Query psy6556
Match_columns 836
No_of_seqs 557 out of 4334
Neff 10.6
Searched_HMMs 46136
Date Fri Aug 16 21:08:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6556.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6556hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 7.4E-30 1.6E-34 266.7 4.1 230 598-829 604-933 (958)
2 KOG1074|consensus 99.9 2.9E-28 6.2E-33 254.9 9.7 294 278-656 604-936 (958)
3 KOG3608|consensus 99.9 5.3E-27 1.1E-31 220.4 14.1 237 454-728 140-398 (467)
4 KOG3608|consensus 99.9 3.5E-25 7.6E-30 208.3 13.9 190 600-827 178-376 (467)
5 KOG2462|consensus 99.9 1.1E-25 2.5E-30 207.4 5.4 136 627-799 130-265 (279)
6 KOG2462|consensus 99.9 3.3E-25 7.2E-30 204.4 5.6 134 392-527 128-264 (279)
7 KOG3623|consensus 99.9 3.9E-23 8.4E-28 212.4 7.9 117 49-166 211-330 (1007)
8 KOG3623|consensus 99.8 6.2E-21 1.3E-25 196.4 10.8 108 80-195 211-331 (1007)
9 KOG3576|consensus 99.6 1.5E-16 3.4E-21 138.3 2.7 112 392-503 115-237 (267)
10 KOG3576|consensus 99.6 4.2E-16 9.1E-21 135.7 0.9 114 117-230 117-240 (267)
11 PHA00733 hypothetical protein 99.0 1.1E-10 2.3E-15 100.3 3.1 84 745-828 39-124 (128)
12 PLN03086 PRLI-interacting fact 99.0 6.7E-10 1.5E-14 118.0 8.5 147 20-198 407-565 (567)
13 PHA02768 hypothetical protein; 99.0 1.7E-10 3.8E-15 79.4 2.0 43 778-820 6-48 (55)
14 PLN03086 PRLI-interacting fact 99.0 1.4E-09 3.1E-14 115.5 8.8 151 362-532 404-566 (567)
15 PHA00733 hypothetical protein 98.8 6.7E-09 1.5E-13 89.3 5.2 55 475-531 70-124 (128)
16 PHA02768 hypothetical protein; 98.8 2.4E-09 5.1E-14 73.9 1.6 44 688-733 5-48 (55)
17 KOG1146|consensus 98.7 8.7E-09 1.9E-13 116.3 4.6 104 690-799 1230-1350(1406)
18 KOG1146|consensus 98.7 1.2E-08 2.6E-13 115.2 4.6 140 22-161 438-634 (1406)
19 KOG3993|consensus 98.6 1.4E-08 3.1E-13 99.8 0.5 175 48-226 267-482 (500)
20 KOG3993|consensus 98.5 2.2E-08 4.8E-13 98.5 0.9 159 173-332 267-483 (500)
21 PF13465 zf-H2C2_2: Zinc-finge 98.5 7.9E-08 1.7E-12 56.6 2.1 26 703-728 1-26 (26)
22 PHA00732 hypothetical protein 98.4 2.1E-07 4.6E-12 71.7 2.5 45 747-800 2-47 (79)
23 PF13465 zf-H2C2_2: Zinc-finge 98.4 3.2E-07 6.9E-12 54.0 2.5 24 133-156 2-25 (26)
24 PHA00616 hypothetical protein 98.3 4E-07 8.6E-12 59.6 2.3 34 688-721 1-34 (44)
25 PHA00616 hypothetical protein 98.3 2.6E-07 5.6E-12 60.5 1.4 34 599-632 1-34 (44)
26 PF05605 zf-Di19: Drought indu 98.1 4.5E-06 9.7E-11 59.8 4.0 50 717-769 3-52 (54)
27 PHA00732 hypothetical protein 98.1 2.3E-06 5.1E-11 66.0 2.7 45 717-768 2-46 (79)
28 PF05605 zf-Di19: Drought indu 97.9 1.8E-05 3.9E-10 56.7 4.0 49 49-101 3-51 (54)
29 PF00096 zf-C2H2: Zinc finger, 97.7 1.3E-05 2.8E-10 46.0 1.0 21 779-799 2-22 (23)
30 PF00096 zf-C2H2: Zinc finger, 97.6 3.4E-05 7.4E-10 44.2 1.9 23 21-43 1-23 (23)
31 PF12756 zf-C2H2_2: C2H2 type 97.3 0.00011 2.4E-09 61.6 1.8 21 691-711 2-22 (100)
32 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00021 4.7E-09 41.4 1.8 19 719-737 3-21 (24)
33 PF12756 zf-C2H2_2: C2H2 type 97.2 0.00022 4.8E-09 59.8 2.3 73 718-800 1-73 (100)
34 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00032 6.8E-09 40.6 2.0 23 21-43 1-23 (24)
35 COG5189 SFP1 Putative transcri 97.1 0.00019 4.1E-09 68.5 1.5 66 687-766 348-418 (423)
36 COG5189 SFP1 Putative transcri 97.0 0.00031 6.6E-09 67.1 1.9 70 744-824 347-419 (423)
37 PF13912 zf-C2H2_6: C2H2-type 97.0 0.00043 9.3E-09 41.4 1.8 25 20-44 1-25 (27)
38 PF13912 zf-C2H2_6: C2H2-type 97.0 0.00039 8.5E-09 41.6 1.5 25 79-103 1-25 (27)
39 KOG2231|consensus 96.7 0.0019 4.1E-08 70.5 5.2 46 718-769 184-235 (669)
40 PF09237 GAGA: GAGA factor; I 96.6 0.0012 2.5E-08 44.4 1.8 30 687-716 23-52 (54)
41 KOG2231|consensus 96.6 0.0052 1.1E-07 67.2 7.4 108 309-444 117-234 (669)
42 smart00355 ZnF_C2H2 zinc finge 96.4 0.0018 3.8E-08 38.2 1.6 24 778-801 1-24 (26)
43 PF09237 GAGA: GAGA factor; I 96.4 0.0018 3.9E-08 43.5 1.4 40 383-422 13-52 (54)
44 smart00355 ZnF_C2H2 zinc finge 96.1 0.0053 1.1E-07 36.1 2.3 24 21-44 1-24 (26)
45 PF13909 zf-H2C2_5: C2H2-type 95.7 0.0056 1.2E-07 35.3 1.2 23 628-651 1-23 (24)
46 PF12874 zf-met: Zinc-finger o 95.6 0.0081 1.8E-07 35.0 1.7 22 21-42 1-22 (25)
47 PF12874 zf-met: Zinc-finger o 95.6 0.0064 1.4E-07 35.5 1.2 22 80-101 1-22 (25)
48 KOG2482|consensus 95.2 0.027 5.9E-07 54.9 4.8 53 174-226 280-358 (423)
49 PF13909 zf-H2C2_5: C2H2-type 95.1 0.017 3.7E-07 33.2 2.1 23 507-530 1-23 (24)
50 PRK04860 hypothetical protein; 95.0 0.0073 1.6E-07 54.2 0.5 41 598-642 118-158 (160)
51 PF12171 zf-C2H2_jaz: Zinc-fin 94.9 0.018 3.8E-07 34.3 1.7 22 80-101 2-23 (27)
52 PRK04860 hypothetical protein; 94.8 0.019 4.2E-07 51.5 2.4 38 145-186 119-156 (160)
53 COG5048 FOG: Zn-finger [Genera 94.7 0.011 2.4E-07 65.7 0.9 143 598-740 288-442 (467)
54 COG5236 Uncharacterized conser 94.7 0.025 5.5E-07 55.1 3.0 33 250-285 151-185 (493)
55 KOG2482|consensus 94.4 0.087 1.9E-06 51.6 5.9 78 366-445 280-357 (423)
56 KOG2785|consensus 94.4 0.073 1.6E-06 53.5 5.5 53 597-649 164-242 (390)
57 PF12171 zf-C2H2_jaz: Zinc-fin 94.2 0.029 6.2E-07 33.4 1.5 22 203-224 2-23 (27)
58 KOG2785|consensus 94.0 0.075 1.6E-06 53.3 4.9 28 246-273 64-91 (390)
59 COG5236 Uncharacterized conser 94.0 0.035 7.5E-07 54.2 2.4 87 700-799 200-303 (493)
60 COG5048 FOG: Zn-finger [Genera 92.4 0.041 8.9E-07 61.1 0.4 142 688-831 289-446 (467)
61 PF13913 zf-C2HC_2: zinc-finge 92.4 0.12 2.7E-06 29.9 2.1 19 22-41 4-22 (25)
62 smart00451 ZnF_U1 U1-like zinc 91.1 0.089 1.9E-06 33.6 0.7 22 803-824 3-24 (35)
63 PF13913 zf-C2HC_2: zinc-finge 91.0 0.15 3.2E-06 29.6 1.4 19 779-798 4-22 (25)
64 KOG4173|consensus 90.5 0.14 2.9E-06 46.3 1.5 80 655-740 79-170 (253)
65 smart00451 ZnF_U1 U1-like zinc 89.6 0.25 5.4E-06 31.5 1.8 21 20-40 3-23 (35)
66 KOG2893|consensus 89.1 0.14 3.1E-06 47.2 0.5 43 366-413 11-53 (341)
67 KOG4173|consensus 88.7 0.27 5.9E-06 44.5 2.0 78 687-767 78-167 (253)
68 cd00350 rubredoxin_like Rubred 87.7 0.28 6.1E-06 30.7 1.1 11 747-757 2-12 (33)
69 TIGR00622 ssl1 transcription f 87.6 1.1 2.3E-05 37.2 4.6 25 777-801 81-105 (112)
70 TIGR00622 ssl1 transcription f 87.2 0.62 1.3E-05 38.5 3.0 80 687-770 14-105 (112)
71 KOG2893|consensus 84.5 0.32 6.8E-06 45.0 0.1 49 147-199 12-60 (341)
72 cd00729 rubredoxin_SM Rubredox 80.4 0.89 1.9E-05 28.7 1.0 10 747-756 3-12 (34)
73 COG4049 Uncharacterized protei 79.8 0.82 1.8E-05 31.6 0.7 29 741-769 12-40 (65)
74 PF09538 FYDLN_acid: Protein o 79.0 1.4 3.1E-05 36.6 2.1 14 46-59 24-37 (108)
75 COG4049 Uncharacterized protei 78.3 1.2 2.6E-05 30.8 1.2 31 502-532 13-43 (65)
76 PF09986 DUF2225: Uncharacteri 77.4 0.86 1.9E-05 43.8 0.4 47 744-790 3-61 (214)
77 smart00834 CxxC_CXXC_SSSS Puta 75.1 1 2.2E-05 29.9 0.2 11 747-757 6-16 (41)
78 PF09723 Zn-ribbon_8: Zinc rib 73.8 1 2.2E-05 30.1 -0.1 13 747-759 6-18 (42)
79 COG2888 Predicted Zn-ribbon RN 72.8 2.5 5.5E-05 30.0 1.6 10 746-755 27-36 (61)
80 PF12013 DUF3505: Protein of u 72.1 4.5 9.7E-05 34.1 3.4 25 746-770 80-108 (109)
81 PF09986 DUF2225: Uncharacteri 71.7 1.1 2.5E-05 43.0 -0.3 45 715-759 4-61 (214)
82 TIGR02605 CxxC_CxxC_SSSS putat 69.0 1.7 3.6E-05 30.8 0.2 11 747-757 6-16 (52)
83 PF12013 DUF3505: Protein of u 68.9 8.6 0.00019 32.4 4.5 26 364-389 79-108 (109)
84 smart00659 RPOLCX RNA polymera 68.7 2.4 5.2E-05 28.6 0.8 11 21-31 3-13 (44)
85 PRK00398 rpoP DNA-directed RNA 68.2 1.8 4E-05 29.6 0.2 10 747-756 4-13 (46)
86 smart00531 TFIIE Transcription 67.5 2.1 4.5E-05 38.4 0.5 14 745-758 98-111 (147)
87 TIGR02098 MJ0042_CXXC MJ0042 f 66.1 3.2 7E-05 27.0 1.0 10 747-756 26-35 (38)
88 PF00301 Rubredoxin: Rubredoxi 65.9 4.9 0.00011 27.6 1.9 16 746-761 1-16 (47)
89 KOG2186|consensus 65.1 4 8.7E-05 38.8 1.8 45 689-736 4-48 (276)
90 PF13717 zinc_ribbon_4: zinc-r 63.7 5.9 0.00013 25.4 1.8 13 718-730 4-16 (36)
91 PHA00626 hypothetical protein 63.5 2.3 5.1E-05 29.6 0.0 17 799-815 19-35 (59)
92 PRK00464 nrdR transcriptional 63.0 2.3 5E-05 38.1 -0.1 12 747-758 29-40 (154)
93 PF13719 zinc_ribbon_5: zinc-r 62.0 5.6 0.00012 25.7 1.5 32 119-155 4-35 (37)
94 PF05290 Baculo_IE-1: Baculovi 62.0 5.4 0.00012 33.9 1.8 25 760-792 112-136 (140)
95 COG1198 PriA Primosomal protei 60.9 5.4 0.00012 45.7 2.2 51 107-182 434-484 (730)
96 PF09538 FYDLN_acid: Protein o 60.2 4.1 8.8E-05 34.0 0.8 16 392-407 24-39 (108)
97 smart00734 ZnF_Rad18 Rad18-lik 60.0 7.3 0.00016 22.8 1.6 19 50-69 3-21 (26)
98 KOG2186|consensus 59.2 5.4 0.00012 38.0 1.5 45 717-766 4-48 (276)
99 PRK14890 putative Zn-ribbon RN 58.8 6.5 0.00014 28.2 1.5 10 746-755 25-34 (59)
100 COG1996 RPC10 DNA-directed RNA 58.2 4.8 0.0001 27.7 0.8 29 19-57 5-33 (49)
101 TIGR00373 conserved hypothetic 57.0 5.1 0.00011 36.3 1.0 18 745-762 108-125 (158)
102 smart00531 TFIIE Transcription 55.1 13 0.00027 33.4 3.2 38 713-756 96-133 (147)
103 PF02892 zf-BED: BED zinc fing 54.4 12 0.00026 25.3 2.3 23 47-69 15-41 (45)
104 PRK06266 transcription initiat 54.2 6 0.00013 36.7 1.0 18 745-762 116-133 (178)
105 PF06524 NOA36: NOA36 protein; 52.7 5.9 0.00013 37.8 0.7 19 626-644 208-226 (314)
106 COG1997 RPL43A Ribosomal prote 52.1 9.9 0.00021 29.7 1.7 14 744-757 51-64 (89)
107 TIGR02300 FYDLN_acid conserved 51.9 8.2 0.00018 32.7 1.3 14 46-59 24-37 (129)
108 KOG1280|consensus 51.6 18 0.00039 36.4 3.8 41 504-544 77-117 (381)
109 smart00614 ZnF_BED BED zinc fi 51.3 11 0.00023 26.4 1.7 22 746-767 18-44 (50)
110 PF06524 NOA36: NOA36 protein; 50.3 7.4 0.00016 37.1 0.9 14 278-291 208-221 (314)
111 TIGR00373 conserved hypothetic 50.2 12 0.00027 33.9 2.4 34 711-755 104-137 (158)
112 COG1592 Rubrerythrin [Energy p 49.2 9 0.00019 34.7 1.3 11 503-513 146-156 (166)
113 PF15269 zf-C2H2_7: Zinc-finge 48.6 10 0.00023 24.9 1.1 23 777-799 20-42 (54)
114 PF10571 UPF0547: Uncharacteri 48.4 13 0.00029 21.8 1.5 8 120-127 17-24 (26)
115 PF14353 CpXC: CpXC protein 47.5 4.4 9.4E-05 35.4 -1.0 12 748-759 3-14 (128)
116 PRK06266 transcription initiat 46.8 10 0.00022 35.3 1.2 32 46-89 115-146 (178)
117 TIGR00595 priA primosomal prot 45.7 12 0.00027 41.5 2.0 51 107-182 212-262 (505)
118 cd00730 rubredoxin Rubredoxin; 45.5 8.2 0.00018 26.9 0.3 13 747-759 2-14 (50)
119 PF02176 zf-TRAF: TRAF-type zi 45.1 10 0.00022 27.7 0.8 39 20-59 9-53 (60)
120 PF03604 DNA_RNApol_7kD: DNA d 44.0 19 0.00042 22.4 1.7 11 174-184 1-11 (32)
121 KOG2071|consensus 43.0 27 0.00058 38.3 3.8 28 143-170 416-443 (579)
122 PRK14873 primosome assembly pr 41.5 14 0.00031 42.4 1.7 50 107-182 382-431 (665)
123 COG1592 Rubrerythrin [Energy p 41.3 16 0.00036 33.0 1.7 23 173-209 134-156 (166)
124 TIGR02300 FYDLN_acid conserved 41.0 14 0.0003 31.3 1.1 13 393-405 25-37 (129)
125 COG2331 Uncharacterized protei 41.0 11 0.00024 28.4 0.4 12 776-787 11-22 (82)
126 COG5151 SSL1 RNA polymerase II 40.8 21 0.00046 35.1 2.4 23 778-800 389-411 (421)
127 PRK09678 DNA-binding transcrip 40.7 6.6 0.00014 29.8 -0.7 42 717-762 2-45 (72)
128 KOG4377|consensus 37.8 16 0.00035 37.6 1.2 25 804-828 402-428 (480)
129 PRK09678 DNA-binding transcrip 37.7 8.3 0.00018 29.3 -0.6 14 173-186 27-42 (72)
130 TIGR01206 lysW lysine biosynth 36.2 18 0.00039 25.7 0.9 8 748-755 4-11 (54)
131 KOG2593|consensus 35.8 30 0.00065 36.3 2.7 42 710-756 122-163 (436)
132 PF08274 PhnA_Zn_Ribbon: PhnA 35.4 17 0.00038 22.2 0.6 10 46-55 17-26 (30)
133 PF05443 ROS_MUCR: ROS/MUCR tr 35.2 27 0.00059 30.3 2.0 33 12-47 64-96 (132)
134 PF07754 DUF1610: Domain of un 34.5 24 0.00053 20.2 1.1 7 146-152 17-23 (24)
135 PF02176 zf-TRAF: TRAF-type zi 34.3 32 0.00069 25.0 2.1 38 145-183 9-52 (60)
136 PRK00432 30S ribosomal protein 33.7 22 0.00048 24.9 1.0 10 778-787 38-47 (50)
137 KOG2807|consensus 33.6 54 0.0012 32.9 3.9 83 687-801 275-369 (378)
138 PF04959 ARS2: Arsenite-resist 33.5 30 0.00064 33.1 2.2 27 47-73 76-102 (214)
139 PF05495 zf-CHY: CHY zinc fing 33.0 4 8.7E-05 31.1 -3.0 13 145-157 41-53 (71)
140 COG1198 PriA Primosomal protei 32.6 34 0.00073 39.6 2.8 9 279-287 475-483 (730)
141 PF05443 ROS_MUCR: ROS/MUCR tr 32.3 21 0.00045 31.0 0.8 26 688-716 72-97 (132)
142 PTZ00255 60S ribosomal protein 32.2 19 0.00041 28.7 0.5 11 535-545 35-45 (90)
143 PF13878 zf-C2H2_3: zinc-finge 31.7 43 0.00093 22.3 2.1 25 20-44 13-39 (41)
144 KOG2807|consensus 30.9 55 0.0012 32.8 3.5 68 687-769 289-368 (378)
145 COG5188 PRP9 Splicing factor 3 30.8 35 0.00077 34.3 2.2 23 687-709 237-259 (470)
146 PF01286 XPA_N: XPA protein N- 30.1 12 0.00026 23.6 -0.7 11 748-758 5-15 (34)
147 KOG4167|consensus 29.9 15 0.00033 40.8 -0.4 80 250-329 288-370 (907)
148 PF12907 zf-met2: Zinc-binding 29.8 23 0.00051 23.3 0.6 26 175-200 3-31 (40)
149 PRK05580 primosome assembly pr 29.6 31 0.00066 40.2 1.9 52 106-182 379-430 (679)
150 COG4888 Uncharacterized Zn rib 29.3 11 0.00024 30.3 -1.2 39 17-59 19-57 (104)
151 TIGR00280 L37a ribosomal prote 28.5 20 0.00043 28.6 0.1 11 535-545 34-44 (91)
152 KOG4167|consensus 28.2 21 0.00046 39.7 0.3 28 17-44 789-816 (907)
153 KOG1280|consensus 27.8 47 0.001 33.6 2.5 38 716-753 79-116 (381)
154 PF05191 ADK_lid: Adenylate ki 27.5 16 0.00036 23.4 -0.4 10 50-59 3-12 (36)
155 COG5151 SSL1 RNA polymerase II 26.9 36 0.00078 33.6 1.5 80 687-770 321-412 (421)
156 PRK04023 DNA polymerase II lar 26.4 54 0.0012 38.6 3.0 9 689-697 627-635 (1121)
157 PF04959 ARS2: Arsenite-resist 26.4 36 0.00078 32.5 1.4 25 744-768 75-99 (214)
158 PF14446 Prok-RING_1: Prokaryo 26.0 28 0.00061 24.6 0.5 10 746-755 21-30 (54)
159 cd02335 ZZ_ADA2 Zinc finger, Z 25.8 53 0.0011 22.8 1.8 20 807-826 25-44 (49)
160 KOG2593|consensus 25.7 67 0.0014 33.9 3.2 36 171-210 126-161 (436)
161 KOG2272|consensus 25.5 67 0.0014 30.7 2.9 19 19-37 98-116 (332)
162 PF01363 FYVE: FYVE zinc finge 25.1 44 0.00095 25.2 1.4 11 746-756 25-35 (69)
163 smart00440 ZnF_C2C2 C2C2 Zinc 24.8 16 0.00034 24.2 -0.9 10 747-756 29-38 (40)
164 PF04216 FdhE: Protein involve 24.7 13 0.00028 38.0 -2.0 37 688-725 211-247 (290)
165 PRK03976 rpl37ae 50S ribosomal 24.6 26 0.00056 27.9 0.1 11 535-545 35-45 (90)
166 PF01780 Ribosomal_L37ae: Ribo 24.5 16 0.00036 29.0 -1.0 12 535-546 34-45 (90)
167 PF13451 zf-trcl: Probable zin 23.8 89 0.0019 21.8 2.5 39 364-402 3-41 (49)
168 PF10013 DUF2256: Uncharacteri 23.4 33 0.00071 22.8 0.4 13 780-792 11-23 (42)
169 PF08271 TF_Zn_Ribbon: TFIIB z 23.3 36 0.00077 22.8 0.6 10 48-57 19-28 (43)
170 COG1779 C4-type Zn-finger prot 22.7 18 0.00039 33.4 -1.2 32 778-815 15-55 (201)
171 PRK04023 DNA polymerase II lar 21.9 66 0.0014 38.0 2.6 10 507-516 664-673 (1121)
172 COG4957 Predicted transcriptio 21.6 76 0.0016 27.2 2.2 33 13-48 69-101 (148)
173 KOG3507|consensus 21.4 72 0.0016 22.8 1.7 31 18-59 18-48 (62)
174 PF08790 zf-LYAR: LYAR-type C2 21.4 46 0.001 19.9 0.7 20 747-767 1-20 (28)
175 COG3357 Predicted transcriptio 21.4 60 0.0013 25.7 1.5 14 201-214 57-70 (97)
176 COG4530 Uncharacterized protei 21.1 39 0.00085 27.5 0.5 12 393-404 25-36 (129)
177 PF12760 Zn_Tnp_IS1595: Transp 20.7 63 0.0014 22.0 1.4 9 395-403 19-27 (46)
178 TIGR01384 TFS_arch transcripti 20.2 12 0.00026 31.2 -2.8 12 307-318 16-27 (104)
No 1
>KOG1074|consensus
Probab=99.95 E-value=7.4e-30 Score=266.68 Aligned_cols=230 Identities=18% Similarity=0.319 Sum_probs=164.3
Q ss_pred CCcccccchHhhcCchhHHhhhhhcCCCccccCCccchhhcchhhHHHHhhhhccCcc----cccc---CCCccccccch
Q psy6556 598 RPFSCLLCNNTFAQLSTLLNHERIHDNHKPYKCTKCNYSARVLSNKLAHERIYHQDHV----FKCH---INNCIFSTKFY 670 (836)
Q Consensus 598 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~----~~C~---~c~c~~~~~~~ 670 (836)
.|-+|-+|-+...=++.|+.|.|+|+||+||+|.+||+.|.++.+|+.|+.+|....+ +.|+ + |...|...
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~i--c~~kftn~ 681 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFI--CQKKFTNA 681 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhh--hccccccc
Confidence 4689999999999999999999999999999999999999999999999999976644 5566 6 44444444
Q ss_pred hHHHhhhhhcccCCC----------CCCcccccchHhhhchhHHHHHHHHhcCc----------------C----cccCC
Q psy6556 671 SCLRRHRKIFHSNES----------YAPAKCKICNQSFALFSNLNAHYNKHLKV----------------R----RFSCT 720 (836)
Q Consensus 671 ~~l~~H~~~~~~~~~----------~~~~~C~~C~~~f~~~~~L~~H~~~h~~~----------------~----~~~C~ 720 (836)
-.|..|+++|.++.. ...-+|..|.+.|.....+..++-.|.+. . ++.+.
T Consensus 682 V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~ 761 (958)
T KOG1074|consen 682 VTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPEN 761 (958)
T ss_pred ccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccc
Confidence 668888887763321 11246888888888878888777766221 2 46677
Q ss_pred cccccccCchhHHHHHHhh--c-------------------CCCCCce-ecCcccccccchhhhhhHH------------
Q psy6556 721 NCSLNFTYLSNLIRHRRIK--H-------------------SQHEGKY-VCNYCGKSYIDKRDYTNHV------------ 766 (836)
Q Consensus 721 ~C~~~f~~~~~L~~H~~~~--h-------------------~~~~~~~-~C~~C~~~f~~~~~l~~H~------------ 766 (836)
.|+..+.....+..+-... + ...+++. .+..++..-.....+.-=+
T Consensus 762 ~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~ 841 (958)
T KOG1074|consen 762 SCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGL 841 (958)
T ss_pred ccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccc
Confidence 7877777666555443322 0 0123444 5666665443332221000
Q ss_pred ------HhhcccC---------------------CCCccccCccchhcccchhHHHHHhhcCC--CccCCccchhcccch
Q psy6556 767 ------SVHMERK---------------------SGYTQRCHKCNATFRIKKFLTRHMKTHLI--QYRCTRCNKTFKQNT 817 (836)
Q Consensus 767 ------~~H~~~~---------------------~~~~~~C~~C~~~F~~~~~L~~H~~~h~~--~~~C~~C~~~f~~~~ 817 (836)
.++.+.+ .+....|.+||+.|.+.+.|++||+||++ ||.|.+|++.|..+.
T Consensus 842 ~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrg 921 (958)
T KOG1074|consen 842 ATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRG 921 (958)
T ss_pred ccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhh
Confidence 0000000 01125799999999999999999999986 899999999999999
Q ss_pred hhhhccccccCC
Q psy6556 818 SFIRHSLKHFNS 829 (836)
Q Consensus 818 ~l~~H~~~H~~~ 829 (836)
+|+.||.+|.--
T Consensus 922 nLKvHMgtH~w~ 933 (958)
T KOG1074|consen 922 NLKVHMGTHMWV 933 (958)
T ss_pred hhhhhhcccccc
Confidence 999999999853
No 2
>KOG1074|consensus
Probab=99.95 E-value=2.9e-28 Score=254.89 Aligned_cols=294 Identities=18% Similarity=0.252 Sum_probs=161.0
Q ss_pred ccccCCCCCCccCChHHHHHHHhhcCCCCCcccccchhhcCChhHHHchHhhhcCCCcccccccccCccccccccccccc
Q psy6556 278 KSFNCNVCNYSSSLKWNLIQHYRIHTDEKPFNCSLCEKQFRQKIHVKNHLRIIHNMNFCDHCFKFVGPEQELNIFRHCEV 357 (836)
Q Consensus 278 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (836)
.+-+|-+|-+..+-++.|+.|+++|+||+||+|.+|++.|.++.+|+.|+-. |...
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~v-Hka~----------------------- 659 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSV-HKAK----------------------- 659 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccc-cccC-----------------------
Confidence 4578999999999999999999999999999999999999999999999976 3210
Q ss_pred cCCCCCCeeecCcCCCcccCHHHHHHHHhhccCCCCCcccc---cchHhhcChhhHHHHhhhcCCC-------------C
Q psy6556 358 CDKSNNSYLLCWKCGFKTSVLNELKAHIKSHHFPKQPSICA---VCGDTFKTNYNYFVHMRRHTGF-------------K 421 (836)
Q Consensus 358 ~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~C~---~C~~~f~~~~~l~~H~~~h~~~-------------~ 421 (836)
+.-..++.|+ +|.+.|.+...|..|+++|.+. -
T Consensus 660 -------------------------------p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~s~g~~a~e~~~~ 708 (958)
T KOG1074|consen 660 -------------------------------PPARVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQISNGGTAAEGILA 708 (958)
T ss_pred -------------------------------ccccccccCCchhhhcccccccccccceEEeecCCCCCCCcccccccch
Confidence 0012345566 6666666666666666666521 1
Q ss_pred ccccCcchhhccChhHHHHHHhhh----------------cCCC----cccccccccccCCHHHHHHHHhhhcCCCcccc
Q psy6556 422 PYQCKTCNASYASMRVLQHHEITH----------------SKTL----KFPCINCGKYFTKLEYMIKHMKRHFNTNKPVC 481 (836)
Q Consensus 422 ~~~C~~C~~~f~~~~~L~~H~~~h----------------~~~~----~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C 481 (836)
.-+|..|.+.|.....+..++..| +++. +..+..|+..+.....+..+--.+......
T Consensus 709 adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~~~~~e~~i~~~g~te~asa~~-- 786 (958)
T KOG1074|consen 709 ADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGRELEGEMAISVRGSTEEASANL-- 786 (958)
T ss_pred hcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccccccccCcccccccccchhhhhcCh--
Confidence 135667777776666666665544 2222 445566666655554443332211000000
Q ss_pred ccchhcccChHHHHHHHhhhcCCCcc-cCccccccccChHHHHHHHHHHhCCCCCceecCCCCccccccccccccccccc
Q psy6556 482 EICSQTMAHNQVLQRHMTLHFTQNKH-PCNRCNASFSSMVQLSCHQIRAHGKQKQRFMCHRCGIINLKRKYHVYHLKYEC 560 (836)
Q Consensus 482 ~~C~~~f~~~~~l~~H~~~h~~~~~~-~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~~~~~~~~~~h~~~~~ 560 (836)
...+.....=..+....+++++. .+.+++..-.......- .-.+ .....+..-+..+
T Consensus 787 ---~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~p----vl~~--------------~~~~~l~eg~~t~- 844 (958)
T KOG1074|consen 787 ---DEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDP----VLWN--------------QETSMLNEGLATK- 844 (958)
T ss_pred ---hhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCc----hhhc--------------ccccccccccccc-
Confidence 00000011111122223344444 33333332211110000 0000 0000000000000
Q ss_pred CCccCCChhhhhccccceeccccchhhhhhhhhhc--CCCCcccccchHhhcCchhHHhhhhhcCCCccccCCccchhhc
Q psy6556 561 GYTRTLPPELRRQFKHDIVYMDSKTNFNIHMRIHG--KDRPFSCLLCNNTFAQLSTLLNHERIHDNHKPYKCTKCNYSAR 638 (836)
Q Consensus 561 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~h~~~h~--~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~ 638 (836)
.....+++.. +.+.......+..-..--. ......|.+||+.|.+.++|..|+|+|+++|||.|.+|++.|.
T Consensus 845 -~n~~t~~~~~-----~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFt 918 (958)
T KOG1074|consen 845 -TNEITPEGPA-----DSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFT 918 (958)
T ss_pred -cccccCCCcc-----hhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhh
Confidence 0000000000 0000000000000000000 1122679999999999999999999999999999999999999
Q ss_pred chhhHHHHhhhhccCccc
Q psy6556 639 VLSNKLAHERIYHQDHVF 656 (836)
Q Consensus 639 ~~~~l~~H~~~h~~~~~~ 656 (836)
++.+|+.||..|.+..++
T Consensus 919 trgnLKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 919 TRGNLKVHMGTHMWVQPP 936 (958)
T ss_pred hhhhhhhhhccccccCCC
Confidence 999999999999877654
No 3
>KOG3608|consensus
Probab=99.94 E-value=5.3e-27 Score=220.44 Aligned_cols=237 Identities=24% Similarity=0.455 Sum_probs=168.8
Q ss_pred cccccccCCHHHHHHHHhhhcC-----------C--Cccccc--cchhcccChHHHHHHHhhhcCCCcccCccccccccC
Q psy6556 454 INCGKYFTKLEYMIKHMKRHFN-----------T--NKPVCE--ICSQTMAHNQVLQRHMTLHFTQNKHPCNRCNASFSS 518 (836)
Q Consensus 454 ~~C~~~f~~~~~l~~H~~~h~~-----------~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 518 (836)
..|+..|.+...+..|+-.|.- + ..+.|. .|-+.|.+++.|++|++.|++++...|+.|+.-|.+
T Consensus 140 edCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~ 219 (467)
T KOG3608|consen 140 EDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRT 219 (467)
T ss_pred hhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhcc
Confidence 3455555555555555544421 0 112342 355566666666666666666666666666666666
Q ss_pred hHHHHHHHHHHhCCCCCceecCCCCcccccccccccccccccCCccCCChhhhhccccceeccccchhhhhhhhhhcCCC
Q psy6556 519 MVQLSCHQIRAHGKQKQRFMCHRCGIINLKRKYHVYHLKYECGYTRTLPPELRRQFKHDIVYMDSKTNFNIHMRIHGKDR 598 (836)
Q Consensus 519 ~~~L~~H~~~~h~~~~~~~~C~~C~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~h~~~h~~~~ 598 (836)
+..|-.|.++.......+|+|..|.+.| ..+..|..|++.|- .
T Consensus 220 ~tkl~DH~rRqt~l~~n~fqC~~C~KrF-----------------------------------aTeklL~~Hv~rHv--n 262 (467)
T KOG3608|consen 220 KTKLFDHLRRQTELNTNSFQCAQCFKRF-----------------------------------ATEKLLKSHVVRHV--N 262 (467)
T ss_pred ccHHHHHHHhhhhhcCCchHHHHHHHHH-----------------------------------hHHHHHHHHHHHhh--h
Confidence 6666666655555555556666665543 23333444555443 2
Q ss_pred CcccccchHhhcCchhHHhhhhh-cCCCccccCCccchhhcchhhHHHHhhhhccCccccccCCCccccccchhHHHhhh
Q psy6556 599 PFSCLLCNNTFAQLSTLLNHERI-HDNHKPYKCTKCNYSARVLSNKLAHERIYHQDHVFKCHINNCIFSTKFYSCLRRHR 677 (836)
Q Consensus 599 ~~~C~~C~~~f~~~~~L~~H~~~-H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~c~c~~~~~~~~~l~~H~ 677 (836)
-|+|+.|+.+....+.|..|++. |..++||+|+.|++.|.+.++|.+|..+|. +..|+|..-+|.+++.++..|++|+
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~ 341 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHF 341 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHH
Confidence 48899999999999999999874 788999999999999999999999999665 8899999999999999999999999
Q ss_pred hhcccCCCCCCcccccchHhhhchhHHHHHHHHhcC------cCcccCCcccccccC
Q psy6556 678 KIFHSNESYAPAKCKICNQSFALFSNLNAHYNKHLK------VRRFSCTNCSLNFTY 728 (836)
Q Consensus 678 ~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~------~~~~~C~~C~~~f~~ 728 (836)
+.+|.+....+|+|..|++.|++..+|..|+.+-++ -+.|.=.+|.-+|..
T Consensus 342 ~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~RFtYk~~edG~mR 398 (467)
T KOG3608|consen 342 LEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHKRFTYKVDEDGFMR 398 (467)
T ss_pred HHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCCCceeeeeccCceee
Confidence 999988888899999999999999999999876544 345555566555543
No 4
>KOG3608|consensus
Probab=99.93 E-value=3.5e-25 Score=208.27 Aligned_cols=190 Identities=25% Similarity=0.505 Sum_probs=129.6
Q ss_pred cccc--cchHhhcCchhHHhhhhhcCCCccccCCccchhhcchhhHHHHhhhhccCccccccCCCccccccchhHHHhhh
Q psy6556 600 FSCL--LCNNTFAQLSTLLNHERIHDNHKPYKCTKCNYSARVLSNKLAHERIYHQDHVFKCHINNCIFSTKFYSCLRRHR 677 (836)
Q Consensus 600 ~~C~--~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~c~c~~~~~~~~~l~~H~ 677 (836)
+.|. .|.+.|.+++.|++|+|.|+++|...|+.||.-|+++..|..|.+.-+..
T Consensus 178 ~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l------------------------ 233 (467)
T KOG3608|consen 178 TMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTEL------------------------ 233 (467)
T ss_pred eeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhh------------------------
Confidence 4454 58888889999999999999998888999998888888888887754321
Q ss_pred hhcccCCCCCCcccccchHhhhchhHHHHHHHHhcCcCcccCCcccccccCchhHHHHHHhhcCCCCCceecCccccccc
Q psy6556 678 KIFHSNESYAPAKCKICNQSFALFSNLNAHYNKHLKVRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYI 757 (836)
Q Consensus 678 ~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~ 757 (836)
+. .+|.|..|.|.|.+...|..|+++|. .-|+|+.|+.+-...+.|.+|++..|+. ++||+|+.|++.|.
T Consensus 234 -----~~--n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~-dkpfKCd~Cd~~c~ 303 (467)
T KOG3608|consen 234 -----NT--NSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSK-DKPFKCDECDTRCV 303 (467)
T ss_pred -----cC--CchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhcc-CCCccccchhhhhc
Confidence 11 35666666666666666666666663 3566666666666666666666666654 66666666666666
Q ss_pred chhhhhhHHHhhcccCCCCccccCc--cchhcccchhHHHHHhhcC-C----CccCCccchhcccchhhhhcccccc
Q psy6556 758 DKRDYTNHVSVHMERKSGYTQRCHK--CNATFRIKKFLTRHMKTHL-I----QYRCTRCNKTFKQNTSFIRHSLKHF 827 (836)
Q Consensus 758 ~~~~l~~H~~~H~~~~~~~~~~C~~--C~~~F~~~~~L~~H~~~h~-~----~~~C~~C~~~f~~~~~l~~H~~~H~ 827 (836)
+.++|.+|+-+|+.. .|+|+. |..+|.+...|.+||+.+. + +|.|-.|++.|++-.+|.+|+.+-+
T Consensus 304 ~esdL~kH~~~HS~~----~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 304 RESDLAKHVQVHSKT----VYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKH 376 (467)
T ss_pred cHHHHHHHHHhcccc----ceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhh
Confidence 666666666666522 266655 6666666666666666553 2 5666666666666666666655443
No 5
>KOG2462|consensus
Probab=99.92 E-value=1.1e-25 Score=207.44 Aligned_cols=136 Identities=27% Similarity=0.564 Sum_probs=104.7
Q ss_pred cccCCccchhhcchhhHHHHhhhhccCccccccCCCccccccchhHHHhhhhhcccCCCCCCcccccchHhhhchhHHHH
Q psy6556 627 PYKCTKCNYSARVLSNKLAHERIYHQDHVFKCHINNCIFSTKFYSCLRRHRKIFHSNESYAPAKCKICNQSFALFSNLNA 706 (836)
Q Consensus 627 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~c~c~~~~~~~~~l~~H~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~ 706 (836)
.|+|+.|++.+.+.++|.+|...| -..++.+.+.|++|||.|.+...|+.
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H------------------------------~~~~s~ka~~C~~C~K~YvSmpALkM 179 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTH------------------------------RSLDSKKAFSCKYCGKVYVSMPALKM 179 (279)
T ss_pred ceeccccccccccccccchhhccc------------------------------ccccccccccCCCCCceeeehHHHhh
Confidence 466666666666666666665544 22233366788888888888888888
Q ss_pred HHHHhcCcCcccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhhhhhHHHhhcccCCCCccccCccchh
Q psy6556 707 HYNKHLKVRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRDYTNHVSVHMERKSGYTQRCHKCNAT 786 (836)
Q Consensus 707 H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~~~~C~~C~~~ 786 (836)
|+++|+ -+++|.+|||.|.....|+-|+|+|+ ||+||.|+.|++.|.++++|+.||.+|.+.+ +|+|..|+|+
T Consensus 180 HirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHT--GEKPF~C~hC~kAFADRSNLRAHmQTHS~~K---~~qC~~C~Ks 252 (279)
T KOG2462|consen 180 HIRTHT--LPCECGICGKAFSRPWLLQGHIRTHT--GEKPFSCPHCGKAFADRSNLRAHMQTHSDVK---KHQCPRCGKS 252 (279)
T ss_pred HhhccC--CCcccccccccccchHHhhccccccc--CCCCccCCcccchhcchHHHHHHHHhhcCCc---cccCcchhhH
Confidence 888885 57888888888888888888888887 5888888888888888888888888888777 4888888888
Q ss_pred cccchhHHHHHhh
Q psy6556 787 FRIKKFLTRHMKT 799 (836)
Q Consensus 787 F~~~~~L~~H~~~ 799 (836)
|..++.|.+|...
T Consensus 253 Fsl~SyLnKH~ES 265 (279)
T KOG2462|consen 253 FALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHHhhhh
Confidence 8888888888653
No 6
>KOG2462|consensus
Probab=99.91 E-value=3.3e-25 Score=204.38 Aligned_cols=134 Identities=31% Similarity=0.569 Sum_probs=119.7
Q ss_pred CCCcccccchHhhcChhhHHHHhhhcCC---CCccccCcchhhccChhHHHHHHhhhcCCCcccccccccccCCHHHHHH
Q psy6556 392 KQPSICAVCGDTFKTNYNYFVHMRRHTG---FKPYQCKTCNASYASMRVLQHHEITHSKTLKFPCINCGKYFTKLEYMIK 468 (836)
Q Consensus 392 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 468 (836)
...|+|+.||+.+.+..+|.+|.++|-. .+.+.|++|++.|.+..+|..|+++|+ .++.|.+||+.|.....|+-
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhc
Confidence 4568899999999999999999888853 567899999999999999999999987 78899999999999999999
Q ss_pred HHhhhcCCCccccccchhcccChHHHHHHHhhhcCCCcccCccccccccChHHHHHHHH
Q psy6556 469 HMKRHFNTNKPVCEICSQTMAHNQVLQRHMTLHFTQNKHPCNRCNASFSSMVQLSCHQI 527 (836)
Q Consensus 469 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 527 (836)
|+++|+|++||.|+.|++.|+++++|+.||++|.+.++|.|..|+++|..++.|.+|..
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999999999864
No 7
>KOG3623|consensus
Probab=99.88 E-value=3.9e-23 Score=212.38 Aligned_cols=117 Identities=29% Similarity=0.617 Sum_probs=103.7
Q ss_pred eecccccccccChHHHHHHHHhhccCCCccccccCccccccCChhhHHhhhhhcccCCCc---cccccCCCcccCCcccc
Q psy6556 49 VRCGYCGQFFLDLGRLNAHIRQRHTSNKKIYYKCDKCNKTYKSKYKFERHKNTHVTENSE---YPCIYCRNIYPCSFCAY 125 (836)
Q Consensus 49 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~---~~C~~C~~~~~C~~C~~ 125 (836)
..|++|+..+.....|+.|++.+|..+.. .|.|..|..+|..+..|.+||.+|....+. ..-..|.+.|+|..|++
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~-nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEP-NFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCC-CCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 57999999999999999999988876654 589999999999999999999999765432 33455667899999999
Q ss_pred cccChHHHHHHHHHhcCCCceeccccccccCCcchHHHHHH
Q psy6556 126 RGRYRYHFKAHLRIHLNIKPYACKYCGNAFAHKSSRDAHQN 166 (836)
Q Consensus 126 ~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 166 (836)
.|+.+-+|+.|+|||.|+|||.|+-|++.|....++..||-
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 99999999999999999999999999999999999999974
No 8
>KOG3623|consensus
Probab=99.84 E-value=6.2e-21 Score=196.36 Aligned_cols=108 Identities=26% Similarity=0.615 Sum_probs=97.3
Q ss_pred cccCccccccCChhhHHhhhhhcccCCCccccccCCCcccCCcccccccChHHHHHHHHHhcC-------------CCce
Q psy6556 80 YKCDKCNKTYKSKYKFERHKNTHVTENSEYPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLN-------------IKPY 146 (836)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~-------------~~~~ 146 (836)
..|+.|++.+.....|+.|++.-+..+.+ .|.|..|.+.|.++..|.+||.+|.. .+.|
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~--------nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKF 282 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEP--------NFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKF 282 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCC--------CCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccc
Confidence 57999999999999999999876555433 68999999999999999999999853 3569
Q ss_pred eccccccccCCcchHHHHHHHhCCCCCcccCcCCCcccChhhhhhhhhc
Q psy6556 147 ACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQSFRTFNLMKRHNLC 195 (836)
Q Consensus 147 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 195 (836)
+|++||++|..+..|+.|+|||.|+|||.|+.|++.|.....+..||-.
T Consensus 283 KCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 283 KCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred cccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 9999999999999999999999999999999999999999999999754
No 9
>KOG3576|consensus
Probab=99.62 E-value=1.5e-16 Score=138.32 Aligned_cols=112 Identities=27% Similarity=0.482 Sum_probs=95.5
Q ss_pred CCCcccccchHhhcChhhHHHHhhhcCCCCccccCcchhhccChhHHHHHHhhhcCCCcccccccccccCCHHHHHHHHh
Q psy6556 392 KQPSICAVCGDTFKTNYNYFVHMRRHTGFKPYQCKTCNASYASMRVLQHHEITHSKTLKFPCINCGKYFTKLEYMIKHMK 471 (836)
Q Consensus 392 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 471 (836)
...|.|.+||+.|.-...|.+||+-|...+.|-|..||+.|....+|++|+++|+|.+||+|..|+++|+++-+|..|++
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 45688999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred hhcC-----------CCccccccchhcccChHHHHHHHhhhcC
Q psy6556 472 RHFN-----------TNKPVCEICSQTMAHNQVLQRHMTLHFT 503 (836)
Q Consensus 472 ~h~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 503 (836)
..++ .+.|+|+.||.+-.....+..|++.|+.
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 7665 3456677777777777777777766654
No 10
>KOG3576|consensus
Probab=99.57 E-value=4.2e-16 Score=135.66 Aligned_cols=114 Identities=24% Similarity=0.503 Sum_probs=76.5
Q ss_pred cccCCcccccccChHHHHHHHHHhcCCCceeccccccccCCcchHHHHHHHhCCCCCcccCcCCCcccChhhhhhhhhcc
Q psy6556 117 IYPCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQSFRTFNLMKRHNLCD 196 (836)
Q Consensus 117 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 196 (836)
.|.|.+|++.|....-|.+|++-|...+.|-|..||+.|...-+|.+|+++|+|.+||+|..|++.|+..-.|..|.+..
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kv 196 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKV 196 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHH
Confidence 46666666666666666666666666666666666666666666666666666666666666666666666666665555
Q ss_pred CCC----------CCcccCCccccccCChhhHhhhhcccCCCCC
Q psy6556 197 HQD----------VRNYLCNFCNKTYKDRKTLDNHILGHVDIKP 230 (836)
Q Consensus 197 h~~----------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 230 (836)
|.. .+.|.|..||.+-.....+..|++.|+...|
T Consensus 197 hgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 197 HGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred cCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 532 3567888888888888888888887765544
No 11
>PHA00733 hypothetical protein
Probab=99.04 E-value=1.1e-10 Score=100.31 Aligned_cols=84 Identities=17% Similarity=0.248 Sum_probs=51.5
Q ss_pred CceecCcccccccchhhhhhH--HHhhcccCCCCccccCccchhcccchhHHHHHhhcCCCccCCccchhcccchhhhhc
Q psy6556 745 GKYVCNYCGKSYIDKRDYTNH--VSVHMERKSGYTQRCHKCNATFRIKKFLTRHMKTHLIQYRCTRCNKTFKQNTSFIRH 822 (836)
Q Consensus 745 ~~~~C~~C~~~f~~~~~l~~H--~~~H~~~~~~~~~~C~~C~~~F~~~~~L~~H~~~h~~~~~C~~C~~~f~~~~~l~~H 822 (836)
+++.|.+|++.|.....|..| ++.|.......+|+|+.||+.|.+...|..|++.|..+|.|++|++.|.....|.+|
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL~~H 118 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLDH 118 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHHHHH
Confidence 456666666666665555555 333332223345667777777777777777766665567777777777777777777
Q ss_pred cccccC
Q psy6556 823 SLKHFN 828 (836)
Q Consensus 823 ~~~H~~ 828 (836)
+...+|
T Consensus 119 ~~~~h~ 124 (128)
T PHA00733 119 VCKKHN 124 (128)
T ss_pred HHHhcC
Confidence 665543
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.01 E-value=6.7e-10 Score=117.99 Aligned_cols=147 Identities=20% Similarity=0.464 Sum_probs=92.4
Q ss_pred ccccccccccccCHHHHHHHHhhhcCCcceeccc--ccccccChHHHHHHHHhhccCCCccccccCccccccCChhhHHh
Q psy6556 20 TYHCPLCSKQFSKLTTLKRHVGIHMKTQPVRCGY--CGQFFLDLGRLNAHIRQRHTSNKKIYYKCDKCNKTYKSKYKFER 97 (836)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~~~C~~C~~~f~~~~~l~~ 97 (836)
.-.|+.|...... ..|..|+.... -....|+. ||..|. ...|..| +.|+.|++.|. ...|..
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~-r~~V~Cp~~~Cg~v~~-r~el~~H------------~~C~~Cgk~f~-~s~Lek 470 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCS-RHNVVCPHDGCGIVLR-VEEAKNH------------VHCEKCGQAFQ-QGEMEK 470 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCC-CcceeCCcccccceee-ccccccC------------ccCCCCCCccc-hHHHHH
Confidence 3467777766653 44667765432 23456764 777773 2223323 46788877775 566777
Q ss_pred hhhhcccCCCccccccCCCcccCCcccccccChHHHHHHHHHhcCCCceeccccccccCC----------cchHHHHHHH
Q psy6556 98 HKNTHVTENSEYPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAFAH----------KSSRDAHQNI 167 (836)
Q Consensus 98 H~~~h~~~~~~~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~----------~~~L~~H~~~ 167 (836)
|++.++. ++.|+ |++.+ .+..|..|+++|.+.+++.|.+|++.|.. .+.|..|...
T Consensus 471 H~~~~Hk------------pv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 471 HMKVFHE------------PLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred HHHhcCC------------CccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh
Confidence 7777641 46676 77543 56777777777777777777777777741 2467777776
Q ss_pred hCCCCCcccCcCCCcccChhhhhhhhhccCC
Q psy6556 168 HTDLKPYLCLTCGQSFRTFNLMKRHNLCDHQ 198 (836)
Q Consensus 168 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 198 (836)
. +.+++.|..||+.+.. ..|..|+...|.
T Consensus 537 C-G~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~ 565 (567)
T PLN03086 537 C-GSRTAPCDSCGRSVML-KEMDIHQIAVHQ 565 (567)
T ss_pred c-CCcceEccccCCeeee-hhHHHHHHHhhc
Confidence 4 6777777777777653 345666555443
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.99 E-value=1.7e-10 Score=79.39 Aligned_cols=43 Identities=16% Similarity=0.477 Sum_probs=37.4
Q ss_pred cccCccchhcccchhHHHHHhhcCCCccCCccchhcccchhhh
Q psy6556 778 QRCHKCNATFRIKKFLTRHMKTHLIQYRCTRCNKTFKQNTSFI 820 (836)
Q Consensus 778 ~~C~~C~~~F~~~~~L~~H~~~h~~~~~C~~C~~~f~~~~~l~ 820 (836)
|+|+.||+.|++.+.|..||++|+.+|+|..|++.|.+.++|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcCCcccCCcccceecccceeE
Confidence 7899999999999999999999888889999999888887764
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.97 E-value=1.4e-09 Score=115.53 Aligned_cols=151 Identities=18% Similarity=0.421 Sum_probs=116.7
Q ss_pred CCCeeecCcCCCcccCHHHHHHHHhhccCCCCCccccc--chHhhcChhhHHHHhhhcCCCCccccCcchhhccChhHHH
Q psy6556 362 NNSYLLCWKCGFKTSVLNELKAHIKSHHFPKQPSICAV--CGDTFKTNYNYFVHMRRHTGFKPYQCKTCNASYASMRVLQ 439 (836)
Q Consensus 362 ~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 439 (836)
......|+.|...... ..|..|...-. .....|+. ||..|. +..+. +.+.|+.|++.|. ...|.
T Consensus 404 ~~~~V~C~NC~~~i~l-~~l~lHe~~C~--r~~V~Cp~~~Cg~v~~-r~el~---------~H~~C~~Cgk~f~-~s~Le 469 (567)
T PLN03086 404 DVDTVECRNCKHYIPS-RSIALHEAYCS--RHNVVCPHDGCGIVLR-VEEAK---------NHVHCEKCGQAFQ-QGEME 469 (567)
T ss_pred CCCeEECCCCCCccch-hHHHHHHhhCC--CcceeCCcccccceee-ccccc---------cCccCCCCCCccc-hHHHH
Confidence 3455689999887654 45567875433 23456874 998883 33333 3368999999996 67899
Q ss_pred HHHhhhcCCCcccccccccccCCHHHHHHHHhhhcCCCccccccchhccc----------ChHHHHHHHhhhcCCCcccC
Q psy6556 440 HHEITHSKTLKFPCINCGKYFTKLEYMIKHMKRHFNTNKPVCEICSQTMA----------HNQVLQRHMTLHFTQNKHPC 509 (836)
Q Consensus 440 ~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~~C 509 (836)
.|+.+++ .++.|+ ||+.+ .+..|..|+..|.+.+++.|+.|++.|. ....|..|.... |.+++.|
T Consensus 470 kH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C 544 (567)
T PLN03086 470 KHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPC 544 (567)
T ss_pred HHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEc
Confidence 9999985 789999 99755 6789999999999999999999999985 235788998885 8899999
Q ss_pred ccccccccChHHHHHHHHHHhCC
Q psy6556 510 NRCNASFSSMVQLSCHQIRAHGK 532 (836)
Q Consensus 510 ~~C~~~f~~~~~L~~H~~~~h~~ 532 (836)
..||+.+.. ..|..|+...|.+
T Consensus 545 ~~Cgk~Vrl-rdm~~H~~~~h~~ 566 (567)
T PLN03086 545 DSCGRSVML-KEMDIHQIAVHQK 566 (567)
T ss_pred cccCCeeee-hhHHHHHHHhhcC
Confidence 999998875 6788899888854
No 15
>PHA00733 hypothetical protein
Probab=98.79 E-value=6.7e-09 Score=89.30 Aligned_cols=55 Identities=18% Similarity=0.428 Sum_probs=37.3
Q ss_pred CCCccccccchhcccChHHHHHHHhhhcCCCcccCccccccccChHHHHHHHHHHhC
Q psy6556 475 NTNKPVCEICSQTMAHNQVLQRHMTLHFTQNKHPCNRCNASFSSMVQLSCHQIRAHG 531 (836)
Q Consensus 475 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~ 531 (836)
+..+|.|+.|++.|.+...|..|++.| ..+|.|+.|++.|.....|..|+...|+
T Consensus 70 ~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 70 AVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 355666666666666666666666654 2457777777777777777777776665
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.78 E-value=2.4e-09 Score=73.88 Aligned_cols=44 Identities=20% Similarity=0.364 Sum_probs=29.9
Q ss_pred CcccccchHhhhchhHHHHHHHHhcCcCcccCCcccccccCchhHH
Q psy6556 688 PAKCKICNQSFALFSNLNAHYNKHLKVRRFSCTNCSLNFTYLSNLI 733 (836)
Q Consensus 688 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 733 (836)
.|.|+.||+.|...++|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4667777777777777777777766 5677777777776666553
No 17
>KOG1146|consensus
Probab=98.71 E-value=8.7e-09 Score=116.27 Aligned_cols=104 Identities=16% Similarity=0.208 Sum_probs=70.7
Q ss_pred ccccchHhhhchhHHHHHHHHhcC----cCcccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhhhhhH
Q psy6556 690 KCKICNQSFALFSNLNAHYNKHLK----VRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRDYTNH 765 (836)
Q Consensus 690 ~C~~C~~~f~~~~~L~~H~~~h~~----~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 765 (836)
.|.+|...|.....+..|-.--.. .--+.|..|++.|.....+. |+-. +.+|.|..|...|...+.|..|
T Consensus 1230 ~~~~~e~~f~~~~~~~~~a~~~~~~~~~sGe~~c~~~~~~~~~~~~~~-~l~~-----~~~~~~~~~~~~~~~~~~l~~~ 1303 (1406)
T KOG1146|consen 1230 LPNALEQPFPQEPEPTATAPPKPPELPASGEGECGAVDELLTPSFGIS-TLDV-----THRYLCRQCKMAFDGEAPLTAH 1303 (1406)
T ss_pred cHHhhhcCccCcccccccCCCCCCcCcCCCcchhhhccccccCcccee-eccc-----chhHHHHHHHhhhcchhHHHHH
Confidence 466677777766666555332111 12367889998888888887 6643 4578999999999999888888
Q ss_pred HHhhc-------------ccCCCCccccCccchhcccchhHHHHHhh
Q psy6556 766 VSVHM-------------ERKSGYTQRCHKCNATFRIKKFLTRHMKT 799 (836)
Q Consensus 766 ~~~H~-------------~~~~~~~~~C~~C~~~F~~~~~L~~H~~~ 799 (836)
.+.-. -.-+...|-|..|...|.....|+.||+.
T Consensus 1304 ~~k~~~~~~~~~~~~~~~l~~~d~~~~c~~c~~~~~~~~alqihm~~ 1350 (1406)
T KOG1146|consen 1304 QRKFCFAGRGSGGSMPPPLRVPDCTYHCLACEVLLSGREALQIHMRS 1350 (1406)
T ss_pred HHHHHhccCccccCCCCcccCccccccchHHHhhcchhHHHHHHHHH
Confidence 74310 01111223399999999999999999886
No 18
>KOG1146|consensus
Probab=98.69 E-value=1.2e-08 Score=115.15 Aligned_cols=140 Identities=14% Similarity=0.251 Sum_probs=94.4
Q ss_pred ccccccccccCHHHHHHHHh-hhcCCcceecccccccccChHHHHHHHHhhccCC----------------------Ccc
Q psy6556 22 HCPLCSKQFSKLTTLKRHVG-IHMKTQPVRCGYCGQFFLDLGRLNAHIRQRHTSN----------------------KKI 78 (836)
Q Consensus 22 ~C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~----------------------~~~ 78 (836)
.|.-|+..|.+...+..|+. ++.-.+.+.|+.|++.|.....|..|++.+|... ..+
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 46667777888888888864 4555688999999999999999999999765321 124
Q ss_pred ccccCccccccCChhhHHhhhhhcc--cC--------------CCccccccC-----------------CCcccCCcccc
Q psy6556 79 YYKCDKCNKTYKSKYKFERHKNTHV--TE--------------NSEYPCIYC-----------------RNIYPCSFCAY 125 (836)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~h~--~~--------------~~~~~C~~C-----------------~~~~~C~~C~~ 125 (836)
+|.|..|+..+.++.+|.+|++.-. .+ ...-.+..+ .-.+.|.+|++
T Consensus 518 p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~y 597 (1406)
T KOG1146|consen 518 PYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSY 597 (1406)
T ss_pred cccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcc
Confidence 7999999999999999999987421 10 000001111 11478999999
Q ss_pred cccChHHHHHHHHHhcCCCc-eeccccccccCCcchH
Q psy6556 126 RGRYRYHFKAHLRIHLNIKP-YACKYCGNAFAHKSSR 161 (836)
Q Consensus 126 ~~~~~~~l~~H~~~h~~~~~-~~C~~C~~~f~~~~~L 161 (836)
.......|+.||..-....+ ..+-.++.++.....+
T Consensus 598 etniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~ 634 (1406)
T KOG1146|consen 598 ETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLL 634 (1406)
T ss_pred hhhhhhccccccccCCCCCChHHHhhhcchhhccccc
Confidence 99999999999865322222 4444444444333333
No 19
>KOG3993|consensus
Probab=98.56 E-value=1.4e-08 Score=99.81 Aligned_cols=175 Identities=15% Similarity=0.203 Sum_probs=100.7
Q ss_pred ceecccccccccChHHHHHHHHhhccCCCccccccCccccccCChhhHHhhhhhcccCCCc-------------------
Q psy6556 48 PVRCGYCGQFFLDLGRLNAHIRQRHTSNKKIYYKCDKCNKTYKSKYKFERHKNTHVTENSE------------------- 108 (836)
Q Consensus 48 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~------------------- 108 (836)
.|.|..|...|.+.-.|.+|.--.-. ...|+|+.|+|.|+-..+|..|.++|......
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV---~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ 343 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIV---HVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQ 343 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeE---EeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhh
Confidence 46777777777777777777321111 12477777777777777777777777432100
Q ss_pred ----cccccCCCcccCCcccccccChHHHHHHHHHhcCCC-----------------ceeccccccccCCcchHHHHHHH
Q psy6556 109 ----YPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLNIK-----------------PYACKYCGNAFAHKSSRDAHQNI 167 (836)
Q Consensus 109 ----~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~-----------------~~~C~~C~~~f~~~~~L~~H~~~ 167 (836)
-.-+.-+.+|.|.+|++.|+....|+.|+.+|.... .+.|..|+-.+.....-..+...
T Consensus 344 ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~ 423 (500)
T KOG3993|consen 344 EAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLY 423 (500)
T ss_pred hccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceee
Confidence 000112336777777777777777777766664211 12334443333332222222111
Q ss_pred hCC-CCCcccCcCCCcccChhhhhhhhhccCCCCCcccCCccccccCChhhHhhhhcccC
Q psy6556 168 HTD-LKPYLCLTCGQSFRTFNLMKRHNLCDHQDVRNYLCNFCNKTYKDRKTLDNHILGHV 226 (836)
Q Consensus 168 h~~-~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 226 (836)
+.+ ...-.|+.|+..+.+...--.+.+..+ ....|.|.+|.-+|.+...|.+|+...+
T Consensus 424 ~a~sael~~pp~~~~ppsss~~sgg~~rlg~-~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 424 VAGSAELELPPYDGSPPSSSGSSGGYGRLGI-AEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred eeccccccCCCCCCCCcccCCCCCccccccc-hhhccccccchHhhhcCcchHhHhhhcC
Confidence 111 112357788877777666555543322 2345889999999999999999886543
No 20
>KOG3993|consensus
Probab=98.53 E-value=2.2e-08 Score=98.53 Aligned_cols=159 Identities=20% Similarity=0.268 Sum_probs=106.2
Q ss_pred CcccCcCCCcccChhhhhhhhhccCCCCCcccCCccccccCChhhHhhhhcccCCCC--------Cccccccc----ccc
Q psy6556 173 PYLCLTCGQSFRTFNLMKRHNLCDHQDVRNYLCNFCNKTYKDRKTLDNHILGHVDIK--------PYKQLSNL----QSH 240 (836)
Q Consensus 173 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~--------~~~~~~~l----~~h 240 (836)
.|.|..|...|...-.|.+|.-. --....|+|+.|+|+|+-..+|..|.+-|.... |-++.... +..
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~-RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCP-RIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCC-eeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 37888888888888888888421 112235889999999999999999988875322 11111000 000
Q ss_pred cc-cccCCCCCccCCccccccCChhHHHHHHhhhcCCCc-----------------------------------------
Q psy6556 241 IR-ISHTGERPFQCKYCNYAFKEKHHLETHVNLHLGKTK----------------------------------------- 278 (836)
Q Consensus 241 ~~-~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~----------------------------------------- 278 (836)
.+ -....+..|.|.+|++.|.....|+.|+.+|.....
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a 425 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVA 425 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeee
Confidence 00 011334579999999999999999999877643210
Q ss_pred ----cccCCCCCCccCChHHHHHHHhhcCCCCCcccccchhhcCChhHHHchHhhhcC
Q psy6556 279 ----SFNCNVCNYSSSLKWNLIQHYRIHTDEKPFNCSLCEKQFRQKIHVKNHLRIIHN 332 (836)
Q Consensus 279 ----~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 332 (836)
...+++++..++++..-..+.+.-..+..|.|.+|.-.|.+...|.+|+...|.
T Consensus 426 ~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 426 GSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred ccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcCh
Confidence 123555555555544443444333445669999999999999999999998886
No 21
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.48 E-value=7.9e-08 Score=56.57 Aligned_cols=26 Identities=27% Similarity=0.646 Sum_probs=20.2
Q ss_pred HHHHHHHHhcCcCcccCCcccccccC
Q psy6556 703 NLNAHYNKHLKVRRFSCTNCSLNFTY 728 (836)
Q Consensus 703 ~L~~H~~~h~~~~~~~C~~C~~~f~~ 728 (836)
+|+.|++.|+|++||+|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47788888888888888888887753
No 22
>PHA00732 hypothetical protein
Probab=98.36 E-value=2.1e-07 Score=71.72 Aligned_cols=45 Identities=24% Similarity=0.601 Sum_probs=23.3
Q ss_pred eecCcccccccchhhhhhHHHh-hcccCCCCccccCccchhcccchhHHHHHhhc
Q psy6556 747 YVCNYCGKSYIDKRDYTNHVSV-HMERKSGYTQRCHKCNATFRIKKFLTRHMKTH 800 (836)
Q Consensus 747 ~~C~~C~~~f~~~~~l~~H~~~-H~~~~~~~~~~C~~C~~~F~~~~~L~~H~~~h 800 (836)
|.|+.||+.|.+...|..|++. |.+ +.|++||++|. .|..|+++.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~------~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTL------TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCC------CccCCCCCEeC---Chhhhhccc
Confidence 5555555555555555555553 321 34555555554 355555444
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=98.35 E-value=3.2e-07 Score=54.00 Aligned_cols=24 Identities=46% Similarity=1.171 Sum_probs=14.8
Q ss_pred HHHHHHHhcCCCceeccccccccC
Q psy6556 133 FKAHLRIHLNIKPYACKYCGNAFA 156 (836)
Q Consensus 133 l~~H~~~h~~~~~~~C~~C~~~f~ 156 (836)
|.+|+++|++++||.|++|+++|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 556666666666666666666654
No 24
>PHA00616 hypothetical protein
Probab=98.30 E-value=4e-07 Score=59.64 Aligned_cols=34 Identities=15% Similarity=0.182 Sum_probs=28.8
Q ss_pred CcccccchHhhhchhHHHHHHHHhcCcCcccCCc
Q psy6556 688 PAKCKICNQSFALFSNLNAHYNKHLKVRRFSCTN 721 (836)
Q Consensus 688 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~ 721 (836)
||+|+.||+.|...++|..|++.|+|+++|.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5788888888888888888888888888888765
No 25
>PHA00616 hypothetical protein
Probab=98.30 E-value=2.6e-07 Score=60.50 Aligned_cols=34 Identities=15% Similarity=0.348 Sum_probs=24.5
Q ss_pred CcccccchHhhcCchhHHhhhhhcCCCccccCCc
Q psy6556 599 PFSCLLCNNTFAQLSTLLNHERIHDNHKPYKCTK 632 (836)
Q Consensus 599 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~ 632 (836)
||+|+.||+.|...+.|..|++.|+|++|+.|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5677777777777777777777777777776654
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.07 E-value=4.5e-06 Score=59.83 Aligned_cols=50 Identities=22% Similarity=0.489 Sum_probs=24.9
Q ss_pred ccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhhhhhHHHhh
Q psy6556 717 FSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRDYTNHVSVH 769 (836)
Q Consensus 717 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~H 769 (836)
|.|++|++. .+...|..|....|....+.+.||+|...+. .+|..|+..+
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHh
Confidence 555555553 3344555555555544444455555555433 2555555443
No 27
>PHA00732 hypothetical protein
Probab=98.07 E-value=2.3e-06 Score=66.00 Aligned_cols=45 Identities=31% Similarity=0.572 Sum_probs=20.5
Q ss_pred ccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhhhhhHHHh
Q psy6556 717 FSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRDYTNHVSV 768 (836)
Q Consensus 717 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 768 (836)
|.|++||+.|.+.++|..|++.+|. ++.|+.||+.|. .|..|++.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~----~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT----LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC----CCccCCCCCEeC---Chhhhhcc
Confidence 4455555555555555555443221 134555555554 34444433
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.86 E-value=1.8e-05 Score=56.71 Aligned_cols=49 Identities=29% Similarity=0.541 Sum_probs=24.8
Q ss_pred eecccccccccChHHHHHHHHhhccCCCccccccCccccccCChhhHHhhhhh
Q psy6556 49 VRCGYCGQFFLDLGRLNAHIRQRHTSNKKIYYKCDKCNKTYKSKYKFERHKNT 101 (836)
Q Consensus 49 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 101 (836)
|.|++|++. .+...|..|+...|..+.. .+.|++|...+. .+|..|+..
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~-~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESK-NVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCC-CccCCCchhhhh--hHHHHHHHH
Confidence 555555552 3445555555555554332 355666555433 255555544
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.72 E-value=1.3e-05 Score=45.98 Aligned_cols=21 Identities=38% Similarity=0.806 Sum_probs=9.9
Q ss_pred ccCccchhcccchhHHHHHhh
Q psy6556 779 RCHKCNATFRIKKFLTRHMKT 799 (836)
Q Consensus 779 ~C~~C~~~F~~~~~L~~H~~~ 799 (836)
+|+.|+++|.++..|..||+.
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHhH
Confidence 444444444444444444443
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=97.62 E-value=3.4e-05 Score=44.17 Aligned_cols=23 Identities=52% Similarity=1.113 Sum_probs=16.1
Q ss_pred cccccccccccCHHHHHHHHhhh
Q psy6556 21 YHCPLCSKQFSKLTTLKRHVGIH 43 (836)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h 43 (836)
|.|+.|++.|.++..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56777777777777777777653
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.29 E-value=0.00011 Score=61.60 Aligned_cols=21 Identities=33% Similarity=0.762 Sum_probs=0.0
Q ss_pred cccchHhhhchhHHHHHHHHh
Q psy6556 691 CKICNQSFALFSNLNAHYNKH 711 (836)
Q Consensus 691 C~~C~~~f~~~~~L~~H~~~h 711 (836)
|.+|+..|.+...|..||...
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~ 22 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKK 22 (100)
T ss_dssp ---------------------
T ss_pred ccccccccccccccccccccc
Confidence 444555555555555554433
No 32
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.19 E-value=0.00021 Score=41.38 Aligned_cols=19 Identities=37% Similarity=0.658 Sum_probs=6.6
Q ss_pred CCcccccccCchhHHHHHH
Q psy6556 719 CTNCSLNFTYLSNLIRHRR 737 (836)
Q Consensus 719 C~~C~~~f~~~~~L~~H~~ 737 (836)
|++|++.|.+...|+.|++
T Consensus 3 C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 3 CPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp -SSTS-EESSHHHHHHHHH
T ss_pred CcCCCCcCCcHHHHHHHHH
Confidence 3333333333333333333
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.17 E-value=0.00022 Score=59.78 Aligned_cols=73 Identities=27% Similarity=0.529 Sum_probs=20.5
Q ss_pred cCCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhhhhhHHHhhcccCCCCccccCccchhcccchhHHHHH
Q psy6556 718 SCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRDYTNHVSVHMERKSGYTQRCHKCNATFRIKKFLTRHM 797 (836)
Q Consensus 718 ~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~~~~C~~C~~~F~~~~~L~~H~ 797 (836)
+|..|+..|.+...|..|+...|+.. -+ ....+.....+..+++.-... .+.|.+|++.|.+...|..||
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~-----~~-~~~~l~~~~~~~~~~~~~~~~----~~~C~~C~~~f~s~~~l~~Hm 70 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD-----IP-DQKYLVDPNRLLNYLRKKVKE----SFRCPYCNKTFRSREALQEHM 70 (100)
T ss_dssp ------------------------------------------------------S----SEEBSSSS-EESSHHHHHHHH
T ss_pred Cccccccccccccccccccccccccc-----cc-cccccccccccccccccccCC----CCCCCccCCCCcCHHHHHHHH
Confidence 58999999999999999998887521 11 223333555555555432222 488999999999999999999
Q ss_pred hhc
Q psy6556 798 KTH 800 (836)
Q Consensus 798 ~~h 800 (836)
+.+
T Consensus 71 ~~~ 73 (100)
T PF12756_consen 71 RSK 73 (100)
T ss_dssp HHT
T ss_pred cCc
Confidence 975
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=97.12 E-value=0.00032 Score=40.65 Aligned_cols=23 Identities=35% Similarity=1.012 Sum_probs=13.2
Q ss_pred cccccccccccCHHHHHHHHhhh
Q psy6556 21 YHCPLCSKQFSKLTTLKRHVGIH 43 (836)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h 43 (836)
|.|++|++.|.+...|+.|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45666666666666666666554
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.11 E-value=0.00019 Score=68.50 Aligned_cols=66 Identities=23% Similarity=0.427 Sum_probs=35.8
Q ss_pred CCccccc--chHhhhchhHHHHHHHHhc-CcCccc--CCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhh
Q psy6556 687 APAKCKI--CNQSFALFSNLNAHYNKHL-KVRRFS--CTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRD 761 (836)
Q Consensus 687 ~~~~C~~--C~~~f~~~~~L~~H~~~h~-~~~~~~--C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~ 761 (836)
+||+|++ |+|.++....|+.|+.--+ ..+... =++=-..| ...++||+|++|+|+|.....
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F--------------~~~~KPYrCevC~KRYKNlNG 413 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF--------------SAKDKPYRCEVCDKRYKNLNG 413 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccc--------------cccCCceeccccchhhccCcc
Confidence 6777776 7777777777777765421 111000 00000111 123567777777777777777
Q ss_pred hhhHH
Q psy6556 762 YTNHV 766 (836)
Q Consensus 762 l~~H~ 766 (836)
|..|.
T Consensus 414 LKYHr 418 (423)
T COG5189 414 LKYHR 418 (423)
T ss_pred ceecc
Confidence 76664
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.01 E-value=0.00031 Score=67.12 Aligned_cols=70 Identities=23% Similarity=0.432 Sum_probs=42.1
Q ss_pred CCceecCc--ccccccchhhhhhHHHh-hcccCCCCccccCccchhcccchhHHHHHhhcCCCccCCccchhcccchhhh
Q psy6556 744 EGKYVCNY--CGKSYIDKRDYTNHVSV-HMERKSGYTQRCHKCNATFRIKKFLTRHMKTHLIQYRCTRCNKTFKQNTSFI 820 (836)
Q Consensus 744 ~~~~~C~~--C~~~f~~~~~l~~H~~~-H~~~~~~~~~~C~~C~~~F~~~~~L~~H~~~h~~~~~C~~C~~~f~~~~~l~ 820 (836)
++||+|++ |+|.|.++..|..|+.- |-..+.- +-.=++=-..|. .--+||+|++|+|+|+....|+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~-~~p~p~~~~~F~----------~~~KPYrCevC~KRYKNlNGLK 415 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLH-ENPSPEKMNIFS----------AKDKPYRCEVCDKRYKNLNGLK 415 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccC-CCCCcccccccc----------ccCCceeccccchhhccCccce
Confidence 57888887 88888888888888642 2111100 000000011110 1124899999999999999999
Q ss_pred hccc
Q psy6556 821 RHSL 824 (836)
Q Consensus 821 ~H~~ 824 (836)
-|+.
T Consensus 416 YHr~ 419 (423)
T COG5189 416 YHRK 419 (423)
T ss_pred eccc
Confidence 8864
No 37
>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=97.00 E-value=0.00043 Score=41.41 Aligned_cols=25 Identities=36% Similarity=0.770 Sum_probs=16.3
Q ss_pred ccccccccccccCHHHHHHHHhhhc
Q psy6556 20 TYHCPLCSKQFSKLTTLKRHVGIHM 44 (836)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~~~h~ 44 (836)
||.|..|++.|.+...|..|++.|.
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 4666666666666666666666553
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=96.98 E-value=0.00039 Score=41.59 Aligned_cols=25 Identities=36% Similarity=0.813 Sum_probs=16.2
Q ss_pred ccccCccccccCChhhHHhhhhhcc
Q psy6556 79 YYKCDKCNKTYKSKYKFERHKNTHV 103 (836)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~h~ 103 (836)
+|.|+.|++.|.+..+|..|++.|.
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 3566666666666666666666553
No 39
>KOG2231|consensus
Probab=96.72 E-value=0.0019 Score=70.50 Aligned_cols=46 Identities=30% Similarity=0.591 Sum_probs=22.4
Q ss_pred cCCcccccccCchhHHHHHHhhcCCCCCceecCcc------cccccchhhhhhHHHhh
Q psy6556 718 SCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYC------GKSYIDKRDYTNHVSVH 769 (836)
Q Consensus 718 ~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C------~~~f~~~~~l~~H~~~H 769 (836)
.|..|...|.....|.+|++..| |.|..| +..|.+..+|..|.+.+
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h------~~chfC~~~~~~neyy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH------EFCHFCDYKTGQNEYYNDYDDLEEHFRKG 235 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce------eheeecCcccccchhcccchHHHHHhhhc
Confidence 35555555555555555555443 334444 23344455555555443
No 40
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.63 E-value=0.0012 Score=44.36 Aligned_cols=30 Identities=27% Similarity=0.435 Sum_probs=19.0
Q ss_pred CCcccccchHhhhchhHHHHHHHHhcCcCc
Q psy6556 687 APAKCKICNQSFALFSNLNAHYNKHLKVRR 716 (836)
Q Consensus 687 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 716 (836)
.|..|++|+..+.+..+|++|+..+++.+|
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 577788888888888888888877777665
No 41
>KOG2231|consensus
Probab=96.59 E-value=0.0052 Score=67.19 Aligned_cols=108 Identities=22% Similarity=0.467 Sum_probs=58.5
Q ss_pred ccccchhhcCChhHHHchHhhhcCCCcccccccccCccccccccccccccCCCCCCeeecCcCCCcccCHHHHHHHHhhc
Q psy6556 309 NCSLCEKQFRQKIHVKNHLRIIHNMNFCDHCFKFVGPEQELNIFRHCEVCDKSNNSYLLCWKCGFKTSVLNELKAHIKSH 388 (836)
Q Consensus 309 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~ 388 (836)
.|..| -.|.+...|+.|+...|....|..|...... + ++-.+..+..+|..|+...
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~ki--------------------f---~~e~k~Yt~~el~~h~~~g 172 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKI--------------------F---INERKLYTRAELNLHLMFG 172 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhhhhcccccccccee--------------------e---eeeeehehHHHHHHHHhcC
Confidence 46667 6677777777777777776666665443221 1 1112334455666666554
Q ss_pred cCCCCC----cccccchHhhcChhhHHHHhhhcCCCCccccCcch------hhccChhHHHHHHhh
Q psy6556 389 HFPKQP----SICAVCGDTFKTNYNYFVHMRRHTGFKPYQCKTCN------ASYASMRVLQHHEIT 444 (836)
Q Consensus 389 ~~~~~~----~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~------~~f~~~~~L~~H~~~ 444 (836)
-.++.. -.|..|...|.....|..|++.++ |.|..|+ .-|.....|..|.+.
T Consensus 173 d~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~ 234 (669)
T KOG2231|consen 173 DPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRK 234 (669)
T ss_pred CCccccccCCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhh
Confidence 321111 246666666666666666666544 4455553 334444555555443
No 42
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.43 E-value=0.0018 Score=38.24 Aligned_cols=24 Identities=42% Similarity=0.841 Sum_probs=15.0
Q ss_pred cccCccchhcccchhHHHHHhhcC
Q psy6556 778 QRCHKCNATFRIKKFLTRHMKTHL 801 (836)
Q Consensus 778 ~~C~~C~~~F~~~~~L~~H~~~h~ 801 (836)
|+|+.|+++|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 356666666666666666666553
No 43
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.37 E-value=0.0018 Score=43.48 Aligned_cols=40 Identities=28% Similarity=0.473 Sum_probs=20.6
Q ss_pred HHHhhccCCCCCcccccchHhhcChhhHHHHhhhcCCCCc
Q psy6556 383 AHIKSHHFPKQPSICAVCGDTFKTNYNYFVHMRRHTGFKP 422 (836)
Q Consensus 383 ~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 422 (836)
.+.+++...+.|-.|++|+..+....+|++|+..+++.+|
T Consensus 13 ~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 13 KKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ---CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3444445556667777777777777777777766665554
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.06 E-value=0.0053 Score=36.12 Aligned_cols=24 Identities=42% Similarity=0.872 Sum_probs=17.1
Q ss_pred cccccccccccCHHHHHHHHhhhc
Q psy6556 21 YHCPLCSKQFSKLTTLKRHVGIHM 44 (836)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~h~ 44 (836)
|.|+.|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 567777777777777777776553
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.67 E-value=0.0056 Score=35.28 Aligned_cols=23 Identities=43% Similarity=0.759 Sum_probs=13.8
Q ss_pred ccCCccchhhcchhhHHHHhhhhc
Q psy6556 628 YKCTKCNYSARVLSNKLAHERIYH 651 (836)
Q Consensus 628 ~~C~~C~~~f~~~~~l~~H~~~h~ 651 (836)
|+|+.|+++.. ..+|..|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56777776666 666777766655
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.60 E-value=0.0081 Score=35.01 Aligned_cols=22 Identities=32% Similarity=0.818 Sum_probs=14.1
Q ss_pred cccccccccccCHHHHHHHHhh
Q psy6556 21 YHCPLCSKQFSKLTTLKRHVGI 42 (836)
Q Consensus 21 ~~C~~C~~~f~~~~~l~~H~~~ 42 (836)
|.|++|++.|.+...|..|++.
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 4566666666666666666643
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.58 E-value=0.0064 Score=35.46 Aligned_cols=22 Identities=32% Similarity=0.818 Sum_probs=13.7
Q ss_pred cccCccccccCChhhHHhhhhh
Q psy6556 80 YKCDKCNKTYKSKYKFERHKNT 101 (836)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~ 101 (836)
|.|++|++.|.+...|..|++.
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 48
>KOG2482|consensus
Probab=95.21 E-value=0.027 Score=54.93 Aligned_cols=53 Identities=17% Similarity=0.305 Sum_probs=42.1
Q ss_pred cccCcCCCcccChhhhhhhhhccCCCC--------------------------CcccCCccccccCChhhHhhhhcccC
Q psy6556 174 YLCLTCGQSFRTFNLMKRHNLCDHQDV--------------------------RNYLCNFCNKTYKDRKTLDNHILGHV 226 (836)
Q Consensus 174 ~~C~~C~~~f~~~~~l~~H~~~~h~~~--------------------------~~~~C~~C~~~f~~~~~l~~H~~~h~ 226 (836)
..|-.|.....+...|..||...|.=. ..-.|-.|+-.|.....|..||..+.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k 358 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDK 358 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccccc
Confidence 479999999888999999988777310 12358899999999999999987543
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.13 E-value=0.017 Score=33.19 Aligned_cols=23 Identities=35% Similarity=0.482 Sum_probs=12.6
Q ss_pred ccCccccccccChHHHHHHHHHHh
Q psy6556 507 HPCNRCNASFSSMVQLSCHQIRAH 530 (836)
Q Consensus 507 ~~C~~C~~~f~~~~~L~~H~~~~h 530 (836)
|+|+.|+++.. ...|..|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45666666665 556666666555
No 50
>PRK04860 hypothetical protein; Provisional
Probab=95.05 E-value=0.0073 Score=54.21 Aligned_cols=41 Identities=22% Similarity=0.602 Sum_probs=34.9
Q ss_pred CCcccccchHhhcCchhHHhhhhhcCCCccccCCccchhhcchhh
Q psy6556 598 RPFSCLLCNNTFAQLSTLLNHERIHDNHKPYKCTKCNYSARVLSN 642 (836)
Q Consensus 598 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~ 642 (836)
-+|.|. |+. ....+.+|.++|+++++|.|..|+..|....+
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~~ 158 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKGE 158 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEecc
Confidence 379998 987 77889999999999999999999988875543
No 51
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.88 E-value=0.018 Score=34.28 Aligned_cols=22 Identities=27% Similarity=0.819 Sum_probs=18.9
Q ss_pred cccCccccccCChhhHHhhhhh
Q psy6556 80 YKCDKCNKTYKSKYKFERHKNT 101 (836)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~ 101 (836)
|.|++|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6789999999999999988875
No 52
>PRK04860 hypothetical protein; Provisional
Probab=94.79 E-value=0.019 Score=51.54 Aligned_cols=38 Identities=29% Similarity=0.688 Sum_probs=29.4
Q ss_pred ceeccccccccCCcchHHHHHHHhCCCCCcccCcCCCcccCh
Q psy6556 145 PYACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQSFRTF 186 (836)
Q Consensus 145 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~ 186 (836)
+|.|. |+. ....+.+|.++|+++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 58887 876 667788888888888888888888777543
No 53
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.71 E-value=0.011 Score=65.66 Aligned_cols=143 Identities=23% Similarity=0.287 Sum_probs=95.8
Q ss_pred CCcccccchHhhcCchhHHhhhh--hcCCC--ccccCC--ccchhhcchhhHHHHhhhhccCccccccCCCccccccchh
Q psy6556 598 RPFSCLLCNNTFAQLSTLLNHER--IHDNH--KPYKCT--KCNYSARVLSNKLAHERIYHQDHVFKCHINNCIFSTKFYS 671 (836)
Q Consensus 598 ~~~~C~~C~~~f~~~~~L~~H~~--~H~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~c~c~~~~~~~~ 671 (836)
.++.|..|...|.....|..|.+ .|+++ +|+.|+ .|++.|.....+..|...+.+..++.+....+........
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 57899999999999999999999 89999 999999 8999999999999999999999888876644444333211
Q ss_pred HHHhhhhh--cccCCCCCCccccc--chHhhhchhHHHHHHHHhcCcC--cccCCcccccccCchhHHHHHHhhc
Q psy6556 672 CLRRHRKI--FHSNESYAPAKCKI--CNQSFALFSNLNAHYNKHLKVR--RFSCTNCSLNFTYLSNLIRHRRIKH 740 (836)
Q Consensus 672 ~l~~H~~~--~~~~~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~--~~~C~~C~~~f~~~~~L~~H~~~~h 740 (836)
.-..+... .........+.+.. |...+.....+..|...|...+ .+.+..|.+.|.....|..|++.+.
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccc
Confidence 10000000 00011112222322 5566666666666666665544 4455667777777777766666554
No 54
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.67 E-value=0.025 Score=55.09 Aligned_cols=33 Identities=24% Similarity=0.573 Sum_probs=22.5
Q ss_pred CccCCc--cccccCChhHHHHHHhhhcCCCccccCCCC
Q psy6556 250 PFQCKY--CNYAFKEKHHLETHVNLHLGKTKSFNCNVC 285 (836)
Q Consensus 250 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C 285 (836)
.|.|+. |..+......|..|.+..++. +-|.+|
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~---~~C~~C 185 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF---VLCSEC 185 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc---EEhHhh
Confidence 366765 777777777888888776653 566666
No 55
>KOG2482|consensus
Probab=94.41 E-value=0.087 Score=51.62 Aligned_cols=78 Identities=19% Similarity=0.178 Sum_probs=40.8
Q ss_pred eecCcCCCcccCHHHHHHHHhhccCCCCCcccccchHhhcChhhHHHHhhhcCCCCccccCcchhhccChhHHHHHHhhh
Q psy6556 366 LLCWKCGFKTSVLNELKAHIKSHHFPKQPSICAVCGDTFKTNYNYFVHMRRHTGFKPYQCKTCNASYASMRVLQHHEITH 445 (836)
Q Consensus 366 ~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 445 (836)
..|-.|.....+...|..|++..|.=+-.-.=..=+--|..+..+..-+|.- ...-.|-.|+..|.....|..|+..+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq--~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQ--KKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHH--hhccccccccccccCcchhhhhcccc
Confidence 5777887777777788888877663100000000001111111122222111 12245777888888888888887654
No 56
>KOG2785|consensus
Probab=94.36 E-value=0.073 Score=53.46 Aligned_cols=53 Identities=26% Similarity=0.367 Sum_probs=45.4
Q ss_pred CCCcccccchHhhcCchhHHhhhhhcCCC-----------------------ccccCCccc---hhhcchhhHHHHhhh
Q psy6556 597 DRPFSCLLCNNTFAQLSTLLNHERIHDNH-----------------------KPYKCTKCN---YSARVLSNKLAHERI 649 (836)
Q Consensus 597 ~~~~~C~~C~~~f~~~~~L~~H~~~H~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 649 (836)
.-|-.|.+|++.|++...-..||..++|- .-|.|-.|+ +.|.+..+.++||..
T Consensus 164 ~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 164 LIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 34678999999999999999999988862 247899999 999999999999964
No 57
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.22 E-value=0.029 Score=33.37 Aligned_cols=22 Identities=23% Similarity=0.763 Sum_probs=17.0
Q ss_pred ccCCccccccCChhhHhhhhcc
Q psy6556 203 YLCNFCNKTYKDRKTLDNHILG 224 (836)
Q Consensus 203 ~~C~~C~~~f~~~~~l~~H~~~ 224 (836)
|.|..|++.|.+...|..|+.+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6688888888888888888653
No 58
>KOG2785|consensus
Probab=94.04 E-value=0.075 Score=53.35 Aligned_cols=28 Identities=25% Similarity=0.483 Sum_probs=22.6
Q ss_pred CCCCCccCCccccccCChhHHHHHHhhh
Q psy6556 246 TGERPFQCKYCNYAFKEKHHLETHVNLH 273 (836)
Q Consensus 246 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h 273 (836)
.++-++.|.+|.+.|.+..+...|+..-
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk 91 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSK 91 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHh
Confidence 3456788999999999999999998653
No 59
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.01 E-value=0.035 Score=54.17 Aligned_cols=87 Identities=28% Similarity=0.462 Sum_probs=54.1
Q ss_pred chhHHHHHHHHhcCcCcc----cCCcccccccCchhHHHHHHhhcCCCCCceecCccccc-------ccchhhhhhHHHh
Q psy6556 700 LFSNLNAHYNKHLKVRRF----SCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKS-------YIDKRDYTNHVSV 768 (836)
Q Consensus 700 ~~~~L~~H~~~h~~~~~~----~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~-------f~~~~~l~~H~~~ 768 (836)
+.+.|+.|...-..+..| .|..|...|-.-..|.+|+|..| | .|-+|++. |.+..+|..|.+.
T Consensus 200 ~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~H---E---~ChICD~v~p~~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 200 RSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRH---E---ACHICDMVGPIRYQYFKSYEDLEAHFRN 273 (493)
T ss_pred ecccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhh---h---hhhhhhccCccchhhhhCHHHHHHHhhc
Confidence 345566665443333234 48888888888888888888776 4 45555443 6677777777653
Q ss_pred hcccCCCCccccCc--c----chhcccchhHHHHHhh
Q psy6556 769 HMERKSGYTQRCHK--C----NATFRIKKFLTRHMKT 799 (836)
Q Consensus 769 H~~~~~~~~~~C~~--C----~~~F~~~~~L~~H~~~ 799 (836)
- .|.|.+ | -..|.....|+.|+..
T Consensus 274 ~-------hy~ct~qtc~~~k~~vf~~~~el~~h~~~ 303 (493)
T COG5236 274 A-------HYCCTFQTCRVGKCYVFPYHTELLEHLTR 303 (493)
T ss_pred C-------ceEEEEEEEecCcEEEeccHHHHHHHHHH
Confidence 2 155543 4 2467777778888654
No 60
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.43 E-value=0.041 Score=61.07 Aligned_cols=142 Identities=25% Similarity=0.366 Sum_probs=86.7
Q ss_pred CcccccchHhhhchhHHHHHHH--HhcCc--CcccCC--cccccccCchhHHHHHHhhcCCCCCceecCc--ccccccch
Q psy6556 688 PAKCKICNQSFALFSNLNAHYN--KHLKV--RRFSCT--NCSLNFTYLSNLIRHRRIKHSQHEGKYVCNY--CGKSYIDK 759 (836)
Q Consensus 688 ~~~C~~C~~~f~~~~~L~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~--C~~~f~~~ 759 (836)
++.|..|...|.....|..|++ .|.++ +++.|+ .|++.|.+...|..|...+... ..+.+.. +...+...
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI--SPAKEKLLNSSSKFSPL 366 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCC--CccccccccCccccccc
Confidence 5678888888888888888888 78888 888888 6888888888888888777642 3334433 44444333
Q ss_pred hhhhhHHHhhc--ccCCCCccccC--ccchhcccchhHHHHHhhcCC----CccCCccchhcccchhhhhccccccCCCC
Q psy6556 760 RDYTNHVSVHM--ERKSGYTQRCH--KCNATFRIKKFLTRHMKTHLI----QYRCTRCNKTFKQNTSFIRHSLKHFNSSN 831 (836)
Q Consensus 760 ~~l~~H~~~H~--~~~~~~~~~C~--~C~~~F~~~~~L~~H~~~h~~----~~~C~~C~~~f~~~~~l~~H~~~H~~~~~ 831 (836)
..-..+..+.. +......+.+. .|-..+.....+..|...|.. .+.+..|++.|.....+..|++.|....+
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAP 446 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCc
Confidence 33221211111 11111123332 266666666666666666643 46666677777777777777777665433
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.36 E-value=0.12 Score=29.88 Aligned_cols=19 Identities=32% Similarity=0.931 Sum_probs=10.3
Q ss_pred ccccccccccCHHHHHHHHh
Q psy6556 22 HCPLCSKQFSKLTTLKRHVG 41 (836)
Q Consensus 22 ~C~~C~~~f~~~~~l~~H~~ 41 (836)
.|+.||+.| ....|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 4455555543
No 62
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.08 E-value=0.089 Score=33.60 Aligned_cols=22 Identities=32% Similarity=0.560 Sum_probs=13.4
Q ss_pred CccCCccchhcccchhhhhccc
Q psy6556 803 QYRCTRCNKTFKQNTSFIRHSL 824 (836)
Q Consensus 803 ~~~C~~C~~~f~~~~~l~~H~~ 824 (836)
+|.|++|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4566666666666666666654
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.95 E-value=0.15 Score=29.56 Aligned_cols=19 Identities=32% Similarity=0.588 Sum_probs=9.2
Q ss_pred ccCccchhcccchhHHHHHh
Q psy6556 779 RCHKCNATFRIKKFLTRHMK 798 (836)
Q Consensus 779 ~C~~C~~~F~~~~~L~~H~~ 798 (836)
.|+.||++| ....|..|++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 355555555 4444555543
No 64
>KOG4173|consensus
Probab=90.54 E-value=0.14 Score=46.33 Aligned_cols=80 Identities=21% Similarity=0.428 Sum_probs=47.8
Q ss_pred cccccCCCccccccchhHHHhhhhhcccCCCCCCcccccchHhhhchhHHHHHHHHh----------cCcCcccC--Ccc
Q psy6556 655 VFKCHINNCIFSTKFYSCLRRHRKIFHSNESYAPAKCKICNQSFALFSNLNAHYNKH----------LKVRRFSC--TNC 722 (836)
Q Consensus 655 ~~~C~~c~c~~~~~~~~~l~~H~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h----------~~~~~~~C--~~C 722 (836)
.|.|++-+|.-.+........|..+.|++ .|.+|.+.|.+.-.|..|+..- .|...|+| +-|
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~~------sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgC 152 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHGN------SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGC 152 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcccc------hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhh
Confidence 35566655665565555566666655533 3777777777777777776432 23345666 346
Q ss_pred cccccCchhHHHHHHhhc
Q psy6556 723 SLNFTYLSNLIRHRRIKH 740 (836)
Q Consensus 723 ~~~f~~~~~L~~H~~~~h 740 (836)
+..|.+..+-..|+...|
T Consensus 153 t~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 153 TEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhhhhHHHHhc
Confidence 666666666666665555
No 65
>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=89.61 E-value=0.25 Score=31.51 Aligned_cols=21 Identities=24% Similarity=0.709 Sum_probs=13.2
Q ss_pred ccccccccccccCHHHHHHHH
Q psy6556 20 TYHCPLCSKQFSKLTTLKRHV 40 (836)
Q Consensus 20 ~~~C~~C~~~f~~~~~l~~H~ 40 (836)
+|.|++|++.|.+...+..|+
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~ 23 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHL 23 (35)
T ss_pred CeEccccCCccCCHHHHHHHH
Confidence 456666666666666666665
No 66
>KOG2893|consensus
Probab=89.08 E-value=0.14 Score=47.20 Aligned_cols=43 Identities=23% Similarity=0.479 Sum_probs=34.7
Q ss_pred eecCcCCCcccCHHHHHHHHhhccCCCCCcccccchHhhcChhhHHHH
Q psy6556 366 LLCWKCGFKTSVLNELKAHIKSHHFPKQPSICAVCGDTFKTNYNYFVH 413 (836)
Q Consensus 366 ~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H 413 (836)
--|++|+..|.+..-|..|++..| |+|.+|-+...+--.|..|
T Consensus 11 pwcwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred ceeeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceee
Confidence 358899999999999988888766 6888888887777777666
No 67
>KOG4173|consensus
Probab=88.72 E-value=0.27 Score=44.46 Aligned_cols=78 Identities=24% Similarity=0.461 Sum_probs=61.9
Q ss_pred CCccccc--chHhhhchhHHHHHHHHhcCcCcccCCcccccccCchhHHHHHHhhcC--------CCCCceecCc--ccc
Q psy6556 687 APAKCKI--CNQSFALFSNLNAHYNKHLKVRRFSCTNCSLNFTYLSNLIRHRRIKHS--------QHEGKYVCNY--CGK 754 (836)
Q Consensus 687 ~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~--------~~~~~~~C~~--C~~ 754 (836)
+.+.|++ |.+.|........|+..-++ -.|..|.+.|.+...|..|+.--|. .+...|+|-+ |+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 5688988 88999999999999876554 3699999999999999999865552 2344678866 888
Q ss_pred cccchhhhhhHHH
Q psy6556 755 SYIDKRDYTNHVS 767 (836)
Q Consensus 755 ~f~~~~~l~~H~~ 767 (836)
.|.+..+...|+-
T Consensus 155 KFkT~r~RkdH~I 167 (253)
T KOG4173|consen 155 KFKTSRDRKDHMI 167 (253)
T ss_pred hhhhhhhhhhHHH
Confidence 8888888888864
No 68
>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=87.68 E-value=0.28 Score=30.73 Aligned_cols=11 Identities=55% Similarity=1.177 Sum_probs=6.9
Q ss_pred eecCccccccc
Q psy6556 747 YVCNYCGKSYI 757 (836)
Q Consensus 747 ~~C~~C~~~f~ 757 (836)
|+|.+||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 56666766654
No 69
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.64 E-value=1.1 Score=37.18 Aligned_cols=25 Identities=20% Similarity=0.309 Sum_probs=17.2
Q ss_pred ccccCccchhcccchhHHHHHhhcC
Q psy6556 777 TQRCHKCNATFRIKKFLTRHMKTHL 801 (836)
Q Consensus 777 ~~~C~~C~~~F~~~~~L~~H~~~h~ 801 (836)
.|+|+.|...|--.-++-.|...|.
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ceeCCCCCCccccccchhhhhhccC
Confidence 3777777777777777776666654
No 70
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.19 E-value=0.62 Score=38.54 Aligned_cols=80 Identities=24% Similarity=0.476 Sum_probs=53.4
Q ss_pred CCcccccchHhhhchhHHHHHHHHhcCcCcc------------cCCcccccccCchhHHHHHHhhcCCCCCceecCcccc
Q psy6556 687 APAKCKICNQSFALFSNLNAHYNKHLKVRRF------------SCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGK 754 (836)
Q Consensus 687 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~------------~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~ 754 (836)
-|..|++||-+..++..|.+-+.---..++| .|--|.+.|........= -......|+|+.|..
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~----~~~~~~~y~C~~C~~ 89 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD----ELKDSHRYVCAVCKN 89 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc----ccccccceeCCCCCC
Confidence 4677888888888777776543211112222 399999999765422100 011356899999999
Q ss_pred cccchhhhhhHHHhhc
Q psy6556 755 SYIDKRDYTNHVSVHM 770 (836)
Q Consensus 755 ~f~~~~~l~~H~~~H~ 770 (836)
.|-..-++-.|...|.
T Consensus 90 ~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 90 VFCVDCDVFVHESLHC 105 (112)
T ss_pred ccccccchhhhhhccC
Confidence 9999999999987773
No 71
>KOG2893|consensus
Probab=84.45 E-value=0.32 Score=45.03 Aligned_cols=49 Identities=22% Similarity=0.419 Sum_probs=33.5
Q ss_pred eccccccccCCcchHHHHHHHhCCCCCcccCcCCCcccChhhhhhhhhccCCC
Q psy6556 147 ACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQSFRTFNLMKRHNLCDHQD 199 (836)
Q Consensus 147 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 199 (836)
-|-+|++.|....-|..|++. +-|+|-+|.+..-+--.|..|...+|.+
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhhhh
Confidence 377777777777777777664 3377777777776777777776555543
No 72
>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=80.35 E-value=0.89 Score=28.69 Aligned_cols=10 Identities=40% Similarity=0.966 Sum_probs=6.4
Q ss_pred eecCcccccc
Q psy6556 747 YVCNYCGKSY 756 (836)
Q Consensus 747 ~~C~~C~~~f 756 (836)
|+|.+||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 6666666654
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=79.79 E-value=0.82 Score=31.55 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=21.5
Q ss_pred CCCCCceecCcccccccchhhhhhHHHhh
Q psy6556 741 SQHEGKYVCNYCGKSYIDKRDYTNHVSVH 769 (836)
Q Consensus 741 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~H 769 (836)
.++|--+.||-||..|..+.++..|+..-
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 34566778888888888888888887643
No 74
>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=78.99 E-value=1.4 Score=36.58 Aligned_cols=14 Identities=36% Similarity=0.866 Sum_probs=7.6
Q ss_pred Ccceeccccccccc
Q psy6556 46 TQPVRCGYCGQFFL 59 (836)
Q Consensus 46 ~~~~~C~~C~~~f~ 59 (836)
..|..|++||..|.
T Consensus 24 k~PivCP~CG~~~~ 37 (108)
T PF09538_consen 24 KDPIVCPKCGTEFP 37 (108)
T ss_pred CCCccCCCCCCccC
Confidence 35555555555554
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=78.28 E-value=1.2 Score=30.76 Aligned_cols=31 Identities=26% Similarity=0.350 Sum_probs=25.7
Q ss_pred cCCCcccCccccccccChHHHHHHHHHHhCC
Q psy6556 502 FTQNKHPCNRCNASFSSMVQLSCHQIRAHGK 532 (836)
Q Consensus 502 ~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~ 532 (836)
.|+.-++|+-|+..|....+..+|+...|+-
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 4566788999999999999999998888764
No 76
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.43 E-value=0.86 Score=43.83 Aligned_cols=47 Identities=19% Similarity=0.376 Sum_probs=24.7
Q ss_pred CCceecCcccccccchhhhhhHHHh---hcccCCC------C---ccccCccchhcccc
Q psy6556 744 EGKYVCNYCGKSYIDKRDYTNHVSV---HMERKSG------Y---TQRCHKCNATFRIK 790 (836)
Q Consensus 744 ~~~~~C~~C~~~f~~~~~l~~H~~~---H~~~~~~------~---~~~C~~C~~~F~~~ 790 (836)
++.+.||+|++.|..+.-+....++ ..+-.+. . ..+||.||.+|...
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 3456777777777666555444432 1111100 0 12677887777755
No 77
>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=75.15 E-value=1 Score=29.92 Aligned_cols=11 Identities=36% Similarity=1.150 Sum_probs=6.3
Q ss_pred eecCccccccc
Q psy6556 747 YVCNYCGKSYI 757 (836)
Q Consensus 747 ~~C~~C~~~f~ 757 (836)
|+|+.||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 55566665554
No 78
>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=73.76 E-value=1 Score=30.10 Aligned_cols=13 Identities=31% Similarity=0.815 Sum_probs=7.4
Q ss_pred eecCcccccccch
Q psy6556 747 YVCNYCGKSYIDK 759 (836)
Q Consensus 747 ~~C~~C~~~f~~~ 759 (836)
|.|+.||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 5666666655543
No 79
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=72.78 E-value=2.5 Score=29.99 Aligned_cols=10 Identities=40% Similarity=1.132 Sum_probs=5.3
Q ss_pred ceecCccccc
Q psy6556 746 KYVCNYCGKS 755 (836)
Q Consensus 746 ~~~C~~C~~~ 755 (836)
.|.|+.||+.
T Consensus 27 ~F~CPnCGe~ 36 (61)
T COG2888 27 KFPCPNCGEV 36 (61)
T ss_pred EeeCCCCCce
Confidence 3555555543
No 80
>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=72.09 E-value=4.5 Score=34.13 Aligned_cols=25 Identities=24% Similarity=0.406 Sum_probs=19.3
Q ss_pred ceec----CcccccccchhhhhhHHHhhc
Q psy6556 746 KYVC----NYCGKSYIDKRDYTNHVSVHM 770 (836)
Q Consensus 746 ~~~C----~~C~~~f~~~~~l~~H~~~H~ 770 (836)
.|.| +.|+....+...|++|.+.++
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 3778 888888888888888877654
No 81
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=71.75 E-value=1.1 Score=42.99 Aligned_cols=45 Identities=18% Similarity=0.490 Sum_probs=25.0
Q ss_pred CcccCCcccccccCchhHHHHHHhhcCCCC--------C-----ceecCcccccccch
Q psy6556 715 RRFSCTNCSLNFTYLSNLIRHRRIKHSQHE--------G-----KYVCNYCGKSYIDK 759 (836)
Q Consensus 715 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~--------~-----~~~C~~C~~~f~~~ 759 (836)
+.+.|++|+..|.+..-+....+....+.+ - ...||.||.+|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 445666666666665544444433221111 1 24799999998755
No 82
>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=69.02 E-value=1.7 Score=30.77 Aligned_cols=11 Identities=36% Similarity=1.105 Sum_probs=6.4
Q ss_pred eecCccccccc
Q psy6556 747 YVCNYCGKSYI 757 (836)
Q Consensus 747 ~~C~~C~~~f~ 757 (836)
|+|+.||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 55666665555
No 83
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=68.88 E-value=8.6 Score=32.39 Aligned_cols=26 Identities=23% Similarity=0.525 Sum_probs=17.0
Q ss_pred Ceeec----CcCCCcccCHHHHHHHHhhcc
Q psy6556 364 SYLLC----WKCGFKTSVLNELKAHIKSHH 389 (836)
Q Consensus 364 ~~~~C----~~C~~~~~~~~~l~~H~~~~~ 389 (836)
..|.| ..|++.+.+...|+.|.+.+|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 44666 667776666666666666655
No 84
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=68.73 E-value=2.4 Score=28.62 Aligned_cols=11 Identities=27% Similarity=0.791 Sum_probs=6.0
Q ss_pred ccccccccccc
Q psy6556 21 YHCPLCSKQFS 31 (836)
Q Consensus 21 ~~C~~C~~~f~ 31 (836)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 55555555554
No 85
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=68.20 E-value=1.8 Score=29.62 Aligned_cols=10 Identities=40% Similarity=1.178 Sum_probs=4.9
Q ss_pred eecCcccccc
Q psy6556 747 YVCNYCGKSY 756 (836)
Q Consensus 747 ~~C~~C~~~f 756 (836)
|.|+.||..|
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4455555444
No 86
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.52 E-value=2.1 Score=38.43 Aligned_cols=14 Identities=29% Similarity=0.645 Sum_probs=8.2
Q ss_pred CceecCcccccccc
Q psy6556 745 GKYVCNYCGKSYID 758 (836)
Q Consensus 745 ~~~~C~~C~~~f~~ 758 (836)
.-|.|+.|+..|+.
T Consensus 98 ~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 98 AYYKCPNCQSKYTF 111 (147)
T ss_pred cEEECcCCCCEeeH
Confidence 34666666666653
No 87
>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=66.05 E-value=3.2 Score=26.96 Aligned_cols=10 Identities=30% Similarity=0.949 Sum_probs=4.3
Q ss_pred eecCcccccc
Q psy6556 747 YVCNYCGKSY 756 (836)
Q Consensus 747 ~~C~~C~~~f 756 (836)
..|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4444444433
No 88
>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=65.93 E-value=4.9 Score=27.55 Aligned_cols=16 Identities=38% Similarity=0.860 Sum_probs=10.6
Q ss_pred ceecCcccccccchhh
Q psy6556 746 KYVCNYCGKSYIDKRD 761 (836)
Q Consensus 746 ~~~C~~C~~~f~~~~~ 761 (836)
+|+|.+||..|.-...
T Consensus 1 ky~C~~CgyvYd~~~G 16 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKG 16 (47)
T ss_dssp EEEETTTSBEEETTTB
T ss_pred CcCCCCCCEEEcCCcC
Confidence 3778888877765443
No 89
>KOG2186|consensus
Probab=65.06 E-value=4 Score=38.82 Aligned_cols=45 Identities=22% Similarity=0.563 Sum_probs=22.5
Q ss_pred cccccchHhhhchhHHHHHHHHhcCcCcccCCcccccccCchhHHHHH
Q psy6556 689 AKCKICNQSFALFSNLNAHYNKHLKVRRFSCTNCSLNFTYLSNLIRHR 736 (836)
Q Consensus 689 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 736 (836)
|.|.+||.+... ..|..|+-+-++ .-|.|-.|++.|.. .+...|.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 555566655543 334445554444 34555555555544 4444444
No 90
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.66 E-value=5.9 Score=25.42 Aligned_cols=13 Identities=23% Similarity=0.743 Sum_probs=5.9
Q ss_pred cCCcccccccCch
Q psy6556 718 SCTNCSLNFTYLS 730 (836)
Q Consensus 718 ~C~~C~~~f~~~~ 730 (836)
.|+.|+..|.-..
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 3444554444433
No 91
>PHA00626 hypothetical protein
Probab=63.54 E-value=2.3 Score=29.63 Aligned_cols=17 Identities=18% Similarity=0.335 Sum_probs=9.3
Q ss_pred hcCCCccCCccchhccc
Q psy6556 799 THLIQYRCTRCNKTFKQ 815 (836)
Q Consensus 799 ~h~~~~~C~~C~~~f~~ 815 (836)
.+...|.|+.||..|+.
T Consensus 19 ~~snrYkCkdCGY~ft~ 35 (59)
T PHA00626 19 GWSDDYVCCDCGYNDSK 35 (59)
T ss_pred ccCcceEcCCCCCeech
Confidence 34445666666666543
No 92
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=62.95 E-value=2.3 Score=38.06 Aligned_cols=12 Identities=33% Similarity=0.783 Sum_probs=5.9
Q ss_pred eecCcccccccc
Q psy6556 747 YVCNYCGKSYID 758 (836)
Q Consensus 747 ~~C~~C~~~f~~ 758 (836)
++|+.||++|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 455555555543
No 93
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=62.00 E-value=5.6 Score=25.70 Aligned_cols=32 Identities=25% Similarity=0.551 Sum_probs=15.2
Q ss_pred cCCcccccccChHHHHHHHHHhcCCCceecccccccc
Q psy6556 119 PCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAF 155 (836)
Q Consensus 119 ~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f 155 (836)
.|+.|+..|..... ++-.+....+|+.|+..|
T Consensus 4 ~CP~C~~~f~v~~~-----~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDD-----KLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHH-----HcccCCcEEECCCCCcEe
Confidence 45555555544332 112233456666666555
No 94
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=61.96 E-value=5.4 Score=33.88 Aligned_cols=25 Identities=12% Similarity=0.341 Sum_probs=16.5
Q ss_pred hhhhhHHHhhcccCCCCccccCccchhcccchh
Q psy6556 760 RDYTNHVSVHMERKSGYTQRCHKCNATFRIKKF 792 (836)
Q Consensus 760 ~~l~~H~~~H~~~~~~~~~~C~~C~~~F~~~~~ 792 (836)
..|.+|-.+| -+||+|.-+|.+.+.
T Consensus 112 a~LWK~~~~y--------pvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 112 ANLWKFCNLY--------PVCPVCKTSFKSSSS 136 (140)
T ss_pred HHHHHHcccC--------CCCCccccccccccc
Confidence 5666665544 358888888877653
No 95
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=60.89 E-value=5.4 Score=45.74 Aligned_cols=51 Identities=27% Similarity=0.619 Sum_probs=38.2
Q ss_pred CccccccCCCcccCCcccccccChHHHHHHHHHhcCCCceeccccccccCCcchHHHHHHHhCCCCCcccCcCCCc
Q psy6556 107 SEYPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQS 182 (836)
Q Consensus 107 ~~~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 182 (836)
+...|..|+-+++|+.|+... ..|.......|.+||.. ...|..|+.||..
T Consensus 434 ~~l~C~~Cg~v~~Cp~Cd~~l----------t~H~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 434 PLLLCRDCGYIAECPNCDSPL----------TLHKATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred ceeecccCCCcccCCCCCcce----------EEecCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 345699999999999998763 34555677889999854 3567889999875
No 96
>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=60.21 E-value=4.1 Score=33.97 Aligned_cols=16 Identities=38% Similarity=1.009 Sum_probs=8.0
Q ss_pred CCCcccccchHhhcCh
Q psy6556 392 KQPSICAVCGDTFKTN 407 (836)
Q Consensus 392 ~~~~~C~~C~~~f~~~ 407 (836)
..|..|+.||..|.-.
T Consensus 24 k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCccCCCCCCccCcc
Confidence 3455555555555433
No 97
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=59.99 E-value=7.3 Score=22.84 Aligned_cols=19 Identities=21% Similarity=0.443 Sum_probs=11.2
Q ss_pred ecccccccccChHHHHHHHH
Q psy6556 50 RCGYCGQFFLDLGRLNAHIR 69 (836)
Q Consensus 50 ~C~~C~~~f~~~~~l~~H~~ 69 (836)
.|++|++.+ ....++.|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666666 4455666654
No 98
>KOG2186|consensus
Probab=59.22 E-value=5.4 Score=38.02 Aligned_cols=45 Identities=24% Similarity=0.570 Sum_probs=20.3
Q ss_pred ccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccccchhhhhhHH
Q psy6556 717 FSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSYIDKRDYTNHV 766 (836)
Q Consensus 717 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~ 766 (836)
|.|.+||.. ..+..|.+|+-+-++ .-|.|--||+.|.. .++.+|.
T Consensus 4 FtCnvCgEs-vKKp~vekH~srCrn---~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGES-VKKPQVEKHMSRCRN---AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhh-ccccchHHHHHhccC---CeeEEeeccccccc-chhhhhh
Confidence 445555544 223334445544432 23455555555544 4444554
No 99
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=58.79 E-value=6.5 Score=28.17 Aligned_cols=10 Identities=40% Similarity=1.252 Sum_probs=5.4
Q ss_pred ceecCccccc
Q psy6556 746 KYVCNYCGKS 755 (836)
Q Consensus 746 ~~~C~~C~~~ 755 (836)
.|.|+.||+.
T Consensus 25 ~F~CPnCG~~ 34 (59)
T PRK14890 25 KFLCPNCGEV 34 (59)
T ss_pred EeeCCCCCCe
Confidence 4555555554
No 100
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.21 E-value=4.8 Score=27.70 Aligned_cols=29 Identities=31% Similarity=0.854 Sum_probs=15.5
Q ss_pred CccccccccccccCHHHHHHHHhhhcCCcceeccccccc
Q psy6556 19 RTYHCPLCSKQFSKLTTLKRHVGIHMKTQPVRCGYCGQF 57 (836)
Q Consensus 19 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 57 (836)
..|.|..||+.|.. -......+|++||..
T Consensus 5 ~~Y~C~~Cg~~~~~----------~~~~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREVEL----------DQETRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCeeeh----------hhccCceeCCCCCcE
Confidence 45666666666621 123345566666643
No 101
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=57.04 E-value=5.1 Score=36.35 Aligned_cols=18 Identities=6% Similarity=0.122 Sum_probs=10.0
Q ss_pred CceecCcccccccchhhh
Q psy6556 745 GKYVCNYCGKSYIDKRDY 762 (836)
Q Consensus 745 ~~~~C~~C~~~f~~~~~l 762 (836)
.-|.|+.|+..|+..-.+
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CeEECCCCCcEeeHHHHH
Confidence 346666666666555444
No 102
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=55.13 E-value=13 Score=33.41 Aligned_cols=38 Identities=24% Similarity=0.671 Sum_probs=24.2
Q ss_pred CcCcccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccc
Q psy6556 713 KVRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSY 756 (836)
Q Consensus 713 ~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f 756 (836)
+..-|.|+.|+..|+...++.. .. .++.|.||.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~----~d--~~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL----LD--MDGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh----cC--CCCcEECCCCCCEE
Confidence 4456888888888876544332 11 24458888888765
No 103
>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=54.42 E-value=12 Score=25.30 Aligned_cols=23 Identities=26% Similarity=0.765 Sum_probs=9.4
Q ss_pred cceecccccccccC----hHHHHHHHH
Q psy6556 47 QPVRCGYCGQFFLD----LGRLNAHIR 69 (836)
Q Consensus 47 ~~~~C~~C~~~f~~----~~~l~~H~~ 69 (836)
...+|.+|++.+.. ...|..|++
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 33455555555443 245555553
No 104
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=54.16 E-value=6 Score=36.69 Aligned_cols=18 Identities=11% Similarity=0.294 Sum_probs=10.5
Q ss_pred CceecCcccccccchhhh
Q psy6556 745 GKYVCNYCGKSYIDKRDY 762 (836)
Q Consensus 745 ~~~~C~~C~~~f~~~~~l 762 (836)
.-|.|+.|+..|+..-.+
T Consensus 116 ~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CEEECCCCCcEEeHHHHh
Confidence 346666666666555443
No 105
>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=52.72 E-value=5.9 Score=37.79 Aligned_cols=19 Identities=32% Similarity=0.723 Sum_probs=9.8
Q ss_pred ccccCCccchhhcchhhHH
Q psy6556 626 KPYKCTKCNYSARVLSNKL 644 (836)
Q Consensus 626 ~~~~C~~C~~~f~~~~~l~ 644 (836)
+|+.||.|++....-.+|.
T Consensus 208 k~~PCPKCg~et~eTkdLS 226 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLS 226 (314)
T ss_pred CCCCCCCCCCcccccccce
Confidence 5556666665544444443
No 106
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=52.06 E-value=9.9 Score=29.66 Aligned_cols=14 Identities=29% Similarity=0.918 Sum_probs=8.0
Q ss_pred CCceecCccccccc
Q psy6556 744 EGKYVCNYCGKSYI 757 (836)
Q Consensus 744 ~~~~~C~~C~~~f~ 757 (836)
.+.+.|..||..|.
T Consensus 51 ~GIW~C~kCg~~fA 64 (89)
T COG1997 51 TGIWKCRKCGAKFA 64 (89)
T ss_pred cCeEEcCCCCCeec
Confidence 34566666666554
No 107
>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=51.88 E-value=8.2 Score=32.67 Aligned_cols=14 Identities=29% Similarity=0.553 Sum_probs=7.3
Q ss_pred Ccceeccccccccc
Q psy6556 46 TQPVRCGYCGQFFL 59 (836)
Q Consensus 46 ~~~~~C~~C~~~f~ 59 (836)
..|..|++||..|.
T Consensus 24 k~p~vcP~cg~~~~ 37 (129)
T TIGR02300 24 RRPAVSPYTGEQFP 37 (129)
T ss_pred CCCccCCCcCCccC
Confidence 34555555555543
No 108
>KOG1280|consensus
Probab=51.58 E-value=18 Score=36.37 Aligned_cols=41 Identities=17% Similarity=0.387 Sum_probs=34.9
Q ss_pred CCcccCccccccccChHHHHHHHHHHhCCCCCceecCCCCc
Q psy6556 504 QNKHPCNRCNASFSSMVQLSCHQIRAHGKQKQRFMCHRCGI 544 (836)
Q Consensus 504 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~ 544 (836)
...|.|++|+..=.+...|..|+...|.+......|+.|+.
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~ 117 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA 117 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeecccc
Confidence 34689999999988999999999999998777778888874
No 109
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=51.30 E-value=11 Score=26.37 Aligned_cols=22 Identities=27% Similarity=0.727 Sum_probs=12.6
Q ss_pred ceecCcccccccch-----hhhhhHHH
Q psy6556 746 KYVCNYCGKSYIDK-----RDYTNHVS 767 (836)
Q Consensus 746 ~~~C~~C~~~f~~~-----~~l~~H~~ 767 (836)
.-.|.+|++.+... +.|.+|++
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 34566666666544 45555555
No 110
>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=50.34 E-value=7.4 Score=37.14 Aligned_cols=14 Identities=29% Similarity=0.748 Sum_probs=6.1
Q ss_pred ccccCCCCCCccCC
Q psy6556 278 KSFNCNVCNYSSSL 291 (836)
Q Consensus 278 ~~~~C~~C~~~f~~ 291 (836)
+++.|+.|+.....
T Consensus 208 k~~PCPKCg~et~e 221 (314)
T PF06524_consen 208 KPIPCPKCGYETQE 221 (314)
T ss_pred CCCCCCCCCCcccc
Confidence 34444444444333
No 111
>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=50.22 E-value=12 Score=33.90 Aligned_cols=34 Identities=24% Similarity=0.519 Sum_probs=22.0
Q ss_pred hcCcCcccCCcccccccCchhHHHHHHhhcCCCCCceecCccccc
Q psy6556 711 HLKVRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKS 755 (836)
Q Consensus 711 h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~ 755 (836)
..+..-|.|+.|+..|+.-.++. ..|.||.||..
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~-----------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME-----------LNFTCPRCGAM 137 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH-----------cCCcCCCCCCE
Confidence 34445577777777777766664 14777777765
No 112
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=49.17 E-value=9 Score=34.67 Aligned_cols=11 Identities=18% Similarity=0.558 Sum_probs=5.5
Q ss_pred CCCcccCcccc
Q psy6556 503 TQNKHPCNRCN 513 (836)
Q Consensus 503 ~~~~~~C~~C~ 513 (836)
++.|-.||+||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 34445555554
No 113
>PF15269 zf-C2H2_7: Zinc-finger
Probab=48.64 E-value=10 Score=24.95 Aligned_cols=23 Identities=35% Similarity=0.558 Sum_probs=18.7
Q ss_pred ccccCccchhcccchhHHHHHhh
Q psy6556 777 TQRCHKCNATFRIKKFLTRHMKT 799 (836)
Q Consensus 777 ~~~C~~C~~~F~~~~~L~~H~~~ 799 (836)
.|+|-.|..+-.-++.|-.||+.
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 47888888888888888888874
No 114
>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=48.37 E-value=13 Score=21.76 Aligned_cols=8 Identities=38% Similarity=1.086 Sum_probs=3.6
Q ss_pred CCcccccc
Q psy6556 120 CSFCAYRG 127 (836)
Q Consensus 120 C~~C~~~~ 127 (836)
|+.||+.|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 44444444
No 115
>PF14353 CpXC: CpXC protein
Probab=47.50 E-value=4.4 Score=35.42 Aligned_cols=12 Identities=25% Similarity=0.733 Sum_probs=6.3
Q ss_pred ecCcccccccch
Q psy6556 748 VCNYCGKSYIDK 759 (836)
Q Consensus 748 ~C~~C~~~f~~~ 759 (836)
.|+.||..|...
T Consensus 3 tCP~C~~~~~~~ 14 (128)
T PF14353_consen 3 TCPHCGHEFEFE 14 (128)
T ss_pred CCCCCCCeeEEE
Confidence 455555555443
No 116
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=46.79 E-value=10 Score=35.26 Aligned_cols=32 Identities=16% Similarity=0.343 Sum_probs=18.7
Q ss_pred CcceecccccccccChHHHHHHHHhhccCCCccccccCcccccc
Q psy6556 46 TQPVRCGYCGQFFLDLGRLNAHIRQRHTSNKKIYYKCDKCNKTY 89 (836)
Q Consensus 46 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~C~~C~~~f 89 (836)
..-|.|+.|+..|....++. . .|.|+.||...
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~---~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------Y---GFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------c---CCcCCCCCCCC
Confidence 34566777776666555442 1 36777777654
No 117
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=45.72 E-value=12 Score=41.53 Aligned_cols=51 Identities=27% Similarity=0.582 Sum_probs=36.9
Q ss_pred CccccccCCCcccCCcccccccChHHHHHHHHHhcCCCceeccccccccCCcchHHHHHHHhCCCCCcccCcCCCc
Q psy6556 107 SEYPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQS 182 (836)
Q Consensus 107 ~~~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 182 (836)
+...|..|+.+..|+.|+... ..|.......|.+||... ..|..|+.|+..
T Consensus 212 ~~~~C~~Cg~~~~C~~C~~~l----------~~h~~~~~l~Ch~Cg~~~---------------~~~~~Cp~C~s~ 262 (505)
T TIGR00595 212 KNLLCRSCGYILCCPNCDVSL----------TYHKKEGKLRCHYCGYQE---------------PIPKTCPQCGSE 262 (505)
T ss_pred CeeEhhhCcCccCCCCCCCce----------EEecCCCeEEcCCCcCcC---------------CCCCCCCCCCCC
Confidence 345799999999999998653 345556678899998654 346688888764
No 118
>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=45.47 E-value=8.2 Score=26.93 Aligned_cols=13 Identities=38% Similarity=0.874 Sum_probs=9.1
Q ss_pred eecCcccccccch
Q psy6556 747 YVCNYCGKSYIDK 759 (836)
Q Consensus 747 ~~C~~C~~~f~~~ 759 (836)
|+|..||..|.-.
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 6788888777643
No 119
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=45.15 E-value=10 Score=27.71 Aligned_cols=39 Identities=26% Similarity=0.592 Sum_probs=16.6
Q ss_pred cccccc--ccccccCHHHHHHHHhhhcCCcceeccc----cccccc
Q psy6556 20 TYHCPL--CSKQFSKLTTLKRHVGIHMKTQPVRCGY----CGQFFL 59 (836)
Q Consensus 20 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 59 (836)
+..|+. |...+. +..|..|+...-...+..|++ |++.+.
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 445555 334343 234555555444445555555 555543
No 120
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=44.01 E-value=19 Score=22.37 Aligned_cols=11 Identities=36% Similarity=1.096 Sum_probs=5.2
Q ss_pred cccCcCCCccc
Q psy6556 174 YLCLTCGQSFR 184 (836)
Q Consensus 174 ~~C~~C~~~f~ 184 (836)
|.|..|+..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 44555555543
No 121
>KOG2071|consensus
Probab=43.04 E-value=27 Score=38.32 Aligned_cols=28 Identities=39% Similarity=0.761 Sum_probs=23.8
Q ss_pred CCceeccccccccCCcchHHHHHHHhCC
Q psy6556 143 IKPYACKYCGNAFAHKSSRDAHQNIHTD 170 (836)
Q Consensus 143 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 170 (836)
..|-+|..||..|........||.+|.+
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhh
Confidence 4567899999999999999999988864
No 122
>PRK14873 primosome assembly protein PriA; Provisional
Probab=41.49 E-value=14 Score=42.37 Aligned_cols=50 Identities=24% Similarity=0.602 Sum_probs=35.6
Q ss_pred CccccccCCCcccCCcccccccChHHHHHHHHHhcCCCceeccccccccCCcchHHHHHHHhCCCCCcccCcCCCc
Q psy6556 107 SEYPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQS 182 (836)
Q Consensus 107 ~~~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 182 (836)
+...|..|+....|+.|+.... .|.+.....|.+||.. ..|..|+.|+..
T Consensus 382 p~l~C~~Cg~~~~C~~C~~~L~----------~h~~~~~l~Ch~CG~~----------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 382 PSLACARCRTPARCRHCTGPLG----------LPSAGGTPRCRWCGRA----------------APDWRCPRCGSD 431 (665)
T ss_pred CeeEhhhCcCeeECCCCCCcee----------EecCCCeeECCCCcCC----------------CcCccCCCCcCC
Confidence 4457999999999999986543 3444566888888853 136788888864
No 123
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=41.29 E-value=16 Score=33.04 Aligned_cols=23 Identities=22% Similarity=0.755 Sum_probs=13.6
Q ss_pred CcccCcCCCcccChhhhhhhhhccCCCCCcccCCccc
Q psy6556 173 PYLCLTCGQSFRTFNLMKRHNLCDHQDVRNYLCNFCN 209 (836)
Q Consensus 173 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~ 209 (836)
.|.|++||..+ .+..|-.||+|+
T Consensus 134 ~~vC~vCGy~~--------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH--------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc--------------cCCCCCcCCCCC
Confidence 46666666652 234566666666
No 124
>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=41.04 E-value=14 Score=31.33 Aligned_cols=13 Identities=23% Similarity=0.713 Sum_probs=6.3
Q ss_pred CCcccccchHhhc
Q psy6556 393 QPSICAVCGDTFK 405 (836)
Q Consensus 393 ~~~~C~~C~~~f~ 405 (836)
.|..|+.||..|.
T Consensus 25 ~p~vcP~cg~~~~ 37 (129)
T TIGR02300 25 RPAVSPYTGEQFP 37 (129)
T ss_pred CCccCCCcCCccC
Confidence 4445555555443
No 125
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.99 E-value=11 Score=28.37 Aligned_cols=12 Identities=33% Similarity=1.076 Sum_probs=5.6
Q ss_pred CccccCccchhc
Q psy6556 776 YTQRCHKCNATF 787 (836)
Q Consensus 776 ~~~~C~~C~~~F 787 (836)
|.|+|..||..|
T Consensus 11 Y~Y~c~~cg~~~ 22 (82)
T COG2331 11 YSYECTECGNRF 22 (82)
T ss_pred eEEeecccchHH
Confidence 334555555443
No 126
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=40.81 E-value=21 Score=35.08 Aligned_cols=23 Identities=26% Similarity=0.403 Sum_probs=11.9
Q ss_pred cccCccchhcccchhHHHHHhhc
Q psy6556 778 QRCHKCNATFRIKKFLTRHMKTH 800 (836)
Q Consensus 778 ~~C~~C~~~F~~~~~L~~H~~~h 800 (836)
|+|+.|...|-.-.....|...|
T Consensus 389 Y~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 389 YQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred eechhhhhhhhhhhHHHHHHHHh
Confidence 55555555555555555544444
No 127
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=40.67 E-value=6.6 Score=29.80 Aligned_cols=42 Identities=17% Similarity=0.336 Sum_probs=21.2
Q ss_pred ccCCcccccccCchhHHHHHHhhcCCCCCceecC--cccccccchhhh
Q psy6556 717 FSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCN--YCGKSYIDKRDY 762 (836)
Q Consensus 717 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~--~C~~~f~~~~~l 762 (836)
+.|+.||........-..... ..+.-++|. .||.+|.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~----~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT----TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcChh----hheeeeecCCCCCCCEEEEEEEE
Confidence 456666665433333322211 124556776 677777655443
No 128
>KOG4377|consensus
Probab=37.82 E-value=16 Score=37.59 Aligned_cols=25 Identities=28% Similarity=0.615 Sum_probs=20.5
Q ss_pred ccCCc--cchhcccchhhhhccccccC
Q psy6556 804 YRCTR--CNKTFKQNTSFIRHSLKHFN 828 (836)
Q Consensus 804 ~~C~~--C~~~f~~~~~l~~H~~~H~~ 828 (836)
|-|.. |+.+|.+-+.+..|.+.|..
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheR 428 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHER 428 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhh
Confidence 45654 89999999999999999874
No 129
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=37.68 E-value=8.3 Score=29.28 Aligned_cols=14 Identities=29% Similarity=0.688 Sum_probs=6.8
Q ss_pred CcccC--cCCCcccCh
Q psy6556 173 PYLCL--TCGQSFRTF 186 (836)
Q Consensus 173 ~~~C~--~C~~~f~~~ 186 (836)
-++|. .||.+|.+.
T Consensus 27 Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 27 YHQCQNVNCSATFITY 42 (72)
T ss_pred eeecCCCCCCCEEEEE
Confidence 34554 555555443
No 130
>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=36.20 E-value=18 Score=25.74 Aligned_cols=8 Identities=38% Similarity=0.991 Sum_probs=3.4
Q ss_pred ecCccccc
Q psy6556 748 VCNYCGKS 755 (836)
Q Consensus 748 ~C~~C~~~ 755 (836)
.|+.||..
T Consensus 4 ~CP~CG~~ 11 (54)
T TIGR01206 4 ECPDCGAE 11 (54)
T ss_pred CCCCCCCE
Confidence 44444443
No 131
>KOG2593|consensus
Probab=35.75 E-value=30 Score=36.30 Aligned_cols=42 Identities=26% Similarity=0.631 Sum_probs=29.1
Q ss_pred HhcCcCcccCCcccccccCchhHHHHHHhhcCCCCCceecCcccccc
Q psy6556 710 KHLKVRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGKSY 756 (836)
Q Consensus 710 ~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~~f 756 (836)
.-+....|.|+.|.+.|+....|+.=- ..++.|.|..|+-..
T Consensus 122 d~t~~~~Y~Cp~C~kkyt~Lea~~L~~-----~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 122 DDTNVAGYVCPNCQKKYTSLEALQLLD-----NETGEFHCENCGGEL 163 (436)
T ss_pred hccccccccCCccccchhhhHHHHhhc-----ccCceEEEecCCCch
Confidence 345566788889988888877776421 135678999987543
No 132
>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=35.43 E-value=17 Score=22.15 Aligned_cols=10 Identities=30% Similarity=0.780 Sum_probs=4.8
Q ss_pred Ccceeccccc
Q psy6556 46 TQPVRCGYCG 55 (836)
Q Consensus 46 ~~~~~C~~C~ 55 (836)
...|.|+.|+
T Consensus 17 ~~~~vCp~C~ 26 (30)
T PF08274_consen 17 GELLVCPECG 26 (30)
T ss_dssp SSSEEETTTT
T ss_pred CCEEeCCccc
Confidence 3445555554
No 133
>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=35.20 E-value=27 Score=30.35 Aligned_cols=33 Identities=30% Similarity=0.450 Sum_probs=15.6
Q ss_pred CccccCCCccccccccccccCHHHHHHHHhhhcCCc
Q psy6556 12 PHESQDERTYHCPLCSKQFSKLTTLKRHVGIHMKTQ 47 (836)
Q Consensus 12 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 47 (836)
+..+..+....|-+||+.|.. |++|++.|+|..
T Consensus 64 i~kSI~~d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 64 IRKSITPDYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp SSTTB-SS-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred HhhccccCeeEEccCCcccch---HHHHHHHccCCC
Confidence 344444555667777777765 467777665543
No 134
>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=34.52 E-value=24 Score=20.23 Aligned_cols=7 Identities=43% Similarity=1.568 Sum_probs=3.0
Q ss_pred eeccccc
Q psy6556 146 YACKYCG 152 (836)
Q Consensus 146 ~~C~~C~ 152 (836)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4444443
No 135
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=34.29 E-value=32 Score=24.97 Aligned_cols=38 Identities=21% Similarity=0.533 Sum_probs=15.6
Q ss_pred ceeccc--cccccCCcchHHHHHHHhCCCCCcccCc----CCCcc
Q psy6556 145 PYACKY--CGNAFAHKSSRDAHQNIHTDLKPYLCLT----CGQSF 183 (836)
Q Consensus 145 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~----C~~~f 183 (836)
+..|+. |...+. +..|..|+...=...+..|++ |+..+
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~ 52 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERV 52 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCcc
Confidence 345555 333232 445666655433444455555 55544
No 136
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=33.73 E-value=22 Score=24.86 Aligned_cols=10 Identities=40% Similarity=0.650 Sum_probs=4.7
Q ss_pred cccCccchhc
Q psy6556 778 QRCHKCNATF 787 (836)
Q Consensus 778 ~~C~~C~~~F 787 (836)
+.|..||.++
T Consensus 38 ~~C~~Cgyt~ 47 (50)
T PRK00432 38 WHCGKCGYTE 47 (50)
T ss_pred EECCCcCCEE
Confidence 4455555443
No 137
>KOG2807|consensus
Probab=33.60 E-value=54 Score=32.88 Aligned_cols=83 Identities=23% Similarity=0.364 Sum_probs=50.2
Q ss_pred CCcccccchHhhhchhHHHHHHHHhcCcCcccCCcccccccCchhHHHHHHhhcCCCCCce------------ecCcccc
Q psy6556 687 APAKCKICNQSFALFSNLNAHYNKHLKVRRFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKY------------VCNYCGK 754 (836)
Q Consensus 687 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~------------~C~~C~~ 754 (836)
..|-|+.|....- .-|-.|++|+..-.....|.+=. ||-..-++| .|-.|+.
T Consensus 275 ~Gy~CP~CkakvC--------------sLP~eCpiC~ltLVss~hLARSy--hhL~PL~~F~Eip~~~~~~~~~Cf~C~~ 338 (378)
T KOG2807|consen 275 GGYFCPQCKAKVC--------------SLPIECPICSLTLVSSPHLARSY--HHLFPLKPFVEIPETEYNGSRFCFACQG 338 (378)
T ss_pred CceeCCcccCeee--------------cCCccCCccceeEecchHHHHHH--HhhcCCcchhhccccccCCCcceeeecc
Confidence 5677888876533 34777888888877777776543 332111111 2555511
Q ss_pred cccchhhhhhHHHhhcccCCCCccccCccchhcccchhHHHHHhhcC
Q psy6556 755 SYIDKRDYTNHVSVHMERKSGYTQRCHKCNATFRIKKFLTRHMKTHL 801 (836)
Q Consensus 755 ~f~~~~~l~~H~~~H~~~~~~~~~~C~~C~~~F~~~~~L~~H~~~h~ 801 (836)
+..++-.|+|+.|...|-.-.+...|...|.
T Consensus 339 ----------------~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 339 ----------------ELLSSGRYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred ----------------ccCCCCcEEchhccceeeccchHHHHhhhhc
Confidence 1122234888888888888888777776663
No 138
>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=33.55 E-value=30 Score=33.07 Aligned_cols=27 Identities=30% Similarity=0.625 Sum_probs=14.9
Q ss_pred cceecccccccccChHHHHHHHHhhcc
Q psy6556 47 QPVRCGYCGQFFLDLGRLNAHIRQRHT 73 (836)
Q Consensus 47 ~~~~C~~C~~~f~~~~~l~~H~~~~h~ 73 (836)
..|.|+.|++.|.-..-...||...|.
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCH
Confidence 346666666666666666666665554
No 139
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=32.95 E-value=4 Score=31.11 Aligned_cols=13 Identities=15% Similarity=0.309 Sum_probs=5.6
Q ss_pred ceeccccccccCC
Q psy6556 145 PYACKYCGNAFAH 157 (836)
Q Consensus 145 ~~~C~~C~~~f~~ 157 (836)
...|..|+..+..
T Consensus 41 ~v~Cg~C~~~~~~ 53 (71)
T PF05495_consen 41 RVICGKCRTEQPI 53 (71)
T ss_dssp EEEETTT--EEES
T ss_pred CeECCCCCCccCh
Confidence 4555555555443
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=32.57 E-value=34 Score=39.56 Aligned_cols=9 Identities=22% Similarity=0.645 Sum_probs=4.0
Q ss_pred cccCCCCCC
Q psy6556 279 SFNCNVCNY 287 (836)
Q Consensus 279 ~~~C~~C~~ 287 (836)
|..|+.||.
T Consensus 475 p~~Cp~Cgs 483 (730)
T COG1198 475 PQSCPECGS 483 (730)
T ss_pred CCCCCCCCC
Confidence 344444443
No 141
>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=32.30 E-value=21 Score=31.05 Aligned_cols=26 Identities=23% Similarity=0.434 Sum_probs=16.6
Q ss_pred CcccccchHhhhchhHHHHHHHHhcCcCc
Q psy6556 688 PAKCKICNQSFALFSNLNAHYNKHLKVRR 716 (836)
Q Consensus 688 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 716 (836)
...|-+||+.|+. |++|++.|+|..|
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred eeEEccCCcccch---HHHHHHHccCCCH
Confidence 3579999999976 5999999988643
No 142
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=32.19 E-value=19 Score=28.66 Aligned_cols=11 Identities=27% Similarity=0.914 Sum_probs=6.4
Q ss_pred CceecCCCCcc
Q psy6556 535 QRFMCHRCGII 545 (836)
Q Consensus 535 ~~~~C~~C~~~ 545 (836)
..|.|+.||..
T Consensus 35 a~y~CpfCgk~ 45 (90)
T PTZ00255 35 AKYFCPFCGKH 45 (90)
T ss_pred CCccCCCCCCC
Confidence 45666666643
No 143
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=31.66 E-value=43 Score=22.25 Aligned_cols=25 Identities=28% Similarity=0.452 Sum_probs=19.9
Q ss_pred cccccccccccc--CHHHHHHHHhhhc
Q psy6556 20 TYHCPLCSKQFS--KLTTLKRHVGIHM 44 (836)
Q Consensus 20 ~~~C~~C~~~f~--~~~~l~~H~~~h~ 44 (836)
.-.|+.||+.|. ....-..|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 459999999985 6777888887774
No 144
>KOG2807|consensus
Probab=30.87 E-value=55 Score=32.81 Aligned_cols=68 Identities=25% Similarity=0.560 Sum_probs=46.7
Q ss_pred CCcccccchHhhhchhHHHHHHHHhcCcCccc------------CCcccccccCchhHHHHHHhhcCCCCCceecCcccc
Q psy6556 687 APAKCKICNQSFALFSNLNAHYNKHLKVRRFS------------CTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGK 754 (836)
Q Consensus 687 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~------------C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~ 754 (836)
-|..|++|+-+......|.+=++---..+||. |--|+. ...+...|+|+.|..
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~---------------~~~~~~~y~C~~Ck~ 353 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQG---------------ELLSSGRYRCESCKN 353 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeecc---------------ccCCCCcEEchhccc
Confidence 36789999998888888876544322333331 555511 112355799999999
Q ss_pred cccchhhhhhHHHhh
Q psy6556 755 SYIDKRDYTNHVSVH 769 (836)
Q Consensus 755 ~f~~~~~l~~H~~~H 769 (836)
.|----+...|...|
T Consensus 354 ~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 354 VFCLDCDVFIHESLH 368 (378)
T ss_pred eeeccchHHHHhhhh
Confidence 999988888888777
No 145
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=30.80 E-value=35 Score=34.29 Aligned_cols=23 Identities=17% Similarity=0.401 Sum_probs=20.0
Q ss_pred CCcccccchHhhhchhHHHHHHH
Q psy6556 687 APAKCKICNQSFALFSNLNAHYN 709 (836)
Q Consensus 687 ~~~~C~~C~~~f~~~~~L~~H~~ 709 (836)
+.+-|+.|++-|.+......|+.
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHh
Confidence 55779999999999999999974
No 146
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=30.11 E-value=12 Score=23.60 Aligned_cols=11 Identities=45% Similarity=1.310 Sum_probs=3.3
Q ss_pred ecCcccccccc
Q psy6556 748 VCNYCGKSYID 758 (836)
Q Consensus 748 ~C~~C~~~f~~ 758 (836)
.|..|++.|..
T Consensus 5 ~C~eC~~~f~d 15 (34)
T PF01286_consen 5 KCDECGKPFMD 15 (34)
T ss_dssp E-TTT--EES-
T ss_pred hHhHhCCHHHH
Confidence 34455555443
No 147
>KOG4167|consensus
Probab=29.90 E-value=15 Score=40.80 Aligned_cols=80 Identities=10% Similarity=-0.033 Sum_probs=49.3
Q ss_pred CccCCccccccCChhHHHHHHhhhcCCCcc-ccCCCCCCccCChHHHHHHHhhcCCC--CCcccccchhhcCChhHHHch
Q psy6556 250 PFQCKYCNYAFKEKHHLETHVNLHLGKTKS-FNCNVCNYSSSLKWNLIQHYRIHTDE--KPFNCSLCEKQFRQKIHVKNH 326 (836)
Q Consensus 250 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~-~~C~~C~~~f~~~~~l~~H~~~h~~~--~~~~C~~C~~~f~~~~~l~~H 326 (836)
.+.|..|...+.....+..++.++...... +.|..|+..|.-...-..++..+.-. ..-.|.+|...|..-.....+
T Consensus 288 ~~p~k~~St~p~~e~G~~s~~~~psa~wpqhlP~g~~~~~~p~s~g~s~~a~~~Qv~~P~g~~~si~~~~~~llP~a~~p 367 (907)
T KOG4167|consen 288 HRPLKSPSTIPLNEMGPQSQQLSPSAMWPQHLPDGRAQPGSPESSGQSKGAFGEQVDAPNGLTCSICLKEFKLLPAANGP 367 (907)
T ss_pred cccccccccchhhhcCCccccccchhhccccCcccccCCCCCCcccccccchHhhhcCCCCCccccccCCCCcCcCCCCc
Confidence 367888888888888888888777654222 67788877665544444444333211 124677888777665555555
Q ss_pred Hhh
Q psy6556 327 LRI 329 (836)
Q Consensus 327 ~~~ 329 (836)
|+.
T Consensus 368 I~a 370 (907)
T KOG4167|consen 368 IRA 370 (907)
T ss_pred eec
Confidence 543
No 148
>PF12907 zf-met2: Zinc-binding
Probab=29.76 E-value=23 Score=23.31 Aligned_cols=26 Identities=27% Similarity=0.486 Sum_probs=11.8
Q ss_pred ccCcCCCccc---ChhhhhhhhhccCCCC
Q psy6556 175 LCLTCGQSFR---TFNLMKRHNLCDHQDV 200 (836)
Q Consensus 175 ~C~~C~~~f~---~~~~l~~H~~~~h~~~ 200 (836)
+|.+|-.+|. +...|..|....|+..
T Consensus 3 ~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 3 ICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred CcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 4555553332 2334555555445443
No 149
>PRK05580 primosome assembly protein PriA; Validated
Probab=29.61 E-value=31 Score=40.18 Aligned_cols=52 Identities=23% Similarity=0.498 Sum_probs=36.8
Q ss_pred CCccccccCCCcccCCcccccccChHHHHHHHHHhcCCCceeccccccccCCcchHHHHHHHhCCCCCcccCcCCCc
Q psy6556 106 NSEYPCIYCRNIYPCSFCAYRGRYRYHFKAHLRIHLNIKPYACKYCGNAFAHKSSRDAHQNIHTDLKPYLCLTCGQS 182 (836)
Q Consensus 106 ~~~~~C~~C~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 182 (836)
.+...|..|+....|+.|+.... .|.......|.+||... ..|..|+.|+..
T Consensus 379 ~~~~~C~~Cg~~~~C~~C~~~l~----------~h~~~~~l~Ch~Cg~~~---------------~~~~~Cp~Cg~~ 430 (679)
T PRK05580 379 APFLLCRDCGWVAECPHCDASLT----------LHRFQRRLRCHHCGYQE---------------PIPKACPECGST 430 (679)
T ss_pred CCceEhhhCcCccCCCCCCCcee----------EECCCCeEECCCCcCCC---------------CCCCCCCCCcCC
Confidence 34567999999999999987542 34445667888888654 335678888764
No 150
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=29.29 E-value=11 Score=30.27 Aligned_cols=39 Identities=28% Similarity=0.586 Sum_probs=19.9
Q ss_pred CCCccccccccccccCHHHHHHHHhhhcCCcceeccccccccc
Q psy6556 17 DERTYHCPLCSKQFSKLTTLKRHVGIHMKTQPVRCGYCGQFFL 59 (836)
Q Consensus 17 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 59 (836)
-++.|.||.|+..-.+.-.++ .-.+.....|.+||.+|.
T Consensus 19 L~k~FtCp~Cghe~vs~ctvk----k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVK----KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CCceEecCccCCeeeeEEEEE----ecCceeEEEcccCcceEE
Confidence 456777777775544322211 111223346777766654
No 151
>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=28.51 E-value=20 Score=28.58 Aligned_cols=11 Identities=27% Similarity=0.917 Sum_probs=6.5
Q ss_pred CceecCCCCcc
Q psy6556 535 QRFMCHRCGII 545 (836)
Q Consensus 535 ~~~~C~~C~~~ 545 (836)
..|.|+.||+.
T Consensus 34 a~y~CpfCgk~ 44 (91)
T TIGR00280 34 AKYVCPFCGKK 44 (91)
T ss_pred cCccCCCCCCC
Confidence 45666666653
No 152
>KOG4167|consensus
Probab=28.16 E-value=21 Score=39.74 Aligned_cols=28 Identities=25% Similarity=0.513 Sum_probs=23.3
Q ss_pred CCCccccccccccccCHHHHHHHHhhhc
Q psy6556 17 DERTYHCPLCSKQFSKLTTLKRHVGIHM 44 (836)
Q Consensus 17 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 44 (836)
....|.|.+|++.|-...++..||+.|.
T Consensus 789 ~~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 789 PTGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CCceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4678888888888888888888888874
No 153
>KOG1280|consensus
Probab=27.77 E-value=47 Score=33.58 Aligned_cols=38 Identities=18% Similarity=0.433 Sum_probs=21.9
Q ss_pred cccCCcccccccCchhHHHHHHhhcCCCCCceecCccc
Q psy6556 716 RFSCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCG 753 (836)
Q Consensus 716 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~ 753 (836)
-|.|++|+..=.+-..|..|+...|........|++|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 45666666665666666666666555444444555554
No 154
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=27.47 E-value=16 Score=23.40 Aligned_cols=10 Identities=30% Similarity=0.972 Sum_probs=5.4
Q ss_pred eccccccccc
Q psy6556 50 RCGYCGQFFL 59 (836)
Q Consensus 50 ~C~~C~~~f~ 59 (836)
.|+.||..|.
T Consensus 3 ~C~~Cg~~Yh 12 (36)
T PF05191_consen 3 ICPKCGRIYH 12 (36)
T ss_dssp EETTTTEEEE
T ss_pred CcCCCCCccc
Confidence 4555555553
No 155
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.89 E-value=36 Score=33.55 Aligned_cols=80 Identities=24% Similarity=0.513 Sum_probs=52.4
Q ss_pred CCcccccchHhhhchhHHHHHHHHhcCcCcc------------cCCcccccccCchhHHHHHHhhcCCCCCceecCcccc
Q psy6556 687 APAKCKICNQSFALFSNLNAHYNKHLKVRRF------------SCTNCSLNFTYLSNLIRHRRIKHSQHEGKYVCNYCGK 754 (836)
Q Consensus 687 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~------------~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~C~~C~~ 754 (836)
-|..|+.|.-.......|.+-+.--...|+| .|-.|.-.|.....-..- -......|+|+.|..
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~----~~~ss~rY~Ce~CK~ 396 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFD----ESTSSGRYQCELCKS 396 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCccc----ccccccceechhhhh
Confidence 4788999998877666665443322223333 388887777654321111 112356799999999
Q ss_pred cccchhhhhhHHHhhc
Q psy6556 755 SYIDKRDYTNHVSVHM 770 (836)
Q Consensus 755 ~f~~~~~l~~H~~~H~ 770 (836)
.|-.--+...|...|.
T Consensus 397 ~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 397 TFCSDCDVFIHETLHF 412 (421)
T ss_pred hhhhhhHHHHHHHHhh
Confidence 9999999989987773
No 156
>PRK04023 DNA polymerase II large subunit; Validated
Probab=26.44 E-value=54 Score=38.62 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=4.3
Q ss_pred cccccchHh
Q psy6556 689 AKCKICNQS 697 (836)
Q Consensus 689 ~~C~~C~~~ 697 (836)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 345555544
No 157
>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=26.41 E-value=36 Score=32.52 Aligned_cols=25 Identities=28% Similarity=0.545 Sum_probs=15.1
Q ss_pred CCceecCcccccccchhhhhhHHHh
Q psy6556 744 EGKYVCNYCGKSYIDKRDYTNHVSV 768 (836)
Q Consensus 744 ~~~~~C~~C~~~f~~~~~l~~H~~~ 768 (836)
+.+|.|+.|+|.|.-..-.++|+..
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhh
Confidence 4456777777777777777777654
No 158
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=26.04 E-value=28 Score=24.65 Aligned_cols=10 Identities=40% Similarity=0.873 Sum_probs=4.9
Q ss_pred ceecCccccc
Q psy6556 746 KYVCNYCGKS 755 (836)
Q Consensus 746 ~~~C~~C~~~ 755 (836)
..+|+.||..
T Consensus 21 iVvCp~Cgap 30 (54)
T PF14446_consen 21 IVVCPECGAP 30 (54)
T ss_pred EEECCCCCCc
Confidence 3455555544
No 159
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=25.80 E-value=53 Score=22.83 Aligned_cols=20 Identities=20% Similarity=0.395 Sum_probs=11.4
Q ss_pred Cccchhcccchhhhhccccc
Q psy6556 807 TRCNKTFKQNTSFIRHSLKH 826 (836)
Q Consensus 807 ~~C~~~f~~~~~l~~H~~~H 826 (836)
++|..-|....+...|...|
T Consensus 25 dLC~~Cf~~g~~~~~H~~~H 44 (49)
T cd02335 25 DLCLECFSAGAEIGKHRNDH 44 (49)
T ss_pred chhHHhhhCcCCCCCCCCCC
Confidence 45566666665555555544
No 160
>KOG2593|consensus
Probab=25.69 E-value=67 Score=33.86 Aligned_cols=36 Identities=14% Similarity=0.616 Sum_probs=16.1
Q ss_pred CCCcccCcCCCcccChhhhhhhhhccCCCCCcccCCcccc
Q psy6556 171 LKPYLCLTCGQSFRTFNLMKRHNLCDHQDVRNYLCNFCNK 210 (836)
Q Consensus 171 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~ 210 (836)
..-|.|+.|.+.|++...++.= -.....|.|..|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHHhh----cccCceEEEecCCC
Confidence 3445555555555544433221 22233455555553
No 161
>KOG2272|consensus
Probab=25.45 E-value=67 Score=30.75 Aligned_cols=19 Identities=21% Similarity=0.660 Sum_probs=10.0
Q ss_pred CccccccccccccCHHHHH
Q psy6556 19 RTYHCPLCSKQFSKLTTLK 37 (836)
Q Consensus 19 ~~~~C~~C~~~f~~~~~l~ 37 (836)
.-|.|++|.+.+.+...++
T Consensus 98 ~CF~Cd~Cn~~Lad~gf~r 116 (332)
T KOG2272|consen 98 ACFRCDLCNKHLADQGFYR 116 (332)
T ss_pred ccchhHHHHHHHhhhhhHh
Confidence 3455666665555544443
No 162
>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=25.06 E-value=44 Score=25.18 Aligned_cols=11 Identities=27% Similarity=0.836 Sum_probs=3.5
Q ss_pred ceecCcccccc
Q psy6556 746 KYVCNYCGKSY 756 (836)
Q Consensus 746 ~~~C~~C~~~f 756 (836)
.+.|..||..|
T Consensus 25 rhhCr~CG~~v 35 (69)
T PF01363_consen 25 RHHCRNCGRVV 35 (69)
T ss_dssp EEE-TTT--EE
T ss_pred eEccCCCCCEE
Confidence 34444444443
No 163
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=24.76 E-value=16 Score=24.16 Aligned_cols=10 Identities=50% Similarity=1.454 Sum_probs=5.0
Q ss_pred eecCcccccc
Q psy6556 747 YVCNYCGKSY 756 (836)
Q Consensus 747 ~~C~~C~~~f 756 (836)
|.|..||..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5555555443
No 164
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.71 E-value=13 Score=37.98 Aligned_cols=37 Identities=16% Similarity=0.222 Sum_probs=12.2
Q ss_pred CcccccchHhhhchhHHHHHHHHhcCcCcccCCccccc
Q psy6556 688 PAKCKICNQSFALFSNLNAHYNKHLKVRRFSCTNCSLN 725 (836)
Q Consensus 688 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 725 (836)
..+|+.||..-...-..-. ...-.+.+.+.|..|+--
T Consensus 211 R~~Cp~Cg~~~~~~l~~~~-~e~~~~~rve~C~~C~~Y 247 (290)
T PF04216_consen 211 RIKCPYCGNTDHEKLEYFT-VEGEPAYRVEVCESCGSY 247 (290)
T ss_dssp TTS-TTT---SS-EEE---------SEEEEEETTTTEE
T ss_pred CCCCcCCCCCCCcceeeEe-cCCCCcEEEEECCcccch
Confidence 3467777765433222110 112223455566666543
No 165
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=24.57 E-value=26 Score=27.92 Aligned_cols=11 Identities=27% Similarity=0.773 Sum_probs=6.4
Q ss_pred CceecCCCCcc
Q psy6556 535 QRFMCHRCGII 545 (836)
Q Consensus 535 ~~~~C~~C~~~ 545 (836)
..|.|+.|++.
T Consensus 35 a~y~CpfCgk~ 45 (90)
T PRK03976 35 AKHVCPVCGRP 45 (90)
T ss_pred cCccCCCCCCC
Confidence 45666666543
No 166
>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=24.51 E-value=16 Score=28.98 Aligned_cols=12 Identities=25% Similarity=0.847 Sum_probs=7.6
Q ss_pred CceecCCCCccc
Q psy6556 535 QRFMCHRCGIIN 546 (836)
Q Consensus 535 ~~~~C~~C~~~~ 546 (836)
..|.|+.||...
T Consensus 34 ~ky~Cp~Cgk~~ 45 (90)
T PF01780_consen 34 AKYTCPFCGKTS 45 (90)
T ss_dssp S-BEESSSSSSE
T ss_pred CCCcCCCCCCce
Confidence 567788887643
No 167
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=23.80 E-value=89 Score=21.76 Aligned_cols=39 Identities=21% Similarity=0.460 Sum_probs=21.6
Q ss_pred CeeecCcCCCcccCHHHHHHHHhhccCCCCCcccccchH
Q psy6556 364 SYLLCWKCGFKTSVLNELKAHIKSHHFPKQPSICAVCGD 402 (836)
Q Consensus 364 ~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~C~~C~~ 402 (836)
..+.|..||..|.....-+.-....-....|-.|+.|-.
T Consensus 3 k~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR~ 41 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSCRQ 41 (49)
T ss_pred eeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHHHH
Confidence 356777777776655554444444333334556666643
No 168
>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=23.37 E-value=33 Score=22.75 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=7.6
Q ss_pred cCccchhcccchh
Q psy6556 780 CHKCNATFRIKKF 792 (836)
Q Consensus 780 C~~C~~~F~~~~~ 792 (836)
|++||..|+++..
T Consensus 11 C~~C~rpf~WRKK 23 (42)
T PF10013_consen 11 CPVCGRPFTWRKK 23 (42)
T ss_pred CcccCCcchHHHH
Confidence 6666666665543
No 169
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=23.31 E-value=36 Score=22.83 Aligned_cols=10 Identities=30% Similarity=0.813 Sum_probs=4.1
Q ss_pred ceeccccccc
Q psy6556 48 PVRCGYCGQF 57 (836)
Q Consensus 48 ~~~C~~C~~~ 57 (836)
.+.|+.||..
T Consensus 19 ~~vC~~CG~V 28 (43)
T PF08271_consen 19 ELVCPNCGLV 28 (43)
T ss_dssp EEEETTT-BB
T ss_pred eEECCCCCCE
Confidence 3445555443
No 170
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=22.68 E-value=18 Score=33.42 Aligned_cols=32 Identities=28% Similarity=0.445 Sum_probs=19.1
Q ss_pred cccCccchhcccchhHHHHHhhcCCC---------ccCCccchhccc
Q psy6556 778 QRCHKCNATFRIKKFLTRHMKTHLIQ---------YRCTRCNKTFKQ 815 (836)
Q Consensus 778 ~~C~~C~~~F~~~~~L~~H~~~h~~~---------~~C~~C~~~f~~ 815 (836)
-.||+||. .|..||....-| +.|+.||.+++.
T Consensus 15 ~~CPvCg~------~l~~~~~~~~IPyFG~V~i~t~~C~~CgYR~~D 55 (201)
T COG1779 15 IDCPVCGG------TLKAHMYLYDIPYFGEVLISTGVCERCGYRSTD 55 (201)
T ss_pred ecCCcccc------eeeEEEeeecCCccceEEEEEEEccccCCcccc
Confidence 45777775 445555554323 467777777654
No 171
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.93 E-value=66 Score=37.98 Aligned_cols=10 Identities=20% Similarity=0.757 Sum_probs=5.7
Q ss_pred ccCccccccc
Q psy6556 507 HPCNRCNASF 516 (836)
Q Consensus 507 ~~C~~C~~~f 516 (836)
+.|+.|+..-
T Consensus 664 y~CPKCG~El 673 (1121)
T PRK04023 664 DECEKCGREP 673 (1121)
T ss_pred CcCCCCCCCC
Confidence 4566666543
No 172
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=21.55 E-value=76 Score=27.24 Aligned_cols=33 Identities=30% Similarity=0.433 Sum_probs=23.2
Q ss_pred ccccCCCccccccccccccCHHHHHHHHhhhcCCcc
Q psy6556 13 HESQDERTYHCPLCSKQFSKLTTLKRHVGIHMKTQP 48 (836)
Q Consensus 13 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 48 (836)
+.++...-..|-++|+.|. +|++|+..|.+..|
T Consensus 69 kKSVtpD~IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 69 KKSVTPDYIICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred ccccCCCeEEEeccCcchH---HHHHHHhcccCCCH
Confidence 3344444667888898885 48888888877644
No 173
>KOG3507|consensus
Probab=21.42 E-value=72 Score=22.84 Aligned_cols=31 Identities=26% Similarity=0.577 Sum_probs=18.1
Q ss_pred CCccccccccccccCHHHHHHHHhhhcCCcceeccccccccc
Q psy6556 18 ERTYHCPLCSKQFSKLTTLKRHVGIHMKTQPVRCGYCGQFFL 59 (836)
Q Consensus 18 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 59 (836)
--.|.|..|+....- .....++|..||....
T Consensus 18 ~miYiCgdC~~en~l-----------k~~D~irCReCG~RIl 48 (62)
T KOG3507|consen 18 TMIYICGDCGQENTL-----------KRGDVIRCRECGYRIL 48 (62)
T ss_pred cEEEEeccccccccc-----------cCCCcEehhhcchHHH
Confidence 346777777755431 2345677777776543
No 174
>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=21.41 E-value=46 Score=19.94 Aligned_cols=20 Identities=35% Similarity=0.858 Sum_probs=10.5
Q ss_pred eecCcccccccchhhhhhHHH
Q psy6556 747 YVCNYCGKSYIDKRDYTNHVS 767 (836)
Q Consensus 747 ~~C~~C~~~f~~~~~l~~H~~ 767 (836)
|.|-.|++.| ...+++.|..
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 4566677776 5555666643
No 175
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=21.38 E-value=60 Score=25.67 Aligned_cols=14 Identities=29% Similarity=0.700 Sum_probs=10.8
Q ss_pred CcccCCccccccCC
Q psy6556 201 RNYLCNFCNKTYKD 214 (836)
Q Consensus 201 ~~~~C~~C~~~f~~ 214 (836)
.|-.|..||+.|.+
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 56678888888866
No 176
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.07 E-value=39 Score=27.54 Aligned_cols=12 Identities=17% Similarity=0.620 Sum_probs=5.8
Q ss_pred CCcccccchHhh
Q psy6556 393 QPSICAVCGDTF 404 (836)
Q Consensus 393 ~~~~C~~C~~~f 404 (836)
.|..|++||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 444455555444
No 177
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=20.73 E-value=63 Score=22.04 Aligned_cols=9 Identities=44% Similarity=1.154 Sum_probs=5.0
Q ss_pred cccccchHh
Q psy6556 395 SICAVCGDT 403 (836)
Q Consensus 395 ~~C~~C~~~ 403 (836)
+.|+.||..
T Consensus 19 ~~CP~Cg~~ 27 (46)
T PF12760_consen 19 FVCPHCGST 27 (46)
T ss_pred CCCCCCCCe
Confidence 446666643
No 178
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=20.19 E-value=12 Score=31.24 Aligned_cols=12 Identities=17% Similarity=0.509 Sum_probs=7.3
Q ss_pred CcccccchhhcC
Q psy6556 307 PFNCSLCEKQFR 318 (836)
Q Consensus 307 ~~~C~~C~~~f~ 318 (836)
.+.|+.|+..+.
T Consensus 16 ~~~C~~C~~~~~ 27 (104)
T TIGR01384 16 VYVCPSCGYEKE 27 (104)
T ss_pred eEECcCCCCccc
Confidence 466666666544
Done!