Query psy17740
Match_columns 384
No_of_seqs 344 out of 1682
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 21:44:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17740.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17740hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 3.6E-28 7.8E-33 227.8 8.9 139 229-373 127-265 (279)
2 KOG2462|consensus 99.8 6.7E-21 1.5E-25 179.0 4.2 104 233-345 162-265 (279)
3 KOG3576|consensus 99.7 7.4E-17 1.6E-21 145.4 9.1 111 260-374 114-235 (267)
4 KOG1074|consensus 99.6 1.2E-15 2.6E-20 160.3 7.9 60 323-382 605-664 (958)
5 KOG3623|consensus 99.5 2E-14 4.4E-19 148.9 9.0 84 257-344 888-971 (1007)
6 KOG3623|consensus 99.4 4.5E-14 9.8E-19 146.4 1.9 108 232-344 210-330 (1007)
7 KOG1074|consensus 99.4 8.8E-14 1.9E-18 146.4 4.0 80 294-375 606-692 (958)
8 KOG3608|consensus 99.4 1.5E-13 3.3E-18 132.9 3.7 136 236-381 183-321 (467)
9 KOG3576|consensus 99.4 4.5E-13 9.7E-18 121.2 6.1 109 234-349 119-238 (267)
10 KOG3608|consensus 99.4 3.8E-13 8.2E-18 130.1 4.3 145 231-383 206-356 (467)
11 PLN03086 PRLI-interacting fact 98.9 3.4E-09 7.4E-14 110.7 8.4 102 262-374 452-563 (567)
12 PHA00733 hypothetical protein 98.8 4.7E-09 1E-13 90.4 4.3 85 258-348 35-124 (128)
13 PHA00733 hypothetical protein 98.7 1.6E-08 3.5E-13 87.2 4.9 92 279-374 26-122 (128)
14 PHA02768 hypothetical protein; 98.6 2.6E-08 5.7E-13 72.7 2.5 42 294-339 6-47 (55)
15 PLN03086 PRLI-interacting fact 98.5 1.2E-07 2.6E-12 99.3 6.2 100 234-347 455-564 (567)
16 PHA02768 hypothetical protein; 98.5 5.6E-08 1.2E-12 71.0 1.9 40 324-365 6-45 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.1E-07 2.4E-12 59.1 2.0 25 310-334 1-25 (26)
18 KOG3993|consensus 98.1 7.5E-07 1.6E-11 88.7 0.1 82 263-348 267-381 (500)
19 PHA00616 hypothetical protein 98.1 1.9E-06 4.2E-11 60.0 1.8 33 323-355 1-33 (44)
20 PF13465 zf-H2C2_2: Zinc-finge 98.0 3.3E-06 7.2E-11 52.5 1.8 26 280-307 1-26 (26)
21 KOG3993|consensus 97.8 4.6E-06 1E-10 83.2 0.2 82 293-376 267-381 (500)
22 PHA00732 hypothetical protein 97.7 2E-05 4.4E-10 62.3 2.8 38 301-344 7-45 (79)
23 PHA00732 hypothetical protein 97.7 2.8E-05 6E-10 61.5 3.1 44 323-372 1-45 (79)
24 COG5189 SFP1 Putative transcri 97.6 2.7E-05 5.8E-10 75.3 1.8 54 291-344 347-419 (423)
25 PHA00616 hypothetical protein 97.6 2.9E-05 6.3E-10 54.2 1.3 33 294-328 2-34 (44)
26 PF00096 zf-C2H2: Zinc finger, 97.5 5.3E-05 1.1E-09 45.2 1.9 23 324-346 1-23 (23)
27 PF05605 zf-Di19: Drought indu 97.5 0.00016 3.5E-09 52.7 4.5 50 294-348 3-54 (54)
28 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00025 5.5E-09 42.1 2.3 24 324-347 1-24 (24)
29 PF13912 zf-C2H2_6: C2H2-type 96.8 0.00044 9.5E-09 42.9 1.0 26 323-348 1-26 (27)
30 PF12756 zf-C2H2_2: C2H2 type 96.8 0.00073 1.6E-08 54.2 2.4 73 265-346 1-73 (100)
31 PF05605 zf-Di19: Drought indu 96.7 0.0021 4.6E-08 46.8 4.0 50 263-319 2-53 (54)
32 PF00096 zf-C2H2: Zinc finger, 96.5 0.002 4.3E-08 38.3 2.1 23 264-288 1-23 (23)
33 smart00355 ZnF_C2H2 zinc finge 96.4 0.0034 7.3E-08 37.5 2.7 24 324-347 1-24 (26)
34 COG5189 SFP1 Putative transcri 96.3 0.00077 1.7E-08 65.5 -0.8 52 321-372 347-419 (423)
35 PF09237 GAGA: GAGA factor; I 96.1 0.0035 7.6E-08 45.0 1.9 33 319-351 20-52 (54)
36 COG5048 FOG: Zn-finger [Genera 95.9 0.011 2.3E-07 58.7 5.0 113 263-377 289-444 (467)
37 PF13894 zf-C2H2_4: C2H2-type 95.7 0.0095 2.1E-07 35.0 2.4 18 271-288 6-23 (24)
38 PF13909 zf-H2C2_5: C2H2-type 95.5 0.011 2.4E-07 35.5 2.1 24 324-348 1-24 (24)
39 PRK04860 hypothetical protein; 95.3 0.0095 2.1E-07 53.4 1.9 39 323-365 119-157 (160)
40 PF13912 zf-C2H2_6: C2H2-type 94.9 0.016 3.4E-07 35.7 1.6 24 264-289 2-25 (27)
41 PRK04860 hypothetical protein; 94.8 0.019 4.2E-07 51.4 2.4 38 293-336 119-156 (160)
42 PF12874 zf-met: Zinc-finger o 94.4 0.019 4.2E-07 34.6 1.1 23 324-346 1-23 (25)
43 COG5048 FOG: Zn-finger [Genera 94.1 0.14 2.9E-06 50.8 7.0 128 232-360 289-455 (467)
44 COG5236 Uncharacterized conser 94.0 0.037 7.9E-07 54.6 2.7 78 264-345 152-242 (493)
45 PF12756 zf-C2H2_2: C2H2 type 93.9 0.026 5.7E-07 45.0 1.3 74 295-375 1-74 (100)
46 KOG2231|consensus 93.5 0.1 2.3E-06 56.1 5.1 47 295-347 184-236 (669)
47 KOG2231|consensus 93.4 0.066 1.4E-06 57.6 3.5 98 264-373 116-234 (669)
48 smart00355 ZnF_C2H2 zinc finge 93.0 0.092 2E-06 31.0 2.3 18 301-318 6-23 (26)
49 PF12171 zf-C2H2_jaz: Zinc-fin 92.6 0.032 6.9E-07 34.6 -0.2 22 324-345 2-23 (27)
50 PF09237 GAGA: GAGA factor; I 92.4 0.19 4.2E-06 36.2 3.6 31 261-293 22-52 (54)
51 KOG4173|consensus 91.9 0.083 1.8E-06 48.7 1.5 83 258-345 74-168 (253)
52 PF13913 zf-C2HC_2: zinc-finge 91.7 0.15 3.3E-06 31.2 2.1 21 324-345 3-23 (25)
53 PF12874 zf-met: Zinc-finger o 91.3 0.14 2.9E-06 30.8 1.6 22 264-287 1-22 (25)
54 KOG4173|consensus 88.7 0.26 5.7E-06 45.5 1.9 81 292-375 78-170 (253)
55 KOG1146|consensus 87.8 1.2 2.6E-05 51.2 6.7 104 262-373 464-611 (1406)
56 PF13909 zf-H2C2_5: C2H2-type 87.6 0.39 8.4E-06 28.6 1.6 17 301-318 6-22 (24)
57 smart00451 ZnF_U1 U1-like zinc 87.2 0.41 8.9E-06 31.0 1.7 23 323-345 3-25 (35)
58 PF12171 zf-C2H2_jaz: Zinc-fin 85.6 0.22 4.9E-06 30.7 -0.2 22 264-287 2-23 (27)
59 KOG2893|consensus 83.9 0.32 6.9E-06 45.9 -0.1 42 271-318 16-58 (341)
60 KOG2785|consensus 83.9 2.4 5.1E-05 42.8 6.0 53 323-375 166-244 (390)
61 COG5236 Uncharacterized conser 79.7 3.5 7.5E-05 41.1 5.3 17 271-287 226-242 (493)
62 KOG2893|consensus 77.0 0.81 1.7E-05 43.3 0.1 49 291-346 9-58 (341)
63 COG4049 Uncharacterized protei 76.9 1.2 2.5E-05 32.8 0.9 31 318-348 12-42 (65)
64 KOG2482|consensus 74.3 3.3 7.2E-05 41.2 3.5 148 227-376 139-359 (423)
65 TIGR00622 ssl1 transcription f 72.6 4.9 0.00011 33.9 3.7 79 263-347 15-105 (112)
66 PF05443 ROS_MUCR: ROS/MUCR tr 71.9 2.1 4.5E-05 37.2 1.4 22 324-348 73-94 (132)
67 KOG1146|consensus 71.0 1.7 3.6E-05 50.1 0.7 91 271-373 442-540 (1406)
68 smart00451 ZnF_U1 U1-like zinc 70.5 3.4 7.3E-05 26.5 1.9 23 263-287 3-25 (35)
69 KOG2482|consensus 64.9 8.2 0.00018 38.5 4.0 52 262-317 143-217 (423)
70 PF02892 zf-BED: BED zinc fing 64.8 4.5 9.7E-05 27.7 1.7 26 320-345 13-42 (45)
71 smart00614 ZnF_BED BED zinc fi 63.0 5.3 0.00012 28.3 1.8 21 324-344 19-44 (50)
72 TIGR00373 conserved hypothetic 60.8 9.8 0.00021 33.9 3.5 35 322-365 108-142 (158)
73 PF09986 DUF2225: Uncharacteri 58.7 1.8 3.8E-05 40.6 -1.7 10 353-362 50-59 (214)
74 TIGR02098 MJ0042_CXXC MJ0042 f 58.1 4.6 9.9E-05 26.8 0.7 10 324-333 26-35 (38)
75 PF09538 FYDLN_acid: Protein o 57.8 6 0.00013 33.1 1.5 15 322-336 25-39 (108)
76 KOG2186|consensus 57.1 4.9 0.00011 38.5 0.9 55 263-324 3-57 (276)
77 cd00350 rubredoxin_like Rubred 57.0 6.6 0.00014 25.5 1.3 10 322-331 16-25 (33)
78 smart00531 TFIIE Transcription 55.2 11 0.00024 33.0 2.9 9 324-332 124-132 (147)
79 KOG4124|consensus 55.1 2.1 4.5E-05 42.7 -1.9 52 292-343 348-418 (442)
80 PRK06266 transcription initiat 55.1 13 0.00029 33.7 3.4 30 324-362 118-147 (178)
81 KOG2785|consensus 55.1 13 0.00028 37.7 3.5 74 263-345 166-242 (390)
82 COG4957 Predicted transcriptio 53.5 5.8 0.00013 34.4 0.7 21 325-348 78-98 (148)
83 PRK00464 nrdR transcriptional 52.1 3.8 8.3E-05 36.5 -0.6 13 324-336 29-41 (154)
84 PF09538 FYDLN_acid: Protein o 51.9 11 0.00023 31.6 2.1 30 324-364 10-39 (108)
85 PF12013 DUF3505: Protein of u 51.6 34 0.00073 28.2 5.1 26 323-348 80-109 (109)
86 PF12013 DUF3505: Protein of u 50.4 12 0.00026 30.8 2.2 27 294-320 81-109 (109)
87 smart00659 RPOLCX RNA polymera 50.1 9.2 0.0002 26.7 1.2 8 323-330 19-26 (44)
88 TIGR02605 CxxC_CxxC_SSSS putat 45.6 6.3 0.00014 27.9 -0.2 11 324-334 6-16 (52)
89 PF09986 DUF2225: Uncharacteri 44.9 4.8 0.00011 37.6 -1.1 13 324-336 49-61 (214)
90 KOG4167|consensus 44.7 5.3 0.00012 43.5 -1.0 25 323-347 792-816 (907)
91 smart00834 CxxC_CXXC_SSSS Puta 43.9 6.7 0.00015 26.1 -0.3 11 324-334 6-16 (41)
92 PF04959 ARS2: Arsenite-resist 43.8 11 0.00023 35.5 0.9 24 322-345 76-99 (214)
93 KOG2461|consensus 43.2 1.3E+02 0.0028 30.9 8.8 84 274-359 312-395 (396)
94 PF02176 zf-TRAF: TRAF-type zi 43.1 10 0.00022 27.4 0.6 19 310-328 25-43 (60)
95 TIGR00373 conserved hypothetic 42.2 23 0.00049 31.5 2.8 34 289-333 105-138 (158)
96 smart00734 ZnF_Rad18 Rad18-lik 41.7 23 0.00049 21.8 1.9 19 325-344 3-21 (26)
97 KOG2593|consensus 40.2 22 0.00047 36.7 2.6 34 323-359 128-161 (436)
98 TIGR02300 FYDLN_acid conserved 40.0 18 0.00039 31.2 1.7 33 294-339 10-42 (129)
99 smart00531 TFIIE Transcription 39.6 26 0.00056 30.7 2.7 43 320-366 96-138 (147)
100 COG2167 RPL39 Ribosomal protei 38.4 22 0.00048 25.6 1.6 20 16-35 21-40 (51)
101 TIGR00622 ssl1 transcription f 38.3 30 0.00066 29.2 2.7 81 291-375 13-105 (112)
102 COG1996 RPC10 DNA-directed RNA 37.9 16 0.00034 26.3 0.8 8 323-330 24-31 (49)
103 PRK00398 rpoP DNA-directed RNA 36.6 8.8 0.00019 26.7 -0.6 10 323-332 21-30 (46)
104 PRK09678 DNA-binding transcrip 34.3 11 0.00024 29.2 -0.4 17 320-336 24-42 (72)
105 PF09723 Zn-ribbon_8: Zinc rib 34.1 12 0.00026 25.6 -0.2 12 324-335 6-17 (42)
106 KOG0696|consensus 33.9 21 0.00046 37.0 1.4 60 259-331 69-129 (683)
107 COG1592 Rubrerythrin [Energy p 33.7 26 0.00056 31.7 1.7 23 293-330 134-156 (166)
108 cd00729 rubredoxin_SM Rubredox 33.6 24 0.00053 23.1 1.2 8 323-330 18-25 (34)
109 PRK06266 transcription initiat 33.6 33 0.00072 31.2 2.5 32 291-333 115-146 (178)
110 KOG4377|consensus 32.9 12 0.00027 38.2 -0.5 109 236-347 277-427 (480)
111 COG4049 Uncharacterized protei 32.7 25 0.00054 26.0 1.2 26 260-287 14-39 (65)
112 KOG2186|consensus 32.6 26 0.00057 33.6 1.7 54 294-352 4-57 (276)
113 PF13717 zinc_ribbon_4: zinc-r 32.2 38 0.00082 22.4 1.9 11 323-333 25-35 (36)
114 COG1592 Rubrerythrin [Energy p 31.8 30 0.00064 31.3 1.8 28 323-363 134-161 (166)
115 PF05290 Baculo_IE-1: Baculovi 31.8 25 0.00054 30.6 1.3 55 262-337 79-135 (140)
116 PF13719 zinc_ribbon_5: zinc-r 31.7 35 0.00077 22.6 1.7 11 323-333 25-35 (37)
117 PF15269 zf-C2H2_7: Zinc-finge 30.9 34 0.00073 24.2 1.5 22 324-345 21-42 (54)
118 COG1198 PriA Primosomal protei 30.9 36 0.00079 37.7 2.6 52 228-330 431-482 (730)
119 PF05443 ROS_MUCR: ROS/MUCR tr 30.3 36 0.00079 29.5 2.0 27 262-293 71-97 (132)
120 COG3885 Uncharacterized conser 28.4 38 0.00083 32.2 2.0 70 18-88 162-243 (261)
121 COG2888 Predicted Zn-ribbon RN 27.3 36 0.00079 25.4 1.3 9 322-330 49-57 (61)
122 COG4530 Uncharacterized protei 26.9 35 0.00075 28.7 1.2 15 321-335 24-38 (129)
123 KOG0782|consensus 26.5 14 0.00031 39.3 -1.3 54 310-369 240-294 (1004)
124 KOG3408|consensus 25.6 37 0.00081 29.0 1.2 25 321-345 55-79 (129)
125 PF03604 DNA_RNApol_7kD: DNA d 25.3 55 0.0012 21.3 1.7 9 323-331 17-25 (32)
126 COG4957 Predicted transcriptio 24.9 49 0.0011 28.9 1.8 25 264-293 77-101 (148)
127 KOG4167|consensus 24.9 19 0.00042 39.4 -0.7 28 261-290 790-817 (907)
128 KOG4377|consensus 24.4 36 0.00077 35.0 1.1 85 260-347 268-373 (480)
129 KOG4124|consensus 23.6 14 0.0003 37.1 -1.9 54 261-316 347-419 (442)
130 PRK14873 primosome assembly pr 23.2 43 0.00094 36.8 1.5 10 323-332 422-431 (665)
131 PF10013 DUF2256: Uncharacteri 23.1 48 0.001 23.0 1.2 15 325-339 10-24 (42)
132 PF09845 DUF2072: Zn-ribbon co 23.1 51 0.0011 28.6 1.6 6 301-306 7-12 (131)
133 PF07975 C1_4: TFIIH C1-like d 22.6 14 0.00031 26.7 -1.5 25 322-346 20-44 (51)
134 PF10571 UPF0547: Uncharacteri 22.5 44 0.00095 20.6 0.8 10 325-334 16-25 (26)
135 PF07282 OrfB_Zn_ribbon: Putat 22.1 74 0.0016 23.7 2.2 22 350-373 45-66 (69)
136 COG5151 SSL1 RNA polymerase II 21.7 62 0.0013 32.1 2.1 52 301-360 368-419 (421)
137 KOG2636|consensus 21.6 70 0.0015 33.3 2.5 29 316-344 394-423 (497)
138 PF13878 zf-C2H2_3: zinc-finge 21.6 90 0.002 21.2 2.3 24 324-347 14-39 (41)
139 PF12760 Zn_Tnp_IS1595: Transp 21.0 58 0.0013 22.5 1.3 9 322-330 36-44 (46)
140 KOG2593|consensus 20.2 88 0.0019 32.4 2.9 38 289-331 124-161 (436)
141 PRK00464 nrdR transcriptional 20.2 59 0.0013 28.9 1.5 18 263-282 28-45 (154)
No 1
>KOG2462|consensus
Probab=99.95 E-value=3.6e-28 Score=227.83 Aligned_cols=139 Identities=32% Similarity=0.502 Sum_probs=131.3
Q ss_pred ccccCCCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCCh
Q psy17740 229 FLFFAQPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRS 308 (384)
Q Consensus 229 ~~~~~qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~ 308 (384)
.....+|+.|++.+.+...|.+|...+.....++.|.|.+ |||.|.+...|++|+|+|+ -+++|.+ |||.|.+.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~--C~K~YvSmpALkMHirTH~--l~c~C~i--CGKaFSRP 200 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKY--CGKVYVSMPALKMHIRTHT--LPCECGI--CGKAFSRP 200 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCC--CCceeeehHHHhhHhhccC--CCccccc--ccccccch
Confidence 3455699999999999999999999999988899999966 9999999999999999998 5688966 99999999
Q ss_pred HHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchhhHHHHHHH
Q psy17740 309 DELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLRNANVAFNM 373 (384)
Q Consensus 309 ~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~~~~~hl~~ 373 (384)
|.|+.|+|+|||||||.|+.|+|+|+.+++|+.||++|.+.+.|.|..|+|.|.+...|++|++.
T Consensus 201 WLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 201 WLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred HHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999864
No 2
>KOG2462|consensus
Probab=99.81 E-value=6.7e-21 Score=179.00 Aligned_cols=104 Identities=34% Similarity=0.598 Sum_probs=97.7
Q ss_pred CCCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHH
Q psy17740 233 AQPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELS 312 (384)
Q Consensus 233 ~qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~ 312 (384)
-+|+.|++.|++...++.|.+.+. -++.|.+ |||.|.+...|+.|+|+|+|||||.|++ |+|+|+.+++|+
T Consensus 162 ~~C~~C~K~YvSmpALkMHirTH~-----l~c~C~i--CGKaFSRPWLLQGHiRTHTGEKPF~C~h--C~kAFADRSNLR 232 (279)
T KOG2462|consen 162 FSCKYCGKVYVSMPALKMHIRTHT-----LPCECGI--CGKAFSRPWLLQGHIRTHTGEKPFSCPH--CGKAFADRSNLR 232 (279)
T ss_pred ccCCCCCceeeehHHHhhHhhccC-----CCccccc--ccccccchHHhhcccccccCCCCccCCc--ccchhcchHHHH
Confidence 389999999999999999998776 3578866 9999999999999999999999999976 999999999999
Q ss_pred HHHhhhcCCCccccCccCcccCChHHHHHHHHH
Q psy17740 313 RHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 313 ~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~ 345 (384)
.||++|.+.|+|+|..|+|.|++.+.|.+|...
T Consensus 233 AHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 233 AHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred HHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999764
No 3
>KOG3576|consensus
Probab=99.69 E-value=7.4e-17 Score=145.44 Aligned_cols=111 Identities=27% Similarity=0.582 Sum_probs=100.1
Q ss_pred CCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHH
Q psy17740 260 RRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHL 339 (384)
Q Consensus 260 ~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L 339 (384)
....|.|.+ |+|.|....-|.+|++.|...+.|-|.+ |||+|....+|++|+|+|+|.+||+|..|+|+|..+..|
T Consensus 114 d~d~ftCrv--CgK~F~lQRmlnrh~kch~~vkr~lct~--cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsl 189 (267)
T KOG3576|consen 114 DQDSFTCRV--CGKKFGLQRMLNRHLKCHSDVKRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSL 189 (267)
T ss_pred CCCeeeeeh--hhhhhhHHHHHHHHhhhccHHHHHHHhh--ccCcccchhhhhhhhccccCccccchhhhhHHHHhhccH
Confidence 356899977 9999999999999999999999999977 999999999999999999999999999999999999999
Q ss_pred HHHHHHhcC-----------CCCCCCCCCCCCccchhhHHHHHHHH
Q psy17740 340 AKHVKRHSK-----------DGAITPSNIGTPSNVLRNANVAFNMM 374 (384)
Q Consensus 340 ~~H~r~H~~-----------e~~~~c~~Cg~~~~~~~~~~~hl~~~ 374 (384)
..|++.-|| ++.|.|..||.+.......-.|+..+
T Consensus 190 eshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~ 235 (267)
T KOG3576|consen 190 ESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLH 235 (267)
T ss_pred HHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhc
Confidence 999886554 47899999999988777766666654
No 4
>KOG1074|consensus
Probab=99.60 E-value=1.2e-15 Score=160.27 Aligned_cols=60 Identities=18% Similarity=0.249 Sum_probs=55.2
Q ss_pred ccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchhhHHHHHHHHhhcCCCCC
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLRNANVAFNMMVTNLPHPV 382 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~~~~~hl~~~~~~l~~~~ 382 (384)
|-+|-+|-|...-++.|+.|.|+|+||++|+|++||..|....||+.||-.|...+++++
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~ 664 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARV 664 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccc
Confidence 678999999999999999999999999999999999999999999999999998877664
No 5
>KOG3623|consensus
Probab=99.53 E-value=2e-14 Score=148.95 Aligned_cols=84 Identities=35% Similarity=0.784 Sum_probs=78.4
Q ss_pred CCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCCh
Q psy17740 257 NDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRS 336 (384)
Q Consensus 257 ~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~ 336 (384)
.......|.|.. |.|.|...+.|.||.-.|+|.+||+|.+ |.|+|..+.+|..|+|.|.|||||+|..|+|+|...
T Consensus 888 ~kte~gmyaCDq--CDK~FqKqSSLaRHKYEHsGqRPyqC~i--CkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHS 963 (1007)
T KOG3623|consen 888 AKTEDGMYACDQ--CDKAFQKQSSLARHKYEHSGQRPYQCII--CKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHS 963 (1007)
T ss_pred ccCccccchHHH--HHHHHHhhHHHHHhhhhhcCCCCcccch--hhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccc
Confidence 344557899965 9999999999999999999999999977 999999999999999999999999999999999999
Q ss_pred HHHHHHHH
Q psy17740 337 DHLAKHVK 344 (384)
Q Consensus 337 s~L~~H~r 344 (384)
..+.+||.
T Consensus 964 GSYSQHMN 971 (1007)
T KOG3623|consen 964 GSYSQHMN 971 (1007)
T ss_pred cchHhhhc
Confidence 99999986
No 6
>KOG3623|consensus
Probab=99.42 E-value=4.5e-14 Score=146.40 Aligned_cols=108 Identities=29% Similarity=0.560 Sum_probs=59.5
Q ss_pred cCCCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcC-------------CCcccccc
Q psy17740 232 FAQPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTG-------------ERPFLCQW 298 (384)
Q Consensus 232 ~~qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~-------------ekp~~C~~ 298 (384)
..+||+|.+.+.....++.|.+..+.. .+..|.|.. |..+|.....|.+||..|.. .+.|+|
T Consensus 210 lltcpycdrgykrltslkeHikyrhek-ne~nfsC~l--CsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKC-- 284 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEK-NEPNFSCML--CSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKC-- 284 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhh-CCCCCcchh--hhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccc--
Confidence 345666666665555555555443332 223455643 66666666666666655531 234555
Q ss_pred CCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHH
Q psy17740 299 TGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVK 344 (384)
Q Consensus 299 ~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r 344 (384)
.+|||+|..+.+|+.|+|+|.|||||.|+.|+|+|.....+..||.
T Consensus 285 tECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 285 TECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred cccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 4466666666666666666666666666666666665555555553
No 7
>KOG1074|consensus
Probab=99.41 E-value=8.8e-14 Score=146.43 Aligned_cols=80 Identities=26% Similarity=0.393 Sum_probs=69.0
Q ss_pred cccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCC----CCCCCC---CCCCCccchhh
Q psy17740 294 FLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKD----GAITPS---NIGTPSNVLRN 366 (384)
Q Consensus 294 ~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e----~~~~c~---~Cg~~~~~~~~ 366 (384)
.+|.+ |.+....+..|+.|.|+|+|||||+|.+|||+|.++.+|+.||-+|... ..|.|. +|-+.|.....
T Consensus 606 NqCii--C~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 606 NQCII--CLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred cceee--eeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 37876 9999999999999999999999999999999999999999999999755 466788 88888887776
Q ss_pred HHHHHHHHh
Q psy17740 367 ANVAFNMMV 375 (384)
Q Consensus 367 ~~~hl~~~~ 375 (384)
+-.|+.+|.
T Consensus 684 lpQhIriH~ 692 (958)
T KOG1074|consen 684 LPQHIRIHL 692 (958)
T ss_pred ccceEEeec
Confidence 666665543
No 8
>KOG3608|consensus
Probab=99.39 E-value=1.5e-13 Score=132.86 Aligned_cols=136 Identities=20% Similarity=0.395 Sum_probs=80.7
Q ss_pred CCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhc--CCCccccccCCCCCccCChHHHHH
Q psy17740 236 PRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHT--GERPFLCQWTGCGRRFSRSDELSR 313 (384)
Q Consensus 236 p~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~--~ekp~~C~~~~Cgk~F~~~~~L~~ 313 (384)
..|.+.+.....|..|.+.+.. +|...|.. ||..|..+..|..|++..+ ...+|.|.. |.|.|+....|+.
T Consensus 183 ~~Ct~~~~~k~~LreH~r~Hs~---eKvvACp~--Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~--C~KrFaTeklL~~ 255 (467)
T KOG3608|consen 183 AMCTKHMGNKYRLREHIRTHSN---EKVVACPH--CGELFRTKTKLFDHLRRQTELNTNSFQCAQ--CFKRFATEKLLKS 255 (467)
T ss_pred hhhhhhhccHHHHHHHHHhcCC---CeEEecch--HHHHhccccHHHHHHHhhhhhcCCchHHHH--HHHHHhHHHHHHH
Confidence 3455566666666666654443 35666644 6666666666666665433 234566633 6666666666666
Q ss_pred HHhhhcCCCccccCccCcccCChHHHHHHHH-HhcCCCCCCCCCCCCCccchhhHHHHHHHHhhcCCCC
Q psy17740 314 HKRTHTGEKKFGCSICNRRFMRSDHLAKHVK-RHSKDGAITPSNIGTPSNVLRNANVAFNMMVTNLPHP 381 (384)
Q Consensus 314 H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r-~H~~e~~~~c~~Cg~~~~~~~~~~~hl~~~~~~l~~~ 381 (384)
|++.|. .-|+|+.|.......+.|.+||+ .|..+++|+|..|++.|....+|++|+..|.. +.|.
T Consensus 256 Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~-~~y~ 321 (467)
T KOG3608|consen 256 HVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSK-TVYQ 321 (467)
T ss_pred HHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccc-ccee
Confidence 666663 34666666666666666666655 35566666666666666666666666665552 4443
No 9
>KOG3576|consensus
Probab=99.39 E-value=4.5e-13 Score=121.18 Aligned_cols=109 Identities=27% Similarity=0.467 Sum_probs=96.9
Q ss_pred CCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHH
Q psy17740 234 QPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSR 313 (384)
Q Consensus 234 qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~ 313 (384)
.|..|++.|.-...+.+|.+.+... +.|.|.+ |||.|....+|++|+|+|+|.+||+|.. |+|+|...-.|..
T Consensus 119 tCrvCgK~F~lQRmlnrh~kch~~v---kr~lct~--cgkgfndtfdlkrh~rthtgvrpykc~~--c~kaftqrcsles 191 (267)
T KOG3576|consen 119 TCRVCGKKFGLQRMLNRHLKCHSDV---KRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKCSL--CEKAFTQRCSLES 191 (267)
T ss_pred eeehhhhhhhHHHHHHHHhhhccHH---HHHHHhh--ccCcccchhhhhhhhccccCccccchhh--hhHHHHhhccHHH
Confidence 6999999999999999998876654 7799988 9999999999999999999999999955 9999999999999
Q ss_pred HHhhhcC-----------CCccccCccCcccCChHHHHHHHHHhcCC
Q psy17740 314 HKRTHTG-----------EKKFGCSICNRRFMRSDHLAKHVKRHSKD 349 (384)
Q Consensus 314 H~r~Htg-----------ekpf~C~~C~k~F~~~s~L~~H~r~H~~e 349 (384)
|.+.-+| +|-|.|+.||..-.+...+..|++.|+..
T Consensus 192 hl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 192 HLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred HHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 9764333 46799999999999999999999998643
No 10
>KOG3608|consensus
Probab=99.36 E-value=3.8e-13 Score=130.12 Aligned_cols=145 Identities=23% Similarity=0.348 Sum_probs=126.6
Q ss_pred ccCCCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHH
Q psy17740 231 FFAQPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDE 310 (384)
Q Consensus 231 ~~~qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~ 310 (384)
-...||.|+.-|.+..++-.|.+...... ...|.|.. |.|.|.....|+.|++.|-.- |+|+. |+.+....+.
T Consensus 206 KvvACp~Cg~~F~~~tkl~DH~rRqt~l~-~n~fqC~~--C~KrFaTeklL~~Hv~rHvn~--ykCpl--Cdmtc~~~ss 278 (467)
T KOG3608|consen 206 KVVACPHCGELFRTKTKLFDHLRRQTELN-TNSFQCAQ--CFKRFATEKLLKSHVVRHVNC--YKCPL--CDMTCSSASS 278 (467)
T ss_pred eEEecchHHHHhccccHHHHHHHhhhhhc-CCchHHHH--HHHHHhHHHHHHHHHHHhhhc--ccccc--cccCCCChHH
Confidence 44579999999999999999987766543 34899966 999999999999999998755 89977 9999999999
Q ss_pred HHHHHh-hhcCCCccccCccCcccCChHHHHHHHHHhcCCCCCCCCC--CCCCccchhhHHHHHHHHhh---cCCCCCC
Q psy17740 311 LSRHKR-THTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSN--IGTPSNVLRNANVAFNMMVT---NLPHPVP 383 (384)
Q Consensus 311 L~~H~r-~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~--Cg~~~~~~~~~~~hl~~~~~---~l~~~~p 383 (384)
|.+|++ .|...|||+|..|.+.|.+.+.|.+|...|. +..|.|.. |...+.....+++||..+.+ ...|.|+
T Consensus 279 L~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH 356 (467)
T KOG3608|consen 279 LTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACH 356 (467)
T ss_pred HHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeee
Confidence 999988 5888999999999999999999999999888 78999998 99999999999999988774 2455554
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.90 E-value=3.4e-09 Score=110.67 Aligned_cols=102 Identities=16% Similarity=0.437 Sum_probs=84.2
Q ss_pred ceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccC-------
Q psy17740 262 RIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFM------- 334 (384)
Q Consensus 262 k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~------- 334 (384)
+.+.|.+ |++.|. ...|..|++.|+ +++.| + ||+.| .+..|..|++.|..++++.|.+|++.|.
T Consensus 452 ~H~~C~~--Cgk~f~-~s~LekH~~~~H--kpv~C--p-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d 522 (567)
T PLN03086 452 NHVHCEK--CGQAFQ-QGEMEKHMKVFH--EPLQC--P-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMD 522 (567)
T ss_pred cCccCCC--CCCccc-hHHHHHHHHhcC--CCccC--C-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccc
Confidence 4467855 999996 688999999985 78999 5 99765 5689999999999999999999999995
Q ss_pred ---ChHHHHHHHHHhcCCCCCCCCCCCCCccchhhHHHHHHHH
Q psy17740 335 ---RSDHLAKHVKRHSKDGAITPSNIGTPSNVLRNANVAFNMM 374 (384)
Q Consensus 335 ---~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~~~~~hl~~~ 374 (384)
....|..|+..+ |.+.+.|..||+.+ ..+++..|+...
T Consensus 523 ~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~V-rlrdm~~H~~~~ 563 (567)
T PLN03086 523 VRDRLRGMSEHESIC-GSRTAPCDSCGRSV-MLKEMDIHQIAV 563 (567)
T ss_pred hhhhhhhHHHHHHhc-CCcceEccccCCee-eehhHHHHHHHh
Confidence 245899999985 88999999999874 456667776543
No 12
>PHA00733 hypothetical protein
Probab=98.79 E-value=4.7e-09 Score=90.42 Aligned_cols=85 Identities=22% Similarity=0.430 Sum_probs=67.5
Q ss_pred CCCCceeecccCCCCCcccChhhHHHH--HH---hhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcc
Q psy17740 258 DPRRRIFECNYENCGKNYFKSSHLKAH--MR---THTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRR 332 (384)
Q Consensus 258 ~~~~k~f~C~~e~Cgk~F~~~s~L~~H--~r---~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~ 332 (384)
.+..+.+.|.+ |.+.|.....|..| ++ .+.+.++|.|.. |++.|.....|..|++.| +.+|.|..|++.
T Consensus 35 ~~~~~~~~~~~--~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~--Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~ 108 (128)
T PHA00733 35 TPEQKRLIRAV--VKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPL--CLMPFSSSVSLKQHIRYT--EHSKVCPVCGKE 108 (128)
T ss_pred ChhhhhHHHHH--HhhhccChhhhcchHHHHhhcccCCCCCccCCC--CCCcCCCHHHHHHHHhcC--CcCccCCCCCCc
Confidence 45567888966 98888877666655 22 234578999954 999999999999999877 457999999999
Q ss_pred cCChHHHHHHHHHhcC
Q psy17740 333 FMRSDHLAKHVKRHSK 348 (384)
Q Consensus 333 F~~~s~L~~H~r~H~~ 348 (384)
|.....|.+|+...|+
T Consensus 109 F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 109 FRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCCHHHHHHHHHHhcC
Confidence 9999999999987765
No 13
>PHA00733 hypothetical protein
Probab=98.70 E-value=1.6e-08 Score=87.15 Aligned_cols=92 Identities=12% Similarity=0.098 Sum_probs=71.9
Q ss_pred hhHHHHHHhhcCCCccccccCCCCCccCChHHHHHH--Hh---hhcCCCccccCccCcccCChHHHHHHHHHhcCCCCCC
Q psy17740 279 SHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRH--KR---THTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAIT 353 (384)
Q Consensus 279 s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H--~r---~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~ 353 (384)
..|.++-..-...+++.|.+ |.+.|.....|..| ++ .+.+.++|.|+.|++.|.....|..|++.| +..|.
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~ 101 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAV--VKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKV 101 (128)
T ss_pred HHhhhhhcCChhhhhHHHHH--HhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCcc
Confidence 33443333333467899976 99988887777666 22 334588999999999999999999999987 45799
Q ss_pred CCCCCCCccchhhHHHHHHHH
Q psy17740 354 PSNIGTPSNVLRNANVAFNMM 374 (384)
Q Consensus 354 c~~Cg~~~~~~~~~~~hl~~~ 374 (384)
|..|++.|.....|..|+..+
T Consensus 102 C~~CgK~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 102 CPVCGKEFRNTDSTLDHVCKK 122 (128)
T ss_pred CCCCCCccCCHHHHHHHHHHh
Confidence 999999999999999987654
No 14
>PHA02768 hypothetical protein; Provisional
Probab=98.59 E-value=2.6e-08 Score=72.68 Aligned_cols=42 Identities=24% Similarity=0.546 Sum_probs=22.8
Q ss_pred cccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHH
Q psy17740 294 FLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHL 339 (384)
Q Consensus 294 ~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L 339 (384)
|.|+ .||+.|.+..+|..|+++|+ ++|+|..|++.|.+.+.|
T Consensus 6 y~C~--~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECP--ICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcc--hhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 4553 25555555555555555555 455555555555554443
No 15
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.52 E-value=1.2e-07 Score=99.32 Aligned_cols=100 Identities=18% Similarity=0.373 Sum_probs=81.5
Q ss_pred CCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCC------
Q psy17740 234 QPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSR------ 307 (384)
Q Consensus 234 qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~------ 307 (384)
.|+.|++.|. ...+..|...++ +++.| + ||+.+ ....|..|++.|...+++.|.+ |++.|..
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H-----kpv~C--p-Cg~~~-~R~~L~~H~~thCp~Kpi~C~f--C~~~v~~g~~~~d 522 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH-----EPLQC--P-CGVVL-EKEQMVQHQASTCPLRLITCRF--CGDMVQAGGSAMD 522 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC-----CCccC--C-CCCCc-chhHHHhhhhccCCCCceeCCC--CCCccccCccccc
Confidence 5788888885 566788877653 57899 4 99765 6689999999999999999987 9999952
Q ss_pred ----hHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhc
Q psy17740 308 ----SDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 308 ----~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~ 347 (384)
...|..|+..+ |.+++.|..||+.|..+ .|..|+-..|
T Consensus 523 ~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 523 VRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred hhhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHhh
Confidence 35899998886 89999999999999886 6777876533
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.49 E-value=5.6e-08 Score=70.97 Aligned_cols=40 Identities=20% Similarity=0.483 Sum_probs=25.1
Q ss_pred cccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchh
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLR 365 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~ 365 (384)
|.|++||+.|.+.++|..|+++|+ ++|+|..|++.|....
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s 45 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTG 45 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccc
Confidence 566666666666666666666665 4666666666655433
No 17
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.43 E-value=1.1e-07 Score=59.14 Aligned_cols=25 Identities=52% Similarity=1.035 Sum_probs=18.5
Q ss_pred HHHHHHhhhcCCCccccCccCcccC
Q psy17740 310 ELSRHKRTHTGEKKFGCSICNRRFM 334 (384)
Q Consensus 310 ~L~~H~r~Htgekpf~C~~C~k~F~ 334 (384)
+|.+|++.|+|++||.|++|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4677777777777777777777775
No 18
>KOG3993|consensus
Probab=98.08 E-value=7.5e-07 Score=88.73 Aligned_cols=82 Identities=27% Similarity=0.555 Sum_probs=61.4
Q ss_pred eeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcC----------------------
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTG---------------------- 320 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htg---------------------- 320 (384)
-|.|.. |...|.....|.+|....--..-|+| ++|+|.|.-..+|..|.|-|.-
T Consensus 267 dyiCqL--CK~kYeD~F~LAQHrC~RIV~vEYrC--PEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~ 342 (500)
T KOG3993|consen 267 DYICQL--CKEKYEDAFALAQHRCPRIVHVEYRC--PECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEV 342 (500)
T ss_pred HHHHHH--HHHhhhhHHHHhhccCCeeEEeeecC--CcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhh
Confidence 478876 88888888888888754433344888 6688888888888888887731
Q ss_pred -----------CCccccCccCcccCChHHHHHHHHHhcC
Q psy17740 321 -----------EKKFGCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 321 -----------ekpf~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
+.-|.|.+|+|.|.+...|+.|+.+|+.
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 1247888888888888888888777764
No 19
>PHA00616 hypothetical protein
Probab=98.05 E-value=1.9e-06 Score=60.04 Aligned_cols=33 Identities=18% Similarity=0.405 Sum_probs=21.8
Q ss_pred ccccCccCcccCChHHHHHHHHHhcCCCCCCCC
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSKDGAITPS 355 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~ 355 (384)
||+|..||+.|..++.|..|++.|||++++.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 466666666666666666666666666666553
No 20
>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=97.99 E-value=3.3e-06 Score=52.48 Aligned_cols=26 Identities=58% Similarity=1.310 Sum_probs=23.3
Q ss_pred hHHHHHHhhcCCCccccccCCCCCccCC
Q psy17740 280 HLKAHMRTHTGERPFLCQWTGCGRRFSR 307 (384)
Q Consensus 280 ~L~~H~r~H~~ekp~~C~~~~Cgk~F~~ 307 (384)
+|.+||++|+++++|.|+. |++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~--C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPY--CGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESS--SSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCC--CcCeeCc
Confidence 5899999999999999965 9999964
No 21
>KOG3993|consensus
Probab=97.80 E-value=4.6e-06 Score=83.21 Aligned_cols=82 Identities=17% Similarity=0.351 Sum_probs=69.4
Q ss_pred ccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhc-------------------------
Q psy17740 293 PFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHS------------------------- 347 (384)
Q Consensus 293 p~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~------------------------- 347 (384)
.|.|.+ |.-.|.....|.+|.-.-....-|+|++|+|.|.-..+|..|.|-|.
T Consensus 267 dyiCqL--CK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 267 DYICQL--CKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHH--HHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 399987 99999999999999664444456999999999999999999998763
Q ss_pred --------CCCCCCCCCCCCCccchhhHHHHHHHHhh
Q psy17740 348 --------KDGAITPSNIGTPSNVLRNANVAFNMMVT 376 (384)
Q Consensus 348 --------~e~~~~c~~Cg~~~~~~~~~~~hl~~~~~ 376 (384)
.+..|.|..|+|.|.+...|++|.-.|+.
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 12468999999999999999999666655
No 22
>PHA00732 hypothetical protein
Probab=97.74 E-value=2e-05 Score=62.26 Aligned_cols=38 Identities=32% Similarity=0.590 Sum_probs=18.4
Q ss_pred CCCccCChHHHHHHHhh-hcCCCccccCccCcccCChHHHHHHHH
Q psy17740 301 CGRRFSRSDELSRHKRT-HTGEKKFGCSICNRRFMRSDHLAKHVK 344 (384)
Q Consensus 301 Cgk~F~~~~~L~~H~r~-Htgekpf~C~~C~k~F~~~s~L~~H~r 344 (384)
|++.|.+...|.+|++. |.+ +.|+.|++.|. .|..|++
T Consensus 7 Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 7 CGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred CCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhc
Confidence 55555555555555542 332 34555555554 2444543
No 23
>PHA00732 hypothetical protein
Probab=97.70 E-value=2.8e-05 Score=61.48 Aligned_cols=44 Identities=23% Similarity=0.332 Sum_probs=37.3
Q ss_pred ccccCccCcccCChHHHHHHHHH-hcCCCCCCCCCCCCCccchhhHHHHHH
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKR-HSKDGAITPSNIGTPSNVLRNANVAFN 372 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~-H~~e~~~~c~~Cg~~~~~~~~~~~hl~ 372 (384)
||.|..|++.|.+...|..|++. |.+ +.|..||+.|. .++.|+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhc
Confidence 68999999999999999999985 553 57999999987 5677763
No 24
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.59 E-value=2.7e-05 Score=75.33 Aligned_cols=54 Identities=26% Similarity=0.733 Sum_probs=38.1
Q ss_pred CCccccccCCCCCccCChHHHHHHHhh-h------------------cCCCccccCccCcccCChHHHHHHHH
Q psy17740 291 ERPFLCQWTGCGRRFSRSDELSRHKRT-H------------------TGEKKFGCSICNRRFMRSDHLAKHVK 344 (384)
Q Consensus 291 ekp~~C~~~~Cgk~F~~~~~L~~H~r~-H------------------tgekpf~C~~C~k~F~~~s~L~~H~r 344 (384)
+|||+|++.+|.|.+.....|+.|+.- | ...|||+|++|+|+|+....|+.|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 466666666666666666666666542 2 12489999999999999999998865
No 25
>PHA00616 hypothetical protein
Probab=97.57 E-value=2.9e-05 Score=54.17 Aligned_cols=33 Identities=21% Similarity=0.462 Sum_probs=18.0
Q ss_pred cccccCCCCCccCChHHHHHHHhhhcCCCccccCc
Q psy17740 294 FLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSI 328 (384)
Q Consensus 294 ~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~ 328 (384)
|+|. .||+.|..+..|.+|++.|+|+++|.|+.
T Consensus 2 YqC~--~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 2 YQCL--RCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred Cccc--hhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5552 35555555555555555555555555543
No 26
>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=97.53 E-value=5.3e-05 Score=45.23 Aligned_cols=23 Identities=35% Similarity=0.996 Sum_probs=18.7
Q ss_pred cccCccCcccCChHHHHHHHHHh
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRH 346 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H 346 (384)
|.|+.|++.|.++..|.+|++.|
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 67888888888888888888775
No 27
>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=97.49 E-value=0.00016 Score=52.74 Aligned_cols=50 Identities=32% Similarity=0.750 Sum_probs=32.4
Q ss_pred cccccCCCCCccCChHHHHHHHh-hhcCC-CccccCccCcccCChHHHHHHHHHhcC
Q psy17740 294 FLCQWTGCGRRFSRSDELSRHKR-THTGE-KKFGCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 294 ~~C~~~~Cgk~F~~~~~L~~H~r-~Htge-kpf~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
|.|++ |++. .....|..|.. .|..+ +.+.|++|...+. .+|.+|+..+|+
T Consensus 3 f~CP~--C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPY--CGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred cCCCC--CCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 67766 7774 44567777744 45543 4577888877544 377778776653
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.22 E-value=0.00025 Score=42.06 Aligned_cols=24 Identities=33% Similarity=0.877 Sum_probs=17.6
Q ss_pred cccCccCcccCChHHHHHHHHHhc
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~ 347 (384)
|.|++|++.|.+...|..|+++|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 678888888888888888888764
No 29
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.85 E-value=0.00044 Score=42.85 Aligned_cols=26 Identities=27% Similarity=0.640 Sum_probs=20.5
Q ss_pred ccccCccCcccCChHHHHHHHHHhcC
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
+|.|..|++.|.....|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 57888888888888888888877653
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.83 E-value=0.00073 Score=54.25 Aligned_cols=73 Identities=21% Similarity=0.485 Sum_probs=21.9
Q ss_pred ecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHH
Q psy17740 265 ECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVK 344 (384)
Q Consensus 265 ~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r 344 (384)
+|.+ |+..|.....|..||...++...- ....+.....+..+.+.-. ...+.|..|++.|.....|..||+
T Consensus 1 ~C~~--C~~~f~~~~~l~~H~~~~H~~~~~------~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 1 QCLF--CDESFSSVDDLLQHMKKKHGFDIP------DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMR 71 (100)
T ss_dssp ---------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHH
T ss_pred Cccc--cccccccccccccccccccccccc------ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHc
Confidence 4755 999999999999999875543211 1122223344444443222 236999999999999999999999
Q ss_pred Hh
Q psy17740 345 RH 346 (384)
Q Consensus 345 ~H 346 (384)
.+
T Consensus 72 ~~ 73 (100)
T PF12756_consen 72 SK 73 (100)
T ss_dssp HT
T ss_pred Cc
Confidence 75
No 31
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.73 E-value=0.0021 Score=46.81 Aligned_cols=50 Identities=38% Similarity=0.786 Sum_probs=38.9
Q ss_pred eeecccCCCCCcccChhhHHHHHHh-hcCC-CccccccCCCCCccCChHHHHHHHhhhc
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMRT-HTGE-RPFLCQWTGCGRRFSRSDELSRHKRTHT 319 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r~-H~~e-kp~~C~~~~Cgk~F~~~~~L~~H~r~Ht 319 (384)
.|.|++ |++ ..+...|..|... |..+ +.+.|++ |...+. .+|.+|+..++
T Consensus 2 ~f~CP~--C~~-~~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPY--CGK-GFSESSLVEHCEDEHRSESKNVVCPI--CSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCC--CCC-ccCHHHHHHHHHhHCcCCCCCccCCC--chhhhh--hHHHHHHHHhc
Confidence 488977 999 5667899999876 6554 5699977 998655 49999988765
No 32
>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=96.50 E-value=0.002 Score=38.28 Aligned_cols=23 Identities=48% Similarity=1.008 Sum_probs=12.9
Q ss_pred eecccCCCCCcccChhhHHHHHHhh
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRTH 288 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~H 288 (384)
|.|. .|++.|.....|.+|++.|
T Consensus 1 y~C~--~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCP--ICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEET--TTTEEESSHHHHHHHHHHH
T ss_pred CCCC--CCCCccCCHHHHHHHHhHC
Confidence 4553 3666666666666666543
No 33
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.38 E-value=0.0034 Score=37.47 Aligned_cols=24 Identities=25% Similarity=0.731 Sum_probs=18.6
Q ss_pred cccCccCcccCChHHHHHHHHHhc
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~ 347 (384)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 568888888888888888887664
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.31 E-value=0.00077 Score=65.48 Aligned_cols=52 Identities=19% Similarity=0.368 Sum_probs=42.8
Q ss_pred CCccccCc--cCcccCChHHHHHHHHH-h------------------cCCCCCCCCCCCCCccchhhHHHHHH
Q psy17740 321 EKKFGCSI--CNRRFMRSDHLAKHVKR-H------------------SKDGAITPSNIGTPSNVLRNANVAFN 372 (384)
Q Consensus 321 ekpf~C~~--C~k~F~~~s~L~~H~r~-H------------------~~e~~~~c~~Cg~~~~~~~~~~~hl~ 372 (384)
+|||+|++ |.|.|.....|+.|+.- | ..+++|.|..|+|.++.+.-|+=|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 59999987 99999999999999864 3 12489999999999988777665543
No 35
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.11 E-value=0.0035 Score=45.00 Aligned_cols=33 Identities=21% Similarity=0.406 Sum_probs=21.8
Q ss_pred cCCCccccCccCcccCChHHHHHHHHHhcCCCC
Q psy17740 319 TGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGA 351 (384)
Q Consensus 319 tgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~ 351 (384)
..+.|-.|++|+..+.+..+|++|+.++|+.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 346778888888888888888888888877664
No 36
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.87 E-value=0.011 Score=58.71 Aligned_cols=113 Identities=28% Similarity=0.465 Sum_probs=69.0
Q ss_pred eeecccCCCCCcccChhhHHHHHH--hhcCC--CccccccCCCCCccCChHHHHHHHhhhcCCCccccCc----------
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMR--THTGE--RPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSI---------- 328 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r--~H~~e--kp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~---------- 328 (384)
.+.| ..|...|.....|.+|.+ .|.++ +++.|++..|++.|.+...+.+|...|++.+++.|..
T Consensus 289 ~~~~--~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 289 PIKS--KQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred CCCC--ccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccc
Confidence 4555 347777777777777777 67777 7777763347777777777777777776544333321
Q ss_pred ---------------------------cCcccCChHHHHHHHHHhcCCC--CCCCCCCCCCccchhhHHHHHHHHhhc
Q psy17740 329 ---------------------------CNRRFMRSDHLAKHVKRHSKDG--AITPSNIGTPSNVLRNANVAFNMMVTN 377 (384)
Q Consensus 329 ---------------------------C~k~F~~~s~L~~H~r~H~~e~--~~~c~~Cg~~~~~~~~~~~hl~~~~~~ 377 (384)
|...+.+...+..|...|.... .+.+..|.+.+....++..|...+..+
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 444 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNH 444 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccC
Confidence 3344444444555544444433 555666666666666666666665554
No 37
>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=95.72 E-value=0.0095 Score=35.02 Aligned_cols=18 Identities=56% Similarity=1.053 Sum_probs=9.6
Q ss_pred CCCcccChhhHHHHHHhh
Q psy17740 271 CGKNYFKSSHLKAHMRTH 288 (384)
Q Consensus 271 Cgk~F~~~s~L~~H~r~H 288 (384)
|++.|.....|..|++.|
T Consensus 6 C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 6 CGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp TS-EESSHHHHHHHHHHH
T ss_pred CCCcCCcHHHHHHHHHhh
Confidence 555555555555555544
No 38
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.48 E-value=0.011 Score=35.53 Aligned_cols=24 Identities=29% Similarity=0.688 Sum_probs=17.1
Q ss_pred cccCccCcccCChHHHHHHHHHhcC
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
|+|+.|+.... ...|.+|++.|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 67888887777 7788888887763
No 39
>PRK04860 hypothetical protein; Provisional
Probab=95.27 E-value=0.0095 Score=53.35 Aligned_cols=39 Identities=10% Similarity=0.232 Sum_probs=29.8
Q ss_pred ccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchh
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLR 365 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~ 365 (384)
+|.|. |++ ....+++|.++|+++++|.|..|+..+....
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 57887 876 5667788888888888888888888766543
No 40
>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=94.93 E-value=0.016 Score=35.73 Aligned_cols=24 Identities=46% Similarity=0.945 Sum_probs=13.7
Q ss_pred eecccCCCCCcccChhhHHHHHHhhc
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRTHT 289 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~H~ 289 (384)
|.|.. |++.|.....|..|++.|.
T Consensus 2 ~~C~~--C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDE--CGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETT--TTEEESSHHHHHHHHCTTT
T ss_pred CCCCc--cCCccCChhHHHHHhHHhc
Confidence 55533 6666666666666665553
No 41
>PRK04860 hypothetical protein; Provisional
Probab=94.75 E-value=0.019 Score=51.36 Aligned_cols=38 Identities=26% Similarity=0.693 Sum_probs=27.7
Q ss_pred ccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCCh
Q psy17740 293 PFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRS 336 (384)
Q Consensus 293 p~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~ 336 (384)
+|.| . |++ ....+.+|.++|+|+++|.|..|+..|...
T Consensus 119 ~Y~C--~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRC--K-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEc--C-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 4777 3 776 566777888888888888888888777543
No 42
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.41 E-value=0.019 Score=34.61 Aligned_cols=23 Identities=35% Similarity=0.872 Sum_probs=17.8
Q ss_pred cccCccCcccCChHHHHHHHHHh
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRH 346 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H 346 (384)
|.|..|++.|.....|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 56888888888888888887643
No 43
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.08 E-value=0.14 Score=50.79 Aligned_cols=128 Identities=24% Similarity=0.356 Sum_probs=93.7
Q ss_pred cCCCCCCCccccchhhhhccCCCCCCCCCC--ceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCC-------
Q psy17740 232 FAQPPRENKEIVTSNKIKKSNKPATNDPRR--RIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCG------- 302 (384)
Q Consensus 232 ~~qcp~c~k~~~t~~~lk~h~~~~~~~~~~--k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cg------- 302 (384)
...|..|...|.....+..|... ..+..+ +++.|.+..|++.|.+...+.+|...|.+..++.|.+..|.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~-~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRS-VNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred CCCCccccCCccccccccccccc-cccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 45788899999888888888874 233334 89999744699999999999999999988776666554333
Q ss_pred ----------------------------CccCChHHHHHHHhhhcCCC--ccccCccCcccCChHHHHHHHHHhcCCCCC
Q psy17740 303 ----------------------------RRFSRSDELSRHKRTHTGEK--KFGCSICNRRFMRSDHLAKHVKRHSKDGAI 352 (384)
Q Consensus 303 ----------------------------k~F~~~~~L~~H~r~Htgek--pf~C~~C~k~F~~~s~L~~H~r~H~~e~~~ 352 (384)
..+.+...+..|...|...+ .+.|..|.+.|.....+..|++.|.....+
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 34444444444444454444 466788999999999999999999887777
Q ss_pred CCCCCCCC
Q psy17740 353 TPSNIGTP 360 (384)
Q Consensus 353 ~c~~Cg~~ 360 (384)
.|..++.-
T Consensus 448 ~~~~~~~~ 455 (467)
T COG5048 448 LCSILKSF 455 (467)
T ss_pred eecccccc
Confidence 66555443
No 44
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.04 E-value=0.037 Score=54.65 Aligned_cols=78 Identities=31% Similarity=0.572 Sum_probs=39.1
Q ss_pred eecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCC---Ccc------CChHHHHHHHhhhcCCCcc----ccCccC
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCG---RRF------SRSDELSRHKRTHTGEKKF----GCSICN 330 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cg---k~F------~~~~~L~~H~r~Htgekpf----~C~~C~ 330 (384)
|.|....|..+......|+.|.+..++. +.|.. |- +.| .++..|..|......+.-| .|.+|.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~--C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~ 227 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSE--CIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCK 227 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHh--hhcCcccCccceeeeecccccccccCCccccCcCCCchhhhcc
Confidence 5666555666655566666666653332 33422 32 122 2334455554332222112 366666
Q ss_pred cccCChHHHHHHHHH
Q psy17740 331 RRFMRSDHLAKHVKR 345 (384)
Q Consensus 331 k~F~~~s~L~~H~r~ 345 (384)
..|...+.|..|+|.
T Consensus 228 ~~FYdDDEL~~HcR~ 242 (493)
T COG5236 228 IYFYDDDELRRHCRL 242 (493)
T ss_pred ceecChHHHHHHHHh
Confidence 666666666666664
No 45
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=93.94 E-value=0.026 Score=45.05 Aligned_cols=74 Identities=12% Similarity=0.227 Sum_probs=22.0
Q ss_pred ccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchhhHHHHHHHH
Q psy17740 295 LCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLRNANVAFNMM 374 (384)
Q Consensus 295 ~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~~~~~hl~~~ 374 (384)
+|.+ |+..|.....|..|+...++... . ....+.....+..+++.-. ...+.|..|++.|.....+..||..+
T Consensus 1 ~C~~--C~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLF--CDESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccc--ccccccccccccccccccccccc---c-ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 4866 99999999999999876554321 1 1122224444545544322 13689999999999999999999875
Q ss_pred h
Q psy17740 375 V 375 (384)
Q Consensus 375 ~ 375 (384)
.
T Consensus 74 ~ 74 (100)
T PF12756_consen 74 H 74 (100)
T ss_dssp T
T ss_pred c
Confidence 4
No 46
>KOG2231|consensus
Probab=93.45 E-value=0.1 Score=56.08 Aligned_cols=47 Identities=34% Similarity=0.701 Sum_probs=29.3
Q ss_pred ccccCCCCCccCChHHHHHHHhhhcCCCccccCccC------cccCChHHHHHHHHHhc
Q psy17740 295 LCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICN------RRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 295 ~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~------k~F~~~s~L~~H~r~H~ 347 (384)
.|.+ |...|.....|.+|++.++ |.|.+|. .-|.....|..|-+.+|
T Consensus 184 ~C~~--C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 184 LCKF--CHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cchh--hhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 4655 7777777777777776543 4555552 34555666777766554
No 47
>KOG2231|consensus
Probab=93.40 E-value=0.066 Score=57.57 Aligned_cols=98 Identities=22% Similarity=0.334 Sum_probs=54.3
Q ss_pred eecccCCCCCcccChhhHHHHHHh-hcCC---------CccccccCCCCCccCChHHHHHHHhhhc-CCCc----cccCc
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRT-HTGE---------RPFLCQWTGCGRRFSRSDELSRHKRTHT-GEKK----FGCSI 328 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~-H~~e---------kp~~C~~~~Cgk~F~~~~~L~~H~r~Ht-gekp----f~C~~ 328 (384)
..|.+ | ..|.....|+.|++. |-.. +-|.| +.+. .....|.+|++.-. +++- -.|.+
T Consensus 116 ~~~~~--c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~----e~k~-Yt~~el~~h~~~gd~d~~s~rGhp~C~~ 187 (669)
T KOG2231|consen 116 KECLH--C-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFIN----ERKL-YTRAELNLHLMFGDPDDESCRGHPLCKF 187 (669)
T ss_pred CCCcc--c-cchhHHHHHHHHHHHhhhhhccccccccceeeee----eeeh-ehHHHHHHHHhcCCCccccccCCccchh
Confidence 35644 7 677777788888753 4322 22322 3333 34566667755322 1221 34777
Q ss_pred cCcccCChHHHHHHHHHhcCCCCCCCCCCC------CCccchhhHHHHHHH
Q psy17740 329 CNRRFMRSDHLAKHVKRHSKDGAITPSNIG------TPSNVLRNANVAFNM 373 (384)
Q Consensus 329 C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg------~~~~~~~~~~~hl~~ 373 (384)
|...|.....|.+|++.+|. .|..|+ --|+...+|+.|+..
T Consensus 188 C~~~fld~~el~rH~~~~h~----~chfC~~~~~~neyy~~~~dLe~HfR~ 234 (669)
T KOG2231|consen 188 CHERFLDDDELYRHLRFDHE----FCHFCDYKTGQNEYYNDYDDLEEHFRK 234 (669)
T ss_pred hhhhhccHHHHHHhhcccee----heeecCcccccchhcccchHHHHHhhh
Confidence 88888888888888776543 344443 233344555555543
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=92.97 E-value=0.092 Score=30.96 Aligned_cols=18 Identities=44% Similarity=0.899 Sum_probs=9.9
Q ss_pred CCCccCChHHHHHHHhhh
Q psy17740 301 CGRRFSRSDELSRHKRTH 318 (384)
Q Consensus 301 Cgk~F~~~~~L~~H~r~H 318 (384)
|++.|.....|..|++.|
T Consensus 6 C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 6 CGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CcchhCCHHHHHHHHHHh
Confidence 555555555555555544
No 49
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=92.56 E-value=0.032 Score=34.57 Aligned_cols=22 Identities=32% Similarity=0.810 Sum_probs=16.6
Q ss_pred cccCccCcccCChHHHHHHHHH
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~ 345 (384)
|.|..|++.|.....|..|++.
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 6778888888888787777653
No 50
>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=92.43 E-value=0.19 Score=36.22 Aligned_cols=31 Identities=23% Similarity=0.478 Sum_probs=16.1
Q ss_pred CceeecccCCCCCcccChhhHHHHHHhhcCCCc
Q psy17740 261 RRIFECNYENCGKNYFKSSHLKAHMRTHTGERP 293 (384)
Q Consensus 261 ~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp 293 (384)
..+..|.. |+..+.+..+|++|+..+++.+|
T Consensus 22 ~~PatCP~--C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPI--CGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TT--T--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCc--chhhccchhhHHHHHHHHhcccC
Confidence 45666733 77777777777777766665543
No 51
>KOG4173|consensus
Probab=91.87 E-value=0.083 Score=48.74 Aligned_cols=83 Identities=27% Similarity=0.553 Sum_probs=65.7
Q ss_pred CCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhh-h---------cCCCccccC
Q psy17740 258 DPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRT-H---------TGEKKFGCS 327 (384)
Q Consensus 258 ~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~-H---------tgekpf~C~ 327 (384)
..+...|.|.+.+|.+.|....+...|..+-++ -.|.+ |.+.|.....|..|+.- | -|...|+|-
T Consensus 74 ~~~~~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~--C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~Cl 148 (253)
T KOG4173|consen 74 KPRVPAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSF--CKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCL 148 (253)
T ss_pred ccccccccccccchHHHHhhhhhHHHhhhhccc---chhHH--HHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHH
Confidence 344567899999999999988888888876444 37855 99999999999999753 3 245569994
Q ss_pred --ccCcccCChHHHHHHHHH
Q psy17740 328 --ICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 328 --~C~k~F~~~s~L~~H~r~ 345 (384)
.|+..|.+....++|+-.
T Consensus 149 vEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 149 VEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHhhhhhhhhhhhhhhHHHH
Confidence 599999999999999754
No 52
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.67 E-value=0.15 Score=31.22 Aligned_cols=21 Identities=48% Similarity=0.933 Sum_probs=15.0
Q ss_pred cccCccCcccCChHHHHHHHHH
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~ 345 (384)
..|+.||+.| ..+.|.+|++.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4688888888 55677777654
No 53
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=91.31 E-value=0.14 Score=30.81 Aligned_cols=22 Identities=32% Similarity=0.880 Sum_probs=13.3
Q ss_pred eecccCCCCCcccChhhHHHHHHh
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRT 287 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~ 287 (384)
|.|.+ |++.|.....|..|++.
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHTT
T ss_pred CCCCC--CCCCcCCHHHHHHHHCc
Confidence 45644 66666666666666654
No 54
>KOG4173|consensus
Probab=88.66 E-value=0.26 Score=45.52 Aligned_cols=81 Identities=23% Similarity=0.395 Sum_probs=63.4
Q ss_pred CccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHH----------hcCCCCCCC--CCCCC
Q psy17740 292 RPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKR----------HSKDGAITP--SNIGT 359 (384)
Q Consensus 292 kp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~----------H~~e~~~~c--~~Cg~ 359 (384)
..|.|.+.+|-..|...+++..|..+-+|. .|.+|.+.|.+...|..|+.- -.|..+|.| ..|+-
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 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 458899999999999999999886554433 799999999999999999753 235678888 57888
Q ss_pred CccchhhHHHHHHHHh
Q psy17740 360 PSNVLRNANVAFNMMV 375 (384)
Q Consensus 360 ~~~~~~~~~~hl~~~~ 375 (384)
.|+..+.=+.|+-.+.
T Consensus 155 KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhhHHHHhc
Confidence 8887777777765443
No 55
>KOG1146|consensus
Probab=87.79 E-value=1.2 Score=51.24 Aligned_cols=104 Identities=20% Similarity=0.377 Sum_probs=63.4
Q ss_pred ceeecccCCCCCcccChhhHHHHHHh-hcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHH
Q psy17740 262 RIFECNYENCGKNYFKSSHLKAHMRT-HTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLA 340 (384)
Q Consensus 262 k~f~C~~e~Cgk~F~~~s~L~~H~r~-H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~ 340 (384)
+.|.|.. |+..|+....|..|||. |....--.|.+ +...-.+.+-...-.+-++|.|..|...|....+|.
T Consensus 464 kt~~cpk--c~~~yk~a~~L~vhmRskhp~~~~~~c~~------gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Ls 535 (1406)
T KOG1146|consen 464 KTLKCPK--CNWHYKLAQTLGVHMRSKHPESQSAYCKA------GQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLS 535 (1406)
T ss_pred ccccCCc--cchhhhhHHHhhhcccccccccchhHhHh------ccccccccccccccCCCCcccceeeeeeeecchHHH
Confidence 6677744 88888888888888876 33322222322 111111111011112346888999999999988998
Q ss_pred HHHHH--hcCC-----------------------------------------CCCCCCCCCCCccchhhHHHHHHH
Q psy17740 341 KHVKR--HSKD-----------------------------------------GAITPSNIGTPSNVLRNANVAFNM 373 (384)
Q Consensus 341 ~H~r~--H~~e-----------------------------------------~~~~c~~Cg~~~~~~~~~~~hl~~ 373 (384)
+||.. |..+ -.+.|..|++-.+..++++.|+..
T Consensus 536 ihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmts 611 (1406)
T KOG1146|consen 536 IHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTA 611 (1406)
T ss_pred HHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhcccccccc
Confidence 88763 3211 134788888888888888888754
No 56
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=87.56 E-value=0.39 Score=28.61 Aligned_cols=17 Identities=35% Similarity=0.640 Sum_probs=7.6
Q ss_pred CCCccCChHHHHHHHhhh
Q psy17740 301 CGRRFSRSDELSRHKRTH 318 (384)
Q Consensus 301 Cgk~F~~~~~L~~H~r~H 318 (384)
|+.... ...|.+|++.|
T Consensus 6 C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 6 CSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp SS-EES-HHHHHHHHHHH
T ss_pred CCCcCC-HHHHHHHHHhh
Confidence 544444 44455554443
No 57
>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=87.15 E-value=0.41 Score=31.00 Aligned_cols=23 Identities=30% Similarity=0.625 Sum_probs=19.7
Q ss_pred ccccCccCcccCChHHHHHHHHH
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~ 345 (384)
+|.|..|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999988899999763
No 58
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=85.56 E-value=0.22 Score=30.69 Aligned_cols=22 Identities=36% Similarity=0.839 Sum_probs=12.8
Q ss_pred eecccCCCCCcccChhhHHHHHHh
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRT 287 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~ 287 (384)
|.|.. |++.|.....|..|+++
T Consensus 2 ~~C~~--C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDA--CDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTT--TTBBBSSHHHHHCCTTS
T ss_pred CCccc--CCCCcCCHHHHHHHHcc
Confidence 45533 66666666666666554
No 59
>KOG2893|consensus
Probab=83.94 E-value=0.32 Score=45.94 Aligned_cols=42 Identities=24% Similarity=0.557 Sum_probs=26.9
Q ss_pred CCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHH-Hhhh
Q psy17740 271 CGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRH-KRTH 318 (384)
Q Consensus 271 Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H-~r~H 318 (384)
|++.|-...-|.+|++..+ |+|.+ |.|...+--.|..| |.+|
T Consensus 16 cnrefddekiliqhqkakh----fkchi--chkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 16 CNREFDDEKILIQHQKAKH----FKCHI--CHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred cccccchhhhhhhhhhhcc----ceeee--ehhhhccCCCceeehhhhh
Confidence 7777777777777666533 67755 76666666666666 4455
No 60
>KOG2785|consensus
Probab=83.86 E-value=2.4 Score=42.77 Aligned_cols=53 Identities=11% Similarity=0.090 Sum_probs=41.4
Q ss_pred ccccCccCcccCChHHHHHHHHHhcCC-----------------------CCCCCCCCC---CCccchhhHHHHHHHHh
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSKD-----------------------GAITPSNIG---TPSNVLRNANVAFNMMV 375 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~e-----------------------~~~~c~~Cg---~~~~~~~~~~~hl~~~~ 375 (384)
|-.|-+|++.|..-..-..||..|||= .-|.|-.|. +.|..+...++||..-.
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K~ 244 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDKG 244 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhcc
Confidence 577999999999988888999988762 244566666 88888888888887543
No 61
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=79.70 E-value=3.5 Score=41.14 Aligned_cols=17 Identities=24% Similarity=0.659 Sum_probs=10.1
Q ss_pred CCCcccChhhHHHHHHh
Q psy17740 271 CGKNYFKSSHLKAHMRT 287 (384)
Q Consensus 271 Cgk~F~~~s~L~~H~r~ 287 (384)
|...|-....|.+|+|.
T Consensus 226 C~~~FYdDDEL~~HcR~ 242 (493)
T COG5236 226 CKIYFYDDDELRRHCRL 242 (493)
T ss_pred ccceecChHHHHHHHHh
Confidence 56556566666666654
No 62
>KOG2893|consensus
Probab=76.99 E-value=0.81 Score=43.31 Aligned_cols=49 Identities=31% Similarity=0.860 Sum_probs=35.3
Q ss_pred CCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHH-HHHh
Q psy17740 291 ERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKH-VKRH 346 (384)
Q Consensus 291 ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H-~r~H 346 (384)
.|+| |-+ |++.|....-|.+|++ .|-|+|.+|-|...+--.|..| |.+|
T Consensus 9 ~kpw-cwy--cnrefddekiliqhqk----akhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 9 DKPW-CWY--CNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred CCce-eee--cccccchhhhhhhhhh----hccceeeeehhhhccCCCceeehhhhh
Confidence 3444 655 8888988888888877 4568899998877766677666 4444
No 63
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=76.94 E-value=1.2 Score=32.79 Aligned_cols=31 Identities=26% Similarity=0.547 Sum_probs=22.7
Q ss_pred hcCCCccccCccCcccCChHHHHHHHHHhcC
Q psy17740 318 HTGEKKFGCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 318 Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
-.||--++|+.|+..|.....+.+|...-|+
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3466677888888888888888888765443
No 64
>KOG2482|consensus
Probab=74.28 E-value=3.3 Score=41.23 Aligned_cols=148 Identities=16% Similarity=0.180 Sum_probs=81.3
Q ss_pred CCccccCCCCCCCccccchhh-hhccCC-CCCCCCC------------------CceeecccCCCCCcccChhhHHHHHH
Q psy17740 227 PSFLFFAQPPRENKEIVTSNK-IKKSNK-PATNDPR------------------RRIFECNYENCGKNYFKSSHLKAHMR 286 (384)
Q Consensus 227 ps~~~~~qcp~c~k~~~t~~~-lk~h~~-~~~~~~~------------------~k~f~C~~e~Cgk~F~~~s~L~~H~r 286 (384)
.+..|..||-.|+..+..... ...|.- .|+-..+ -..+.|-+ |.+.|+.+..|+.|||
T Consensus 139 edt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLy--CekifrdkntLkeHMr 216 (423)
T KOG2482|consen 139 EDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLY--CEKIFRDKNTLKEHMR 216 (423)
T ss_pred cCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeee--eccccCCcHHHHHHHH
Confidence 445566688888887754432 222221 1111111 13478977 9999999999999998
Q ss_pred h--hcCCCc--------cccccCCCCCccC-ChHHHHHHHhhh-------------cCCCc--cccCccCcccCChHHHH
Q psy17740 287 T--HTGERP--------FLCQWTGCGRRFS-RSDELSRHKRTH-------------TGEKK--FGCSICNRRFMRSDHLA 340 (384)
Q Consensus 287 ~--H~~ekp--------~~C~~~~Cgk~F~-~~~~L~~H~r~H-------------tgekp--f~C~~C~k~F~~~s~L~ 340 (384)
. |..-.| |.=-+..-|++.. ....+.+-.-.- .+..+ ..|-+|....-+...|.
T Consensus 217 kK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~ 296 (423)
T KOG2482|consen 217 KKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLF 296 (423)
T ss_pred hccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHH
Confidence 5 443333 1111111222211 011110000000 01122 47888888777788888
Q ss_pred HHHHHhcC---------------------------CCCCCCCCCCCCccchhhHHHHHHHHhh
Q psy17740 341 KHVKRHSK---------------------------DGAITPSNIGTPSNVLRNANVAFNMMVT 376 (384)
Q Consensus 341 ~H~r~H~~---------------------------e~~~~c~~Cg~~~~~~~~~~~hl~~~~~ 376 (384)
.||++.|. .+.-.|..|...|+..-.+..|+..+..
T Consensus 297 eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k~ 359 (423)
T KOG2482|consen 297 EHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDKH 359 (423)
T ss_pred HHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccccc
Confidence 88875331 1223678888888888888888766554
No 65
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.61 E-value=4.9 Score=33.87 Aligned_cols=79 Identities=20% Similarity=0.410 Sum_probs=48.1
Q ss_pred eeecccCCCCCcccChhhHHHHHHhhcCCCc------------cccccCCCCCccCChHHHHHHHhhhcCCCccccCccC
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMRTHTGERP------------FLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICN 330 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp------------~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~ 330 (384)
+..|.+ ||-......+|.|....--..++ ..| -+|.+.|........ ..-.....|+|+.|.
T Consensus 15 P~~Cpi--CgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C--~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~ 88 (112)
T TIGR00622 15 PVECPI--CGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFC--FGCQGPFPKPPVSPF--DELKDSHRYVCAVCK 88 (112)
T ss_pred CCcCCc--CCCEEeccchHHHhhhccCCCcccccccccccCCCCcc--cCcCCCCCCcccccc--cccccccceeCCCCC
Confidence 456754 88888777777764211001111 237 568888875432110 001224568999999
Q ss_pred cccCChHHHHHHHHHhc
Q psy17740 331 RRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 331 k~F~~~s~L~~H~r~H~ 347 (384)
..|-.....-.|...|.
T Consensus 89 ~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 89 NVFCVDCDVFVHESLHC 105 (112)
T ss_pred CccccccchhhhhhccC
Confidence 99998888888887774
No 66
>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=71.95 E-value=2.1 Score=37.20 Aligned_cols=22 Identities=27% Similarity=0.715 Sum_probs=10.9
Q ss_pred cccCccCcccCChHHHHHHHHHhcC
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
..|-+||+.|.. |++|++.|||
T Consensus 73 i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-
T ss_pred eEEccCCcccch---HHHHHHHccC
Confidence 456666666654 4666666654
No 67
>KOG1146|consensus
Probab=70.97 E-value=1.7 Score=50.13 Aligned_cols=91 Identities=12% Similarity=0.193 Sum_probs=47.7
Q ss_pred CCCcccChhhHHHHHHh-hcCCCccccccCCCCCccCChHHHHHHHhh-hcCCCccccCccCcccCChHHHHHHHHH---
Q psy17740 271 CGKNYFKSSHLKAHMRT-HTGERPFLCQWTGCGRRFSRSDELSRHKRT-HTGEKKFGCSICNRRFMRSDHLAKHVKR--- 345 (384)
Q Consensus 271 Cgk~F~~~s~L~~H~r~-H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~-Htgekpf~C~~C~k~F~~~s~L~~H~r~--- 345 (384)
|+..+.+...+..|+.. |...+.|+|+. |+..|.....|..|||. |..-+. .+|. ..+.|.+.
T Consensus 442 ~e~~~~s~r~~~~~t~~L~S~~kt~~cpk--c~~~yk~a~~L~vhmRskhp~~~~---~~c~-------~gq~~~~~arg 509 (1406)
T KOG1146|consen 442 AEPLLESKRSLEGQTVVLHSFFKTLKCPK--CNWHYKLAQTLGVHMRSKHPESQS---AYCK-------AGQNHPRLARG 509 (1406)
T ss_pred hhhhhhhhcccccceeeeecccccccCCc--cchhhhhHHHhhhcccccccccch---hHhH-------hcccccccccc
Confidence 34444444444444442 44445566633 66666666666666664 221111 1121 11122111
Q ss_pred ---hcCCCCCCCCCCCCCccchhhHHHHHHH
Q psy17740 346 ---HSKDGAITPSNIGTPSNVLRNANVAFNM 373 (384)
Q Consensus 346 ---H~~e~~~~c~~Cg~~~~~~~~~~~hl~~ 373 (384)
-.+.++|.|..|...+....+|..||..
T Consensus 510 ~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 510 EVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 1234688899998888887888877764
No 68
>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=70.53 E-value=3.4 Score=26.53 Aligned_cols=23 Identities=22% Similarity=0.583 Sum_probs=15.8
Q ss_pred eeecccCCCCCcccChhhHHHHHHh
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMRT 287 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r~ 287 (384)
.|.|.+ |++.|.....+..|++.
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHCh
Confidence 466754 77777777777777654
No 69
>KOG2482|consensus
Probab=64.92 E-value=8.2 Score=38.55 Aligned_cols=52 Identities=21% Similarity=0.499 Sum_probs=34.8
Q ss_pred ceeecccCCCCCccc-ChhhHHHHHHh-hcC---------------------CCccccccCCCCCccCChHHHHHHHhh
Q psy17740 262 RIFECNYENCGKNYF-KSSHLKAHMRT-HTG---------------------ERPFLCQWTGCGRRFSRSDELSRHKRT 317 (384)
Q Consensus 262 k~f~C~~e~Cgk~F~-~~s~L~~H~r~-H~~---------------------ekp~~C~~~~Cgk~F~~~~~L~~H~r~ 317 (384)
...+|-+ |...+. ..+.+..|+-. |.- -..+.|-+ |.+.|..+..|+.|||.
T Consensus 143 fslqClF--Cn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLy--CekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 143 FSLQCLF--CNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLY--CEKIFRDKNTLKEHMRK 217 (423)
T ss_pred eeeEEEE--ecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeee--eccccCCcHHHHHHHHh
Confidence 3446766 876654 34556666643 321 11378977 99999999999999874
No 70
>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=64.83 E-value=4.5 Score=27.71 Aligned_cols=26 Identities=31% Similarity=0.635 Sum_probs=14.5
Q ss_pred CCCccccCccCcccCCh----HHHHHHHHH
Q psy17740 320 GEKKFGCSICNRRFMRS----DHLAKHVKR 345 (384)
Q Consensus 320 gekpf~C~~C~k~F~~~----s~L~~H~r~ 345 (384)
+....+|.+|++.|... ++|.+|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 34556788888777664 678888743
No 71
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=62.95 E-value=5.3 Score=28.31 Aligned_cols=21 Identities=29% Similarity=0.803 Sum_probs=14.1
Q ss_pred cccCccCcccCCh-----HHHHHHHH
Q psy17740 324 FGCSICNRRFMRS-----DHLAKHVK 344 (384)
Q Consensus 324 f~C~~C~k~F~~~-----s~L~~H~r 344 (384)
-.|.+|++.+... ++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4577777766554 47777777
No 72
>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=60.84 E-value=9.8 Score=33.88 Aligned_cols=35 Identities=20% Similarity=0.178 Sum_probs=18.1
Q ss_pred CccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchh
Q psy17740 322 KKFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLR 365 (384)
Q Consensus 322 kpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~ 365 (384)
.-|.|+.|+..|..-..+. ..|.|..||..-....
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLDYLD 142 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEeeecc
Confidence 3355655655555555543 2455666665544333
No 73
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=58.67 E-value=1.8 Score=40.56 Aligned_cols=10 Identities=10% Similarity=0.016 Sum_probs=7.3
Q ss_pred CCCCCCCCcc
Q psy17740 353 TPSNIGTPSN 362 (384)
Q Consensus 353 ~c~~Cg~~~~ 362 (384)
.|.+||..+-
T Consensus 50 vCP~CgyA~~ 59 (214)
T PF09986_consen 50 VCPHCGYAAF 59 (214)
T ss_pred ECCCCCCccc
Confidence 6888887654
No 74
>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=58.13 E-value=4.6 Score=26.77 Aligned_cols=10 Identities=20% Similarity=0.767 Sum_probs=5.1
Q ss_pred cccCccCccc
Q psy17740 324 FGCSICNRRF 333 (384)
Q Consensus 324 f~C~~C~k~F 333 (384)
+.|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4555555444
No 75
>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=57.83 E-value=6 Score=33.13 Aligned_cols=15 Identities=20% Similarity=0.521 Sum_probs=9.6
Q ss_pred CccccCccCcccCCh
Q psy17740 322 KKFGCSICNRRFMRS 336 (384)
Q Consensus 322 kpf~C~~C~k~F~~~ 336 (384)
.|..|++||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 566677777666554
No 76
>KOG2186|consensus
Probab=57.09 E-value=4.9 Score=38.47 Aligned_cols=55 Identities=31% Similarity=0.692 Sum_probs=36.2
Q ss_pred eeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCcc
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKF 324 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf 324 (384)
.|.|.. ||..... ..+.+|+..-++ .-|.| -+|++.|.+ .....|..--+....|
T Consensus 3 ~FtCnv--CgEsvKK-p~vekH~srCrn-~~fSC--IDC~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 3 FFTCNV--CGESVKK-PQVEKHMSRCRN-AYFSC--IDCGKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred EEehhh--hhhhccc-cchHHHHHhccC-CeeEE--eeccccccc-chhhhhhhhcchHHHh
Confidence 477855 8877654 456668876665 55888 568888887 6677776544433333
No 77
>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=56.95 E-value=6.6 Score=25.47 Aligned_cols=10 Identities=20% Similarity=0.853 Sum_probs=5.5
Q ss_pred CccccCccCc
Q psy17740 322 KKFGCSICNR 331 (384)
Q Consensus 322 kpf~C~~C~k 331 (384)
.++.|+.||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4556666653
No 78
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=55.20 E-value=11 Score=32.99 Aligned_cols=9 Identities=33% Similarity=1.040 Sum_probs=4.9
Q ss_pred cccCccCcc
Q psy17740 324 FGCSICNRR 332 (384)
Q Consensus 324 f~C~~C~k~ 332 (384)
|.|+.||..
T Consensus 124 f~Cp~Cg~~ 132 (147)
T smart00531 124 FTCPRCGEE 132 (147)
T ss_pred EECCCCCCE
Confidence 555555543
No 79
>KOG4124|consensus
Probab=55.14 E-value=2.1 Score=42.70 Aligned_cols=52 Identities=25% Similarity=0.692 Sum_probs=33.6
Q ss_pred CccccccCCCCCccCChHHHHHHHhh-h--------------c----CCCccccCccCcccCChHHHHHHH
Q psy17740 292 RPFLCQWTGCGRRFSRSDELSRHKRT-H--------------T----GEKKFGCSICNRRFMRSDHLAKHV 343 (384)
Q Consensus 292 kp~~C~~~~Cgk~F~~~~~L~~H~r~-H--------------t----gekpf~C~~C~k~F~~~s~L~~H~ 343 (384)
++|.|+++.|.+.+.....|+.|... | + ..|+|+|++|.++++....|..|.
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 45677666677766666666666322 2 1 147889999988887766665553
No 80
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=55.13 E-value=13 Score=33.74 Aligned_cols=30 Identities=20% Similarity=0.350 Sum_probs=14.6
Q ss_pred cccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCcc
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSN 362 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~ 362 (384)
|.|+.|++.|.....+. ..|.|..||..-.
T Consensus 118 Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 118 FFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred EECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 55555555555444431 2455555555433
No 81
>KOG2785|consensus
Probab=55.09 E-value=13 Score=37.70 Aligned_cols=74 Identities=19% Similarity=0.300 Sum_probs=46.9
Q ss_pred eeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccC---cccCChHHH
Q psy17740 263 IFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICN---RRFMRSDHL 339 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~---k~F~~~s~L 339 (384)
+-.|-+ |++.|.....-..||..|+|-. .=.. ........|..-+..-. ..-|.|-.|+ +.|.+-...
T Consensus 166 Pt~CLf--C~~~~k~~e~~~~HM~~~Hgff--IPdr----eYL~D~~GLl~YLgeKV-~~~~~CL~CN~~~~~f~sleav 236 (390)
T KOG2785|consen 166 PTDCLF--CDKKSKSLEENLKHMFKEHGFF--IPDR----EYLTDEKGLLKYLGEKV-GIGFICLFCNELGRPFSSLEAV 236 (390)
T ss_pred Ccceee--cCCCcccHHHHHHHHhhccCCc--CCch----HhhhchhHHHHHHHHHh-ccCceEEEeccccCcccccHHH
Confidence 456766 9999999999999999887641 1110 00112222333322211 2357888888 899999999
Q ss_pred HHHHHH
Q psy17740 340 AKHVKR 345 (384)
Q Consensus 340 ~~H~r~ 345 (384)
+.||..
T Consensus 237 r~HM~~ 242 (390)
T KOG2785|consen 237 RAHMRD 242 (390)
T ss_pred HHHHhh
Confidence 999874
No 82
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=53.51 E-value=5.8 Score=34.42 Aligned_cols=21 Identities=24% Similarity=0.433 Sum_probs=12.6
Q ss_pred ccCccCcccCChHHHHHHHHHhcC
Q psy17740 325 GCSICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 325 ~C~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
.|-+||+.|. .|++|+.+|++
T Consensus 78 icLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEeccCcchH---HHHHHHhcccC
Confidence 4666666664 36666666654
No 83
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=52.12 E-value=3.8 Score=36.47 Aligned_cols=13 Identities=31% Similarity=0.700 Sum_probs=7.2
Q ss_pred cccCccCcccCCh
Q psy17740 324 FGCSICNRRFMRS 336 (384)
Q Consensus 324 f~C~~C~k~F~~~ 336 (384)
++|+.||++|...
T Consensus 29 ~~c~~c~~~f~~~ 41 (154)
T PRK00464 29 RECLACGKRFTTF 41 (154)
T ss_pred eeccccCCcceEe
Confidence 5566666655543
No 84
>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=51.91 E-value=11 Score=31.59 Aligned_cols=30 Identities=20% Similarity=0.304 Sum_probs=23.6
Q ss_pred cccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccch
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVL 364 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~ 364 (384)
..|+.||++|.-. +..+..|..||..|...
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4899999999762 22678899999987755
No 85
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=51.59 E-value=34 Score=28.16 Aligned_cols=26 Identities=15% Similarity=0.385 Sum_probs=23.7
Q ss_pred cccc----CccCcccCChHHHHHHHHHhcC
Q psy17740 323 KFGC----SICNRRFMRSDHLAKHVKRHSK 348 (384)
Q Consensus 323 pf~C----~~C~k~F~~~s~L~~H~r~H~~ 348 (384)
-|.| ..|+..+.+...+++|.+.+||
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 4889 9999999999999999998875
No 86
>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=50.39 E-value=12 Score=30.83 Aligned_cols=27 Identities=22% Similarity=0.496 Sum_probs=15.8
Q ss_pred ccc--ccCCCCCccCChHHHHHHHhhhcC
Q psy17740 294 FLC--QWTGCGRRFSRSDELSRHKRTHTG 320 (384)
Q Consensus 294 ~~C--~~~~Cgk~F~~~~~L~~H~r~Htg 320 (384)
|.| ....|+..+.+...+.+|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 566 222366666666666666665543
No 87
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=50.11 E-value=9.2 Score=26.69 Aligned_cols=8 Identities=25% Similarity=0.746 Sum_probs=4.1
Q ss_pred ccccCccC
Q psy17740 323 KFGCSICN 330 (384)
Q Consensus 323 pf~C~~C~ 330 (384)
+.+|+.||
T Consensus 19 ~irC~~CG 26 (44)
T smart00659 19 VVRCRECG 26 (44)
T ss_pred ceECCCCC
Confidence 34555555
No 88
>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=45.64 E-value=6.3 Score=27.95 Aligned_cols=11 Identities=36% Similarity=1.165 Sum_probs=5.6
Q ss_pred cccCccCcccC
Q psy17740 324 FGCSICNRRFM 334 (384)
Q Consensus 324 f~C~~C~k~F~ 334 (384)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 45555555444
No 89
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=44.92 E-value=4.8 Score=37.63 Aligned_cols=13 Identities=15% Similarity=0.498 Sum_probs=9.4
Q ss_pred cccCccCcccCCh
Q psy17740 324 FGCSICNRRFMRS 336 (384)
Q Consensus 324 f~C~~C~k~F~~~ 336 (384)
..|+.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 3599998877654
No 90
>KOG4167|consensus
Probab=44.74 E-value=5.3 Score=43.48 Aligned_cols=25 Identities=28% Similarity=0.638 Sum_probs=23.2
Q ss_pred ccccCccCcccCChHHHHHHHHHhc
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~ 347 (384)
-|.|.+|+|.|..-..+..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 5999999999999999999999996
No 91
>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=43.90 E-value=6.7 Score=26.14 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=5.3
Q ss_pred cccCccCcccC
Q psy17740 324 FGCSICNRRFM 334 (384)
Q Consensus 324 f~C~~C~k~F~ 334 (384)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44555555443
No 92
>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=43.78 E-value=11 Score=35.53 Aligned_cols=24 Identities=25% Similarity=0.715 Sum_probs=12.4
Q ss_pred CccccCccCcccCChHHHHHHHHH
Q psy17740 322 KKFGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 322 kpf~C~~C~k~F~~~s~L~~H~r~ 345 (384)
..|.|..|+|.|.-....+.|+..
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHH
T ss_pred CEECCCCCCcccCChHHHHHHHhh
Confidence 345566666666655555555554
No 93
>KOG2461|consensus
Probab=43.24 E-value=1.3e+02 Score=30.93 Aligned_cols=84 Identities=8% Similarity=-0.173 Sum_probs=50.4
Q ss_pred cccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCCCCCC
Q psy17740 274 NYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAIT 353 (384)
Q Consensus 274 ~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~ 353 (384)
.+.....+..|...|++..+..+++ +.+.+.....+..|...|.++.++.+..+...+.....+..++.+|+....+.
T Consensus 312 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 389 (396)
T KOG2461|consen 312 SLPKQLVLDQSEVPATVSVWTGETI--PVRTPAGQLIYTQSHSMEVAEPTDMAPNQIWKIYHTGVLGFLIITTDESECNN 389 (396)
T ss_pred ccccccccccccccccccccCcCcc--cccccccccchhhhhhcccCCCCcccccccccceeccccceeeeecccccccc
Confidence 3333444555666666666666644 66666666666777777777766666655555555555555666666666666
Q ss_pred CCCCCC
Q psy17740 354 PSNIGT 359 (384)
Q Consensus 354 c~~Cg~ 359 (384)
+..|++
T Consensus 390 ~~~~~~ 395 (396)
T KOG2461|consen 390 MSFVCK 395 (396)
T ss_pred ccccCC
Confidence 655543
No 94
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=43.12 E-value=10 Score=27.45 Aligned_cols=19 Identities=21% Similarity=0.420 Sum_probs=7.8
Q ss_pred HHHHHHhhhcCCCccccCc
Q psy17740 310 ELSRHKRTHTGEKKFGCSI 328 (384)
Q Consensus 310 ~L~~H~r~Htgekpf~C~~ 328 (384)
.|..|....-..++..|.+
T Consensus 25 ~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 25 ELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHccCCCCcEECCC
Confidence 4444444333334444444
No 95
>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=42.21 E-value=23 Score=31.53 Aligned_cols=34 Identities=24% Similarity=0.564 Sum_probs=25.7
Q ss_pred cCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCccc
Q psy17740 289 TGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRF 333 (384)
Q Consensus 289 ~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F 333 (384)
....-|.| +.|+..|.....+. .-|.|+.||...
T Consensus 105 ~~~~~Y~C--p~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFIC--PNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred cCCCeEEC--CCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 34566899 45999998888874 269999999653
No 96
>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=41.72 E-value=23 Score=21.81 Aligned_cols=19 Identities=21% Similarity=0.669 Sum_probs=12.4
Q ss_pred ccCccCcccCChHHHHHHHH
Q psy17740 325 GCSICNRRFMRSDHLAKHVK 344 (384)
Q Consensus 325 ~C~~C~k~F~~~s~L~~H~r 344 (384)
.|+.|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 577777776 4456666664
No 97
>KOG2593|consensus
Probab=40.23 E-value=22 Score=36.66 Aligned_cols=34 Identities=18% Similarity=0.453 Sum_probs=15.5
Q ss_pred ccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCC
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGT 359 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~ 359 (384)
-|.|+.|++.|.....++ -.--....|.|..|+.
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGG 161 (436)
T ss_pred cccCCccccchhhhHHHH---hhcccCceEEEecCCC
Confidence 455555555555443332 1111234555555554
No 98
>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=39.97 E-value=18 Score=31.15 Aligned_cols=33 Identities=18% Similarity=0.382 Sum_probs=19.2
Q ss_pred cccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHH
Q psy17740 294 FLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHL 339 (384)
Q Consensus 294 ~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L 339 (384)
..| +.||+.|.- | +..|..|++||..|.....+
T Consensus 10 r~C--p~cg~kFYD---L--------nk~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 10 RIC--PNTGSKFYD---L--------NRRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred ccC--CCcCccccc---c--------CCCCccCCCcCCccCcchhh
Confidence 467 447777743 2 23566777777776554333
No 99
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=39.59 E-value=26 Score=30.66 Aligned_cols=43 Identities=16% Similarity=0.261 Sum_probs=25.4
Q ss_pred CCCccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccchhh
Q psy17740 320 GEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNVLRN 366 (384)
Q Consensus 320 gekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~~~~ 366 (384)
...-|.|+.|+..|.....+.. .+ .++.|.|..||.......+
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEELEEDDN 138 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEEEEcCc
Confidence 3445778888877775443321 01 2445888888886554433
No 100
>COG2167 RPL39 Ribosomal protein L39E [Translation, ribosomal structure and biogenesis]
Probab=38.40 E-value=22 Score=25.55 Aligned_cols=20 Identities=30% Similarity=0.396 Sum_probs=17.5
Q ss_pred CccceEEEEEecCCCcccCC
Q psy17740 16 TSIPVSVIMKVNKDGTCIPD 35 (384)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~ 35 (384)
.-||+-|+||.|+++.+.|+
T Consensus 21 rrvP~Wv~~kT~~~v~~npk 40 (51)
T COG2167 21 RRVPVWVRVKTNRRVRYNPK 40 (51)
T ss_pred CCCCeEEEEecCCccccChh
Confidence 45889999999999998875
No 101
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.25 E-value=30 Score=29.16 Aligned_cols=81 Identities=19% Similarity=0.138 Sum_probs=53.4
Q ss_pred CCccccccCCCCCccCChHHHHHHHhhhcCCCcc------------ccCccCcccCChHHHHHHHHHhcCCCCCCCCCCC
Q psy17740 291 ERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKF------------GCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIG 358 (384)
Q Consensus 291 ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf------------~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg 358 (384)
+-|..|++ ||-......+|.|...-----++| .|--|++.|........ ..-.....|.|..|.
T Consensus 13 ~LP~~Cpi--CgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~ 88 (112)
T TIGR00622 13 ELPVECPI--CGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCK 88 (112)
T ss_pred CCCCcCCc--CCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCC
Confidence 45678966 999988888887753210011112 38899999986532110 002334689999999
Q ss_pred CCccchhhHHHHHHHHh
Q psy17740 359 TPSNVLRNANVAFNMMV 375 (384)
Q Consensus 359 ~~~~~~~~~~~hl~~~~ 375 (384)
+.|-.-.+...|-..|+
T Consensus 89 ~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 89 NVFCVDCDVFVHESLHC 105 (112)
T ss_pred CccccccchhhhhhccC
Confidence 99998888888876654
No 102
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=37.86 E-value=16 Score=26.26 Aligned_cols=8 Identities=25% Similarity=0.916 Sum_probs=4.3
Q ss_pred ccccCccC
Q psy17740 323 KFGCSICN 330 (384)
Q Consensus 323 pf~C~~C~ 330 (384)
...|+.||
T Consensus 24 ~irCp~Cg 31 (49)
T COG1996 24 GIRCPYCG 31 (49)
T ss_pred ceeCCCCC
Confidence 34555555
No 103
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=36.62 E-value=8.8 Score=26.68 Aligned_cols=10 Identities=30% Similarity=0.800 Sum_probs=5.2
Q ss_pred ccccCccCcc
Q psy17740 323 KFGCSICNRR 332 (384)
Q Consensus 323 pf~C~~C~k~ 332 (384)
.+.|+.||..
T Consensus 21 ~~~Cp~CG~~ 30 (46)
T PRK00398 21 GVRCPYCGYR 30 (46)
T ss_pred ceECCCCCCe
Confidence 3455555543
No 104
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=34.31 E-value=11 Score=29.23 Aligned_cols=17 Identities=24% Similarity=0.587 Sum_probs=10.9
Q ss_pred CCCccccC--ccCcccCCh
Q psy17740 320 GEKKFGCS--ICNRRFMRS 336 (384)
Q Consensus 320 gekpf~C~--~C~k~F~~~ 336 (384)
.++-++|. .||.+|...
T Consensus 24 ~~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 24 KERYHQCQNVNCSATFITY 42 (72)
T ss_pred heeeeecCCCCCCCEEEEE
Confidence 35556776 677777654
No 105
>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=34.13 E-value=12 Score=25.63 Aligned_cols=12 Identities=25% Similarity=0.805 Sum_probs=5.7
Q ss_pred cccCccCcccCC
Q psy17740 324 FGCSICNRRFMR 335 (384)
Q Consensus 324 f~C~~C~k~F~~ 335 (384)
|+|..||..|-.
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 445555544433
No 106
>KOG0696|consensus
Probab=33.92 E-value=21 Score=37.03 Aligned_cols=60 Identities=27% Similarity=0.471 Sum_probs=45.2
Q ss_pred CCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCChHHHHHH-HhhhcCCCccccCccCc
Q psy17740 259 PRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSRSDELSRH-KRTHTGEKKFGCSICNR 331 (384)
Q Consensus 259 ~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~~~~L~~H-~r~Htgekpf~C~~C~k 331 (384)
.++.-|+|.. |. +..|.|.|.- ..|.| ++-++.+...+.-..| .+.|+-..|--|.+||.
T Consensus 69 fgKQGfQCqv--C~--------fvvHkrChef-VtF~C--PGadkg~dtDdpr~kHkf~~~tYssPTFCDhCGs 129 (683)
T KOG0696|consen 69 FGKQGFQCQV--CC--------FVVHKRCHEF-VTFSC--PGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCGS 129 (683)
T ss_pred cccCceeeeE--Ee--------ehhhhhhcce-EEEEC--CCCCCCCCCCCcccccceeeeecCCCchhhhHHH
Confidence 4456688865 75 4568888753 34889 6788999888888888 56788778888999974
No 107
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=33.72 E-value=26 Score=31.66 Aligned_cols=23 Identities=35% Similarity=0.840 Sum_probs=15.6
Q ss_pred ccccccCCCCCccCChHHHHHHHhhhcCCCccccCccC
Q psy17740 293 PFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICN 330 (384)
Q Consensus 293 p~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~ 330 (384)
-|.|++ ||..+ .|+-|-+|++||
T Consensus 134 ~~vC~v--CGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPV--CGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCC--CCCcc-------------cCCCCCcCCCCC
Confidence 478865 87543 356677888887
No 108
>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=33.63 E-value=24 Score=23.07 Aligned_cols=8 Identities=38% Similarity=0.924 Sum_probs=4.1
Q ss_pred ccccCccC
Q psy17740 323 KFGCSICN 330 (384)
Q Consensus 323 pf~C~~C~ 330 (384)
|..|+.||
T Consensus 18 p~~CP~Cg 25 (34)
T cd00729 18 PEKCPICG 25 (34)
T ss_pred CCcCcCCC
Confidence 34555554
No 109
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=33.62 E-value=33 Score=31.15 Aligned_cols=32 Identities=25% Similarity=0.681 Sum_probs=21.9
Q ss_pred CCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCccc
Q psy17740 291 ERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRF 333 (384)
Q Consensus 291 ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F 333 (384)
..-|.|+ .|+..|.....+. .-|.|+.||...
T Consensus 115 ~~~Y~Cp--~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCP--NCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCEEECC--CCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 3458884 4888887776652 358888888654
No 110
>KOG4377|consensus
Probab=32.94 E-value=12 Score=38.15 Aligned_cols=109 Identities=23% Similarity=0.422 Sum_probs=58.7
Q ss_pred CCCCccccchhhhhccCCCCCCCCC---------CceeecccCCCCCcccChhhHHHHHHhhcCC-------CccccccC
Q psy17740 236 PRENKEIVTSNKIKKSNKPATNDPR---------RRIFECNYENCGKNYFKSSHLKAHMRTHTGE-------RPFLCQWT 299 (384)
Q Consensus 236 p~c~k~~~t~~~lk~h~~~~~~~~~---------~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~e-------kp~~C~~~ 299 (384)
+.|...+.....+.+|...+..... ...|-|...+|.+ +.++...|...|+.. .-|.|...
T Consensus 277 e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~GfrrthfhC~r~ 353 (480)
T KOG4377|consen 277 EYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTHFHCQRI 353 (480)
T ss_pred ccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceecceeEEecc
Confidence 4566666665555555444332111 1236787788887 456666676666422 12667664
Q ss_pred CCCCccCChHHHHHHHhhhcCC----C--------------------ccccCc--cCcccCChHHHHHHHHHhc
Q psy17740 300 GCGRRFSRSDELSRHKRTHTGE----K--------------------KFGCSI--CNRRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 300 ~Cgk~F~~~~~L~~H~r~Htge----k--------------------pf~C~~--C~k~F~~~s~L~~H~r~H~ 347 (384)
+|-..|.-..+-..|.+-+.++ + -|.|.. |+..|..-+.+..|.+.|.
T Consensus 354 gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 354 GCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRKHE 427 (480)
T ss_pred CCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhhhhh
Confidence 5556666433333333333221 1 122322 6777777777777777664
No 111
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=32.75 E-value=25 Score=25.99 Aligned_cols=26 Identities=15% Similarity=0.503 Sum_probs=16.4
Q ss_pred CCceeecccCCCCCcccChhhHHHHHHh
Q psy17740 260 RRRIFECNYENCGKNYFKSSHLKAHMRT 287 (384)
Q Consensus 260 ~~k~f~C~~e~Cgk~F~~~s~L~~H~r~ 287 (384)
++..+.| +-||..|....++.+|...
T Consensus 14 GE~~lrC--PRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRC--PRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeC--CchhHHHHHhHHHHHHhhH
Confidence 3445667 3377777777777777654
No 112
>KOG2186|consensus
Probab=32.61 E-value=26 Score=33.63 Aligned_cols=54 Identities=22% Similarity=0.495 Sum_probs=27.3
Q ss_pred cccccCCCCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCCCCC
Q psy17740 294 FLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAI 352 (384)
Q Consensus 294 ~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~ 352 (384)
|.|.+ ||-... +..+.+|+...++ .-|.|-.|++.|.+ ..+..|.+--+....|
T Consensus 4 FtCnv--CgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 4 FTCNV--CGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred Eehhh--hhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcchHHHh
Confidence 45533 655544 2334455555444 44566666666655 4555555544443333
No 113
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=32.17 E-value=38 Score=22.43 Aligned_cols=11 Identities=45% Similarity=0.951 Sum_probs=5.5
Q ss_pred ccccCccCccc
Q psy17740 323 KFGCSICNRRF 333 (384)
Q Consensus 323 pf~C~~C~k~F 333 (384)
..+|..|+..|
T Consensus 25 ~v~C~~C~~~f 35 (36)
T PF13717_consen 25 KVRCSKCGHVF 35 (36)
T ss_pred EEECCCCCCEe
Confidence 34555555444
No 114
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=31.81 E-value=30 Score=31.27 Aligned_cols=28 Identities=18% Similarity=0.440 Sum_probs=22.6
Q ss_pred ccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCCccc
Q psy17740 323 KFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTPSNV 363 (384)
Q Consensus 323 pf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~~~~ 363 (384)
-|.|++||.. |-|+-+-.|..||-+...
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCga~k~~ 161 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICGAPKEK 161 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCCChHHH
Confidence 5999999964 667889999999987443
No 115
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=31.75 E-value=25 Score=30.57 Aligned_cols=55 Identities=24% Similarity=0.574 Sum_probs=34.9
Q ss_pred ceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCcc--CChHHHHHHHhhhcCCCccccCccCcccCChH
Q psy17740 262 RIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRF--SRSDELSRHKRTHTGEKKFGCSICNRRFMRSD 337 (384)
Q Consensus 262 k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F--~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s 337 (384)
+.|+|++ |..+...... -||-.| ||..- .--.+|..|-..|. +|+.|.-+|.+.+
T Consensus 79 ~lYeCnI--C~etS~ee~F----------LKPneC----CgY~iCn~Cya~LWK~~~~yp-----vCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNI--CKETSAEERF----------LKPNEC----CGYSICNACYANLWKFCNLYP-----VCPVCKTSFKSSS 135 (140)
T ss_pred CceeccC--cccccchhhc----------CCcccc----cchHHHHHHHHHHHHHcccCC-----CCCcccccccccc
Confidence 7889976 8776543222 345667 77542 22356666655553 7999998888754
No 116
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=31.66 E-value=35 Score=22.64 Aligned_cols=11 Identities=36% Similarity=0.896 Sum_probs=5.1
Q ss_pred ccccCccCccc
Q psy17740 323 KFGCSICNRRF 333 (384)
Q Consensus 323 pf~C~~C~k~F 333 (384)
..+|+.|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 34455554444
No 117
>PF15269 zf-C2H2_7: Zinc-finger
Probab=30.87 E-value=34 Score=24.18 Aligned_cols=22 Identities=27% Similarity=0.508 Sum_probs=16.5
Q ss_pred cccCccCcccCChHHHHHHHHH
Q psy17740 324 FGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 324 f~C~~C~k~F~~~s~L~~H~r~ 345 (384)
|+|-+|.....-++.|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6677777777777888888763
No 118
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.86 E-value=36 Score=37.71 Aligned_cols=52 Identities=19% Similarity=0.432 Sum_probs=0.0
Q ss_pred CccccCCCCCCCccccchhhhhccCCCCCCCCCCceeecccCCCCCcccChhhHHHHHHhhcCCCccccccCCCCCccCC
Q psy17740 228 SFLFFAQPPRENKEIVTSNKIKKSNKPATNDPRRRIFECNYENCGKNYFKSSHLKAHMRTHTGERPFLCQWTGCGRRFSR 307 (384)
Q Consensus 228 s~~~~~qcp~c~k~~~t~~~lk~h~~~~~~~~~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp~~C~~~~Cgk~F~~ 307 (384)
.+..+..|..|+. .+.|.. |+-.+ ..|.......|.| ||
T Consensus 431 Gys~~l~C~~Cg~----------------------v~~Cp~--Cd~~l----------t~H~~~~~L~CH~--Cg----- 469 (730)
T COG1198 431 GYAPLLLCRDCGY----------------------IAECPN--CDSPL----------TLHKATGQLRCHY--CG----- 469 (730)
T ss_pred CccceeecccCCC----------------------cccCCC--CCcce----------EEecCCCeeEeCC--CC-----
Q ss_pred hHHHHHHHhhhcCCCccccCccC
Q psy17740 308 SDELSRHKRTHTGEKKFGCSICN 330 (384)
Q Consensus 308 ~~~L~~H~r~Htgekpf~C~~C~ 330 (384)
|....|+.|+.||
T Consensus 470 ----------~~~~~p~~Cp~Cg 482 (730)
T COG1198 470 ----------YQEPIPQSCPECG 482 (730)
T ss_pred ----------CCCCCCCCCCCCC
No 119
>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=30.29 E-value=36 Score=29.52 Aligned_cols=27 Identities=44% Similarity=0.864 Sum_probs=16.2
Q ss_pred ceeecccCCCCCcccChhhHHHHHHhhcCCCc
Q psy17740 262 RIFECNYENCGKNYFKSSHLKAHMRTHTGERP 293 (384)
Q Consensus 262 k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp 293 (384)
....| -+||+.|+ .|++|++.|+|..+
T Consensus 71 d~i~c--lecGk~~k---~LkrHL~~~~gltp 97 (132)
T PF05443_consen 71 DYIIC--LECGKKFK---TLKRHLRTHHGLTP 97 (132)
T ss_dssp S-EE---TBT--EES---BHHHHHHHTT-S-H
T ss_pred CeeEE--ccCCcccc---hHHHHHHHccCCCH
Confidence 45678 45999996 46999999988655
No 120
>COG3885 Uncharacterized conserved protein [Function unknown]
Probab=28.43 E-value=38 Score=32.22 Aligned_cols=70 Identities=21% Similarity=0.137 Sum_probs=55.1
Q ss_pred cceEEEEEecCCCcccCCCC-CcCccC-------cccccccchhhhcccchhh----hhhhccCcchhHHHHHHHhhhhh
Q psy17740 18 IPVSVIMKVNKDGTCIPDPF-GIREMK-------PKQIKDISLKKMLNVQDMR----KKCVQMNNEETSYNILKSLKYKM 85 (384)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~~-~~~~~~-------~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~ 85 (384)
-+|++|+-|+---|.+++-= |-..+- -+.+|+.+.+-+.+.++++ |+|-+||.+-- .-||+.-++||
T Consensus 162 ~ki~lIiSaD~aHth~edGPYGYs~~se~yDk~iv~~lks~n~e~l~~iD~~~I~~Akpdsy~slli~-lgiLe~~~~K~ 240 (261)
T COG3885 162 RKISLIISADHAHTHDEDGPYGYSEESEEYDKIIVDSLKSGNFEALLSIDDEVIAEAKPDSYWSLLIL-LGILEESPRKM 240 (261)
T ss_pred cceEEEEecccccccCCCCCCCCChhHHHHHHHHHHHhcccCHHHHHhccHHHHHhcCCchHHHHHHH-HHHHhcccccc
Confidence 36899999998888888754 665443 4667888889999988776 88899996654 88999999999
Q ss_pred ccc
Q psy17740 86 SDR 88 (384)
Q Consensus 86 ~~~ 88 (384)
++.
T Consensus 241 ~~~ 243 (261)
T COG3885 241 SLV 243 (261)
T ss_pred eEE
Confidence 864
No 121
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=27.29 E-value=36 Score=25.42 Aligned_cols=9 Identities=22% Similarity=0.962 Sum_probs=4.8
Q ss_pred CccccCccC
Q psy17740 322 KKFGCSICN 330 (384)
Q Consensus 322 kpf~C~~C~ 330 (384)
.+|+|+.||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 345555555
No 122
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.94 E-value=35 Score=28.72 Aligned_cols=15 Identities=7% Similarity=0.171 Sum_probs=9.6
Q ss_pred CCccccCccCcccCC
Q psy17740 321 EKKFGCSICNRRFMR 335 (384)
Q Consensus 321 ekpf~C~~C~k~F~~ 335 (384)
..|..|++||++|.+
T Consensus 24 rdPiVsPytG~s~P~ 38 (129)
T COG4530 24 RDPIVSPYTGKSYPR 38 (129)
T ss_pred CCccccCcccccchH
Confidence 356677777777743
No 123
>KOG0782|consensus
Probab=26.46 E-value=14 Score=39.27 Aligned_cols=54 Identities=22% Similarity=0.314 Sum_probs=23.9
Q ss_pred HHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCC-CCCCCCCCCCCccchhhHHH
Q psy17740 310 ELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKD-GAITPSNIGTPSNVLRNANV 369 (384)
Q Consensus 310 ~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e-~~~~c~~Cg~~~~~~~~~~~ 369 (384)
.|.+|.-.|....-=+|..|||.|-.+..+ |..+ -...|++|...|.....+.+
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~KvtCFm 294 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLKVTCFM 294 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhheee------ccccEEEEEehHHHHHhhcchhhhh
Confidence 444444333322223566666655544333 2222 34455555555544444433
No 124
>KOG3408|consensus
Probab=25.63 E-value=37 Score=29.02 Aligned_cols=25 Identities=32% Similarity=0.620 Sum_probs=19.9
Q ss_pred CCccccCccCcccCChHHHHHHHHH
Q psy17740 321 EKKFGCSICNRRFMRSDHLAKHVKR 345 (384)
Q Consensus 321 ekpf~C~~C~k~F~~~s~L~~H~r~ 345 (384)
-..|.|-+|.+-|.....|..|.++
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 3458888888888888888888764
No 125
>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=25.31 E-value=55 Score=21.28 Aligned_cols=9 Identities=22% Similarity=0.781 Sum_probs=4.2
Q ss_pred ccccCccCc
Q psy17740 323 KFGCSICNR 331 (384)
Q Consensus 323 pf~C~~C~k 331 (384)
+.+|+.||.
T Consensus 17 ~irC~~CG~ 25 (32)
T PF03604_consen 17 PIRCPECGH 25 (32)
T ss_dssp TSSBSSSS-
T ss_pred cEECCcCCC
Confidence 345555553
No 126
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=24.89 E-value=49 Score=28.87 Aligned_cols=25 Identities=40% Similarity=0.711 Sum_probs=20.5
Q ss_pred eecccCCCCCcccChhhHHHHHHhhcCCCc
Q psy17740 264 FECNYENCGKNYFKSSHLKAHMRTHTGERP 293 (384)
Q Consensus 264 f~C~~e~Cgk~F~~~s~L~~H~r~H~~ekp 293 (384)
..| -+||+.| ..|++|+.+|.+-.|
T Consensus 77 Iic--LEDGkkf---KSLKRHL~t~~gmTP 101 (148)
T COG4957 77 IIC--LEDGKKF---KSLKRHLTTHYGLTP 101 (148)
T ss_pred EEE--eccCcch---HHHHHHHhcccCCCH
Confidence 457 5699999 579999999988665
No 127
>KOG4167|consensus
Probab=24.89 E-value=19 Score=39.40 Aligned_cols=28 Identities=46% Similarity=0.859 Sum_probs=24.5
Q ss_pred CceeecccCCCCCcccChhhHHHHHHhhcC
Q psy17740 261 RRIFECNYENCGKNYFKSSHLKAHMRTHTG 290 (384)
Q Consensus 261 ~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ 290 (384)
...|-|.. |+|+|-....+..||++|.-
T Consensus 790 ~giFpCre--C~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 790 TGIFPCRE--CGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred CceeehHH--HHHHHHHHhhhhHHHHHHHH
Confidence 46799965 99999999999999999964
No 128
>KOG4377|consensus
Probab=24.42 E-value=36 Score=34.96 Aligned_cols=85 Identities=21% Similarity=0.381 Sum_probs=54.6
Q ss_pred CCceeecccCCCCCcccChhhHHHHHHhhcCCC------------ccccccCCCCCccCChHHHHHHHhhhcC-----CC
Q psy17740 260 RRRIFECNYENCGKNYFKSSHLKAHMRTHTGER------------PFLCQWTGCGRRFSRSDELSRHKRTHTG-----EK 322 (384)
Q Consensus 260 ~~k~f~C~~e~Cgk~F~~~s~L~~H~r~H~~ek------------p~~C~~~~Cgk~F~~~~~L~~H~r~Htg-----ek 322 (384)
.+.-|.|.-+.|+..+..+.++.+|..+|.... .|.|....|.+ +..+...|--.|+. .+
T Consensus 268 ~rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfr 344 (480)
T KOG4377|consen 268 GREHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFR 344 (480)
T ss_pred cchhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCcee
Confidence 445678887889888777999999998875322 37888888988 44455566555543 22
Q ss_pred --ccccCccC--cccCChHHHHHHHHHhc
Q psy17740 323 --KFGCSICN--RRFMRSDHLAKHVKRHS 347 (384)
Q Consensus 323 --pf~C~~C~--k~F~~~s~L~~H~r~H~ 347 (384)
-|.|..|+ -.|.-...-..|.+.+.
T Consensus 345 rthfhC~r~gCTdtfK~~khk~yh~kdda 373 (480)
T KOG4377|consen 345 RTHFHCQRIGCTDTFKDSKHKPYHYKDDA 373 (480)
T ss_pred cceeEEeccCCccccccccccccccCcch
Confidence 37787766 55653333334444333
No 129
>KOG4124|consensus
Probab=23.63 E-value=14 Score=37.06 Aligned_cols=54 Identities=28% Similarity=0.681 Sum_probs=41.4
Q ss_pred CceeecccCCCCCcccChhhHHHHHHh-h--------------c----CCCccccccCCCCCccCChHHHHHHHh
Q psy17740 261 RRIFECNYENCGKNYFKSSHLKAHMRT-H--------------T----GERPFLCQWTGCGRRFSRSDELSRHKR 316 (384)
Q Consensus 261 ~k~f~C~~e~Cgk~F~~~s~L~~H~r~-H--------------~----~ekp~~C~~~~Cgk~F~~~~~L~~H~r 316 (384)
.++|.|.++.|.+.++....|+.|... | + ..|+|.|++ |.+.++....|+.|..
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i--~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEV--CSKRYKNLNGLKYHRT 419 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChh--hhhhhccCCCCCceee
Confidence 478899999999999988888888643 2 2 247899977 9998887777766643
No 130
>PRK14873 primosome assembly protein PriA; Provisional
Probab=23.19 E-value=43 Score=36.77 Aligned_cols=10 Identities=20% Similarity=0.800 Sum_probs=6.7
Q ss_pred ccccCccCcc
Q psy17740 323 KFGCSICNRR 332 (384)
Q Consensus 323 pf~C~~C~k~ 332 (384)
++.|+.||..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 5578888753
No 131
>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=23.11 E-value=48 Score=23.03 Aligned_cols=15 Identities=27% Similarity=0.694 Sum_probs=9.1
Q ss_pred ccCccCcccCChHHH
Q psy17740 325 GCSICNRRFMRSDHL 339 (384)
Q Consensus 325 ~C~~C~k~F~~~s~L 339 (384)
.|..||+.|..+...
T Consensus 10 ~C~~C~rpf~WRKKW 24 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKW 24 (42)
T ss_pred cCcccCCcchHHHHH
Confidence 466677766665444
No 132
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=23.05 E-value=51 Score=28.60 Aligned_cols=6 Identities=67% Similarity=1.553 Sum_probs=2.9
Q ss_pred CCCccC
Q psy17740 301 CGRRFS 306 (384)
Q Consensus 301 Cgk~F~ 306 (384)
||+.|.
T Consensus 7 Cg~~f~ 12 (131)
T PF09845_consen 7 CGRVFE 12 (131)
T ss_pred CCCCcC
Confidence 444444
No 133
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=22.57 E-value=14 Score=26.66 Aligned_cols=25 Identities=20% Similarity=0.490 Sum_probs=11.9
Q ss_pred CccccCccCcccCChHHHHHHHHHh
Q psy17740 322 KKFGCSICNRRFMRSDHLAKHVKRH 346 (384)
Q Consensus 322 kpf~C~~C~k~F~~~s~L~~H~r~H 346 (384)
..|+|+.|+..|-..-..-.|...|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CeEECCCCCCccccCcChhhhcccc
Confidence 4577777777777666665554444
No 134
>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=22.53 E-value=44 Score=20.63 Aligned_cols=10 Identities=30% Similarity=0.644 Sum_probs=6.1
Q ss_pred ccCccCcccC
Q psy17740 325 GCSICNRRFM 334 (384)
Q Consensus 325 ~C~~C~k~F~ 334 (384)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5666666663
No 135
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.06 E-value=74 Score=23.66 Aligned_cols=22 Identities=32% Similarity=0.312 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCccchhhHHHHHHH
Q psy17740 350 GAITPSNIGTPSNVLRNANVAFNM 373 (384)
Q Consensus 350 ~~~~c~~Cg~~~~~~~~~~~hl~~ 373 (384)
+.|.|..||.. .-+++++.++.
T Consensus 45 r~~~C~~Cg~~--~~rD~naA~NI 66 (69)
T PF07282_consen 45 RVFTCPNCGFE--MDRDVNAARNI 66 (69)
T ss_pred ceEEcCCCCCE--ECcHHHHHHHH
Confidence 45556666554 33444444443
No 136
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=21.68 E-value=62 Score=32.14 Aligned_cols=52 Identities=17% Similarity=0.340 Sum_probs=32.6
Q ss_pred CCCccCChHHHHHHHhhhcCCCccccCccCcccCChHHHHHHHHHhcCCCCCCCCCCCCC
Q psy17740 301 CGRRFSRSDELSRHKRTHTGEKKFGCSICNRRFMRSDHLAKHVKRHSKDGAITPSNIGTP 360 (384)
Q Consensus 301 Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k~F~~~s~L~~H~r~H~~e~~~~c~~Cg~~ 360 (384)
|.-.|.....-. .-.-+....|+|+.|...|....+.-.|...| .|..|..+
T Consensus 368 CQ~~fp~~~~~~--~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh------~C~gCe~~ 419 (421)
T COG5151 368 CQGPFPKPPVSP--FDESTSSGRYQCELCKSTFCSDCDVFIHETLH------FCIGCELP 419 (421)
T ss_pred ccCCCCCCCCCc--ccccccccceechhhhhhhhhhhHHHHHHHHh------hCCCCcCC
Confidence 666665433211 11122345789999999999888888887776 36666543
No 137
>KOG2636|consensus
Probab=21.63 E-value=70 Score=33.26 Aligned_cols=29 Identities=17% Similarity=0.535 Sum_probs=21.1
Q ss_pred hhhcCCCccccCccC-cccCChHHHHHHHH
Q psy17740 316 RTHTGEKKFGCSICN-RRFMRSDHLAKHVK 344 (384)
Q Consensus 316 r~Htgekpf~C~~C~-k~F~~~s~L~~H~r 344 (384)
+.|.-..-|.|.+|| +++.=+..+.+|-.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 456667778888888 77777777777743
No 138
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=21.57 E-value=90 Score=21.25 Aligned_cols=24 Identities=21% Similarity=0.407 Sum_probs=17.1
Q ss_pred cccCccCcccCC--hHHHHHHHHHhc
Q psy17740 324 FGCSICNRRFMR--SDHLAKHVKRHS 347 (384)
Q Consensus 324 f~C~~C~k~F~~--~s~L~~H~r~H~ 347 (384)
-.|+.||..|.. ...-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 478999887764 456677877764
No 139
>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=21.01 E-value=58 Score=22.54 Aligned_cols=9 Identities=22% Similarity=1.047 Sum_probs=4.3
Q ss_pred CccccCccC
Q psy17740 322 KKFGCSICN 330 (384)
Q Consensus 322 kpf~C~~C~ 330 (384)
..|+|..|+
T Consensus 36 ~~~~C~~C~ 44 (46)
T PF12760_consen 36 GRYRCKACR 44 (46)
T ss_pred CeEECCCCC
Confidence 344555544
No 140
>KOG2593|consensus
Probab=20.23 E-value=88 Score=32.39 Aligned_cols=38 Identities=18% Similarity=0.549 Sum_probs=25.9
Q ss_pred cCCCccccccCCCCCccCChHHHHHHHhhhcCCCccccCccCc
Q psy17740 289 TGERPFLCQWTGCGRRFSRSDELSRHKRTHTGEKKFGCSICNR 331 (384)
Q Consensus 289 ~~ekp~~C~~~~Cgk~F~~~~~L~~H~r~Htgekpf~C~~C~k 331 (384)
+...-|.|+. |.+.|.....++. .-.....|.|..|+-
T Consensus 124 t~~~~Y~Cp~--C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPN--CQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCc--cccchhhhHHHHh---hcccCceEEEecCCC
Confidence 3445699966 9999988776642 222245699999963
No 141
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=20.16 E-value=59 Score=28.93 Aligned_cols=18 Identities=28% Similarity=0.589 Sum_probs=12.1
Q ss_pred eeecccCCCCCcccChhhHH
Q psy17740 263 IFECNYENCGKNYFKSSHLK 282 (384)
Q Consensus 263 ~f~C~~e~Cgk~F~~~s~L~ 282 (384)
.++|. .||+.|.....+.
T Consensus 28 ~~~c~--~c~~~f~~~e~~~ 45 (154)
T PRK00464 28 RRECL--ACGKRFTTFERVE 45 (154)
T ss_pred eeecc--ccCCcceEeEecc
Confidence 37885 5998887655443
Done!