEPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIK 92 (161)
Q Consensus 42 ~h~~~~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~ 92 (161)
++.|+.--.+|+.|..+..-.....-=...-+.-+||--|..||+.|.+..
T Consensus 32 skcgeati~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwte 82 (160)
T COG4306 32 SKCGEATITQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWTE 82 (160)
T ss_pred hhhchHHHhcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcHH
Confidence 344422334677776654433322111111122244567888888887643
No 170
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=26.47 E-value=39 Score=18.25 Aligned_cols=7 Identities=29% Similarity=0.605 Sum_probs=3.3
Q ss_pred HHHHHHH
Q psy7450 64 HLKTHVA 70 (161)
Q Consensus 64 ~l~~H~r 70 (161)
.|..|..
T Consensus 25 ~l~~H~~ 31 (60)
T PF02176_consen 25 ELDDHLE 31 (60)
T ss_dssp CHHHHHH
T ss_pred HHHHHHH
Confidence 4444544
No 171
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.22 E-value=55 Score=24.95 Aligned_cols=11 Identities=27% Similarity=-0.146 Sum_probs=8.0
Q ss_pred CcCcccCCCcc
Q psy7450 118 TLSIKHQGPEM 128 (161)
Q Consensus 118 ~~~~~~~c~~c 128 (161)
+....|+|+.|
T Consensus 384 ~ss~rY~Ce~C 394 (421)
T COG5151 384 TSSGRYQCELC 394 (421)
T ss_pred ccccceechhh
Confidence 34567888888
No 172
>KOG2071|consensus
Probab=25.99 E-value=49 Score=27.41 Aligned_cols=27 Identities=22% Similarity=0.420 Sum_probs=23.3
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhC
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKH 73 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~ 73 (161)
..|-+|..||.+|.+......||..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 567899999999999988888888775
No 173
>KOG2482|consensus
Probab=25.55 E-value=45 Score=25.78 Aligned_cols=23 Identities=30% Similarity=0.583 Sum_probs=21.1
Q ss_pred ccccccccccccCHHHHHHHHHH
Q psy7450 20 RYTCDSCGKVYKLKRSLYRHRTL 42 (161)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~ 42 (161)
.+.|-.|.+.|..+..|..||+.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999985
No 174
>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=25.29 E-value=54 Score=16.36 Aligned_cols=12 Identities=50% Similarity=1.040 Sum_probs=4.3
Q ss_pred cccccccccccc
Q psy7450 20 RYTCDSCGKVYK 31 (161)
Q Consensus 20 ~~~C~~C~~~f~ 31 (161)
.|-|+.|...|.
T Consensus 3 ryyCdyC~~~~~ 14 (38)
T PF06220_consen 3 RYYCDYCKKYLT 14 (38)
T ss_dssp S-B-TTT--B-S
T ss_pred Ceecccccceec
Confidence 456777777663
No 175
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.28 E-value=1.2e+02 Score=21.02 Aligned_cols=33 Identities=15% Similarity=0.396 Sum_probs=22.7
Q ss_pred CCCeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 47 EPRYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 47 ~k~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
..-|.|+.|.-.++...+.. .+ |.|+.||....
T Consensus 111 ~~~y~C~~~~~r~sfdeA~~------~~----F~Cp~Cg~~L~ 143 (176)
T COG1675 111 NNYYVCPNCHVKYSFDEAME------LG----FTCPKCGEDLE 143 (176)
T ss_pred CCceeCCCCCCcccHHHHHH------hC----CCCCCCCchhh
Confidence 56789988877666554432 22 99999997554
No 176
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=25.03 E-value=53 Score=17.64 Aligned_cols=8 Identities=13% Similarity=0.044 Sum_probs=4.4
Q ss_pred cccCCCCC
Q psy7450 79 LSVKHQGP 86 (161)
Q Consensus 79 ~~C~~C~k 86 (161)
+.|..||.
T Consensus 38 ~~CGkCgy 45 (51)
T COG1998 38 WACGKCGY 45 (51)
T ss_pred eEeccccc
Confidence 55555553
No 177
>KOG2907|consensus
Probab=24.87 E-value=36 Score=21.70 Aligned_cols=39 Identities=10% Similarity=0.202 Sum_probs=23.1
Q ss_pred CeecCCcCCccCchHHHHHHHHh-hCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAI-KHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~-h~~~~~~~~C~~C~k~f~ 89 (161)
...|+.||..-..-..|+ +|. --|.-..|.|+.|+..|+
T Consensus 74 ~~kCpkCghe~m~Y~T~Q--lRSADEGQTVFYTC~kC~~k~~ 113 (116)
T KOG2907|consen 74 KHKCPKCGHEEMSYHTLQ--LRSADEGQTVFYTCPKCKYKFT 113 (116)
T ss_pred hccCcccCCchhhhhhhh--cccccCCceEEEEcCccceeee
Confidence 357888886544433332 222 123334589999998886
No 178
>KOG0717|consensus
Probab=24.50 E-value=17 Score=29.07 Aligned_cols=29 Identities=14% Similarity=0.152 Sum_probs=24.7
Q ss_pred cCCCcccCcCcCCCcchhhccccccccccC--hhhhhhh
Q psy7450 123 HQGPEMLSIKHQGPESAFDLRRNNQAHLNG--RKDMMER 159 (161)
Q Consensus 123 ~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~--~~~~~~~ 159 (161)
..|..| .|.|.+-..+..|.++ |+.+|+.
T Consensus 293 lyC~vC--------nKsFKseKq~kNHEnSKKHkenv~e 323 (508)
T KOG0717|consen 293 LYCVVC--------NKSFKSEKQLKNHENSKKHKENVAE 323 (508)
T ss_pred eEEeec--------cccccchHHHHhhHHHHHHHHHHHH
Confidence 679999 9999999999999875 6666654
No 179
>KOG3507|consensus
Probab=24.36 E-value=33 Score=19.11 Aligned_cols=27 Identities=33% Similarity=0.801 Sum_probs=15.4
Q ss_pred cccccccccccCHHHHHHHHHHhcCCCCCeecCCcCCcc
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTLECGKEPRYQCPHCPYRG 59 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h~~~~k~~~C~~C~~~f 59 (161)
|.|.+|+..-.. .. ...+.|..||..-
T Consensus 21 YiCgdC~~en~l----------k~--~D~irCReCG~RI 47 (62)
T KOG3507|consen 21 YICGDCGQENTL----------KR--GDVIRCRECGYRI 47 (62)
T ss_pred EEeccccccccc----------cC--CCcEehhhcchHH
Confidence 777777754211 11 3457777787643
No 180
>KOG2932|consensus
Probab=24.28 E-value=16 Score=27.65 Aligned_cols=32 Identities=22% Similarity=0.222 Sum_probs=23.8
Q ss_pred cCcccCCCcccCcCcCCCcchhhccccccccccChhh
Q psy7450 119 LSIKHQGPEMLSIKHQGPESAFDLRRNNQAHLNGRKD 155 (161)
Q Consensus 119 ~~~~~~c~~c~~~~~~~~~~~f~~~~~l~~H~~~~~~ 155 (161)
....|-|.. .+||-++|-..++|++|.+.|+-
T Consensus 141 ~g~iFmC~~-----~~GC~RTyLsqrDlqAHInhrH~ 172 (389)
T KOG2932|consen 141 MGGIFMCAA-----PHGCLRTYLSQRDLQAHINHRHG 172 (389)
T ss_pred ccceEEeec-----chhHHHHHhhHHHHHHHhhhhhc
Confidence 344555653 36779999999999999987653
No 181
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=24.07 E-value=56 Score=26.01 Aligned_cols=29 Identities=24% Similarity=0.334 Sum_probs=18.6
Q ss_pred ecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccc
Q psy7450 51 QCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSI 91 (161)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~ 91 (161)
.|+.||.+..+. |.. .|.|+.||..+...
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~-g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRN-GFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc-----------CCC-CcccccccccCCcc
Confidence 578888653322 222 48888888877643
No 182
>PRK04351 hypothetical protein; Provisional
Probab=23.79 E-value=32 Score=23.14 Aligned_cols=32 Identities=13% Similarity=0.181 Sum_probs=19.0
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
.|.|..||..+... +.+ .... |.|..|+-.+.
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~-yrCg~C~g~L~ 143 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKR-YRCGKCRGKLK 143 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCc-EEeCCCCcEee
Confidence 47787787655432 112 2344 88888886554
No 183
>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=23.75 E-value=35 Score=16.58 Aligned_cols=11 Identities=9% Similarity=0.178 Sum_probs=8.3
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
+.|+.|++.+.
T Consensus 5 ~~C~nC~R~v~ 15 (33)
T PF08209_consen 5 VECPNCGRPVA 15 (33)
T ss_dssp EE-TTTSSEEE
T ss_pred EECCCCcCCcc
Confidence 78999998775
No 184
>COG1773 Rubredoxin [Energy production and conversion]
Probab=23.47 E-value=38 Score=18.62 Aligned_cols=11 Identities=9% Similarity=-0.233 Sum_probs=5.8
Q ss_pred cccCCCCCccc
Q psy7450 79 LSVKHQGPEML 89 (161)
Q Consensus 79 ~~C~~C~k~f~ 89 (161)
|+|..||-.|-
T Consensus 4 ~~C~~CG~vYd 14 (55)
T COG1773 4 WRCSVCGYVYD 14 (55)
T ss_pred eEecCCceEec
Confidence 55555555443
No 185
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=23.47 E-value=45 Score=21.79 Aligned_cols=41 Identities=17% Similarity=0.286 Sum_probs=23.6
Q ss_pred eecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccccccccCC
Q psy7450 50 YQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEMLSIKHQGP 96 (161)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~~~~~~~~ 96 (161)
-.|+.|+........ ..-.+... |.|..|++.|........
T Consensus 31 ~~cP~C~s~~~~k~g-----~~~~~~qR-yrC~~C~~tf~~~~~~~~ 71 (129)
T COG3677 31 VNCPRCKSSNVVKIG-----GIRRGHQR-YKCKSCGSTFTVETGSPL 71 (129)
T ss_pred CcCCCCCccceeeEC-----Cccccccc-cccCCcCcceeeeccCcc
Confidence 468888754311111 11122334 999999999987655333
No 186
>PRK04023 DNA polymerase II large subunit; Validated
Probab=23.12 E-value=73 Score=28.47 Aligned_cols=10 Identities=60% Similarity=1.178 Sum_probs=7.0
Q ss_pred cccccccccc
Q psy7450 20 RYTCDSCGKV 29 (161)
Q Consensus 20 ~~~C~~C~~~ 29 (161)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 4568888865
No 187
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=22.55 E-value=49 Score=20.94 Aligned_cols=11 Identities=9% Similarity=-0.028 Sum_probs=7.6
Q ss_pred ccCCCCCcccc
Q psy7450 80 SVKHQGPEMLS 90 (161)
Q Consensus 80 ~C~~C~k~f~~ 90 (161)
.|+.|+..|.+
T Consensus 4 ~CP~C~seytY 14 (109)
T TIGR00686 4 PCPKCNSEYTY 14 (109)
T ss_pred cCCcCCCcceE
Confidence 57888776663
No 188
>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=22.00 E-value=33 Score=20.96 Aligned_cols=10 Identities=10% Similarity=0.099 Sum_probs=6.7
Q ss_pred cccCCCCCcc
Q psy7450 79 LSVKHQGPEM 88 (161)
Q Consensus 79 ~~C~~C~k~f 88 (161)
|.|+.||+.-
T Consensus 36 y~Cp~Cgk~~ 45 (90)
T PF01780_consen 36 YTCPFCGKTS 45 (90)
T ss_dssp BEESSSSSSE
T ss_pred CcCCCCCCce
Confidence 7777777643
No 189
>KOG2636|consensus
Probab=21.76 E-value=65 Score=25.86 Aligned_cols=25 Identities=40% Similarity=0.852 Sum_probs=0.0
Q ss_pred CCCCccccccccc-ccccCHHHHHHH
Q psy7450 15 PLLQFRYTCDSCG-KVYKLKRSLYRH 39 (161)
Q Consensus 15 h~~~k~~~C~~C~-~~f~~~~~l~~H 39 (161)
|.-...|.|.+|| +++..+..+.+|
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RH 421 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRH 421 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHH
No 190
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=21.76 E-value=44 Score=22.11 Aligned_cols=10 Identities=10% Similarity=0.199 Sum_probs=5.9
Q ss_pred cccCCCCCcc
Q psy7450 79 LSVKHQGPEM 88 (161)
Q Consensus 79 ~~C~~C~k~f 88 (161)
|.|..|+-.+
T Consensus 134 y~C~~C~g~l 143 (146)
T smart00731 134 YRCGKCGGKL 143 (146)
T ss_pred EEcCCCCCEE
Confidence 6666666544
No 191
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=21.50 E-value=72 Score=29.22 Aligned_cols=9 Identities=44% Similarity=1.010 Sum_probs=5.8
Q ss_pred ccccccccc
Q psy7450 21 YTCDSCGKV 29 (161)
Q Consensus 21 ~~C~~C~~~ 29 (161)
+.|+.||..
T Consensus 668 rkCPkCG~~ 676 (1337)
T PRK14714 668 RRCPSCGTE 676 (1337)
T ss_pred EECCCCCCc
Confidence 567777753
No 192
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.03 E-value=41 Score=21.76 Aligned_cols=34 Identities=18% Similarity=0.343 Sum_probs=18.8
Q ss_pred CeecCCcCCccCchHHHHHHHHhhCCCCCccccCCCCCccc
Q psy7450 49 RYQCPHCPYRGKQKVHLKTHVAIKHQGPEMLSVKHQGPEML 89 (161)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~r~h~~~~~~~~C~~C~k~f~ 89 (161)
.+.| .||..|.....-..+ -.+.+.|+.||....
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~~------~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEIDH------YAAVIECPVCGNKRA 103 (124)
T ss_pred eEEe-eCcCcccccccchhc------cccCCcCcCCCCCCC
Confidence 4689 999877654210000 012267999985443
No 193
>COG4640 Predicted membrane protein [Function unknown]
Probab=20.62 E-value=55 Score=25.86 Aligned_cols=12 Identities=17% Similarity=0.166 Sum_probs=5.9
Q ss_pred ccCCCCCccccc
Q psy7450 80 SVKHQGPEMLSI 91 (161)
Q Consensus 80 ~C~~C~k~f~~~ 91 (161)
.|.+||..|.+.
T Consensus 17 qC~qCG~~~t~~ 28 (465)
T COG4640 17 QCTQCGHKFTSR 28 (465)
T ss_pred cccccCCcCCch
Confidence 355555555443
No 194
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=20.22 E-value=82 Score=20.92 Aligned_cols=47 Identities=15% Similarity=0.258 Sum_probs=27.3
Q ss_pred cccccccccccCHHHHHHHHHH-----hcCCCCCeecCCcCCccCchHHHHHH
Q psy7450 21 YTCDSCGKVYKLKRSLYRHRTL-----ECGKEPRYQCPHCPYRGKQKVHLKTH 68 (161)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~-----h~~~~k~~~C~~C~~~f~~~~~l~~H 68 (161)
-.|..|+..+..-..-..-..+ ... +.-+.|+.||+.|...+...+-
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~-~~f~~C~~C~kiyW~GsH~~~~ 143 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETY-DEFWRCPGCGKIYWEGSHWRRM 143 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccC-CeEEECCCCCCEecccccHHHH
Confidence 5799998765432211000001 111 3457999999999888776543
Done!