Query 044007
Match_columns 378
No_of_seqs 317 out of 2839
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 10:32:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044007.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044007hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 100.0 1.6E-30 3.5E-35 232.9 4.9 137 200-375 125-263 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 6.5E-24 1.4E-28 190.5 4.9 127 181-349 127-265 (279)
3 KOG3623 Homeobox transcription 99.9 2.4E-23 5.2E-28 205.8 2.8 76 300-376 894-971 (1007)
4 KOG1074 Transcriptional repres 99.8 7.1E-21 1.5E-25 191.5 3.5 78 300-378 605-691 (958)
5 KOG3608 Zn finger proteins [Ge 99.8 2.1E-20 4.6E-25 171.8 1.7 167 208-376 182-373 (467)
6 KOG1074 Transcriptional repres 99.7 2.5E-18 5.3E-23 173.4 6.0 72 205-277 605-683 (958)
7 KOG3608 Zn finger proteins [Ge 99.7 1.9E-18 4E-23 159.1 3.3 177 176-366 199-397 (467)
8 KOG3576 Ovo and related transc 99.7 1E-17 2.2E-22 143.6 -0.4 107 260-377 115-234 (267)
9 KOG3576 Ovo and related transc 99.6 2.3E-16 4.9E-21 135.3 2.2 113 203-355 115-240 (267)
10 KOG3623 Homeobox transcription 99.5 7.1E-16 1.5E-20 153.4 -0.3 103 263-376 211-330 (1007)
11 PLN03086 PRLI-interacting fact 99.3 5.6E-12 1.2E-16 126.6 7.8 140 205-375 407-560 (567)
12 PHA00733 hypothetical protein 99.0 1.3E-10 2.8E-15 96.2 3.2 76 298-376 38-120 (128)
13 PLN03086 PRLI-interacting fact 99.0 5.3E-10 1.1E-14 112.6 7.3 118 206-351 434-565 (567)
14 PHA02768 hypothetical protein; 99.0 2.6E-10 5.7E-15 78.4 2.3 43 328-372 5-48 (55)
15 PHA00733 hypothetical protein 98.8 3.2E-09 6.9E-14 87.9 4.0 84 261-352 39-124 (128)
16 PHA02768 hypothetical protein; 98.8 2.6E-09 5.6E-14 73.5 1.8 42 300-344 5-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.7 6.6E-09 1.4E-13 61.1 2.0 26 342-367 1-26 (26)
18 KOG3993 Transcription factor ( 98.5 1.3E-08 2.7E-13 96.9 -2.7 182 183-375 266-478 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.3E-07 2.8E-12 55.6 1.9 24 316-339 1-26 (26)
20 PHA00616 hypothetical protein 98.3 2.8E-07 6.1E-12 60.4 1.6 33 328-360 1-34 (44)
21 KOG3993 Transcription factor ( 98.2 3.2E-07 6.9E-12 87.5 -0.7 22 355-376 356-377 (500)
22 PHA00732 hypothetical protein 98.1 1.4E-06 3.1E-11 65.6 2.7 45 300-351 1-48 (79)
23 PHA00616 hypothetical protein 98.1 1.6E-06 3.5E-11 56.9 1.3 32 300-332 1-33 (44)
24 PHA00732 hypothetical protein 98.0 5.5E-06 1.2E-10 62.4 3.1 42 328-375 1-44 (79)
25 PF00096 zf-C2H2: Zinc finger, 97.8 1.5E-05 3.1E-10 45.2 2.5 23 206-228 1-23 (23)
26 COG5189 SFP1 Putative transcri 97.7 1.3E-05 2.8E-10 74.0 1.0 69 297-376 346-419 (423)
27 PF05605 zf-Di19: Drought indu 97.6 8.4E-05 1.8E-09 51.8 4.2 48 300-351 2-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 97.5 6.8E-05 1.5E-09 42.4 2.1 20 330-349 2-22 (23)
29 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00016 3.4E-09 41.0 2.7 24 206-229 1-24 (24)
30 PF05605 zf-Di19: Drought indu 97.3 0.00024 5.1E-09 49.5 2.9 47 328-377 2-51 (54)
31 PF13912 zf-C2H2_6: C2H2-type 97.2 0.00022 4.8E-09 42.0 1.8 26 205-230 1-26 (27)
32 COG5189 SFP1 Putative transcri 97.1 0.00013 2.8E-09 67.5 0.6 68 258-347 345-418 (423)
33 PF13912 zf-C2H2_6: C2H2-type 97.1 0.00026 5.7E-09 41.7 1.3 23 355-377 1-23 (27)
34 PRK04860 hypothetical protein; 96.9 0.00046 9.9E-09 59.3 1.7 36 300-340 119-156 (160)
35 PF13894 zf-C2H2_4: C2H2-type 96.9 0.00093 2E-08 37.7 2.3 20 330-349 2-22 (24)
36 PF12756 zf-C2H2_2: C2H2 type 96.8 0.00042 9.2E-09 54.2 1.1 72 264-350 1-73 (100)
37 smart00355 ZnF_C2H2 zinc finge 96.6 0.0019 4.1E-08 36.9 2.5 25 206-230 1-25 (26)
38 PF12756 zf-C2H2_2: C2H2 type 96.4 0.0023 5E-08 49.9 2.6 71 235-322 1-71 (100)
39 PF09237 GAGA: GAGA factor; I 96.4 0.0039 8.4E-08 42.0 3.2 33 199-231 18-50 (54)
40 PF12874 zf-met: Zinc-finger o 96.2 0.003 6.4E-08 36.3 1.7 23 206-228 1-23 (25)
41 smart00355 ZnF_C2H2 zinc finge 96.1 0.0048 1E-07 35.2 2.3 21 330-350 2-23 (26)
42 PF09237 GAGA: GAGA factor; I 96.1 0.0059 1.3E-07 41.2 2.8 31 325-355 21-52 (54)
43 PRK04860 hypothetical protein; 96.0 0.0032 7E-08 54.1 1.6 40 327-369 118-157 (160)
44 COG5048 FOG: Zn-finger [Genera 96.0 0.005 1.1E-07 60.7 3.2 161 204-372 288-462 (467)
45 COG5048 FOG: Zn-finger [Genera 96.0 0.0029 6.3E-08 62.4 1.4 136 232-378 288-441 (467)
46 PF12171 zf-C2H2_jaz: Zinc-fin 95.2 0.0044 9.6E-08 36.4 -0.3 22 206-227 2-23 (27)
47 PF13909 zf-H2C2_5: C2H2-type 95.1 0.018 3.8E-07 32.7 2.0 23 206-229 1-23 (24)
48 KOG1146 Homeobox protein [Gene 94.9 0.0076 1.7E-07 65.8 0.3 23 299-322 517-539 (1406)
49 PF12874 zf-met: Zinc-finger o 94.9 0.012 2.6E-07 33.7 0.9 21 356-376 1-21 (25)
50 PF12171 zf-C2H2_jaz: Zinc-fin 94.6 0.02 4.4E-07 33.6 1.5 21 356-376 2-22 (27)
51 KOG2231 Predicted E3 ubiquitin 94.3 0.033 7.2E-07 57.7 3.2 28 208-239 118-146 (669)
52 PF13909 zf-H2C2_5: C2H2-type 94.3 0.039 8.4E-07 31.3 2.1 21 329-350 1-22 (24)
53 KOG2231 Predicted E3 ubiquitin 93.5 0.05 1.1E-06 56.4 2.8 145 206-376 100-264 (669)
54 KOG1146 Homeobox protein [Gene 93.1 0.03 6.5E-07 61.4 0.4 72 303-375 439-538 (1406)
55 PF13913 zf-C2HC_2: zinc-finge 91.9 0.081 1.8E-06 30.5 1.0 19 357-376 4-22 (25)
56 smart00451 ZnF_U1 U1-like zinc 91.5 0.14 3.1E-06 31.7 1.9 23 205-227 3-25 (35)
57 PF13913 zf-C2HC_2: zinc-finge 91.3 0.18 3.9E-06 29.0 2.0 21 206-227 3-23 (25)
58 smart00451 ZnF_U1 U1-like zinc 89.9 0.17 3.8E-06 31.3 1.2 21 355-375 3-23 (35)
59 TIGR00622 ssl1 transcription f 88.8 0.58 1.3E-05 37.5 3.7 93 261-362 14-110 (112)
60 KOG2893 Zn finger protein [Gen 87.9 0.17 3.7E-06 45.5 0.2 47 299-350 10-58 (341)
61 KOG2785 C2H2-type Zn-finger pr 86.8 0.49 1.1E-05 45.6 2.6 23 205-227 3-25 (390)
62 KOG2893 Zn finger protein [Gen 86.5 0.42 9.1E-06 43.0 1.9 49 207-259 12-60 (341)
63 KOG2785 C2H2-type Zn-finger pr 86.1 0.68 1.5E-05 44.7 3.2 49 328-376 166-241 (390)
64 cd00350 rubredoxin_like Rubred 85.3 0.5 1.1E-05 29.1 1.3 10 354-363 16-25 (33)
65 TIGR00622 ssl1 transcription f 85.1 1 2.2E-05 36.1 3.2 78 297-377 12-103 (112)
66 COG5236 Uncharacterized conser 84.7 1.6 3.5E-05 41.5 4.9 130 205-350 151-305 (493)
67 KOG2482 Predicted C2H2-type Zn 84.3 1.3 2.8E-05 42.1 4.1 48 329-376 280-355 (423)
68 KOG4173 Alpha-SNAP protein [In 83.9 0.28 6.1E-06 43.1 -0.4 77 261-351 78-171 (253)
69 PF09538 FYDLN_acid: Protein o 81.0 1.2 2.6E-05 35.6 2.2 15 299-314 25-39 (108)
70 COG4049 Uncharacterized protei 79.1 0.9 1.9E-05 31.3 0.8 23 325-347 14-37 (65)
71 KOG2482 Predicted C2H2-type Zn 78.7 2.5 5.4E-05 40.2 3.8 22 355-376 195-216 (423)
72 COG1198 PriA Primosomal protei 78.2 2 4.3E-05 45.8 3.4 9 263-271 445-453 (730)
73 cd00729 rubredoxin_SM Rubredox 75.6 1.6 3.4E-05 27.1 1.1 10 354-363 17-26 (34)
74 COG4049 Uncharacterized protei 74.5 1.7 3.6E-05 30.0 1.1 29 201-229 13-42 (65)
75 TIGR02300 FYDLN_acid conserved 71.9 2.9 6.4E-05 34.1 2.1 15 299-314 25-39 (129)
76 TIGR00373 conserved hypothetic 71.8 4 8.8E-05 35.0 3.1 32 324-364 105-137 (158)
77 PF09538 FYDLN_acid: Protein o 71.7 2.9 6.2E-05 33.5 2.0 15 261-275 25-39 (108)
78 smart00531 TFIIE Transcription 71.3 3.1 6.6E-05 35.2 2.3 37 325-365 96-133 (147)
79 PF09986 DUF2225: Uncharacteri 70.6 2.8 6.1E-05 37.9 2.0 16 261-276 4-19 (214)
80 COG2888 Predicted Zn-ribbon RN 70.3 2.8 6.2E-05 29.4 1.5 10 298-307 48-57 (61)
81 PF09986 DUF2225: Uncharacteri 69.5 1.2 2.7E-05 40.2 -0.6 42 298-340 3-61 (214)
82 PF02892 zf-BED: BED zinc fing 69.4 4.3 9.3E-05 26.5 2.2 26 202-227 13-42 (45)
83 TIGR00595 priA primosomal prot 69.2 4 8.7E-05 41.9 3.0 10 262-271 222-231 (505)
84 KOG2186 Cell growth-regulating 69.1 3.1 6.7E-05 38.0 1.9 22 299-322 28-49 (276)
85 KOG4173 Alpha-SNAP protein [In 69.0 1.6 3.5E-05 38.5 0.1 74 299-377 78-168 (253)
86 smart00614 ZnF_BED BED zinc fi 66.7 4.8 0.0001 27.2 2.1 25 205-229 18-48 (50)
87 TIGR02098 MJ0042_CXXC MJ0042 f 66.7 3.7 8E-05 25.9 1.4 12 263-274 3-14 (38)
88 PRK06266 transcription initiat 66.4 5.1 0.00011 35.1 2.7 16 328-343 117-133 (178)
89 KOG2807 RNA polymerase II tran 65.5 5.4 0.00012 37.8 2.8 24 327-350 344-368 (378)
90 PRK14873 primosome assembly pr 65.1 4.9 0.00011 42.7 2.7 9 299-307 409-417 (665)
91 PF05443 ROS_MUCR: ROS/MUCR tr 63.5 4.2 9.2E-05 33.7 1.5 24 205-231 72-95 (132)
92 COG1592 Rubrerythrin [Energy p 63.5 4.4 9.5E-05 35.0 1.7 11 324-334 145-156 (166)
93 smart00659 RPOLCX RNA polymera 62.7 6 0.00013 26.1 1.9 11 263-273 3-13 (44)
94 PF09723 Zn-ribbon_8: Zinc rib 62.5 2.9 6.3E-05 27.2 0.3 10 261-270 25-34 (42)
95 COG1592 Rubrerythrin [Energy p 62.4 4.8 0.0001 34.8 1.7 23 328-363 134-157 (166)
96 PF13719 zinc_ribbon_5: zinc-r 62.4 5.7 0.00012 25.1 1.6 11 264-274 4-14 (37)
97 KOG2071 mRNA cleavage and poly 62.0 6.1 0.00013 40.6 2.6 26 298-324 416-442 (579)
98 PRK05580 primosome assembly pr 61.2 7 0.00015 41.7 3.1 10 262-271 390-399 (679)
99 PF13717 zinc_ribbon_4: zinc-r 60.4 7.1 0.00015 24.5 1.8 11 264-274 4-14 (36)
100 PRK00464 nrdR transcriptional 60.4 4.3 9.2E-05 34.7 1.0 16 261-276 27-42 (154)
101 smart00531 TFIIE Transcription 60.2 7.7 0.00017 32.8 2.6 20 201-220 95-114 (147)
102 TIGR02300 FYDLN_acid conserved 59.9 6.7 0.00015 32.1 2.0 15 261-275 25-39 (129)
103 TIGR01384 TFS_arch transcripti 58.9 3.5 7.6E-05 32.5 0.3 13 262-274 16-28 (104)
104 PRK00464 nrdR transcriptional 58.4 5.7 0.00012 33.9 1.5 15 300-315 28-42 (154)
105 COG1997 RPL43A Ribosomal prote 58.2 5.6 0.00012 30.2 1.2 11 328-338 53-64 (89)
106 COG1996 RPC10 DNA-directed RNA 58.0 5.5 0.00012 26.9 1.0 10 301-311 7-16 (49)
107 PRK14873 primosome assembly pr 58.0 6.4 0.00014 41.8 2.1 46 292-364 384-431 (665)
108 PRK14890 putative Zn-ribbon RN 57.1 7.7 0.00017 27.2 1.7 9 299-307 47-55 (59)
109 COG5188 PRP9 Splicing factor 3 55.3 18 0.00039 34.8 4.3 104 204-320 237-394 (470)
110 COG5236 Uncharacterized conser 54.8 9.5 0.00021 36.5 2.4 16 309-324 289-306 (493)
111 PRK03564 formate dehydrogenase 54.1 9.4 0.0002 36.4 2.3 35 204-241 186-220 (309)
112 PRK04023 DNA polymerase II lar 53.5 12 0.00025 41.1 3.1 22 262-290 626-647 (1121)
113 PRK00398 rpoP DNA-directed RNA 53.5 7.4 0.00016 25.7 1.1 12 262-273 3-14 (46)
114 smart00834 CxxC_CXXC_SSSS Puta 53.4 5.6 0.00012 25.3 0.5 9 262-270 26-34 (41)
115 PTZ00255 60S ribosomal protein 52.3 6.8 0.00015 30.1 0.9 10 328-337 54-64 (90)
116 KOG0320 Predicted E3 ubiquitin 51.9 5 0.00011 34.8 0.1 48 261-314 130-180 (187)
117 KOG4124 Putative transcription 51.5 3.5 7.6E-05 39.4 -1.0 30 201-231 209-239 (442)
118 COG1198 PriA Primosomal protei 51.0 11 0.00024 40.3 2.5 47 264-336 437-484 (730)
119 TIGR00595 priA primosomal prot 51.0 9.7 0.00021 39.1 2.1 48 263-336 214-262 (505)
120 PF09845 DUF2072: Zn-ribbon co 50.5 7.4 0.00016 32.0 0.9 11 263-273 2-12 (131)
121 PF10571 UPF0547: Uncharacteri 50.4 12 0.00027 21.6 1.6 10 264-273 16-25 (26)
122 TIGR02605 CxxC_CxxC_SSSS putat 50.1 6.8 0.00015 26.5 0.5 9 262-270 26-34 (52)
123 COG5151 SSL1 RNA polymerase II 49.4 6.6 0.00014 37.0 0.5 44 303-350 365-411 (421)
124 KOG4167 Predicted DNA-binding 49.1 5.9 0.00013 41.5 0.1 29 203-231 790-818 (907)
125 PF08790 zf-LYAR: LYAR-type C2 49.0 5.5 0.00012 23.6 -0.1 19 356-375 1-19 (28)
126 PHA00626 hypothetical protein 47.9 8.2 0.00018 26.7 0.6 17 203-219 21-37 (59)
127 smart00734 ZnF_Rad18 Rad18-lik 46.9 11 0.00025 21.7 1.1 19 356-375 2-20 (26)
128 TIGR00280 L37a ribosomal prote 46.9 8.3 0.00018 29.7 0.6 10 328-337 53-63 (91)
129 KOG1280 Uncharacterized conser 46.2 19 0.00042 34.5 3.0 36 298-334 77-116 (381)
130 PRK06266 transcription initiat 45.4 6.7 0.00014 34.4 -0.1 17 261-277 116-132 (178)
131 COG4530 Uncharacterized protei 45.3 17 0.00037 28.9 2.1 14 299-313 25-38 (129)
132 PF12013 DUF3505: Protein of u 44.2 20 0.00043 28.5 2.5 27 204-230 79-109 (109)
133 COG4957 Predicted transcriptio 44.2 12 0.00027 30.8 1.3 22 207-231 78-99 (148)
134 PF03604 DNA_RNApol_7kD: DNA d 44.1 19 0.00041 22.0 1.8 11 261-271 16-26 (32)
135 COG0068 HypF Hydrogenase matur 43.1 7.6 0.00016 40.9 -0.2 81 182-270 99-181 (750)
136 PRK03976 rpl37ae 50S ribosomal 42.0 10 0.00022 29.2 0.4 10 328-337 54-64 (90)
137 PRK09678 DNA-binding transcrip 41.9 5.9 0.00013 29.2 -0.8 7 301-307 2-8 (72)
138 PRK04023 DNA polymerase II lar 40.6 25 0.00054 38.7 3.1 8 300-307 663-670 (1121)
139 PF07754 DUF1610: Domain of un 40.4 10 0.00023 21.5 0.2 8 355-362 16-23 (24)
140 TIGR00373 conserved hypothetic 40.3 9.5 0.00021 32.7 0.0 17 261-277 108-124 (158)
141 PF12013 DUF3505: Protein of u 40.1 23 0.0005 28.1 2.2 24 204-228 10-33 (109)
142 PF06524 NOA36: NOA36 protein; 39.9 18 0.0004 33.3 1.8 75 294-371 136-225 (314)
143 COG3357 Predicted transcriptio 39.8 16 0.00035 28.0 1.2 14 261-274 57-70 (97)
144 TIGR01562 FdhE formate dehydro 39.7 23 0.0005 33.8 2.5 10 205-214 184-193 (305)
145 PF02176 zf-TRAF: TRAF-type zi 39.0 15 0.00032 25.4 0.9 41 326-366 7-53 (60)
146 PF06524 NOA36: NOA36 protein; 39.0 15 0.00033 33.7 1.2 18 299-317 208-225 (314)
147 PF14353 CpXC: CpXC protein 38.8 21 0.00046 29.1 1.9 17 300-317 38-54 (128)
148 PF04959 ARS2: Arsenite-resist 38.7 17 0.00037 32.8 1.4 30 202-231 74-103 (214)
149 KOG2186 Cell growth-regulating 38.5 11 0.00025 34.4 0.3 38 234-274 4-41 (276)
150 PF09845 DUF2072: Zn-ribbon co 37.1 19 0.00042 29.7 1.3 13 205-217 1-13 (131)
151 COG3091 SprT Zn-dependent meta 36.9 15 0.00032 31.1 0.7 32 299-336 116-149 (156)
152 KOG2593 Transcription initiati 36.7 17 0.00037 36.0 1.2 16 326-341 126-142 (436)
153 PF08274 PhnA_Zn_Ribbon: PhnA 34.5 14 0.00031 22.2 0.2 12 352-363 16-27 (30)
154 PF15135 UPF0515: Uncharacteri 33.8 44 0.00095 30.7 3.2 14 261-274 154-167 (278)
155 KOG3408 U1-like Zn-finger-cont 33.4 28 0.00061 28.2 1.7 28 200-227 52-79 (129)
156 PF01363 FYVE: FYVE zinc finge 33.3 24 0.00052 25.2 1.2 14 261-274 24-37 (69)
157 COG3364 Zn-ribbon containing p 32.8 26 0.00057 27.5 1.4 14 300-314 2-15 (112)
158 KOG1813 Predicted E3 ubiquitin 32.6 42 0.00091 31.6 2.9 56 261-322 240-300 (313)
159 PF05443 ROS_MUCR: ROS/MUCR tr 32.3 23 0.00049 29.4 1.1 21 301-325 73-94 (132)
160 PF15269 zf-C2H2_7: Zinc-finge 32.0 35 0.00076 22.5 1.7 26 202-227 17-42 (54)
161 PRK05580 primosome assembly pr 31.5 29 0.00063 37.1 2.0 48 263-336 382-430 (679)
162 KOG4124 Putative transcription 31.2 15 0.00032 35.3 -0.3 21 326-346 396-417 (442)
163 PF08271 TF_Zn_Ribbon: TFIIB z 30.5 32 0.00069 22.3 1.4 9 299-307 18-26 (43)
164 PF07295 DUF1451: Protein of u 30.1 16 0.00036 30.8 -0.1 8 300-307 112-119 (146)
165 PF05191 ADK_lid: Adenylate ki 30.1 13 0.00028 23.4 -0.6 11 355-365 21-31 (36)
166 KOG2071 mRNA cleavage and poly 30.0 31 0.00067 35.6 1.8 32 200-231 413-444 (579)
167 PRK00432 30S ribosomal protein 30.0 37 0.00081 23.0 1.6 9 299-307 36-44 (50)
168 PF04959 ARS2: Arsenite-resist 29.4 36 0.00077 30.7 1.9 27 297-324 74-102 (214)
169 KOG0978 E3 ubiquitin ligase in 29.0 13 0.00029 39.2 -1.0 54 262-320 643-697 (698)
170 PRK14714 DNA polymerase II lar 28.1 46 0.001 37.7 2.8 6 302-307 711-716 (1337)
171 PF12760 Zn_Tnp_IS1595: Transp 27.4 43 0.00093 22.0 1.6 10 298-307 35-44 (46)
172 KOG4167 Predicted DNA-binding 27.0 12 0.00026 39.4 -1.7 24 355-378 792-815 (907)
173 smart00440 ZnF_C2C2 C2C2 Zinc 26.7 8.7 0.00019 24.7 -1.8 7 301-307 29-35 (40)
174 PRK14714 DNA polymerase II lar 26.3 50 0.0011 37.4 2.7 26 328-364 692-718 (1337)
175 PF04810 zf-Sec23_Sec24: Sec23 26.2 54 0.0012 20.9 1.8 15 293-307 17-31 (40)
176 PF09416 UPF1_Zn_bind: RNA hel 26.1 55 0.0012 27.8 2.3 10 354-363 59-68 (152)
177 COG1571 Predicted DNA-binding 25.9 42 0.00091 33.4 1.8 10 264-273 352-361 (421)
178 smart00154 ZnF_AN1 AN1-like Zi 25.5 47 0.001 21.2 1.4 16 262-277 12-27 (39)
179 PF14311 DUF4379: Domain of un 25.5 48 0.001 22.6 1.6 12 329-340 29-41 (55)
180 PF14634 zf-RING_5: zinc-RING 25.3 48 0.001 21.4 1.5 22 281-307 22-43 (44)
181 KOG4377 Zn-finger protein [Gen 25.1 75 0.0016 31.4 3.3 125 203-351 269-427 (480)
182 PF10263 SprT-like: SprT-like 24.6 17 0.00038 30.6 -0.9 8 300-307 123-130 (157)
183 PF09332 Mcm10: Mcm10 replicat 24.5 14 0.00029 35.9 -1.8 8 300-307 285-292 (344)
184 PF14445 Prok-RING_2: Prokaryo 23.8 8.7 0.00019 26.0 -2.3 13 262-274 7-19 (57)
185 cd00065 FYVE FYVE domain; Zinc 23.4 57 0.0012 22.1 1.7 13 261-273 17-29 (57)
186 COG0068 HypF Hydrogenase matur 23.3 14 0.00031 38.9 -2.0 12 264-275 125-136 (750)
187 PRK12380 hydrogenase nickel in 23.1 43 0.00093 26.9 1.1 14 204-217 69-82 (113)
188 PF03811 Zn_Tnp_IS1: InsA N-te 23.1 21 0.00045 22.5 -0.6 8 325-332 26-33 (36)
189 KOG2593 Transcription initiati 22.9 70 0.0015 31.8 2.7 38 201-241 124-161 (436)
190 smart00731 SprT SprT homologue 22.9 43 0.00094 28.0 1.2 8 300-307 112-119 (146)
191 COG5152 Uncharacterized conser 22.8 40 0.00086 29.8 0.9 54 261-320 195-253 (259)
192 PF15227 zf-C3HC4_4: zinc fing 22.6 48 0.001 21.4 1.1 23 283-306 20-42 (42)
193 COG1327 Predicted transcriptio 22.6 45 0.00098 28.2 1.2 15 261-275 27-41 (156)
194 cd00924 Cyt_c_Oxidase_Vb Cytoc 22.2 35 0.00075 26.7 0.4 18 348-366 73-90 (97)
195 PRK03824 hypA hydrogenase nick 22.1 33 0.00072 28.5 0.3 15 261-275 69-83 (135)
196 smart00064 FYVE Protein presen 22.0 60 0.0013 23.0 1.6 13 261-273 25-37 (68)
197 PF06220 zf-U1: U1 zinc finger 21.7 74 0.0016 20.2 1.8 22 204-225 2-25 (38)
198 KOG4727 U1-like Zn-finger prot 21.7 52 0.0011 28.4 1.4 24 203-226 73-96 (193)
199 PF13451 zf-trcl: Probable zin 21.3 56 0.0012 22.1 1.2 14 327-340 3-17 (49)
200 PRK04351 hypothetical protein; 21.0 37 0.0008 28.8 0.4 31 300-338 112-143 (149)
201 PF07282 OrfB_Zn_ribbon: Putat 20.4 73 0.0016 22.7 1.8 32 186-220 30-61 (69)
202 PF04216 FdhE: Protein involve 20.0 22 0.00048 33.6 -1.3 7 207-213 174-180 (290)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.96 E-value=1.6e-30 Score=232.94 Aligned_cols=137 Identities=22% Similarity=0.373 Sum_probs=127.4
Q ss_pred cCCCCceecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCC
Q 044007 200 LLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKF 279 (378)
Q Consensus 200 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~ 279 (378)
......|+|..|||.+.+.++|.+|..+|... ...+.+.|++|||.|.+-.+
T Consensus 125 ~~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~--------------------------~s~ka~~C~~C~K~YvSmpA-- 176 (279)
T KOG2462|consen 125 AAKHPRYKCPECGKSYSTSSNLSRHKQTHRSL--------------------------DSKKAFSCKYCGKVYVSMPA-- 176 (279)
T ss_pred cccCCceeccccccccccccccchhhcccccc--------------------------cccccccCCCCCceeeehHH--
Confidence 44567899999999999999999999999765 11377999999999999999
Q ss_pred CcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCChHHHHHHHHHhcCCCCcc
Q 044007 280 QPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAV 357 (378)
Q Consensus 280 k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~ 357 (378)
++.|+++|. -+++|.+|| |.|++.+.|+.|+| |+|||||.|. |+|+|..+++|+.||++|.+.|+|.
T Consensus 177 --------LkMHirTH~--l~c~C~iCG-KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~q 245 (279)
T KOG2462|consen 177 --------LKMHIRTHT--LPCECGICG-KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQ 245 (279)
T ss_pred --------HhhHhhccC--CCccccccc-ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCcccc
Confidence 999999986 589999999 99999999999999 9999999999 9999999999999999999999999
Q ss_pred cCcchhccCChhhhhhhh
Q 044007 358 NVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 358 C~~C~k~F~~~~~L~~H~ 375 (378)
|..|+|.|..++.|.||-
T Consensus 246 C~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 246 CPRCGKSFALKSYLNKHS 263 (279)
T ss_pred CcchhhHHHHHHHHHHhh
Confidence 999999999999999994
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.89 E-value=6.5e-24 Score=190.51 Aligned_cols=127 Identities=27% Similarity=0.494 Sum_probs=109.7
Q ss_pred CCCCcCCcchhhHHHhhhcc----------CCCCceecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccc
Q 044007 181 NRESFSEIDCDIIELVAGDL----------LAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMG 250 (378)
Q Consensus 181 ~~~~~~~~~c~~~~~~~~~~----------~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~ 250 (378)
...-|.|..|++......++ ...+.+.|++|||.|.+-..|++|+|+|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--------------------- 185 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--------------------- 185 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC---------------------
Confidence 34456666776655544433 34678899999999999999999999997
Q ss_pred cchhhhhcCCCcccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCe
Q 044007 251 NNNESAIKIARKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKW 329 (378)
Q Consensus 251 ~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~ 329 (378)
-+++|.+|||.|.+..- |+-|+|+|+|||||.|..|+ |.|..+++|+.||+ |.+.|+|
T Consensus 186 ----------l~c~C~iCGKaFSRPWL----------LQGHiRTHTGEKPF~C~hC~-kAFADRSNLRAHmQTHS~~K~~ 244 (279)
T KOG2462|consen 186 ----------LPCECGICGKAFSRPWL----------LQGHIRTHTGEKPFSCPHCG-KAFADRSNLRAHMQTHSDVKKH 244 (279)
T ss_pred ----------CCcccccccccccchHH----------hhcccccccCCCCccCCccc-chhcchHHHHHHHHhhcCCccc
Confidence 46889999999988877 88899999999999999999 99999999999999 9999999
Q ss_pred ecc-CCCccCChHHHHHHHHH
Q 044007 330 QCS-CGTTFSRKDKLMGHVAL 349 (378)
Q Consensus 330 ~C~-C~k~F~~~~~L~~H~~~ 349 (378)
.|. |+|+|.+++.|.+|...
T Consensus 245 qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 245 QCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cCcchhhHHHHHHHHHHhhhh
Confidence 999 99999999999999753
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.87 E-value=2.4e-23 Score=205.80 Aligned_cols=76 Identities=29% Similarity=0.578 Sum_probs=74.3
Q ss_pred ceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhccCChhhhhhhhc
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~~L~~H~r 376 (378)
+|.|+.|+ |.|...+.|.+|.- |+|.+||.|. |.|+|+.+.+|..|+|+|+|||||.|+.|+|+|.-.++.-.||-
T Consensus 894 myaCDqCD-K~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 894 MYACDQCD-KAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cchHHHHH-HHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 79999999 99999999999999 9999999999 99999999999999999999999999999999999999999983
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.81 E-value=7.1e-21 Score=191.54 Aligned_cols=78 Identities=21% Similarity=0.376 Sum_probs=73.2
Q ss_pred ceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCChHHHHHHHHHhcCC----CCcccC---cchhccCChhh
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSRKDKLMGHVALFVGH----TPAVNV---NSTNMYGQKGA 370 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~----kpy~C~---~C~k~F~~~~~ 370 (378)
|-+|-+|. +..+=.+.|+.|.| |+||+||+|. ||++|+++.+|+.||-+|... -+|.|+ +|-+.|+....
T Consensus 605 PNqCiiC~-rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 605 PNQCIICL-RVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred ccceeeee-ecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 67899999 99999999999999 9999999999 999999999999999999754 358899 99999999999
Q ss_pred hhhhhcCC
Q 044007 371 ATGTNAIT 378 (378)
Q Consensus 371 L~~H~rv~ 378 (378)
|..|.|||
T Consensus 684 lpQhIriH 691 (958)
T KOG1074|consen 684 LPQHIRIH 691 (958)
T ss_pred ccceEEee
Confidence 99999986
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.79 E-value=2.1e-20 Score=171.84 Aligned_cols=167 Identities=17% Similarity=0.304 Sum_probs=130.8
Q ss_pred cccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhh-cCCCcccCCCCCccccccccC-------C
Q 044007 208 CQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAI-KIARKYSCPQEGCRWNKKHAK-------F 279 (378)
Q Consensus 208 C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h-~~~k~~~C~~C~k~F~~~~~~-------~ 279 (378)
...|-+.|..+++|++|+|.|++++...|+.|+..|.+...|..|.++.- ....+|.|..|.|+|.+...+ .
T Consensus 182 W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv 261 (467)
T KOG3608|consen 182 WAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV 261 (467)
T ss_pred chhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh
Confidence 35688999999999999999999999999999999999998888876543 344679999999999876442 2
Q ss_pred Ccccchhh---------cccccc-cccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc---CCCccCChHHHHH
Q 044007 280 QPLKSMIC---------AKNHYK-RSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS---CGTTFSRKDKLMG 345 (378)
Q Consensus 280 k~~~c~~c---------~~~H~~-~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~---C~k~F~~~~~L~~ 345 (378)
-+|+|..| +.+|++ +|...|||+|+.|. +.|.+.++|.+|.. |. +-.|.|+ |..+|.+...+++
T Consensus 262 n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd-~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~ 339 (467)
T KOG3608|consen 262 NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECD-TRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRR 339 (467)
T ss_pred hcccccccccCCCChHHHHHHHHhhhccCCCccccchh-hhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHH
Confidence 34566655 346765 55567888888888 88888888888888 77 6668885 8888888888888
Q ss_pred HHH-HhcCCC--CcccCcchhccCChhhhhhhhc
Q 044007 346 HVA-LFVGHT--PAVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 346 H~~-~H~~~k--py~C~~C~k~F~~~~~L~~H~r 376 (378)
|++ +|.|.. +|.|..|++.|++..+|.+|-+
T Consensus 340 H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~ 373 (467)
T KOG3608|consen 340 HFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLM 373 (467)
T ss_pred HHHHhccCCCCCceeeecchhhhccchhHHHHHH
Confidence 885 444544 5999999999999999988854
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.73 E-value=2.5e-18 Score=173.40 Aligned_cols=72 Identities=18% Similarity=0.315 Sum_probs=56.0
Q ss_pred ceecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhhcCC----CcccCC---CCCcccccccc
Q 044007 205 THYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAIKIA----RKYSCP---QEGCRWNKKHA 277 (378)
Q Consensus 205 ~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h~~~----k~~~C~---~C~k~F~~~~~ 277 (378)
+-+|-+|-++...++.|++|.|+|+||+||+|.+|+..|.++.+|+.| +.+|+.. -.|+|+ +|-+.|...-.
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH-~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAH-MSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhc-ccccccCccccccccCCchhhhccccccccc
Confidence 567888888888888888888888888888888888888888888887 4455543 457788 88888877655
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.72 E-value=1.9e-18 Score=159.11 Aligned_cols=177 Identities=18% Similarity=0.313 Sum_probs=149.0
Q ss_pred cccccCCCCcCCcchhhHHHhhhcc---------CCCCceecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCC
Q 044007 176 ITVAENRESFSEIDCDIIELVAGDL---------LAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNG 246 (378)
Q Consensus 176 ~~~~~~~~~~~~~~c~~~~~~~~~~---------~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~ 246 (378)
++.+..++...|..|+..+.....+ +...+|.|..|.|.|.+...|+.||+.|-.- |+|++|+......
T Consensus 199 ~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~--ykCplCdmtc~~~ 276 (467)
T KOG3608|consen 199 IRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNC--YKCPLCDMTCSSA 276 (467)
T ss_pred HHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhc--ccccccccCCCCh
Confidence 3345566777788887766554433 4456899999999999999999999999876 8999999999999
Q ss_pred CccccchhhhhcCCCcccCCCCCccccccccCCCcccchhhcccccccccCCCceecCC--CCCccCCCHHHHHHHHh--
Q 044007 247 SSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKR--CNRKQFSVLSDLRTHEK-- 322 (378)
Q Consensus 247 ~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~--C~~k~F~~~~~L~~H~~-- 322 (378)
++|..|++..|...|||+|+.|++.|.+.+. +.+|...|. +..|.|+. |. ..|.+...|++|++
T Consensus 277 ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esd----------L~kH~~~HS-~~~y~C~h~~C~-~s~r~~~q~~~H~~ev 344 (467)
T KOG3608|consen 277 SSLTTHIRYRHSKDKPFKCDECDTRCVRESD----------LAKHVQVHS-KTVYQCEHPDCH-YSVRTYTQMRRHFLEV 344 (467)
T ss_pred HHHHHHHHhhhccCCCccccchhhhhccHHH----------HHHHHHhcc-ccceecCCCCCc-HHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999998 777877776 67899987 99 99999999999999
Q ss_pred ccCCC--Ceecc-CCCccCChHHHHHHH-HHh-----cCCCCcccCcchhccC
Q 044007 323 HCGDL--KWQCS-CGTTFSRKDKLMGHV-ALF-----VGHTPAVNVNSTNMYG 366 (378)
Q Consensus 323 H~g~k--p~~C~-C~k~F~~~~~L~~H~-~~H-----~~~kpy~C~~C~k~F~ 366 (378)
|.|.. +|.|- |++.|++..+|..|+ +.| .|.+.|.-.+|...|-
T Consensus 345 hEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~RFtYk~~edG~m 397 (467)
T KOG3608|consen 345 HEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHKRFTYKVDEDGFM 397 (467)
T ss_pred ccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCCCceeeeeccCcee
Confidence 65654 59999 999999999999997 556 3566677777766654
No 8
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.66 E-value=1e-17 Score=143.58 Aligned_cols=107 Identities=20% Similarity=0.324 Sum_probs=93.7
Q ss_pred CCcccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCcc
Q 044007 260 ARKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTF 337 (378)
Q Consensus 260 ~k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F 337 (378)
...|.|.+|+|.|..... +.+|+++|..-|.|-|..|| |.|...-+|++|+| |+|.+||+|. |+|+|
T Consensus 115 ~d~ftCrvCgK~F~lQRm----------lnrh~kch~~vkr~lct~cg-kgfndtfdlkrh~rthtgvrpykc~~c~kaf 183 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRM----------LNRHLKCHSDVKRHLCTFCG-KGFNDTFDLKRHTRTHTGVRPYKCSLCEKAF 183 (267)
T ss_pred CCeeeeehhhhhhhHHHH----------HHHHhhhccHHHHHHHhhcc-CcccchhhhhhhhccccCccccchhhhhHHH
Confidence 366999999999998888 77888888888899999999 99999999999999 9999999999 99999
Q ss_pred CChHHHHHHH-HHhc----------CCCCcccCcchhccCChhhhhhhhcC
Q 044007 338 SRKDKLMGHV-ALFV----------GHTPAVNVNSTNMYGQKGAATGTNAI 377 (378)
Q Consensus 338 ~~~~~L~~H~-~~H~----------~~kpy~C~~C~k~F~~~~~L~~H~rv 377 (378)
+++..|..|+ ++|- .+|.|+|++||..-.....+.-|.++
T Consensus 184 tqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~ 234 (267)
T KOG3576|consen 184 TQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKL 234 (267)
T ss_pred HhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHh
Confidence 9999999998 5562 35789999999987777777666543
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.60 E-value=2.3e-16 Score=135.34 Aligned_cols=113 Identities=28% Similarity=0.524 Sum_probs=98.9
Q ss_pred CCceecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCCCcc
Q 044007 203 KYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPL 282 (378)
Q Consensus 203 ~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~ 282 (378)
...|.|.+|+|.|.-...|.+||+-|... +.|-|..||+.|+....
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~v-----------------------------kr~lct~cgkgfndtfd----- 160 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDV-----------------------------KRHLCTFCGKGFNDTFD----- 160 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHH-----------------------------HHHHHhhccCcccchhh-----
Confidence 45689999999999999999999999887 77889999999988888
Q ss_pred cchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh--cc----------CCCCeecc-CCCccCChHHHHHHHHH
Q 044007 283 KSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK--HC----------GDLKWQCS-CGTTFSRKDKLMGHVAL 349 (378)
Q Consensus 283 ~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~--H~----------g~kp~~C~-C~k~F~~~~~L~~H~~~ 349 (378)
+++|+++|+|-+||+|..|+ |.|.++..|..|++ |. .+|.|.|+ ||.+-.+...+..|++.
T Consensus 161 -----lkrh~rthtgvrpykc~~c~-kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~ 234 (267)
T KOG3576|consen 161 -----LKRHTRTHTGVRPYKCSLCE-KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKL 234 (267)
T ss_pred -----hhhhhccccCccccchhhhh-HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHh
Confidence 89999999999999999999 99999999999987 54 35679999 99998899999999988
Q ss_pred hcCCCC
Q 044007 350 FVGHTP 355 (378)
Q Consensus 350 H~~~kp 355 (378)
|..--|
T Consensus 235 ~hp~Sp 240 (267)
T KOG3576|consen 235 HHPFSP 240 (267)
T ss_pred cCCCCH
Confidence 865433
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.54 E-value=7.1e-16 Score=153.37 Aligned_cols=103 Identities=23% Similarity=0.463 Sum_probs=88.6
Q ss_pred ccCCCCCccccccccCCCcccchhhccccccccc--CCCceecCCCCCccCCCHHHHHHHHh-cc-------------CC
Q 044007 263 YSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSH--CPKMYVCKRCNRKQFSVLSDLRTHEK-HC-------------GD 326 (378)
Q Consensus 263 ~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~--~~k~~~C~~C~~k~F~~~~~L~~H~~-H~-------------g~ 326 (378)
..|++|.+.+.+-.. ++.|++..| .+-.|.|..|. ..|..+..|.+||. |. +.
T Consensus 211 ltcpycdrgykrlts----------lkeHikyrhekne~nfsC~lCs-ytFAyRtQLErhm~~hkpg~dqa~sltqsa~l 279 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTS----------LKEHIKYRHEKNEPNFSCMLCS-YTFAYRTQLERHMQLHKPGGDQAISLTQSALL 279 (1007)
T ss_pred hcchhHHHHHHHHHH----------HHHHHHHHHhhCCCCCcchhhh-hhhhhHHHHHHHHHhhcCCCcccccccchhhh
Confidence 578999888776666 666765444 35679999999 99999999999998 74 34
Q ss_pred CCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhccCChhhhhhhhc
Q 044007 327 LKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 327 kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~~L~~H~r 376 (378)
+.|+|. |||+|+.+.+|+.|+|||+|||||.|+.|+|+|.-.+++-.|+-
T Consensus 280 RKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 280 RKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred ccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 679999 99999999999999999999999999999999999999988873
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.29 E-value=5.6e-12 Score=126.63 Aligned_cols=140 Identities=14% Similarity=0.226 Sum_probs=106.3
Q ss_pred ceecccccccccCHHHHHHHHHHhCCCCccccCC--CCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCCCcc
Q 044007 205 THYCQVCGKGFKRDANLRMHMRAHGDEYKTTAAL--TNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPL 282 (378)
Q Consensus 205 ~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~--c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~ 282 (378)
.-.|..|.+.. ...+|..|.....- ....|+. |+..|.. ..+ .+++.|+.|++.|. ...
T Consensus 407 ~V~C~NC~~~i-~l~~l~lHe~~C~r-~~V~Cp~~~Cg~v~~r-~el----------~~H~~C~~Cgk~f~-~s~----- 467 (567)
T PLN03086 407 TVECRNCKHYI-PSRSIALHEAYCSR-HNVVCPHDGCGIVLRV-EEA----------KNHVHCEKCGQAFQ-QGE----- 467 (567)
T ss_pred eEECCCCCCcc-chhHHHHHHhhCCC-cceeCCcccccceeec-ccc----------ccCccCCCCCCccc-hHH-----
Confidence 34799998764 45677788754332 3456764 8877632 222 24478999999985 445
Q ss_pred cchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCC----------hHHHHHHHHHh
Q 044007 283 KSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSR----------KDKLMGHVALF 350 (378)
Q Consensus 283 ~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~----------~~~L~~H~~~H 350 (378)
++.|+..+| +++.|+ || +.+ .+..|..|++ |++++|+.|. |++.|.. ...|..|..++
T Consensus 468 -----LekH~~~~H--kpv~Cp-Cg-~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 468 -----MEKHMKVFH--EPLQCP-CG-VVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred -----HHHHHHhcC--CCccCC-CC-CCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc
Confidence 778888875 899999 99 765 6789999999 9999999999 9999952 45899999997
Q ss_pred cCCCCcccCcchhccCChhhhhhhh
Q 044007 351 VGHTPAVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 351 ~~~kpy~C~~C~k~F~~~~~L~~H~ 375 (378)
|.+++.|..||+.|..+ .|..|.
T Consensus 538 -G~rt~~C~~Cgk~Vrlr-dm~~H~ 560 (567)
T PLN03086 538 -GSRTAPCDSCGRSVMLK-EMDIHQ 560 (567)
T ss_pred -CCcceEccccCCeeeeh-hHHHHH
Confidence 99999999999998765 344453
No 12
>PHA00733 hypothetical protein
Probab=99.03 E-value=1.3e-10 Score=96.15 Aligned_cols=76 Identities=12% Similarity=0.076 Sum_probs=54.2
Q ss_pred CCceecCCCCCccCCCHHHHHHH------HhccCCCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhccCChhh
Q 044007 298 PKMYVCKRCNRKQFSVLSDLRTH------EKHCGDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKGA 370 (378)
Q Consensus 298 ~k~~~C~~C~~k~F~~~~~L~~H------~~H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~~ 370 (378)
.|++.|.+|. +.|.....|..| +.+.+++||.|+ |++.|.+...|..|+++| +.+|.|.+|++.|.....
T Consensus 38 ~~~~~~~~~~-~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 38 QKRLIRAVVK-TLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhHHHHHHh-hhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 3567777777 666666555554 224457778888 888888888888888776 356888888888888888
Q ss_pred hhhhhc
Q 044007 371 ATGTNA 376 (378)
Q Consensus 371 L~~H~r 376 (378)
|.+|++
T Consensus 115 L~~H~~ 120 (128)
T PHA00733 115 TLDHVC 120 (128)
T ss_pred HHHHHH
Confidence 887764
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.01 E-value=5.3e-10 Score=112.58 Aligned_cols=118 Identities=19% Similarity=0.364 Sum_probs=89.5
Q ss_pred eeccc--ccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCCCccc
Q 044007 206 HYCQV--CGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPLK 283 (378)
Q Consensus 206 ~~C~~--C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~~ 283 (378)
-.|+. ||..|. +..|..| +.|..|++.|. ...|..|....| +++.|+ ||+.+ .+..
T Consensus 434 V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~------ 491 (567)
T PLN03086 434 VVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQ------ 491 (567)
T ss_pred eeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhH------
Confidence 35774 888884 3445545 47999988885 466777754433 889999 99765 3445
Q ss_pred chhhcccccccccCCCceecCCCCCccCC----------CHHHHHHHHhccCCCCeecc-CCCccCChHHHHHHH-HHhc
Q 044007 284 SMICAKNHYKRSHCPKMYVCKRCNRKQFS----------VLSDLRTHEKHCGDLKWQCS-CGTTFSRKDKLMGHV-ALFV 351 (378)
Q Consensus 284 c~~c~~~H~~~h~~~k~~~C~~C~~k~F~----------~~~~L~~H~~H~g~kp~~C~-C~k~F~~~~~L~~H~-~~H~ 351 (378)
+..|+..|...+++.|..|+ +.|. ..+.|..|+...|.+++.|. ||+.|..+ .|..|+ .+|.
T Consensus 492 ----L~~H~~thCp~Kpi~C~fC~-~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 492 ----MVQHQASTCPLRLITCRFCG-DMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred ----HHhhhhccCCCCceeCCCCC-CccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 78898888889999999999 8885 24689999995599999999 99998776 567787 5664
No 14
>PHA02768 hypothetical protein; Provisional
Probab=98.97 E-value=2.6e-10 Score=78.43 Aligned_cols=43 Identities=16% Similarity=0.396 Sum_probs=35.0
Q ss_pred Ceecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhccCChhhhh
Q 044007 328 KWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKGAAT 372 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~~L~ 372 (378)
-|.|+ ||+.|++.+.|..|+++|+ +||+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 37888 8888888888888888887 6888888888888877764
No 15
>PHA00733 hypothetical protein
Probab=98.82 E-value=3.2e-09 Score=87.86 Aligned_cols=84 Identities=19% Similarity=0.266 Sum_probs=65.4
Q ss_pred CcccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccC
Q 044007 261 RKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFS 338 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~ 338 (378)
+++.|.+|.+.|.....+..+ .-+.+|+ .+++.+||.|+.|+ +.|.....|..|++ | +.+|.|. |++.|.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~----~~l~~~~-~~~~~kPy~C~~Cg-k~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~ 110 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDES----SYLYKLL-TSKAVSPYVCPLCL-MPFSSSVSLKQHIRYT--EHSKVCPVCGKEFR 110 (128)
T ss_pred hhHHHHHHhhhccChhhhcch----HHHHhhc-ccCCCCCccCCCCC-CcCCCHHHHHHHHhcC--CcCccCCCCCCccC
Confidence 778888888888765542111 0033443 34458999999999 99999999999999 7 4679999 999999
Q ss_pred ChHHHHHHHHHhcC
Q 044007 339 RKDKLMGHVALFVG 352 (378)
Q Consensus 339 ~~~~L~~H~~~H~~ 352 (378)
....|..|++...+
T Consensus 111 ~~~sL~~H~~~~h~ 124 (128)
T PHA00733 111 NTDSTLDHVCKKHN 124 (128)
T ss_pred CHHHHHHHHHHhcC
Confidence 99999999976554
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.78 E-value=2.6e-09 Score=73.53 Aligned_cols=42 Identities=21% Similarity=0.393 Sum_probs=38.4
Q ss_pred ceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCChHHHH
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSRKDKLM 344 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~~~~L~ 344 (378)
.|.|+.|| +.|+..+.|..|++ |+ +||+|. |++.|.+.+.|.
T Consensus 5 ~y~C~~CG-K~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICG-EIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhC-CeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 48999999 99999999999999 98 799999 999999887764
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=98.71 E-value=6.6e-09 Score=61.11 Aligned_cols=26 Identities=15% Similarity=0.234 Sum_probs=21.7
Q ss_pred HHHHHHHHhcCCCCcccCcchhccCC
Q 044007 342 KLMGHVALFVGHTPAVNVNSTNMYGQ 367 (378)
Q Consensus 342 ~L~~H~~~H~~~kpy~C~~C~k~F~~ 367 (378)
+|..|+++|+|++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47888888888888888888888863
No 18
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.46 E-value=1.3e-08 Score=96.86 Aligned_cols=182 Identities=16% Similarity=0.063 Sum_probs=103.9
Q ss_pred CCcCCcchhhHHHhhhccCC-------CCceecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCC--CCccccch
Q 044007 183 ESFSEIDCDIIELVAGDLLA-------KYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKN--GSSMGNNN 253 (378)
Q Consensus 183 ~~~~~~~c~~~~~~~~~~~~-------~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~--~~~l~~h~ 253 (378)
.-|.|..|...+.+.-.+.. ...|+|++|+|.|....||..|.|+|.....-.-.--...... ...+....
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 34777778777666655544 3479999999999999999999999975511100000000000 00000000
Q ss_pred hhh--hcCCCcccCCCCCccccccccCCCcccchhhcccccccccCC-----------------CceecCCCCCccCCCH
Q 044007 254 ESA--IKIARKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCP-----------------KMYVCKRCNRKQFSVL 314 (378)
Q Consensus 254 ~~~--h~~~k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~-----------------k~~~C~~C~~k~F~~~ 314 (378)
.+. -....-|.|.+|+|.|.++.. |+.|+..|+.. -.+-|+.|. -.+...
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAY----------LrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a-~h~~a~ 414 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAY----------LRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVA-THSSAS 414 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHH----------HHHhHHhhhccccchhcccCcchhhcccccccccccc-cccccc
Confidence 000 011246889999999988877 55555544421 123345554 333332
Q ss_pred HHHHHHHh-ccC-CCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhccCChhhhhhhh
Q 044007 315 SDLRTHEK-HCG-DLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 315 ~~L~~H~~-H~g-~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~~L~~H~ 375 (378)
..--.+.- +.+ .....|+ |+..+..+..--.|.+.-.-+.-|.|..|.-.|.+...|.+|.
T Consensus 415 ~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhi 478 (500)
T KOG3993|consen 415 DSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHI 478 (500)
T ss_pred cccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHh
Confidence 22111111 222 1224566 7777777666666666555566788889999998888888885
No 19
>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=98.42 E-value=1.3e-07 Score=55.57 Aligned_cols=24 Identities=42% Similarity=1.057 Sum_probs=20.6
Q ss_pred HHHHHHh-ccCCCCeecc-CCCccCC
Q 044007 316 DLRTHEK-HCGDLKWQCS-CGTTFSR 339 (378)
Q Consensus 316 ~L~~H~~-H~g~kp~~C~-C~k~F~~ 339 (378)
+|..|++ |+|++||.|+ |+++|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 4788999 9999999999 9998864
No 20
>PHA00616 hypothetical protein
Probab=98.30 E-value=2.8e-07 Score=60.44 Aligned_cols=33 Identities=21% Similarity=0.447 Sum_probs=24.6
Q ss_pred Ceecc-CCCccCChHHHHHHHHHhcCCCCcccCc
Q 044007 328 KWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVN 360 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~ 360 (378)
||.|. ||+.|..+..|..|++.|+|++||.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 57777 7777777777777777777777777764
No 21
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.15 E-value=3.2e-07 Score=87.46 Aligned_cols=22 Identities=0% Similarity=-0.129 Sum_probs=20.2
Q ss_pred CcccCcchhccCChhhhhhhhc
Q 044007 355 PAVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 355 py~C~~C~k~F~~~~~L~~H~r 376 (378)
-|.|..|+|.|+++..|++|..
T Consensus 356 i~~C~~C~KkFrRqAYLrKHql 377 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQL 377 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHH
Confidence 5999999999999999999964
No 22
>PHA00732 hypothetical protein
Probab=98.14 E-value=1.4e-06 Score=65.57 Aligned_cols=45 Identities=24% Similarity=0.528 Sum_probs=30.2
Q ss_pred ceecCCCCCccCCCHHHHHHHHh--ccCCCCeecc-CCCccCChHHHHHHHHHhc
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK--HCGDLKWQCS-CGTTFSRKDKLMGHVALFV 351 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~--H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~ 351 (378)
||.|+.|+ +.|.....|+.|++ |. ++.|+ |++.|. .|..|++.+.
T Consensus 1 py~C~~Cg-k~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICG-FTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCC-CccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 46777777 77777777777776 43 34677 777776 3566765543
No 23
>PHA00616 hypothetical protein
Probab=98.06 E-value=1.6e-06 Score=56.89 Aligned_cols=32 Identities=25% Similarity=0.361 Sum_probs=30.2
Q ss_pred ceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS 332 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~ 332 (378)
||+|..|| +.|...+.|..|++ |+|++++.|+
T Consensus 1 pYqC~~CG-~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCG-GIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhh-HHHhhHHHHHHHHHHhcCCCcccee
Confidence 68999999 99999999999999 9999999887
No 24
>PHA00732 hypothetical protein
Probab=97.98 E-value=5.5e-06 Score=62.42 Aligned_cols=42 Identities=17% Similarity=0.163 Sum_probs=26.4
Q ss_pred Ceecc-CCCccCChHHHHHHHHH-hcCCCCcccCcchhccCChhhhhhhh
Q 044007 328 KWQCS-CGTTFSRKDKLMGHVAL-FVGHTPAVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~~~-H~~~kpy~C~~C~k~F~~~~~L~~H~ 375 (378)
||.|. |++.|.+...|..|++. |. ++.|+.||+.|. .|..|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~ 44 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHF 44 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhh
Confidence 46676 77777777777777663 43 356777777766 355554
No 25
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.83 E-value=1.5e-05 Score=45.25 Aligned_cols=23 Identities=48% Similarity=1.006 Sum_probs=21.7
Q ss_pred eecccccccccCHHHHHHHHHHh
Q 044007 206 HYCQVCGKGFKRDANLRMHMRAH 228 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~H 228 (378)
|+|+.|++.|.++..|..||+.|
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 78999999999999999999876
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.68 E-value=1.3e-05 Score=73.99 Aligned_cols=69 Identities=16% Similarity=0.138 Sum_probs=48.9
Q ss_pred CCCceecC--CCCCccCCCHHHHHHHHh--ccCCCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhccCChhhh
Q 044007 297 CPKMYVCK--RCNRKQFSVLSDLRTHEK--HCGDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKGAA 371 (378)
Q Consensus 297 ~~k~~~C~--~C~~k~F~~~~~L~~H~~--H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~~L 371 (378)
++|||+|+ .|+ |.|.....|+-|+. |...+...=+ =. .|.-.-...|||+|++|+|+|..-..|
T Consensus 346 d~KpykCpV~gC~-K~YknqnGLKYH~lhGH~~~~~~~~p~p~----------~~~~F~~~~KPYrCevC~KRYKNlNGL 414 (423)
T COG5189 346 DGKPYKCPVEGCN-KKYKNQNGLKYHMLHGHQNQKLHENPSPE----------KMNIFSAKDKPYRCEVCDKRYKNLNGL 414 (423)
T ss_pred cCceecCCCCCch-hhhccccchhhhhhccccCcccCCCCCcc----------ccccccccCCceeccccchhhccCccc
Confidence 46889995 588 88888888888887 6554433222 11 111113457999999999999999999
Q ss_pred hhhhc
Q 044007 372 TGTNA 376 (378)
Q Consensus 372 ~~H~r 376 (378)
+=|+.
T Consensus 415 KYHr~ 419 (423)
T COG5189 415 KYHRK 419 (423)
T ss_pred eeccc
Confidence 88864
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=97.62 E-value=8.4e-05 Score=51.82 Aligned_cols=48 Identities=25% Similarity=0.481 Sum_probs=32.4
Q ss_pred ceecCCCCCccCCCHHHHHHHHh--ccCC-CCeecc-CCCccCChHHHHHHHHHhc
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK--HCGD-LKWQCS-CGTTFSRKDKLMGHVALFV 351 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~--H~g~-kp~~C~-C~k~F~~~~~L~~H~~~H~ 351 (378)
.|.|++|+ +. .....|..|.. |..+ +.+.|+ |...+. .+|..|+..+.
T Consensus 2 ~f~CP~C~-~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCG-KG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCC-Cc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 47788888 64 44567888866 6664 457888 877644 37777876553
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.51 E-value=6.8e-05 Score=42.43 Aligned_cols=20 Identities=40% Similarity=0.883 Sum_probs=8.6
Q ss_pred ecc-CCCccCChHHHHHHHHH
Q 044007 330 QCS-CGTTFSRKDKLMGHVAL 349 (378)
Q Consensus 330 ~C~-C~k~F~~~~~L~~H~~~ 349 (378)
.|+ |++.|.++..|..|++.
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHhH
Confidence 344 44444444444444433
No 29
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.39 E-value=0.00016 Score=41.00 Aligned_cols=24 Identities=46% Similarity=1.029 Sum_probs=20.3
Q ss_pred eecccccccccCHHHHHHHHHHhC
Q 044007 206 HYCQVCGKGFKRDANLRMHMRAHG 229 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~H~ 229 (378)
|.|++|++.|.+...|+.|++.|+
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 789999999999999999998874
No 30
>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=97.27 E-value=0.00024 Score=49.54 Aligned_cols=47 Identities=13% Similarity=0.181 Sum_probs=37.5
Q ss_pred Ceecc-CCCccCChHHHHHHH-HHhcCC-CCcccCcchhccCChhhhhhhhcC
Q 044007 328 KWQCS-CGTTFSRKDKLMGHV-ALFVGH-TPAVNVNSTNMYGQKGAATGTNAI 377 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~-~~H~~~-kpy~C~~C~k~F~~~~~L~~H~rv 377 (378)
.|.|+ |++. .+...|..|. ..|..+ +.+.|++|...++. +|.+|.++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~--~l~~Hl~~ 51 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVTD--NLIRHLNS 51 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhhh--HHHHHHHH
Confidence 48999 9995 4567899997 567654 67999999997664 99999864
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.18 E-value=0.00022 Score=42.00 Aligned_cols=26 Identities=38% Similarity=0.684 Sum_probs=23.6
Q ss_pred ceecccccccccCHHHHHHHHHHhCC
Q 044007 205 THYCQVCGKGFKRDANLRMHMRAHGD 230 (378)
Q Consensus 205 ~~~C~~C~k~F~~~~~L~~H~~~H~~ 230 (378)
+|+|..|++.|.+...|..|++.|..
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 58999999999999999999988753
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.14 E-value=0.00013 Score=67.55 Aligned_cols=68 Identities=21% Similarity=0.395 Sum_probs=41.4
Q ss_pred cCCCcccCCC--CCccccccccCCCcccchhhcccccccccC-CCceec--CCCCCccCCCHHHHHHHHhccCCCCeecc
Q 044007 258 KIARKYSCPQ--EGCRWNKKHAKFQPLKSMICAKNHYKRSHC-PKMYVC--KRCNRKQFSVLSDLRTHEKHCGDLKWQCS 332 (378)
Q Consensus 258 ~~~k~~~C~~--C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~-~k~~~C--~~C~~k~F~~~~~L~~H~~H~g~kp~~C~ 332 (378)
.++|||+|++ |.|.++.... ||.|+.--|+ .+...- +.-- ..| -...|||+|+
T Consensus 345 ~d~KpykCpV~gC~K~YknqnG----------LKYH~lhGH~~~~~~~~p~p~~~-~~F-----------~~~~KPYrCe 402 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNG----------LKYHMLHGHQNQKLHENPSPEKM-NIF-----------SAKDKPYRCE 402 (423)
T ss_pred ecCceecCCCCCchhhhccccc----------hhhhhhccccCcccCCCCCcccc-ccc-----------cccCCceecc
Confidence 4569999998 7788888887 7777543332 111110 0100 112 2346788888
Q ss_pred -CCCccCChHHHHHHH
Q 044007 333 -CGTTFSRKDKLMGHV 347 (378)
Q Consensus 333 -C~k~F~~~~~L~~H~ 347 (378)
|+|.++....|+.|.
T Consensus 403 vC~KRYKNlNGLKYHr 418 (423)
T COG5189 403 VCDKRYKNLNGLKYHR 418 (423)
T ss_pred ccchhhccCccceecc
Confidence 888888877777774
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.06 E-value=0.00026 Score=41.65 Aligned_cols=23 Identities=9% Similarity=0.018 Sum_probs=15.4
Q ss_pred CcccCcchhccCChhhhhhhhcC
Q 044007 355 PAVNVNSTNMYGQKGAATGTNAI 377 (378)
Q Consensus 355 py~C~~C~k~F~~~~~L~~H~rv 377 (378)
||.|..|++.|.+...|.+|++.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRS 23 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCT
T ss_pred CCCCCccCCccCChhHHHHHhHH
Confidence 46666666666666666666654
No 34
>PRK04860 hypothetical protein; Provisional
Probab=96.89 E-value=0.00046 Score=59.26 Aligned_cols=36 Identities=33% Similarity=0.762 Sum_probs=24.6
Q ss_pred ceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCCh
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSRK 340 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~~ 340 (378)
+|.|. |+ + ....+++|.+ |+|+++|.|. |+..|...
T Consensus 119 ~Y~C~-C~-~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQ-E---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CC-C---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 67777 77 4 5556667777 7777777777 77766543
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.85 E-value=0.00093 Score=37.69 Aligned_cols=20 Identities=40% Similarity=0.880 Sum_probs=8.1
Q ss_pred ecc-CCCccCChHHHHHHHHH
Q 044007 330 QCS-CGTTFSRKDKLMGHVAL 349 (378)
Q Consensus 330 ~C~-C~k~F~~~~~L~~H~~~ 349 (378)
.|+ |++.|.+...|..|+++
T Consensus 2 ~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp E-SSTS-EESSHHHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHHHh
Confidence 444 44444444444444443
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.84 E-value=0.00042 Score=54.19 Aligned_cols=72 Identities=17% Similarity=0.217 Sum_probs=19.0
Q ss_pred cCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHhccCCCCeecc-CCCccCChHH
Q 044007 264 SCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDLKWQCS-CGTTFSRKDK 342 (378)
Q Consensus 264 ~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~H~g~kp~~C~-C~k~F~~~~~ 342 (378)
+|..|+..|..... +..|+...|+-. .+ .. ..+.....+..+++..-...|.|. |++.|.+...
T Consensus 1 ~C~~C~~~f~~~~~----------l~~H~~~~H~~~---~~-~~-~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~ 65 (100)
T PF12756_consen 1 QCLFCDESFSSVDD----------LLQHMKKKHGFD---IP-DQ-KYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREA 65 (100)
T ss_dssp ---------------------------------------------------------------SSEEBSSSS-EESSHHH
T ss_pred Cccccccccccccc----------cccccccccccc---cc-cc-cccccccccccccccccCCCCCCCccCCCCcCHHH
Confidence 47788888877777 555665544321 11 11 222233334444442222368898 9988988889
Q ss_pred HHHHHHHh
Q 044007 343 LMGHVALF 350 (378)
Q Consensus 343 L~~H~~~H 350 (378)
|..||+.+
T Consensus 66 l~~Hm~~~ 73 (100)
T PF12756_consen 66 LQEHMRSK 73 (100)
T ss_dssp HHHHHHHT
T ss_pred HHHHHcCc
Confidence 99998764
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.61 E-value=0.0019 Score=36.94 Aligned_cols=25 Identities=44% Similarity=0.809 Sum_probs=22.4
Q ss_pred eecccccccccCHHHHHHHHHHhCC
Q 044007 206 HYCQVCGKGFKRDANLRMHMRAHGD 230 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~H~~ 230 (378)
|+|..|++.|.....|..|++.|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 5799999999999999999997753
No 38
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.41 E-value=0.0023 Score=49.94 Aligned_cols=71 Identities=11% Similarity=0.160 Sum_probs=18.4
Q ss_pred ccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCH
Q 044007 235 TAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVL 314 (378)
Q Consensus 235 ~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~ 314 (378)
.|.+|+..|.....|..|+...|.-..+ ....+..... +..+.+. .-...+.|..|+ +.|...
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-----~~~~l~~~~~----------~~~~~~~-~~~~~~~C~~C~-~~f~s~ 63 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-----DQKYLVDPNR----------LLNYLRK-KVKESFRCPYCN-KTFRSR 63 (100)
T ss_dssp ----------------------------------------------------------------SSEEBSSSS--EESSH
T ss_pred Cccccccccccccccccccccccccccc-----cccccccccc----------ccccccc-ccCCCCCCCccC-CCCcCH
Confidence 4788888888888888887777653322 1111111111 1112211 112368888888 888888
Q ss_pred HHHHHHHh
Q 044007 315 SDLRTHEK 322 (378)
Q Consensus 315 ~~L~~H~~ 322 (378)
..|..|++
T Consensus 64 ~~l~~Hm~ 71 (100)
T PF12756_consen 64 EALQEHMR 71 (100)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHc
Confidence 88888888
No 39
>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=96.41 E-value=0.0039 Score=42.02 Aligned_cols=33 Identities=21% Similarity=0.443 Sum_probs=23.9
Q ss_pred ccCCCCceecccccccccCHHHHHHHHHHhCCC
Q 044007 199 DLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDE 231 (378)
Q Consensus 199 ~~~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~ 231 (378)
....+.+..|++|+..+.+..+|++|+..+++.
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 445677899999999999999999999877765
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.21 E-value=0.003 Score=36.31 Aligned_cols=23 Identities=39% Similarity=1.039 Sum_probs=21.0
Q ss_pred eecccccccccCHHHHHHHHHHh
Q 044007 206 HYCQVCGKGFKRDANLRMHMRAH 228 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~H 228 (378)
|.|.+|++.|.+...|+.|++.+
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 68999999999999999999654
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.11 E-value=0.0048 Score=35.18 Aligned_cols=21 Identities=33% Similarity=0.781 Sum_probs=10.9
Q ss_pred ecc-CCCccCChHHHHHHHHHh
Q 044007 330 QCS-CGTTFSRKDKLMGHVALF 350 (378)
Q Consensus 330 ~C~-C~k~F~~~~~L~~H~~~H 350 (378)
.|. |++.|.....|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 455 555555555555555544
No 42
>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=96.08 E-value=0.0059 Score=41.16 Aligned_cols=31 Identities=19% Similarity=0.438 Sum_probs=12.1
Q ss_pred CCCCeecc-CCCccCChHHHHHHHHHhcCCCC
Q 044007 325 GDLKWQCS-CGTTFSRKDKLMGHVALFVGHTP 355 (378)
Q Consensus 325 g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kp 355 (378)
.+.|-.|+ |+..+.+..+|.+|+.++++.||
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 34445555 55555555555555544444443
No 43
>PRK04860 hypothetical protein; Provisional
Probab=96.00 E-value=0.0032 Score=54.06 Aligned_cols=40 Identities=15% Similarity=0.258 Sum_probs=30.9
Q ss_pred CCeeccCCCccCChHHHHHHHHHhcCCCCcccCcchhccCChh
Q 044007 327 LKWQCSCGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMYGQKG 369 (378)
Q Consensus 327 kp~~C~C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F~~~~ 369 (378)
-+|.|.|++ ....+..|.++|+|+++|.|..|++.|....
T Consensus 118 ~~Y~C~C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCKCQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcCCCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 368888776 6667788888888888888888888876544
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.99 E-value=0.005 Score=60.71 Aligned_cols=161 Identities=17% Similarity=0.219 Sum_probs=108.7
Q ss_pred CceecccccccccCHHHHHHHHH--HhCCC--CccccC--CCCcccCCCCccccchhhhhcCCCcccCCCCC--cccccc
Q 044007 204 YTHYCQVCGKGFKRDANLRMHMR--AHGDE--YKTTAA--LTNPLKKNGSSMGNNNESAIKIARKYSCPQEG--CRWNKK 275 (378)
Q Consensus 204 ~~~~C~~C~k~F~~~~~L~~H~~--~H~~~--~~~~C~--~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~--k~F~~~ 275 (378)
.++.|..|...|.....|..|.+ .|.++ +++.|. .|++.|.....+..| ...|.+..++.|.... ..+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRH-ILLHTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCC-cccccCCCccccccccCccccccc
Confidence 47899999999999999999999 79999 899998 799999888888887 5566666666665533 333222
Q ss_pred ccCCCcccchhhcccccccccCCCceec--CCCCCccCCCHHHHHHHHh-ccCCCC--eecc-CCCccCChHHHHHHHHH
Q 044007 276 HAKFQPLKSMICAKNHYKRSHCPKMYVC--KRCNRKQFSVLSDLRTHEK-HCGDLK--WQCS-CGTTFSRKDKLMGHVAL 349 (378)
Q Consensus 276 ~~~~k~~~c~~c~~~H~~~h~~~k~~~C--~~C~~k~F~~~~~L~~H~~-H~g~kp--~~C~-C~k~F~~~~~L~~H~~~ 349 (378)
.....+- ....+......+.+.| ..|. ..+.....+..|.. |....+ +.+. |.+.|.....+..|++.
T Consensus 367 ~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 440 (467)
T COG5048 367 LNNEPPQ-----SLQQYKDLKNDKKSETLSNSCI-RNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKI 440 (467)
T ss_pred cCCCCcc-----chhhccCccCCccccccccchh-hhhccccccccccccccccCCcCCCCCcchhhccCcccccccccc
Confidence 2211000 0111122223345555 2455 67777788888877 777765 4455 99999999999999999
Q ss_pred hcCCCCcccCcchhccCChhhhh
Q 044007 350 FVGHTPAVNVNSTNMYGQKGAAT 372 (378)
Q Consensus 350 H~~~kpy~C~~C~k~F~~~~~L~ 372 (378)
|....++.|..++. |.....+.
T Consensus 441 ~~~~~~~~~~~~~~-~~~~~~~~ 462 (467)
T COG5048 441 HTNHAPLLCSILKS-FRRDLDLS 462 (467)
T ss_pred cccCCceeeccccc-cchhhhhh
Confidence 98877766655443 33333333
No 45
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.97 E-value=0.0029 Score=62.40 Aligned_cols=136 Identities=17% Similarity=0.159 Sum_probs=103.3
Q ss_pred CccccCCCCcccCCCCccccchhh-hhcCC--CcccCC--CCCccccccccCCCcccchhhcccccccccCCCceecC--
Q 044007 232 YKTTAALTNPLKKNGSSMGNNNES-AIKIA--RKYSCP--QEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCK-- 304 (378)
Q Consensus 232 ~~~~C~~c~~~~~~~~~l~~h~~~-~h~~~--k~~~C~--~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~-- 304 (378)
.++.|..|...|.....+..|... .|.++ +++.|+ .|++.|..... +..|+..|.+-+++.|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~ 357 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDA----------LKRHILLHTSISPAKEKLL 357 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCcccccccc----------ccCCcccccCCCccccccc
Confidence 578899999999999999988665 88988 999999 79999998888 77788888887777774
Q ss_pred CCCCccCCCHHH----HHHHHh--ccCCCCeecc---CCCccCChHHHHHHHHHhcCCC--CcccCcchhccCChhhhhh
Q 044007 305 RCNRKQFSVLSD----LRTHEK--HCGDLKWQCS---CGTTFSRKDKLMGHVALFVGHT--PAVNVNSTNMYGQKGAATG 373 (378)
Q Consensus 305 ~C~~k~F~~~~~----L~~H~~--H~g~kp~~C~---C~k~F~~~~~L~~H~~~H~~~k--py~C~~C~k~F~~~~~L~~ 373 (378)
.|. +.+..... ...+.. ....+.+.|. |...+.+...+..|...|.... -+.+..|.+.|.....|..
T Consensus 358 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 436 (467)
T COG5048 358 NSS-SKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIP 436 (467)
T ss_pred cCc-cccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccc
Confidence 444 44444433 112222 3445667775 8888888888888988887665 5667889999999999998
Q ss_pred hhcCC
Q 044007 374 TNAIT 378 (378)
Q Consensus 374 H~rv~ 378 (378)
|++++
T Consensus 437 ~~~~~ 441 (467)
T COG5048 437 HKKIH 441 (467)
T ss_pred ccccc
Confidence 88764
No 46
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.23 E-value=0.0044 Score=36.43 Aligned_cols=22 Identities=36% Similarity=0.921 Sum_probs=20.1
Q ss_pred eecccccccccCHHHHHHHHHH
Q 044007 206 HYCQVCGKGFKRDANLRMHMRA 227 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~ 227 (378)
|.|..|++.|.+...|..|++.
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 7899999999999999999854
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.06 E-value=0.018 Score=32.72 Aligned_cols=23 Identities=26% Similarity=0.566 Sum_probs=18.5
Q ss_pred eecccccccccCHHHHHHHHHHhC
Q 044007 206 HYCQVCGKGFKRDANLRMHMRAHG 229 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~H~ 229 (378)
|+|+.|+.... +..|..|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999888 889999998864
No 48
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=94.93 E-value=0.0076 Score=65.83 Aligned_cols=23 Identities=30% Similarity=0.589 Sum_probs=13.6
Q ss_pred CceecCCCCCccCCCHHHHHHHHh
Q 044007 299 KMYVCKRCNRKQFSVLSDLRTHEK 322 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~~~L~~H~~ 322 (378)
++|.|..|. ..+.....|.+|+.
T Consensus 517 ~p~~C~~C~-~stttng~Lsihlq 539 (1406)
T KOG1146|consen 517 KPYPCRACN-YSTTTNGNLSIHLQ 539 (1406)
T ss_pred Ccccceeee-eeeecchHHHHHHH
Confidence 456666666 56666566666554
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.86 E-value=0.012 Score=33.71 Aligned_cols=21 Identities=0% Similarity=-0.137 Sum_probs=14.8
Q ss_pred cccCcchhccCChhhhhhhhc
Q 044007 356 AVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 356 y~C~~C~k~F~~~~~L~~H~r 376 (378)
|.|.+|++.|.+...|+.|.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 567777777777777777765
No 50
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.62 E-value=0.02 Score=33.55 Aligned_cols=21 Identities=0% Similarity=-0.086 Sum_probs=17.6
Q ss_pred cccCcchhccCChhhhhhhhc
Q 044007 356 AVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 356 y~C~~C~k~F~~~~~L~~H~r 376 (378)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 778888888888888888875
No 51
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.32 E-value=0.033 Score=57.67 Aligned_cols=28 Identities=39% Similarity=0.634 Sum_probs=16.9
Q ss_pred cccccccccCHHHHHHHHHH-hCCCCccccCCC
Q 044007 208 CQVCGKGFKRDANLRMHMRA-HGDEYKTTAALT 239 (378)
Q Consensus 208 C~~C~k~F~~~~~L~~H~~~-H~~~~~~~C~~c 239 (378)
|..| -.|.....|+.||+. |.. +.|.+|
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~~---~~c~lC 146 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHKL---HLCSLC 146 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhhh---hccccc
Confidence 4444 444478899999954 543 445554
No 52
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.27 E-value=0.039 Score=31.26 Aligned_cols=21 Identities=29% Similarity=0.638 Sum_probs=10.4
Q ss_pred eecc-CCCccCChHHHHHHHHHh
Q 044007 329 WQCS-CGTTFSRKDKLMGHVALF 350 (378)
Q Consensus 329 ~~C~-C~k~F~~~~~L~~H~~~H 350 (378)
|+|+ |+.... ...|..|+++|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 4555 555554 55555555554
No 53
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.54 E-value=0.05 Score=56.39 Aligned_cols=145 Identities=14% Similarity=0.134 Sum_probs=86.4
Q ss_pred eecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCCCcccch
Q 044007 206 HYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPLKSM 285 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~~c~ 285 (378)
+.|.+|++.|.-. ...-.|..| ..|.....|..|....| +-+-|.+|-..-+--....+-|...
T Consensus 100 ~~C~~C~~~~~~~------------~~~~~~~~c-~~~~s~~~Lk~H~~~~H---~~~~c~lC~~~~kif~~e~k~Yt~~ 163 (669)
T KOG2231|consen 100 HSCHICDRRFRAL------------YNKKECLHC-TEFKSVENLKNHMRDQH---KLHLCSLCLQNLKIFINERKLYTRA 163 (669)
T ss_pred hhcCccccchhhh------------cccCCCccc-cchhHHHHHHHHHHHhh---hhhccccccccceeeeeeeehehHH
Confidence 7899999877531 123467788 77778888899988888 4556666654321111111111111
Q ss_pred hhccccccc-ccCCC----ceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-C------CCccCChHHHHHHHHHhcC
Q 044007 286 ICAKNHYKR-SHCPK----MYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-C------GTTFSRKDKLMGHVALFVG 352 (378)
Q Consensus 286 ~c~~~H~~~-h~~~k----~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C------~k~F~~~~~L~~H~~~H~~ 352 (378)
. +..|+.. -.+++ .-.|..|. ..|-....|.+|++ ++ |.|. | +--|..-..|..|.|.++
T Consensus 164 e-l~~h~~~gd~d~~s~rGhp~C~~C~-~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H- 236 (669)
T KOG2231|consen 164 E-LNLHLMFGDPDDESCRGHPLCKFCH-ERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH- 236 (669)
T ss_pred H-HHHHHhcCCCccccccCCccchhhh-hhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC-
Confidence 1 2333221 11111 24699999 89999999999998 43 4555 5 455677788888887654
Q ss_pred CCCcccC--cch-hcc----CChhhhhhhhc
Q 044007 353 HTPAVNV--NST-NMY----GQKGAATGTNA 376 (378)
Q Consensus 353 ~kpy~C~--~C~-k~F----~~~~~L~~H~r 376 (378)
|.|. .|- +.| .....|++|+|
T Consensus 237 ---flCE~~~C~~~~f~~~~~~ei~lk~~~~ 264 (669)
T KOG2231|consen 237 ---FLCEEEFCRTKKFYVAFELEIELKAHNR 264 (669)
T ss_pred ---ccccccccccceeeehhHHHHHHHhhcc
Confidence 7776 452 233 33456666654
No 54
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.10 E-value=0.03 Score=61.44 Aligned_cols=72 Identities=11% Similarity=0.069 Sum_probs=56.9
Q ss_pred cCCCCCccCCCHHHHHHHHh--ccCCCCeecc-CCCccCChHHHHHHHHH-h------------------------cCCC
Q 044007 303 CKRCNRKQFSVLSDLRTHEK--HCGDLKWQCS-CGTTFSRKDKLMGHVAL-F------------------------VGHT 354 (378)
Q Consensus 303 C~~C~~k~F~~~~~L~~H~~--H~g~kp~~C~-C~k~F~~~~~L~~H~~~-H------------------------~~~k 354 (378)
|..|+ ..+.+...+-.|+. |.-.+-|+|+ |+-.|+....|..|||. | .+-+
T Consensus 439 ~~~~e-~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 439 LTKAE-PLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred ccchh-hhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 55566 66777777777776 7777888888 88888888888888876 1 1237
Q ss_pred CcccCcchhccCChhhhhhhh
Q 044007 355 PAVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 355 py~C~~C~k~F~~~~~L~~H~ 375 (378)
||.|..|...|+.+.+|-.|+
T Consensus 518 p~~C~~C~~stttng~Lsihl 538 (1406)
T KOG1146|consen 518 PYPCRACNYSTTTNGNLSIHL 538 (1406)
T ss_pred cccceeeeeeeecchHHHHHH
Confidence 999999999999999999986
No 55
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.88 E-value=0.081 Score=30.49 Aligned_cols=19 Identities=0% Similarity=-0.134 Sum_probs=10.2
Q ss_pred ccCcchhccCChhhhhhhhc
Q 044007 357 VNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 357 ~C~~C~k~F~~~~~L~~H~r 376 (378)
.|+.||+.| ....|.+|.+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 4555555543
No 56
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.52 E-value=0.14 Score=31.67 Aligned_cols=23 Identities=22% Similarity=0.777 Sum_probs=20.6
Q ss_pred ceecccccccccCHHHHHHHHHH
Q 044007 205 THYCQVCGKGFKRDANLRMHMRA 227 (378)
Q Consensus 205 ~~~C~~C~k~F~~~~~L~~H~~~ 227 (378)
+|.|++|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999999853
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.27 E-value=0.18 Score=29.01 Aligned_cols=21 Identities=29% Similarity=0.706 Sum_probs=17.4
Q ss_pred eecccccccccCHHHHHHHHHH
Q 044007 206 HYCQVCGKGFKRDANLRMHMRA 227 (378)
Q Consensus 206 ~~C~~C~k~F~~~~~L~~H~~~ 227 (378)
..|+.||+.| ....|..|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 66789999754
No 58
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=89.88 E-value=0.17 Score=31.25 Aligned_cols=21 Identities=0% Similarity=-0.216 Sum_probs=12.6
Q ss_pred CcccCcchhccCChhhhhhhh
Q 044007 355 PAVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 355 py~C~~C~k~F~~~~~L~~H~ 375 (378)
+|.|++|++.|.....++.|.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~ 23 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHL 23 (35)
T ss_pred CeEccccCCccCCHHHHHHHH
Confidence 455666666666666665554
No 59
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.77 E-value=0.58 Score=37.48 Aligned_cols=93 Identities=13% Similarity=0.155 Sum_probs=53.1
Q ss_pred CcccCCCCCccccccccCCCcccchhhccccccccc--CCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCc
Q 044007 261 RKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSH--CPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTT 336 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~--~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~ 336 (378)
-|-.|+.||-.......+.+.|.-..-++....... ....-.|--|. +.|....... .. -.....|.|+ |...
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~-~~f~~~~~~~--~~~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQ-GPFPKPPVSP--FDELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcC-CCCCCccccc--ccccccccceeCCCCCCc
Confidence 577888888777666554443321111221111111 11122488888 8887643111 00 1234579999 9999
Q ss_pred cCChHHHHHHHHHhcCCCCcccCcch
Q 044007 337 FSRKDKLMGHVALFVGHTPAVNVNST 362 (378)
Q Consensus 337 F~~~~~L~~H~~~H~~~kpy~C~~C~ 362 (378)
|--.-+...|..+|. |+-|.
T Consensus 91 FC~dCD~fiHe~Lh~------CPGC~ 110 (112)
T TIGR00622 91 FCVDCDVFVHESLHC------CPGCI 110 (112)
T ss_pred cccccchhhhhhccC------CcCCC
Confidence 988888888877774 66664
No 60
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=87.87 E-value=0.17 Score=45.47 Aligned_cols=47 Identities=26% Similarity=0.494 Sum_probs=30.4
Q ss_pred CceecCCCCCccCCCHHHHHHHHhccCCCCeecc-CCCccCChHHHHHH-HHHh
Q 044007 299 KMYVCKRCNRKQFSVLSDLRTHEKHCGDLKWQCS-CGTTFSRKDKLMGH-VALF 350 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~~~L~~H~~H~g~kp~~C~-C~k~F~~~~~L~~H-~~~H 350 (378)
|+| |.+|+ +.|.....|.+|++ .|-|+|. |.|...+-..|..| |.+|
T Consensus 10 kpw-cwycn-refddekiliqhqk---akhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 10 KPW-CWYCN-REFDDEKILIQHQK---AKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred Cce-eeecc-cccchhhhhhhhhh---hccceeeeehhhhccCCCceeehhhhh
Confidence 443 77777 77777777777765 1227777 77666666666656 4555
No 61
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=86.81 E-value=0.49 Score=45.60 Aligned_cols=23 Identities=22% Similarity=0.551 Sum_probs=20.5
Q ss_pred ceecccccccccCHHHHHHHHHH
Q 044007 205 THYCQVCGKGFKRDANLRMHMRA 227 (378)
Q Consensus 205 ~~~C~~C~k~F~~~~~L~~H~~~ 227 (378)
.|.|.-|...|.....-+.|+++
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKS 25 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKS 25 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhh
Confidence 48899999999999999999875
No 62
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=86.53 E-value=0.42 Score=43.02 Aligned_cols=49 Identities=16% Similarity=0.268 Sum_probs=40.4
Q ss_pred ecccccccccCHHHHHHHHHHhCCCCccccCCCCcccCCCCccccchhhhhcC
Q 044007 207 YCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNPLKKNGSSMGNNNESAIKI 259 (378)
Q Consensus 207 ~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~~~~~~~~l~~h~~~~h~~ 259 (378)
.|.+|++.|....-|.+|++. +-|+|.+|.+...+.-.|..|-+.+|+.
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhhhh
Confidence 599999999999999999865 3478899988888888888887777764
No 63
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=86.06 E-value=0.68 Score=44.65 Aligned_cols=49 Identities=10% Similarity=0.110 Sum_probs=40.9
Q ss_pred Ceecc-CCCccCChHHHHHHHHHhcCC-----------------------CCcccCcch---hccCChhhhhhhhc
Q 044007 328 KWQCS-CGTTFSRKDKLMGHVALFVGH-----------------------TPAVNVNST---NMYGQKGAATGTNA 376 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~~~H~~~-----------------------kpy~C~~C~---k~F~~~~~L~~H~r 376 (378)
|--|- |++.|++...-..||..++|= .-|.|..|. +.|.+-.+.++||+
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 45688 999999999999999777652 347799998 89999999999986
No 64
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=85.29 E-value=0.5 Score=29.12 Aligned_cols=10 Identities=20% Similarity=0.032 Sum_probs=4.8
Q ss_pred CCcccCcchh
Q 044007 354 TPAVNVNSTN 363 (378)
Q Consensus 354 kpy~C~~C~k 363 (378)
.|+.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4455555543
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=85.06 E-value=1 Score=36.10 Aligned_cols=78 Identities=13% Similarity=0.208 Sum_probs=48.7
Q ss_pred CCCceecCCCCCccCCCHHHHHHHHhcc------CCCCe-------ecc-CCCccCChHHHHHHHHHhcCCCCcccCcch
Q 044007 297 CPKMYVCKRCNRKQFSVLSDLRTHEKHC------GDLKW-------QCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNST 362 (378)
Q Consensus 297 ~~k~~~C~~C~~k~F~~~~~L~~H~~H~------g~kp~-------~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~ 362 (378)
++-|-.|+.|| -.......|.+--.|. .+.+| .|- |.+.|....... ...-.....|.|+.|.
T Consensus 12 C~LP~~CpiCg-LtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~ 88 (112)
T TIGR00622 12 CELPVECPICG-LTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCK 88 (112)
T ss_pred cCCCCcCCcCC-CEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccc--ccccccccceeCCCCC
Confidence 34578899999 7777777776632221 22222 399 999998653211 0001234579999999
Q ss_pred hccCChhhhhhhhcC
Q 044007 363 NMYGQKGAATGTNAI 377 (378)
Q Consensus 363 k~F~~~~~L~~H~rv 377 (378)
+-|=---..--|..+
T Consensus 89 ~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 89 NVFCVDCDVFVHESL 103 (112)
T ss_pred Cccccccchhhhhhc
Confidence 999766666555543
No 66
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=84.73 E-value=1.6 Score=41.53 Aligned_cols=130 Identities=15% Similarity=0.287 Sum_probs=73.1
Q ss_pred ceeccc--ccccccCHHHHHHHHHHhCCCCccccCCCCc---ccCCC------CccccchhhhhcC---CCcccCCCCCc
Q 044007 205 THYCQV--CGKGFKRDANLRMHMRAHGDEYKTTAALTNP---LKKNG------SSMGNNNESAIKI---ARKYSCPQEGC 270 (378)
Q Consensus 205 ~~~C~~--C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~---~~~~~------~~l~~h~~~~h~~---~k~~~C~~C~k 270 (378)
.|.|+. |.........|+.|.+.-++. +.|.+|-. .|... ..|..|...--.+ ...-.|..|..
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccc
Confidence 467864 777777788999999876554 56666643 33332 2344443222111 12235888888
Q ss_pred cccccccCCCcccchhhcccccccccCCCceecCCCCC---ccCCCHHHHHHHHhccCCCCeecc---CC----CccCCh
Q 044007 271 RWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNR---KQFSVLSDLRTHEKHCGDLKWQCS---CG----TTFSRK 340 (378)
Q Consensus 271 ~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~---k~F~~~~~L~~H~~H~g~kp~~C~---C~----k~F~~~ 340 (378)
.|..--. +..|++-.| ++-|.|+.-+. .-|..-..|..|.+| .-|.|. |- ..|...
T Consensus 229 ~FYdDDE----------L~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~~---~hy~ct~qtc~~~k~~vf~~~ 294 (493)
T COG5236 229 YFYDDDE----------LRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFRN---AHYCCTFQTCRVGKCYVFPYH 294 (493)
T ss_pred eecChHH----------HHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhhc---CceEEEEEEEecCcEEEeccH
Confidence 8876666 444444322 12223322220 236666777777762 126674 52 467888
Q ss_pred HHHHHHH-HHh
Q 044007 341 DKLMGHV-ALF 350 (378)
Q Consensus 341 ~~L~~H~-~~H 350 (378)
..|..|+ +.|
T Consensus 295 ~el~~h~~~~h 305 (493)
T COG5236 295 TELLEHLTRFH 305 (493)
T ss_pred HHHHHHHHHHh
Confidence 8888898 455
No 67
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=84.31 E-value=1.3 Score=42.11 Aligned_cols=48 Identities=8% Similarity=0.050 Sum_probs=36.6
Q ss_pred eecc-CCCccCChHHHHHHHH-HhcC--------------------------CCCcccCcchhccCChhhhhhhhc
Q 044007 329 WQCS-CGTTFSRKDKLMGHVA-LFVG--------------------------HTPAVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 329 ~~C~-C~k~F~~~~~L~~H~~-~H~~--------------------------~kpy~C~~C~k~F~~~~~L~~H~r 376 (378)
..|- |....-+...|..||. +|.= .+.-.|-.|.-.|.....|..|+.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcc
Confidence 4788 8888878888888885 4520 123458889999999999999985
No 68
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.92 E-value=0.28 Score=43.15 Aligned_cols=77 Identities=22% Similarity=0.455 Sum_probs=55.8
Q ss_pred CcccCCCCC--ccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHh--cc---------CCC
Q 044007 261 RKYSCPQEG--CRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK--HC---------GDL 327 (378)
Q Consensus 261 k~~~C~~C~--k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~--H~---------g~k 327 (378)
+.|.|++-| ..|..--. ...||..-|+ -.|..|. +.|.+...|..|+. |- |..
T Consensus 78 ~~~~cqvagc~~~~d~lD~----------~E~hY~~~h~---~sCs~C~-r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~d 143 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDD----------YEHHYHTLHG---NSCSFCK-RAFPTGHLLDAHILEWHDSLFQALVERGQD 143 (253)
T ss_pred ccccccccchHHHHhhhhh----------HHHhhhhccc---chhHHHH-HhCCchhhhhHHHHHHHHHHHHHHHHcCcc
Confidence 567888744 45554444 2334443333 3799999 99999999999987 53 556
Q ss_pred Ceecc---CCCccCChHHHHHHH-HHhc
Q 044007 328 KWQCS---CGTTFSRKDKLMGHV-ALFV 351 (378)
Q Consensus 328 p~~C~---C~k~F~~~~~L~~H~-~~H~ 351 (378)
.|.|- |+-.|++...-+.|+ +.|.
T Consensus 144 My~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 144 MYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 79994 999999999999997 7774
No 69
>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=81.00 E-value=1.2 Score=35.58 Aligned_cols=15 Identities=27% Similarity=0.687 Sum_probs=8.9
Q ss_pred CceecCCCCCccCCCH
Q 044007 299 KMYVCKRCNRKQFSVL 314 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~ 314 (378)
.|..|+.|| ..|...
T Consensus 25 ~PivCP~CG-~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCG-TEFPPE 39 (108)
T ss_pred CCccCCCCC-CccCcc
Confidence 355666666 555554
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=79.08 E-value=0.9 Score=31.31 Aligned_cols=23 Identities=35% Similarity=0.862 Sum_probs=13.9
Q ss_pred CCCCeecc-CCCccCChHHHHHHH
Q 044007 325 GDLKWQCS-CGTTFSRKDKLMGHV 347 (378)
Q Consensus 325 g~kp~~C~-C~k~F~~~~~L~~H~ 347 (378)
||.-++|+ |+..|.....+.+|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHV 37 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHV 37 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHh
Confidence 44555666 666666666666665
No 71
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=78.75 E-value=2.5 Score=40.25 Aligned_cols=22 Identities=5% Similarity=0.033 Sum_probs=20.1
Q ss_pred CcccCcchhccCChhhhhhhhc
Q 044007 355 PAVNVNSTNMYGQKGAATGTNA 376 (378)
Q Consensus 355 py~C~~C~k~F~~~~~L~~H~r 376 (378)
.+.|-.|.|-|+.+.+|+.|||
T Consensus 195 r~~CLyCekifrdkntLkeHMr 216 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMR 216 (423)
T ss_pred hheeeeeccccCCcHHHHHHHH
Confidence 4789999999999999999987
No 72
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=78.19 E-value=2 Score=45.80 Aligned_cols=9 Identities=22% Similarity=0.523 Sum_probs=4.4
Q ss_pred ccCCCCCcc
Q 044007 263 YSCPQEGCR 271 (378)
Q Consensus 263 ~~C~~C~k~ 271 (378)
++|+.|+-.
T Consensus 445 ~~Cp~Cd~~ 453 (730)
T COG1198 445 AECPNCDSP 453 (730)
T ss_pred ccCCCCCcc
Confidence 345555543
No 73
>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=75.62 E-value=1.6 Score=27.15 Aligned_cols=10 Identities=10% Similarity=-0.037 Sum_probs=5.1
Q ss_pred CCcccCcchh
Q 044007 354 TPAVNVNSTN 363 (378)
Q Consensus 354 kpy~C~~C~k 363 (378)
.|..|++||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 3455555554
No 74
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=74.54 E-value=1.7 Score=30.01 Aligned_cols=29 Identities=31% Similarity=0.535 Sum_probs=24.2
Q ss_pred CCCCceecccccccccCHHHHHHHHH-HhC
Q 044007 201 LAKYTHYCQVCGKGFKRDANLRMHMR-AHG 229 (378)
Q Consensus 201 ~~~~~~~C~~C~k~F~~~~~L~~H~~-~H~ 229 (378)
.++..+.|+-||..|.......+|.. .|.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 45667899999999999999999985 454
No 75
>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=71.92 E-value=2.9 Score=34.12 Aligned_cols=15 Identities=20% Similarity=0.131 Sum_probs=8.6
Q ss_pred CceecCCCCCccCCCH
Q 044007 299 KMYVCKRCNRKQFSVL 314 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~ 314 (378)
.|..|++|| ..|...
T Consensus 25 ~p~vcP~cg-~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTG-EQFPPE 39 (129)
T ss_pred CCccCCCcC-CccCcc
Confidence 355666666 555444
No 76
>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=71.77 E-value=4 Score=34.97 Aligned_cols=32 Identities=9% Similarity=0.174 Sum_probs=20.8
Q ss_pred cCCCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhc
Q 044007 324 CGDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNM 364 (378)
Q Consensus 324 ~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~ 364 (378)
.+..-|.|+ |+..|+.-..+. .-|.|+.||..
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 344557777 777777776664 24777777764
No 77
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=71.66 E-value=2.9 Score=33.46 Aligned_cols=15 Identities=20% Similarity=0.552 Sum_probs=11.3
Q ss_pred CcccCCCCCcccccc
Q 044007 261 RKYSCPQEGCRWNKK 275 (378)
Q Consensus 261 k~~~C~~C~k~F~~~ 275 (378)
.|-.||.||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 677788888887654
No 78
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=71.26 E-value=3.1 Score=35.21 Aligned_cols=37 Identities=5% Similarity=0.134 Sum_probs=19.4
Q ss_pred CCCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhcc
Q 044007 325 GDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNMY 365 (378)
Q Consensus 325 g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~F 365 (378)
+..-|.|+ |+..|.....+.. . .. ...|.|+.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~-~--d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL-L--DM-DGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh-c--CC-CCcEECCCCCCEE
Confidence 33457777 7777765443321 0 11 2237777777653
No 79
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=70.62 E-value=2.8 Score=37.87 Aligned_cols=16 Identities=31% Similarity=0.704 Sum_probs=13.0
Q ss_pred CcccCCCCCccccccc
Q 044007 261 RKYSCPQEGCRWNKKH 276 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~ 276 (378)
+.+.||+|++.|..+.
T Consensus 4 k~~~CPvC~~~F~~~~ 19 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKK 19 (214)
T ss_pred CceECCCCCCeeeeeE
Confidence 6678999999998764
No 80
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=70.28 E-value=2.8 Score=29.35 Aligned_cols=10 Identities=30% Similarity=0.936 Sum_probs=7.8
Q ss_pred CCceecCCCC
Q 044007 298 PKMYVCKRCN 307 (378)
Q Consensus 298 ~k~~~C~~C~ 307 (378)
..+|+|+.||
T Consensus 48 g~~Y~Cp~CG 57 (61)
T COG2888 48 GNPYRCPKCG 57 (61)
T ss_pred CCceECCCcC
Confidence 4678888888
No 81
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=69.48 E-value=1.2 Score=40.17 Aligned_cols=42 Identities=24% Similarity=0.487 Sum_probs=27.7
Q ss_pred CCceecCCCCCccCCCHHHHHHHHh--c---------cCCCC-----eecc-CCCccCCh
Q 044007 298 PKMYVCKRCNRKQFSVLSDLRTHEK--H---------CGDLK-----WQCS-CGTTFSRK 340 (378)
Q Consensus 298 ~k~~~C~~C~~k~F~~~~~L~~H~~--H---------~g~kp-----~~C~-C~k~F~~~ 340 (378)
+|.+.|++|+ +.|....-.....+ . .+..| +.|+ ||.+|...
T Consensus 3 ~k~~~CPvC~-~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCG-KEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCC-CeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 3678899999 88888754444433 1 23344 6899 99887654
No 82
>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=69.36 E-value=4.3 Score=26.51 Aligned_cols=26 Identities=35% Similarity=0.664 Sum_probs=17.0
Q ss_pred CCCceecccccccccCH----HHHHHHHHH
Q 044007 202 AKYTHYCQVCGKGFKRD----ANLRMHMRA 227 (378)
Q Consensus 202 ~~~~~~C~~C~k~F~~~----~~L~~H~~~ 227 (378)
.....+|..|++.+... .+|..|++.
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 45567899999999875 689999843
No 83
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.22 E-value=4 Score=41.88 Aligned_cols=10 Identities=20% Similarity=0.491 Sum_probs=5.2
Q ss_pred cccCCCCCcc
Q 044007 262 KYSCPQEGCR 271 (378)
Q Consensus 262 ~~~C~~C~k~ 271 (378)
...|+.|+-.
T Consensus 222 ~~~C~~C~~~ 231 (505)
T TIGR00595 222 ILCCPNCDVS 231 (505)
T ss_pred ccCCCCCCCc
Confidence 3456666543
No 84
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=69.05 E-value=3.1 Score=37.99 Aligned_cols=22 Identities=27% Similarity=0.677 Sum_probs=9.8
Q ss_pred CceecCCCCCccCCCHHHHHHHHh
Q 044007 299 KMYVCKRCNRKQFSVLSDLRTHEK 322 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~~~L~~H~~ 322 (378)
.-|.|-.|+ +.|-. .....|..
T Consensus 28 ~~fSCIDC~-k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 28 AYFSCIDCG-KTFER-VSYKNHTK 49 (276)
T ss_pred CeeEEeecc-ccccc-chhhhhhh
Confidence 344555555 44444 33344443
No 85
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.99 E-value=1.6 Score=38.49 Aligned_cols=74 Identities=20% Similarity=0.379 Sum_probs=56.1
Q ss_pred CceecCC--CCCccCCCHHHHHHHHh--ccCCCCeecc-CCCccCChHHHHHHH-HHh---------cCCCCccc--Ccc
Q 044007 299 KMYVCKR--CNRKQFSVLSDLRTHEK--HCGDLKWQCS-CGTTFSRKDKLMGHV-ALF---------VGHTPAVN--VNS 361 (378)
Q Consensus 299 k~~~C~~--C~~k~F~~~~~L~~H~~--H~g~kp~~C~-C~k~F~~~~~L~~H~-~~H---------~~~kpy~C--~~C 361 (378)
..|.|++ |- ..|........|-. |+. .|. |.+.|.+...|..|+ ..| .|.--|.| ..|
T Consensus 78 ~~~~cqvagc~-~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgC 152 (253)
T KOG4173|consen 78 PAFACQVAGCC-QVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGC 152 (253)
T ss_pred ccccccccchH-HHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhh
Confidence 3577864 66 66777766666654 543 699 999999999999998 445 35556999 569
Q ss_pred hhccCChhhhhhhhcC
Q 044007 362 TNMYGQKGAATGTNAI 377 (378)
Q Consensus 362 ~k~F~~~~~L~~H~rv 377 (378)
+..|.+...-+.|+-+
T Consensus 153 t~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 153 TEKFKTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhhhhhHHHH
Confidence 9999999988888743
No 86
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=66.70 E-value=4.8 Score=27.16 Aligned_cols=25 Identities=44% Similarity=0.876 Sum_probs=19.9
Q ss_pred ceecccccccccCH-----HHHHHHHH-HhC
Q 044007 205 THYCQVCGKGFKRD-----ANLRMHMR-AHG 229 (378)
Q Consensus 205 ~~~C~~C~k~F~~~-----~~L~~H~~-~H~ 229 (378)
.-.|..|++.+... ++|.+|++ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 45799999999776 58999987 554
No 87
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=66.67 E-value=3.7 Score=25.87 Aligned_cols=12 Identities=17% Similarity=0.465 Sum_probs=7.0
Q ss_pred ccCCCCCccccc
Q 044007 263 YSCPQEGCRWNK 274 (378)
Q Consensus 263 ~~C~~C~k~F~~ 274 (378)
+.|+.|+..|.-
T Consensus 3 ~~CP~C~~~~~v 14 (38)
T TIGR02098 3 IQCPNCKTSFRV 14 (38)
T ss_pred EECCCCCCEEEe
Confidence 456666666543
No 88
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=66.44 E-value=5.1 Score=35.07 Aligned_cols=16 Identities=19% Similarity=0.621 Sum_probs=8.3
Q ss_pred Ceecc-CCCccCChHHH
Q 044007 328 KWQCS-CGTTFSRKDKL 343 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L 343 (378)
-|.|+ |++.|+.-..+
T Consensus 117 ~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM 133 (178)
T ss_pred EEECCCCCcEEeHHHHh
Confidence 35555 55555555443
No 89
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=65.46 E-value=5.4 Score=37.83 Aligned_cols=24 Identities=21% Similarity=0.517 Sum_probs=17.0
Q ss_pred CCeecc-CCCccCChHHHHHHHHHh
Q 044007 327 LKWQCS-CGTTFSRKDKLMGHVALF 350 (378)
Q Consensus 327 kp~~C~-C~k~F~~~~~L~~H~~~H 350 (378)
-.|.|. |...|-.--+...|-..|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 347777 877777777777776666
No 90
>PRK14873 primosome assembly protein PriA; Provisional
Probab=65.12 E-value=4.9 Score=42.67 Aligned_cols=9 Identities=22% Similarity=0.656 Sum_probs=5.0
Q ss_pred CceecCCCC
Q 044007 299 KMYVCKRCN 307 (378)
Q Consensus 299 k~~~C~~C~ 307 (378)
+...|.+||
T Consensus 409 ~~l~Ch~CG 417 (665)
T PRK14873 409 GTPRCRWCG 417 (665)
T ss_pred CeeECCCCc
Confidence 345566665
No 91
>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=63.50 E-value=4.2 Score=33.71 Aligned_cols=24 Identities=42% Similarity=0.755 Sum_probs=16.3
Q ss_pred ceecccccccccCHHHHHHHHHHhCCC
Q 044007 205 THYCQVCGKGFKRDANLRMHMRAHGDE 231 (378)
Q Consensus 205 ~~~C~~C~k~F~~~~~L~~H~~~H~~~ 231 (378)
...|-+|||.|+. |++|++.|+|-
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eeEEccCCcccch---HHHHHHHccCC
Confidence 3569999999995 69999999775
No 92
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=63.47 E-value=4.4 Score=34.96 Aligned_cols=11 Identities=36% Similarity=0.870 Sum_probs=5.5
Q ss_pred cCCCCeecc-CC
Q 044007 324 CGDLKWQCS-CG 334 (378)
Q Consensus 324 ~g~kp~~C~-C~ 334 (378)
.|+-|..|+ ||
T Consensus 145 ~ge~P~~CPiCg 156 (166)
T COG1592 145 EGEAPEVCPICG 156 (166)
T ss_pred cCCCCCcCCCCC
Confidence 344555555 55
No 93
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=62.66 E-value=6 Score=26.10 Aligned_cols=11 Identities=27% Similarity=0.507 Sum_probs=5.5
Q ss_pred ccCCCCCcccc
Q 044007 263 YSCPQEGCRWN 273 (378)
Q Consensus 263 ~~C~~C~k~F~ 273 (378)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44555555444
No 94
>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=62.53 E-value=2.9 Score=27.22 Aligned_cols=10 Identities=30% Similarity=0.763 Sum_probs=5.6
Q ss_pred CcccCCCCCc
Q 044007 261 RKYSCPQEGC 270 (378)
Q Consensus 261 k~~~C~~C~k 270 (378)
..-.|+.||.
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 4455666664
No 95
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=62.44 E-value=4.8 Score=34.75 Aligned_cols=23 Identities=35% Similarity=0.732 Sum_probs=19.2
Q ss_pred Ceecc-CCCccCChHHHHHHHHHhcCCCCcccCcchh
Q 044007 328 KWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTN 363 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k 363 (378)
-|.|. ||.. |.|+.|-+||+||-
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCCC
Confidence 69999 9865 55789999999983
No 96
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=62.37 E-value=5.7 Score=25.08 Aligned_cols=11 Identities=27% Similarity=0.718 Sum_probs=6.4
Q ss_pred cCCCCCccccc
Q 044007 264 SCPQEGCRWNK 274 (378)
Q Consensus 264 ~C~~C~k~F~~ 274 (378)
.||.|+..|.-
T Consensus 4 ~CP~C~~~f~v 14 (37)
T PF13719_consen 4 TCPNCQTRFRV 14 (37)
T ss_pred ECCCCCceEEc
Confidence 46666666543
No 97
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=61.96 E-value=6.1 Score=40.55 Aligned_cols=26 Identities=23% Similarity=0.390 Sum_probs=21.3
Q ss_pred CCceecCCCCCccCCCHHHHHHHHh-cc
Q 044007 298 PKMYVCKRCNRKQFSVLSDLRTHEK-HC 324 (378)
Q Consensus 298 ~k~~~C~~C~~k~F~~~~~L~~H~~-H~ 324 (378)
.+|.+|..|| .+|........||- |.
T Consensus 416 ~~pnqC~~CG-~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCG-LRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccc-cccccchhhhhHhhhhh
Confidence 4678999999 99999888777776 53
No 98
>PRK05580 primosome assembly protein PriA; Validated
Probab=61.23 E-value=7 Score=41.70 Aligned_cols=10 Identities=20% Similarity=0.468 Sum_probs=5.6
Q ss_pred cccCCCCCcc
Q 044007 262 KYSCPQEGCR 271 (378)
Q Consensus 262 ~~~C~~C~k~ 271 (378)
...|+.|+-.
T Consensus 390 ~~~C~~C~~~ 399 (679)
T PRK05580 390 VAECPHCDAS 399 (679)
T ss_pred ccCCCCCCCc
Confidence 3456666644
No 99
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=60.39 E-value=7.1 Score=24.51 Aligned_cols=11 Identities=18% Similarity=0.709 Sum_probs=6.3
Q ss_pred cCCCCCccccc
Q 044007 264 SCPQEGCRWNK 274 (378)
Q Consensus 264 ~C~~C~k~F~~ 274 (378)
.|+.|+..|.-
T Consensus 4 ~Cp~C~~~y~i 14 (36)
T PF13717_consen 4 TCPNCQAKYEI 14 (36)
T ss_pred ECCCCCCEEeC
Confidence 46666666543
No 100
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=60.37 E-value=4.3 Score=34.68 Aligned_cols=16 Identities=25% Similarity=0.451 Sum_probs=12.3
Q ss_pred CcccCCCCCccccccc
Q 044007 261 RKYSCPQEGCRWNKKH 276 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~ 276 (378)
+.++|+.||++|..-.
T Consensus 27 ~~~~c~~c~~~f~~~e 42 (154)
T PRK00464 27 RRRECLACGKRFTTFE 42 (154)
T ss_pred eeeeccccCCcceEeE
Confidence 4588999999997653
No 101
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=60.16 E-value=7.7 Score=32.77 Aligned_cols=20 Identities=10% Similarity=0.120 Sum_probs=15.1
Q ss_pred CCCCceecccccccccCHHH
Q 044007 201 LAKYTHYCQVCGKGFKRDAN 220 (378)
Q Consensus 201 ~~~~~~~C~~C~k~F~~~~~ 220 (378)
.....|.|+.|+..|.....
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea 114 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEA 114 (147)
T ss_pred cCCcEEECcCCCCEeeHHHH
Confidence 34568999999999986543
No 102
>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=59.91 E-value=6.7 Score=32.08 Aligned_cols=15 Identities=20% Similarity=0.339 Sum_probs=10.9
Q ss_pred CcccCCCCCcccccc
Q 044007 261 RKYSCPQEGCRWNKK 275 (378)
Q Consensus 261 k~~~C~~C~k~F~~~ 275 (378)
.|-.|+.||..|.-.
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 677888888877544
No 103
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=58.88 E-value=3.5 Score=32.49 Aligned_cols=13 Identities=38% Similarity=0.731 Sum_probs=7.8
Q ss_pred cccCCCCCccccc
Q 044007 262 KYSCPQEGCRWNK 274 (378)
Q Consensus 262 ~~~C~~C~k~F~~ 274 (378)
.+.|+.|+..+..
T Consensus 16 ~~~C~~C~~~~~~ 28 (104)
T TIGR01384 16 VYVCPSCGYEKEK 28 (104)
T ss_pred eEECcCCCCcccc
Confidence 4667777765543
No 104
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=58.35 E-value=5.7 Score=33.89 Aligned_cols=15 Identities=27% Similarity=0.682 Sum_probs=11.2
Q ss_pred ceecCCCCCccCCCHH
Q 044007 300 MYVCKRCNRKQFSVLS 315 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~ 315 (378)
.++|+.|| +.|....
T Consensus 28 ~~~c~~c~-~~f~~~e 42 (154)
T PRK00464 28 RRECLACG-KRFTTFE 42 (154)
T ss_pred eeeccccC-CcceEeE
Confidence 37888888 8887653
No 105
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=58.23 E-value=5.6 Score=30.23 Aligned_cols=11 Identities=45% Similarity=1.567 Sum_probs=5.6
Q ss_pred Ceecc-CCCccC
Q 044007 328 KWQCS-CGTTFS 338 (378)
Q Consensus 328 p~~C~-C~k~F~ 338 (378)
.|.|. ||..|.
T Consensus 53 IW~C~kCg~~fA 64 (89)
T COG1997 53 IWKCRKCGAKFA 64 (89)
T ss_pred eEEcCCCCCeec
Confidence 45555 555543
No 106
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.02 E-value=5.5 Score=26.93 Aligned_cols=10 Identities=40% Similarity=1.275 Sum_probs=5.1
Q ss_pred eecCCCCCccC
Q 044007 301 YVCKRCNRKQF 311 (378)
Q Consensus 301 ~~C~~C~~k~F 311 (378)
|.|-.|| +.|
T Consensus 7 Y~C~~Cg-~~~ 16 (49)
T COG1996 7 YKCARCG-REV 16 (49)
T ss_pred EEhhhcC-Cee
Confidence 5555555 444
No 107
>PRK14873 primosome assembly protein PriA; Provisional
Probab=57.95 E-value=6.4 Score=41.82 Aligned_cols=46 Identities=13% Similarity=0.234 Sum_probs=29.1
Q ss_pred cccccCCCceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhc
Q 044007 292 YKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNM 364 (378)
Q Consensus 292 ~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~ 364 (378)
+.+..|+....|+.|+ - .+. |.......|. ||.. ..|..|+.||..
T Consensus 384 l~C~~Cg~~~~C~~C~-~----------~L~~h~~~~~l~Ch~CG~~----------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 384 LACARCRTPARCRHCT-G----------PLGLPSAGGTPRCRWCGRA----------------APDWRCPRCGSD 431 (665)
T ss_pred eEhhhCcCeeECCCCC-C----------ceeEecCCCeeECCCCcCC----------------CcCccCCCCcCC
Confidence 3455566778888888 3 233 5555667777 7742 136678888764
No 108
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=57.11 E-value=7.7 Score=27.24 Aligned_cols=9 Identities=33% Similarity=1.172 Sum_probs=6.7
Q ss_pred CceecCCCC
Q 044007 299 KMYVCKRCN 307 (378)
Q Consensus 299 k~~~C~~C~ 307 (378)
.+|+|+.||
T Consensus 47 ~~Y~CP~CG 55 (59)
T PRK14890 47 NPYTCPKCG 55 (59)
T ss_pred CceECCCCC
Confidence 577777777
No 109
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=55.32 E-value=18 Score=34.79 Aligned_cols=104 Identities=16% Similarity=0.293 Sum_probs=0.0
Q ss_pred CceecccccccccCHHHHHHHH--HHhCCC--------------------------------------------------
Q 044007 204 YTHYCQVCGKGFKRDANLRMHM--RAHGDE-------------------------------------------------- 231 (378)
Q Consensus 204 ~~~~C~~C~k~F~~~~~L~~H~--~~H~~~-------------------------------------------------- 231 (378)
..+.|..|++.|.+...+..|. +.|..+
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~~v~~Ey~l~r~~kyl~d~~s~trs~V~r~la~ta~ER~aei~~l 316 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEEFVYSEYVLHRYLKYLGDPVSETRSLVLRSLAITAKERKAEISLL 316 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHhCChhHHHHHHHHHHHHHHHHHHHHHhHHH
Q ss_pred --CccccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCc
Q 044007 232 --YKTTAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRK 309 (378)
Q Consensus 232 --~~~~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k 309 (378)
+.+.-..-+-...-....-......|...++|.-|. .+.-... ...-.+.|--++-|.|.+||.+
T Consensus 317 ~r~~~~~at~S~e~EGaeq~d~eQ~DE~~~~k~fdmPL---G~DG~Pm----------P~WL~klhgLd~ef~CEICgNy 383 (470)
T COG5188 317 SRRKKQPATKSSEKEGAEQVDGEQRDEHVSGKSFDMPL---GPDGLPM----------PRWLCKLHGLDIEFECEICGNY 383 (470)
T ss_pred HHHhhccCCCchhhcccccccccccchhhccCcccCCC---CCCCCCC----------chHHHHhcCCCcceeeeecccc
Q ss_pred cCCCHHHHHHH
Q 044007 310 QFSVLSDLRTH 320 (378)
Q Consensus 310 ~F~~~~~L~~H 320 (378)
.+-.+..+.+|
T Consensus 384 vy~GR~~FdrH 394 (470)
T COG5188 384 VYYGRDRFDRH 394 (470)
T ss_pred cccchHHHHhh
No 110
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=54.83 E-value=9.5 Score=36.48 Aligned_cols=16 Identities=25% Similarity=0.277 Sum_probs=13.0
Q ss_pred ccCCCHHHHHHHHh--cc
Q 044007 309 KQFSVLSDLRTHEK--HC 324 (378)
Q Consensus 309 k~F~~~~~L~~H~~--H~ 324 (378)
..|.....|+.|+. |.
T Consensus 289 ~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 289 YVFPYHTELLEHLTRFHK 306 (493)
T ss_pred EEeccHHHHHHHHHHHhh
Confidence 47889999999986 54
No 111
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=54.13 E-value=9.4 Score=36.43 Aligned_cols=35 Identities=14% Similarity=0.271 Sum_probs=17.4
Q ss_pred CceecccccccccCHHHHHHHHHHhCCCCccccCCCCc
Q 044007 204 YTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNP 241 (378)
Q Consensus 204 ~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~ 241 (378)
....|++||..=. .+.+ +.....|.+-..|.+|+.
T Consensus 186 ~~~~CPvCGs~P~-~s~v--~~~~~~G~RyL~CslC~t 220 (309)
T PRK03564 186 QRQFCPVCGSMPV-SSVV--QIGTTQGLRYLHCNLCES 220 (309)
T ss_pred CCCCCCCCCCcch-hhee--eccCCCCceEEEcCCCCC
Confidence 3457888886422 1111 222334555555666653
No 112
>PRK04023 DNA polymerase II large subunit; Validated
Probab=53.52 E-value=12 Score=41.11 Aligned_cols=22 Identities=18% Similarity=0.377 Sum_probs=12.1
Q ss_pred cccCCCCCccccccccCCCcccchhhccc
Q 044007 262 KYSCPQEGCRWNKKHAKFQPLKSMICAKN 290 (378)
Q Consensus 262 ~~~C~~C~k~F~~~~~~~k~~~c~~c~~~ 290 (378)
...|+.||... -.+.|..|+..
T Consensus 626 ~RfCpsCG~~t-------~~frCP~CG~~ 647 (1121)
T PRK04023 626 RRKCPSCGKET-------FYRRCPFCGTH 647 (1121)
T ss_pred CccCCCCCCcC-------CcccCCCCCCC
Confidence 35677777652 12456555553
No 113
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=53.47 E-value=7.4 Score=25.72 Aligned_cols=12 Identities=25% Similarity=0.625 Sum_probs=6.6
Q ss_pred cccCCCCCcccc
Q 044007 262 KYSCPQEGCRWN 273 (378)
Q Consensus 262 ~~~C~~C~k~F~ 273 (378)
.|.|+.||..|.
T Consensus 3 ~y~C~~CG~~~~ 14 (46)
T PRK00398 3 EYKCARCGREVE 14 (46)
T ss_pred EEECCCCCCEEE
Confidence 355666665544
No 114
>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=53.35 E-value=5.6 Score=25.27 Aligned_cols=9 Identities=33% Similarity=0.726 Sum_probs=4.8
Q ss_pred cccCCCCCc
Q 044007 262 KYSCPQEGC 270 (378)
Q Consensus 262 ~~~C~~C~k 270 (378)
.-.|+.||.
T Consensus 26 ~~~CP~Cg~ 34 (41)
T smart00834 26 LATCPECGG 34 (41)
T ss_pred CCCCCCCCC
Confidence 345666654
No 115
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=52.28 E-value=6.8 Score=30.11 Aligned_cols=10 Identities=40% Similarity=1.275 Sum_probs=5.0
Q ss_pred Ceecc-CCCcc
Q 044007 328 KWQCS-CGTTF 337 (378)
Q Consensus 328 p~~C~-C~k~F 337 (378)
.|.|. |++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PTZ00255 54 IWRCKGCKKTV 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 35555 55544
No 116
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.88 E-value=5 Score=34.78 Aligned_cols=48 Identities=23% Similarity=0.359 Sum_probs=32.7
Q ss_pred CcccCCCCCccccccc---cCCCcccchhhcccccccccCCCceecCCCCCccCCCH
Q 044007 261 RKYSCPQEGCRWNKKH---AKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVL 314 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~---~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~ 314 (378)
.-|+|++|-..|..+. ..=.|.-|..|++.-++ +..+|+.|+ |....+
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk-----~~~~CP~C~-kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALK-----NTNKCPTCR-KKITHK 180 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHH-----hCCCCCCcc-cccchh
Confidence 4488998888887664 33456667777776654 346899999 755444
No 117
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=51.48 E-value=3.5 Score=39.37 Aligned_cols=30 Identities=13% Similarity=0.000 Sum_probs=22.1
Q ss_pred CCCCceecccccccccCHHHHHHH-HHHhCCC
Q 044007 201 LAKYTHYCQVCGKGFKRDANLRMH-MRAHGDE 231 (378)
Q Consensus 201 ~~~~~~~C~~C~k~F~~~~~L~~H-~~~H~~~ 231 (378)
...++|+|. |++.+.++.-|+.| |..|.++
T Consensus 209 t~~~p~k~~-~~~~~~T~~~l~~HS~N~~~~~ 239 (442)
T KOG4124|consen 209 TTGTPKKMP-ESLVMDTSSPLSDHSMNIDVGE 239 (442)
T ss_pred cccCCccCc-ccccccccchhhhccccCCCCc
Confidence 345678875 89999999998888 4566555
No 118
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=51.02 E-value=11 Score=40.28 Aligned_cols=47 Identities=17% Similarity=0.391 Sum_probs=24.8
Q ss_pred cCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHhccCCCCeecc-CCCc
Q 044007 264 SCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDLKWQCS-CGTT 336 (378)
Q Consensus 264 ~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~H~g~kp~~C~-C~k~ 336 (378)
.|..||..+ +|..|... +..|...+...|.+|| |....|..|+ ||..
T Consensus 437 ~C~~Cg~v~----------~Cp~Cd~~-lt~H~~~~~L~CH~Cg---------------~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 437 LCRDCGYIA----------ECPNCDSP-LTLHKATGQLRCHYCG---------------YQEPIPQSCPECGSE 484 (730)
T ss_pred ecccCCCcc----------cCCCCCcc-eEEecCCCeeEeCCCC---------------CCCCCCCCCCCCCCC
Confidence 477777553 34444332 2233333456666666 3445666676 6643
No 119
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.01 E-value=9.7 Score=39.10 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=31.7
Q ss_pred ccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHhccCCCCeecc-CCCc
Q 044007 263 YSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDLKWQCS-CGTT 336 (378)
Q Consensus 263 ~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~H~g~kp~~C~-C~k~ 336 (378)
..|..||.. .+|..|.- .+..|.......|.+|| +....|+.|+ |+..
T Consensus 214 ~~C~~Cg~~----------~~C~~C~~-~l~~h~~~~~l~Ch~Cg---------------~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 214 LLCRSCGYI----------LCCPNCDV-SLTYHKKEGKLRCHYCG---------------YQEPIPKTCPQCGSE 262 (505)
T ss_pred eEhhhCcCc----------cCCCCCCC-ceEEecCCCeEEcCCCc---------------CcCCCCCCCCCCCCC
Confidence 468888865 34666643 34445555677888888 3556678899 9864
No 120
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=50.49 E-value=7.4 Score=32.04 Aligned_cols=11 Identities=18% Similarity=0.455 Sum_probs=5.1
Q ss_pred ccCCCCCcccc
Q 044007 263 YSCPQEGCRWN 273 (378)
Q Consensus 263 ~~C~~C~k~F~ 273 (378)
++|..||+.|.
T Consensus 2 H~Ct~Cg~~f~ 12 (131)
T PF09845_consen 2 HQCTKCGRVFE 12 (131)
T ss_pred cccCcCCCCcC
Confidence 34444444444
No 121
>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=50.39 E-value=12 Score=21.62 Aligned_cols=10 Identities=30% Similarity=0.826 Sum_probs=6.4
Q ss_pred cCCCCCcccc
Q 044007 264 SCPQEGCRWN 273 (378)
Q Consensus 264 ~C~~C~k~F~ 273 (378)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5677776664
No 122
>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=50.08 E-value=6.8 Score=26.50 Aligned_cols=9 Identities=33% Similarity=0.726 Sum_probs=5.1
Q ss_pred cccCCCCCc
Q 044007 262 KYSCPQEGC 270 (378)
Q Consensus 262 ~~~C~~C~k 270 (378)
.-.|+.||.
T Consensus 26 ~~~CP~Cg~ 34 (52)
T TIGR02605 26 LATCPECGG 34 (52)
T ss_pred CCCCCCCCC
Confidence 345666664
No 123
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=49.40 E-value=6.6 Score=36.96 Aligned_cols=44 Identities=23% Similarity=0.437 Sum_probs=28.0
Q ss_pred cCCCCCccCCCHHHHHHHHh--ccCCCCeecc-CCCccCChHHHHHHHHHh
Q 044007 303 CKRCNRKQFSVLSDLRTHEK--HCGDLKWQCS-CGTTFSRKDKLMGHVALF 350 (378)
Q Consensus 303 C~~C~~k~F~~~~~L~~H~~--H~g~kp~~C~-C~k~F~~~~~L~~H~~~H 350 (378)
|-.|. -.|..... |-. -+..-.|.|+ |...|-.-.....|...|
T Consensus 365 Cf~CQ-~~fp~~~~---~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 365 CFVCQ-GPFPKPPV---SPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceecc-CCCCCCCC---CcccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 55665 55554321 211 2334568888 888888888888887776
No 124
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=49.10 E-value=5.9 Score=41.53 Aligned_cols=29 Identities=28% Similarity=0.496 Sum_probs=25.5
Q ss_pred CCceecccccccccCHHHHHHHHHHhCCC
Q 044007 203 KYTHYCQVCGKGFKRDANLRMHMRAHGDE 231 (378)
Q Consensus 203 ~~~~~C~~C~k~F~~~~~L~~H~~~H~~~ 231 (378)
...|.|..|+|.|.....+..||++|.-.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 34699999999999999999999999744
No 125
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=48.99 E-value=5.5 Score=23.56 Aligned_cols=19 Identities=0% Similarity=0.076 Sum_probs=11.6
Q ss_pred cccCcchhccCChhhhhhhh
Q 044007 356 AVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 356 y~C~~C~k~F~~~~~L~~H~ 375 (378)
|.|-.|++.| ...+.+.|.
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEE-EGGGTTT--
T ss_pred CeeecCCCCc-CcCCcCCCC
Confidence 4677788887 555666664
No 126
>PHA00626 hypothetical protein
Probab=47.93 E-value=8.2 Score=26.73 Aligned_cols=17 Identities=29% Similarity=0.432 Sum_probs=12.6
Q ss_pred CCceecccccccccCHH
Q 044007 203 KYTHYCQVCGKGFKRDA 219 (378)
Q Consensus 203 ~~~~~C~~C~k~F~~~~ 219 (378)
...|+|+.||..|...+
T Consensus 21 snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 21 SDDYVCCDCGYNDSKDA 37 (59)
T ss_pred CcceEcCCCCCeechhh
Confidence 35788888888887654
No 127
>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=46.90 E-value=11 Score=21.72 Aligned_cols=19 Identities=0% Similarity=-0.261 Sum_probs=13.6
Q ss_pred cccCcchhccCChhhhhhhh
Q 044007 356 AVNVNSTNMYGQKGAATGTN 375 (378)
Q Consensus 356 y~C~~C~k~F~~~~~L~~H~ 375 (378)
..|++|++.+ ....+++|-
T Consensus 2 v~CPiC~~~v-~~~~in~HL 20 (26)
T smart00734 2 VQCPVCFREV-PENLINSHL 20 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHH
Confidence 3588888887 556777774
No 128
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=46.87 E-value=8.3 Score=29.69 Aligned_cols=10 Identities=50% Similarity=1.637 Sum_probs=5.1
Q ss_pred Ceecc-CCCcc
Q 044007 328 KWQCS-CGTTF 337 (378)
Q Consensus 328 p~~C~-C~k~F 337 (378)
.|.|. |++.|
T Consensus 53 IW~C~~C~~~~ 63 (91)
T TIGR00280 53 IWTCRKCGAKF 63 (91)
T ss_pred EEEcCCCCCEE
Confidence 35555 55554
No 129
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=46.22 E-value=19 Score=34.50 Aligned_cols=36 Identities=22% Similarity=0.420 Sum_probs=23.9
Q ss_pred CCceecCCCCCccCCCHHHHHHHHh--ccCCCC-eecc-CC
Q 044007 298 PKMYVCKRCNRKQFSVLSDLRTHEK--HCGDLK-WQCS-CG 334 (378)
Q Consensus 298 ~k~~~C~~C~~k~F~~~~~L~~H~~--H~g~kp-~~C~-C~ 334 (378)
+.-|.|++|+ +.=.+...|..|.. |..-.+ ..|+ |.
T Consensus 77 ~qSftCPyC~-~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 77 PQSFTCPYCG-IMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccCCccc-ccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 4578999999 66556677888876 654432 3455 64
No 130
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=45.42 E-value=6.7 Score=34.36 Aligned_cols=17 Identities=24% Similarity=0.401 Sum_probs=12.9
Q ss_pred CcccCCCCCcccccccc
Q 044007 261 RKYSCPQEGCRWNKKHA 277 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~~ 277 (378)
.-|.|+.|+.+|+.--+
T Consensus 116 ~~Y~Cp~C~~rytf~eA 132 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEA 132 (178)
T ss_pred CEEECCCCCcEEeHHHH
Confidence 56888888888876655
No 131
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.33 E-value=17 Score=28.86 Aligned_cols=14 Identities=14% Similarity=0.128 Sum_probs=10.0
Q ss_pred CceecCCCCCccCCC
Q 044007 299 KMYVCKRCNRKQFSV 313 (378)
Q Consensus 299 k~~~C~~C~~k~F~~ 313 (378)
.|..|++|| ++|..
T Consensus 25 dPiVsPytG-~s~P~ 38 (129)
T COG4530 25 DPIVSPYTG-KSYPR 38 (129)
T ss_pred CccccCccc-ccchH
Confidence 577788888 77743
No 132
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=44.23 E-value=20 Score=28.45 Aligned_cols=27 Identities=22% Similarity=0.351 Sum_probs=23.4
Q ss_pred Cceec----ccccccccCHHHHHHHHHHhCC
Q 044007 204 YTHYC----QVCGKGFKRDANLRMHMRAHGD 230 (378)
Q Consensus 204 ~~~~C----~~C~k~F~~~~~L~~H~~~H~~ 230 (378)
.-|.| ..|+..+.+...+..|++.++|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 34789 9999999999999999987664
No 133
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=44.18 E-value=12 Score=30.78 Aligned_cols=22 Identities=36% Similarity=0.567 Sum_probs=19.4
Q ss_pred ecccccccccCHHHHHHHHHHhCCC
Q 044007 207 YCQVCGKGFKRDANLRMHMRAHGDE 231 (378)
Q Consensus 207 ~C~~C~k~F~~~~~L~~H~~~H~~~ 231 (378)
.|-++||.|+ .|++|+.+|.+-
T Consensus 78 icLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEeccCcchH---HHHHHHhcccCC
Confidence 5999999998 699999998775
No 134
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=44.11 E-value=19 Score=22.01 Aligned_cols=11 Identities=36% Similarity=0.788 Sum_probs=5.3
Q ss_pred CcccCCCCCcc
Q 044007 261 RKYSCPQEGCR 271 (378)
Q Consensus 261 k~~~C~~C~k~ 271 (378)
.+..|+.||.+
T Consensus 16 ~~irC~~CG~R 26 (32)
T PF03604_consen 16 DPIRCPECGHR 26 (32)
T ss_dssp STSSBSSSS-S
T ss_pred CcEECCcCCCe
Confidence 34556666643
No 135
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=43.06 E-value=7.6 Score=40.87 Aligned_cols=81 Identities=16% Similarity=0.198 Sum_probs=48.2
Q ss_pred CCCcCCcchhhHHHhhhccCCCCce-ecccccccccCHHHHHHHHHHhCCCCc-cccCCCCcccCCCCccccchhhhhcC
Q 044007 182 RESFSEIDCDIIELVAGDLLAKYTH-YCQVCGKGFKRDANLRMHMRAHGDEYK-TTAALTNPLKKNGSSMGNNNESAIKI 259 (378)
Q Consensus 182 ~~~~~~~~c~~~~~~~~~~~~~~~~-~C~~C~k~F~~~~~L~~H~~~H~~~~~-~~C~~c~~~~~~~~~l~~h~~~~h~~ 259 (378)
.+.-.|..|-.-..++.+..=..|| .|..||-.|+-...|--- |.++.-.. -.|+.|.+.+....+-+-| .
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfH-----A- 171 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFH-----A- 171 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCccccccc-----c-
Confidence 3444566666555555444444455 599999999876554322 11222222 3488888877776664444 2
Q ss_pred CCcccCCCCCc
Q 044007 260 ARKYSCPQEGC 270 (378)
Q Consensus 260 ~k~~~C~~C~k 270 (378)
.|..|+.||=
T Consensus 172 -Qp~aCp~CGP 181 (750)
T COG0068 172 -QPIACPKCGP 181 (750)
T ss_pred -ccccCcccCC
Confidence 5678888884
No 136
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=42.04 E-value=10 Score=29.21 Aligned_cols=10 Identities=50% Similarity=1.693 Sum_probs=4.8
Q ss_pred Ceecc-CCCcc
Q 044007 328 KWQCS-CGTTF 337 (378)
Q Consensus 328 p~~C~-C~k~F 337 (378)
.|.|. |++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PRK03976 54 IWECRKCGAKF 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 34555 55444
No 137
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=41.92 E-value=5.9 Score=29.18 Aligned_cols=7 Identities=29% Similarity=1.141 Sum_probs=3.6
Q ss_pred eecCCCC
Q 044007 301 YVCKRCN 307 (378)
Q Consensus 301 ~~C~~C~ 307 (378)
+.|+.||
T Consensus 2 m~CP~Cg 8 (72)
T PRK09678 2 FHCPLCQ 8 (72)
T ss_pred ccCCCCC
Confidence 3455555
No 138
>PRK04023 DNA polymerase II large subunit; Validated
Probab=40.60 E-value=25 Score=38.69 Aligned_cols=8 Identities=25% Similarity=0.858 Sum_probs=6.2
Q ss_pred ceecCCCC
Q 044007 300 MYVCKRCN 307 (378)
Q Consensus 300 ~~~C~~C~ 307 (378)
++.|+.||
T Consensus 663 ~y~CPKCG 670 (1121)
T PRK04023 663 EDECEKCG 670 (1121)
T ss_pred CCcCCCCC
Confidence 46788888
No 139
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=40.35 E-value=10 Score=21.54 Aligned_cols=8 Identities=25% Similarity=0.115 Sum_probs=4.3
Q ss_pred CcccCcch
Q 044007 355 PAVNVNST 362 (378)
Q Consensus 355 py~C~~C~ 362 (378)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555554
No 140
>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=40.25 E-value=9.5 Score=32.69 Aligned_cols=17 Identities=24% Similarity=0.456 Sum_probs=13.2
Q ss_pred CcccCCCCCcccccccc
Q 044007 261 RKYSCPQEGCRWNKKHA 277 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~~ 277 (378)
.-|.|+.|+.+|+.--+
T Consensus 108 ~~Y~Cp~c~~r~tf~eA 124 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEA 124 (158)
T ss_pred CeEECCCCCcEeeHHHH
Confidence 66888888888876665
No 141
>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=40.11 E-value=23 Score=28.06 Aligned_cols=24 Identities=17% Similarity=0.462 Sum_probs=18.8
Q ss_pred CceecccccccccCHHHHHHHHHHh
Q 044007 204 YTHYCQVCGKGFKRDANLRMHMRAH 228 (378)
Q Consensus 204 ~~~~C~~C~k~F~~~~~L~~H~~~H 228 (378)
+...|..|+.+... +.+..|++..
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~ 33 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKR 33 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHh
Confidence 45679999988776 7899999843
No 142
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=39.93 E-value=18 Score=33.28 Aligned_cols=75 Identities=16% Similarity=0.283 Sum_probs=43.4
Q ss_pred cccCCCceecCCCCCccCCCHHHHHHHHh---ccCCCCeecc-CCCccCChHHH-------HHHHHH----hcCCCCccc
Q 044007 294 RSHCPKMYVCKRCNRKQFSVLSDLRTHEK---HCGDLKWQCS-CGTTFSRKDKL-------MGHVAL----FVGHTPAVN 358 (378)
Q Consensus 294 ~h~~~k~~~C~~C~~k~F~~~~~L~~H~~---H~g~kp~~C~-C~k~F~~~~~L-------~~H~~~----H~~~kpy~C 358 (378)
..||++.|+|..|. . |-=.-.--.|+. -.....|+|. |++- -+-+-| ..|+|. -...++++|
T Consensus 136 w~hGGrif~CsfC~-~-flCEDDQFEHQAsCQvLe~E~~KC~SCNrl-Gq~sCLRCK~cfCddHvrrKg~ky~k~k~~PC 212 (314)
T PF06524_consen 136 WDHGGRIFKCSFCD-N-FLCEDDQFEHQASCQVLESETFKCQSCNRL-GQYSCLRCKICFCDDHVRRKGFKYEKGKPIPC 212 (314)
T ss_pred ccCCCeEEEeecCC-C-eeeccchhhhhhhhhhhhcccccccccccc-cchhhhheeeeehhhhhhhcccccccCCCCCC
Confidence 35677899999997 3 433333334543 2233457777 7653 222222 245532 123489999
Q ss_pred CcchhccCChhhh
Q 044007 359 VNSTNMYGQKGAA 371 (378)
Q Consensus 359 ~~C~k~F~~~~~L 371 (378)
+.||..-..-..|
T Consensus 213 PKCg~et~eTkdL 225 (314)
T PF06524_consen 213 PKCGYETQETKDL 225 (314)
T ss_pred CCCCCcccccccc
Confidence 9999876666555
No 143
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=39.76 E-value=16 Score=27.96 Aligned_cols=14 Identities=21% Similarity=0.517 Sum_probs=8.4
Q ss_pred CcccCCCCCccccc
Q 044007 261 RKYSCPQEGCRWNK 274 (378)
Q Consensus 261 k~~~C~~C~k~F~~ 274 (378)
+|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 45566666666654
No 144
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=39.68 E-value=23 Score=33.78 Aligned_cols=10 Identities=30% Similarity=0.916 Sum_probs=7.1
Q ss_pred ceeccccccc
Q 044007 205 THYCQVCGKG 214 (378)
Q Consensus 205 ~~~C~~C~k~ 214 (378)
.-.|++||..
T Consensus 184 ~~~CPvCGs~ 193 (305)
T TIGR01562 184 RTLCPACGSP 193 (305)
T ss_pred CCcCCCCCCh
Confidence 3479999863
No 145
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=39.02 E-value=15 Score=25.44 Aligned_cols=41 Identities=12% Similarity=0.111 Sum_probs=20.5
Q ss_pred CCCeecc--CCCccCChHHHHHHHHHhcCCCCcccCc----chhccC
Q 044007 326 DLKWQCS--CGTTFSRKDKLMGHVALFVGHTPAVNVN----STNMYG 366 (378)
Q Consensus 326 ~kp~~C~--C~k~F~~~~~L~~H~~~H~~~kpy~C~~----C~k~F~ 366 (378)
..+..|+ |+..-..+..|..|+..-=..++..|+. |+..+.
T Consensus 7 ~~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp TSEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CCEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 3456675 5543223446777777544556677777 777654
No 146
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=38.99 E-value=15 Score=33.75 Aligned_cols=18 Identities=28% Similarity=0.501 Sum_probs=8.7
Q ss_pred CceecCCCCCccCCCHHHH
Q 044007 299 KMYVCKRCNRKQFSVLSDL 317 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~~~L 317 (378)
+++.|+.|| .....-..|
T Consensus 208 k~~PCPKCg-~et~eTkdL 225 (314)
T PF06524_consen 208 KPIPCPKCG-YETQETKDL 225 (314)
T ss_pred CCCCCCCCC-Ccccccccc
Confidence 556666666 433333333
No 147
>PF14353 CpXC: CpXC protein
Probab=38.83 E-value=21 Score=29.11 Aligned_cols=17 Identities=24% Similarity=0.698 Sum_probs=12.0
Q ss_pred ceecCCCCCccCCCHHHH
Q 044007 300 MYVCKRCNRKQFSVLSDL 317 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L 317 (378)
.|.|+.|| ..|.....+
T Consensus 38 ~~~CP~Cg-~~~~~~~p~ 54 (128)
T PF14353_consen 38 SFTCPSCG-HKFRLEYPL 54 (128)
T ss_pred EEECCCCC-CceecCCCE
Confidence 58899999 777655443
No 148
>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=38.70 E-value=17 Score=32.78 Aligned_cols=30 Identities=30% Similarity=0.481 Sum_probs=22.3
Q ss_pred CCCceecccccccccCHHHHHHHHHHhCCC
Q 044007 202 AKYTHYCQVCGKGFKRDANLRMHMRAHGDE 231 (378)
Q Consensus 202 ~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~ 231 (378)
.+..|.|..|+|.|+-..-.+.|+..-+.+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 445699999999999999999999764444
No 149
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=38.53 E-value=11 Score=34.44 Aligned_cols=38 Identities=13% Similarity=0.197 Sum_probs=19.9
Q ss_pred cccCCCCcccCCCCccccchhhhhcCCCcccCCCCCccccc
Q 044007 234 TTAALTNPLKKNGSSMGNNNESAIKIARKYSCPQEGCRWNK 274 (378)
Q Consensus 234 ~~C~~c~~~~~~~~~l~~h~~~~h~~~k~~~C~~C~k~F~~ 274 (378)
|.|..|+...... .+-.|..+-+. ..|+|-.|++.|..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn--~~fSCIDC~k~F~~ 41 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN--AYFSCIDCGKTFER 41 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC--CeeEEeeccccccc
Confidence 4566666554333 23334433333 55666666666655
No 150
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=37.10 E-value=19 Score=29.66 Aligned_cols=13 Identities=38% Similarity=1.014 Sum_probs=7.8
Q ss_pred ceecccccccccC
Q 044007 205 THYCQVCGKGFKR 217 (378)
Q Consensus 205 ~~~C~~C~k~F~~ 217 (378)
||+|..||+.|..
T Consensus 1 PH~Ct~Cg~~f~d 13 (131)
T PF09845_consen 1 PHQCTKCGRVFED 13 (131)
T ss_pred CcccCcCCCCcCC
Confidence 4566666666664
No 151
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=36.92 E-value=15 Score=31.10 Aligned_cols=32 Identities=28% Similarity=0.886 Sum_probs=18.4
Q ss_pred CceecCCCCCccCCCHHHHHHHHh-ccCCCCeecc-CCCc
Q 044007 299 KMYVCKRCNRKQFSVLSDLRTHEK-HCGDLKWQCS-CGTT 336 (378)
Q Consensus 299 k~~~C~~C~~k~F~~~~~L~~H~~-H~g~kp~~C~-C~k~ 336 (378)
-+|.|. |+ ..|-+. ++|-. -.|+ .|.|. |+-.
T Consensus 116 ~~Y~C~-C~-q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQ-QHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cC-Cccchh---hhcccccccc-eEEeccCCce
Confidence 368888 88 554443 23333 3355 68887 7643
No 152
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.68 E-value=17 Score=35.96 Aligned_cols=16 Identities=13% Similarity=0.563 Sum_probs=7.5
Q ss_pred CCCeecc-CCCccCChH
Q 044007 326 DLKWQCS-CGTTFSRKD 341 (378)
Q Consensus 326 ~kp~~C~-C~k~F~~~~ 341 (378)
..-|.|+ |.+.|+...
T Consensus 126 ~~~Y~Cp~C~kkyt~Le 142 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLE 142 (436)
T ss_pred cccccCCccccchhhhH
Confidence 3345555 555554433
No 153
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=34.48 E-value=14 Score=22.20 Aligned_cols=12 Identities=8% Similarity=-0.108 Sum_probs=6.5
Q ss_pred CCCCcccCcchh
Q 044007 352 GHTPAVNVNSTN 363 (378)
Q Consensus 352 ~~kpy~C~~C~k 363 (378)
....|.|+.|+.
T Consensus 16 D~~~~vCp~C~~ 27 (30)
T PF08274_consen 16 DGELLVCPECGH 27 (30)
T ss_dssp -SSSEEETTTTE
T ss_pred cCCEEeCCcccc
Confidence 334566666654
No 154
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=33.78 E-value=44 Score=30.66 Aligned_cols=14 Identities=14% Similarity=0.570 Sum_probs=8.4
Q ss_pred CcccCCCCCccccc
Q 044007 261 RKYSCPQEGCRWNK 274 (378)
Q Consensus 261 k~~~C~~C~k~F~~ 274 (378)
..|.|+.|+..|+.
T Consensus 154 aef~C~~C~h~F~G 167 (278)
T PF15135_consen 154 AEFHCPKCRHNFRG 167 (278)
T ss_pred eeeecccccccchh
Confidence 34666666666653
No 155
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=33.35 E-value=28 Score=28.23 Aligned_cols=28 Identities=25% Similarity=0.522 Sum_probs=24.1
Q ss_pred cCCCCceecccccccccCHHHHHHHHHH
Q 044007 200 LLAKYTHYCQVCGKGFKRDANLRMHMRA 227 (378)
Q Consensus 200 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~ 227 (378)
+-+-..|.|-.|.+-|.+...|..|.++
T Consensus 52 lPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 52 LPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 4455679999999999999999999865
No 156
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=33.30 E-value=24 Score=25.24 Aligned_cols=14 Identities=21% Similarity=0.273 Sum_probs=6.0
Q ss_pred CcccCCCCCccccc
Q 044007 261 RKYSCPQEGCRWNK 274 (378)
Q Consensus 261 k~~~C~~C~k~F~~ 274 (378)
+.+.|..||..|-.
T Consensus 24 rrhhCr~CG~~vC~ 37 (69)
T PF01363_consen 24 RRHHCRNCGRVVCS 37 (69)
T ss_dssp -EEE-TTT--EEEC
T ss_pred eeEccCCCCCEECC
Confidence 55667777766643
No 157
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=32.78 E-value=26 Score=27.46 Aligned_cols=14 Identities=29% Similarity=0.524 Sum_probs=9.2
Q ss_pred ceecCCCCCccCCCH
Q 044007 300 MYVCKRCNRKQFSVL 314 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~ 314 (378)
|+.|..|| ..|..-
T Consensus 2 pH~CtrCG-~vf~~g 15 (112)
T COG3364 2 PHQCTRCG-EVFDDG 15 (112)
T ss_pred Cceecccc-cccccc
Confidence 56677777 666663
No 158
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.57 E-value=42 Score=31.62 Aligned_cols=56 Identities=20% Similarity=0.338 Sum_probs=36.9
Q ss_pred CcccCCCCCcccccc-ccCCCcccchhhcccccccccCCCceecCCCCCc----cCCCHHHHHHHHh
Q 044007 261 RKYSCPQEGCRWNKK-HAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRK----QFSVLSDLRTHEK 322 (378)
Q Consensus 261 k~~~C~~C~k~F~~~-~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k----~F~~~~~L~~H~~ 322 (378)
-||.|.+|.+.|... ...-+||-|..|...+++.. =+|-+|+ + .|.....|..-+.
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~-----~~c~vC~-~~t~g~~~~akeL~~~L~ 300 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKG-----EKCYVCS-QQTHGSFNVAKELLVSLK 300 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhccccccC-----Ccceecc-cccccccchHHHHHHHHH
Confidence 688999999988765 33447788888887776542 2455555 3 4555666665554
No 159
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=32.34 E-value=23 Score=29.43 Aligned_cols=21 Identities=38% Similarity=0.945 Sum_probs=7.8
Q ss_pred eecCCCCCccCCCHHHHHHHHh-ccC
Q 044007 301 YVCKRCNRKQFSVLSDLRTHEK-HCG 325 (378)
Q Consensus 301 ~~C~~C~~k~F~~~~~L~~H~~-H~g 325 (378)
..|-.|| |.|... ++|++ |.|
T Consensus 73 i~clecG-k~~k~L---krHL~~~~g 94 (132)
T PF05443_consen 73 IICLECG-KKFKTL---KRHLRTHHG 94 (132)
T ss_dssp EE-TBT---EESBH---HHHHHHTT-
T ss_pred eEEccCC-cccchH---HHHHHHccC
Confidence 4455555 444432 44444 433
No 160
>PF15269 zf-C2H2_7: Zinc-finger
Probab=32.00 E-value=35 Score=22.49 Aligned_cols=26 Identities=19% Similarity=0.327 Sum_probs=21.7
Q ss_pred CCCceecccccccccCHHHHHHHHHH
Q 044007 202 AKYTHYCQVCGKGFKRDANLRMHMRA 227 (378)
Q Consensus 202 ~~~~~~C~~C~k~F~~~~~L~~H~~~ 227 (378)
....|+|-+|......++.|-.||+-
T Consensus 17 kp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 17 KPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCccceeecCCcccchHHHHHHHHHH
Confidence 34568999999999999999999864
No 161
>PRK05580 primosome assembly protein PriA; Validated
Probab=31.48 E-value=29 Score=37.09 Aligned_cols=48 Identities=19% Similarity=0.441 Sum_probs=30.8
Q ss_pred ccCCCCCccccccccCCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHHHhccCCCCeecc-CCCc
Q 044007 263 YSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDLKWQCS-CGTT 336 (378)
Q Consensus 263 ~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H~~H~g~kp~~C~-C~k~ 336 (378)
..|..||.. .+|..|.- .+..|...+...|..|| +....|+.|+ ||..
T Consensus 382 ~~C~~Cg~~----------~~C~~C~~-~l~~h~~~~~l~Ch~Cg---------------~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 382 LLCRDCGWV----------AECPHCDA-SLTLHRFQRRLRCHHCG---------------YQEPIPKACPECGST 430 (679)
T ss_pred eEhhhCcCc----------cCCCCCCC-ceeEECCCCeEECCCCc---------------CCCCCCCCCCCCcCC
Confidence 567777755 34555554 33444445667888888 3556678899 9765
No 162
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=31.22 E-value=15 Score=35.33 Aligned_cols=21 Identities=19% Similarity=0.599 Sum_probs=11.0
Q ss_pred CCCeecc-CCCccCChHHHHHH
Q 044007 326 DLKWQCS-CGTTFSRKDKLMGH 346 (378)
Q Consensus 326 ~kp~~C~-C~k~F~~~~~L~~H 346 (378)
.|+|+|+ |.++++....|.-|
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCcccChhhhhhhccCCCCCce
Confidence 4556666 66555554444333
No 163
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=30.46 E-value=32 Score=22.25 Aligned_cols=9 Identities=33% Similarity=0.866 Sum_probs=5.2
Q ss_pred CceecCCCC
Q 044007 299 KMYVCKRCN 307 (378)
Q Consensus 299 k~~~C~~C~ 307 (378)
.-+.|..||
T Consensus 18 g~~vC~~CG 26 (43)
T PF08271_consen 18 GELVCPNCG 26 (43)
T ss_dssp TEEEETTT-
T ss_pred CeEECCCCC
Confidence 346777777
No 164
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=30.08 E-value=16 Score=30.81 Aligned_cols=8 Identities=38% Similarity=1.153 Sum_probs=4.4
Q ss_pred ceecCCCC
Q 044007 300 MYVCKRCN 307 (378)
Q Consensus 300 ~~~C~~C~ 307 (378)
.|.|..||
T Consensus 112 ~l~C~~Cg 119 (146)
T PF07295_consen 112 TLVCENCG 119 (146)
T ss_pred eEecccCC
Confidence 45555555
No 165
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=30.05 E-value=13 Score=23.40 Aligned_cols=11 Identities=18% Similarity=-0.000 Sum_probs=5.4
Q ss_pred CcccCcchhcc
Q 044007 355 PAVNVNSTNMY 365 (378)
Q Consensus 355 py~C~~C~k~F 365 (378)
+=+|+.||-.+
T Consensus 21 ~~~Cd~cg~~L 31 (36)
T PF05191_consen 21 EGVCDNCGGEL 31 (36)
T ss_dssp TTBCTTTTEBE
T ss_pred CCccCCCCCee
Confidence 34555555443
No 166
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=29.97 E-value=31 Score=35.59 Aligned_cols=32 Identities=28% Similarity=0.514 Sum_probs=27.7
Q ss_pred cCCCCceecccccccccCHHHHHHHHHHhCCC
Q 044007 200 LLAKYTHYCQVCGKGFKRDANLRMHMRAHGDE 231 (378)
Q Consensus 200 ~~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~ 231 (378)
+...++.+|..||.+|........||..|...
T Consensus 413 Ly~~~pnqC~~CG~R~~~~ee~sk~md~H~dw 444 (579)
T KOG2071|consen 413 LYKDSPNQCKSCGLRFDDSEERSKHMDIHDDW 444 (579)
T ss_pred hccCCcchhcccccccccchhhhhHhhhhhhh
Confidence 45677889999999999999999999888765
No 167
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=29.97 E-value=37 Score=23.01 Aligned_cols=9 Identities=22% Similarity=0.959 Sum_probs=6.2
Q ss_pred CceecCCCC
Q 044007 299 KMYVCKRCN 307 (378)
Q Consensus 299 k~~~C~~C~ 307 (378)
..+.|..||
T Consensus 36 ~r~~C~~Cg 44 (50)
T PRK00432 36 DRWHCGKCG 44 (50)
T ss_pred CcEECCCcC
Confidence 456777777
No 168
>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=29.35 E-value=36 Score=30.74 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=21.0
Q ss_pred CCCceecCCCCCccCCCHHHHHHHHh--cc
Q 044007 297 CPKMYVCKRCNRKQFSVLSDLRTHEK--HC 324 (378)
Q Consensus 297 ~~k~~~C~~C~~k~F~~~~~L~~H~~--H~ 324 (378)
.+..|.|..|+ |.|.-....+.|+. |.
T Consensus 74 ~~~K~~C~lc~-KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCG-KLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS--EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCC-cccCChHHHHHHHhhcCH
Confidence 44569999999 99999999999998 76
No 169
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=28.97 E-value=13 Score=39.19 Aligned_cols=54 Identities=22% Similarity=0.472 Sum_probs=31.3
Q ss_pred cccCCCCCcccccccc-CCCcccchhhcccccccccCCCceecCCCCCccCCCHHHHHHH
Q 044007 262 KYSCPQEGCRWNKKHA-KFQPLKSMICAKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTH 320 (378)
Q Consensus 262 ~~~C~~C~k~F~~~~~-~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k~F~~~~~L~~H 320 (378)
-..|+.|..+|...-- .=.|.-|..|.+.-+.+ +.=+||.|+ ..|...-.+..|
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~et----RqRKCP~Cn-~aFganDv~~I~ 697 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYET----RQRKCPKCN-AAFGANDVHRIH 697 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHH----hcCCCCCCC-CCCCcccccccC
Confidence 3579999877765421 11233455666654433 234788888 788765544433
No 170
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=28.11 E-value=46 Score=37.65 Aligned_cols=6 Identities=50% Similarity=1.519 Sum_probs=3.1
Q ss_pred ecCCCC
Q 044007 302 VCKRCN 307 (378)
Q Consensus 302 ~C~~C~ 307 (378)
.|+.|+
T Consensus 711 ~CP~CG 716 (1337)
T PRK14714 711 ECPRCD 716 (1337)
T ss_pred cCCCCC
Confidence 455555
No 171
>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=27.44 E-value=43 Score=22.02 Aligned_cols=10 Identities=40% Similarity=0.933 Sum_probs=6.5
Q ss_pred CCceecCCCC
Q 044007 298 PKMYVCKRCN 307 (378)
Q Consensus 298 ~k~~~C~~C~ 307 (378)
...|+|..|+
T Consensus 35 ~~~~~C~~C~ 44 (46)
T PF12760_consen 35 RGRYRCKACR 44 (46)
T ss_pred CCeEECCCCC
Confidence 3567777776
No 172
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=27.04 E-value=12 Score=39.39 Aligned_cols=24 Identities=0% Similarity=-0.168 Sum_probs=20.3
Q ss_pred CcccCcchhccCChhhhhhhhcCC
Q 044007 355 PAVNVNSTNMYGQKGAATGTNAIT 378 (378)
Q Consensus 355 py~C~~C~k~F~~~~~L~~H~rv~ 378 (378)
-|.|.+|+|.|..-.+++.||+.|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 488999999999999998888643
No 173
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=26.69 E-value=8.7 Score=24.72 Aligned_cols=7 Identities=57% Similarity=1.777 Sum_probs=3.9
Q ss_pred eecCCCC
Q 044007 301 YVCKRCN 307 (378)
Q Consensus 301 ~~C~~C~ 307 (378)
|.|..|+
T Consensus 29 y~C~~C~ 35 (40)
T smart00440 29 YVCTKCG 35 (40)
T ss_pred EEeCCCC
Confidence 5555555
No 174
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=26.35 E-value=50 Score=37.39 Aligned_cols=26 Identities=15% Similarity=0.382 Sum_probs=14.8
Q ss_pred Ceecc-CCCccCChHHHHHHHHHhcCCCCcccCcchhc
Q 044007 328 KWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVNSTNM 364 (378)
Q Consensus 328 p~~C~-C~k~F~~~~~L~~H~~~H~~~kpy~C~~C~k~ 364 (378)
+|.|+ ||....... ++ ...|+.||.-
T Consensus 692 vy~CPsCGaev~~de---------s~--a~~CP~CGtp 718 (1337)
T PRK14714 692 VYVCPDCGAEVPPDE---------SG--RVECPRCDVE 718 (1337)
T ss_pred ceeCccCCCccCCCc---------cc--cccCCCCCCc
Confidence 57788 887543211 11 3468888754
No 175
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=26.18 E-value=54 Score=20.91 Aligned_cols=15 Identities=20% Similarity=0.587 Sum_probs=8.8
Q ss_pred ccccCCCceecCCCC
Q 044007 293 KRSHCPKMYVCKRCN 307 (378)
Q Consensus 293 ~~h~~~k~~~C~~C~ 307 (378)
....+.+.|.|..|+
T Consensus 17 ~~~~~~~~w~C~~C~ 31 (40)
T PF04810_consen 17 QFDDGGKTWICNFCG 31 (40)
T ss_dssp EEETTTTEEEETTT-
T ss_pred eEcCCCCEEECcCCC
Confidence 334455677777777
No 176
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=26.07 E-value=55 Score=27.79 Aligned_cols=10 Identities=20% Similarity=-0.051 Sum_probs=2.5
Q ss_pred CCcccCcchh
Q 044007 354 TPAVNVNSTN 363 (378)
Q Consensus 354 kpy~C~~C~k 363 (378)
....|-.||-
T Consensus 59 t~leCy~Cg~ 68 (152)
T PF09416_consen 59 TVLECYNCGS 68 (152)
T ss_dssp -B---TTT--
T ss_pred cEEEEEecCC
Confidence 3456666654
No 177
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=25.89 E-value=42 Score=33.42 Aligned_cols=10 Identities=40% Similarity=0.856 Sum_probs=5.9
Q ss_pred cCCCCCcccc
Q 044007 264 SCPQEGCRWN 273 (378)
Q Consensus 264 ~C~~C~k~F~ 273 (378)
.|+.||.+..
T Consensus 352 ~Cp~Cg~~m~ 361 (421)
T COG1571 352 VCPRCGGRMK 361 (421)
T ss_pred CCCccCCchh
Confidence 5666666543
No 178
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=25.53 E-value=47 Score=21.18 Aligned_cols=16 Identities=19% Similarity=0.476 Sum_probs=13.2
Q ss_pred cccCCCCCcccccccc
Q 044007 262 KYSCPQEGCRWNKKHA 277 (378)
Q Consensus 262 ~~~C~~C~k~F~~~~~ 277 (378)
+|.|+.|++.|-.+|.
T Consensus 12 ~f~C~~C~~~FC~~HR 27 (39)
T smart00154 12 GFKCRHCGNLFCGEHR 27 (39)
T ss_pred CeECCccCCccccccC
Confidence 7889999999877665
No 179
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=25.46 E-value=48 Score=22.63 Aligned_cols=12 Identities=33% Similarity=1.345 Sum_probs=6.2
Q ss_pred eecc-CCCccCCh
Q 044007 329 WQCS-CGTTFSRK 340 (378)
Q Consensus 329 ~~C~-C~k~F~~~ 340 (378)
|+|. ||..|..+
T Consensus 29 W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 29 WKCPKCGHEWKAS 41 (55)
T ss_pred EECCCCCCeeEcc
Confidence 5555 55555443
No 180
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=25.35 E-value=48 Score=21.42 Aligned_cols=22 Identities=23% Similarity=0.341 Sum_probs=13.2
Q ss_pred cccchhhcccccccccCCCceecCCCC
Q 044007 281 PLKSMICAKNHYKRSHCPKMYVCKRCN 307 (378)
Q Consensus 281 ~~~c~~c~~~H~~~h~~~k~~~C~~C~ 307 (378)
|.-|..|+.... .+...|++|+
T Consensus 22 H~~C~~C~~~~~-----~~~~~CP~C~ 43 (44)
T PF14634_consen 22 HIFCEKCLKKLK-----GKSVKCPICR 43 (44)
T ss_pred CHHHHHHHHhhc-----CCCCCCcCCC
Confidence 334555665554 4567788886
No 181
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=25.14 E-value=75 Score=31.38 Aligned_cols=125 Identities=16% Similarity=0.298 Sum_probs=67.0
Q ss_pred CCceec--ccccccccCHHHHHHHHHHhCCC------------Ccccc--CCCCcccCCCCccccchhhhhcC-----C-
Q 044007 203 KYTHYC--QVCGKGFKRDANLRMHMRAHGDE------------YKTTA--ALTNPLKKNGSSMGNNNESAIKI-----A- 260 (378)
Q Consensus 203 ~~~~~C--~~C~k~F~~~~~L~~H~~~H~~~------------~~~~C--~~c~~~~~~~~~l~~h~~~~h~~-----~- 260 (378)
...|.| +.|+..+.++....+|..+|... -.|-| ..|.+ +.+.++.| ..-|+. -
T Consensus 269 rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h-~nFht~~~n~Gfr 344 (480)
T KOG4377|consen 269 REHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLH-DNFHTDKRNNGFR 344 (480)
T ss_pred chhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---cccccccc-CccccccccCcee
Confidence 345677 67988888899999999888644 11233 34555 33333333 222221 1
Q ss_pred -CcccCCCCCccccccccCCCcccchhhcccccccccCC-----Ccee---cCCCCCccCCCHHHHHHHHhccCCCCeec
Q 044007 261 -RKYSCPQEGCRWNKKHAKFQPLKSMICAKNHYKRSHCP-----KMYV---CKRCNRKQFSVLSDLRTHEKHCGDLKWQC 331 (378)
Q Consensus 261 -k~~~C~~C~k~F~~~~~~~k~~~c~~c~~~H~~~h~~~-----k~~~---C~~C~~k~F~~~~~L~~H~~H~g~kp~~C 331 (378)
-.|.|.-||+++..+-..-+ ..|++-+.++ |-|+ |.+=+ -.|+... .-|.|
T Consensus 345 rthfhC~r~gCTdtfK~~khk--------~yh~kdda~~~dGfkkf~k~e~cay~g-Ckys~~c-----------nhfhc 404 (480)
T KOG4377|consen 345 RTHFHCQRIGCTDTFKDSKHK--------PYHYKDDAGEIDGFKKFFKDENCAYTG-CKYSGIC-----------NHFHC 404 (480)
T ss_pred cceeEEeccCCcccccccccc--------ccccCcchhhhhhhhhhhccccCCccC-cccccce-----------eeeee
Confidence 23677777766655522111 1233333222 2222 32212 1122211 12567
Q ss_pred c---CCCccCChHHHHHHHHHhc
Q 044007 332 S---CGTTFSRKDKLMGHVALFV 351 (378)
Q Consensus 332 ~---C~k~F~~~~~L~~H~~~H~ 351 (378)
. |+.+|...+.+..|.|.|.
T Consensus 405 ~r~Gc~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 405 DRLGCEATLYSVSQMASHKRKHE 427 (480)
T ss_pred cccCCceEEEehhhhhhhhhhhh
Confidence 5 9999999999988888874
No 182
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=24.58 E-value=17 Score=30.57 Aligned_cols=8 Identities=38% Similarity=1.248 Sum_probs=4.6
Q ss_pred ceecCCCC
Q 044007 300 MYVCKRCN 307 (378)
Q Consensus 300 ~~~C~~C~ 307 (378)
.|.|..|+
T Consensus 123 ~~~C~~C~ 130 (157)
T PF10263_consen 123 VYRCPSCG 130 (157)
T ss_pred EEEcCCCC
Confidence 35566665
No 183
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=24.55 E-value=14 Score=35.90 Aligned_cols=8 Identities=38% Similarity=1.302 Sum_probs=2.8
Q ss_pred ceecCCCC
Q 044007 300 MYVCKRCN 307 (378)
Q Consensus 300 ~~~C~~C~ 307 (378)
.|+|..|+
T Consensus 285 FFkC~~C~ 292 (344)
T PF09332_consen 285 FFKCKDCG 292 (344)
T ss_dssp EEE-T-TS
T ss_pred eEECCCCC
Confidence 34444444
No 184
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=23.78 E-value=8.7 Score=25.96 Aligned_cols=13 Identities=23% Similarity=0.396 Sum_probs=7.5
Q ss_pred cccCCCCCccccc
Q 044007 262 KYSCPQEGCRWNK 274 (378)
Q Consensus 262 ~~~C~~C~k~F~~ 274 (378)
.|.|+.|.-.|..
T Consensus 7 ry~CDLCn~~~p~ 19 (57)
T PF14445_consen 7 RYSCDLCNSSHPI 19 (57)
T ss_pred hHhHHhhcccCcH
Confidence 4666666655543
No 185
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=23.44 E-value=57 Score=22.11 Aligned_cols=13 Identities=23% Similarity=0.439 Sum_probs=7.8
Q ss_pred CcccCCCCCcccc
Q 044007 261 RKYSCPQEGCRWN 273 (378)
Q Consensus 261 k~~~C~~C~k~F~ 273 (378)
+.+.|..||+.|-
T Consensus 17 rk~~Cr~Cg~~~C 29 (57)
T cd00065 17 RRHHCRNCGRIFC 29 (57)
T ss_pred cccccCcCcCCcC
Confidence 4456666666654
No 186
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.30 E-value=14 Score=38.94 Aligned_cols=12 Identities=25% Similarity=0.509 Sum_probs=6.3
Q ss_pred cCCCCCcccccc
Q 044007 264 SCPQEGCRWNKK 275 (378)
Q Consensus 264 ~C~~C~k~F~~~ 275 (378)
.|..||=+|+--
T Consensus 125 ~CT~CGPRfTIi 136 (750)
T COG0068 125 NCTNCGPRFTII 136 (750)
T ss_pred ccCCCCcceeee
Confidence 355566555533
No 187
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.13 E-value=43 Score=26.91 Aligned_cols=14 Identities=14% Similarity=0.382 Sum_probs=10.3
Q ss_pred CceecccccccccC
Q 044007 204 YTHYCQVCGKGFKR 217 (378)
Q Consensus 204 ~~~~C~~C~k~F~~ 217 (378)
-.++|..||..|..
T Consensus 69 ~~~~C~~Cg~~~~~ 82 (113)
T PRK12380 69 AQAWCWDCSQVVEI 82 (113)
T ss_pred cEEEcccCCCEEec
Confidence 45789999877763
No 188
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=23.05 E-value=21 Score=22.49 Aligned_cols=8 Identities=25% Similarity=1.053 Sum_probs=3.5
Q ss_pred CCCCeecc
Q 044007 325 GDLKWQCS 332 (378)
Q Consensus 325 g~kp~~C~ 332 (378)
|...|+|.
T Consensus 26 G~qryrC~ 33 (36)
T PF03811_consen 26 GHQRYRCK 33 (36)
T ss_pred CCEeEecC
Confidence 33444444
No 189
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=22.93 E-value=70 Score=31.83 Aligned_cols=38 Identities=11% Similarity=0.077 Sum_probs=23.1
Q ss_pred CCCCceecccccccccCHHHHHHHHHHhCCCCccccCCCCc
Q 044007 201 LAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTTAALTNP 241 (378)
Q Consensus 201 ~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~c~~ 241 (378)
.....|.|+.|.+.|.....|+ ..-.....|.|..|+-
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHH---hhcccCceEEEecCCC
Confidence 3455788999988888655442 2222334566777654
No 190
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=22.90 E-value=43 Score=28.04 Aligned_cols=8 Identities=38% Similarity=1.078 Sum_probs=4.6
Q ss_pred ceecCCCC
Q 044007 300 MYVCKRCN 307 (378)
Q Consensus 300 ~~~C~~C~ 307 (378)
.|.|..|+
T Consensus 112 ~y~C~~C~ 119 (146)
T smart00731 112 PYRCTGCG 119 (146)
T ss_pred EEECCCCC
Confidence 45565565
No 191
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=22.77 E-value=40 Score=29.81 Aligned_cols=54 Identities=24% Similarity=0.371 Sum_probs=33.2
Q ss_pred CcccCCCCCcccccccc-CCCcccchhhcccccccccCCCceecCCCCCc----cCCCHHHHHHH
Q 044007 261 RKYSCPQEGCRWNKKHA-KFQPLKSMICAKNHYKRSHCPKMYVCKRCNRK----QFSVLSDLRTH 320 (378)
Q Consensus 261 k~~~C~~C~k~F~~~~~-~~k~~~c~~c~~~H~~~h~~~k~~~C~~C~~k----~F~~~~~L~~H 320 (378)
-||.|.+|.+.|.+.-. .=.|+-|..|..+-|+ +.-.|-+|| + .|...++|++-
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~-----kg~~C~~Cg-k~t~G~f~V~~d~~km 253 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQ-----KGDECGVCG-KATYGRFWVVSDLQKM 253 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHhc-----cCCcceecc-hhhccceeHHhhHHHH
Confidence 67888888888876532 2245556666655544 334677777 5 35555666553
No 192
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=22.63 E-value=48 Score=21.36 Aligned_cols=23 Identities=17% Similarity=0.473 Sum_probs=9.4
Q ss_pred cchhhcccccccccCCCceecCCC
Q 044007 283 KSMICAKNHYKRSHCPKMYVCKRC 306 (378)
Q Consensus 283 ~c~~c~~~H~~~h~~~k~~~C~~C 306 (378)
-|..|+.+..+...+ ..+.|+.|
T Consensus 20 FC~~Cl~~~~~~~~~-~~~~CP~C 42 (42)
T PF15227_consen 20 FCRSCLERLWKEPSG-SGFSCPEC 42 (42)
T ss_dssp EEHHHHHHHHCCSSS-ST---SSS
T ss_pred HHHHHHHHHHHccCC-cCCCCcCC
Confidence 355565555433322 22677765
No 193
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=22.59 E-value=45 Score=28.21 Aligned_cols=15 Identities=27% Similarity=0.510 Sum_probs=12.2
Q ss_pred CcccCCCCCcccccc
Q 044007 261 RKYSCPQEGCRWNKK 275 (378)
Q Consensus 261 k~~~C~~C~k~F~~~ 275 (378)
+.-.|+.||.+|.+-
T Consensus 27 RRReC~~C~~RFTTf 41 (156)
T COG1327 27 RRRECLECGERFTTF 41 (156)
T ss_pred hhhcccccccccchh
Confidence 556899999999764
No 194
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=22.18 E-value=35 Score=26.72 Aligned_cols=18 Identities=17% Similarity=0.183 Sum_probs=9.3
Q ss_pred HHhcCCCCcccCcchhccC
Q 044007 348 ALFVGHTPAVNVNSTNMYG 366 (378)
Q Consensus 348 ~~H~~~kpy~C~~C~k~F~ 366 (378)
.++.| +|++|.+||.-|.
T Consensus 73 ~l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 73 WLEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EEeCC-CceeCCCCCcEEE
Confidence 34444 4555555555553
No 195
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.06 E-value=33 Score=28.50 Aligned_cols=15 Identities=27% Similarity=0.612 Sum_probs=9.6
Q ss_pred CcccCCCCCcccccc
Q 044007 261 RKYSCPQEGCRWNKK 275 (378)
Q Consensus 261 k~~~C~~C~k~F~~~ 275 (378)
..+.|+.||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 446777777666554
No 196
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=21.74 E-value=74 Score=20.17 Aligned_cols=22 Identities=27% Similarity=0.492 Sum_probs=8.7
Q ss_pred CceecccccccccCHH--HHHHHH
Q 044007 204 YTHYCQVCGKGFKRDA--NLRMHM 225 (378)
Q Consensus 204 ~~~~C~~C~k~F~~~~--~L~~H~ 225 (378)
+.|.|+.|+..|.... .-+.|.
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT
T ss_pred cCeecccccceecCCChHHHHHhh
Confidence 3588999999984433 334554
No 198
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=21.72 E-value=52 Score=28.40 Aligned_cols=24 Identities=33% Similarity=0.516 Sum_probs=21.0
Q ss_pred CCceecccccccccCHHHHHHHHH
Q 044007 203 KYTHYCQVCGKGFKRDANLRMHMR 226 (378)
Q Consensus 203 ~~~~~C~~C~k~F~~~~~L~~H~~ 226 (378)
..-|.|.+|+..|+...++.-|+.
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cCceeeeecceeehhhHHHHHHhc
Confidence 346999999999999999999873
No 199
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=21.26 E-value=56 Score=22.14 Aligned_cols=14 Identities=29% Similarity=0.724 Sum_probs=6.7
Q ss_pred CCeecc-CCCccCCh
Q 044007 327 LKWQCS-CGTTFSRK 340 (378)
Q Consensus 327 kp~~C~-C~k~F~~~ 340 (378)
+.+.|. ||..|...
T Consensus 3 k~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFT 17 (49)
T ss_pred eeEEcccCCCeEEEe
Confidence 344555 55555443
No 200
>PRK04351 hypothetical protein; Provisional
Probab=20.98 E-value=37 Score=28.79 Aligned_cols=31 Identities=19% Similarity=0.755 Sum_probs=15.3
Q ss_pred ceecCCCCCccCCCHHHHHHHHhccCCCCeecc-CCCccC
Q 044007 300 MYVCKRCNRKQFSVLSDLRTHEKHCGDLKWQCS-CGTTFS 338 (378)
Q Consensus 300 ~~~C~~C~~k~F~~~~~L~~H~~H~g~kp~~C~-C~k~F~ 338 (378)
.|.|..|| ..+.+ +.+| +...|.|. |+-.+.
T Consensus 112 ~Y~C~~Cg-~~~~r------~Rr~-n~~~yrCg~C~g~L~ 143 (149)
T PRK04351 112 LYECQSCG-QQYLR------KRRI-NTKRYRCGKCRGKLK 143 (149)
T ss_pred EEECCCCC-CEeee------eeec-CCCcEEeCCCCcEee
Confidence 46676676 44432 1113 23456666 665443
No 201
>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=20.37 E-value=73 Score=22.66 Aligned_cols=32 Identities=22% Similarity=0.314 Sum_probs=21.1
Q ss_pred CCcchhhHHHhhhccCCCCceecccccccccCHHH
Q 044007 186 SEIDCDIIELVAGDLLAKYTHYCQVCGKGFKRDAN 220 (378)
Q Consensus 186 ~~~~c~~~~~~~~~~~~~~~~~C~~C~k~F~~~~~ 220 (378)
.|..|+..... ......|.|+.||..+..+.+
T Consensus 30 ~C~~CG~~~~~---~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 30 TCPRCGHRNKK---RRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred CccCccccccc---ccccceEEcCCCCCEECcHHH
Confidence 34455544333 556678999999998776654
No 202
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.02 E-value=22 Score=33.58 Aligned_cols=7 Identities=71% Similarity=1.934 Sum_probs=2.2
Q ss_pred ecccccc
Q 044007 207 YCQVCGK 213 (378)
Q Consensus 207 ~C~~C~k 213 (378)
.|++||.
T Consensus 174 ~CPvCGs 180 (290)
T PF04216_consen 174 YCPVCGS 180 (290)
T ss_dssp S-TTT--
T ss_pred cCCCCCC
Confidence 4555554
Done!