Query psy4065
Match_columns 348
No_of_seqs 131 out of 2731
Neff 10.4
Searched_HMMs 46136
Date Sat Aug 17 00:25:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4065.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4065hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 1.2E-25 2.6E-30 181.9 6.6 113 4-175 128-240 (279)
2 KOG1074|consensus 99.9 6.7E-25 1.4E-29 200.6 4.7 56 6-69 353-408 (958)
3 KOG2462|consensus 99.9 5.4E-23 1.2E-27 166.6 5.1 109 3-173 158-266 (279)
4 KOG3608|consensus 99.9 3.2E-22 7E-27 166.2 8.6 134 10-174 183-316 (467)
5 KOG3608|consensus 99.8 3.7E-20 8E-25 154.1 9.0 143 1-175 202-346 (467)
6 KOG3623|consensus 99.7 3E-18 6.5E-23 155.0 5.1 91 4-101 238-333 (1007)
7 KOG3576|consensus 99.7 7.6E-19 1.7E-23 135.3 1.1 122 4-177 115-239 (267)
8 KOG1074|consensus 99.7 8.6E-18 1.9E-22 154.6 2.7 56 115-178 880-935 (958)
9 KOG3576|consensus 99.7 1.3E-17 2.8E-22 128.5 2.6 88 37-176 112-199 (267)
10 KOG3623|consensus 99.5 2.2E-15 4.8E-20 136.7 2.2 122 6-172 210-331 (1007)
11 PLN03086 PRLI-interacting fact 99.1 9E-11 2E-15 107.7 4.9 106 7-161 408-515 (567)
12 PLN03086 PRLI-interacting fact 99.1 2E-10 4.4E-15 105.4 7.0 53 113-175 503-565 (567)
13 KOG3993|consensus 99.1 2.2E-10 4.7E-15 98.6 6.6 92 77-177 267-383 (500)
14 PHA00733 hypothetical protein 99.0 4.3E-10 9.3E-15 84.2 5.1 86 39-175 37-124 (128)
15 KOG3993|consensus 98.9 2.7E-10 5.8E-15 98.1 0.4 155 6-176 295-484 (500)
16 PHA00733 hypothetical protein 98.8 2.3E-09 4.9E-14 80.4 3.7 85 4-139 38-124 (128)
17 PHA02768 hypothetical protein; 98.7 8.5E-09 1.8E-13 63.3 1.8 43 114-166 5-47 (55)
18 PHA02768 hypothetical protein; 98.6 1.7E-08 3.8E-13 61.9 1.9 43 6-58 5-47 (55)
19 PF05605 zf-Di19: Drought indu 98.5 3E-07 6.4E-12 57.9 4.6 53 114-175 2-54 (54)
20 PHA00616 hypothetical protein 98.4 2.1E-07 4.6E-12 54.3 2.9 29 287-315 1-29 (44)
21 PF05605 zf-Di19: Drought indu 98.4 4.7E-07 1E-11 57.0 4.4 53 6-67 2-54 (54)
22 PHA00616 hypothetical protein 98.4 1.8E-07 3.9E-12 54.6 1.9 35 6-48 1-35 (44)
23 PF13465 zf-H2C2_2: Zinc-finge 98.3 5.8E-07 1.3E-11 47.0 2.4 26 129-162 1-26 (26)
24 PHA00732 hypothetical protein 98.3 3.5E-07 7.7E-12 61.9 2.0 49 6-67 1-49 (79)
25 PHA00732 hypothetical protein 98.3 4.5E-07 9.8E-12 61.4 2.4 49 114-175 1-49 (79)
26 PF13465 zf-H2C2_2: Zinc-finge 98.1 3.3E-06 7.1E-11 44.1 2.4 26 21-54 1-26 (26)
27 PF13894 zf-C2H2_4: C2H2-type 98.0 1.4E-06 3E-11 44.8 0.5 24 288-311 1-24 (24)
28 PF00096 zf-C2H2: Zinc finger, 98.0 1.9E-06 4.1E-11 43.8 0.4 22 288-309 1-22 (23)
29 PF13912 zf-C2H2_6: C2H2-type 97.9 3.3E-06 7.2E-11 44.8 0.1 26 287-312 1-26 (27)
30 PF00096 zf-C2H2: Zinc finger, 97.9 1.2E-05 2.5E-10 40.8 2.1 22 151-172 1-22 (23)
31 PF12756 zf-C2H2_2: C2H2 type 97.8 9.9E-06 2.2E-10 58.5 2.4 25 114-138 50-74 (100)
32 PF12756 zf-C2H2_2: C2H2 type 97.8 1.1E-05 2.3E-10 58.3 2.4 59 8-66 1-74 (100)
33 COG5189 SFP1 Putative transcri 97.8 4.8E-06 1E-10 69.6 0.5 59 113-171 348-419 (423)
34 PF13894 zf-C2H2_4: C2H2-type 97.8 1.6E-05 3.5E-10 40.7 2.3 24 7-30 1-24 (24)
35 COG5189 SFP1 Putative transcri 97.7 9.9E-06 2.2E-10 67.8 0.9 61 3-63 346-419 (423)
36 COG5236 Uncharacterized conser 97.7 0.00012 2.5E-09 62.3 6.7 132 7-176 152-307 (493)
37 KOG1146|consensus 97.6 4.4E-05 9.6E-10 75.8 2.8 152 3-172 462-640 (1406)
38 PF13912 zf-C2H2_6: C2H2-type 97.5 4.1E-05 9E-10 40.4 1.3 25 6-30 1-25 (27)
39 PF13909 zf-H2C2_5: C2H2-type 97.5 3.8E-05 8.3E-10 39.3 0.5 24 288-312 1-24 (24)
40 COG5236 Uncharacterized conser 97.5 0.00018 3.9E-09 61.1 4.7 114 42-172 151-273 (493)
41 KOG2231|consensus 97.4 0.00013 2.8E-09 68.6 4.3 96 17-138 125-236 (669)
42 KOG1146|consensus 97.3 0.00015 3.2E-09 72.2 2.9 61 113-173 464-541 (1406)
43 PF13909 zf-H2C2_5: C2H2-type 97.2 0.00028 6E-09 36.0 2.1 23 43-66 1-23 (24)
44 PF09237 GAGA: GAGA factor; I 97.1 0.00049 1.1E-08 41.1 2.8 31 147-177 21-51 (54)
45 smart00355 ZnF_C2H2 zinc finge 97.1 0.00029 6.3E-09 36.5 1.5 23 288-310 1-23 (26)
46 PF12874 zf-met: Zinc-finger o 97.1 0.00014 3E-09 37.6 0.1 23 288-310 1-23 (25)
47 PF09237 GAGA: GAGA factor; I 97.0 0.00055 1.2E-08 40.9 2.2 34 282-315 19-52 (54)
48 smart00355 ZnF_C2H2 zinc finge 96.8 0.0011 2.4E-08 34.2 2.2 23 151-173 1-23 (26)
49 PF12874 zf-met: Zinc-finger o 96.8 0.0007 1.5E-08 34.9 1.4 22 151-172 1-22 (25)
50 KOG2785|consensus 96.8 0.0049 1.1E-07 53.7 7.0 37 288-324 167-203 (390)
51 KOG2482|consensus 96.6 0.0017 3.6E-08 55.4 2.8 169 4-172 142-356 (423)
52 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.00036 7.8E-09 36.7 -1.0 23 288-310 2-24 (27)
53 KOG2785|consensus 96.4 0.011 2.4E-07 51.6 6.9 174 6-179 3-250 (390)
54 KOG2231|consensus 96.3 0.057 1.2E-06 51.5 11.3 115 44-175 117-237 (669)
55 KOG4173|consensus 96.2 0.0032 6.9E-08 49.7 2.5 109 19-139 52-171 (253)
56 KOG4173|consensus 96.0 0.0054 1.2E-07 48.5 2.8 53 113-176 78-132 (253)
57 PF12013 DUF3505: Protein of u 95.9 0.013 2.8E-07 42.9 4.3 25 288-312 81-109 (109)
58 PF12171 zf-C2H2_jaz: Zinc-fin 95.8 0.002 4.4E-08 33.8 -0.4 21 115-135 2-22 (27)
59 COG4049 Uncharacterized protei 95.1 0.01 2.3E-07 36.1 1.1 29 3-31 14-42 (65)
60 PF13913 zf-C2HC_2: zinc-finge 95.0 0.024 5.1E-07 29.1 2.0 20 152-172 4-23 (25)
61 smart00451 ZnF_U1 U1-like zinc 94.9 0.011 2.4E-07 33.1 0.8 24 287-310 3-26 (35)
62 KOG2482|consensus 94.8 0.21 4.5E-06 43.1 8.4 26 288-313 280-305 (423)
63 PF13913 zf-C2HC_2: zinc-finge 94.3 0.043 9.4E-07 28.1 2.1 20 7-27 3-22 (25)
64 KOG2893|consensus 94.0 0.07 1.5E-06 43.4 3.7 51 113-176 10-61 (341)
65 PRK04860 hypothetical protein; 94.0 0.024 5.1E-07 44.3 1.1 25 40-68 117-141 (160)
66 PRK04860 hypothetical protein; 93.9 0.033 7.2E-07 43.5 1.7 39 113-163 118-156 (160)
67 smart00451 ZnF_U1 U1-like zinc 93.9 0.042 9.1E-07 30.7 1.7 23 150-172 3-25 (35)
68 COG4049 Uncharacterized protei 93.5 0.051 1.1E-06 33.1 1.7 34 281-314 11-44 (65)
69 KOG2893|consensus 93.5 0.022 4.8E-07 46.2 0.1 56 4-72 9-64 (341)
70 PF12013 DUF3505: Protein of u 93.4 0.17 3.7E-06 36.9 4.7 62 5-67 10-109 (109)
71 cd00350 rubredoxin_like Rubred 91.3 0.1 2.2E-06 28.8 0.9 25 7-51 2-26 (33)
72 COG5048 FOG: Zn-finger [Genera 90.6 0.023 5E-07 52.6 -3.5 149 5-176 288-444 (467)
73 COG5188 PRP9 Splicing factor 3 89.6 0.8 1.7E-05 39.8 5.3 24 113-136 237-260 (470)
74 COG5048 FOG: Zn-finger [Genera 88.7 0.11 2.4E-06 48.1 -0.5 60 114-181 289-354 (467)
75 TIGR02098 MJ0042_CXXC MJ0042 f 87.7 0.19 4E-06 28.7 0.3 34 7-53 3-36 (38)
76 PF02892 zf-BED: BED zinc fing 87.5 0.29 6.3E-06 29.1 1.0 27 285-311 14-44 (45)
77 KOG2186|consensus 87.2 0.33 7.1E-06 40.1 1.4 53 114-177 3-55 (276)
78 PF12907 zf-met2: Zinc-binding 86.8 0.51 1.1E-05 27.2 1.7 33 288-320 2-37 (40)
79 COG2888 Predicted Zn-ribbon RN 86.1 0.62 1.4E-05 29.1 1.9 33 6-51 27-59 (61)
80 PF09538 FYDLN_acid: Protein o 85.8 0.39 8.5E-06 34.7 1.1 30 115-163 10-39 (108)
81 PF04959 ARS2: Arsenite-resist 85.7 0.25 5.4E-06 40.5 0.1 28 284-311 74-101 (214)
82 KOG0717|consensus 85.1 1.5 3.3E-05 39.8 4.6 30 288-317 461-491 (508)
83 TIGR00622 ssl1 transcription f 85.1 0.85 1.8E-05 33.0 2.5 23 40-62 13-35 (112)
84 KOG4124|consensus 83.9 0.43 9.4E-06 41.3 0.7 63 112-178 176-241 (442)
85 smart00531 TFIIE Transcription 83.3 0.68 1.5E-05 35.8 1.5 38 3-52 96-133 (147)
86 PHA00626 hypothetical protein 83.1 0.32 6.9E-06 29.9 -0.3 17 40-56 21-37 (59)
87 PF09986 DUF2225: Uncharacteri 82.8 0.18 3.9E-06 41.7 -1.9 52 4-55 3-61 (214)
88 KOG2071|consensus 82.8 1.3 2.9E-05 41.5 3.4 54 40-93 416-471 (579)
89 PF09538 FYDLN_acid: Protein o 82.5 0.82 1.8E-05 33.1 1.6 15 150-164 9-23 (108)
90 PRK14890 putative Zn-ribbon RN 82.4 0.84 1.8E-05 28.6 1.4 12 40-51 46-57 (59)
91 PF06524 NOA36: NOA36 protein; 82.3 1.7 3.7E-05 36.2 3.5 94 39-173 139-232 (314)
92 PRK00398 rpoP DNA-directed RNA 82.0 0.55 1.2E-05 28.1 0.5 31 5-53 2-32 (46)
93 PF13717 zinc_ribbon_4: zinc-r 81.7 0.53 1.2E-05 26.5 0.3 34 7-53 3-36 (36)
94 TIGR00373 conserved hypothetic 81.6 0.88 1.9E-05 35.6 1.6 34 3-53 106-139 (158)
95 cd00729 rubredoxin_SM Rubredox 81.5 0.77 1.7E-05 25.4 0.9 26 114-159 2-27 (34)
96 COG5188 PRP9 Splicing factor 3 80.8 1.8 3.9E-05 37.7 3.3 28 41-68 237-266 (470)
97 PF13719 zinc_ribbon_5: zinc-r 80.8 0.71 1.5E-05 26.2 0.6 33 7-53 3-36 (37)
98 PF05443 ROS_MUCR: ROS/MUCR tr 80.5 0.55 1.2E-05 35.3 0.1 25 288-315 73-97 (132)
99 COG1996 RPC10 DNA-directed RNA 80.3 0.73 1.6E-05 27.8 0.5 31 3-51 3-33 (49)
100 PF15269 zf-C2H2_7: Zinc-finge 79.6 0.93 2E-05 26.4 0.8 23 287-309 20-42 (54)
101 smart00734 ZnF_Rad18 Rad18-lik 78.9 2 4.3E-05 22.2 1.9 20 7-27 2-21 (26)
102 PRK06266 transcription initiat 78.5 1.2 2.6E-05 35.7 1.5 35 3-54 114-148 (178)
103 smart00659 RPOLCX RNA polymera 78.1 1.2 2.7E-05 26.3 1.1 27 6-51 2-28 (44)
104 smart00614 ZnF_BED BED zinc fi 77.6 0.97 2.1E-05 27.6 0.6 25 288-312 19-48 (50)
105 COG1997 RPL43A Ribosomal prote 77.5 1 2.2E-05 30.7 0.7 32 5-54 34-65 (89)
106 KOG2593|consensus 76.3 2.4 5.1E-05 38.3 2.8 42 107-159 121-162 (436)
107 KOG2186|consensus 76.3 1.6 3.4E-05 36.3 1.6 52 5-67 2-53 (276)
108 PRK00464 nrdR transcriptional 76.0 0.37 8E-06 37.4 -2.0 22 41-62 27-48 (154)
109 KOG4167|consensus 75.6 1.9 4.2E-05 41.4 2.2 28 284-311 789-816 (907)
110 smart00531 TFIIE Transcription 75.4 2.1 4.5E-05 33.2 2.0 36 113-160 98-133 (147)
111 KOG2907|consensus 75.3 1.5 3.2E-05 31.5 1.0 40 7-54 75-114 (116)
112 TIGR02300 FYDLN_acid conserved 74.6 1.6 3.5E-05 32.2 1.1 14 150-163 26-39 (129)
113 smart00834 CxxC_CXXC_SSSS Puta 74.4 0.63 1.4E-05 26.9 -0.9 31 6-51 5-35 (41)
114 PF09723 Zn-ribbon_8: Zinc rib 74.0 0.4 8.7E-06 28.1 -1.8 30 6-50 5-34 (42)
115 PF05443 ROS_MUCR: ROS/MUCR tr 73.2 2 4.3E-05 32.3 1.4 24 113-139 71-94 (132)
116 TIGR00373 conserved hypothetic 72.8 1.9 4E-05 33.8 1.2 31 113-160 108-138 (158)
117 COG1592 Rubrerythrin [Energy p 72.5 2.1 4.5E-05 33.6 1.3 24 114-158 134-157 (166)
118 KOG1280|consensus 72.3 2.9 6.4E-05 36.4 2.3 62 41-134 78-139 (381)
119 PF04959 ARS2: Arsenite-resist 72.2 3.1 6.8E-05 34.2 2.3 31 40-70 75-105 (214)
120 TIGR02605 CxxC_CxxC_SSSS putat 72.2 0.81 1.8E-05 28.1 -0.8 30 6-50 5-34 (52)
121 PF12907 zf-met2: Zinc-binding 71.8 2.8 6.1E-05 24.2 1.4 25 7-31 2-29 (40)
122 PRK06266 transcription initiat 70.4 3.4 7.3E-05 33.1 2.1 31 113-160 116-146 (178)
123 TIGR02300 FYDLN_acid conserved 70.0 3 6.4E-05 30.9 1.6 9 116-124 28-36 (129)
124 PF10571 UPF0547: Uncharacteri 67.9 2.5 5.4E-05 21.8 0.6 10 8-17 16-25 (26)
125 PF15269 zf-C2H2_7: Zinc-finge 67.7 7.1 0.00015 22.8 2.5 26 40-65 18-43 (54)
126 KOG2071|consensus 67.0 7.2 0.00016 36.9 3.8 33 148-180 416-448 (579)
127 PF14353 CpXC: CpXC protein 66.5 4.5 9.8E-05 30.4 2.1 50 7-65 2-61 (128)
128 PTZ00255 60S ribosomal protein 66.5 1.8 3.8E-05 30.0 -0.1 14 40-53 52-65 (90)
129 PF01780 Ribosomal_L37ae: Ribo 66.2 1.1 2.3E-05 31.1 -1.2 31 5-53 34-64 (90)
130 TIGR00280 L37a ribosomal prote 65.3 1.8 4E-05 30.0 -0.2 14 40-53 51-64 (91)
131 PF03604 DNA_RNApol_7kD: DNA d 65.3 3.4 7.4E-05 22.5 0.8 26 7-51 1-26 (32)
132 COG5151 SSL1 RNA polymerase II 65.1 9.6 0.00021 32.8 3.8 26 148-173 386-411 (421)
133 KOG2807|consensus 63.0 11 0.00024 32.8 3.9 26 148-173 343-368 (378)
134 KOG3408|consensus 62.1 4.7 0.0001 29.4 1.3 22 42-63 57-78 (129)
135 COG3364 Zn-ribbon containing p 60.8 5.2 0.00011 28.2 1.3 17 5-21 1-17 (112)
136 COG1998 RPS31 Ribosomal protei 59.5 5.6 0.00012 23.9 1.1 25 8-51 21-46 (51)
137 KOG3408|consensus 59.1 7.4 0.00016 28.4 1.9 28 283-310 53-80 (129)
138 KOG2593|consensus 59.0 4 8.6E-05 36.9 0.6 37 4-51 126-162 (436)
139 PRK09678 DNA-binding transcrip 58.7 2.4 5.3E-05 28.1 -0.6 41 7-57 2-44 (72)
140 PRK03976 rpl37ae 50S ribosomal 58.4 2.7 5.9E-05 29.1 -0.4 14 40-53 52-65 (90)
141 COG4957 Predicted transcriptio 55.8 4.9 0.00011 29.9 0.6 22 115-139 77-98 (148)
142 PRK00432 30S ribosomal protein 54.8 6.8 0.00015 23.9 1.0 13 41-53 36-48 (50)
143 KOG4124|consensus 54.7 2 4.3E-05 37.4 -1.8 61 112-172 347-420 (442)
144 PF04780 DUF629: Protein of un 54.7 9.6 0.00021 35.4 2.3 45 288-332 58-105 (466)
145 KOG1280|consensus 54.4 11 0.00024 33.1 2.5 40 113-158 78-117 (381)
146 PF05290 Baculo_IE-1: Baculovi 54.2 11 0.00024 28.2 2.1 14 4-17 78-91 (140)
147 PF06220 zf-U1: U1 zinc finger 53.5 8.6 0.00019 21.9 1.2 24 286-309 2-27 (38)
148 COG0068 HypF Hydrogenase matur 53.0 1.6 3.5E-05 42.1 -2.9 57 44-122 125-181 (750)
149 PRK03824 hypA hydrogenase nick 52.4 4.2 9.1E-05 30.9 -0.3 15 5-19 69-83 (135)
150 COG4530 Uncharacterized protei 52.3 6.5 0.00014 28.1 0.7 12 113-124 25-36 (129)
151 COG4306 Uncharacterized protei 51.4 4.5 9.7E-05 29.6 -0.2 44 7-57 40-83 (160)
152 PF13451 zf-trcl: Probable zin 51.2 11 0.00024 22.8 1.5 39 4-49 2-40 (49)
153 COG4957 Predicted transcriptio 50.7 9.8 0.00021 28.4 1.4 22 7-31 77-98 (148)
154 PF13878 zf-C2H2_3: zinc-finge 50.7 14 0.00031 21.4 1.9 25 42-66 13-39 (41)
155 PF07754 DUF1610: Domain of un 50.5 6.7 0.00015 19.8 0.4 10 5-14 15-24 (24)
156 KOG4167|consensus 50.3 5.4 0.00012 38.6 0.0 27 113-139 791-817 (907)
157 COG1773 Rubredoxin [Energy pro 47.0 8.3 0.00018 24.0 0.5 13 5-17 2-14 (55)
158 TIGR01206 lysW lysine biosynth 46.6 5 0.00011 24.9 -0.5 31 6-52 2-32 (54)
159 KOG4118|consensus 46.3 13 0.00028 23.8 1.3 28 288-315 39-66 (74)
160 PF13821 DUF4187: Domain of un 44.3 26 0.00057 21.9 2.4 30 20-61 17-46 (55)
161 KOG2636|consensus 43.0 9.3 0.0002 34.7 0.4 23 287-309 401-424 (497)
162 COG3357 Predicted transcriptio 42.9 11 0.00023 26.0 0.6 15 4-18 56-70 (97)
163 PF02176 zf-TRAF: TRAF-type zi 42.1 7.5 0.00016 24.5 -0.2 42 4-54 7-54 (60)
164 PF04780 DUF629: Protein of un 41.4 19 0.00041 33.5 2.1 29 113-141 56-84 (466)
165 PRK04023 DNA polymerase II lar 40.8 20 0.00043 36.5 2.2 12 40-51 624-635 (1121)
166 KOG1842|consensus 39.3 19 0.00042 32.8 1.8 44 288-331 16-59 (505)
167 smart00154 ZnF_AN1 AN1-like Zi 39.3 14 0.00029 21.2 0.6 14 6-19 12-25 (39)
168 COG1571 Predicted DNA-binding 38.6 19 0.00042 32.9 1.7 31 8-57 352-382 (421)
169 KOG0717|consensus 38.4 13 0.00029 34.1 0.6 23 288-310 293-315 (508)
170 COG1655 Uncharacterized protei 37.8 6.1 0.00013 32.5 -1.4 48 4-51 17-71 (267)
171 KOG1994|consensus 37.6 12 0.00025 30.7 0.2 21 287-307 239-259 (268)
172 COG1656 Uncharacterized conser 37.5 23 0.00051 27.7 1.8 42 7-58 98-146 (165)
173 KOG3792|consensus 37.4 33 0.00073 33.4 3.1 58 115-172 194-257 (816)
174 KOG4727|consensus 36.8 13 0.00029 28.9 0.4 23 288-310 76-98 (193)
175 COG5112 UFD2 U1-like Zn-finger 36.1 33 0.00071 24.4 2.1 28 283-310 51-78 (126)
176 KOG3214|consensus 35.9 8.6 0.00019 27.0 -0.7 40 5-56 22-61 (109)
177 COG4888 Uncharacterized Zn rib 35.9 2.8 6.2E-05 29.4 -3.0 38 112-161 20-57 (104)
178 PRK14873 primosome assembly pr 35.8 19 0.00041 35.5 1.3 11 113-123 421-431 (665)
179 PTZ00448 hypothetical protein; 35.4 19 0.00042 32.1 1.2 25 287-311 314-338 (373)
180 KOG1842|consensus 34.4 26 0.00056 32.0 1.8 28 113-140 14-41 (505)
181 PF09845 DUF2072: Zn-ribbon co 33.9 19 0.00042 26.9 0.8 14 43-56 2-15 (131)
182 PF08274 PhnA_Zn_Ribbon: PhnA 33.4 16 0.00035 19.6 0.2 12 148-159 17-28 (30)
183 PF08209 Sgf11: Sgf11 (transcr 32.9 45 0.00097 18.3 1.9 26 5-31 3-28 (33)
184 PF14205 Cys_rich_KTR: Cystein 32.8 9 0.00019 23.6 -0.9 36 4-51 2-37 (55)
185 COG5112 UFD2 U1-like Zn-finger 32.2 21 0.00045 25.4 0.7 23 113-135 54-76 (126)
186 PF00301 Rubredoxin: Rubredoxi 32.1 18 0.00038 21.8 0.3 11 7-17 2-12 (47)
187 TIGR00416 sms DNA repair prote 32.1 17 0.00037 34.0 0.4 28 5-54 6-33 (454)
188 PRK12380 hydrogenase nickel in 31.9 19 0.00042 26.3 0.5 12 6-17 70-81 (113)
189 PF13824 zf-Mss51: Zinc-finger 31.9 32 0.0007 21.4 1.4 16 40-55 12-27 (55)
190 PF04988 AKAP95: A-kinase anch 31.7 29 0.00062 27.0 1.4 22 151-172 1-22 (165)
191 KOG2807|consensus 31.6 72 0.0016 28.0 3.9 63 4-66 288-369 (378)
192 KOG0402|consensus 30.9 18 0.00039 24.4 0.2 31 113-161 35-65 (92)
193 PF08790 zf-LYAR: LYAR-type C2 30.8 8.2 0.00018 20.3 -1.1 20 7-27 1-20 (28)
194 PF04423 Rad50_zn_hook: Rad50 30.7 18 0.00039 22.3 0.2 14 152-165 22-35 (54)
195 PF01428 zf-AN1: AN1-like Zinc 30.6 17 0.00036 21.3 0.0 16 5-20 12-27 (43)
196 cd00730 rubredoxin Rubredoxin; 30.5 22 0.00047 21.7 0.5 12 7-18 2-13 (50)
197 PF04606 Ogr_Delta: Ogr/Delta- 30.3 6.8 0.00015 23.5 -1.8 37 8-54 1-39 (47)
198 COG2331 Uncharacterized protei 30.1 26 0.00056 23.3 0.8 9 7-15 13-21 (82)
199 COG1198 PriA Primosomal protei 29.9 9 0.00019 37.9 -1.9 38 114-159 444-484 (730)
200 COG1571 Predicted DNA-binding 29.9 19 0.00041 32.9 0.2 31 116-165 352-382 (421)
201 PRK11823 DNA repair protein Ra 29.0 25 0.00055 32.8 0.9 28 4-53 5-32 (446)
202 PRK00762 hypA hydrogenase nick 28.6 24 0.00052 26.3 0.6 13 6-19 70-82 (124)
203 smart00586 ZnF_DBF Zinc finger 27.6 56 0.0012 19.9 1.9 22 286-310 4-25 (49)
204 cd01121 Sms Sms (bacterial rad 27.1 23 0.0005 32.2 0.3 24 7-52 1-24 (372)
205 PRK14714 DNA polymerase II lar 26.9 47 0.001 35.0 2.3 7 116-122 711-717 (1337)
206 KOG1994|consensus 26.8 32 0.00069 28.3 1.0 21 113-133 238-258 (268)
207 PF01927 Mut7-C: Mut7-C RNAse 26.7 24 0.00051 27.3 0.2 49 6-57 91-139 (147)
208 PF07975 C1_4: TFIIH C1-like d 26.3 22 0.00048 21.8 0.0 25 41-65 20-44 (51)
209 PF07282 OrfB_Zn_ribbon: Putat 25.8 41 0.00088 21.8 1.2 16 40-55 44-59 (69)
210 TIGR00100 hypA hydrogenase nic 25.8 26 0.00056 25.8 0.3 11 7-17 71-81 (115)
211 PF04810 zf-Sec23_Sec24: Sec23 25.1 7.7 0.00017 22.3 -2.1 12 40-51 22-33 (40)
212 KOG4727|consensus 25.0 55 0.0012 25.7 1.9 28 36-63 69-96 (193)
213 PRK05452 anaerobic nitric oxid 24.7 44 0.00095 31.6 1.7 16 3-18 422-437 (479)
214 PF06397 Desulfoferrod_N: Desu 24.3 25 0.00053 19.8 -0.0 13 4-16 4-16 (36)
215 PF10276 zf-CHCC: Zinc-finger 24.2 28 0.00061 20.1 0.2 12 41-52 28-39 (40)
216 COG1675 TFA1 Transcription ini 24.0 47 0.001 26.5 1.4 31 4-51 111-141 (176)
217 KOG2636|consensus 23.4 56 0.0012 30.0 1.9 21 42-62 401-422 (497)
218 PF08792 A2L_zn_ribbon: A2L zi 23.2 36 0.00077 18.7 0.5 12 6-17 21-32 (33)
219 PTZ00448 hypothetical protein; 22.7 59 0.0013 29.2 1.9 22 6-27 314-335 (373)
220 PLN03238 probable histone acet 22.6 97 0.0021 26.8 3.1 29 3-31 45-73 (290)
221 PF14311 DUF4379: Domain of un 22.3 50 0.0011 20.4 1.1 18 41-58 27-44 (55)
222 PF10013 DUF2256: Uncharacteri 21.9 53 0.0012 19.1 1.0 17 151-167 9-25 (42)
223 PTZ00303 phosphatidylinositol 21.4 28 0.0006 34.4 -0.3 33 79-127 462-494 (1374)
224 COG1594 RPB9 DNA-directed RNA 21.2 16 0.00035 26.7 -1.5 40 7-54 73-112 (113)
225 PF01363 FYVE: FYVE zinc finge 21.2 32 0.00069 22.3 0.0 13 113-125 24-36 (69)
226 COG5152 Uncharacterized conser 21.0 52 0.0011 26.5 1.1 22 280-301 188-210 (259)
227 COG2879 Uncharacterized small 21.0 96 0.0021 19.9 2.1 22 298-319 23-44 (65)
228 PF11672 DUF3268: Protein of u 20.5 26 0.00057 25.1 -0.5 40 5-51 1-40 (102)
229 KOG4317|consensus 20.4 24 0.00052 30.6 -0.9 24 40-63 17-40 (383)
230 KOG2295|consensus 20.4 71 0.0015 30.2 2.0 28 284-311 506-535 (648)
231 PF09332 Mcm10: Mcm10 replicat 20.3 9.6 0.00021 33.9 -3.4 48 113-166 251-301 (344)
No 1
>KOG2462|consensus
Probab=99.92 E-value=1.2e-25 Score=181.92 Aligned_cols=113 Identities=35% Similarity=0.746 Sum_probs=94.8
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLA 83 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c 83 (348)
.-.|+|+.|++.+.+..+|.+|.++|..++ ..+.+.|.+|++.|.+...|..|+++|.-
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~-----s~ka~~C~~C~K~YvSmpALkMHirTH~l---------------- 186 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLD-----SKKAFSCKYCGKVYVSMPALKMHIRTHTL---------------- 186 (279)
T ss_pred CCceeccccccccccccccchhhccccccc-----ccccccCCCCCceeeehHHHhhHhhccCC----------------
Confidence 346899999999999999999988887766 36789999999999999999999999963
Q ss_pred cccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCH
Q psy4065 84 EEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRR 163 (348)
Q Consensus 84 ~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~ 163 (348)
+++|.+||+.|...+-|+-|+++|.+ ++||.|+.|++.|..+
T Consensus 187 ------------------------------~c~C~iCGKaFSRPWLLQGHiRTHTG--------EKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 187 ------------------------------PCECGICGKAFSRPWLLQGHIRTHTG--------EKPFSCPHCGKAFADR 228 (279)
T ss_pred ------------------------------CcccccccccccchHHhhcccccccC--------CCCccCCcccchhcch
Confidence 46788888888888888888877776 7888888888888888
Q ss_pred HHHHHHHHHhhh
Q psy4065 164 EHLRRHQQIHAR 175 (348)
Q Consensus 164 ~~L~~H~~~h~~ 175 (348)
.+|+.||++|.+
T Consensus 229 SNLRAHmQTHS~ 240 (279)
T KOG2462|consen 229 SNLRAHMQTHSD 240 (279)
T ss_pred HHHHHHHHhhcC
Confidence 888888888744
No 2
>KOG1074|consensus
Probab=99.90 E-value=6.7e-25 Score=200.65 Aligned_cols=56 Identities=29% Similarity=0.650 Sum_probs=52.9
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhh
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAREL 69 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 69 (348)
+++|.+|.++|.....|..|++.|.+ +++|+|.+||..|.++.+|+.|...|+...
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 57899999999999999999999998 999999999999999999999999998664
No 3
>KOG2462|consensus
Probab=99.87 E-value=5.4e-23 Score=166.59 Aligned_cols=109 Identities=30% Similarity=0.679 Sum_probs=102.7
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhccc
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGL 82 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~ 82 (348)
..+-+.|+.|+++|.+...|+.|+++|. -+++|.+||+.|.+.+.|+-|+|+|.||
T Consensus 158 s~ka~~C~~C~K~YvSmpALkMHirTH~----------l~c~C~iCGKaFSRPWLLQGHiRTHTGE-------------- 213 (279)
T KOG2462|consen 158 SKKAFSCKYCGKVYVSMPALKMHIRTHT----------LPCECGICGKAFSRPWLLQGHIRTHTGE-------------- 213 (279)
T ss_pred ccccccCCCCCceeeehHHHhhHhhccC----------CCcccccccccccchHHhhcccccccCC--------------
Confidence 3678999999999999999999999884 5899999999999999999999999999
Q ss_pred ccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCC
Q psy4065 83 AEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 162 (348)
Q Consensus 83 c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 162 (348)
|||.|+.|++.|.++++|+.||++|-+ .+.|.|..|+++|..
T Consensus 214 ------------------------------KPF~C~hC~kAFADRSNLRAHmQTHS~--------~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 214 ------------------------------KPFSCPHCGKAFADRSNLRAHMQTHSD--------VKKHQCPRCGKSFAL 255 (279)
T ss_pred ------------------------------CCccCCcccchhcchHHHHHHHHhhcC--------CccccCcchhhHHHH
Confidence 999999999999999999999999987 789999999999999
Q ss_pred HHHHHHHHHHh
Q psy4065 163 REHLRRHQQIH 173 (348)
Q Consensus 163 ~~~L~~H~~~h 173 (348)
..-|.+|....
T Consensus 256 ~SyLnKH~ES~ 266 (279)
T KOG2462|consen 256 KSYLNKHSESA 266 (279)
T ss_pred HHHHHHhhhhc
Confidence 99999998664
No 4
>KOG3608|consensus
Probab=99.87 E-value=3.2e-22 Score=166.20 Aligned_cols=134 Identities=25% Similarity=0.456 Sum_probs=78.8
Q ss_pred cccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCC
Q psy4065 10 DVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPT 89 (348)
Q Consensus 10 ~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~ 89 (348)
..|.+.|.+++.|++|++.|.+ ++...|+.||..|.++..|-.|++.-.. .+...+.|..|.+.|.+
T Consensus 183 ~~Ct~~~~~k~~LreH~r~Hs~--------eKvvACp~Cg~~F~~~tkl~DH~rRqt~-----l~~n~fqC~~C~KrFaT 249 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHIRTHSN--------EKVVACPHCGELFRTKTKLFDHLRRQTE-----LNTNSFQCAQCFKRFAT 249 (467)
T ss_pred hhhhhhhccHHHHHHHHHhcCC--------CeEEecchHHHHhccccHHHHHHHhhhh-----hcCCchHHHHHHHHHhH
Confidence 3466666666666666555543 5566666666666666666666653322 22234555566666666
Q ss_pred cchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHH
Q psy4065 90 PLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRH 169 (348)
Q Consensus 90 ~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H 169 (348)
...|..|+..+.. -|+|+.|+.+....++|..||+..|. ..+||+|..|++.|.+...|.+|
T Consensus 250 eklL~~Hv~rHvn-----------~ykCplCdmtc~~~ssL~~H~r~rHs-------~dkpfKCd~Cd~~c~~esdL~kH 311 (467)
T KOG3608|consen 250 EKLLKSHVVRHVN-----------CYKCPLCDMTCSSASSLTTHIRYRHS-------KDKPFKCDECDTRCVRESDLAKH 311 (467)
T ss_pred HHHHHHHHHHhhh-----------cccccccccCCCChHHHHHHHHhhhc-------cCCCccccchhhhhccHHHHHHH
Confidence 6666666555444 25666666666666666666666555 35666666666666666666666
Q ss_pred HHHhh
Q psy4065 170 QQIHA 174 (348)
Q Consensus 170 ~~~h~ 174 (348)
+..|.
T Consensus 312 ~~~HS 316 (467)
T KOG3608|consen 312 VQVHS 316 (467)
T ss_pred HHhcc
Confidence 66554
No 5
>KOG3608|consensus
Probab=99.82 E-value=3.7e-20 Score=154.06 Aligned_cols=143 Identities=23% Similarity=0.446 Sum_probs=130.1
Q ss_pred CCCCCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhc
Q psy4065 1 IDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALT 80 (348)
Q Consensus 1 ~~~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ 80 (348)
|.++|...|+.|+.-|+++..|..|++.-...+ ..+|+|..|.+.|.+...|..|+..|-.. ++|
T Consensus 202 Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~------~n~fqC~~C~KrFaTeklL~~Hv~rHvn~---------ykC 266 (467)
T KOG3608|consen 202 HSNEKVVACPHCGELFRTKTKLFDHLRRQTELN------TNSFQCAQCFKRFATEKLLKSHVVRHVNC---------YKC 266 (467)
T ss_pred cCCCeEEecchHHHHhccccHHHHHHHhhhhhc------CCchHHHHHHHHHhHHHHHHHHHHHhhhc---------ccc
Confidence 788999999999999999999999999887633 56899999999999999999999998764 778
Q ss_pred ccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccc--ccc
Q psy4065 81 GLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSV--CGK 158 (348)
Q Consensus 81 ~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~--C~~ 158 (348)
+.|+..-+...+|.+|++-.|... +||+|..|++.|.+.+.|.+|.+.|. +..|.|.. |-+
T Consensus 267 plCdmtc~~~ssL~~H~r~rHs~d--------kpfKCd~Cd~~c~~esdL~kH~~~HS---------~~~y~C~h~~C~~ 329 (467)
T KOG3608|consen 267 PLCDMTCSSASSLTTHIRYRHSKD--------KPFKCDECDTRCVRESDLAKHVQVHS---------KTVYQCEHPDCHY 329 (467)
T ss_pred cccccCCCChHHHHHHHHhhhccC--------CCccccchhhhhccHHHHHHHHHhcc---------ccceecCCCCCcH
Confidence 999999999999999999888764 89999999999999999999998664 47899999 999
Q ss_pred ccCCHHHHHHHHHHhhh
Q psy4065 159 TFTRREHLRRHQQIHAR 175 (348)
Q Consensus 159 ~f~~~~~L~~H~~~h~~ 175 (348)
+|.+...|++|++.++.
T Consensus 330 s~r~~~q~~~H~~evhE 346 (467)
T KOG3608|consen 330 SVRTYTQMRRHFLEVHE 346 (467)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 99999999999987653
No 6
>KOG3623|consensus
Probab=99.72 E-value=3e-18 Score=154.99 Aligned_cols=91 Identities=23% Similarity=0.401 Sum_probs=74.3
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCC-----CCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchh
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDP-----PEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSA 78 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~-----~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~ 78 (348)
+-.|-|..|.++|..+..|.+|+..|-.-.. ..+...+.|+|+.||++|+.+.+|..|+|.|.|++++.|.
T Consensus 238 e~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCp---- 313 (1007)
T KOG3623|consen 238 EPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECP---- 313 (1007)
T ss_pred CCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCc----
Confidence 4568899999999999999999777754222 2345567899999999999999999999999999887765
Q ss_pred hcccccccCCCcchhhhhhhhhh
Q psy4065 79 LTGLAEEVFPTPLRLDENVRRWV 101 (348)
Q Consensus 79 ~~~~c~~~~~~~~~l~~h~~~~~ 101 (348)
.|.+.|+....+..||.++.
T Consensus 314 ---nCkKRFSHSGSySSHmSSKK 333 (1007)
T KOG3623|consen 314 ---NCKKRFSHSGSYSSHMSSKK 333 (1007)
T ss_pred ---ccccccccCCcccccccccc
Confidence 88888888888888877543
No 7
>KOG3576|consensus
Probab=99.72 E-value=7.6e-19 Score=135.27 Aligned_cols=122 Identities=32% Similarity=0.611 Sum_probs=107.4
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLA 83 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c 83 (348)
+-.|.|.+|++.|.....|.+|++-|.. .+.|.|..||+.|....+|.+|+++|.+.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~--------vkr~lct~cgkgfndtfdlkrh~rthtgv--------------- 171 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSD--------VKRHLCTFCGKGFNDTFDLKRHTRTHTGV--------------- 171 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccH--------HHHHHHhhccCcccchhhhhhhhccccCc---------------
Confidence 3468999999999999999999877765 88999999999999999999999999997
Q ss_pred cccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCC---CCCCCCCcccccccccc
Q psy4065 84 EEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPP---EGAEAKPFSCSVCGKTF 160 (348)
Q Consensus 84 ~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~---~~~~~~~~~C~~C~~~f 160 (348)
+||+|..|++.|..+-.|+.|++..|+++.. .....+.|.|..||+.-
T Consensus 172 -----------------------------rpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~ 222 (267)
T KOG3576|consen 172 -----------------------------RPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTS 222 (267)
T ss_pred -----------------------------cccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCC
Confidence 8999999999999999999999999986432 11245789999999999
Q ss_pred CCHHHHHHHHHHhhhhc
Q psy4065 161 TRREHLRRHQQIHAREL 177 (348)
Q Consensus 161 ~~~~~L~~H~~~h~~~~ 177 (348)
.....+..|+..|+.-.
T Consensus 223 ~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 223 ERPEVYYLHLKLHHPFS 239 (267)
T ss_pred CChhHHHHHHHhcCCCC
Confidence 99999999999987753
No 8
>KOG1074|consensus
Probab=99.68 E-value=8.6e-18 Score=154.55 Aligned_cols=56 Identities=30% Similarity=0.584 Sum_probs=52.3
Q ss_pred cccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhcc
Q psy4065 115 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELL 178 (348)
Q Consensus 115 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 178 (348)
..|..|++.|.+...|+.||++|.+ .+||.|.+|++.|..+..|+.||.+|+....
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg--------~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~ 935 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTG--------PKPFFCHFCEEAFTTRGNLKVHMGTHMWVQP 935 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCC--------CCCccchhhhhhhhhhhhhhhhhccccccCC
Confidence 6799999999999999999988887 8999999999999999999999999987643
No 9
>KOG3576|consensus
Probab=99.68 E-value=1.3e-17 Score=128.51 Aligned_cols=88 Identities=32% Similarity=0.682 Sum_probs=80.6
Q ss_pred CCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcc
Q psy4065 37 GAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQ 116 (348)
Q Consensus 37 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~ 116 (348)
+.....|.|.+|++.|.-...|.+|++-|... +++-
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~kch~~v--------------------------------------------kr~l 147 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDV--------------------------------------------KRHL 147 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhhhccHH--------------------------------------------HHHH
Confidence 34456799999999999999999999999887 7899
Q ss_pred cCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhh
Q psy4065 117 CDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARE 176 (348)
Q Consensus 117 C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 176 (348)
|..||+.|.+.-.|.+|+++|.+ .+||+|.+|++.|...-+|..|++.-|+.
T Consensus 148 ct~cgkgfndtfdlkrh~rthtg--------vrpykc~~c~kaftqrcsleshl~kvhgv 199 (267)
T KOG3576|consen 148 CTFCGKGFNDTFDLKRHTRTHTG--------VRPYKCSLCEKAFTQRCSLESHLKKVHGV 199 (267)
T ss_pred HhhccCcccchhhhhhhhccccC--------ccccchhhhhHHHHhhccHHHHHHHHcCc
Confidence 99999999999999999999987 89999999999999999999999776664
No 10
>KOG3623|consensus
Probab=99.53 E-value=2.2e-15 Score=136.69 Aligned_cols=122 Identities=31% Similarity=0.603 Sum_probs=102.6
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEE 85 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~ 85 (348)
...|+.|.+.+.+...|+.|++.-|.. .+..|.|.+|.++|.+...|.+||.+|.......
T Consensus 210 lltcpycdrgykrltslkeHikyrhek------ne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa------------- 270 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEK------NEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA------------- 270 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhh------CCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc-------------
Confidence 568999999999999999999999872 2456899999999999999999999997643221
Q ss_pred cCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHH
Q psy4065 86 VFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREH 165 (348)
Q Consensus 86 ~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~ 165 (348)
+........+.|+|.+|+++|+.+..|..|++.|.+ ++||.|+-|.++|+...+
T Consensus 271 ------------------~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSG--------EKPfeCpnCkKRFSHSGS 324 (1007)
T KOG3623|consen 271 ------------------ISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSG--------EKPFECPNCKKRFSHSGS 324 (1007)
T ss_pred ------------------ccccchhhhccccccccchhhhhHHHHHhhheeecC--------CCCcCCcccccccccCCc
Confidence 111112222679999999999999999999988887 999999999999999999
Q ss_pred HHHHHHH
Q psy4065 166 LRRHQQI 172 (348)
Q Consensus 166 L~~H~~~ 172 (348)
+-.||..
T Consensus 325 ySSHmSS 331 (1007)
T KOG3623|consen 325 YSSHMSS 331 (1007)
T ss_pred ccccccc
Confidence 9999854
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.09 E-value=9e-11 Score=107.69 Aligned_cols=106 Identities=20% Similarity=0.509 Sum_probs=62.7
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccc--cccccCCHHHHHHHHHHhhhhhhhccccchhhccccc
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSV--CGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAE 84 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~ 84 (348)
-+|+.|.... ....|..|.... . -..-.|+. |+..| ....+..|+ .|..|+
T Consensus 408 V~C~NC~~~i-~l~~l~lHe~~C-~--------r~~V~Cp~~~Cg~v~-~r~el~~H~----------------~C~~Cg 460 (567)
T PLN03086 408 VECRNCKHYI-PSRSIALHEAYC-S--------RHNVVCPHDGCGIVL-RVEEAKNHV----------------HCEKCG 460 (567)
T ss_pred EECCCCCCcc-chhHHHHHHhhC-C--------CcceeCCccccccee-eccccccCc----------------cCCCCC
Confidence 3699998854 466777885443 2 23345664 66666 233344443 244555
Q ss_pred ccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccC
Q psy4065 85 EVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 161 (348)
Q Consensus 85 ~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 161 (348)
..|. ...|..|+..+| +++.|+ |++.+ .+..|..|+..|++ .+++.|..|++.|.
T Consensus 461 k~f~-~s~LekH~~~~H-----------kpv~Cp-Cg~~~-~R~~L~~H~~thCp--------~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 461 QAFQ-QGEMEKHMKVFH-----------EPLQCP-CGVVL-EKEQMVQHQASTCP--------LRLITCRFCGDMVQ 515 (567)
T ss_pred Cccc-hHHHHHHHHhcC-----------CCccCC-CCCCc-chhHHHhhhhccCC--------CCceeCCCCCCccc
Confidence 5553 344555543322 357777 77644 45777777766666 67777887877774
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.08 E-value=2e-10 Score=105.41 Aligned_cols=53 Identities=19% Similarity=0.431 Sum_probs=41.6
Q ss_pred cCcccCcchhhcC----------CHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 113 RPFQCDVCNQGFV----------RKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 175 (348)
Q Consensus 113 ~~~~C~~C~~~f~----------~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 175 (348)
+++.|.+|++.|. ....|..|... ++ .+++.|..|++.+.. ..|..|+-..|.
T Consensus 503 Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG--------~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~ 565 (567)
T PLN03086 503 RLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI-CG--------SRTAPCDSCGRSVML-KEMDIHQIAVHQ 565 (567)
T ss_pred CceeCCCCCCccccCccccchhhhhhhHHHHHHh-cC--------CcceEccccCCeeee-hhHHHHHHHhhc
Confidence 8899999999985 24589999855 56 789999999988854 567788755443
No 13
>KOG3993|consensus
Probab=99.08 E-value=2.2e-10 Score=98.64 Aligned_cols=92 Identities=28% Similarity=0.556 Sum_probs=69.6
Q ss_pred hhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCC------------
Q psy4065 77 SALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPE------------ 144 (348)
Q Consensus 77 ~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~------------ 144 (348)
.+.|.+|...|.+.+.|..|. ..++.. -.|+|++|++.|+-..+|..|.++|-......
T Consensus 267 dyiCqLCK~kYeD~F~LAQHr-----C~RIV~----vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~ 337 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHR-----CPRIVH----VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVE 337 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhcc-----CCeeEE----eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhh
Confidence 566888888888888888872 122222 34899999999999999999998887542211
Q ss_pred -------------CCCCCCccccccccccCCHHHHHHHHHHhhhhc
Q psy4065 145 -------------GAEAKPFSCSVCGKTFTRREHLRRHQQIHAREL 177 (348)
Q Consensus 145 -------------~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~ 177 (348)
+....-|.|..|++.|.+..-|+.|+.+|+...
T Consensus 338 ~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 338 TRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 123457999999999999999999998887653
No 14
>PHA00733 hypothetical protein
Probab=99.02 E-value=4.3e-10 Score=84.25 Aligned_cols=86 Identities=21% Similarity=0.347 Sum_probs=63.4
Q ss_pred CCCCccccccccccCCHHHHHHHH--HHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcc
Q psy4065 39 EAKPFSCSVCGKTFTRREHLRRHQ--QIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQ 116 (348)
Q Consensus 39 ~~~~~~C~~C~~~f~~~~~l~~H~--~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~ 116 (348)
+.+++.|.+|...|.....|..|. ..+... ...++|.
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~-----------------------------------------~~~kPy~ 75 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTS-----------------------------------------KAVSPYV 75 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhccc-----------------------------------------CCCCCcc
Confidence 367888999988888877777663 222110 0116888
Q ss_pred cCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 117 CDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 175 (348)
Q Consensus 117 C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 175 (348)
|..|++.|.+...|..|++.+ . .+|.|..|++.|.....|..|+...|+
T Consensus 76 C~~Cgk~Fss~s~L~~H~r~h-~---------~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 76 CPLCLMPFSSSVSLKQHIRYT-E---------HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCCcCCCHHHHHHHHhcC-C---------cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 999999999999999888654 3 248899999999999999988876554
No 15
>KOG3993|consensus
Probab=98.90 E-value=2.7e-10 Score=98.06 Aligned_cols=155 Identities=20% Similarity=0.264 Sum_probs=93.9
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCC-------------------------CCCCCCccccccccccCCHHHHHH
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPE-------------------------GAEAKPFSCSVCGKTFTRREHLRR 60 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~-------------------------~~~~~~~~C~~C~~~f~~~~~l~~ 60 (348)
.|+|++|+++|....+|..|.++|-+..... .....-|.|..|++.|++...|+.
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrK 374 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRK 374 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHH
Confidence 5999999999999999999966665433110 022346999999999999999999
Q ss_pred HHHHhhhhhhhccccchhh----------cccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHH
Q psy4065 61 HQQIHARELLQSSMDMSAL----------TGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHL 130 (348)
Q Consensus 61 H~~~h~~~~~~~~~~~~~~----------~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L 130 (348)
|+.+|+.....+.....+. +..+...+.....--.+. +..........|+.|+--+.++..-
T Consensus 375 Hqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~v--------l~~a~sael~~pp~~~~ppsss~~s 446 (500)
T KOG3993|consen 375 HQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEV--------LYVAGSAELELPPYDGSPPSSSGSS 446 (500)
T ss_pred hHHhhhccccchhcccCcchhhcccccccccccccccccccccccce--------eeeeccccccCCCCCCCCcccCCCC
Confidence 9999987543332111111 122222222111111110 0000001223567777666655443
Q ss_pred HHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhh
Q psy4065 131 VRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARE 176 (348)
Q Consensus 131 ~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 176 (348)
..|.+.-+. ...|.|.+|-..|.+..+|.+|+..+|..
T Consensus 447 gg~~rlg~~--------~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 447 GGYGRLGIA--------EQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred Cccccccch--------hhccccccchHhhhcCcchHhHhhhcChH
Confidence 333222221 45799999999999999999999775543
No 16
>PHA00733 hypothetical protein
Probab=98.85 E-value=2.3e-09 Score=80.35 Aligned_cols=85 Identities=18% Similarity=0.346 Sum_probs=72.2
Q ss_pred CCcccccccccccCChHHHHHH--HHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRH--RKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTG 81 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H--~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~ 81 (348)
.+++.|.+|...|.....|..| +..+... ....+|.|+.|++.|.+...|..|++.| .
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~-----~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~------------- 97 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTS-----KAVSPYVCPLCLMPFSSSVSLKQHIRYT--E------------- 97 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhccc-----CCCCCccCCCCCCcCCCHHHHHHHHhcC--C-------------
Confidence 6789999999999999999888 4433211 1368999999999999999999999865 2
Q ss_pred cccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHHHhCC
Q psy4065 82 LAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHD 139 (348)
Q Consensus 82 ~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~ 139 (348)
.+|.|..|++.|.....|.+|+...|+
T Consensus 98 -------------------------------~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 98 -------------------------------HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred -------------------------------cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 458999999999999999999999887
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.68 E-value=8.5e-09 Score=63.29 Aligned_cols=43 Identities=14% Similarity=0.546 Sum_probs=38.6
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHH
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHL 166 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L 166 (348)
.|.|+.||+.|.....|..||+.|. ++|+|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~----------k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN----------TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC----------CcccCCcccceeccccee
Confidence 4899999999999999999998875 489999999999877765
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.62 E-value=1.7e-08 Score=61.92 Aligned_cols=43 Identities=14% Similarity=0.546 Sum_probs=33.5
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHH
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHL 58 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l 58 (348)
-|+|+.||+.|.+...|..|++.|+ ++|+|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~----------k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN----------TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC----------CcccCCcccceeccccee
Confidence 3788888888888888888888774 467888888888766554
No 19
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.47 E-value=3e-07 Score=57.88 Aligned_cols=53 Identities=30% Similarity=0.628 Sum_probs=44.0
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 175 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 175 (348)
.|.|++|++ ..+...|..|....|. ...+.+.|++|...+. ..|..||..+|+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~------~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHR------SESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCc------CCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 489999999 6778999999999887 2356799999998765 499999988663
No 20
>PHA00616 hypothetical protein
Probab=98.43 E-value=2.1e-07 Score=54.28 Aligned_cols=29 Identities=21% Similarity=0.604 Sum_probs=26.8
Q ss_pred CCcchhhHHhhhhhHHHHHHHHHhcCCCC
Q psy4065 287 IPKCDVCKKVFSRRSHLLRHLKRLHNIDP 315 (348)
Q Consensus 287 ~y~C~~C~~~f~~~~~L~~H~~~~H~~~~ 315 (348)
+|+|..||+.|..++.|..|++.||+.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~ 29 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK 29 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc
Confidence 59999999999999999999999998754
No 21
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.41 E-value=4.7e-07 Score=56.97 Aligned_cols=53 Identities=30% Similarity=0.608 Sum_probs=43.3
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 67 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 67 (348)
-|.|++|++ ..+...|..|+...|.. +.+.+.||+|...+. .+|..|+..+|+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~------~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRS------ESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcC------CCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 489999999 56688999999999982 235699999998654 489999988763
No 22
>PHA00616 hypothetical protein
Probab=98.38 E-value=1.8e-07 Score=54.58 Aligned_cols=35 Identities=20% Similarity=0.415 Sum_probs=28.6
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVC 48 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C 48 (348)
||+|+.||+.|..+..|..|++.+|+ ..++.|.+-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg--------~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK--------QNKLTLEYF 35 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC--------CCccceeEE
Confidence 68888888888888888888888887 677777653
No 23
>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=98.29 E-value=5.8e-07 Score=47.02 Aligned_cols=26 Identities=38% Similarity=0.924 Sum_probs=23.1
Q ss_pred HHHHHHHHhCCCCCCCCCCCCCccccccccccCC
Q psy4065 129 HLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 162 (348)
Q Consensus 129 ~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 162 (348)
.|.+||+.|.+ ++||.|++|++.|.+
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 48999999887 899999999999964
No 24
>PHA00732 hypothetical protein
Probab=98.29 E-value=3.5e-07 Score=61.94 Aligned_cols=49 Identities=29% Similarity=0.559 Sum_probs=41.1
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 67 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 67 (348)
||+|..|++.|.+...|..|++.+|. ++.|+.|++.|. .|..|++++..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~----------~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT----------LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC----------CCccCCCCCEeC---ChhhhhcccCC
Confidence 69999999999999999999876553 258999999998 58888866554
No 25
>PHA00732 hypothetical protein
Probab=98.29 E-value=4.5e-07 Score=61.42 Aligned_cols=49 Identities=29% Similarity=0.559 Sum_probs=40.6
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 175 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 175 (348)
||.|..|++.|.+...|..|++.+|. ++.|+.|++.|. .|..|+++...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~----------~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT----------LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC----------CCccCCCCCEeC---ChhhhhcccCC
Confidence 58899999999999999999975554 358999999997 58888865443
No 26
>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=98.07 E-value=3.3e-06 Score=44.13 Aligned_cols=26 Identities=38% Similarity=0.924 Sum_probs=22.4
Q ss_pred HHHHHHHHhcCCCCCCCCCCCCccccccccccCC
Q psy4065 21 HLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 54 (348)
Q Consensus 21 ~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 54 (348)
+|..|++.|.+ +++|+|+.|++.|.+
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 58899998876 899999999999864
No 27
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.03 E-value=1.4e-06 Score=44.78 Aligned_cols=24 Identities=33% Similarity=0.761 Sum_probs=20.9
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhc
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLH 311 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H 311 (348)
|.|++|++.|.+...|+.|++.+|
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 689999999999999999999987
No 28
>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=97.97 E-value=1.9e-06 Score=43.79 Aligned_cols=22 Identities=50% Similarity=0.976 Sum_probs=21.2
Q ss_pred CcchhhHHhhhhhHHHHHHHHH
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKR 309 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~ 309 (348)
|+|++|++.|.++..|..||+.
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 6899999999999999999998
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=97.86 E-value=3.3e-06 Score=44.76 Aligned_cols=26 Identities=35% Similarity=0.478 Sum_probs=24.2
Q ss_pred CCcchhhHHhhhhhHHHHHHHHHhcC
Q psy4065 287 IPKCDVCKKVFSRRSHLLRHLKRLHN 312 (348)
Q Consensus 287 ~y~C~~C~~~f~~~~~L~~H~~~~H~ 312 (348)
+|.|..|++.|.+...|..|++.|++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 58999999999999999999998875
No 30
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.85 E-value=1.2e-05 Score=40.79 Aligned_cols=22 Identities=36% Similarity=1.073 Sum_probs=11.9
Q ss_pred ccccccccccCCHHHHHHHHHH
Q psy4065 151 FSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 151 ~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
|+|+.|++.|.+...|..|++.
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 4455555555555555555544
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.84 E-value=9.9e-06 Score=58.47 Aligned_cols=25 Identities=36% Similarity=0.798 Sum_probs=20.2
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhC
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAH 138 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h 138 (348)
.+.|..|++.|.+...|..||+.++
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCcc
Confidence 5889999999999999999998654
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.83 E-value=1.1e-05 Score=58.29 Aligned_cols=59 Identities=34% Similarity=0.744 Sum_probs=21.9
Q ss_pred cccccccccCChHHHHHHHHHhcCCCCCC--------------CCC-CCCccccccccccCCHHHHHHHHHHhh
Q psy4065 8 QCDVCNQGFVRKEHLVRHRKRAHDLDPPE--------------GAE-AKPFSCSVCGKTFTRREHLRRHQQIHA 66 (348)
Q Consensus 8 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~--------------~~~-~~~~~C~~C~~~f~~~~~l~~H~~~h~ 66 (348)
+|.+|+..|.+...|..|+...|+..... ... ...+.|.+|+..|.+...|..||+.++
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 69999999999999999999999865331 011 125899999999999999999998763
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.82 E-value=4.8e-06 Score=69.64 Aligned_cols=59 Identities=31% Similarity=0.734 Sum_probs=47.9
Q ss_pred cCcccCc--chhhcCCHHHHHHHHHHhCCCC------CC-----CCCCCCCccccccccccCCHHHHHHHHH
Q psy4065 113 RPFQCDV--CNQGFVRKEHLVRHRKRAHDLD------PP-----EGAEAKPFSCSVCGKTFTRREHLRRHQQ 171 (348)
Q Consensus 113 ~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~------~~-----~~~~~~~~~C~~C~~~f~~~~~L~~H~~ 171 (348)
+||+|++ |.+.|++...|..|+.--|.-+ .| .....+||+|++|+++|.+..+|+.|..
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 8999987 9999999999999997655211 11 1224689999999999999999999964
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=97.81 E-value=1.6e-05 Score=40.67 Aligned_cols=24 Identities=38% Similarity=0.854 Sum_probs=12.4
Q ss_pred ccccccccccCChHHHHHHHHHhc
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAH 30 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h 30 (348)
|+|++|++.|.+...|+.|+..+|
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 455555555555555555555543
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.73 E-value=9.9e-06 Score=67.80 Aligned_cols=61 Identities=31% Similarity=0.709 Sum_probs=48.6
Q ss_pred CCCcccccc--cccccCChHHHHHHHHHhcC------CCCCC-----CCCCCCccccccccccCCHHHHHHHHH
Q psy4065 3 VVRPFQCDV--CNQGFVRKEHLVRHRKRAHD------LDPPE-----GAEAKPFSCSVCGKTFTRREHLRRHQQ 63 (348)
Q Consensus 3 ~~~~y~C~~--C~~~f~~~~~l~~H~~~~h~------~~~~~-----~~~~~~~~C~~C~~~f~~~~~l~~H~~ 63 (348)
++|||+|++ |.+.+.+...|++|+.--|. .+.++ .++.+||.|.+|++.|+....|..|..
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 359999987 99999999999999654442 11221 356789999999999999999998864
No 36
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.69 E-value=0.00012 Score=62.29 Aligned_cols=132 Identities=25% Similarity=0.395 Sum_probs=80.8
Q ss_pred ccccc--cccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccccc---ccC------CHHHHHHHHHHhhhhhhhcccc
Q psy4065 7 FQCDV--CNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGK---TFT------RREHLRRHQQIHARELLQSSMD 75 (348)
Q Consensus 7 y~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~---~f~------~~~~l~~H~~~h~~~~~~~~~~ 75 (348)
|.|+. |..+......|..|.+..|. .+.|.+|-. .|. +...|+.|...-..+. ...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~----------~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~---GFK 218 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG----------FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEE---GFK 218 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC----------cEEhHhhhcCcccCccceeeeecccccccccCCcccc---CcC
Confidence 67765 77777778899999998886 445555532 122 2334444443221111 112
Q ss_pred chhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcch-------hhcCCHHHHHHHHHHhCCCCCCCCCCC
Q psy4065 76 MSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCN-------QGFVRKEHLVRHRKRAHDLDPPEGAEA 148 (348)
Q Consensus 76 ~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~-------~~f~~~~~L~~H~~~~h~~~~~~~~~~ 148 (348)
.-..|.+|...|.+-..|..|++..|- .|-+|+ ..|++...|.+|++..
T Consensus 219 GHP~C~FC~~~FYdDDEL~~HcR~~HE-------------~ChICD~v~p~~~QYFK~Y~~Le~HF~~~----------- 274 (493)
T COG5236 219 GHPLCIFCKIYFYDDDELRRHCRLRHE-------------ACHICDMVGPIRYQYFKSYEDLEAHFRNA----------- 274 (493)
T ss_pred CCchhhhccceecChHHHHHHHHhhhh-------------hhhhhhccCccchhhhhCHHHHHHHhhcC-----------
Confidence 223366777777777777777655554 344444 3688889999998533
Q ss_pred CCccccc--cc----cccCCHHHHHHHHHHhhhh
Q psy4065 149 KPFSCSV--CG----KTFTRREHLRRHQQIHARE 176 (348)
Q Consensus 149 ~~~~C~~--C~----~~f~~~~~L~~H~~~h~~~ 176 (348)
-|.|.+ |. ++|.....|..|+..-|+.
T Consensus 275 -hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~ 307 (493)
T COG5236 275 -HYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKV 307 (493)
T ss_pred -ceEEEEEEEecCcEEEeccHHHHHHHHHHHhhc
Confidence 366655 43 4799999999998665554
No 37
>KOG1146|consensus
Probab=97.56 E-value=4.4e-05 Score=75.81 Aligned_cols=152 Identities=17% Similarity=0.227 Sum_probs=87.6
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcCCCC-----------------CCCCCCCCccccccccccCCHHHHHHHHHHh
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDP-----------------PEGAEAKPFSCSVCGKTFTRREHLRRHQQIH 65 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~-----------------~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 65 (348)
..|.|+|+.|+..|.....|-.|++..|.... ......++|.|..|.+.+..+..|..|++..
T Consensus 462 ~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~ 541 (1406)
T KOG1146|consen 462 FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSD 541 (1406)
T ss_pred ccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHH
Confidence 45889999999999999999999998664221 1123356899999999999999999999754
Q ss_pred hhhhhhccccchh----------hcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCHHHHHHHHH
Q psy4065 66 ARELLQSSMDMSA----------LTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRKEHLVRHRK 135 (348)
Q Consensus 66 ~~~~~~~~~~~~~----------~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~ 135 (348)
--........... .+..+...-... ..........+-.|.|..|++...-...|+.||.
T Consensus 542 ~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~-----------~~ags~~pktkP~~~C~vc~yetniarnlrihmt 610 (1406)
T KOG1146|consen 542 LHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLG-----------PSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMT 610 (1406)
T ss_pred hhHHHHHHHHhccccchhhhhhhhcccCcccccCC-----------CCCCCCCCCCCCCcchhhhcchhhhhhccccccc
Confidence 3221100000000 011111100000 0000010122345889999998888888999986
Q ss_pred HhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHH
Q psy4065 136 RAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 136 ~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
..+. -..|-.|--|+-.+.....+..+-+.
T Consensus 611 ss~~-------s~~p~~~Lq~~it~~l~~~~~~~~~l 640 (1406)
T KOG1146|consen 611 ASPS-------SSPPSLVLQQNITSSLASLLGGQGRL 640 (1406)
T ss_pred cCCC-------CCChHHHhhhcchhhccccccCcCCC
Confidence 5444 12224444455455444444444333
No 38
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.54 E-value=4.1e-05 Score=40.45 Aligned_cols=25 Identities=32% Similarity=0.767 Sum_probs=17.4
Q ss_pred cccccccccccCChHHHHHHHHHhc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAH 30 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h 30 (348)
||+|..|++.|.+...|..|++.|+
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 5677777777777777777765554
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.45 E-value=3.8e-05 Score=39.29 Aligned_cols=24 Identities=50% Similarity=0.711 Sum_probs=20.4
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcC
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHN 312 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~ 312 (348)
|+|..|++... ...|..|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999999998 9999999999985
No 40
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.45 E-value=0.00018 Score=61.14 Aligned_cols=114 Identities=19% Similarity=0.262 Sum_probs=68.1
Q ss_pred Cccccc--cccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCc
Q psy4065 42 PFSCSV--CGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDV 119 (348)
Q Consensus 42 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~ 119 (348)
.|.|+. |......-..|..|.+..|+...-...-.....-+|....=+...|..|...-.... +- ..-=.|.+
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~----GF-KGHP~C~F 225 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEE----GF-KGHPLCIF 225 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCcccc----Cc-CCCchhhh
Confidence 488987 777777778899999988775321111001111122222223344444422111110 00 11126999
Q ss_pred chhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccc-------cCCHHHHHHHHHH
Q psy4065 120 CNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT-------FTRREHLRRHQQI 172 (348)
Q Consensus 120 C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~-------f~~~~~L~~H~~~ 172 (348)
|...|-+...|..|++..|. +|.+|+++ |.+...|..|.+.
T Consensus 226 C~~~FYdDDEL~~HcR~~HE------------~ChICD~v~p~~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 226 CKIYFYDDDELRRHCRLRHE------------ACHICDMVGPIRYQYFKSYEDLEAHFRN 273 (493)
T ss_pred ccceecChHHHHHHHHhhhh------------hhhhhhccCccchhhhhCHHHHHHHhhc
Confidence 99999999999999987764 57777764 7888888888754
No 41
>KOG2231|consensus
Probab=97.45 E-value=0.00013 Score=68.60 Aligned_cols=96 Identities=22% Similarity=0.288 Sum_probs=54.3
Q ss_pred CChHHHHHHHHHhcCCCCCCCCCCCCcccccccc---------ccCCHHHHHHHHHHhhh-hhhhccccchhhccccccc
Q psy4065 17 VRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGK---------TFTRREHLRRHQQIHAR-ELLQSSMDMSALTGLAEEV 86 (348)
Q Consensus 17 ~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~---------~f~~~~~l~~H~~~h~~-~~~~~~~~~~~~~~~c~~~ 86 (348)
.+...|+.|+...|. .+.|.+|-. ...+...|.+|++.-.. +... ..-..|..|...
T Consensus 125 ~s~~~Lk~H~~~~H~----------~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~---rGhp~C~~C~~~ 191 (669)
T KOG2231|consen 125 KSVENLKNHMRDQHK----------LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESC---RGHPLCKFCHER 191 (669)
T ss_pred hHHHHHHHHHHHhhh----------hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccc---cCCccchhhhhh
Confidence 377788888766664 455555431 12234556666654333 2111 113446677777
Q ss_pred CCCcchhhhhhhhhhhhhhccCCCcccCcccCcc------hhhcCCHHHHHHHHHHhC
Q psy4065 87 FPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVC------NQGFVRKEHLVRHRKRAH 138 (348)
Q Consensus 87 ~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C------~~~f~~~~~L~~H~~~~h 138 (348)
|-....|..|++..| |.|.+| +-.|.+...|..|.+.+|
T Consensus 192 fld~~el~rH~~~~h-------------~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 192 FLDDDELYRHLRFDH-------------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred hccHHHHHHhhccce-------------eheeecCcccccchhcccchHHHHHhhhcC
Confidence 777777777754333 345455 345666677777776665
No 42
>KOG1146|consensus
Probab=97.30 E-value=0.00015 Score=72.23 Aligned_cols=61 Identities=23% Similarity=0.431 Sum_probs=49.7
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCC-----------------CCCCCCCCccccccccccCCHHHHHHHHHHh
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDP-----------------PEGAEAKPFSCSVCGKTFTRREHLRRHQQIH 173 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~-----------------~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h 173 (348)
+-|+|+.|+..|+....|..||+..|.... .-....++|.|..|.+.+..+..|..|++..
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~ 541 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSD 541 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHH
Confidence 678999999999999999999999653211 0112357899999999999999999999774
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.21 E-value=0.00028 Score=36.03 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=10.5
Q ss_pred ccccccccccCCHHHHHHHHHHhh
Q psy4065 43 FSCSVCGKTFTRREHLRRHQQIHA 66 (348)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~h~ 66 (348)
|+|+.|++... ...|.+|++.+|
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 34555555554 445555555443
No 44
>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=97.13 E-value=0.00049 Score=41.14 Aligned_cols=31 Identities=29% Similarity=0.689 Sum_probs=18.5
Q ss_pred CCCCccccccccccCCHHHHHHHHHHhhhhc
Q psy4065 147 EAKPFSCSVCGKTFTRREHLRRHQQIHAREL 177 (348)
Q Consensus 147 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~ 177 (348)
...|-+|++|+..++...+|++|+.+.|+.+
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 4567777777777777777777777766643
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.10 E-value=0.00029 Score=36.52 Aligned_cols=23 Identities=35% Similarity=0.699 Sum_probs=21.0
Q ss_pred CcchhhHHhhhhhHHHHHHHHHh
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
|.|..|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 67999999999999999999843
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.07 E-value=0.00014 Score=37.57 Aligned_cols=23 Identities=39% Similarity=0.749 Sum_probs=21.3
Q ss_pred CcchhhHHhhhhhHHHHHHHHHh
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
|.|.+|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 67999999999999999999865
No 47
>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=97.02 E-value=0.00055 Score=40.94 Aligned_cols=34 Identities=26% Similarity=0.503 Sum_probs=24.5
Q ss_pred CCCCCCCcchhhHHhhhhhHHHHHHHHHhcCCCC
Q psy4065 282 RPPKPIPKCDVCKKVFSRRSHLLRHLKRLHNIDP 315 (348)
Q Consensus 282 ~~~~~~y~C~~C~~~f~~~~~L~~H~~~~H~~~~ 315 (348)
.....|-.|++|+..+....+|++|+.+.|...+
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3455677899999999999999999999997765
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.80 E-value=0.0011 Score=34.20 Aligned_cols=23 Identities=35% Similarity=0.930 Sum_probs=16.5
Q ss_pred ccccccccccCCHHHHHHHHHHh
Q psy4065 151 FSCSVCGKTFTRREHLRRHQQIH 173 (348)
Q Consensus 151 ~~C~~C~~~f~~~~~L~~H~~~h 173 (348)
|.|..|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 46777777777777777777654
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.80 E-value=0.0007 Score=34.86 Aligned_cols=22 Identities=36% Similarity=0.916 Sum_probs=13.9
Q ss_pred ccccccccccCCHHHHHHHHHH
Q psy4065 151 FSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 151 ~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
|.|.+|+..|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666654
No 50
>KOG2785|consensus
Probab=96.77 E-value=0.0049 Score=53.71 Aligned_cols=37 Identities=19% Similarity=0.252 Sum_probs=31.1
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcCCCCCCCcccCCC
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHNIDPPPSSRNKQV 324 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~~~~p~~~~~~~~ 324 (348)
--|.+|++.|.+...-..||..+|+.--|-..+....
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~ 203 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDE 203 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhch
Confidence 3599999999999999999999999987765554444
No 51
>KOG2482|consensus
Probab=96.58 E-value=0.0017 Score=55.42 Aligned_cols=169 Identities=16% Similarity=0.222 Sum_probs=97.1
Q ss_pred CCccccccccccc-CChHHHHHHHHHhcCCCCCC--------------CCCCCCccccccccccCCHHHHHHHHHHhhhh
Q psy4065 4 VRPFQCDVCNQGF-VRKEHLVRHRKRAHDLDPPE--------------GAEAKPFSCSVCGKTFTRREHLRRHQQIHARE 68 (348)
Q Consensus 4 ~~~y~C~~C~~~f-~~~~~l~~H~~~~h~~~~~~--------------~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 68 (348)
.+--+|-+|+..+ .+++....|+-..|+..... ..+-..+.|-+|.+.|+.+..|+.||+...-.
T Consensus 142 ~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hr 221 (423)
T KOG2482|consen 142 IFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHR 221 (423)
T ss_pred eeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCc
Confidence 3456899999976 48889999998888755331 11224589999999999999999999754321
Q ss_pred --hhhccccc-hhhccc--ccccC-CCcchhhhhhhhhhhh-----hhcc-CCCcccCcccCcchhhcCCHHHHHHHHHH
Q psy4065 69 --LLQSSMDM-SALTGL--AEEVF-PTPLRLDENVRRWVAC-----QRIE-GIDVVRPFQCDVCNQGFVRKEHLVRHRKR 136 (348)
Q Consensus 69 --~~~~~~~~-~~~~~~--c~~~~-~~~~~l~~h~~~~~~~-----~~~~-~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 136 (348)
.|....-- -|..+. -+.+. ........-+..-+.. +--. .+...-...|..|...+.+...|..||..
T Consensus 222 rinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~ 301 (423)
T KOG2482|consen 222 RINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKI 301 (423)
T ss_pred ccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHH
Confidence 11000000 000000 00000 0000000000000000 0000 00001126899999999999999999999
Q ss_pred hCCCCCCCCC-------------------CCCCccccccccccCCHHHHHHHHHH
Q psy4065 137 AHDLDPPEGA-------------------EAKPFSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 137 ~h~~~~~~~~-------------------~~~~~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
.|..+---.. ....-.|-.|.-.|-....|..||.-
T Consensus 302 vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 302 VHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred HHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 9965311000 12345788899999999999999854
No 52
>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=96.51 E-value=0.00036 Score=36.74 Aligned_cols=23 Identities=39% Similarity=0.712 Sum_probs=21.4
Q ss_pred CcchhhHHhhhhhHHHHHHHHHh
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
|.|..|++.|.+...|..|++..
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 78999999999999999999864
No 53
>KOG2785|consensus
Probab=96.44 E-value=0.011 Score=51.60 Aligned_cols=174 Identities=20% Similarity=0.258 Sum_probs=102.5
Q ss_pred cccccccccccCChHHHHHHHHHhc-C---------CCCC-------------------CCCCCCCccccccccccCCHH
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAH-D---------LDPP-------------------EGAEAKPFSCSVCGKTFTRRE 56 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h-~---------~~~~-------------------~~~~~~~~~C~~C~~~f~~~~ 56 (348)
-|.|.-|...|.+...-+.|++.-+ - .++. ......++.|.+|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 4899999999999999999987653 1 1111 134456899999999999999
Q ss_pred HHHHHHHHhhhhhhhcc------ccchhh-----------------cccccccCCCcchhhhhhhh---hhhhhhccCCC
Q psy4065 57 HLRRHQQIHARELLQSS------MDMSAL-----------------TGLAEEVFPTPLRLDENVRR---WVACQRIEGID 110 (348)
Q Consensus 57 ~l~~H~~~h~~~~~~~~------~~~~~~-----------------~~~c~~~~~~~~~l~~h~~~---~~~~~~~~~~~ 110 (348)
....|+..-.......- .+.... ...+.+..........+... ..-........
T Consensus 83 a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e~ 162 (390)
T KOG2785|consen 83 AHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDED 162 (390)
T ss_pred hHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchhc
Confidence 99999865432211000 000000 00111111110000000000 00000000000
Q ss_pred cccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCC---------------CCCCccccccc---cccCCHHHHHHHHHH
Q psy4065 111 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGA---------------EAKPFSCSVCG---KTFTRREHLRRHQQI 172 (348)
Q Consensus 111 ~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~---------------~~~~~~C~~C~---~~f~~~~~L~~H~~~ 172 (348)
..-|--|.+|+..+.+-..-..||..+|+..=|.-. ....|.|-.|+ +.|.+....+.||..
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 013467999999999999999999999986543211 13468899999 999999999999954
Q ss_pred -hhhhccc
Q psy4065 173 -HARELLQ 179 (348)
Q Consensus 173 -h~~~~~~ 179 (348)
-|-..++
T Consensus 243 K~HCkl~y 250 (390)
T KOG2785|consen 243 KGHCKLPY 250 (390)
T ss_pred ccCcccCC
Confidence 3333444
No 54
>KOG2231|consensus
Probab=96.29 E-value=0.057 Score=51.46 Aligned_cols=115 Identities=19% Similarity=0.245 Sum_probs=76.8
Q ss_pred cccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhh
Q psy4065 44 SCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQG 123 (348)
Q Consensus 44 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~ 123 (348)
.|..| -.|.+...|+.|+..-|+...-...-......++.....+...|..|+..-.......-+ --.|..|...
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rG----hp~C~~C~~~ 191 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRG----HPLCKFCHER 191 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccC----Cccchhhhhh
Confidence 69999 889999999999977666544222222333345556666677777776654442222211 2479999999
Q ss_pred cCCHHHHHHHHHHhCCCCCCCCCCCCCccccccc------cccCCHHHHHHHHHHhhh
Q psy4065 124 FVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCG------KTFTRREHLRRHQQIHAR 175 (348)
Q Consensus 124 f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~------~~f~~~~~L~~H~~~h~~ 175 (348)
|.+...|.+||+.+| |-|.+|. ..|.....|..|.+.+|-
T Consensus 192 fld~~el~rH~~~~h------------~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 192 FLDDDELYRHLRFDH------------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred hccHHHHHHhhccce------------eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 999999999997665 4565653 346677777777766544
No 55
>KOG4173|consensus
Probab=96.25 E-value=0.0032 Score=49.72 Aligned_cols=109 Identities=24% Similarity=0.424 Sum_probs=76.0
Q ss_pred hHHHHHHHHHhcC----CCCCCCCCCCCccccc--cccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcch
Q psy4065 19 KEHLVRHRKRAHD----LDPPEGAEAKPFSCSV--CGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLR 92 (348)
Q Consensus 19 ~~~l~~H~~~~h~----~~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~ 92 (348)
...+.+|+...-- .+..+......|.|++ |...|....+...|+.+-|+. .|..|.+.|++..-
T Consensus 52 ~G~v~r~l~~~~V~~d~~d~~~~~~~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~----------sCs~C~r~~Pt~hL 121 (253)
T KOG4173|consen 52 DGDVQRHLYLQDVIMDVADVPEKPRVPAFACQVAGCCQVFDALDDYEHHYHTLHGN----------SCSFCKRAFPTGHL 121 (253)
T ss_pred cccHHHHHhHhhheeeccccccccccccccccccchHHHHhhhhhHHHhhhhcccc----------hhHHHHHhCCchhh
Confidence 4455556543321 2223345567899998 888898888888998766654 37788888888888
Q ss_pred hhhhhhhhhhh---hhccCCCcccCcccCc--chhhcCCHHHHHHHHHHhCC
Q psy4065 93 LDENVRRWVAC---QRIEGIDVVRPFQCDV--CNQGFVRKEHLVRHRKRAHD 139 (348)
Q Consensus 93 l~~h~~~~~~~---~~~~~~~~~~~~~C~~--C~~~f~~~~~L~~H~~~~h~ 139 (348)
|..|+...|.. -.++.+. ..|.|-. |+..|++...-.+||...|.
T Consensus 122 Ld~HI~E~HDs~Fqa~veRG~--dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 122 LDAHILEWHDSLFQALVERGQ--DMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhHHHHHHHHHHHHHHHHcCc--cHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 88888887765 2222222 4678844 88888888888888887776
No 56
>KOG4173|consensus
Probab=96.02 E-value=0.0054 Score=48.46 Aligned_cols=53 Identities=28% Similarity=0.479 Sum_probs=45.6
Q ss_pred cCcccCc--chhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhh
Q psy4065 113 RPFQCDV--CNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARE 176 (348)
Q Consensus 113 ~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 176 (348)
..|.|++ |...|.+...+..|...-|+ ..|.+|.+.|.+...|-.|+..-|..
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~-----------~sCs~C~r~~Pt~hLLd~HI~E~HDs 132 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG-----------NSCSFCKRAFPTGHLLDAHILEWHDS 132 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc-----------chhHHHHHhCCchhhhhHHHHHHHHH
Confidence 6689987 99999999989999877776 68999999999999999998765554
No 57
>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=95.92 E-value=0.013 Score=42.89 Aligned_cols=25 Identities=16% Similarity=0.498 Sum_probs=24.1
Q ss_pred Ccc----hhhHHhhhhhHHHHHHHHHhcC
Q psy4065 288 PKC----DVCKKVFSRRSHLLRHLKRLHN 312 (348)
Q Consensus 288 y~C----~~C~~~f~~~~~L~~H~~~~H~ 312 (348)
|.| ..|++.+.+...++.|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999999996
No 58
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.76 E-value=0.002 Score=33.84 Aligned_cols=21 Identities=38% Similarity=0.844 Sum_probs=13.6
Q ss_pred cccCcchhhcCCHHHHHHHHH
Q psy4065 115 FQCDVCNQGFVRKEHLVRHRK 135 (348)
Q Consensus 115 ~~C~~C~~~f~~~~~L~~H~~ 135 (348)
|.|..|++.|.+...|..|+.
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 556666666666666666653
No 59
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=95.11 E-value=0.01 Score=36.08 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=14.7
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcC
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHD 31 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~ 31 (348)
++-.++|+-|+..|+....+.+|+...|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 34445555555555555555555554443
No 60
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.95 E-value=0.024 Score=29.08 Aligned_cols=20 Identities=35% Similarity=1.104 Sum_probs=10.6
Q ss_pred cccccccccCCHHHHHHHHHH
Q psy4065 152 SCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 152 ~C~~C~~~f~~~~~L~~H~~~ 172 (348)
.|+.|++.| ....|..|+..
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 455555555 44555555443
No 61
>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=94.91 E-value=0.011 Score=33.13 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=21.9
Q ss_pred CCcchhhHHhhhhhHHHHHHHHHh
Q psy4065 287 IPKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 287 ~y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
+|.|.+|+..|.+...+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 488999999999999999999765
No 62
>KOG2482|consensus
Probab=94.84 E-value=0.21 Score=43.13 Aligned_cols=26 Identities=23% Similarity=0.589 Sum_probs=23.7
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcCC
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHNI 313 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~~ 313 (348)
-+|-+|...+-+...|..||..+|..
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~ 305 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEF 305 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHh
Confidence 36999999999999999999999944
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.33 E-value=0.043 Score=28.08 Aligned_cols=20 Identities=30% Similarity=0.841 Sum_probs=13.9
Q ss_pred ccccccccccCChHHHHHHHH
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRK 27 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~ 27 (348)
..|+.|++.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4677777777 5677777754
No 64
>KOG2893|consensus
Probab=93.99 E-value=0.07 Score=43.40 Aligned_cols=51 Identities=35% Similarity=0.736 Sum_probs=43.4
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHH-HHHhhhh
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRH-QQIHARE 176 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H-~~~h~~~ 176 (348)
++| |=+|++-|.+..-|..|.. .+-|+|.+|-+...+-..|..| +++|...
T Consensus 10 kpw-cwycnrefddekiliqhqk------------akhfkchichkkl~sgpglsihcmqvhket 61 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQK------------AKHFKCHICHKKLFSGPGLSIHCMQVHKET 61 (341)
T ss_pred Cce-eeecccccchhhhhhhhhh------------hccceeeeehhhhccCCCceeehhhhhhhh
Confidence 666 8899999999999999984 4569999999999999999999 5666553
No 65
>PRK04860 hypothetical protein; Provisional
Probab=93.99 E-value=0.024 Score=44.30 Aligned_cols=25 Identities=28% Similarity=0.728 Sum_probs=21.5
Q ss_pred CCCccccccccccCCHHHHHHHHHHhhhh
Q psy4065 40 AKPFSCSVCGKTFTRREHLRRHQQIHARE 68 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 68 (348)
..+|.|. |+. ....+++|.++|.++
T Consensus 117 ~~~Y~C~-C~~---~~~~~rrH~ri~~g~ 141 (160)
T PRK04860 117 TFPYRCK-CQE---HQLTVRRHNRVVRGE 141 (160)
T ss_pred EEEEEcC-CCC---eeCHHHHHHHHhcCC
Confidence 3579998 987 678899999999998
No 66
>PRK04860 hypothetical protein; Provisional
Probab=93.91 E-value=0.033 Score=43.51 Aligned_cols=39 Identities=23% Similarity=0.714 Sum_probs=32.5
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCH
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRR 163 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~ 163 (348)
-+|.|. |+. ....+.+|.+.+.+ .++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g--------~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG--------EAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC--------CccEECCCCCceeEEe
Confidence 469998 987 66778999988877 7899999999988654
No 67
>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=93.89 E-value=0.042 Score=30.69 Aligned_cols=23 Identities=30% Similarity=0.570 Sum_probs=18.1
Q ss_pred CccccccccccCCHHHHHHHHHH
Q psy4065 150 PFSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 150 ~~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
+|.|.+|+..|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888888888888754
No 68
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.54 E-value=0.051 Score=33.14 Aligned_cols=34 Identities=29% Similarity=0.621 Sum_probs=29.1
Q ss_pred CCCCCCCCcchhhHHhhhhhHHHHHHHHHhcCCC
Q psy4065 281 ERPPKPIPKCDVCKKVFSRRSHLLRHLKRLHNID 314 (348)
Q Consensus 281 ~~~~~~~y~C~~C~~~f~~~~~L~~H~~~~H~~~ 314 (348)
...++--++|+-|+..|....++.+|++..|+-.
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~~ 44 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHGWL 44 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHhhhh
Confidence 3456666899999999999999999999999654
No 69
>KOG2893|consensus
Probab=93.49 E-value=0.022 Score=46.21 Aligned_cols=56 Identities=29% Similarity=0.597 Sum_probs=46.8
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhhhhc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHARELLQS 72 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~ 72 (348)
.||+ |=.|++.|....-|..|.+..| |+|.+|-+...+--.|..|....|++...+
T Consensus 9 ~kpw-cwycnrefddekiliqhqkakh------------fkchichkkl~sgpglsihcmqvhketid~ 64 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKAKH------------FKCHICHKKLFSGPGLSIHCMQVHKETIDK 64 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhhcc------------ceeeeehhhhccCCCceeehhhhhhhhhhc
Confidence 4564 7799999999999999987665 699999999888889999998888875433
No 70
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.38 E-value=0.17 Score=36.93 Aligned_cols=62 Identities=18% Similarity=0.399 Sum_probs=45.4
Q ss_pred CcccccccccccCChHHHHHHHHHhcC-CCCC---------------------------------CCCCCCCccc----c
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHD-LDPP---------------------------------EGAEAKPFSC----S 46 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~-~~~~---------------------------------~~~~~~~~~C----~ 46 (348)
+...|..|+..+.. ..+..|++..|. .... +-.-...|.| .
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~ 88 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPP 88 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCC
Confidence 34579999997765 999999995542 2100 0011145999 9
Q ss_pred ccccccCCHHHHHHHHHHhhh
Q psy4065 47 VCGKTFTRREHLRRHQQIHAR 67 (348)
Q Consensus 47 ~C~~~f~~~~~l~~H~~~h~~ 67 (348)
.|++.+.+...|+.|++.+|+
T Consensus 89 ~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCcEeccHHHHHHHHHHhcC
Confidence 999999999999999998875
No 71
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=91.27 E-value=0.1 Score=28.82 Aligned_cols=25 Identities=36% Similarity=0.965 Sum_probs=18.5
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
|+|..||+.+.... .++.|+.|+..
T Consensus 2 ~~C~~CGy~y~~~~--------------------~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEE--------------------APWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCc--------------------CCCcCcCCCCc
Confidence 78999998764322 57899999863
No 72
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.57 E-value=0.023 Score=52.64 Aligned_cols=149 Identities=26% Similarity=0.426 Sum_probs=92.9
Q ss_pred CcccccccccccCChHHHHHHHH--HhcCCCCCCCCCC--CCcccc--ccccccCCHHHHHHHHHHhhhhhhhccccchh
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRK--RAHDLDPPEGAEA--KPFSCS--VCGKTFTRREHLRRHQQIHARELLQSSMDMSA 78 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~--~~h~~~~~~~~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~ 78 (348)
.++.|..|...|.+...|..|.. .|.+ + .++.|+ +|++.|.+...+..|...|.+.....+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~--------~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 357 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSG--------ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLL-- 357 (467)
T ss_pred cCCCCccccCCcccccccccccccccccc--------ccCCceeeeccCCCccccccccccCCcccccCCCccccccc--
Confidence 47899999999999999999988 4544 5 899999 799999999999999999988754443311
Q ss_pred hcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCc--chhhcCCHHHHHHHHHHhCCCCCCCCCCCCCcccccc
Q psy4065 79 LTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDV--CNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVC 156 (348)
Q Consensus 79 ~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C 156 (348)
.+...+.....-..+... ...........+.|.. |-..+.....+..|...+.. .....+.+..|
T Consensus 358 ---~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~ 424 (467)
T COG5048 358 ---NSSSKFSPLLNNEPPQSL----QQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLS------FRPYNCKNPPC 424 (467)
T ss_pred ---cCccccccccCCCCccch----hhccCccCCccccccccchhhhhccccccccccccccc------cCCcCCCCCcc
Confidence 111111111110000000 0000001113344422 66666776777777655544 22345677778
Q ss_pred ccccCCHHHHHHHHHHhhhh
Q psy4065 157 GKTFTRREHLRRHQQIHARE 176 (348)
Q Consensus 157 ~~~f~~~~~L~~H~~~h~~~ 176 (348)
...+.....+..|++.|...
T Consensus 425 ~~~~~~~~~~~~~~~~~~~~ 444 (467)
T COG5048 425 SKSFNRHYNLIPHKKIHTNH 444 (467)
T ss_pred hhhccCcccccccccccccC
Confidence 88888888888777766554
No 73
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=89.56 E-value=0.8 Score=39.77 Aligned_cols=24 Identities=21% Similarity=0.400 Sum_probs=20.9
Q ss_pred cCcccCcchhhcCCHHHHHHHHHH
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKR 136 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~ 136 (348)
..+.|..|++.|...+-+..|+..
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~g 260 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEG 260 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhh
Confidence 567899999999999999999865
No 74
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=88.75 E-value=0.11 Score=48.09 Aligned_cols=60 Identities=37% Similarity=0.737 Sum_probs=51.5
Q ss_pred CcccCcchhhcCCHHHHHHHHH--HhCCCCCCCCCCC--CCcccc--ccccccCCHHHHHHHHHHhhhhccccc
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRK--RAHDLDPPEGAEA--KPFSCS--VCGKTFTRREHLRRHQQIHARELLQSS 181 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~--~~h~~~~~~~~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~~ 181 (348)
++.|..|...|.....|.+|+. .|.. + +++.|+ +|++.|.+...+..|...|.+......
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~--------~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSG--------ESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred CCCCccccCCcccccccccccccccccc--------ccCCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 6889999999999999999998 4444 5 899999 799999999999999999888654433
No 75
>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=87.72 E-value=0.19 Score=28.70 Aligned_cols=34 Identities=21% Similarity=0.563 Sum_probs=23.7
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
+.|+.|+..|........- ......|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~-------------~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGA-------------NGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCC-------------CCCEEECCCCCCEEE
Confidence 6899999998755543221 234688999998764
No 76
>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=87.50 E-value=0.29 Score=29.08 Aligned_cols=27 Identities=48% Similarity=0.751 Sum_probs=18.8
Q ss_pred CCCCcchhhHHhhhhh----HHHHHHHHHhc
Q psy4065 285 KPIPKCDVCKKVFSRR----SHLLRHLKRLH 311 (348)
Q Consensus 285 ~~~y~C~~C~~~f~~~----~~L~~H~~~~H 311 (348)
....+|.+|++.+... ..|.+|++..|
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 3457899999999885 89999997766
No 77
>KOG2186|consensus
Probab=87.16 E-value=0.33 Score=40.15 Aligned_cols=53 Identities=30% Similarity=0.651 Sum_probs=42.1
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhhhc
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAREL 177 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~ 177 (348)
.|.|..||-.... -.|.+||..-++ ..|.|-.|+..|.. ..+..|...-....
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn---------~~fSCIDC~k~F~~-~sYknH~kCITEaQ 55 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN---------AYFSCIDCGKTFER-VSYKNHTKCITEAQ 55 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC---------CeeEEeeccccccc-chhhhhhhhcchHH
Confidence 4899999998764 678889955543 78999999999988 88999987655443
No 78
>PF12907 zf-met2: Zinc-binding
Probab=86.80 E-value=0.51 Score=27.18 Aligned_cols=33 Identities=18% Similarity=0.391 Sum_probs=25.5
Q ss_pred CcchhhHHhhh---hhHHHHHHHHHhcCCCCCCCcc
Q psy4065 288 PKCDVCKKVFS---RRSHLLRHLKRLHNIDPPPSSR 320 (348)
Q Consensus 288 y~C~~C~~~f~---~~~~L~~H~~~~H~~~~p~~~~ 320 (348)
+.|.+|..+|. ....|..|....|...++..+.
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~CF 37 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEECF 37 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHcC
Confidence 68999996664 4577999999999886655443
No 79
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=86.14 E-value=0.62 Score=29.11 Aligned_cols=33 Identities=24% Similarity=0.582 Sum_probs=19.3
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
-|.|+.||..-..+-.- -..+ ..+|.|+.||+.
T Consensus 27 ~F~CPnCGe~~I~Rc~~----CRk~---------g~~Y~Cp~CGF~ 59 (61)
T COG2888 27 KFPCPNCGEVEIYRCAK----CRKL---------GNPYRCPKCGFE 59 (61)
T ss_pred EeeCCCCCceeeehhhh----HHHc---------CCceECCCcCcc
Confidence 47788888643332221 1222 478899888864
No 80
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=85.78 E-value=0.39 Score=34.75 Aligned_cols=30 Identities=27% Similarity=0.724 Sum_probs=19.6
Q ss_pred cccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCH
Q psy4065 115 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRR 163 (348)
Q Consensus 115 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~ 163 (348)
..|+.||.+|-.... .|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDLnk-------------------~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNK-------------------DPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCC-------------------CCccCCCCCCccCcc
Confidence 467777777766544 256677777777655
No 81
>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=85.70 E-value=0.25 Score=40.54 Aligned_cols=28 Identities=21% Similarity=0.485 Sum_probs=22.8
Q ss_pred CCCCCcchhhHHhhhhhHHHHHHHHHhc
Q psy4065 284 PKPIPKCDVCKKVFSRRSHLLRHLKRLH 311 (348)
Q Consensus 284 ~~~~y~C~~C~~~f~~~~~L~~H~~~~H 311 (348)
.+..|.|.+|+|.|.-...++.||.+.|
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 4446999999999999999999999999
No 82
>KOG0717|consensus
Probab=85.09 E-value=1.5 Score=39.79 Aligned_cols=30 Identities=33% Similarity=0.707 Sum_probs=24.6
Q ss_pred CcchhhHHhhhhhHHHHHHHHHh-cCCCCCC
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRL-HNIDPPP 317 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~-H~~~~p~ 317 (348)
-.|.-|+.+|.++.-|..|+..- |+..++-
T Consensus 461 ~~C~tCr~~FdSRnkLF~Hlk~tgHa~~~~~ 491 (508)
T KOG0717|consen 461 ISCTTCRESFDSRNKLFAHLKKTGHARLPSK 491 (508)
T ss_pred HhhhhhhhhccchhHHHHHhhhcCCeecccc
Confidence 46999999999999999999876 5554443
No 83
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=85.08 E-value=0.85 Score=33.03 Aligned_cols=23 Identities=35% Similarity=0.730 Sum_probs=16.8
Q ss_pred CCCccccccccccCCHHHHHHHH
Q psy4065 40 AKPFSCSVCGKTFTRREHLRRHQ 62 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~ 62 (348)
+.|..|++||...-...+|.+-.
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSy 35 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSY 35 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhh
Confidence 56788888888877776666653
No 84
>KOG4124|consensus
Probab=83.95 E-value=0.43 Score=41.34 Aligned_cols=63 Identities=11% Similarity=0.014 Sum_probs=44.1
Q ss_pred ccCcccCc--chhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHH-HHHhhhhcc
Q psy4065 112 VRPFQCDV--CNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRH-QQIHARELL 178 (348)
Q Consensus 112 ~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H-~~~h~~~~~ 178 (348)
++++.|.. |.+.+........|-...+..+. +..++|+|. |++.+.++..|..| +..+.++..
T Consensus 176 E~~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~---t~~~p~k~~-~~~~~~T~~~l~~HS~N~~~~~Sa 241 (442)
T KOG4124|consen 176 EYRVSVVVPAAAAAAAAANSSDMSSDEASSTAE---TTGTPKKMP-ESLVMDTSSPLSDHSMNIDVGESA 241 (442)
T ss_pred cccccccCchhhhhhhccccccccccccccccc---cccCCccCc-ccccccccchhhhccccCCCCccH
Confidence 47788855 88877776666666554443221 236799998 99999999999999 466666543
No 85
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=83.25 E-value=0.68 Score=35.83 Aligned_cols=38 Identities=18% Similarity=0.423 Sum_probs=23.7
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccccccc
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTF 52 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f 52 (348)
.+.-|.|+.|+..|.....+..- .. ...|.|+.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~----d~--------~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLL----DM--------DGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhc----CC--------CCcEECCCCCCEE
Confidence 34578888898888754433321 01 2348898888764
No 86
>PHA00626 hypothetical protein
Probab=83.09 E-value=0.32 Score=29.90 Aligned_cols=17 Identities=18% Similarity=0.581 Sum_probs=13.3
Q ss_pred CCCccccccccccCCHH
Q psy4065 40 AKPFSCSVCGKTFTRRE 56 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~ 56 (348)
...|.|+.||+.|...+
T Consensus 21 snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 21 SDDYVCCDCGYNDSKDA 37 (59)
T ss_pred CcceEcCCCCCeechhh
Confidence 36799999999987544
No 87
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.84 E-value=0.18 Score=41.75 Aligned_cols=52 Identities=21% Similarity=0.390 Sum_probs=31.7
Q ss_pred CCcccccccccccCChHHHHHHHHHhc-CCCCCCC-CCCCC-----ccccccccccCCH
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAH-DLDPPEG-AEAKP-----FSCSVCGKTFTRR 55 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h-~~~~~~~-~~~~~-----~~C~~C~~~f~~~ 55 (348)
.|.++||+|+..|.+..-.....+... ..|.-.. .+..| +.||.||++|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 467899999999987766555544321 1111000 11222 4699999998765
No 88
>KOG2071|consensus
Probab=82.78 E-value=1.3 Score=41.55 Aligned_cols=54 Identities=22% Similarity=0.362 Sum_probs=35.4
Q ss_pred CCCccccccccccCCHHHHHHHHHHhhhhhhhccccc--hhhcccccccCCCcchh
Q psy4065 40 AKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDM--SALTGLAEEVFPTPLRL 93 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~--~~~~~~c~~~~~~~~~l 93 (348)
..+-+|..||.+|........||..|..+....-... ...-..+...|+....+
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n~~~r~s~~~~~sR~Wf~s~s~W 471 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKNTTIRGSSKWQKSRSWFPSKSGW 471 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhhhhhhhhcccccccccccceeechhhh
Confidence 4568999999999999999999998887644332211 12233455555554433
No 89
>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=82.52 E-value=0.82 Score=33.11 Aligned_cols=15 Identities=27% Similarity=0.665 Sum_probs=10.7
Q ss_pred CccccccccccCCHH
Q psy4065 150 PFSCSVCGKTFTRRE 164 (348)
Q Consensus 150 ~~~C~~C~~~f~~~~ 164 (348)
...|+.||..|....
T Consensus 9 KR~Cp~CG~kFYDLn 23 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLN 23 (108)
T ss_pred cccCCCCcchhccCC
Confidence 457888888886644
No 90
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=82.41 E-value=0.84 Score=28.63 Aligned_cols=12 Identities=33% Similarity=1.137 Sum_probs=8.1
Q ss_pred CCCccccccccc
Q psy4065 40 AKPFSCSVCGKT 51 (348)
Q Consensus 40 ~~~~~C~~C~~~ 51 (348)
..+|.|+.||+.
T Consensus 46 ~~~Y~CP~CGF~ 57 (59)
T PRK14890 46 SNPYTCPKCGFE 57 (59)
T ss_pred CCceECCCCCCc
Confidence 356777777763
No 91
>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=82.29 E-value=1.7 Score=36.22 Aligned_cols=94 Identities=19% Similarity=0.340 Sum_probs=51.8
Q ss_pred CCCCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccC
Q psy4065 39 EAKPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCD 118 (348)
Q Consensus 39 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~ 118 (348)
+.+.|+|.+|... ....+--.|+.+-. ......+.|..|.+. ..|.|.
T Consensus 139 GGrif~CsfC~~f-lCEDDQFEHQAsCQ-----vLe~E~~KC~SCNrl--------------------------Gq~sCL 186 (314)
T PF06524_consen 139 GGRIFKCSFCDNF-LCEDDQFEHQASCQ-----VLESETFKCQSCNRL--------------------------GQYSCL 186 (314)
T ss_pred CCeEEEeecCCCe-eeccchhhhhhhhh-----hhhcccccccccccc--------------------------cchhhh
Confidence 3678999999754 33333335553221 112223444455432 456777
Q ss_pred cchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHHHHHHHHHh
Q psy4065 119 VCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIH 173 (348)
Q Consensus 119 ~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h 173 (348)
.|..-|-. .|.++.-- . -...+++.|+.|++....-..|.--.|+|
T Consensus 187 RCK~cfCd-----dHvrrKg~-k---y~k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 187 RCKICFCD-----DHVRRKGF-K---YEKGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred heeeeehh-----hhhhhccc-c---cccCCCCCCCCCCCcccccccceeeeecc
Confidence 77666654 34333211 0 01357999999999887777665444444
No 92
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.97 E-value=0.55 Score=28.09 Aligned_cols=31 Identities=19% Similarity=0.537 Sum_probs=21.7
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
..|+|+.||..|.... ....+.|++||..+.
T Consensus 2 ~~y~C~~CG~~~~~~~------------------~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 2 AEYKCARCGREVELDE------------------YGTGVRCPYCGYRIL 32 (46)
T ss_pred CEEECCCCCCEEEECC------------------CCCceECCCCCCeEE
Confidence 4799999999874311 122689999997654
No 93
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=81.71 E-value=0.53 Score=26.50 Aligned_cols=34 Identities=21% Similarity=0.623 Sum_probs=23.8
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
..|+.|+..|........ + .....+|+.|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~~ip------~-------~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIP------P-------KGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCC------C-------CCcEEECCCCCCEeC
Confidence 579999999875554321 1 346789999998773
No 94
>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=81.56 E-value=0.88 Score=35.65 Aligned_cols=34 Identities=24% Similarity=0.407 Sum_probs=25.7
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
++.-|.|+.|+..|....++. ..|.|+.||....
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~-----------------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME-----------------LNFTCPRCGAMLD 139 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH-----------------cCCcCCCCCCEee
Confidence 456789999998887777774 1389999997643
No 95
>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=81.50 E-value=0.77 Score=25.45 Aligned_cols=26 Identities=27% Similarity=0.700 Sum_probs=18.3
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccc
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 159 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 159 (348)
.|.|..||..+... ..|..|++|+..
T Consensus 2 ~~~C~~CG~i~~g~--------------------~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGE--------------------EAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECC--------------------cCCCcCcCCCCc
Confidence 47899999775431 246799999863
No 96
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=80.84 E-value=1.8 Score=37.68 Aligned_cols=28 Identities=29% Similarity=0.662 Sum_probs=21.5
Q ss_pred CCccccccccccCCHHHHHHHH--HHhhhh
Q psy4065 41 KPFSCSVCGKTFTRREHLRRHQ--QIHARE 68 (348)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~--~~h~~~ 68 (348)
..+.|..|++.|....-+..|. +.|..+
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~ 266 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEGKRHCKE 266 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhhhhhhhh
Confidence 4578999999999888888888 445544
No 97
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=80.81 E-value=0.71 Score=26.15 Aligned_cols=33 Identities=24% Similarity=0.660 Sum_probs=23.8
Q ss_pred ccccccccccCChHH-HHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 7 FQCDVCNQGFVRKEH-LVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 7 y~C~~C~~~f~~~~~-l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
.+|+.|+..|..... |.. .....+|+.|+-.|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~--------------~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPA--------------GGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHccc--------------CCcEEECCCCCcEee
Confidence 579999999875543 222 256789999998774
No 98
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=80.46 E-value=0.55 Score=35.30 Aligned_cols=25 Identities=36% Similarity=0.634 Sum_probs=17.2
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcCCCC
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHNIDP 315 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~~~~ 315 (348)
-.|-+||+.|... ++|++.||+..+
T Consensus 73 i~clecGk~~k~L---krHL~~~~gltp 97 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHHGLTP 97 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT-S-H
T ss_pred eEEccCCcccchH---HHHHHHccCCCH
Confidence 5799999999875 999999997653
No 99
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=80.26 E-value=0.73 Score=27.82 Aligned_cols=31 Identities=19% Similarity=0.627 Sum_probs=22.2
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
...-|+|..|++.|.. .. ......|++||..
T Consensus 3 ~~~~Y~C~~Cg~~~~~---------~~---------~~~~irCp~Cg~r 33 (49)
T COG1996 3 AMMEYKCARCGREVEL---------DQ---------ETRGIRCPYCGSR 33 (49)
T ss_pred ceEEEEhhhcCCeeeh---------hh---------ccCceeCCCCCcE
Confidence 3467999999998810 00 2467899999975
No 100
>PF15269 zf-C2H2_7: Zinc-finger
Probab=79.59 E-value=0.93 Score=26.37 Aligned_cols=23 Identities=35% Similarity=0.566 Sum_probs=20.9
Q ss_pred CCcchhhHHhhhhhHHHHHHHHH
Q psy4065 287 IPKCDVCKKVFSRRSHLLRHLKR 309 (348)
Q Consensus 287 ~y~C~~C~~~f~~~~~L~~H~~~ 309 (348)
.|+|-.|.++..-++.|..||+-
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 38999999999999999999975
No 101
>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=78.89 E-value=2 Score=22.15 Aligned_cols=20 Identities=25% Similarity=0.504 Sum_probs=14.9
Q ss_pred ccccccccccCChHHHHHHHH
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRK 27 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~ 27 (348)
..|++|++.+ ....+..|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3688888877 6677788865
No 102
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=78.52 E-value=1.2 Score=35.66 Aligned_cols=35 Identities=26% Similarity=0.528 Sum_probs=26.2
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCC
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 54 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 54 (348)
.+.-|.|+.|+..|....++. ..|.|+.||.....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~-----------------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME-----------------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh-----------------cCCcCCCCCCCCee
Confidence 356799999999887776652 25999999977544
No 103
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=78.07 E-value=1.2 Score=26.33 Aligned_cols=27 Identities=22% Similarity=0.527 Sum_probs=20.6
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
.|.|..||..|... . .....|+.||..
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~--------~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-----------S--------KDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-----------C--------CCceECCCCCce
Confidence 48999999987632 1 357899999965
No 104
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=77.60 E-value=0.97 Score=27.59 Aligned_cols=25 Identities=52% Similarity=0.870 Sum_probs=20.8
Q ss_pred CcchhhHHhhhhh-----HHHHHHHHHhcC
Q psy4065 288 PKCDVCKKVFSRR-----SHLLRHLKRLHN 312 (348)
Q Consensus 288 y~C~~C~~~f~~~-----~~L~~H~~~~H~ 312 (348)
-.|..|++.+... +.|.+|++..|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4699999999876 699999996653
No 105
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=77.51 E-value=1 Score=30.70 Aligned_cols=32 Identities=28% Similarity=0.660 Sum_probs=21.6
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCC
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 54 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 54 (348)
.+|.|+.|++.-. +.. ...-|.|..||+.|.-
T Consensus 34 ~~~~Cp~C~~~~V---------kR~---------a~GIW~C~kCg~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRTTV---------KRI---------ATGIWKCRKCGAKFAG 65 (89)
T ss_pred cCCcCCCCCCcce---------eee---------ccCeEEcCCCCCeecc
Confidence 4688999988521 111 2456899999988864
No 106
>KOG2593|consensus
Probab=76.32 E-value=2.4 Score=38.31 Aligned_cols=42 Identities=24% Similarity=0.475 Sum_probs=29.9
Q ss_pred cCCCcccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccc
Q psy4065 107 EGIDVVRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 159 (348)
Q Consensus 107 ~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 159 (348)
.-...+..|.|+.|.+.|.....++-= .. ....|.|..|+--
T Consensus 121 ~d~t~~~~Y~Cp~C~kkyt~Lea~~L~--~~---------~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 121 RDDTNVAGYVCPNCQKKYTSLEALQLL--DN---------ETGEFHCENCGGE 162 (436)
T ss_pred hhccccccccCCccccchhhhHHHHhh--cc---------cCceEEEecCCCc
Confidence 333444789999999999998876631 11 2468999999863
No 107
>KOG2186|consensus
Probab=76.32 E-value=1.6 Score=36.28 Aligned_cols=52 Identities=33% Similarity=0.664 Sum_probs=42.1
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHhhh
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIHAR 67 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 67 (348)
..|.|..||.... +-.|..|+.+.++ .-|.|--|+..|.. .....|..-...
T Consensus 2 V~FtCnvCgEsvK-Kp~vekH~srCrn---------~~fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 2 VFFTCNVCGESVK-KPQVEKHMSRCRN---------AYFSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred eEEehhhhhhhcc-ccchHHHHHhccC---------CeeEEeeccccccc-chhhhhhhhcch
Confidence 4689999999765 5677779998876 78999999999988 777888765543
No 108
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=76.04 E-value=0.37 Score=37.38 Aligned_cols=22 Identities=32% Similarity=0.569 Sum_probs=16.6
Q ss_pred CCccccccccccCCHHHHHHHH
Q psy4065 41 KPFSCSVCGKTFTRREHLRRHQ 62 (348)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~ 62 (348)
+.++|+.||+.|.+...+..-+
T Consensus 27 ~~~~c~~c~~~f~~~e~~~~~~ 48 (154)
T PRK00464 27 RRRECLACGKRFTTFERVELVP 48 (154)
T ss_pred eeeeccccCCcceEeEeccCcc
Confidence 3489999999999876654433
No 109
>KOG4167|consensus
Probab=75.59 E-value=1.9 Score=41.37 Aligned_cols=28 Identities=32% Similarity=0.490 Sum_probs=25.5
Q ss_pred CCCCCcchhhHHhhhhhHHHHHHHHHhc
Q psy4065 284 PKPIPKCDVCKKVFSRRSHLLRHLKRLH 311 (348)
Q Consensus 284 ~~~~y~C~~C~~~f~~~~~L~~H~~~~H 311 (348)
....|.|..|++.|-.+.++..||++|.
T Consensus 789 ~~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 789 PTGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CCceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3567999999999999999999999986
No 110
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=75.40 E-value=2.1 Score=33.16 Aligned_cols=36 Identities=19% Similarity=0.493 Sum_probs=25.2
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCcccccccccc
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTF 160 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f 160 (348)
..|.|+.|+..|.....+.. ... ...|.|+.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~----~d~--------~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL----LDM--------DGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh----cCC--------CCcEECCCCCCEE
Confidence 57999999999986554332 011 2449999999864
No 111
>KOG2907|consensus
Probab=75.28 E-value=1.5 Score=31.50 Aligned_cols=40 Identities=23% Similarity=0.551 Sum_probs=29.3
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCC
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 54 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 54 (348)
.+|+.||- ..|..|......+|.. +.-.|.|+.|++.|..
T Consensus 75 ~kCpkCgh-----e~m~Y~T~QlRSADEG---QTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGH-----EEMSYHTLQLRSADEG---QTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCC-----chhhhhhhhcccccCC---ceEEEEcCccceeeec
Confidence 57999987 4667777777665543 4557999999998864
No 112
>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=74.56 E-value=1.6 Score=32.19 Aligned_cols=14 Identities=21% Similarity=0.420 Sum_probs=7.7
Q ss_pred CccccccccccCCH
Q psy4065 150 PFSCSVCGKTFTRR 163 (348)
Q Consensus 150 ~~~C~~C~~~f~~~ 163 (348)
|..|+.||..|.-.
T Consensus 26 p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 26 PAVSPYTGEQFPPE 39 (129)
T ss_pred CccCCCcCCccCcc
Confidence 45566666655444
No 113
>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=74.41 E-value=0.63 Score=26.90 Aligned_cols=31 Identities=19% Similarity=0.648 Sum_probs=20.9
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
.|+|..|+..|....... ......|+.||..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~---------------~~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKIS---------------DDPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecC---------------CCCCCCCCCCCCc
Confidence 589999999886433221 1345679999874
No 114
>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=73.96 E-value=0.4 Score=28.09 Aligned_cols=30 Identities=23% Similarity=0.799 Sum_probs=20.6
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGK 50 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~ 50 (348)
.|+|..||..|.....+.. .....|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~---------------~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISE---------------DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCC---------------CCCCcCCCCCC
Confidence 4899999988864433221 24678999986
No 115
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=73.22 E-value=2 Score=32.33 Aligned_cols=24 Identities=29% Similarity=0.519 Sum_probs=16.6
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCC
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHD 139 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~ 139 (348)
....|-+||+.|+. |.+|+..||+
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-
T ss_pred CeeEEccCCcccch---HHHHHHHccC
Confidence 34789999999998 5999999988
No 116
>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=72.81 E-value=1.9 Score=33.85 Aligned_cols=31 Identities=26% Similarity=0.493 Sum_probs=25.6
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCcccccccccc
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTF 160 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f 160 (348)
..|.|+.|+..|+...++. ..|.|+.||...
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~-----------------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME-----------------LNFTCPRCGAML 138 (158)
T ss_pred CeEECCCCCcEeeHHHHHH-----------------cCCcCCCCCCEe
Confidence 6799999999999888764 149999999763
No 117
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=72.51 E-value=2.1 Score=33.63 Aligned_cols=24 Identities=29% Similarity=0.775 Sum_probs=19.4
Q ss_pred CcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCcccccccc
Q psy4065 114 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGK 158 (348)
Q Consensus 114 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~ 158 (348)
.|.|++||+.+. ++.|-+||+|+.
T Consensus 134 ~~vC~vCGy~~~---------------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE---------------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc---------------------CCCCCcCCCCCC
Confidence 699999997643 267999999994
No 118
>KOG1280|consensus
Probab=72.29 E-value=2.9 Score=36.44 Aligned_cols=62 Identities=15% Similarity=0.153 Sum_probs=45.1
Q ss_pred CCccccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcc
Q psy4065 41 KPFSCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVC 120 (348)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C 120 (348)
..|.|++|+..=.+...|..|....|.+-.... .|..|.- .++.|+.|
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~-----icp~c~~---------------------------~~~~qp~~ 125 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSV-----ICPLCAA---------------------------NPEMQPIH 125 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcce-----eeecccc---------------------------CcccCchh
Confidence 369999999998899999999999998854322 2444443 56778888
Q ss_pred hhhcCCHHHHHHHH
Q psy4065 121 NQGFVRKEHLVRHR 134 (348)
Q Consensus 121 ~~~f~~~~~L~~H~ 134 (348)
.+--......+.|.
T Consensus 126 ~~~~~~~~~~~~~~ 139 (381)
T KOG1280|consen 126 SKETENLSVHWTEI 139 (381)
T ss_pred hhhhhhhhhhhhhh
Confidence 87666655555554
No 119
>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=72.16 E-value=3.1 Score=34.23 Aligned_cols=31 Identities=29% Similarity=0.600 Sum_probs=24.9
Q ss_pred CCCccccccccccCCHHHHHHHHHHhhhhhh
Q psy4065 40 AKPFSCSVCGKTFTRREHLRRHQQIHARELL 70 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 70 (348)
+..|.|++|++.|.-...++.|+...|.+..
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~v 105 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEKV 105 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHHH
Confidence 4569999999999999999999999998854
No 120
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=72.16 E-value=0.81 Score=28.15 Aligned_cols=30 Identities=20% Similarity=0.674 Sum_probs=19.6
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGK 50 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~ 50 (348)
-|+|..|+..|.....+. ......|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~---------------~~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMS---------------DDPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecC---------------CCCCCCCCCCCC
Confidence 489999999886332211 124467999986
No 121
>PF12907 zf-met2: Zinc-binding
Probab=71.81 E-value=2.8 Score=24.17 Aligned_cols=25 Identities=28% Similarity=0.684 Sum_probs=18.8
Q ss_pred cccccccccc---CChHHHHHHHHHhcC
Q psy4065 7 FQCDVCNQGF---VRKEHLVRHRKRAHD 31 (348)
Q Consensus 7 y~C~~C~~~f---~~~~~l~~H~~~~h~ 31 (348)
++|.+|..+| .+...|.+|....|+
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHp 29 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHP 29 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCC
Confidence 5788888555 566778888887777
No 122
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=70.41 E-value=3.4 Score=33.11 Aligned_cols=31 Identities=29% Similarity=0.640 Sum_probs=25.3
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCcccccccccc
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTF 160 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f 160 (348)
..|.|+.|+..|....++. ..|.|+.||...
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~-----------------~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME-----------------YGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhh-----------------cCCcCCCCCCCC
Confidence 6799999999999877642 259999999864
No 123
>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=69.99 E-value=3 Score=30.86 Aligned_cols=9 Identities=11% Similarity=0.165 Sum_probs=3.6
Q ss_pred ccCcchhhc
Q psy4065 116 QCDVCNQGF 124 (348)
Q Consensus 116 ~C~~C~~~f 124 (348)
.|+.||..|
T Consensus 28 vcP~cg~~~ 36 (129)
T TIGR02300 28 VSPYTGEQF 36 (129)
T ss_pred cCCCcCCcc
Confidence 344444333
No 124
>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=67.92 E-value=2.5 Score=21.79 Aligned_cols=10 Identities=30% Similarity=0.720 Sum_probs=6.7
Q ss_pred cccccccccC
Q psy4065 8 QCDVCNQGFV 17 (348)
Q Consensus 8 ~C~~C~~~f~ 17 (348)
.|++||+.|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5777777763
No 125
>PF15269 zf-C2H2_7: Zinc-finger
Probab=67.66 E-value=7.1 Score=22.80 Aligned_cols=26 Identities=23% Similarity=0.432 Sum_probs=21.8
Q ss_pred CCCccccccccccCCHHHHHHHHHHh
Q psy4065 40 AKPFSCSVCGKTFTRREHLRRHQQIH 65 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~h 65 (348)
...|+|=.|.++..-+++|-.||+-.
T Consensus 18 p~~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 18 PFKYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred CccceeecCCcccchHHHHHHHHHHH
Confidence 45688999999999999999999743
No 126
>KOG2071|consensus
Probab=67.02 E-value=7.2 Score=36.87 Aligned_cols=33 Identities=27% Similarity=0.508 Sum_probs=25.7
Q ss_pred CCCccccccccccCCHHHHHHHHHHhhhhcccc
Q psy4065 148 AKPFSCSVCGKTFTRREHLRRHQQIHARELLQS 180 (348)
Q Consensus 148 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~ 180 (348)
..+-.|..||.+|........||..|-......
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~ 448 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRK 448 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhhhhh
Confidence 466788888888888888888888887765433
No 127
>PF14353 CpXC: CpXC protein
Probab=66.51 E-value=4.5 Score=30.36 Aligned_cols=50 Identities=22% Similarity=0.431 Sum_probs=32.8
Q ss_pred ccccccccccCCh----------HHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHHHHHh
Q psy4065 7 FQCDVCNQGFVRK----------EHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRHQQIH 65 (348)
Q Consensus 7 y~C~~C~~~f~~~----------~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 65 (348)
..|+.|+..|... ..|+.-+. -+ .-..|.|+.||..|.-...+..|...+
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il--~g-------~l~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKIL--DG-------SLFSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH--cC-------CcCEEECCCCCCceecCCCEEEEcCCC
Confidence 4799999988422 23333332 12 346799999999988776666666544
No 128
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=66.46 E-value=1.8 Score=30.00 Aligned_cols=14 Identities=29% Similarity=0.593 Sum_probs=10.2
Q ss_pred CCCccccccccccC
Q psy4065 40 AKPFSCSVCGKTFT 53 (348)
Q Consensus 40 ~~~~~C~~C~~~f~ 53 (348)
..-|.|..|++.|.
T Consensus 52 ~GIW~C~~C~~~~A 65 (90)
T PTZ00255 52 VGIWRCKGCKKTVA 65 (90)
T ss_pred eEEEEcCCCCCEEe
Confidence 35688888887765
No 129
>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=66.21 E-value=1.1 Score=31.06 Aligned_cols=31 Identities=32% Similarity=0.808 Sum_probs=18.8
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
..|.|++|++.-. +.. ...-|+|..|++.|.
T Consensus 34 ~ky~Cp~Cgk~~v---------kR~---------a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSV---------KRV---------ATGIWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSEE---------EEE---------ETTEEEETTTTEEEE
T ss_pred CCCcCCCCCCcee---------EEe---------eeEEeecCCCCCEEe
Confidence 4678888888421 111 234588888887764
No 130
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=65.32 E-value=1.8 Score=29.98 Aligned_cols=14 Identities=29% Similarity=0.880 Sum_probs=10.4
Q ss_pred CCCccccccccccC
Q psy4065 40 AKPFSCSVCGKTFT 53 (348)
Q Consensus 40 ~~~~~C~~C~~~f~ 53 (348)
..-|.|..|++.|.
T Consensus 51 ~GIW~C~~C~~~~A 64 (91)
T TIGR00280 51 TGIWTCRKCGAKFA 64 (91)
T ss_pred eEEEEcCCCCCEEe
Confidence 45688888887765
No 131
>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=65.26 E-value=3.4 Score=22.52 Aligned_cols=26 Identities=23% Similarity=0.740 Sum_probs=17.0
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
|.|..|+..+.. . ...+.+|+.||..
T Consensus 1 Y~C~~Cg~~~~~------------~-------~~~~irC~~CG~R 26 (32)
T PF03604_consen 1 YICGECGAEVEL------------K-------PGDPIRCPECGHR 26 (32)
T ss_dssp EBESSSSSSE-B------------S-------TSSTSSBSSSS-S
T ss_pred CCCCcCCCeeEc------------C-------CCCcEECCcCCCe
Confidence 678888887641 1 2356799999875
No 132
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=65.06 E-value=9.6 Score=32.79 Aligned_cols=26 Identities=23% Similarity=0.603 Sum_probs=19.6
Q ss_pred CCCccccccccccCCHHHHHHHHHHh
Q psy4065 148 AKPFSCSVCGKTFTRREHLRRHQQIH 173 (348)
Q Consensus 148 ~~~~~C~~C~~~f~~~~~L~~H~~~h 173 (348)
...|.|++|...|-..-....|-..|
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHh
Confidence 46688888888888777777776655
No 133
>KOG2807|consensus
Probab=62.97 E-value=11 Score=32.77 Aligned_cols=26 Identities=19% Similarity=0.516 Sum_probs=20.1
Q ss_pred CCCccccccccccCCHHHHHHHHHHh
Q psy4065 148 AKPFSCSVCGKTFTRREHLRRHQQIH 173 (348)
Q Consensus 148 ~~~~~C~~C~~~f~~~~~L~~H~~~h 173 (348)
...|.|..|...|--.-....|-..|
T Consensus 343 ~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCcEEchhccceeeccchHHHHhhhh
Confidence 45688888888888888888886655
No 134
>KOG3408|consensus
Probab=62.15 E-value=4.7 Score=29.40 Aligned_cols=22 Identities=27% Similarity=0.649 Sum_probs=11.3
Q ss_pred CccccccccccCCHHHHHHHHH
Q psy4065 42 PFSCSVCGKTFTRREHLRRHQQ 63 (348)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~ 63 (348)
.|.|-.|.+-|.+...|..|.+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHh
Confidence 3455555555555555555554
No 135
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=60.76 E-value=5.2 Score=28.16 Aligned_cols=17 Identities=29% Similarity=0.620 Sum_probs=13.2
Q ss_pred CcccccccccccCChHH
Q psy4065 5 RPFQCDVCNQGFVRKEH 21 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~ 21 (348)
.|++|..||..|.+-..
T Consensus 1 MpH~CtrCG~vf~~g~~ 17 (112)
T COG3364 1 MPHQCTRCGEVFDDGSE 17 (112)
T ss_pred CCceecccccccccccH
Confidence 37899999999976543
No 136
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=59.45 E-value=5.6 Score=23.93 Aligned_cols=25 Identities=32% Similarity=0.784 Sum_probs=18.7
Q ss_pred ccccccc-ccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 8 QCDVCNQ-GFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 8 ~C~~C~~-~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
.|+.||- +| +..|. .+|.|.-||++
T Consensus 21 ~CPrCG~gvf----------mA~H~---------dR~~CGkCgyT 46 (51)
T COG1998 21 FCPRCGPGVF----------MADHK---------DRWACGKCGYT 46 (51)
T ss_pred cCCCCCCcch----------hhhcC---------ceeEeccccce
Confidence 5888986 44 55554 58999999986
No 137
>KOG3408|consensus
Probab=59.07 E-value=7.4 Score=28.44 Aligned_cols=28 Identities=25% Similarity=0.337 Sum_probs=24.9
Q ss_pred CCCCCCcchhhHHhhhhhHHHHHHHHHh
Q psy4065 283 PPKPIPKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 283 ~~~~~y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
+|...|.|..|.+-|.+...|..|.++.
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhcc
Confidence 4556699999999999999999999875
No 138
>KOG2593|consensus
Probab=59.01 E-value=4 Score=36.91 Aligned_cols=37 Identities=27% Similarity=0.600 Sum_probs=23.1
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
..-|.|+.|.+.|.....++.= .. ....|.|..|+-.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~-~~----------~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLL-DN----------ETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHHhh-cc----------cCceEEEecCCCc
Confidence 3457888888887766665543 11 2346788887743
No 139
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=58.68 E-value=2.4 Score=28.09 Aligned_cols=41 Identities=20% Similarity=0.479 Sum_probs=26.6
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccc--ccccccCCHHH
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCS--VCGKTFTRREH 57 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~--~C~~~f~~~~~ 57 (348)
+.|++|+.....+..-..+-. ..+..++|. .||..|.....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~----------~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT----------TKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred ccCCCCCCccEEEEChhcChh----------hheeeeecCCCCCCCEEEEEEE
Confidence 579999987644433333311 135778998 79999876543
No 140
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=58.44 E-value=2.7 Score=29.11 Aligned_cols=14 Identities=29% Similarity=0.850 Sum_probs=10.0
Q ss_pred CCCccccccccccC
Q psy4065 40 AKPFSCSVCGKTFT 53 (348)
Q Consensus 40 ~~~~~C~~C~~~f~ 53 (348)
..-|.|..|++.|.
T Consensus 52 ~GIW~C~~C~~~~A 65 (90)
T PRK03976 52 TGIWECRKCGAKFA 65 (90)
T ss_pred EEEEEcCCCCCEEe
Confidence 34688888887764
No 141
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=55.77 E-value=4.9 Score=29.90 Aligned_cols=22 Identities=23% Similarity=0.232 Sum_probs=19.6
Q ss_pred cccCcchhhcCCHHHHHHHHHHhCC
Q psy4065 115 FQCDVCNQGFVRKEHLVRHRKRAHD 139 (348)
Q Consensus 115 ~~C~~C~~~f~~~~~L~~H~~~~h~ 139 (348)
..|.++|+.|++ |.+|+.+|++
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccC
Confidence 679999999975 8999998887
No 142
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=54.75 E-value=6.8 Score=23.92 Aligned_cols=13 Identities=31% Similarity=0.657 Sum_probs=10.5
Q ss_pred CCccccccccccC
Q psy4065 41 KPFSCSVCGKTFT 53 (348)
Q Consensus 41 ~~~~C~~C~~~f~ 53 (348)
..+.|.-||+.+-
T Consensus 36 ~r~~C~~Cgyt~~ 48 (50)
T PRK00432 36 DRWHCGKCGYTEF 48 (50)
T ss_pred CcEECCCcCCEEe
Confidence 6789999998753
No 143
>KOG4124|consensus
Probab=54.73 E-value=2 Score=37.44 Aligned_cols=61 Identities=28% Similarity=0.683 Sum_probs=44.7
Q ss_pred ccCcccCc--chhhcCCHHHHHHHHHHhCCCC--CCCC---------CCCCCccccccccccCCHHHHHHHHHH
Q psy4065 112 VRPFQCDV--CNQGFVRKEHLVRHRKRAHDLD--PPEG---------AEAKPFSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 112 ~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~--~~~~---------~~~~~~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
.++|+|.+ |.+.+++..+|..|...-|.-. .+.. ...++|+|++|.+++....+|.-|...
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 37899955 9999999999999876555321 1111 125899999999999988888777543
No 144
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=54.68 E-value=9.6 Score=35.35 Aligned_cols=45 Identities=22% Similarity=0.325 Sum_probs=32.2
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcCCCC-C-C-CcccCCCchhHHHHh
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHNIDP-P-P-SSRNKQVPTYYLLKL 332 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~~~~-p-~-~~~~~~~~~~~~~~~ 332 (348)
+.|+.|.+.|.+...++.||...|-+.- | . .-....+...+++++
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~l~P~lqs~lPqrId~~w~e~I 105 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAGLKPKLQSVLPQRIDDDWAEMI 105 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhhcChhhhhhcCcccCHHHHHHH
Confidence 6899999999999999999999996653 3 1 222333455555554
No 145
>KOG1280|consensus
Probab=54.38 E-value=11 Score=33.06 Aligned_cols=40 Identities=18% Similarity=0.420 Sum_probs=31.0
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCcccccccc
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGK 158 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~ 158 (348)
..|.|++|+..-.+...|..|....|.. ......|++|+.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpd------a~~~~icp~c~~ 117 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPE------ASTSVICPLCAA 117 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcc------cCcceeeecccc
Confidence 5699999999999999999999998872 123445666664
No 146
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=54.24 E-value=11 Score=28.16 Aligned_cols=14 Identities=14% Similarity=0.771 Sum_probs=11.4
Q ss_pred CCcccccccccccC
Q psy4065 4 VRPFQCDVCNQGFV 17 (348)
Q Consensus 4 ~~~y~C~~C~~~f~ 17 (348)
.+.|+|.+|..+..
T Consensus 78 ~~lYeCnIC~etS~ 91 (140)
T PF05290_consen 78 PKLYECNICKETSA 91 (140)
T ss_pred CCceeccCcccccc
Confidence 47899999998754
No 147
>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=53.47 E-value=8.6 Score=21.89 Aligned_cols=24 Identities=33% Similarity=0.491 Sum_probs=10.0
Q ss_pred CCCcchhhHHhh-hhh-HHHHHHHHH
Q psy4065 286 PIPKCDVCKKVF-SRR-SHLLRHLKR 309 (348)
Q Consensus 286 ~~y~C~~C~~~f-~~~-~~L~~H~~~ 309 (348)
+.|-|+.|+..| .+. ...+.|.+.
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~G 27 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHERG 27 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT--
T ss_pred cCeecccccceecCCChHHHHHhhcc
Confidence 358999999999 344 444777543
No 148
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=52.98 E-value=1.6 Score=42.06 Aligned_cols=57 Identities=26% Similarity=0.508 Sum_probs=38.5
Q ss_pred cccccccccCCHHHHHHHHHHhhhhhhhccccchhhcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchh
Q psy4065 44 SCSVCGKTFTRREHLRRHQQIHARELLQSSMDMSALTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQ 122 (348)
Q Consensus 44 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~ 122 (348)
.|..||-.|.--..|- -.+....+..-..|+.|.+-|.++..-.-|. ++..|+.||-
T Consensus 125 ~CT~CGPRfTIi~alP-------YDR~nTsM~~F~lC~~C~~EY~dP~nRRfHA---------------Qp~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALP-------YDRENTSMADFPLCPFCDKEYKDPLNRRFHA---------------QPIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCC-------CCcccCccccCcCCHHHHHHhcCcccccccc---------------ccccCcccCC
Confidence 4999998887554432 2222333334455888888888887766663 7889999995
No 149
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=52.42 E-value=4.2 Score=30.91 Aligned_cols=15 Identities=20% Similarity=0.567 Sum_probs=12.1
Q ss_pred CcccccccccccCCh
Q psy4065 5 RPFQCDVCNQGFVRK 19 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~ 19 (348)
..|.|..||+.|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 568999999988654
No 150
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.28 E-value=6.5 Score=28.06 Aligned_cols=12 Identities=8% Similarity=0.335 Sum_probs=6.7
Q ss_pred cCcccCcchhhc
Q psy4065 113 RPFQCDVCNQGF 124 (348)
Q Consensus 113 ~~~~C~~C~~~f 124 (348)
.|..|++||+.|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 455555555555
No 151
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.44 E-value=4.5 Score=29.59 Aligned_cols=44 Identities=23% Similarity=0.388 Sum_probs=25.7
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHH
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREH 57 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~ 57 (348)
-+|++|....+-...+.-=+..-+. .+.|--|..||..|.+...
T Consensus 40 ~qcp~csasirgd~~vegvlglg~d-------ye~psfchncgs~fpwter 83 (160)
T COG4306 40 TQCPICSASIRGDYYVEGVLGLGGD-------YEPPSFCHNCGSRFPWTER 83 (160)
T ss_pred hcCCccCCcccccceeeeeeccCCC-------CCCcchhhcCCCCCCcHHH
Confidence 3677777765433222211111122 4567789999999998753
No 152
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=51.20 E-value=11 Score=22.84 Aligned_cols=39 Identities=18% Similarity=0.480 Sum_probs=22.5
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCG 49 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~ 49 (348)
.+.+.|..||..|..-..=...... -+. ...|-.|+.|.
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~fy~e-Kgf------~n~p~RC~~CR 40 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQKFYAE-KGF------DNEPKRCPSCR 40 (49)
T ss_pred CeeEEcccCCCeEEEehhHHHHHHh-cCC------cCCCccCHHHH
Confidence 4678899999988644443333222 110 23466777774
No 153
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=50.73 E-value=9.8 Score=28.38 Aligned_cols=22 Identities=23% Similarity=0.276 Sum_probs=18.5
Q ss_pred ccccccccccCChHHHHHHHHHhcC
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHD 31 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~ 31 (348)
..|-++|+.| .+|++|+.+||+
T Consensus 77 IicLEDGkkf---KSLKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKF---KSLKRHLTTHYG 98 (148)
T ss_pred EEEeccCcch---HHHHHHHhcccC
Confidence 4688899987 578999999887
No 154
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=50.67 E-value=14 Score=21.37 Aligned_cols=25 Identities=24% Similarity=0.632 Sum_probs=18.0
Q ss_pred CccccccccccCC--HHHHHHHHHHhh
Q psy4065 42 PFSCSVCGKTFTR--REHLRRHQQIHA 66 (348)
Q Consensus 42 ~~~C~~C~~~f~~--~~~l~~H~~~h~ 66 (348)
.-.|+.||+.|.. ..+...|.+-|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 4589999988764 456777877664
No 155
>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=50.54 E-value=6.7 Score=19.76 Aligned_cols=10 Identities=40% Similarity=1.009 Sum_probs=6.8
Q ss_pred Cccccccccc
Q psy4065 5 RPFQCDVCNQ 14 (348)
Q Consensus 5 ~~y~C~~C~~ 14 (348)
.+|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4677777763
No 156
>KOG4167|consensus
Probab=50.32 E-value=5.4 Score=38.56 Aligned_cols=27 Identities=22% Similarity=0.425 Sum_probs=20.2
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCC
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHD 139 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~ 139 (348)
..|.|++|++.|...+++..||++|.-
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 457888888888888888888866643
No 157
>COG1773 Rubredoxin [Energy production and conversion]
Probab=47.02 E-value=8.3 Score=23.98 Aligned_cols=13 Identities=23% Similarity=0.805 Sum_probs=10.0
Q ss_pred CcccccccccccC
Q psy4065 5 RPFQCDVCNQGFV 17 (348)
Q Consensus 5 ~~y~C~~C~~~f~ 17 (348)
+.|+|..||+.|.
T Consensus 2 ~~~~C~~CG~vYd 14 (55)
T COG1773 2 KRWRCSVCGYVYD 14 (55)
T ss_pred CceEecCCceEec
Confidence 4688888888874
No 158
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=46.56 E-value=5 Score=24.94 Aligned_cols=31 Identities=19% Similarity=0.506 Sum_probs=20.0
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccccccc
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTF 52 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f 52 (348)
.|+|+.|+..+.-.... ...-..|+.||..+
T Consensus 2 ~~~CP~CG~~iev~~~~----------------~GeiV~Cp~CGael 32 (54)
T TIGR01206 2 QFECPDCGAEIELENPE----------------LGELVICDECGAEL 32 (54)
T ss_pred ccCCCCCCCEEecCCCc----------------cCCEEeCCCCCCEE
Confidence 47899999976322111 12356899999765
No 159
>KOG4118|consensus
Probab=46.35 E-value=13 Score=23.78 Aligned_cols=28 Identities=25% Similarity=0.555 Sum_probs=25.5
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcCCCC
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHNIDP 315 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~~~~ 315 (348)
|+|.+|-..-.....+..|..+.|..++
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~~ 66 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKEP 66 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCCC
Confidence 8999999999999999999999996653
No 160
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=44.26 E-value=26 Score=21.86 Aligned_cols=30 Identities=27% Similarity=0.584 Sum_probs=22.5
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHHHHHH
Q psy4065 20 EHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHLRRH 61 (348)
Q Consensus 20 ~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H 61 (348)
..|...++..| +-|-+||..|.....|.++
T Consensus 17 ~~l~~YLR~~~------------~YC~~Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 17 DKLLSYLREEH------------NYCFWCGTKYDDEEDLERN 46 (55)
T ss_pred HHHHHHHHhhC------------ceeeeeCCccCCHHHHHhC
Confidence 45566666555 4899999999999888654
No 161
>KOG2636|consensus
Probab=43.00 E-value=9.3 Score=34.74 Aligned_cols=23 Identities=26% Similarity=0.639 Sum_probs=19.7
Q ss_pred CCcchhhH-HhhhhhHHHHHHHHH
Q psy4065 287 IPKCDVCK-KVFSRRSHLLRHLKR 309 (348)
Q Consensus 287 ~y~C~~C~-~~f~~~~~L~~H~~~ 309 (348)
-|.|.||| ++|..+..|.+|...
T Consensus 401 ey~CEICGNy~Y~GrkaF~RHF~E 424 (497)
T KOG2636|consen 401 EYNCEICGNYVYKGRKAFDRHFNE 424 (497)
T ss_pred ccceeeccCccccCcHHHHHHhHH
Confidence 39999999 999999999988653
No 162
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=42.85 E-value=11 Score=26.02 Aligned_cols=15 Identities=40% Similarity=0.853 Sum_probs=12.0
Q ss_pred CCcccccccccccCC
Q psy4065 4 VRPFQCDVCNQGFVR 18 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~ 18 (348)
.+|-+|..||+.|.+
T Consensus 56 v~Pa~CkkCGfef~~ 70 (97)
T COG3357 56 VRPARCKKCGFEFRD 70 (97)
T ss_pred ecChhhcccCccccc
Confidence 357799999999864
No 163
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=42.10 E-value=7.5 Score=24.48 Aligned_cols=42 Identities=26% Similarity=0.631 Sum_probs=25.7
Q ss_pred CCcccccc--cccccCChHHHHHHHHHhcCCCCCCCCCCCCccccc----cccccCC
Q psy4065 4 VRPFQCDV--CNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSV----CGKTFTR 54 (348)
Q Consensus 4 ~~~y~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~----C~~~f~~ 54 (348)
..+..|+. |...+. +..|..|+...-+ .....|++ |+..+..
T Consensus 7 ~~~v~C~~~cc~~~i~-r~~l~~H~~~~C~--------~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMIP-RKELDDHLENECP--------KRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp TSEEE-TT--S-BEEE-CCCHHHHHHTTST--------TSEEE-SS----S--EEEH
T ss_pred CCEeeCCCCCccccee-HHHHHHHHHccCC--------CCcEECCCCCCCCCCccch
Confidence 45678888 545444 7799999885554 56788999 8877643
No 164
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=41.43 E-value=19 Score=33.51 Aligned_cols=29 Identities=24% Similarity=0.509 Sum_probs=25.5
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCC
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLD 141 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~ 141 (348)
+.|.|+.|.+.|.+...+..|+...|...
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 45889999999999999999999888643
No 165
>PRK04023 DNA polymerase II large subunit; Validated
Probab=40.80 E-value=20 Score=36.51 Aligned_cols=12 Identities=33% Similarity=0.728 Sum_probs=7.9
Q ss_pred CCCccccccccc
Q psy4065 40 AKPFSCSVCGKT 51 (348)
Q Consensus 40 ~~~~~C~~C~~~ 51 (348)
.....|+.||..
T Consensus 624 Vg~RfCpsCG~~ 635 (1121)
T PRK04023 624 IGRRKCPSCGKE 635 (1121)
T ss_pred ccCccCCCCCCc
Confidence 445677777766
No 166
>KOG1842|consensus
Probab=39.28 E-value=19 Score=32.79 Aligned_cols=44 Identities=20% Similarity=0.104 Sum_probs=32.5
Q ss_pred CcchhhHHhhhhhHHHHHHHHHhcCCCCCCCcccCCCchhHHHH
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRLHNIDPPPSSRNKQVPTYYLLK 331 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~H~~~~p~~~~~~~~~~~~~~~ 331 (348)
|-|++|..-|.+...|..|+..-|..+......-.-...+....
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~ed~~D~lgs~~s~~~~~k 59 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFEEDEKDSLGSFKSRVLNGK 59 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhccccchhhHhhhHHHHHHhHH
Confidence 88999999999999999999999988764433333333333333
No 167
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=39.27 E-value=14 Score=21.20 Aligned_cols=14 Identities=29% Similarity=0.750 Sum_probs=10.9
Q ss_pred cccccccccccCCh
Q psy4065 6 PFQCDVCNQGFVRK 19 (348)
Q Consensus 6 ~y~C~~C~~~f~~~ 19 (348)
||.|..|+..|=..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78898898888544
No 168
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=38.63 E-value=19 Score=32.86 Aligned_cols=31 Identities=19% Similarity=0.484 Sum_probs=23.3
Q ss_pred cccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHH
Q psy4065 8 QCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREH 57 (348)
Q Consensus 8 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~ 57 (348)
.|+.||.. +..-+ ...|+|+-||+.+.....
T Consensus 352 ~Cp~Cg~~-----------m~S~G--------~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPRCGGR-----------MKSAG--------RNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCccCCc-----------hhhcC--------CCCcccccccccCCcccc
Confidence 89999996 33333 338999999999877654
No 169
>KOG0717|consensus
Probab=38.39 E-value=13 Score=34.05 Aligned_cols=23 Identities=30% Similarity=0.502 Sum_probs=21.3
Q ss_pred CcchhhHHhhhhhHHHHHHHHHh
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
+.|.+|+++|.+...|..|.++.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSK 315 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSK 315 (508)
T ss_pred eEEeeccccccchHHHHhhHHHH
Confidence 67999999999999999998875
No 170
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.78 E-value=6.1 Score=32.45 Aligned_cols=48 Identities=19% Similarity=0.310 Sum_probs=27.5
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCC--CCCCC-----ccccccccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEG--AEAKP-----FSCSVCGKT 51 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~--~~~~~-----~~C~~C~~~ 51 (348)
.+.+.||+|+..|..+..+..-.+..-+.-.-.. ....| +.||.|.++
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred hceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 3578999999999877655554443322000000 01112 469999976
No 171
>KOG1994|consensus
Probab=37.62 E-value=12 Score=30.73 Aligned_cols=21 Identities=19% Similarity=0.336 Sum_probs=19.4
Q ss_pred CCcchhhHHhhhhhHHHHHHH
Q psy4065 287 IPKCDVCKKVFSRRSHLLRHL 307 (348)
Q Consensus 287 ~y~C~~C~~~f~~~~~L~~H~ 307 (348)
.|.|-+||..|.+..+|..|.
T Consensus 239 h~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 239 HYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred ceEEEEeccccCCHHHHHHhC
Confidence 399999999999999999885
No 172
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=37.52 E-value=23 Score=27.67 Aligned_cols=42 Identities=21% Similarity=0.534 Sum_probs=25.3
Q ss_pred ccccccccccC--ChHHHHH-----HHHHhcCCCCCCCCCCCCccccccccccCCHHHH
Q psy4065 7 FQCDVCNQGFV--RKEHLVR-----HRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHL 58 (348)
Q Consensus 7 y~C~~C~~~f~--~~~~l~~-----H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~l 58 (348)
=+|+.|+.... ++..... |...+ ...|.|+.||+.|=--++.
T Consensus 98 ~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~----------~~f~~C~~CgkiYW~GsHw 146 (165)
T COG1656 98 SRCPECNGELEKVSREEVKEKVPEKVYRNY----------EEFYRCPKCGKIYWKGSHW 146 (165)
T ss_pred ccCcccCCEeccCcHHHHhhccchhhhhcc----------cceeECCCCcccccCchHH
Confidence 37999998653 3443331 22222 3568899999987444443
No 173
>KOG3792|consensus
Probab=37.38 E-value=33 Score=33.37 Aligned_cols=58 Identities=10% Similarity=0.131 Sum_probs=35.8
Q ss_pred cccCcchhhcCCHHHHHHHHHHhCCC----CCCCCCC--CCCccccccccccCCHHHHHHHHHH
Q psy4065 115 FQCDVCNQGFVRKEHLVRHRKRAHDL----DPPEGAE--AKPFSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 115 ~~C~~C~~~f~~~~~L~~H~~~~h~~----~~~~~~~--~~~~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
..|.+|.....-.+..+.|++..-.. ..+.... ..-+.|.+|--+.+.......|++.
T Consensus 194 ~~~kw~k~~a~G~qs~re~lr~~r~l~krvpt~~~~kgw~~el~cEksi~tcs~pd~~g~alRr 257 (816)
T KOG3792|consen 194 HYCKWCKISAAGPQTYREHLRGQKHLKKEVPTNGPLKGWPLELHCEKSIVTCSGPDAYGAALRR 257 (816)
T ss_pred hhhHHHHHhccccHHHHHHHHHHHHHHhccCCCCCcccchHHHHHHHhhccccCccchHHHHHH
Confidence 57899999999999988888653321 1111111 1124677777776666666666644
No 174
>KOG4727|consensus
Probab=36.81 E-value=13 Score=28.94 Aligned_cols=23 Identities=30% Similarity=0.556 Sum_probs=21.3
Q ss_pred CcchhhHHhhhhhHHHHHHHHHh
Q psy4065 288 PKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 288 y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
|.|.+|+.+|..--++.-||+-.
T Consensus 76 yyCdVCdcvvKDSinflDHiNgK 98 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHINGK 98 (193)
T ss_pred eeeeecceeehhhHHHHHHhccH
Confidence 99999999999999999999754
No 175
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=36.06 E-value=33 Score=24.41 Aligned_cols=28 Identities=25% Similarity=0.377 Sum_probs=23.9
Q ss_pred CCCCCCcchhhHHhhhhhHHHHHHHHHh
Q psy4065 283 PPKPIPKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 283 ~~~~~y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
++...+.|-.|.+-|-+...|..|.+..
T Consensus 51 PGlGqhYCieCaryf~t~~aL~~Hkkgk 78 (126)
T COG5112 51 PGLGQHYCIECARYFITEKALMEHKKGK 78 (126)
T ss_pred CCCceeeeehhHHHHHHHHHHHHHhccc
Confidence 4556689999999999999999998753
No 176
>KOG3214|consensus
Probab=35.90 E-value=8.6 Score=26.96 Aligned_cols=40 Identities=23% Similarity=0.528 Sum_probs=21.9
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHH
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRRE 56 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~ 56 (348)
..|.|++|+-.- .+..-+...+. .....|.+|+..|.+.-
T Consensus 22 t~FnClfcnHek----~v~~~~Dk~~~--------iG~~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 22 TQFNCLFCNHEK----SVSCTLDKKHN--------IGKASCRICEESFQTTI 61 (109)
T ss_pred eeeccCcccccc----ceeeeehhhcC--------cceeeeeehhhhhccch
Confidence 457777777532 22222222232 34556888888877654
No 177
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=35.87 E-value=2.8 Score=29.40 Aligned_cols=38 Identities=21% Similarity=0.520 Sum_probs=24.7
Q ss_pred ccCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccC
Q psy4065 112 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 161 (348)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 161 (348)
++.|.|+.|+..-.+.-.+. .. .......|..||.+|.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvk----k~--------~~~g~~~Cg~CGls~e 57 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVK----KT--------VNIGTAVCGNCGLSFE 57 (104)
T ss_pred CceEecCccCCeeeeEEEEE----ec--------CceeEEEcccCcceEE
Confidence 37899999997655432211 11 1355679999999873
No 178
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.77 E-value=19 Score=35.54 Aligned_cols=11 Identities=18% Similarity=0.742 Sum_probs=8.3
Q ss_pred cCcccCcchhh
Q psy4065 113 RPFQCDVCNQG 123 (348)
Q Consensus 113 ~~~~C~~C~~~ 123 (348)
.++.|+.|+..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 35789999865
No 179
>PTZ00448 hypothetical protein; Provisional
Probab=35.39 E-value=19 Score=32.08 Aligned_cols=25 Identities=12% Similarity=0.316 Sum_probs=22.9
Q ss_pred CCcchhhHHhhhhhHHHHHHHHHhc
Q psy4065 287 IPKCDVCKKVFSRRSHLLRHLKRLH 311 (348)
Q Consensus 287 ~y~C~~C~~~f~~~~~L~~H~~~~H 311 (348)
.|.|..|+..|.+....+.|+++-+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDw 338 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEW 338 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhH
Confidence 5899999999999999999999863
No 180
>KOG1842|consensus
Probab=34.39 E-value=26 Score=32.02 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=24.5
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCC
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDL 140 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~ 140 (348)
..|.|++|..-|.+...|..|+...|..
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccc
Confidence 5689999999999999999999888873
No 181
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=33.95 E-value=19 Score=26.91 Aligned_cols=14 Identities=29% Similarity=0.904 Sum_probs=7.0
Q ss_pred ccccccccccCCHH
Q psy4065 43 FSCSVCGKTFTRRE 56 (348)
Q Consensus 43 ~~C~~C~~~f~~~~ 56 (348)
++|..||..|..-+
T Consensus 2 H~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 2 HQCTKCGRVFEDGS 15 (131)
T ss_pred cccCcCCCCcCCCc
Confidence 44555555555443
No 182
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=33.41 E-value=16 Score=19.57 Aligned_cols=12 Identities=25% Similarity=0.805 Sum_probs=8.7
Q ss_pred CCCccccccccc
Q psy4065 148 AKPFSCSVCGKT 159 (348)
Q Consensus 148 ~~~~~C~~C~~~ 159 (348)
...|.|+.|+..
T Consensus 17 ~~~~vCp~C~~e 28 (30)
T PF08274_consen 17 GELLVCPECGHE 28 (30)
T ss_dssp SSSEEETTTTEE
T ss_pred CCEEeCCccccc
Confidence 467888888764
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=32.95 E-value=45 Score=18.34 Aligned_cols=26 Identities=12% Similarity=0.347 Sum_probs=16.4
Q ss_pred CcccccccccccCChHHHHHHHHHhcC
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHD 31 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~ 31 (348)
..+.|+.|++.+. ...+..|+..-.+
T Consensus 3 ~~~~C~nC~R~v~-a~RfA~HLekCmg 28 (33)
T PF08209_consen 3 PYVECPNCGRPVA-ASRFAPHLEKCMG 28 (33)
T ss_dssp -EEE-TTTSSEEE-GGGHHHHHHHHTC
T ss_pred CeEECCCCcCCcc-hhhhHHHHHHHHc
Confidence 4577888888643 6677777766543
No 184
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=32.79 E-value=9 Score=23.63 Aligned_cols=36 Identities=17% Similarity=0.387 Sum_probs=21.1
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
+++..|+.||...+ ++..-.+.- .+.+..|+-|...
T Consensus 2 ~~Wi~CP~CgnKTR----~kir~DT~L--------kNfPlyCpKCK~E 37 (55)
T PF14205_consen 2 SEWILCPICGNKTR----LKIREDTVL--------KNFPLYCPKCKQE 37 (55)
T ss_pred CeEEECCCCCCccc----eeeecCcee--------ccccccCCCCCce
Confidence 35678999997432 222111111 3678889988654
No 185
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=32.21 E-value=21 Score=25.36 Aligned_cols=23 Identities=26% Similarity=0.593 Sum_probs=20.6
Q ss_pred cCcccCcchhhcCCHHHHHHHHH
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRK 135 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~ 135 (348)
..+.|..|.+.|.+...|..|.+
T Consensus 54 GqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhc
Confidence 45889999999999999999985
No 186
>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=32.12 E-value=18 Score=21.78 Aligned_cols=11 Identities=36% Similarity=0.942 Sum_probs=7.5
Q ss_pred ccccccccccC
Q psy4065 7 FQCDVCNQGFV 17 (348)
Q Consensus 7 y~C~~C~~~f~ 17 (348)
|+|..|++.+.
T Consensus 2 y~C~~CgyvYd 12 (47)
T PF00301_consen 2 YQCPVCGYVYD 12 (47)
T ss_dssp EEETTTSBEEE
T ss_pred cCCCCCCEEEc
Confidence 67777777664
No 187
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=32.11 E-value=17 Score=33.99 Aligned_cols=28 Identities=21% Similarity=0.353 Sum_probs=20.4
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCC
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 54 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 54 (348)
..|+|..||+.+ . .-.++|+.|+.+=.-
T Consensus 6 ~~y~C~~Cg~~~----------~------------~~~g~Cp~C~~w~t~ 33 (454)
T TIGR00416 6 SKFVCQHCGADS----------P------------KWQGKCPACHAWNTI 33 (454)
T ss_pred CeEECCcCCCCC----------c------------cccEECcCCCCcccc
Confidence 359999999975 2 234699999877433
No 188
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=31.87 E-value=19 Score=26.34 Aligned_cols=12 Identities=25% Similarity=0.230 Sum_probs=7.7
Q ss_pred cccccccccccC
Q psy4065 6 PFQCDVCNQGFV 17 (348)
Q Consensus 6 ~y~C~~C~~~f~ 17 (348)
.++|..|+..|.
T Consensus 70 ~~~C~~Cg~~~~ 81 (113)
T PRK12380 70 QAWCWDCSQVVE 81 (113)
T ss_pred EEEcccCCCEEe
Confidence 456777776653
No 189
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=31.86 E-value=32 Score=21.44 Aligned_cols=16 Identities=25% Similarity=0.501 Sum_probs=12.3
Q ss_pred CCCccccccccccCCH
Q psy4065 40 AKPFSCSVCGKTFTRR 55 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~ 55 (348)
...|.|+.||..+-..
T Consensus 12 ~v~~~Cp~cGipthcS 27 (55)
T PF13824_consen 12 HVNFECPDCGIPTHCS 27 (55)
T ss_pred ccCCcCCCCCCcCccC
Confidence 5679999999886543
No 190
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=31.68 E-value=29 Score=27.03 Aligned_cols=22 Identities=23% Similarity=0.567 Sum_probs=19.6
Q ss_pred ccccccccccCCHHHHHHHHHH
Q psy4065 151 FSCSVCGKTFTRREHLRRHQQI 172 (348)
Q Consensus 151 ~~C~~C~~~f~~~~~L~~H~~~ 172 (348)
|.|.+|.+..-....+..|+.+
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS 22 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLES 22 (165)
T ss_pred CccceeeeecccHHHHHHHHcc
Confidence 6899999999999999999865
No 191
>KOG2807|consensus
Probab=31.58 E-value=72 Score=27.99 Aligned_cols=63 Identities=24% Similarity=0.504 Sum_probs=43.5
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCC---C----------------CCCCCCCccccccccccCCHHHHHHHHHH
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDP---P----------------EGAEAKPFSCSVCGKTFTRREHLRRHQQI 64 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~---~----------------~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 64 (348)
+=|-.|+.|+-+....-.|.+-+.-..+... . +......|.|..|.-.|--..+.-.|-..
T Consensus 288 sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesL 367 (378)
T KOG2807|consen 288 SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESL 367 (378)
T ss_pred cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhh
Confidence 3477899999998888888876444433221 0 11234568888898888888888888776
Q ss_pred hh
Q psy4065 65 HA 66 (348)
Q Consensus 65 h~ 66 (348)
|.
T Consensus 368 h~ 369 (378)
T KOG2807|consen 368 HN 369 (378)
T ss_pred hc
Confidence 64
No 192
>KOG0402|consensus
Probab=30.93 E-value=18 Score=24.43 Aligned_cols=31 Identities=19% Similarity=0.660 Sum_probs=21.0
Q ss_pred cCcccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccC
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 161 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 161 (348)
..|.|.+||+...... ...-+.|.-|.+.+.
T Consensus 35 aky~CsfCGK~~vKR~------------------AvGiW~C~~C~kv~a 65 (92)
T KOG0402|consen 35 AKYTCSFCGKKTVKRK------------------AVGIWKCGSCKKVVA 65 (92)
T ss_pred hhhhhhhcchhhhhhh------------------ceeEEecCCccceec
Confidence 5689999997643221 145688888888763
No 193
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=30.79 E-value=8.2 Score=20.28 Aligned_cols=20 Identities=25% Similarity=0.635 Sum_probs=11.8
Q ss_pred ccccccccccCChHHHHHHHH
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRK 27 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~ 27 (348)
|-|.-|++.| ....++.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 4577888888 5566666643
No 194
>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=30.71 E-value=18 Score=22.31 Aligned_cols=14 Identities=21% Similarity=0.916 Sum_probs=7.4
Q ss_pred cccccccccCCHHH
Q psy4065 152 SCSVCGKTFTRREH 165 (348)
Q Consensus 152 ~C~~C~~~f~~~~~ 165 (348)
.|++|++.|.....
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 89999999865443
No 195
>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=30.63 E-value=17 Score=21.26 Aligned_cols=16 Identities=38% Similarity=0.960 Sum_probs=9.2
Q ss_pred CcccccccccccCChH
Q psy4065 5 RPFQCDVCNQGFVRKE 20 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~ 20 (348)
-||.|..|+..|=...
T Consensus 12 ~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH 27 (43)
T ss_dssp SHEE-TTTS-EE-TTT
T ss_pred CCeECCCCCcccCccc
Confidence 4788888888885443
No 196
>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=30.53 E-value=22 Score=21.70 Aligned_cols=12 Identities=17% Similarity=0.780 Sum_probs=8.9
Q ss_pred ccccccccccCC
Q psy4065 7 FQCDVCNQGFVR 18 (348)
Q Consensus 7 y~C~~C~~~f~~ 18 (348)
|+|..|++.+.-
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 778888887753
No 197
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=30.29 E-value=6.8 Score=23.50 Aligned_cols=37 Identities=19% Similarity=0.377 Sum_probs=22.9
Q ss_pred cccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccc--cccccCC
Q psy4065 8 QCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSV--CGKTFTR 54 (348)
Q Consensus 8 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~--C~~~f~~ 54 (348)
.|+.||..-..+..-..+ ... .+.-|+|.. ||..|..
T Consensus 1 ~CP~Cg~~a~ir~S~~~s-~~~---------~~~Y~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLS-PLT---------RELYCQCTNPECGHTFVA 39 (47)
T ss_pred CcCCCCCeeEEEEchhhC-cce---------EEEEEEECCCcCCCEEEE
Confidence 488888866555444443 111 245678888 8888753
No 198
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.11 E-value=26 Score=23.31 Aligned_cols=9 Identities=22% Similarity=1.036 Sum_probs=5.1
Q ss_pred ccccccccc
Q psy4065 7 FQCDVCNQG 15 (348)
Q Consensus 7 y~C~~C~~~ 15 (348)
|+|..|+..
T Consensus 13 Y~c~~cg~~ 21 (82)
T COG2331 13 YECTECGNR 21 (82)
T ss_pred EeecccchH
Confidence 556666554
No 199
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=29.89 E-value=9 Score=37.91 Aligned_cols=38 Identities=24% Similarity=0.469 Sum_probs=20.8
Q ss_pred CcccCcchhhcCC---HHHHHHHHHHhCCCCCCCCCCCCCccccccccc
Q psy4065 114 PFQCDVCNQGFVR---KEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 159 (348)
Q Consensus 114 ~~~C~~C~~~f~~---~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 159 (348)
.+.|+.|+..+.- ...|..|...++. ..|..|+.||-.
T Consensus 444 v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~--------~~p~~Cp~Cgs~ 484 (730)
T COG1198 444 IAECPNCDSPLTLHKATGQLRCHYCGYQE--------PIPQSCPECGSE 484 (730)
T ss_pred cccCCCCCcceEEecCCCeeEeCCCCCCC--------CCCCCCCCCCCC
Confidence 3566777654332 1234444333332 578888888865
No 200
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=29.88 E-value=19 Score=32.93 Aligned_cols=31 Identities=19% Similarity=0.449 Sum_probs=23.3
Q ss_pred ccCcchhhcCCHHHHHHHHHHhCCCCCCCCCCCCCccccccccccCCHHH
Q psy4065 116 QCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREH 165 (348)
Q Consensus 116 ~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~ 165 (348)
.|+.||.+..+.. ...|+|+.|++.+.....
T Consensus 352 ~Cp~Cg~~m~S~G-------------------~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPRCGGRMKSAG-------------------RNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCccCCchhhcC-------------------CCCcccccccccCCcccc
Confidence 6999998755422 238999999999876554
No 201
>PRK11823 DNA repair protein RadA; Provisional
Probab=29.02 E-value=25 Score=32.83 Aligned_cols=28 Identities=21% Similarity=0.382 Sum_probs=20.4
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccC
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFT 53 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~ 53 (348)
...|+|..||+.+ . .-.++|+.|+.+=.
T Consensus 5 ~~~y~C~~Cg~~~----------~------------~~~g~Cp~C~~w~t 32 (446)
T PRK11823 5 KTAYVCQECGAES----------P------------KWLGRCPECGAWNT 32 (446)
T ss_pred CCeEECCcCCCCC----------c------------ccCeeCcCCCCccc
Confidence 3469999999975 2 23469999987633
No 202
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.63 E-value=24 Score=26.32 Aligned_cols=13 Identities=23% Similarity=0.460 Sum_probs=8.7
Q ss_pred cccccccccccCCh
Q psy4065 6 PFQCDVCNQGFVRK 19 (348)
Q Consensus 6 ~y~C~~C~~~f~~~ 19 (348)
.+.| .|+..|...
T Consensus 70 ~~~C-~Cg~~~~~~ 82 (124)
T PRK00762 70 EIEC-ECGYEGVVD 82 (124)
T ss_pred eEEe-eCcCccccc
Confidence 4678 888776543
No 203
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=27.62 E-value=56 Score=19.86 Aligned_cols=22 Identities=23% Similarity=0.466 Sum_probs=16.3
Q ss_pred CCCcchhhHHhhhhhHHHHHHHHHh
Q psy4065 286 PIPKCDVCKKVFSRRSHLLRHLKRL 310 (348)
Q Consensus 286 ~~y~C~~C~~~f~~~~~L~~H~~~~ 310 (348)
++-.|+.|...|. .|..|+..-
T Consensus 4 k~GYCE~Cr~kfd---~l~~Hi~s~ 25 (49)
T smart00586 4 KPGYCENCREKYD---DLETHLLSE 25 (49)
T ss_pred CCcccccHhHHHh---hHHHHhccH
Confidence 4557999999987 566787654
No 204
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=27.10 E-value=23 Score=32.17 Aligned_cols=24 Identities=21% Similarity=0.382 Sum_probs=17.7
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCcccccccccc
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTF 52 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f 52 (348)
|.|..||+.+. .-..+|+.|+.+=
T Consensus 1 ~~c~~cg~~~~----------------------~~~g~cp~c~~w~ 24 (372)
T cd01121 1 YVCSECGYVSP----------------------KWLGKCPECGEWN 24 (372)
T ss_pred CCCCCCCCCCC----------------------CccEECcCCCCce
Confidence 78999999752 2345899998763
No 205
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.87 E-value=47 Score=34.98 Aligned_cols=7 Identities=29% Similarity=1.080 Sum_probs=3.9
Q ss_pred ccCcchh
Q psy4065 116 QCDVCNQ 122 (348)
Q Consensus 116 ~C~~C~~ 122 (348)
.|+.|+.
T Consensus 711 ~CP~CGt 717 (1337)
T PRK14714 711 ECPRCDV 717 (1337)
T ss_pred cCCCCCC
Confidence 4666663
No 206
>KOG1994|consensus
Probab=26.84 E-value=32 Score=28.32 Aligned_cols=21 Identities=24% Similarity=0.577 Sum_probs=18.1
Q ss_pred cCcccCcchhhcCCHHHHHHH
Q psy4065 113 RPFQCDVCNQGFVRKEHLVRH 133 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~~H 133 (348)
.-|.|-+||..|.+...|..|
T Consensus 238 eh~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred cceEEEEeccccCCHHHHHHh
Confidence 458999999999999988755
No 207
>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=26.67 E-value=24 Score=27.26 Aligned_cols=49 Identities=18% Similarity=0.230 Sum_probs=24.0
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCCHHH
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREH 57 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~ 57 (348)
.-+|..|+..+.....-.. ...-+ +..-......|.|+.||+.|=.-++
T Consensus 91 ~sRC~~CN~~L~~v~~~~v--~~~vp-~~v~~~~~~f~~C~~C~kiyW~GsH 139 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEV--KDRVP-PYVYETYDEFWRCPGCGKIYWEGSH 139 (147)
T ss_pred CCccCCCCcEeeechhhcc--ccccC-ccccccCCeEEECCCCCCEeccccc
Confidence 3589999986643221100 00000 0011112347889999988744333
No 208
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=26.30 E-value=22 Score=21.77 Aligned_cols=25 Identities=20% Similarity=0.522 Sum_probs=9.8
Q ss_pred CCccccccccccCCHHHHHHHHHHh
Q psy4065 41 KPFSCSVCGKTFTRREHLRRHQQIH 65 (348)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~~~h 65 (348)
..|.|+.|...|-..-++-.|...|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CeEECCCCCCccccCcChhhhcccc
Confidence 3456666665555555554444433
No 209
>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=25.82 E-value=41 Score=21.85 Aligned_cols=16 Identities=31% Similarity=0.839 Sum_probs=11.8
Q ss_pred CCCccccccccccCCH
Q psy4065 40 AKPFSCSVCGKTFTRR 55 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~ 55 (348)
...|.|+.||+.+..-
T Consensus 44 ~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 44 GRVFTCPNCGFEMDRD 59 (69)
T ss_pred cceEEcCCCCCEECcH
Confidence 4678899998876544
No 210
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=25.78 E-value=26 Score=25.76 Aligned_cols=11 Identities=18% Similarity=0.745 Sum_probs=6.7
Q ss_pred ccccccccccC
Q psy4065 7 FQCDVCNQGFV 17 (348)
Q Consensus 7 y~C~~C~~~f~ 17 (348)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 46666666553
No 211
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=25.09 E-value=7.7 Score=22.33 Aligned_cols=12 Identities=33% Similarity=1.010 Sum_probs=7.5
Q ss_pred CCCccccccccc
Q psy4065 40 AKPFSCSVCGKT 51 (348)
Q Consensus 40 ~~~~~C~~C~~~ 51 (348)
.+.|.|.+|+..
T Consensus 22 ~~~w~C~~C~~~ 33 (40)
T PF04810_consen 22 GKTWICNFCGTK 33 (40)
T ss_dssp TTEEEETTT--E
T ss_pred CCEEECcCCCCc
Confidence 467888888764
No 212
>KOG4727|consensus
Probab=25.03 E-value=55 Score=25.67 Aligned_cols=28 Identities=14% Similarity=0.336 Sum_probs=24.1
Q ss_pred CCCCCCCccccccccccCCHHHHHHHHH
Q psy4065 36 EGAEAKPFSCSVCGKTFTRREHLRRHQQ 63 (348)
Q Consensus 36 ~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 63 (348)
+..+...|.|.+|+-+|....++..|+.
T Consensus 69 p~sq~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 69 PRSQKGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cccccCceeeeecceeehhhHHHHHHhc
Confidence 3456678999999999999999999985
No 213
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=24.66 E-value=44 Score=31.60 Aligned_cols=16 Identities=25% Similarity=0.474 Sum_probs=12.1
Q ss_pred CCCcccccccccccCC
Q psy4065 3 VVRPFQCDVCNQGFVR 18 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~ 18 (348)
..+.|+|..|++.+.-
T Consensus 422 ~~~~~~c~~c~~~yd~ 437 (479)
T PRK05452 422 LGPRMQCSVCQWIYDP 437 (479)
T ss_pred CCCeEEECCCCeEECC
Confidence 3567889999988753
No 214
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=24.34 E-value=25 Score=19.79 Aligned_cols=13 Identities=15% Similarity=0.521 Sum_probs=6.6
Q ss_pred CCccccccccccc
Q psy4065 4 VRPFQCDVCNQGF 16 (348)
Q Consensus 4 ~~~y~C~~C~~~f 16 (348)
.+.|+|..||..+
T Consensus 4 ~~~YkC~~CGniV 16 (36)
T PF06397_consen 4 GEFYKCEHCGNIV 16 (36)
T ss_dssp TEEEE-TTT--EE
T ss_pred ccEEEccCCCCEE
Confidence 3568888888754
No 215
>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=24.15 E-value=28 Score=20.10 Aligned_cols=12 Identities=33% Similarity=1.096 Sum_probs=9.3
Q ss_pred CCcccccccccc
Q psy4065 41 KPFSCSVCGKTF 52 (348)
Q Consensus 41 ~~~~C~~C~~~f 52 (348)
..-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 357899998876
No 216
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.98 E-value=47 Score=26.51 Aligned_cols=31 Identities=23% Similarity=0.630 Sum_probs=18.0
Q ss_pred CCcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 4 VRPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 4 ~~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
+.-|.|+.|...|....++ ...|.|+.||..
T Consensus 111 ~~~y~C~~~~~r~sfdeA~-----------------~~~F~Cp~Cg~~ 141 (176)
T COG1675 111 NNYYVCPNCHVKYSFDEAM-----------------ELGFTCPKCGED 141 (176)
T ss_pred CCceeCCCCCCcccHHHHH-----------------HhCCCCCCCCch
Confidence 4567777777655433322 123788888755
No 217
>KOG2636|consensus
Probab=23.44 E-value=56 Score=30.01 Aligned_cols=21 Identities=29% Similarity=0.879 Sum_probs=10.0
Q ss_pred Cccccccc-cccCCHHHHHHHH
Q psy4065 42 PFSCSVCG-KTFTRREHLRRHQ 62 (348)
Q Consensus 42 ~~~C~~C~-~~f~~~~~l~~H~ 62 (348)
.|.|-+|| ++|.-...+.+|.
T Consensus 401 ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 401 EYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred ccceeeccCccccCcHHHHHHh
Confidence 34555555 4444444444444
No 218
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=23.18 E-value=36 Score=18.67 Aligned_cols=12 Identities=25% Similarity=0.473 Sum_probs=8.4
Q ss_pred cccccccccccC
Q psy4065 6 PFQCDVCNQGFV 17 (348)
Q Consensus 6 ~y~C~~C~~~f~ 17 (348)
-+.|..|+.+|.
T Consensus 21 ~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 21 YEVCIFCGSSFP 32 (33)
T ss_pred eEEcccCCcEee
Confidence 457888887764
No 219
>PTZ00448 hypothetical protein; Provisional
Probab=22.72 E-value=59 Score=29.17 Aligned_cols=22 Identities=18% Similarity=0.495 Sum_probs=12.7
Q ss_pred cccccccccccCChHHHHHHHH
Q psy4065 6 PFQCDVCNQGFVRKEHLVRHRK 27 (348)
Q Consensus 6 ~y~C~~C~~~f~~~~~l~~H~~ 27 (348)
.|.|..|+..|.+....+.|++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~K 335 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYR 335 (373)
T ss_pred CccccccccccCCHHHHHHHhh
Confidence 3556666666655556666644
No 220
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=22.65 E-value=97 Score=26.85 Aligned_cols=29 Identities=21% Similarity=0.494 Sum_probs=24.0
Q ss_pred CCCcccccccccccCChHHHHHHHHHhcC
Q psy4065 3 VVRPFQCDVCNQGFVRKEHLVRHRKRAHD 31 (348)
Q Consensus 3 ~~~~y~C~~C~~~f~~~~~l~~H~~~~h~ 31 (348)
....|.|..|-+-|.++..|.+|+....-
T Consensus 45 ~~~lyiCe~Clky~~~~~~l~~H~~~C~~ 73 (290)
T PLN03238 45 CTKLYICEYCLKYMRKKKSLLRHLAKCDI 73 (290)
T ss_pred CCeEEEcCCCcchhCCHHHHHHHHHhCCC
Confidence 35689999999999999999999775443
No 221
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.29 E-value=50 Score=20.37 Aligned_cols=18 Identities=17% Similarity=0.445 Sum_probs=10.5
Q ss_pred CCccccccccccCCHHHH
Q psy4065 41 KPFSCSVCGKTFTRREHL 58 (348)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l 58 (348)
..++|+.||..|......
T Consensus 27 v~W~C~~Cgh~w~~~v~~ 44 (55)
T PF14311_consen 27 VWWKCPKCGHEWKASVND 44 (55)
T ss_pred EEEECCCCCCeeEccHhh
Confidence 346677776666555443
No 222
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.90 E-value=53 Score=19.13 Aligned_cols=17 Identities=41% Similarity=0.866 Sum_probs=10.7
Q ss_pred ccccccccccCCHHHHH
Q psy4065 151 FSCSVCGKTFTRREHLR 167 (348)
Q Consensus 151 ~~C~~C~~~f~~~~~L~ 167 (348)
-.|.+|++.|+......
T Consensus 9 K~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKWA 25 (42)
T ss_pred CcCcccCCcchHHHHHH
Confidence 45777777776655443
No 223
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=21.37 E-value=28 Score=34.35 Aligned_cols=33 Identities=15% Similarity=0.159 Sum_probs=19.4
Q ss_pred hcccccccCCCcchhhhhhhhhhhhhhccCCCcccCcccCcchhhcCCH
Q psy4065 79 LTGLAEEVFPTPLRLDENVRRWVACQRIEGIDVVRPFQCDVCNQGFVRK 127 (348)
Q Consensus 79 ~~~~c~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~ 127 (348)
.|..|...|....++... +.+.|+.||..|-..
T Consensus 462 tC~~C~kkFfSlsK~L~~----------------RKHHCRkCGrVFC~~ 494 (1374)
T PTZ00303 462 SCPSCGRAFISLSRPLGT----------------RAHHCRSCGIRLCVF 494 (1374)
T ss_pred cccCcCCccccccccccc----------------ccccccCCccccCcc
Confidence 477777777654221111 456788888777653
No 224
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=21.24 E-value=16 Score=26.75 Aligned_cols=40 Identities=20% Similarity=0.440 Sum_probs=22.7
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccccCC
Q psy4065 7 FQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKTFTR 54 (348)
Q Consensus 7 y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~ 54 (348)
..|+.|+..=.....|+.. ..| ......|+|..||+.++.
T Consensus 73 ~~CpkCg~~ea~y~~~QtR-----saD---Ep~T~Fy~C~~Cg~~wre 112 (113)
T COG1594 73 EKCPKCGNKEAYYWQLQTR-----SAD---EPETRFYKCTRCGYRWRE 112 (113)
T ss_pred ccCCCCCCceeEEEeeehh-----ccC---CCceEEEEecccCCEeec
Confidence 5688888743222222222 111 123567999999988753
No 225
>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=21.20 E-value=32 Score=22.32 Aligned_cols=13 Identities=23% Similarity=0.618 Sum_probs=4.9
Q ss_pred cCcccCcchhhcC
Q psy4065 113 RPFQCDVCNQGFV 125 (348)
Q Consensus 113 ~~~~C~~C~~~f~ 125 (348)
+.+.|..||..|-
T Consensus 24 rrhhCr~CG~~vC 36 (69)
T PF01363_consen 24 RRHHCRNCGRVVC 36 (69)
T ss_dssp -EEE-TTT--EEE
T ss_pred eeEccCCCCCEEC
Confidence 3456666665543
No 226
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=21.04 E-value=52 Score=26.48 Aligned_cols=22 Identities=23% Similarity=0.422 Sum_probs=15.6
Q ss_pred CCCCCCC-CCcchhhHHhhhhhH
Q psy4065 280 RERPPKP-IPKCDVCKKVFSRRS 301 (348)
Q Consensus 280 ~~~~~~~-~y~C~~C~~~f~~~~ 301 (348)
....+++ ||.|.+|.+.|.+.-
T Consensus 188 ~~~~~e~IPF~C~iCKkdy~spv 210 (259)
T COG5152 188 ISGPGEKIPFLCGICKKDYESPV 210 (259)
T ss_pred ccCCCCCCceeehhchhhccchh
Confidence 3334444 899999999987764
No 227
>COG2879 Uncharacterized small protein [Function unknown]
Probab=21.02 E-value=96 Score=19.87 Aligned_cols=22 Identities=18% Similarity=0.433 Sum_probs=17.5
Q ss_pred hhhHHHHHHHHHhcCCCCCCCc
Q psy4065 298 SRRSHLLRHLKRLHNIDPPPSS 319 (348)
Q Consensus 298 ~~~~~L~~H~~~~H~~~~p~~~ 319 (348)
.+......||+.+|...||-+.
T Consensus 23 pdYdnYVehmr~~hPd~p~mT~ 44 (65)
T COG2879 23 PDYDNYVEHMRKKHPDKPPMTY 44 (65)
T ss_pred CcHHHHHHHHHHhCcCCCcccH
Confidence 3667889999999988877654
No 228
>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=20.50 E-value=26 Score=25.06 Aligned_cols=40 Identities=15% Similarity=0.291 Sum_probs=20.8
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCCCCCCCCCCccccccccc
Q psy4065 5 RPFQCDVCNQGFVRKEHLVRHRKRAHDLDPPEGAEAKPFSCSVCGKT 51 (348)
Q Consensus 5 ~~y~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~C~~C~~~ 51 (348)
||-.|+.||..... ... ...++.... .....|.|..|+.-
T Consensus 1 ~p~~CpYCg~~~~l----~~~-~~iYg~~~~--~~~~~y~C~~C~Ay 40 (102)
T PF11672_consen 1 KPIICPYCGGPAEL----VDG-SEIYGHRYD--DGPYLYVCTPCDAY 40 (102)
T ss_pred CCcccCCCCCeeEE----ccc-chhcCccCC--CCceeEECCCCCce
Confidence 57899999985322 222 222221100 01223899999754
No 229
>KOG4317|consensus
Probab=20.40 E-value=24 Score=30.56 Aligned_cols=24 Identities=17% Similarity=0.592 Sum_probs=17.2
Q ss_pred CCCccccccccccCCHHHHHHHHH
Q psy4065 40 AKPFSCSVCGKTFTRREHLRRHQQ 63 (348)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~ 63 (348)
...|+|+.|+..|-+..-.+.|--
T Consensus 17 ~~~YtCPRCn~~YCsl~CYr~h~~ 40 (383)
T KOG4317|consen 17 KREYTCPRCNLLYCSLKCYRNHKH 40 (383)
T ss_pred cccccCCCCCccceeeeeecCCCc
Confidence 345899999988877766666543
No 230
>KOG2295|consensus
Probab=20.39 E-value=71 Score=30.24 Aligned_cols=28 Identities=25% Similarity=0.560 Sum_probs=25.3
Q ss_pred CCCCCcchh--hHHhhhhhHHHHHHHHHhc
Q psy4065 284 PKPIPKCDV--CKKVFSRRSHLLRHLKRLH 311 (348)
Q Consensus 284 ~~~~y~C~~--C~~~f~~~~~L~~H~~~~H 311 (348)
....|-|+. |.|.|.-....+.||+..|
T Consensus 506 ~kdKy~C~lsgc~KlF~gpEFvrKHi~~KH 535 (648)
T KOG2295|consen 506 DKDKYLCPLSGCAKLFKGPEFVRKHINKKH 535 (648)
T ss_pred hcccccCCCcchHhhccCHHHHHHHHHHHH
Confidence 445699999 7899999999999999999
No 231
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=20.35 E-value=9.6 Score=33.91 Aligned_cols=48 Identities=25% Similarity=0.485 Sum_probs=24.1
Q ss_pred cCcccCcchhhcCCHHHHH---HHHHHhCCCCCCCCCCCCCccccccccccCCHHHH
Q psy4065 113 RPFQCDVCNQGFVRKEHLV---RHRKRAHDLDPPEGAEAKPFSCSVCGKTFTRREHL 166 (348)
Q Consensus 113 ~~~~C~~C~~~f~~~~~L~---~H~~~~h~~~~~~~~~~~~~~C~~C~~~f~~~~~L 166 (348)
+.+.|..|.+++......- .|-...+. ...+.|+|..|++...+...|
T Consensus 251 kav~C~~C~yt~~~~~~~C~~~~H~l~~~~------a~KRFFkC~~C~~Rt~sl~r~ 301 (344)
T PF09332_consen 251 KAVTCKQCKYTAFKPSDRCKEEGHPLKWHD------AVKRFFKCKDCGNRTISLERL 301 (344)
T ss_dssp EEEEETTT--EESS--HHHHHTT--EEEEE------EE-EEEE-T-TS-EEEESSSS
T ss_pred EEEEcCCCCCcccCcchhHHhcCCceEEee------eeeeeEECCCCCCeeeecccC
Confidence 5589999998877765543 23222222 346789999999986654333
Done!