Query 039549
Match_columns 324
No_of_seqs 276 out of 2509
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 10:47:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039549.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039549hhsearch_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 6.8E-31 1.5E-35 224.8 5.6 134 129-292 127-266 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 3.5E-23 7.5E-28 177.5 4.3 107 130-266 159-265 (279)
3 KOG1074 Transcriptional repres 99.8 4E-22 8.7E-27 191.9 1.2 78 224-301 613-700 (958)
4 KOG3576 Ovo and related transc 99.8 3.6E-19 7.7E-24 145.7 4.3 111 157-295 114-238 (267)
5 KOG3608 Zn finger proteins [Ge 99.7 1.5E-18 3.3E-23 152.7 3.9 157 130-300 177-352 (467)
6 KOG1074 Transcriptional repres 99.7 2.1E-18 4.6E-23 166.4 2.3 55 132-186 605-659 (958)
7 KOG3623 Homeobox transcription 99.6 1.6E-16 3.5E-21 151.2 -0.4 119 132-265 210-330 (1007)
8 KOG3623 Homeobox transcription 99.5 1.3E-15 2.8E-20 145.1 2.0 79 159-265 893-971 (1007)
9 KOG3576 Ovo and related transc 99.5 8.7E-16 1.9E-20 125.9 -0.2 109 131-267 116-235 (267)
10 KOG3608 Zn finger proteins [Ge 99.5 1.3E-14 2.8E-19 128.1 3.8 156 132-300 207-383 (467)
11 PLN03086 PRLI-interacting fact 99.3 4.9E-12 1.1E-16 121.5 8.4 102 159-294 452-565 (567)
12 PHA00733 hypothetical protein 99.2 5.5E-12 1.2E-16 99.7 4.2 79 203-294 39-124 (128)
13 smart00431 SCAN leucine rich r 99.2 1.1E-12 2.4E-17 99.7 -3.3 56 6-70 30-85 (113)
14 PHA02768 hypothetical protein; 99.1 4.1E-11 8.9E-16 78.5 1.9 40 245-284 6-46 (55)
15 cd07936 SCAN SCAN oligomerizat 99.1 5.6E-12 1.2E-16 92.0 -3.6 55 6-69 30-84 (85)
16 PHA00733 hypothetical protein 99.0 4.4E-10 9.6E-15 88.8 4.0 82 157-265 37-120 (128)
17 PF02023 SCAN: SCAN domain; I 99.0 1.3E-11 2.7E-16 92.3 -5.1 56 6-70 31-86 (95)
18 PLN03086 PRLI-interacting fact 98.9 1.2E-09 2.6E-14 105.2 6.5 99 132-265 453-561 (567)
19 PHA02768 hypothetical protein; 98.9 6.5E-10 1.4E-14 72.9 2.2 45 203-261 4-48 (55)
20 PF13465 zf-H2C2_2: Zinc-finge 98.9 1E-09 2.3E-14 61.5 2.8 26 231-256 1-26 (26)
21 KOG3993 Transcription factor ( 98.9 7.3E-11 1.6E-15 107.0 -3.3 160 129-300 264-489 (500)
22 KOG3993 Transcription factor ( 98.5 2.6E-08 5.7E-13 90.6 1.2 109 161-299 268-386 (500)
23 PHA00732 hypothetical protein 98.5 5.5E-08 1.2E-12 69.9 2.2 46 204-267 1-47 (79)
24 PF13465 zf-H2C2_2: Zinc-finge 98.3 2.9E-07 6.3E-12 51.5 1.1 25 148-172 2-26 (26)
25 PHA00616 hypothetical protein 98.2 7.6E-07 1.7E-11 55.7 1.5 39 204-254 1-39 (44)
26 PHA00732 hypothetical protein 98.1 3.1E-06 6.7E-11 60.9 3.4 46 244-292 1-47 (79)
27 PHA00616 hypothetical protein 98.1 1.6E-06 3.5E-11 54.2 1.5 27 160-186 1-27 (44)
28 PF00096 zf-C2H2: Zinc finger, 97.8 1.5E-05 3.2E-10 43.1 2.3 21 271-291 1-22 (23)
29 PF00096 zf-C2H2: Zinc finger, 97.7 2E-05 4.4E-10 42.5 1.7 23 161-183 1-23 (23)
30 COG5189 SFP1 Putative transcri 97.7 9.3E-06 2E-10 71.7 0.2 52 241-292 346-421 (423)
31 PF05605 zf-Di19: Drought indu 97.6 5.6E-05 1.2E-09 50.3 3.4 46 245-293 3-53 (54)
32 PF13894 zf-C2H2_4: C2H2-type 97.6 4.5E-05 9.7E-10 41.4 2.3 23 271-293 1-24 (24)
33 PF13912 zf-C2H2_6: C2H2-type 97.5 4.5E-05 9.8E-10 42.9 1.6 24 270-293 1-25 (27)
34 PF05605 zf-Di19: Drought indu 97.5 0.00016 3.5E-09 48.1 4.0 52 160-240 2-53 (54)
35 COG5189 SFP1 Putative transcri 97.5 2.5E-05 5.4E-10 69.0 -0.1 71 157-265 346-419 (423)
36 PF12756 zf-C2H2_2: C2H2 type 97.4 0.00016 3.4E-09 54.3 3.1 72 206-293 1-74 (100)
37 PF12756 zf-C2H2_2: C2H2 type 97.3 0.00017 3.6E-09 54.2 3.0 72 162-266 1-72 (100)
38 PF13912 zf-C2H2_6: C2H2-type 97.2 0.00022 4.7E-09 40.1 1.8 25 160-184 1-25 (27)
39 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00027 5.8E-09 38.2 2.1 24 161-184 1-24 (24)
40 PRK04860 hypothetical protein; 96.8 0.00075 1.6E-08 55.4 1.9 40 203-258 118-157 (160)
41 smart00355 ZnF_C2H2 zinc finge 96.6 0.0014 3.1E-08 35.8 1.8 22 271-292 1-23 (26)
42 smart00355 ZnF_C2H2 zinc finge 96.5 0.0021 4.5E-08 35.1 1.9 24 161-184 1-24 (26)
43 KOG2231 Predicted E3 ubiquitin 96.4 0.0064 1.4E-07 60.2 5.9 126 133-293 100-236 (669)
44 PF09237 GAGA: GAGA factor; I 96.1 0.0041 9E-08 39.9 2.0 24 242-265 22-45 (54)
45 PF13909 zf-H2C2_5: C2H2-type 96.1 0.0041 8.9E-08 33.7 1.7 22 271-293 1-23 (24)
46 PF09237 GAGA: GAGA factor; I 96.0 0.0067 1.5E-07 38.9 2.7 30 268-298 22-52 (54)
47 COG5236 Uncharacterized conser 95.8 0.0066 1.4E-07 54.7 2.9 18 278-295 290-307 (493)
48 COG5048 FOG: Zn-finger [Genera 95.8 0.0041 8.9E-08 58.9 1.8 141 131-287 288-463 (467)
49 PF12874 zf-met: Zinc-finger o 95.8 0.0064 1.4E-07 33.2 1.6 21 271-291 1-22 (25)
50 PF12874 zf-met: Zinc-finger o 95.4 0.014 2.9E-07 31.9 2.1 22 245-266 1-22 (25)
51 PF13909 zf-H2C2_5: C2H2-type 95.2 0.012 2.6E-07 31.8 1.5 23 161-184 1-23 (24)
52 KOG1146 Homeobox protein [Gene 94.5 0.032 6.9E-07 58.7 3.4 127 134-297 438-617 (1406)
53 PRK04860 hypothetical protein; 94.4 0.025 5.5E-07 46.4 2.1 33 159-211 118-150 (160)
54 PF12171 zf-C2H2_jaz: Zinc-fin 94.4 0.015 3.2E-07 32.5 0.5 21 245-265 2-22 (27)
55 PF12171 zf-C2H2_jaz: Zinc-fin 94.0 0.022 4.8E-07 31.8 0.7 22 161-182 2-23 (27)
56 PF13913 zf-C2HC_2: zinc-finge 92.2 0.11 2.4E-06 28.4 1.7 18 272-290 4-22 (25)
57 smart00451 ZnF_U1 U1-like zinc 92.0 0.12 2.5E-06 30.6 1.8 22 270-291 3-25 (35)
58 PF13913 zf-C2HC_2: zinc-finge 91.7 0.16 3.5E-06 27.8 2.0 20 246-266 4-23 (25)
59 smart00451 ZnF_U1 U1-like zinc 91.7 0.13 2.9E-06 30.3 1.8 22 244-265 3-24 (35)
60 TIGR00622 ssl1 transcription f 91.4 0.21 4.5E-06 38.2 3.0 46 247-292 58-104 (112)
61 KOG4173 Alpha-SNAP protein [In 90.4 0.14 3E-06 43.1 1.4 81 159-270 78-173 (253)
62 KOG1146 Homeobox protein [Gene 90.3 0.11 2.3E-06 55.0 0.8 66 226-291 446-540 (1406)
63 COG5048 FOG: Zn-finger [Genera 90.0 0.095 2.1E-06 49.5 0.1 70 203-284 288-368 (467)
64 KOG2785 C2H2-type Zn-finger pr 88.6 0.77 1.7E-05 42.4 4.8 50 132-181 3-89 (390)
65 KOG2231 Predicted E3 ubiquitin 87.4 0.9 1.9E-05 45.4 4.9 110 130-273 113-239 (669)
66 KOG2893 Zn finger protein [Gen 86.9 0.18 3.8E-06 43.4 -0.2 32 159-211 10-41 (341)
67 KOG2893 Zn finger protein [Gen 85.8 0.26 5.6E-06 42.4 0.2 43 243-288 10-53 (341)
68 KOG2186 Cell growth-regulating 85.4 0.51 1.1E-05 41.1 1.8 47 204-265 3-49 (276)
69 COG4049 Uncharacterized protei 84.8 0.41 8.8E-06 31.4 0.7 25 241-265 14-38 (65)
70 COG4049 Uncharacterized protei 84.0 0.56 1.2E-05 30.7 1.1 29 155-183 12-40 (65)
71 COG2888 Predicted Zn-ribbon RN 83.1 1.2 2.6E-05 29.7 2.4 30 245-277 28-58 (61)
72 KOG4377 Zn-finger protein [Gen 81.6 1.4 3E-05 41.1 3.0 123 160-301 271-435 (480)
73 cd00350 rubredoxin_like Rubred 81.5 0.86 1.9E-05 26.7 1.2 10 243-252 16-25 (33)
74 KOG4173 Alpha-SNAP protein [In 81.3 0.7 1.5E-05 38.9 1.0 78 203-293 78-170 (253)
75 KOG2186 Cell growth-regulating 80.1 1.1 2.4E-05 39.0 1.9 51 245-297 4-56 (276)
76 PF09986 DUF2225: Uncharacteri 79.5 0.54 1.2E-05 40.7 -0.2 41 242-282 3-61 (214)
77 KOG2482 Predicted C2H2-type Zn 78.5 2.9 6.3E-05 38.1 4.0 23 160-182 195-217 (423)
78 smart00531 TFIIE Transcription 77.4 2.4 5.2E-05 34.3 3.0 38 240-280 95-134 (147)
79 PF02892 zf-BED: BED zinc fing 74.1 3.8 8.2E-05 25.5 2.7 9 283-291 34-42 (45)
80 COG1997 RPL43A Ribosomal prote 73.2 1.6 3.5E-05 31.5 0.9 29 244-280 35-64 (89)
81 PRK00464 nrdR transcriptional 73.0 0.85 1.8E-05 37.2 -0.7 15 245-259 29-43 (154)
82 TIGR02098 MJ0042_CXXC MJ0042 f 72.9 2.9 6.3E-05 25.1 1.9 10 245-254 26-35 (38)
83 KOG4167 Predicted DNA-binding 72.4 3.5 7.7E-05 41.4 3.2 26 160-185 792-817 (907)
84 smart00614 ZnF_BED BED zinc fi 72.1 3.6 7.8E-05 26.5 2.2 8 283-290 37-44 (50)
85 PF09538 FYDLN_acid: Protein o 71.8 2.7 5.8E-05 32.1 1.8 32 131-173 8-39 (108)
86 PHA00626 hypothetical protein 71.1 1.4 3E-05 29.0 0.1 13 244-256 23-35 (59)
87 cd00729 rubredoxin_SM Rubredox 70.3 2.3 5E-05 25.1 0.9 10 243-252 17-26 (34)
88 TIGR00373 conserved hypothetic 70.2 5 0.00011 32.9 3.2 42 232-280 97-139 (158)
89 PF13717 zinc_ribbon_4: zinc-r 70.2 3.6 7.7E-05 24.6 1.7 31 246-279 4-35 (36)
90 COG5236 Uncharacterized conser 69.9 6.8 0.00015 35.9 4.2 75 162-265 222-302 (493)
91 PRK09678 DNA-binding transcrip 69.7 1.4 3E-05 30.9 -0.1 15 242-256 25-41 (72)
92 TIGR01384 TFS_arch transcripti 69.3 1.5 3.2E-05 33.1 -0.1 14 160-173 16-29 (104)
93 COG1592 Rubrerythrin [Energy p 67.0 3 6.5E-05 34.4 1.3 14 238-251 143-156 (166)
94 PRK00464 nrdR transcriptional 66.8 1.5 3.2E-05 35.8 -0.6 16 269-284 27-43 (154)
95 PF05443 ROS_MUCR: ROS/MUCR tr 66.3 3.5 7.6E-05 32.7 1.5 22 269-293 71-93 (132)
96 PRK09678 DNA-binding transcrip 66.1 2.2 4.8E-05 29.9 0.3 40 245-284 2-44 (72)
97 PRK00398 rpoP DNA-directed RNA 64.7 4 8.7E-05 25.7 1.3 11 244-254 21-31 (46)
98 PF09538 FYDLN_acid: Protein o 64.5 3.6 7.7E-05 31.4 1.2 12 161-172 10-21 (108)
99 PRK06266 transcription initiat 64.3 6.2 0.00014 33.0 2.7 42 232-280 105-147 (178)
100 COG5151 SSL1 RNA polymerase II 63.5 4 8.8E-05 36.7 1.5 46 247-292 365-411 (421)
101 PF12013 DUF3505: Protein of u 63.1 6.2 0.00013 30.0 2.3 19 275-293 90-108 (109)
102 PF13719 zinc_ribbon_5: zinc-r 61.2 6.8 0.00015 23.5 1.8 11 244-254 25-35 (37)
103 PF09986 DUF2225: Uncharacteri 61.2 2.1 4.6E-05 37.0 -0.7 52 203-257 4-61 (214)
104 PRK14890 putative Zn-ribbon RN 60.6 7.6 0.00017 26.0 2.0 30 245-277 26-56 (59)
105 PF04606 Ogr_Delta: Ogr/Delta- 60.3 2.8 6E-05 26.7 -0.1 34 247-280 2-38 (47)
106 PF10571 UPF0547: Uncharacteri 60.2 6.2 0.00013 21.7 1.3 10 162-171 16-25 (26)
107 COG4957 Predicted transcriptio 60.2 5.8 0.00012 31.2 1.6 21 270-293 76-97 (148)
108 smart00531 TFIIE Transcription 59.8 5.6 0.00012 32.1 1.6 20 157-176 96-115 (147)
109 KOG1280 Uncharacterized conser 59.4 7.2 0.00016 35.7 2.3 9 133-141 9-17 (381)
110 PF14353 CpXC: CpXC protein 59.1 9.7 0.00021 29.8 2.8 21 244-264 38-58 (128)
111 PF04959 ARS2: Arsenite-resist 58.0 8.2 0.00018 33.3 2.4 27 268-294 75-102 (214)
112 smart00659 RPOLCX RNA polymera 57.1 8.6 0.00019 24.2 1.8 10 244-253 19-28 (44)
113 TIGR02605 CxxC_CxxC_SSSS putat 57.0 3.2 6.8E-05 26.9 -0.2 11 245-255 6-16 (52)
114 TIGR02300 FYDLN_acid conserved 56.3 8 0.00017 30.2 1.8 36 131-177 8-43 (129)
115 COG1198 PriA Primosomal protei 55.9 4.7 0.0001 41.3 0.6 14 240-253 471-484 (730)
116 PF15269 zf-C2H2_7: Zinc-finge 53.6 9.7 0.00021 23.8 1.5 21 245-265 21-41 (54)
117 smart00734 ZnF_Rad18 Rad18-lik 52.3 12 0.00025 20.6 1.6 18 246-264 3-20 (26)
118 PTZ00303 phosphatidylinositol 51.7 8.7 0.00019 39.1 1.7 35 245-284 461-496 (1374)
119 PF05443 ROS_MUCR: ROS/MUCR tr 51.4 9.7 0.00021 30.2 1.6 26 204-244 72-97 (132)
120 KOG2807 RNA polymerase II tran 49.5 20 0.00044 32.6 3.5 25 268-292 343-368 (378)
121 KOG4124 Putative transcription 46.9 6 0.00013 36.3 -0.2 56 241-296 175-239 (442)
122 PF08790 zf-LYAR: LYAR-type C2 46.5 5.7 0.00012 22.3 -0.2 10 245-254 1-10 (28)
123 PF09416 UPF1_Zn_bind: RNA hel 46.2 23 0.00051 28.7 3.1 6 206-211 2-7 (152)
124 COG1996 RPC10 DNA-directed RNA 45.7 13 0.00029 23.9 1.3 9 244-252 24-32 (49)
125 PRK04023 DNA polymerase II lar 45.7 20 0.00043 37.9 3.2 9 161-169 627-635 (1121)
126 COG3364 Zn-ribbon containing p 44.1 13 0.00029 27.7 1.3 17 159-175 1-17 (112)
127 TIGR00373 conserved hypothetic 42.9 17 0.00036 29.8 1.9 22 156-177 105-126 (158)
128 PF03604 DNA_RNApol_7kD: DNA d 42.6 15 0.00032 21.3 1.1 9 203-211 16-24 (32)
129 KOG2482 Predicted C2H2-type Zn 41.5 32 0.0007 31.6 3.5 22 270-291 195-217 (423)
130 PF12013 DUF3505: Protein of u 41.2 19 0.00041 27.3 1.8 26 160-185 80-109 (109)
131 cd00924 Cyt_c_Oxidase_Vb Cytoc 40.9 11 0.00024 28.2 0.4 20 236-256 72-91 (97)
132 smart00834 CxxC_CXXC_SSSS Puta 40.1 15 0.00033 22.1 1.0 30 244-278 5-35 (41)
133 PRK06266 transcription initiat 39.3 19 0.00042 30.1 1.7 20 157-176 114-133 (178)
134 COG4957 Predicted transcriptio 39.0 15 0.00032 29.0 0.9 25 205-244 77-101 (148)
135 PRK00432 30S ribosomal protein 36.9 20 0.00044 23.1 1.2 12 243-254 36-47 (50)
136 PF07754 DUF1610: Domain of un 36.8 16 0.00035 19.7 0.6 8 244-251 16-23 (24)
137 PRK14873 primosome assembly pr 35.6 14 0.0003 37.7 0.3 13 58-70 188-200 (665)
138 PF09723 Zn-ribbon_8: Zinc rib 35.1 20 0.00044 22.1 0.9 29 244-277 5-34 (42)
139 PF01780 Ribosomal_L37ae: Ribo 34.4 20 0.00044 26.3 1.0 12 269-280 52-64 (90)
140 TIGR00595 priA primosomal prot 33.9 16 0.00036 35.9 0.6 9 162-170 215-223 (505)
141 COG1571 Predicted DNA-binding 33.6 24 0.00053 33.6 1.6 28 246-282 352-380 (421)
142 PF10013 DUF2256: Uncharacteri 33.5 24 0.00052 21.9 1.0 16 162-177 10-25 (42)
143 KOG2593 Transcription initiati 32.6 50 0.0011 31.4 3.4 40 237-277 121-161 (436)
144 PF06524 NOA36: NOA36 protein; 32.5 21 0.00045 31.5 0.9 23 243-265 208-230 (314)
145 TIGR01206 lysW lysine biosynth 31.9 28 0.00061 22.9 1.2 9 246-254 4-12 (54)
146 PF13451 zf-trcl: Probable zin 31.7 24 0.00052 22.8 0.8 35 242-276 2-40 (49)
147 PTZ00255 60S ribosomal protein 31.1 23 0.00049 26.0 0.8 13 268-280 52-65 (90)
148 smart00154 ZnF_AN1 AN1-like Zi 30.8 24 0.00053 21.4 0.8 14 244-257 12-25 (39)
149 KOG3362 Predicted BBOX Zn-fing 30.4 17 0.00036 29.1 -0.1 21 270-290 129-150 (156)
150 TIGR00280 L37a ribosomal prote 30.1 24 0.00052 26.0 0.7 13 268-280 51-64 (91)
151 KOG0978 E3 ubiquitin ligase in 30.1 12 0.00026 37.9 -1.0 54 205-263 644-697 (698)
152 COG0068 HypF Hydrogenase matur 29.9 22 0.00048 36.0 0.7 56 134-212 125-181 (750)
153 PF04959 ARS2: Arsenite-resist 29.7 42 0.00091 29.0 2.3 24 242-265 75-98 (214)
154 PF12760 Zn_Tnp_IS1595: Transp 29.7 25 0.00055 22.1 0.7 10 268-277 35-45 (46)
155 PF01428 zf-AN1: AN1-like Zinc 29.5 24 0.00053 21.8 0.6 14 244-257 13-26 (43)
156 PF10263 SprT-like: SprT-like 29.5 17 0.00037 29.3 -0.1 31 244-280 123-154 (157)
157 PF07975 C1_4: TFIIH C1-like d 29.3 24 0.00052 23.0 0.6 27 158-184 19-45 (51)
158 PF02176 zf-TRAF: TRAF-type zi 29.1 41 0.00088 22.1 1.7 27 230-256 24-54 (60)
159 PF09963 DUF2197: Uncharacteri 29.0 27 0.00058 23.2 0.7 8 244-251 31-38 (56)
160 PF08274 PhnA_Zn_Ribbon: PhnA 28.9 32 0.0007 19.6 1.0 7 245-251 20-26 (30)
161 PF07282 OrfB_Zn_ribbon: Putat 28.4 35 0.00076 23.3 1.4 15 241-255 43-57 (69)
162 KOG2593 Transcription initiati 28.3 29 0.00064 32.9 1.2 22 157-178 125-146 (436)
163 COG3677 Transposase and inacti 28.0 33 0.00072 27.0 1.3 16 242-257 51-66 (129)
164 PRK12380 hydrogenase nickel in 27.9 34 0.00073 26.3 1.3 11 245-255 71-81 (113)
165 PLN02294 cytochrome c oxidase 27.8 25 0.00055 29.0 0.6 20 236-256 134-153 (174)
166 COG1571 Predicted DNA-binding 27.4 30 0.00065 33.0 1.1 20 240-259 363-382 (421)
167 COG3357 Predicted transcriptio 26.9 42 0.00092 24.6 1.5 29 131-169 57-85 (97)
168 smart00064 FYVE Protein presen 26.5 31 0.00068 23.4 0.8 11 245-255 27-37 (68)
169 COG4530 Uncharacterized protei 26.4 32 0.00069 26.1 0.9 11 162-172 11-21 (129)
170 PRK14873 primosome assembly pr 26.2 30 0.00065 35.3 0.9 26 239-278 405-431 (665)
171 KOG3408 U1-like Zn-finger-cont 26.2 41 0.00088 26.1 1.4 23 243-265 56-78 (129)
172 smart00731 SprT SprT homologue 26.0 30 0.00066 27.7 0.8 30 244-279 112-143 (146)
173 TIGR00595 priA primosomal prot 25.9 33 0.00071 33.8 1.1 12 241-252 237-248 (505)
174 PRK04351 hypothetical protein; 25.8 38 0.00082 27.5 1.3 32 244-281 112-144 (149)
175 PF01363 FYVE: FYVE zinc finge 25.8 47 0.001 22.6 1.6 28 132-171 9-36 (69)
176 PF13240 zinc_ribbon_2: zinc-r 25.7 31 0.00067 18.3 0.5 6 247-252 16-21 (23)
177 COG1779 C4-type Zn-finger prot 25.5 14 0.0003 31.3 -1.3 12 245-256 44-55 (201)
178 KOG3408 U1-like Zn-finger-cont 25.2 44 0.00096 25.9 1.4 25 267-291 54-79 (129)
179 PRK03976 rpl37ae 50S ribosomal 25.1 32 0.0007 25.2 0.7 13 268-280 52-65 (90)
180 PF04810 zf-Sec23_Sec24: Sec23 25.1 16 0.00035 22.3 -0.8 17 237-253 17-33 (40)
181 PF09845 DUF2072: Zn-ribbon co 24.6 30 0.00065 27.3 0.4 15 244-258 1-15 (131)
182 PLN03239 histone acetyltransfe 24.5 74 0.0016 29.6 3.0 24 268-291 104-128 (351)
183 PF07295 DUF1451: Protein of u 24.5 28 0.0006 28.2 0.2 35 237-279 101-140 (146)
184 KOG2071 mRNA cleavage and poly 24.5 42 0.0009 33.3 1.5 25 268-292 416-441 (579)
185 COG1198 PriA Primosomal protei 24.3 58 0.0013 33.6 2.5 11 203-213 474-484 (730)
186 COG2331 Uncharacterized protei 23.8 16 0.00034 25.8 -1.1 7 205-211 13-19 (82)
187 PF08792 A2L_zn_ribbon: A2L zi 23.7 45 0.00098 19.4 1.0 13 243-255 20-32 (33)
188 COG5152 Uncharacterized conser 23.3 31 0.00066 29.2 0.3 17 201-217 193-209 (259)
189 smart00440 ZnF_C2C2 C2C2 Zinc 23.1 27 0.00059 21.3 -0.0 12 160-171 28-39 (40)
190 KOG4167 Predicted DNA-binding 22.8 25 0.00054 35.7 -0.4 24 244-267 792-815 (907)
191 PF11672 DUF3268: Protein of u 22.6 43 0.00092 25.3 0.9 8 204-211 2-9 (102)
192 TIGR00100 hypA hydrogenase nic 22.6 38 0.00083 26.0 0.7 11 245-255 71-81 (115)
193 PF13878 zf-C2H2_3: zinc-finge 22.6 64 0.0014 19.8 1.6 24 161-184 14-39 (41)
194 PLN03238 probable histone acet 22.4 86 0.0019 28.3 2.9 26 268-293 46-72 (290)
195 KOG3002 Zn finger protein [Gen 22.3 97 0.0021 28.3 3.3 78 203-295 79-165 (299)
196 smart00661 RPOL9 RNA polymeras 22.2 36 0.00078 21.7 0.4 11 244-254 20-30 (52)
197 PF09082 DUF1922: Domain of un 22.0 32 0.0007 23.8 0.2 17 238-255 14-30 (68)
198 KOG2785 C2H2-type Zn-finger pr 22.0 1.4E+02 0.0031 27.9 4.4 77 203-299 165-250 (390)
199 PRK05580 primosome assembly pr 21.2 36 0.00079 34.9 0.4 11 243-253 420-430 (679)
200 COG3091 SprT Zn-dependent meta 21.2 46 0.00099 27.0 0.9 8 244-251 140-147 (156)
201 PRK00564 hypA hydrogenase nick 21.1 46 0.00099 25.7 0.9 7 205-211 72-78 (117)
202 PRK03824 hypA hydrogenase nick 21.1 44 0.00095 26.5 0.8 39 131-169 69-116 (135)
203 cd00065 FYVE FYVE domain; Zinc 20.5 62 0.0013 20.9 1.3 27 134-172 4-30 (57)
204 KOG0717 Molecular chaperone (D 20.4 57 0.0012 31.4 1.5 21 245-265 293-313 (508)
205 PLN00104 MYST -like histone ac 20.3 89 0.0019 30.2 2.8 26 268-293 196-222 (450)
206 KOG4124 Putative transcription 20.1 12 0.00026 34.4 -2.8 51 242-292 347-421 (442)
207 PF05191 ADK_lid: Adenylate ki 20.1 28 0.0006 20.8 -0.4 13 244-256 21-33 (36)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.96 E-value=6.8e-31 Score=224.78 Aligned_cols=134 Identities=28% Similarity=0.512 Sum_probs=125.9
Q ss_pred ccCccccCCCCCCCCCCCCcchhhhhhcC---CCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcc
Q 039549 129 MISRKSFHGCSLNKDSRFWIPTPAQILVG---PMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRL 205 (324)
Q Consensus 129 ~~~~~~c~~C~~~~~~~~~l~~H~~~h~~---~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~ 205 (324)
...++.|..|++.+.+...|.+|.+.|.. .+.+.|++|||.|.....|..|+|+|+ .++
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~------------------l~c 188 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT------------------LPC 188 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC------------------CCc
Confidence 44578999999999999999999999964 678999999999999999999999997 568
Q ss_pred cCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHHhc--CCeeeec-CCcccCCh
Q 039549 206 PCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNC--GKLWYCT-CGSDFKHK 282 (324)
Q Consensus 206 ~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~--~k~~~C~-Cgk~F~~~ 282 (324)
.|.+|| |.|.+.--|+.|+|+|||||||.|..|+|+|..+++|+.|++|| .|+|+|. |+|+|..+
T Consensus 189 ~C~iCG------------KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~ 256 (279)
T KOG2462|consen 189 ECGICG------------KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALK 256 (279)
T ss_pred cccccc------------ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHH
Confidence 999999 99999999999999999999999999999999999999999987 5999998 99999999
Q ss_pred hHHHHHHHhh
Q 039549 283 RSLKDHIRSF 292 (324)
Q Consensus 283 ~~L~~H~r~~ 292 (324)
+.|++|...-
T Consensus 257 SyLnKH~ES~ 266 (279)
T KOG2462|consen 257 SYLNKHSESA 266 (279)
T ss_pred HHHHHhhhhc
Confidence 9999998763
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.87 E-value=3.5e-23 Score=177.55 Aligned_cols=107 Identities=26% Similarity=0.431 Sum_probs=102.5
Q ss_pred cCccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCC
Q 039549 130 ISRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYC 209 (324)
Q Consensus 130 ~~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~ 209 (324)
...+.|..|++.|.+...|..|+++|+ .+++|.+|||.|.+..-|+-|+|+|+|| |||.|..
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGE----------------KPF~C~h 220 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGE----------------KPFSCPH 220 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCC----------------CCccCCc
Confidence 345689999999999999999999998 7899999999999999999999999999 9999999
Q ss_pred CCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHHh
Q 039549 210 CAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKN 266 (324)
Q Consensus 210 C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~ 266 (324)
|+ |.|..+++|..||.+|.+.|+|+|..|||+|+..+.|.+|...
T Consensus 221 C~------------kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 221 CG------------KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cc------------chhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 99 9999999999999999999999999999999999999999873
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.84 E-value=4e-22 Score=191.85 Aligned_cols=78 Identities=28% Similarity=0.610 Sum_probs=70.1
Q ss_pred ccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHHhcC------Ceeeec----CCcccCChhHHHHHHHhhC
Q 039549 224 KPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCG------KLWYCT----CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 224 k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~------k~~~C~----Cgk~F~~~~~L~~H~r~~h 293 (324)
|....++.|+.|+|+|+|||||+|.+||++|+++.+|+.|+-.|. -+|.|+ |.+.|...-.|..|+|+|.
T Consensus 613 rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 613 RVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHL 692 (958)
T ss_pred ecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccceEEeec
Confidence 556778999999999999999999999999999999999998763 458884 9999999999999999998
Q ss_pred CCCCCCCC
Q 039549 294 KGHSPHPS 301 (324)
Q Consensus 294 ~~~~~~~~ 301 (324)
++..|...
T Consensus 693 ~~~~s~g~ 700 (958)
T KOG1074|consen 693 GGQISNGG 700 (958)
T ss_pred CCCCCCCc
Confidence 88887664
No 4
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.76 E-value=3.6e-19 Score=145.66 Aligned_cols=111 Identities=25% Similarity=0.507 Sum_probs=101.7
Q ss_pred CCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHH
Q 039549 157 GPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHF 236 (324)
Q Consensus 157 ~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~ 236 (324)
+...|.|.+|+|+|.....|.+|++.|... ++|-|..|| |.|...-.|++|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~v----------------kr~lct~cg------------kgfndtfdlkrh~ 165 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDV----------------KRHLCTFCG------------KGFNDTFDLKRHT 165 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHH----------------HHHHHhhcc------------Ccccchhhhhhhh
Confidence 356799999999999999999999999877 889999999 8899989999999
Q ss_pred hhhcCCCceecccccceecchHHHHHHHH-hc------------CCeeeec-CCcccCChhHHHHHHHhhCCC
Q 039549 237 KRKHGAKPFMCRKCGKTFAVKGDWRTHEK-NC------------GKLWYCT-CGSDFKHKRSLKDHIRSFGKG 295 (324)
Q Consensus 237 r~H~gekp~~C~~Cgk~F~~~~~L~~H~~-~~------------~k~~~C~-Cgk~F~~~~~L~~H~r~~h~~ 295 (324)
|+|+|.+||+|..|+|+|+++..|..|.+ +| .|.|.|. ||.+-.....+..|++.||..
T Consensus 166 rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 166 RTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 99999999999999999999999999987 33 3789997 999999999999999999853
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.73 E-value=1.5e-18 Score=152.73 Aligned_cols=157 Identities=15% Similarity=0.335 Sum_probs=128.8
Q ss_pred cCccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCC
Q 039549 130 ISRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYC 209 (324)
Q Consensus 130 ~~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~ 209 (324)
+-...+.+|-+.+.++..|.+|++.|+++|...|+.||.-|.++..|..|.+.-+.-.. -+|+|..
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~--------------n~fqC~~ 242 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNT--------------NSFQCAQ 242 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcC--------------CchHHHH
Confidence 33446778999999999999999999999999999999999999999999987654421 3677888
Q ss_pred CCCCCccC--------------cCCCCCccCCChhHHHHHHh-hhcCCCceecccccceecchHHHHHHHHhcC-Ceeee
Q 039549 210 CAQGCKNN--------------INHPRAKPLKDFRTLQTHFK-RKHGAKPFMCRKCGKTFAVKGDWRTHEKNCG-KLWYC 273 (324)
Q Consensus 210 C~~~~~~~--------------~~~~~~k~f~~~~~L~~H~r-~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~-k~~~C 273 (324)
|.+.|... .+..+.-+....+.|.+|+| .|...|||+|+.|.++|.+.+.|.+|..+|. --|.|
T Consensus 243 C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C 322 (467)
T KOG3608|consen 243 CFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQC 322 (467)
T ss_pred HHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceec
Confidence 87666432 23334466778889999988 5888999999999999999999999999885 45888
Q ss_pred c---CCcccCChhHHHHHHHhhCCCCCCCC
Q 039549 274 T---CGSDFKHKRSLKDHIRSFGKGHSPHP 300 (324)
Q Consensus 274 ~---Cgk~F~~~~~L~~H~r~~h~~~~~~~ 300 (324)
. |..+|++...|++|++.+|.|..|.+
T Consensus 323 ~h~~C~~s~r~~~q~~~H~~evhEg~np~~ 352 (467)
T KOG3608|consen 323 EHPDCHYSVRTYTQMRRHFLEVHEGNNPIL 352 (467)
T ss_pred CCCCCcHHHHHHHHHHHHHHHhccCCCCCc
Confidence 4 88889888899999888887777644
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.71 E-value=2.1e-18 Score=166.43 Aligned_cols=55 Identities=20% Similarity=0.317 Sum_probs=51.7
Q ss_pred ccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHhhhCCC
Q 039549 132 RKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSE 186 (324)
Q Consensus 132 ~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~ 186 (324)
...|-.|-+...-+..|+.|.++|+|++||+|++||++|.++.||+.||-+|...
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~ 659 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAK 659 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccC
Confidence 4589999999999999999999999999999999999999999999999999654
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.58 E-value=1.6e-16 Score=151.24 Aligned_cols=119 Identities=25% Similarity=0.442 Sum_probs=101.4
Q ss_pred ccccCCCCCCCCCCCCcchhhhhhcC--CCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCC
Q 039549 132 RKSFHGCSLNKDSRFWIPTPAQILVG--PMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYC 209 (324)
Q Consensus 132 ~~~c~~C~~~~~~~~~l~~H~~~h~~--~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~ 209 (324)
...|..|...+.....|+.|++..+. +..|-|..|.++|.....|.+||.+|... +.......+...++.|+|..
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg---~dqa~sltqsa~lRKFKCtE 286 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPG---GDQAISLTQSALLRKFKCTE 286 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCC---Ccccccccchhhhccccccc
Confidence 34799999999998899999985443 45689999999999999999999999543 12223334455678899999
Q ss_pred CCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHH
Q 039549 210 CAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 210 C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
|| |+|+.+..|+.|+|+|.|||||.|..|+|+|++.+.+..|+-
T Consensus 287 Cg------------KAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 287 CG------------KAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred cc------------hhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 99 999999999999999999999999999999999999999985
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.54 E-value=1.3e-15 Score=145.11 Aligned_cols=79 Identities=30% Similarity=0.666 Sum_probs=55.5
Q ss_pred CceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhh
Q 039549 159 MQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKR 238 (324)
Q Consensus 159 ~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~ 238 (324)
-+|.|+.|+|+|...+.|.+|.--|+|. +||+|.+|. |+|+-+..|..|+|.
T Consensus 893 gmyaCDqCDK~FqKqSSLaRHKYEHsGq----------------RPyqC~iCk------------KAFKHKHHLtEHkRL 944 (1007)
T KOG3623|consen 893 GMYACDQCDKAFQKQSSLARHKYEHSGQ----------------RPYQCIICK------------KAFKHKHHLTEHKRL 944 (1007)
T ss_pred ccchHHHHHHHHHhhHHHHHhhhhhcCC----------------CCcccchhh------------Hhhhhhhhhhhhhhh
Confidence 4567777777777777777777677766 677777776 667777777777777
Q ss_pred hcCCCceecccccceecchHHHHHHHH
Q 039549 239 KHGAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 239 H~gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
|.|||||+|+.|+|+|++.+...+||.
T Consensus 945 HSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 945 HSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred ccCCCcchhhhhhhhcccccchHhhhc
Confidence 777777777777777777777777664
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.53 E-value=8.7e-16 Score=125.92 Aligned_cols=109 Identities=22% Similarity=0.372 Sum_probs=100.2
Q ss_pred CccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCC
Q 039549 131 SRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCC 210 (324)
Q Consensus 131 ~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C 210 (324)
..+.|..|++.|.-...|.+|++.|...+.|.|..|||+|+.-..|++|+|+|+|. +||+|..|
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgv----------------rpykc~~c 179 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGV----------------RPYKCSLC 179 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCc----------------cccchhhh
Confidence 36789999999999999999999999999999999999999999999999999999 99999999
Q ss_pred CCCCccCcCCCCCccCCChhHHHHHHhhhcC-----------CCceecccccceecchHHHHHHHHhc
Q 039549 211 AQGCKNNINHPRAKPLKDFRTLQTHFKRKHG-----------AKPFMCRKCGKTFAVKGDWRTHEKNC 267 (324)
Q Consensus 211 ~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~g-----------ekp~~C~~Cgk~F~~~~~L~~H~~~~ 267 (324)
+ |.|.++-+|..|.+.-+| +|-|.|..||..-.....+..|.+.+
T Consensus 180 ~------------kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~ 235 (267)
T KOG3576|consen 180 E------------KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLH 235 (267)
T ss_pred h------------HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhc
Confidence 9 999999999999875444 46699999999999999999999854
No 10
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.49 E-value=1.3e-14 Score=128.13 Aligned_cols=156 Identities=16% Similarity=0.210 Sum_probs=122.9
Q ss_pred ccccCCCCCCCCCCCCcchhhhhhc--CCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCC-----------CC
Q 039549 132 RKSFHGCSLNKDSRFWIPTPAQILV--GPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKG-----------TQ 198 (324)
Q Consensus 132 ~~~c~~C~~~~~~~~~l~~H~~~h~--~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~-----------~~ 198 (324)
...|..|+.-|.++..|--|.+..+ ...+|.|..|.|.|.+...|..|++.|..-+.+..+.+-- ..
T Consensus 207 vvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~r 286 (467)
T KOG3608|consen 207 VVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYR 286 (467)
T ss_pred EEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhh
Confidence 3479999999999999988886544 4668888888888888888888888886554322222111 01
Q ss_pred CCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceeccc--ccceecchHHHHHHHH-hc----CCee
Q 039549 199 PAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRK--CGKTFAVKGDWRTHEK-NC----GKLW 271 (324)
Q Consensus 199 ~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~--Cgk~F~~~~~L~~H~~-~~----~k~~ 271 (324)
....+||+|..|. +.|.+-+.|.+|.-+|. +--|.|.. |..+|.+...|++|.+ .| .-+|
T Consensus 287 Hs~dkpfKCd~Cd------------~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y 353 (467)
T KOG3608|consen 287 HSKDKPFKCDECD------------TRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILY 353 (467)
T ss_pred hccCCCccccchh------------hhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCce
Confidence 1123788888888 88999999999999998 66799988 9999999999999998 34 3689
Q ss_pred eec-CCcccCChhHHHHHHHhhCCCCCCCC
Q 039549 272 YCT-CGSDFKHKRSLKDHIRSFGKGHSPHP 300 (324)
Q Consensus 272 ~C~-Cgk~F~~~~~L~~H~r~~h~~~~~~~ 300 (324)
.|. |.+.|++-.+|.+|++..|+=.-|+.
T Consensus 354 ~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsG 383 (467)
T KOG3608|consen 354 ACHCCDRFFTSGKSLSAHLMKKHGFRLPSG 383 (467)
T ss_pred eeecchhhhccchhHHHHHHHhhcccCCCC
Confidence 998 99999999999999998886555654
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.31 E-value=4.9e-12 Score=121.51 Aligned_cols=102 Identities=22% Similarity=0.376 Sum_probs=87.3
Q ss_pred CceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhh
Q 039549 159 MQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKR 238 (324)
Q Consensus 159 ~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~ 238 (324)
+.+.|+.|++.|. ...|..|+++|+ +++.|+ || +.+ .+..|..|+++
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H------------------kpv~Cp-Cg------------~~~-~R~~L~~H~~t 498 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH------------------EPLQCP-CG------------VVL-EKEQMVQHQAS 498 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC------------------CCccCC-CC------------CCc-chhHHHhhhhc
Confidence 4578999999996 688999999985 568899 99 755 56899999999
Q ss_pred hcCCCceecccccceec----------chHHHHHHHHh-cCCeeeec-CCcccCChhHHHHHHHhhCC
Q 039549 239 KHGAKPFMCRKCGKTFA----------VKGDWRTHEKN-CGKLWYCT-CGSDFKHKRSLKDHIRSFGK 294 (324)
Q Consensus 239 H~gekp~~C~~Cgk~F~----------~~~~L~~H~~~-~~k~~~C~-Cgk~F~~~~~L~~H~r~~h~ 294 (324)
|.+.||+.|..|++.|. ....|..|..+ +.+++.|. ||+.|..+ .|..|+-..|.
T Consensus 499 hCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 499 TCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred cCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 99999999999999995 24689999985 57999998 99999877 78999888774
No 12
>PHA00733 hypothetical protein
Probab=99.25 E-value=5.5e-12 Score=99.68 Aligned_cols=79 Identities=19% Similarity=0.347 Sum_probs=66.6
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhH------HHHHHhhhcCCCceecccccceecchHHHHHHHHhcCCeeeec-C
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRT------LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-C 275 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~------L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-C 275 (324)
+++.|.+|. +.|..... |.+|+.+ .+.+||.|..||+.|.....|..|++++..+|.|. |
T Consensus 39 ~~~~~~~~~------------~~~~~~~~l~~~~~l~~~~~~-~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~C 105 (128)
T PHA00733 39 KRLIRAVVK------------TLIYNPQLLDESSYLYKLLTS-KAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVC 105 (128)
T ss_pred hhHHHHHHh------------hhccChhhhcchHHHHhhccc-CCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCC
Confidence 678899998 55554443 4455444 45899999999999999999999999888899998 9
Q ss_pred CcccCChhHHHHHHHhhCC
Q 039549 276 GSDFKHKRSLKDHIRSFGK 294 (324)
Q Consensus 276 gk~F~~~~~L~~H~r~~h~ 294 (324)
++.|.....|.+|++..|+
T Consensus 106 gK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 106 GKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCccCCHHHHHHHHHHhcC
Confidence 9999999999999999885
No 13
>smart00431 SCAN leucine rich region.
Probab=99.16 E-value=1.1e-12 Score=99.68 Aligned_cols=56 Identities=29% Similarity=0.398 Sum_probs=53.9
Q ss_pred cccccccCCCCCCCCCCCccchhhhhhccchhhhhcCCchhhhhhhhcCCCcccccccccccchh
Q 039549 6 FIEWLKPSSSSSSSSSYSSYVTQQAQLTNPMMTILKFPPVYQQQKQQQQPENLDEGVRCLPLLSR 70 (324)
Q Consensus 6 ~~~~l~p~~s~~~~~~~~~~~~q~~~~~~qfLs~L~~P~e~q~wvr~~~Pe~~eEav~~~e~ler 70 (324)
+.+||+|..+++.+++++.+++| ||+|| |+++|+||+++.|++|+||+++++++.+
T Consensus 30 c~~WLrPe~~tKeqilElLVlEQ-------FL~il--P~e~q~wv~~~~p~sgeeav~l~E~l~~ 85 (113)
T smart00431 30 CRQWLRPELHTKEQILELLVLEQ-------FLTIL--PGELQAWVREHHPESGEEAVTLLEDLER 85 (113)
T ss_pred HHhhcChhhhhHHHHHHHHHHHH-------HhccC--cHHHHHHHHhcCCCCHHHHHHHHHHhcc
Confidence 57999999999999999999999 99999 9999999999999999999999999975
No 14
>PHA02768 hypothetical protein; Provisional
Probab=99.08 E-value=4.1e-11 Score=78.53 Aligned_cols=40 Identities=15% Similarity=0.298 Sum_probs=19.4
Q ss_pred eecccccceecchHHHHHHHHhcCCeeeec-CCcccCChhH
Q 039549 245 FMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHKRS 284 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~~~ 284 (324)
|+|+.|||.|++.++|..|+++|.++|.|. |+|.|.+.+.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGE 46 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcCCcccCCcccceecccce
Confidence 444455555555555555554444444554 5554444443
No 15
>cd07936 SCAN SCAN oligomerization domain. The SCAN domain (named after SRE-ZBP, CTfin51, AW-1 and Number 18 cDNA) is found in several vertebrate proteins that contain C2H2 zinc finger motifs, many of which may be transcription factors playing roles in cell survival and differentiation. This protein-interaction domain is able to mediate homo- and hetero-oligomerization of SCAN-containing proteins. Some SCAN-containing proteins, including those of lower vertebrates, do not contain zinc finger motifs. It has been noted that the SCAN domain resembles a domain-swapped version of the C-terminal domain of the HIV capsid protein. This domain model features elements common to the three general groups of SCAN domains (SCAN-A1, SCAN-A2, and SCAN-B). The SCAND1 protein is truncated at the C-terminus with respect to this model, the SCAND2 protein appears to have a truncated central helix.
Probab=99.05 E-value=5.6e-12 Score=92.03 Aligned_cols=55 Identities=24% Similarity=0.347 Sum_probs=52.5
Q ss_pred cccccccCCCCCCCCCCCccchhhhhhccchhhhhcCCchhhhhhhhcCCCcccccccccccch
Q 039549 6 FIEWLKPSSSSSSSSSYSSYVTQQAQLTNPMMTILKFPPVYQQQKQQQQPENLDEGVRCLPLLS 69 (324)
Q Consensus 6 ~~~~l~p~~s~~~~~~~~~~~~q~~~~~~qfLs~L~~P~e~q~wvr~~~Pe~~eEav~~~e~le 69 (324)
+.+||+|...++..+++..+++| ||+|| |+++|+||+++.|++++||+++++++.
T Consensus 30 c~~WLrpe~~tkeqilelLVlEQ-------fl~~l--p~e~q~~v~~~~p~s~eea~~l~e~~~ 84 (85)
T cd07936 30 CRQWLRPEIHTKEQILELLVLEQ-------FLIIL--PPEVQAWVRERKPESGEEAATLAEDLL 84 (85)
T ss_pred HHHHcchhhcCHHHHHHHHHHHH-------HhhhC--CHHHHHHHHhcCCCCHHHHHHHHHHhc
Confidence 56899999999999999999999 99999 999999999999999999999999875
No 16
>PHA00733 hypothetical protein
Probab=98.97 E-value=4.4e-10 Score=88.83 Aligned_cols=82 Identities=15% Similarity=0.259 Sum_probs=66.6
Q ss_pred CCCceeccccchhccChhHHHHh--HhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHH
Q 039549 157 GPMQFACSICSKTFNRYNNMQMH--MWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQT 234 (324)
Q Consensus 157 ~~~~~~C~~C~k~F~~~~~L~~H--~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~ 234 (324)
..+++.|.+|.+.|.....|..| ++.|... ...+||.|..|+ +.|.+...|..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~-------------~~~kPy~C~~Cg------------k~Fss~s~L~~ 91 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTS-------------KAVSPYVCPLCL------------MPFSSSVSLKQ 91 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhccc-------------CCCCCccCCCCC------------CcCCCHHHHHH
Confidence 35789999999999887777665 2222111 011789999999 99999999999
Q ss_pred HHhhhcCCCceecccccceecchHHHHHHHH
Q 039549 235 HFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 235 H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
|+++| +.+|.|.+|++.|.....|..|++
T Consensus 92 H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~ 120 (128)
T PHA00733 92 HIRYT--EHSKVCPVCGKEFRNTDSTLDHVC 120 (128)
T ss_pred HHhcC--CcCccCCCCCCccCCHHHHHHHHH
Confidence 99987 468999999999999999999997
No 17
>PF02023 SCAN: SCAN domain; InterPro: IPR003309 A number of C2H2-zinc finger proteins contain a highly conserved N-terminal motif termed the SCAN domain. The SCAN domain may play an important role in the assembly and function of this newly defined subclass of transcriptional regulators [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3LHR_B 4E6S_A 2FI2_A 1Y7Q_A.
Probab=98.96 E-value=1.3e-11 Score=92.27 Aligned_cols=56 Identities=25% Similarity=0.385 Sum_probs=49.6
Q ss_pred cccccccCCCCCCCCCCCccchhhhhhccchhhhhcCCchhhhhhhhcCCCcccccccccccchh
Q 039549 6 FIEWLKPSSSSSSSSSYSSYVTQQAQLTNPMMTILKFPPVYQQQKQQQQPENLDEGVRCLPLLSR 70 (324)
Q Consensus 6 ~~~~l~p~~s~~~~~~~~~~~~q~~~~~~qfLs~L~~P~e~q~wvr~~~Pe~~eEav~~~e~ler 70 (324)
|.+||+|...++..+++..+++| ||++| |+++++||++++|++++||+++++++..
T Consensus 31 ~~~WL~pe~~tkeqi~ellvlEQ-------FL~~l--P~e~~~wV~e~~p~s~~ea~~Lae~~~~ 86 (95)
T PF02023_consen 31 CDRWLQPEVHTKEQILELLVLEQ-------FLNIL--PPEVQTWVRERKPESAEEAVALAEDYQR 86 (95)
T ss_dssp HHHHH-TTTS-HHHHHHHHHHHH-------HHHHS---HHHHHHHHTCS-SSHHHHHHHHHHHHC
T ss_pred HHHhCccccCcHHHHHHHHHHHH-------HHHHC--CHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 67999999999999999999999 99999 9999999999999999999999999875
No 18
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.94 E-value=1.2e-09 Score=105.20 Aligned_cols=99 Identities=15% Similarity=0.339 Sum_probs=83.3
Q ss_pred ccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCC
Q 039549 132 RKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCA 211 (324)
Q Consensus 132 ~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~ 211 (324)
.+.|+.|++.|. ...|..|+++|+ +++.|+ ||+.+ .+..|..|++.|.+. +++.|.+|+
T Consensus 453 H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~----------------Kpi~C~fC~ 511 (567)
T PLN03086 453 HVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPL----------------RLITCRFCG 511 (567)
T ss_pred CccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCC----------------CceeCCCCC
Confidence 347899999986 567999999875 889999 99765 668999999999888 899999999
Q ss_pred CCCccCcCCCCCccCC----------ChhHHHHHHhhhcCCCceecccccceecchHHHHHHHH
Q 039549 212 QGCKNNINHPRAKPLK----------DFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 212 ~~~~~~~~~~~~k~f~----------~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
+.|. ..+.|..|..+. |.+++.|..||+.|..+ .|..|+.
T Consensus 512 ------------~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~ 561 (567)
T PLN03086 512 ------------DMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQI 561 (567)
T ss_pred ------------CccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHH
Confidence 6663 245899999985 99999999999999876 5777775
No 19
>PHA02768 hypothetical protein; Provisional
Probab=98.91 E-value=6.5e-10 Score=72.91 Aligned_cols=45 Identities=16% Similarity=0.408 Sum_probs=41.1
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHH
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWR 261 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~ 261 (324)
.-|.|+.|| |.|...++|..|+|+|+ +||+|..|++.|.+.+.|.
T Consensus 4 ~~y~C~~CG------------K~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 4 LGYECPICG------------EIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cccCcchhC------------CeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 448899999 99999999999999999 8999999999999887664
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.91 E-value=1e-09 Score=61.55 Aligned_cols=26 Identities=38% Similarity=0.954 Sum_probs=24.2
Q ss_pred HHHHHHhhhcCCCceecccccceecc
Q 039549 231 TLQTHFKRKHGAKPFMCRKCGKTFAV 256 (324)
Q Consensus 231 ~L~~H~r~H~gekp~~C~~Cgk~F~~ 256 (324)
+|.+|+++|+|+|||.|++|+++|.+
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 58899999999999999999999974
No 21
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.90 E-value=7.3e-11 Score=106.96 Aligned_cols=160 Identities=16% Similarity=0.205 Sum_probs=117.5
Q ss_pred ccCccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHhhhCCCCcCCC----C------------
Q 039549 129 MISRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGP----D------------ 192 (324)
Q Consensus 129 ~~~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~----~------------ 192 (324)
.+..+.|..|...|.....|.+|...-.-..-|+|+.|+|.|+-..||..|.|+|........ .
T Consensus 264 ~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ 343 (500)
T KOG3993|consen 264 VIGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQ 343 (500)
T ss_pred cHHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhh
Confidence 345678999999999999999998655555679999999999999999999999975533221 0
Q ss_pred -CCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCC---C-------------------------
Q 039549 193 -SLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGA---K------------------------- 243 (324)
Q Consensus 193 -~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~ge---k------------------------- 243 (324)
.-+.........|.|.+|+ |.|.+...|..|+.+|... +
T Consensus 344 ea~rsg~dss~gi~~C~~C~------------KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~ 411 (500)
T KOG3993|consen 344 EAERSGDDSSSGIFSCHTCG------------KKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHS 411 (500)
T ss_pred hccccCCcccCceeecHHhh------------hhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccc
Confidence 0111111233579999999 9999999999998776421 0
Q ss_pred ------------------ceecccccceecchHHHHHHHHhc--CCeeeec-CCcccCChhHHHHHHHhhCCCCCCCC
Q 039549 244 ------------------PFMCRKCGKTFAVKGDWRTHEKNC--GKLWYCT-CGSDFKHKRSLKDHIRSFGKGHSPHP 300 (324)
Q Consensus 244 ------------------p~~C~~Cgk~F~~~~~L~~H~~~~--~k~~~C~-Cgk~F~~~~~L~~H~r~~h~~~~~~~ 300 (324)
-..|.+||-.+..+..--.|.+.+ ..-|.|. |.-+|.....|.+|+...|..+..-+
T Consensus 412 ~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse~rqv 489 (500)
T KOG3993|consen 412 SASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSELRQV 489 (500)
T ss_pred ccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHHhhhh
Confidence 013566666666665555555422 5679998 99999999999999999987766544
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.52 E-value=2.6e-08 Score=90.61 Aligned_cols=109 Identities=16% Similarity=0.325 Sum_probs=73.9
Q ss_pred eeccccchhccChhHHHHhH--hhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhh
Q 039549 161 FACSICSKTFNRYNNMQMHM--WGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKR 238 (324)
Q Consensus 161 ~~C~~C~k~F~~~~~L~~H~--~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~ 238 (324)
|.|..|...|..-..|.+|. ||-+-+ |+|..|+ |.|....+|..|+|.
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vE------------------YrCPEC~------------KVFsCPANLASHRRW 317 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVE------------------YRCPECD------------KVFSCPANLASHRRW 317 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEee------------------ecCCccc------------ccccCchhhhhhhcc
Confidence 99999999999999999996 455544 8899999 999999999999999
Q ss_pred hcCCCcee--cccccc-eecchHHHHHHHHhc----CCeeeec-CCcccCChhHHHHHHHhhCCCCCCC
Q 039549 239 KHGAKPFM--CRKCGK-TFAVKGDWRTHEKNC----GKLWYCT-CGSDFKHKRSLKDHIRSFGKGHSPH 299 (324)
Q Consensus 239 H~gekp~~--C~~Cgk-~F~~~~~L~~H~~~~----~k~~~C~-Cgk~F~~~~~L~~H~r~~h~~~~~~ 299 (324)
|.-.+--. =..=.| +-.+...-+.-.|.| .--|.|. |+|.|++...|++|+.+||....+.
T Consensus 318 HKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k 386 (500)
T KOG3993|consen 318 HKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAK 386 (500)
T ss_pred cCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccch
Confidence 85321100 000000 000111111111122 2478998 9999999999999999988766654
No 23
>PHA00732 hypothetical protein
Probab=98.50 E-value=5.5e-08 Score=69.88 Aligned_cols=46 Identities=20% Similarity=0.371 Sum_probs=30.4
Q ss_pred cccCCCCCCCCccCcCCCCCccCCChhHHHHHHhh-hcCCCceecccccceecchHHHHHHHHhc
Q 039549 204 RLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKR-KHGAKPFMCRKCGKTFAVKGDWRTHEKNC 267 (324)
Q Consensus 204 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~-H~gekp~~C~~Cgk~F~~~~~L~~H~~~~ 267 (324)
||.|..|+ +.|.+..+|..|++. |+ ++.|..||++|. .|..|.++.
T Consensus 1 py~C~~Cg------------k~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICG------------FTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCC------------CccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 46677777 777777777777763 44 346777777776 466666644
No 24
>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=98.27 E-value=2.9e-07 Score=51.52 Aligned_cols=25 Identities=20% Similarity=0.588 Sum_probs=23.2
Q ss_pred cchhhhhhcCCCceeccccchhccC
Q 039549 148 IPTPAQILVGPMQFACSICSKTFNR 172 (324)
Q Consensus 148 l~~H~~~h~~~~~~~C~~C~k~F~~ 172 (324)
|..|+++|++++||.|+.|++.|.+
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEESS
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 6789999999999999999999964
No 25
>PHA00616 hypothetical protein
Probab=98.17 E-value=7.6e-07 Score=55.65 Aligned_cols=39 Identities=13% Similarity=0.218 Sum_probs=31.8
Q ss_pred cccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceeccccccee
Q 039549 204 RLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTF 254 (324)
Q Consensus 204 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F 254 (324)
||+|..|| +.|...+.|..|++.|+|++|+.|..---.|
T Consensus 1 pYqC~~CG------------~~F~~~s~l~~H~r~~hg~~~~~~~~~y~~f 39 (44)
T PHA00616 1 MYQCLRCG------------GIFRKKKEVIEHLLSVHKQNKLTLEYFYIYF 39 (44)
T ss_pred CCccchhh------------HHHhhHHHHHHHHHHhcCCCccceeEEEEEE
Confidence 57899999 8899999999999999999998887644333
No 26
>PHA00732 hypothetical protein
Probab=98.09 E-value=3.1e-06 Score=60.86 Aligned_cols=46 Identities=26% Similarity=0.492 Sum_probs=40.2
Q ss_pred ceecccccceecchHHHHHHHHhcCCeeeec-CCcccCChhHHHHHHHhh
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
||.|..||+.|.+...|..|++.+..++.|. ||++|. .|..|+++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC---Chhhhhccc
Confidence 6899999999999999999998544468998 999998 589999665
No 27
>PHA00616 hypothetical protein
Probab=98.07 E-value=1.6e-06 Score=54.21 Aligned_cols=27 Identities=15% Similarity=0.437 Sum_probs=26.1
Q ss_pred ceeccccchhccChhHHHHhHhhhCCC
Q 039549 160 QFACSICSKTFNRYNNMQMHMWGHGSE 186 (324)
Q Consensus 160 ~~~C~~C~k~F~~~~~L~~H~~~H~~~ 186 (324)
||.|..||+.|.+++.|..|++.|+++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC
Confidence 689999999999999999999999998
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=97.82 E-value=1.5e-05 Score=43.10 Aligned_cols=21 Identities=43% Similarity=0.999 Sum_probs=12.1
Q ss_pred eeec-CCcccCChhHHHHHHHh
Q 039549 271 WYCT-CGSDFKHKRSLKDHIRS 291 (324)
Q Consensus 271 ~~C~-Cgk~F~~~~~L~~H~r~ 291 (324)
|.|. |++.|.+++.|.+|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4555 55555555555555554
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.71 E-value=2e-05 Score=42.55 Aligned_cols=23 Identities=39% Similarity=0.924 Sum_probs=21.6
Q ss_pred eeccccchhccChhHHHHhHhhh
Q 039549 161 FACSICSKTFNRYNNMQMHMWGH 183 (324)
Q Consensus 161 ~~C~~C~k~F~~~~~L~~H~~~H 183 (324)
|.|+.|++.|.+...|..|++.|
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 78999999999999999999875
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.69 E-value=9.3e-06 Score=71.68 Aligned_cols=52 Identities=25% Similarity=0.557 Sum_probs=44.9
Q ss_pred CCCceeccc--ccceecchHHHHHHHHhc---------------------CCeeeec-CCcccCChhHHHHHHHhh
Q 039549 241 GAKPFMCRK--CGKTFAVKGDWRTHEKNC---------------------GKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 241 gekp~~C~~--Cgk~F~~~~~L~~H~~~~---------------------~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
++|||+|++ |.|.+.....|+-|+..| .|||.|. |+|+|+.-..|+-|+..-
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~Hs 421 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHS 421 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccccc
Confidence 459999988 999999999999998721 2899998 999999999999997543
No 31
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.64 E-value=5.6e-05 Score=50.30 Aligned_cols=46 Identities=30% Similarity=0.568 Sum_probs=26.7
Q ss_pred eecccccceecchHHHHHHHH-hc---CCeeeec-CCcccCChhHHHHHHHhhC
Q 039549 245 FMCRKCGKTFAVKGDWRTHEK-NC---GKLWYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~-~~---~k~~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
|.|++||+.|. ...|..|.. .| .+.+.|+ |...+. .+|.+|++.+|
T Consensus 3 f~CP~C~~~~~-~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGKGFS-ESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCCccC-HHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 56666666333 455666655 22 2456666 666544 36777777665
No 32
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.62 E-value=4.5e-05 Score=41.36 Aligned_cols=23 Identities=35% Similarity=0.951 Sum_probs=14.5
Q ss_pred eeec-CCcccCChhHHHHHHHhhC
Q 039549 271 WYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 271 ~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
|.|+ |++.|.+...|.+|+++||
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 5666 7777777777777777665
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=97.54 E-value=4.5e-05 Score=42.92 Aligned_cols=24 Identities=33% Similarity=0.724 Sum_probs=14.4
Q ss_pred eeeec-CCcccCChhHHHHHHHhhC
Q 039549 270 LWYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 270 ~~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
||.|. |++.|.....|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 45665 6666666666666665554
No 34
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.49 E-value=0.00016 Score=48.10 Aligned_cols=52 Identities=19% Similarity=0.394 Sum_probs=32.2
Q ss_pred ceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhh
Q 039549 160 QFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRK 239 (324)
Q Consensus 160 ~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H 239 (324)
.|.|++|++. .....|..|....+... .+.+.|++|. ..+. .+|..|++.+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~--------------~~~v~CPiC~------------~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSE--------------SKNVVCPICS------------SRVT--DNLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCC--------------CCCccCCCch------------hhhh--hHHHHHHHHh
Confidence 3678888884 44567888866443321 0457788887 4333 3777777765
Q ss_pred c
Q 039549 240 H 240 (324)
Q Consensus 240 ~ 240 (324)
+
T Consensus 53 H 53 (54)
T PF05605_consen 53 H 53 (54)
T ss_pred c
Confidence 4
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.47 E-value=2.5e-05 Score=69.03 Aligned_cols=71 Identities=20% Similarity=0.430 Sum_probs=45.7
Q ss_pred CCCceeccc--cchhccChhHHHHhHhh-hCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHH
Q 039549 157 GPMQFACSI--CSKTFNRYNNMQMHMWG-HGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQ 233 (324)
Q Consensus 157 ~~~~~~C~~--C~k~F~~~~~L~~H~~~-H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~ 233 (324)
++|||+|++ |.|+|.....|+.|+.- |... + .....+ -.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~----------------~---------------------~~~~p~-p~ 387 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQ----------------K---------------------LHENPS-PE 387 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCc----------------c---------------------cCCCCC-cc
Confidence 469999998 99999999999999752 2111 0 000000 00
Q ss_pred HHHhhhcCCCceecccccceecchHHHHHHHH
Q 039549 234 THFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 234 ~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
.|.-.-...|||+|.+|+|++.....|+-|+.
T Consensus 388 ~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 388 KMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ccccccccCCceeccccchhhccCccceeccc
Confidence 01111345688888888888888888887754
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.36 E-value=0.00016 Score=54.29 Aligned_cols=72 Identities=22% Similarity=0.450 Sum_probs=21.8
Q ss_pred cCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHHh-cCCeeeec-CCcccCChh
Q 039549 206 PCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKN-CGKLWYCT-CGSDFKHKR 283 (324)
Q Consensus 206 ~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~-~~k~~~C~-Cgk~F~~~~ 283 (324)
+|..|+ ..|.....|..|+...++-..- ....+.....+..+.+. -...+.|. |++.|....
T Consensus 1 ~C~~C~------------~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~ 64 (100)
T PF12756_consen 1 QCLFCD------------ESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSRE 64 (100)
T ss_dssp ----------------------------------------------------------------SSEEBSSSS-EESSHH
T ss_pred Cccccc------------cccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHH
Confidence 488999 8899999999999765553211 12223344455555542 24479998 999999999
Q ss_pred HHHHHHHhhC
Q 039549 284 SLKDHIRSFG 293 (324)
Q Consensus 284 ~L~~H~r~~h 293 (324)
.|..|++.++
T Consensus 65 ~l~~Hm~~~~ 74 (100)
T PF12756_consen 65 ALQEHMRSKH 74 (100)
T ss_dssp HHHHHHHHTT
T ss_pred HHHHHHcCcc
Confidence 9999999864
No 37
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.33 E-value=0.00017 Score=54.17 Aligned_cols=72 Identities=24% Similarity=0.407 Sum_probs=20.5
Q ss_pred eccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcC
Q 039549 162 ACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHG 241 (324)
Q Consensus 162 ~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~g 241 (324)
.|..|+..|.....|..||...++-. .. .. ..+.....+..+.+.-.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~-------------------~~-~~------------~~l~~~~~~~~~~~~~~- 47 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD-------------------IP-DQ------------KYLVDPNRLLNYLRKKV- 47 (100)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred Cccccccccccccccccccccccccc-------------------cc-cc------------ccccccccccccccccc-
Confidence 48999999999999999997554431 00 00 11222233334433222
Q ss_pred CCceecccccceecchHHHHHHHHh
Q 039549 242 AKPFMCRKCGKTFAVKGDWRTHEKN 266 (324)
Q Consensus 242 ekp~~C~~Cgk~F~~~~~L~~H~~~ 266 (324)
...+.|..|++.|.....|..|++.
T Consensus 48 ~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 48 KESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp -SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCCCCccCCCCcCHHHHHHHHcC
Confidence 2279999999999999999999984
No 38
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.20 E-value=0.00022 Score=40.07 Aligned_cols=25 Identities=32% Similarity=0.690 Sum_probs=23.3
Q ss_pred ceeccccchhccChhHHHHhHhhhC
Q 039549 160 QFACSICSKTFNRYNNMQMHMWGHG 184 (324)
Q Consensus 160 ~~~C~~C~k~F~~~~~L~~H~~~H~ 184 (324)
||.|..|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999999885
No 39
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.19 E-value=0.00027 Score=38.17 Aligned_cols=24 Identities=38% Similarity=0.855 Sum_probs=20.1
Q ss_pred eeccccchhccChhHHHHhHhhhC
Q 039549 161 FACSICSKTFNRYNNMQMHMWGHG 184 (324)
Q Consensus 161 ~~C~~C~k~F~~~~~L~~H~~~H~ 184 (324)
|.|+.|++.|.+...|..|++.|+
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 689999999999999999998874
No 40
>PRK04860 hypothetical protein; Provisional
Probab=96.75 E-value=0.00075 Score=55.36 Aligned_cols=40 Identities=30% Similarity=0.719 Sum_probs=31.4
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchH
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKG 258 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~ 258 (324)
-+|.|. |+ + ....+.+|.++|+|+++|.|..|++.|....
T Consensus 118 ~~Y~C~-C~------------~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQ------------E---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CC------------C---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 468887 87 4 4456788999999999999999988887543
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.59 E-value=0.0014 Score=35.78 Aligned_cols=22 Identities=45% Similarity=1.026 Sum_probs=17.2
Q ss_pred eeec-CCcccCChhHHHHHHHhh
Q 039549 271 WYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 271 ~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
|.|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 5677 888888888888888765
No 42
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.45 E-value=0.0021 Score=35.07 Aligned_cols=24 Identities=29% Similarity=0.695 Sum_probs=21.7
Q ss_pred eeccccchhccChhHHHHhHhhhC
Q 039549 161 FACSICSKTFNRYNNMQMHMWGHG 184 (324)
Q Consensus 161 ~~C~~C~k~F~~~~~L~~H~~~H~ 184 (324)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999999774
No 43
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0064 Score=60.16 Aligned_cols=126 Identities=20% Similarity=0.340 Sum_probs=77.8
Q ss_pred cccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHHHhHh-hhCCCCcCCCCCCCCCCCCccCcccCCCCC
Q 039549 133 KSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQMHMW-GHGSEYRKGPDSLKGTQPAAMLRLPCYCCA 211 (324)
Q Consensus 133 ~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~~H~~-~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~ 211 (324)
..|..|...|.... ....|..| -.|.....|+.|++ .|. -+.|..|-
T Consensus 100 ~~C~~C~~~~~~~~------------~~~~~~~c-~~~~s~~~Lk~H~~~~H~-------------------~~~c~lC~ 147 (669)
T KOG2231|consen 100 HSCHICDRRFRALY------------NKKECLHC-TEFKSVENLKNHMRDQHK-------------------LHLCSLCL 147 (669)
T ss_pred hhcCccccchhhhc------------ccCCCccc-cchhHHHHHHHHHHHhhh-------------------hhcccccc
Confidence 46777776654322 11237777 66778889999995 552 35577765
Q ss_pred CCCccCcCCCCCccCCChhHHHHHHhhhc-CCCc----eecccccceecchHHHHHHHH-hcCCeeeec----CCcccCC
Q 039549 212 QGCKNNINHPRAKPLKDFRTLQTHFKRKH-GAKP----FMCRKCGKTFAVKGDWRTHEK-NCGKLWYCT----CGSDFKH 281 (324)
Q Consensus 212 ~~~~~~~~~~~~k~f~~~~~L~~H~r~H~-gekp----~~C~~Cgk~F~~~~~L~~H~~-~~~k~~~C~----Cgk~F~~ 281 (324)
.+-. .-+++...-+...|..|+..-- +++. -.|..|...|.....|.+|++ .|.--+.|+ ++--|..
T Consensus 148 ~~~k---if~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~ 224 (669)
T KOG2231|consen 148 QNLK---IFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYND 224 (669)
T ss_pred ccce---eeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccceeheeecCcccccchhccc
Confidence 2200 0000122234566777876421 1222 358899999999999999998 455555562 5666778
Q ss_pred hhHHHHHHHhhC
Q 039549 282 KRSLKDHIRSFG 293 (324)
Q Consensus 282 ~~~L~~H~r~~h 293 (324)
...|..|.|..|
T Consensus 225 ~~dLe~HfR~~H 236 (669)
T KOG2231|consen 225 YDDLEEHFRKGH 236 (669)
T ss_pred chHHHHHhhhcC
Confidence 888888888877
No 44
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.09 E-value=0.0041 Score=39.89 Aligned_cols=24 Identities=25% Similarity=0.567 Sum_probs=10.3
Q ss_pred CCceecccccceecchHHHHHHHH
Q 039549 242 AKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 242 ekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
+.|..|++|+..+.+.-+|++|+.
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHH
T ss_pred CCCCCCCcchhhccchhhHHHHHH
Confidence 445555555555555555555553
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.06 E-value=0.0041 Score=33.72 Aligned_cols=22 Identities=27% Similarity=0.646 Sum_probs=14.8
Q ss_pred eeec-CCcccCChhHHHHHHHhhC
Q 039549 271 WYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 271 ~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
|.|. |+.... +..|.+|++.+|
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 6676 777776 777777777765
No 46
>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=96.02 E-value=0.0067 Score=38.94 Aligned_cols=30 Identities=23% Similarity=0.486 Sum_probs=21.2
Q ss_pred CCeeeec-CCcccCChhHHHHHHHhhCCCCCC
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRSFGKGHSP 298 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~~h~~~~~ 298 (324)
+.|-.|+ |+..+.+..+|++|+...| +.+|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H-~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRH-FKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHT-TTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHh-cccC
Confidence 6899999 9999999999999999887 4444
No 47
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.85 E-value=0.0066 Score=54.67 Aligned_cols=18 Identities=28% Similarity=0.379 Sum_probs=12.9
Q ss_pred ccCChhHHHHHHHhhCCC
Q 039549 278 DFKHKRSLKDHIRSFGKG 295 (324)
Q Consensus 278 ~F~~~~~L~~H~r~~h~~ 295 (324)
.|...-.|..|+...|+.
T Consensus 290 vf~~~~el~~h~~~~h~~ 307 (493)
T COG5236 290 VFPYHTELLEHLTRFHKV 307 (493)
T ss_pred EeccHHHHHHHHHHHhhc
Confidence 477777888887776653
No 48
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.85 E-value=0.0041 Score=58.91 Aligned_cols=141 Identities=16% Similarity=0.227 Sum_probs=93.9
Q ss_pred CccccCCCCCCCCCCCCcchhhh--hhcCC--Cceecc--ccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCc
Q 039549 131 SRKSFHGCSLNKDSRFWIPTPAQ--ILVGP--MQFACS--ICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLR 204 (324)
Q Consensus 131 ~~~~c~~C~~~~~~~~~l~~H~~--~h~~~--~~~~C~--~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~ 204 (324)
....|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+.. +
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~----------------~ 351 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSIS----------------P 351 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCC----------------c
Confidence 35789999999999999999999 89999 999999 79999999999999999998762 2
Q ss_pred ccCCCCCC--CCccC-----------------------cCCCCCccCCChhHHHHHHhhhcCCCc--eecccccceecch
Q 039549 205 LPCYCCAQ--GCKNN-----------------------INHPRAKPLKDFRTLQTHFKRKHGAKP--FMCRKCGKTFAVK 257 (324)
Q Consensus 205 ~~C~~C~~--~~~~~-----------------------~~~~~~k~f~~~~~L~~H~r~H~gekp--~~C~~Cgk~F~~~ 257 (324)
+.+..... .+... ....+.+.+.....+..|...|....+ +.+..|++.|...
T Consensus 352 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 431 (467)
T COG5048 352 AKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRH 431 (467)
T ss_pred cccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCc
Confidence 22221110 00000 001111344455556666666666553 4566788888888
Q ss_pred HHHHHHHHhc--CCeeeecCCcccCChhHHHH
Q 039549 258 GDWRTHEKNC--GKLWYCTCGSDFKHKRSLKD 287 (324)
Q Consensus 258 ~~L~~H~~~~--~k~~~C~Cgk~F~~~~~L~~ 287 (324)
..|..|++.+ ..++.|.+-+.|.....+..
T Consensus 432 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 463 (467)
T COG5048 432 YNLIPHKKIHTNHAPLLCSILKSFRRDLDLSN 463 (467)
T ss_pred ccccccccccccCCceeeccccccchhhhhhc
Confidence 8888888855 34455544455555444443
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.75 E-value=0.0064 Score=33.23 Aligned_cols=21 Identities=43% Similarity=1.099 Sum_probs=10.9
Q ss_pred eeec-CCcccCChhHHHHHHHh
Q 039549 271 WYCT-CGSDFKHKRSLKDHIRS 291 (324)
Q Consensus 271 ~~C~-Cgk~F~~~~~L~~H~r~ 291 (324)
|.|. |++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 3454 55555555555555543
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.40 E-value=0.014 Score=31.87 Aligned_cols=22 Identities=32% Similarity=0.795 Sum_probs=19.6
Q ss_pred eecccccceecchHHHHHHHHh
Q 039549 245 FMCRKCGKTFAVKGDWRTHEKN 266 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~~ 266 (324)
|.|..|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 6799999999999999999873
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.19 E-value=0.012 Score=31.80 Aligned_cols=23 Identities=26% Similarity=0.585 Sum_probs=18.3
Q ss_pred eeccccchhccChhHHHHhHhhhC
Q 039549 161 FACSICSKTFNRYNNMQMHMWGHG 184 (324)
Q Consensus 161 ~~C~~C~k~F~~~~~L~~H~~~H~ 184 (324)
|+|+.|+.... ...|..|++.|+
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 68999999888 889999998864
No 52
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=94.49 E-value=0.032 Score=58.74 Aligned_cols=127 Identities=18% Similarity=0.339 Sum_probs=85.1
Q ss_pred ccCCCCCCCCCCCCcchhhh-hhcCCCceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCC
Q 039549 134 SFHGCSLNKDSRFWIPTPAQ-ILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQ 212 (324)
Q Consensus 134 ~c~~C~~~~~~~~~l~~H~~-~h~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~ 212 (324)
.|..|...+..+..+..|+. .|...+.|+|+.|+..|.....|..|||.-+.+.. -.+|.
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~------------------~~~c~- 498 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQ------------------SAYCK- 498 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccc------------------hhHhH-
Confidence 45556666666666666664 45556889999999999999999999997544411 01221
Q ss_pred CCccCcCCCCCccCCChhHHHHHHhhh------cCCCceecccccceecchHHHHHHHH--hc-----------C-----
Q 039549 213 GCKNNINHPRAKPLKDFRTLQTHFKRK------HGAKPFMCRKCGKTFAVKGDWRTHEK--NC-----------G----- 268 (324)
Q Consensus 213 ~~~~~~~~~~~k~f~~~~~L~~H~r~H------~gekp~~C~~Cgk~F~~~~~L~~H~~--~~-----------~----- 268 (324)
..+.|.+.- -+-+||.|..|..+|+.+.+|..|+. .| +
T Consensus 499 ------------------~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~ 560 (1406)
T KOG1146|consen 499 ------------------AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRL 560 (1406)
T ss_pred ------------------hccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhh
Confidence 111222211 24578999999999999999999975 11 0
Q ss_pred ---------------------------Ceeeec-CCcccCChhHHHHHHHhhCCCCC
Q 039549 269 ---------------------------KLWYCT-CGSDFKHKRSLKDHIRSFGKGHS 297 (324)
Q Consensus 269 ---------------------------k~~~C~-Cgk~F~~~~~L~~H~r~~h~~~~ 297 (324)
-.+.|. |+.--.-..+|+-|+..-+....
T Consensus 561 ~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 561 LPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSP 617 (1406)
T ss_pred hhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCC
Confidence 137887 98888878888888765443444
No 53
>PRK04860 hypothetical protein; Provisional
Probab=94.43 E-value=0.025 Score=46.41 Aligned_cols=33 Identities=18% Similarity=0.440 Sum_probs=29.9
Q ss_pred CceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCC
Q 039549 159 MQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCA 211 (324)
Q Consensus 159 ~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~ 211 (324)
-+|.|. |++ ....+.+|.++|.++ ++|.|..|+
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~----------------~~YrC~~C~ 150 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGE----------------AVYRCRRCG 150 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCC----------------ccEECCCCC
Confidence 479998 998 678899999999998 899999999
No 54
>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=94.39 E-value=0.015 Score=32.50 Aligned_cols=21 Identities=33% Similarity=0.782 Sum_probs=14.5
Q ss_pred eecccccceecchHHHHHHHH
Q 039549 245 FMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
|.|..|++.|.....|..|++
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 557777777777777777665
No 55
>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=94.03 E-value=0.022 Score=31.80 Aligned_cols=22 Identities=36% Similarity=0.747 Sum_probs=19.9
Q ss_pred eeccccchhccChhHHHHhHhh
Q 039549 161 FACSICSKTFNRYNNMQMHMWG 182 (324)
Q Consensus 161 ~~C~~C~k~F~~~~~L~~H~~~ 182 (324)
|-|..|++.|.+...|..|++.
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 6799999999999999999875
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.15 E-value=0.11 Score=28.42 Aligned_cols=18 Identities=33% Similarity=0.846 Sum_probs=8.6
Q ss_pred eec-CCcccCChhHHHHHHH
Q 039549 272 YCT-CGSDFKHKRSLKDHIR 290 (324)
Q Consensus 272 ~C~-Cgk~F~~~~~L~~H~r 290 (324)
.|. ||+.| ....|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 344 55555 3444555543
No 57
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.95 E-value=0.12 Score=30.56 Aligned_cols=22 Identities=27% Similarity=0.797 Sum_probs=14.1
Q ss_pred eeeec-CCcccCChhHHHHHHHh
Q 039549 270 LWYCT-CGSDFKHKRSLKDHIRS 291 (324)
Q Consensus 270 ~~~C~-Cgk~F~~~~~L~~H~r~ 291 (324)
+|.|+ |++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46666 77777666666666543
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.70 E-value=0.16 Score=27.79 Aligned_cols=20 Identities=35% Similarity=0.680 Sum_probs=14.4
Q ss_pred ecccccceecchHHHHHHHHh
Q 039549 246 MCRKCGKTFAVKGDWRTHEKN 266 (324)
Q Consensus 246 ~C~~Cgk~F~~~~~L~~H~~~ 266 (324)
.|..||+.| ....|..|+..
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 578888888 56677777653
No 59
>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=91.67 E-value=0.13 Score=30.32 Aligned_cols=22 Identities=32% Similarity=0.557 Sum_probs=19.8
Q ss_pred ceecccccceecchHHHHHHHH
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
+|.|..|++.|.....+..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5889999999999999999986
No 60
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.41 E-value=0.21 Score=38.19 Aligned_cols=46 Identities=17% Similarity=0.220 Sum_probs=27.0
Q ss_pred cccccceecchHHHHHHHHhcCCeeeec-CCcccCChhHHHHHHHhh
Q 039549 247 CRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 247 C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
|--|++.|........-.......|.|. |...|--.-.+-.|...|
T Consensus 58 C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 58 CFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhcc
Confidence 7777777765431111001223467787 888887777777776655
No 61
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.42 E-value=0.14 Score=43.05 Aligned_cols=81 Identities=20% Similarity=0.468 Sum_probs=59.5
Q ss_pred Cceeccc--cchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHH
Q 039549 159 MQFACSI--CSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHF 236 (324)
Q Consensus 159 ~~~~C~~--C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~ 236 (324)
..|.|++ |-..|.....+..|-..-+++ .|..|. +.|.+...|..|+
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~-------------------sCs~C~------------r~~Pt~hLLd~HI 126 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN-------------------SCSFCK------------RAFPTGHLLDAHI 126 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc-------------------hhHHHH------------HhCCchhhhhHHH
Confidence 3477877 777888888888887655554 489998 8888888888887
Q ss_pred hh----------hcCCCceeccc--ccceecchHHHHHHHH-hcCCe
Q 039549 237 KR----------KHGAKPFMCRK--CGKTFAVKGDWRTHEK-NCGKL 270 (324)
Q Consensus 237 r~----------H~gekp~~C~~--Cgk~F~~~~~L~~H~~-~~~k~ 270 (324)
.- -.|.--|+|-+ |+-.|.+.-....|+- +|.-|
T Consensus 127 ~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk~P 173 (253)
T KOG4173|consen 127 LEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHKYP 173 (253)
T ss_pred HHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhccCC
Confidence 42 23555688854 9988999888888885 66543
No 62
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=90.30 E-value=0.11 Score=54.97 Aligned_cols=66 Identities=23% Similarity=0.396 Sum_probs=51.7
Q ss_pred CCChhHHHHHHh-hhcCCCceecccccceecchHHHHHHHHh---------------c------------CCeeeec-CC
Q 039549 226 LKDFRTLQTHFK-RKHGAKPFMCRKCGKTFAVKGDWRTHEKN---------------C------------GKLWYCT-CG 276 (324)
Q Consensus 226 f~~~~~L~~H~r-~H~gekp~~C~~Cgk~F~~~~~L~~H~~~---------------~------------~k~~~C~-Cg 276 (324)
+.+...+..|+. +|.-.|-|+|+.|+..|.....|-.|+|. | .++|.|. |.
T Consensus 446 ~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~ 525 (1406)
T KOG1146|consen 446 LESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACN 525 (1406)
T ss_pred hhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeee
Confidence 334444444443 45556889999999999999999999984 1 2579998 99
Q ss_pred cccCChhHHHHHHHh
Q 039549 277 SDFKHKRSLKDHIRS 291 (324)
Q Consensus 277 k~F~~~~~L~~H~r~ 291 (324)
.+|..+.+|..|+.+
T Consensus 526 ~stttng~LsihlqS 540 (1406)
T KOG1146|consen 526 YSTTTNGNLSIHLQS 540 (1406)
T ss_pred eeeecchHHHHHHHH
Confidence 999999999999875
No 63
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.97 E-value=0.095 Score=49.51 Aligned_cols=70 Identities=23% Similarity=0.344 Sum_probs=54.9
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhHHHHHHh--hhcCC--Cceecc--cccceecchHHHHHHHHhc--CCeeeec
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFK--RKHGA--KPFMCR--KCGKTFAVKGDWRTHEKNC--GKLWYCT 274 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r--~H~ge--kp~~C~--~Cgk~F~~~~~L~~H~~~~--~k~~~C~ 274 (324)
.++.|..|. ..|.....|..|.+ .|+++ +|+.|. .|++.|.+...+..|..+| -+++.|.
T Consensus 288 ~~~~~~~~~------------~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 288 LPIKSKQCN------------ISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred cCCCCcccc------------CCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 356777787 88888888999999 89999 999999 7999999999999998854 4556663
Q ss_pred ---CCcccCChhH
Q 039549 275 ---CGSDFKHKRS 284 (324)
Q Consensus 275 ---Cgk~F~~~~~ 284 (324)
|.+.+.....
T Consensus 356 ~~~~~~~~~~~~~ 368 (467)
T COG5048 356 LLNSSSKFSPLLN 368 (467)
T ss_pred cccCccccccccC
Confidence 7776665443
No 64
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=88.56 E-value=0.77 Score=42.39 Aligned_cols=50 Identities=14% Similarity=0.168 Sum_probs=37.9
Q ss_pred ccccCCCCCCCCCCCCcchhhhh--h-----------------------------------cCCCceeccccchhccChh
Q 039549 132 RKSFHGCSLNKDSRFWIPTPAQI--L-----------------------------------VGPMQFACSICSKTFNRYN 174 (324)
Q Consensus 132 ~~~c~~C~~~~~~~~~l~~H~~~--h-----------------------------------~~~~~~~C~~C~k~F~~~~ 174 (324)
.+.|..|...|........|.++ | .++.++.|..|.++|....
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 46788899888887666666653 2 1235689999999999988
Q ss_pred HHHHhHh
Q 039549 175 NMQMHMW 181 (324)
Q Consensus 175 ~L~~H~~ 181 (324)
....|+.
T Consensus 83 a~~~hl~ 89 (390)
T KOG2785|consen 83 AHENHLK 89 (390)
T ss_pred hHHHHHH
Confidence 8888875
No 65
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.42 E-value=0.9 Score=45.44 Aligned_cols=110 Identities=19% Similarity=0.368 Sum_probs=69.6
Q ss_pred cCccccCCCCCCCCCCCCcchhhh-hhcCCCceecccc----------chhccChhHHHHhHhhhCCCCcCCCCCCCCCC
Q 039549 130 ISRKSFHGCSLNKDSRFWIPTPAQ-ILVGPMQFACSIC----------SKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQ 198 (324)
Q Consensus 130 ~~~~~c~~C~~~~~~~~~l~~H~~-~h~~~~~~~C~~C----------~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~ 198 (324)
.....|..| ..|.+...|..|+. .| +.+.|..| .+.| +...|..|++.-.. +..+.++
T Consensus 113 ~~~~~~~~c-~~~~s~~~Lk~H~~~~H---~~~~c~lC~~~~kif~~e~k~Y-t~~el~~h~~~gd~----d~~s~rG-- 181 (669)
T KOG2231|consen 113 YNKKECLHC-TEFKSVENLKNHMRDQH---KLHLCSLCLQNLKIFINERKLY-TRAELNLHLMFGDP----DDESCRG-- 181 (669)
T ss_pred cccCCCccc-cchhHHHHHHHHHHHhh---hhhccccccccceeeeeeeehe-hHHHHHHHHhcCCC----ccccccC--
Confidence 345588999 88889999999994 45 23344443 3333 34567777653221 1111111
Q ss_pred CCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccc------cceecchHHHHHHHHhcCCeee
Q 039549 199 PAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKC------GKTFAVKGDWRTHEKNCGKLWY 272 (324)
Q Consensus 199 ~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~C------gk~F~~~~~L~~H~~~~~k~~~ 272 (324)
--.|..|. ..|.....|.+|++.++ |.|..| +--|.....|..|-|.+ .|.
T Consensus 182 -----hp~C~~C~------------~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~--Hfl 238 (669)
T KOG2231|consen 182 -----HPLCKFCH------------ERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKG--HFL 238 (669)
T ss_pred -----Cccchhhh------------hhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhc--Ccc
Confidence 13588998 88888889999998655 556666 34577778888887743 244
Q ss_pred e
Q 039549 273 C 273 (324)
Q Consensus 273 C 273 (324)
|
T Consensus 239 C 239 (669)
T KOG2231|consen 239 C 239 (669)
T ss_pred c
Confidence 5
No 66
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=86.93 E-value=0.18 Score=43.38 Aligned_cols=32 Identities=19% Similarity=0.543 Sum_probs=26.7
Q ss_pred CceeccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCC
Q 039549 159 MQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCA 211 (324)
Q Consensus 159 ~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~ 211 (324)
|++ |-+|.+-|....-|++|++.- -|+|.+|.
T Consensus 10 kpw-cwycnrefddekiliqhqkak--------------------hfkchich 41 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKAK--------------------HFKCHICH 41 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhhc--------------------cceeeeeh
Confidence 454 999999999999999998753 37899998
No 67
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=85.78 E-value=0.26 Score=42.43 Aligned_cols=43 Identities=28% Similarity=0.560 Sum_probs=28.6
Q ss_pred CceecccccceecchHHHHHHHHhcCCeeeec-CCcccCChhHHHHH
Q 039549 243 KPFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHKRSLKDH 288 (324)
Q Consensus 243 kp~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~~~L~~H 288 (324)
||| |-+|++-|-....|.+|++. |.|+|. |-|..-+--.|..|
T Consensus 10 kpw-cwycnrefddekiliqhqka--khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKA--KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhh--ccceeeeehhhhccCCCceee
Confidence 444 77777777777777777663 457776 76665555555555
No 68
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=85.37 E-value=0.51 Score=41.09 Aligned_cols=47 Identities=30% Similarity=0.651 Sum_probs=33.5
Q ss_pred cccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHH
Q 039549 204 RLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 204 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
-|.|..|| ...+ ...+-+|+-.-++ ..|.|..||+.|.. .....|..
T Consensus 3 ~FtCnvCg------------EsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCG------------ESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhh------------hhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 37888888 3333 2346678776666 57888888888887 67777775
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=84.83 E-value=0.41 Score=31.38 Aligned_cols=25 Identities=28% Similarity=0.685 Sum_probs=14.1
Q ss_pred CCCceecccccceecchHHHHHHHH
Q 039549 241 GAKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 241 gekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
||--+.|+.||..|....+..+|..
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhh
Confidence 4444555555555555555555554
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=84.04 E-value=0.56 Score=30.73 Aligned_cols=29 Identities=21% Similarity=0.338 Sum_probs=24.7
Q ss_pred hcCCCceeccccchhccChhHHHHhHhhh
Q 039549 155 LVGPMQFACSICSKTFNRYNNMQMHMWGH 183 (324)
Q Consensus 155 h~~~~~~~C~~C~k~F~~~~~L~~H~~~H 183 (324)
--|+.-++|+.||..|.....+.+|..--
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 35677899999999999999999998643
No 71
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=83.07 E-value=1.2 Score=29.67 Aligned_cols=30 Identities=27% Similarity=0.664 Sum_probs=17.6
Q ss_pred eecccccceecchHHHHHHHHhcCCeeeec-CCc
Q 039549 245 FMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGS 277 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk 277 (324)
|.|+.||..-..+..- -|....+|.|+ ||.
T Consensus 28 F~CPnCGe~~I~Rc~~---CRk~g~~Y~Cp~CGF 58 (61)
T COG2888 28 FPCPNCGEVEIYRCAK---CRKLGNPYRCPKCGF 58 (61)
T ss_pred eeCCCCCceeeehhhh---HHHcCCceECCCcCc
Confidence 6677777555444321 12556777776 774
No 72
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=81.57 E-value=1.4 Score=41.13 Aligned_cols=123 Identities=18% Similarity=0.311 Sum_probs=73.0
Q ss_pred ceec--cccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCC--CCCCCCccCcCCCCCccCCChhHHHHH
Q 039549 160 QFAC--SICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCY--CCAQGCKNNINHPRAKPLKDFRTLQTH 235 (324)
Q Consensus 160 ~~~C--~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~--~C~~~~~~~~~~~~~k~f~~~~~L~~H 235 (324)
-|.| +.|+..+-.+..+.+|..+|............-+++. |.|. .|. | +.+....|
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~s----yhC~~~~C~------------k---sTsdV~~h 331 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNS----YHCTGQICE------------K---STSDVLLH 331 (480)
T ss_pred hhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCcc----chhhhcccC------------c---cccccccc
Confidence 3666 4599888889999999999976533333222222221 4443 354 4 33445556
Q ss_pred HhhhcCC-------Cceeccccc--ceecchHHHHHHHH------hc--------------------CCeeeec---CCc
Q 039549 236 FKRKHGA-------KPFMCRKCG--KTFAVKGDWRTHEK------NC--------------------GKLWYCT---CGS 277 (324)
Q Consensus 236 ~r~H~ge-------kp~~C~~Cg--k~F~~~~~L~~H~~------~~--------------------~k~~~C~---Cgk 277 (324)
-..|+.. -.|-|..|| ..|.-...-..|.+ .| -..|.|. |+.
T Consensus 332 ~nFht~~~n~GfrrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~ 411 (480)
T KOG4377|consen 332 DNFHTDKRNNGFRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEA 411 (480)
T ss_pred CccccccccCceecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCce
Confidence 6655432 237787777 44542222222222 01 0236785 999
Q ss_pred ccCChhHHHHHHHhhCCCCCCCCC
Q 039549 278 DFKHKRSLKDHIRSFGKGHSPHPS 301 (324)
Q Consensus 278 ~F~~~~~L~~H~r~~h~~~~~~~~ 301 (324)
+|...+.+..|.|.|-+.+.-++.
T Consensus 412 tl~s~sqm~shkrkheRqeqgepa 435 (480)
T KOG4377|consen 412 TLYSVSQMASHKRKHERQEQGEPA 435 (480)
T ss_pred EEEehhhhhhhhhhhhhhhhcccc
Confidence 999999999999999766555554
No 73
>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=81.54 E-value=0.86 Score=26.69 Aligned_cols=10 Identities=40% Similarity=1.298 Sum_probs=5.9
Q ss_pred Cceecccccc
Q 039549 243 KPFMCRKCGK 252 (324)
Q Consensus 243 kp~~C~~Cgk 252 (324)
.|+.|++||-
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4566666653
No 74
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=81.31 E-value=0.7 Score=38.93 Aligned_cols=78 Identities=21% Similarity=0.441 Sum_probs=56.9
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHHHH-h-----------cCCe
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK-N-----------CGKL 270 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~-~-----------~~k~ 270 (324)
..|.|.+-|.. ..|.....+..|..+-+|. .|..|.+.|.+...|..|.. . |.--
T Consensus 78 ~~~~cqvagc~----------~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dM 144 (253)
T KOG4173|consen 78 PAFACQVAGCC----------QVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDM 144 (253)
T ss_pred ccccccccchH----------HHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccH
Confidence 45778775522 5565555566676554443 69999999999999999975 1 2346
Q ss_pred eee--c-CCcccCChhHHHHHHHhhC
Q 039549 271 WYC--T-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 271 ~~C--~-Cgk~F~~~~~L~~H~r~~h 293 (324)
|.| . |+-.|+....-+.|+-.-|
T Consensus 145 y~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 145 YQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 999 3 9999999999999966544
No 75
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=80.12 E-value=1.1 Score=39.02 Aligned_cols=51 Identities=24% Similarity=0.582 Sum_probs=39.6
Q ss_pred eecccccceecchHHHHHHHH-hcCCeeeec-CCcccCChhHHHHHHHhhCCCCC
Q 039549 245 FMCRKCGKTFAVKGDWRTHEK-NCGKLWYCT-CGSDFKHKRSLKDHIRSFGKGHS 297 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~-~~~k~~~C~-Cgk~F~~~~~L~~H~r~~h~~~~ 297 (324)
|.|.+||-+..- ..|-+|+- -++.-|.|- ||+.|-+ -+.+.|..-....++
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCITEaQK 56 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCITEAQK 56 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhhhhcchHHH
Confidence 789999988764 46777986 456899996 9999998 677888876654444
No 76
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=79.53 E-value=0.54 Score=40.68 Aligned_cols=41 Identities=27% Similarity=0.520 Sum_probs=27.4
Q ss_pred CCceecccccceecchHHHHHHHHh------------cCCe-----eeec-CCcccCCh
Q 039549 242 AKPFMCRKCGKTFAVKGDWRTHEKN------------CGKL-----WYCT-CGSDFKHK 282 (324)
Q Consensus 242 ekp~~C~~Cgk~F~~~~~L~~H~~~------------~~k~-----~~C~-Cgk~F~~~ 282 (324)
+|.+.|++|++.|.++.-+....|. +-.| ..|+ ||.+|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 3567888888888887666555541 1122 4798 99987644
No 77
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=78.46 E-value=2.9 Score=38.12 Aligned_cols=23 Identities=30% Similarity=0.653 Sum_probs=17.8
Q ss_pred ceeccccchhccChhHHHHhHhh
Q 039549 160 QFACSICSKTFNRYNNMQMHMWG 182 (324)
Q Consensus 160 ~~~C~~C~k~F~~~~~L~~H~~~ 182 (324)
.+.|-.|.+.|..+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 36788888888888888888863
No 78
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=77.37 E-value=2.4 Score=34.30 Aligned_cols=38 Identities=13% Similarity=0.481 Sum_probs=26.5
Q ss_pred cCCCceecccccceecchHHHHH-HHHhcCCeeeec-CCcccC
Q 039549 240 HGAKPFMCRKCGKTFAVKGDWRT-HEKNCGKLWYCT-CGSDFK 280 (324)
Q Consensus 240 ~gekp~~C~~Cgk~F~~~~~L~~-H~~~~~k~~~C~-Cgk~F~ 280 (324)
.+..-|.|+.||..|+....+.. + . ...|.|+ ||....
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~~d--~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQLLD--M-DGTFTCPRCGEELE 134 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHhcC--C-CCcEECCCCCCEEE
Confidence 45557999999999997665443 2 1 3349998 998753
No 79
>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=74.13 E-value=3.8 Score=25.53 Aligned_cols=9 Identities=33% Similarity=0.711 Sum_probs=4.9
Q ss_pred hHHHHHHHh
Q 039549 283 RSLKDHIRS 291 (324)
Q Consensus 283 ~~L~~H~r~ 291 (324)
+.|.+|++.
T Consensus 34 s~l~~HL~~ 42 (45)
T PF02892_consen 34 SNLKRHLKK 42 (45)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHhhhh
Confidence 456666543
No 80
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=73.24 E-value=1.6 Score=31.52 Aligned_cols=29 Identities=34% Similarity=0.964 Sum_probs=17.1
Q ss_pred ceecccccceecchHHHHHHHHhcCCeeeec-CCcccC
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFK 280 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~ 280 (324)
.|.|+.|++. .+.|....-+.|. ||..|+
T Consensus 35 ~~~Cp~C~~~--------~VkR~a~GIW~C~kCg~~fA 64 (89)
T COG1997 35 KHVCPFCGRT--------TVKRIATGIWKCRKCGAKFA 64 (89)
T ss_pred CCcCCCCCCc--------ceeeeccCeEEcCCCCCeec
Confidence 4667777653 2334555666776 776664
No 81
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=73.01 E-value=0.85 Score=37.18 Aligned_cols=15 Identities=33% Similarity=0.623 Sum_probs=10.3
Q ss_pred eecccccceecchHH
Q 039549 245 FMCRKCGKTFAVKGD 259 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~ 259 (324)
|+|..||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 677777777776543
No 82
>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=72.93 E-value=2.9 Score=25.08 Aligned_cols=10 Identities=40% Similarity=1.145 Sum_probs=4.8
Q ss_pred eeccccccee
Q 039549 245 FMCRKCGKTF 254 (324)
Q Consensus 245 ~~C~~Cgk~F 254 (324)
..|..||..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4455555444
No 83
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=72.39 E-value=3.5 Score=41.35 Aligned_cols=26 Identities=31% Similarity=0.589 Sum_probs=23.6
Q ss_pred ceeccccchhccChhHHHHhHhhhCC
Q 039549 160 QFACSICSKTFNRYNNMQMHMWGHGS 185 (324)
Q Consensus 160 ~~~C~~C~k~F~~~~~L~~H~~~H~~ 185 (324)
.|.|..|+|.|.....+..||+.|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48999999999999999999999953
No 84
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=72.09 E-value=3.6 Score=26.49 Aligned_cols=8 Identities=38% Similarity=0.858 Sum_probs=4.8
Q ss_pred hHHHHHHH
Q 039549 283 RSLKDHIR 290 (324)
Q Consensus 283 ~~L~~H~r 290 (324)
++|.+|++
T Consensus 37 s~L~rHl~ 44 (50)
T smart00614 37 SNLRRHLR 44 (50)
T ss_pred HHHHHHHH
Confidence 46666665
No 85
>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=71.83 E-value=2.7 Score=32.11 Aligned_cols=32 Identities=13% Similarity=0.304 Sum_probs=25.7
Q ss_pred CccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccCh
Q 039549 131 SRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRY 173 (324)
Q Consensus 131 ~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~ 173 (324)
.+..|..|+..|.-.. +.|-.|+.||..|.-.
T Consensus 8 tKR~Cp~CG~kFYDLn-----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLN-----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchhccCC-----------CCCccCCCCCCccCcc
Confidence 3568999999988743 3678899999999776
No 86
>PHA00626 hypothetical protein
Probab=71.13 E-value=1.4 Score=29.03 Aligned_cols=13 Identities=23% Similarity=0.697 Sum_probs=7.4
Q ss_pred ceecccccceecc
Q 039549 244 PFMCRKCGKTFAV 256 (324)
Q Consensus 244 p~~C~~Cgk~F~~ 256 (324)
.|+|..||..|+.
T Consensus 23 rYkCkdCGY~ft~ 35 (59)
T PHA00626 23 DYVCCDCGYNDSK 35 (59)
T ss_pred ceEcCCCCCeech
Confidence 4666666655553
No 87
>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=70.28 E-value=2.3 Score=25.11 Aligned_cols=10 Identities=40% Similarity=0.936 Sum_probs=6.1
Q ss_pred Cceecccccc
Q 039549 243 KPFMCRKCGK 252 (324)
Q Consensus 243 kp~~C~~Cgk 252 (324)
.|..|++||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4566777664
No 88
>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=70.23 E-value=5 Score=32.87 Aligned_cols=42 Identities=17% Similarity=0.411 Sum_probs=31.4
Q ss_pred HHHHHhhhcCCCceecccccceecchHHHHHHHHhcCCeeeec-CCcccC
Q 039549 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFK 280 (324)
Q Consensus 232 L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~ 280 (324)
|..-+.-..+..-|.|+.|+..|+...++. .-|.|+ ||....
T Consensus 97 lk~~l~~e~~~~~Y~Cp~c~~r~tf~eA~~-------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 97 LREKLEFETNNMFFICPNMCVRFTFNEAME-------LNFTCPRCGAMLD 139 (158)
T ss_pred HHHHHhhccCCCeEECCCCCcEeeHHHHHH-------cCCcCCCCCCEee
Confidence 444444455667799999999999988885 369998 998753
No 89
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=70.17 E-value=3.6 Score=24.61 Aligned_cols=31 Identities=23% Similarity=0.654 Sum_probs=14.2
Q ss_pred ecccccceecchHHHHHHHHhcCCeeeec-CCccc
Q 039549 246 MCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDF 279 (324)
Q Consensus 246 ~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F 279 (324)
.|+.|+..|.-...... ......+|. |+..|
T Consensus 4 ~Cp~C~~~y~i~d~~ip---~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIP---PKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCC---CCCcEEECCCCCCEe
Confidence 45555555554443211 233445555 55544
No 90
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=69.88 E-value=6.8 Score=35.86 Aligned_cols=75 Identities=20% Similarity=0.436 Sum_probs=52.5
Q ss_pred eccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcC
Q 039549 162 ACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHG 241 (324)
Q Consensus 162 ~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~g 241 (324)
+|..|..-|..-..|.+|+|..+.. |.+|.+- ..+.-.=|+...+|-.|.+.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE~--------------------ChICD~v-----~p~~~QYFK~Y~~Le~HF~~--- 273 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHEA--------------------CHICDMV-----GPIRYQYFKSYEDLEAHFRN--- 273 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhhh--------------------hhhhhcc-----CccchhhhhCHHHHHHHhhc---
Confidence 6999999999999999999976654 8888721 01100237778888888763
Q ss_pred CCceeccc--cc----ceecchHHHHHHHH
Q 039549 242 AKPFMCRK--CG----KTFAVKGDWRTHEK 265 (324)
Q Consensus 242 ekp~~C~~--Cg----k~F~~~~~L~~H~~ 265 (324)
..|.|.+ |- ..|.....|..|..
T Consensus 274 -~hy~ct~qtc~~~k~~vf~~~~el~~h~~ 302 (493)
T COG5236 274 -AHYCCTFQTCRVGKCYVFPYHTELLEHLT 302 (493)
T ss_pred -CceEEEEEEEecCcEEEeccHHHHHHHHH
Confidence 2466644 32 35888888999975
No 91
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=69.71 E-value=1.4 Score=30.94 Aligned_cols=15 Identities=27% Similarity=0.722 Sum_probs=7.9
Q ss_pred CCceecc--cccceecc
Q 039549 242 AKPFMCR--KCGKTFAV 256 (324)
Q Consensus 242 ekp~~C~--~Cgk~F~~ 256 (324)
++.|+|. .||.+|..
T Consensus 25 ~~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 25 ERYHQCQNVNCSATFIT 41 (72)
T ss_pred eeeeecCCCCCCCEEEE
Confidence 3445555 55555554
No 92
>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=69.32 E-value=1.5 Score=33.11 Aligned_cols=14 Identities=14% Similarity=0.517 Sum_probs=10.8
Q ss_pred ceeccccchhccCh
Q 039549 160 QFACSICSKTFNRY 173 (324)
Q Consensus 160 ~~~C~~C~k~F~~~ 173 (324)
.+.|+.|+..+...
T Consensus 16 ~~~C~~C~~~~~~~ 29 (104)
T TIGR01384 16 VYVCPSCGYEKEKK 29 (104)
T ss_pred eEECcCCCCccccc
Confidence 57899999876653
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=66.99 E-value=3 Score=34.36 Aligned_cols=14 Identities=36% Similarity=0.926 Sum_probs=11.0
Q ss_pred hhcCCCceeccccc
Q 039549 238 RKHGAKPFMCRKCG 251 (324)
Q Consensus 238 ~H~gekp~~C~~Cg 251 (324)
+|.|+-|-+|++||
T Consensus 143 ~~~ge~P~~CPiCg 156 (166)
T COG1592 143 THEGEAPEVCPICG 156 (166)
T ss_pred cccCCCCCcCCCCC
Confidence 35678888899988
No 94
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.83 E-value=1.5 Score=35.80 Aligned_cols=16 Identities=25% Similarity=0.584 Sum_probs=11.9
Q ss_pred Ceeeec-CCcccCChhH
Q 039549 269 KLWYCT-CGSDFKHKRS 284 (324)
Q Consensus 269 k~~~C~-Cgk~F~~~~~ 284 (324)
+.|+|+ ||++|...-.
T Consensus 27 ~~~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 27 RRRECLACGKRFTTFER 43 (154)
T ss_pred eeeeccccCCcceEeEe
Confidence 458998 9999976533
No 95
>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=66.33 E-value=3.5 Score=32.66 Aligned_cols=22 Identities=41% Similarity=0.866 Sum_probs=12.5
Q ss_pred Ceeeec-CCcccCChhHHHHHHHhhC
Q 039549 269 KLWYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 269 k~~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
.--.|- |||.|+. |++|++.||
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT
T ss_pred CeeEEccCCcccch---HHHHHHHcc
Confidence 345564 7777765 488888886
No 96
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=66.13 E-value=2.2 Score=29.93 Aligned_cols=40 Identities=18% Similarity=0.419 Sum_probs=26.0
Q ss_pred eecccccceecchHHHHHHHHhcCCeeeec---CCcccCChhH
Q 039549 245 FMCRKCGKTFAVKGDWRTHEKNCGKLWYCT---CGSDFKHKRS 284 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~---Cgk~F~~~~~ 284 (324)
+.|+.||..-....+-..+..+-++-+.|. ||.+|+..-.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDTTKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred ccCCCCCCccEEEEChhcChhhheeeeecCCCCCCCEEEEEEE
Confidence 468888865544444333333557889994 9999987644
No 97
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=64.73 E-value=4 Score=25.74 Aligned_cols=11 Identities=27% Similarity=0.670 Sum_probs=5.1
Q ss_pred ceeccccccee
Q 039549 244 PFMCRKCGKTF 254 (324)
Q Consensus 244 p~~C~~Cgk~F 254 (324)
...|+.||..+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 34455555433
No 98
>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=64.46 E-value=3.6 Score=31.43 Aligned_cols=12 Identities=25% Similarity=0.678 Sum_probs=8.6
Q ss_pred eeccccchhccC
Q 039549 161 FACSICSKTFNR 172 (324)
Q Consensus 161 ~~C~~C~k~F~~ 172 (324)
..|+.||+.|..
T Consensus 10 R~Cp~CG~kFYD 21 (108)
T PF09538_consen 10 RTCPSCGAKFYD 21 (108)
T ss_pred ccCCCCcchhcc
Confidence 358888888755
No 99
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=64.27 E-value=6.2 Score=33.02 Aligned_cols=42 Identities=19% Similarity=0.528 Sum_probs=29.7
Q ss_pred HHHHHhhhcCCCceecccccceecchHHHHHHHHhcCCeeeec-CCcccC
Q 039549 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFK 280 (324)
Q Consensus 232 L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~ 280 (324)
|..-+..-....-|.|+.|++.|+...++. .-|.|+ ||....
T Consensus 105 lk~~l~~e~~~~~Y~Cp~C~~rytf~eA~~-------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 105 LKEQLEEEENNMFFFCPNCHIRFTFDEAME-------YGFRCPQCGEMLE 147 (178)
T ss_pred HHHHhhhccCCCEEECCCCCcEEeHHHHhh-------cCCcCCCCCCCCe
Confidence 333333334456799999999999888763 369998 998754
No 100
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=63.49 E-value=4 Score=36.70 Aligned_cols=46 Identities=20% Similarity=0.268 Sum_probs=32.0
Q ss_pred cccccceecchHHHHHHHHhcCCeeeec-CCcccCChhHHHHHHHhh
Q 039549 247 CRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 247 C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
|-.|.-.|.....-..-..+..-.|.|. |...|......-.|...|
T Consensus 365 Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 365 CFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 7788777775433221122445789998 999999988888887766
No 101
>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=63.07 E-value=6.2 Score=30.01 Aligned_cols=19 Identities=26% Similarity=0.524 Sum_probs=12.9
Q ss_pred CCcccCChhHHHHHHHhhC
Q 039549 275 CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 275 Cgk~F~~~~~L~~H~r~~h 293 (324)
|+..+.+...+.+|.+.+|
T Consensus 90 C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 90 CGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCcEeccHHHHHHHHHHhc
Confidence 6666666666666666665
No 102
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=61.24 E-value=6.8 Score=23.50 Aligned_cols=11 Identities=45% Similarity=1.129 Sum_probs=5.6
Q ss_pred ceeccccccee
Q 039549 244 PFMCRKCGKTF 254 (324)
Q Consensus 244 p~~C~~Cgk~F 254 (324)
..+|..|+-.|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 44555555444
No 103
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=61.19 E-value=2.1 Score=36.97 Aligned_cols=52 Identities=15% Similarity=0.428 Sum_probs=28.0
Q ss_pred CcccCCCCCCCCccCcCCCCC-ccCCChhHHHHHHhhhcCCCc-----eecccccceecch
Q 039549 203 LRLPCYCCAQGCKNNINHPRA-KPLKDFRTLQTHFKRKHGAKP-----FMCRKCGKTFAVK 257 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~-k~f~~~~~L~~H~r~H~gekp-----~~C~~Cgk~F~~~ 257 (324)
+.+.|++|++.|......++. +.....+.|..| ..|..| ..|+.||.+|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~---Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPR---YKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccc---cCCCCCeeeeEEECCCCCCccccc
Confidence 557899999666554322211 111111222111 234455 4799999998855
No 104
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=60.60 E-value=7.6 Score=25.98 Aligned_cols=30 Identities=23% Similarity=0.774 Sum_probs=13.9
Q ss_pred eecccccceecchHHHHHHHHhcCCeeeec-CCc
Q 039549 245 FMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGS 277 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk 277 (324)
|.|+.||..-..+.. .-|....+|.|+ ||.
T Consensus 26 F~CPnCG~~~I~RC~---~CRk~~~~Y~CP~CGF 56 (59)
T PRK14890 26 FLCPNCGEVIIYRCE---KCRKQSNPYTCPKCGF 56 (59)
T ss_pred eeCCCCCCeeEeech---hHHhcCCceECCCCCC
Confidence 556666554222211 112335666775 664
No 105
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=60.30 E-value=2.8 Score=26.72 Aligned_cols=34 Identities=24% Similarity=0.564 Sum_probs=15.7
Q ss_pred cccccceecchHHHHHHHHhcCCeeeec---CCcccC
Q 039549 247 CRKCGKTFAVKGDWRTHEKNCGKLWYCT---CGSDFK 280 (324)
Q Consensus 247 C~~Cgk~F~~~~~L~~H~~~~~k~~~C~---Cgk~F~ 280 (324)
|+.||....-......+...-+.-|+|. ||.+|.
T Consensus 2 CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~Cg~tfv 38 (47)
T PF04606_consen 2 CPHCGSKARIRTSRQLSPLTRELYCQCTNPECGHTFV 38 (47)
T ss_pred cCCCCCeeEEEEchhhCcceEEEEEEECCCcCCCEEE
Confidence 5555544443333333333334455562 666654
No 106
>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=60.25 E-value=6.2 Score=21.74 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=7.8
Q ss_pred eccccchhcc
Q 039549 162 ACSICSKTFN 171 (324)
Q Consensus 162 ~C~~C~k~F~ 171 (324)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 4888888874
No 107
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.17 E-value=5.8 Score=31.23 Aligned_cols=21 Identities=38% Similarity=0.588 Sum_probs=15.4
Q ss_pred eeeec-CCcccCChhHHHHHHHhhC
Q 039549 270 LWYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 270 ~~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
-..|- +||.|+ +|++|+.+|+
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred eEEEeccCcchH---HHHHHHhccc
Confidence 35675 888775 4788888876
No 108
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=59.82 E-value=5.6 Score=32.13 Aligned_cols=20 Identities=10% Similarity=0.394 Sum_probs=15.1
Q ss_pred CCCceeccccchhccChhHH
Q 039549 157 GPMQFACSICSKTFNRYNNM 176 (324)
Q Consensus 157 ~~~~~~C~~C~k~F~~~~~L 176 (324)
+..-|.|+.|+..|.....+
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~ 115 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEAN 115 (147)
T ss_pred CCcEEECcCCCCEeeHHHHH
Confidence 34569999999998865444
No 109
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=59.36 E-value=7.2 Score=35.72 Aligned_cols=9 Identities=33% Similarity=0.630 Sum_probs=7.0
Q ss_pred cccCCCCCC
Q 039549 133 KSFHGCSLN 141 (324)
Q Consensus 133 ~~c~~C~~~ 141 (324)
-.|++|++.
T Consensus 9 v~CdgC~k~ 17 (381)
T KOG1280|consen 9 VSCDGCGKT 17 (381)
T ss_pred ceecccccc
Confidence 378899875
No 110
>PF14353 CpXC: CpXC protein
Probab=59.14 E-value=9.7 Score=29.81 Aligned_cols=21 Identities=29% Similarity=0.713 Sum_probs=12.8
Q ss_pred ceecccccceecchHHHHHHH
Q 039549 244 PFMCRKCGKTFAVKGDWRTHE 264 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~ 264 (324)
-|.|+.||..|.-...+.-|-
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred EEECCCCCCceecCCCEEEEc
Confidence 367777777776555544443
No 111
>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=58.04 E-value=8.2 Score=33.30 Aligned_cols=27 Identities=30% Similarity=0.605 Sum_probs=16.7
Q ss_pred CCeeeec-CCcccCChhHHHHHHHhhCC
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRSFGK 294 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~~h~ 294 (324)
+..|.|. |+|.|+-..-..+|+..-|.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 4457776 77777777777777776663
No 112
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=57.09 E-value=8.6 Score=24.16 Aligned_cols=10 Identities=40% Similarity=0.992 Sum_probs=5.4
Q ss_pred ceecccccce
Q 039549 244 PFMCRKCGKT 253 (324)
Q Consensus 244 p~~C~~Cgk~ 253 (324)
+.+|+.||..
T Consensus 19 ~irC~~CG~r 28 (44)
T smart00659 19 VVRCRECGYR 28 (44)
T ss_pred ceECCCCCce
Confidence 4556666543
No 113
>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=56.99 E-value=3.2 Score=26.88 Aligned_cols=11 Identities=36% Similarity=1.204 Sum_probs=5.1
Q ss_pred eecccccceec
Q 039549 245 FMCRKCGKTFA 255 (324)
Q Consensus 245 ~~C~~Cgk~F~ 255 (324)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44444444444
No 114
>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=56.33 E-value=8 Score=30.22 Aligned_cols=36 Identities=3% Similarity=-0.047 Sum_probs=27.0
Q ss_pred CccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccChhHHH
Q 039549 131 SRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNRYNNMQ 177 (324)
Q Consensus 131 ~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~~~~L~ 177 (324)
.+..|+.|+..|.-.. +.|..|+.||..|.-...+.
T Consensus 8 tKr~Cp~cg~kFYDLn-----------k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 8 TKRICPNTGSKFYDLN-----------RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred ccccCCCcCccccccC-----------CCCccCCCcCCccCcchhhc
Confidence 3568999999887743 36888999999987664443
No 115
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=55.93 E-value=4.7 Score=41.29 Aligned_cols=14 Identities=29% Similarity=0.764 Sum_probs=8.3
Q ss_pred cCCCceecccccce
Q 039549 240 HGAKPFMCRKCGKT 253 (324)
Q Consensus 240 ~gekp~~C~~Cgk~ 253 (324)
....|..|+.||..
T Consensus 471 ~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 471 QEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCC
Confidence 34456667777643
No 116
>PF15269 zf-C2H2_7: Zinc-finger
Probab=53.59 E-value=9.7 Score=23.84 Aligned_cols=21 Identities=29% Similarity=0.436 Sum_probs=17.8
Q ss_pred eecccccceecchHHHHHHHH
Q 039549 245 FMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
|+|-.|.....-+++|..||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 678888888888899999987
No 117
>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=52.26 E-value=12 Score=20.61 Aligned_cols=18 Identities=17% Similarity=0.296 Sum_probs=9.8
Q ss_pred ecccccceecchHHHHHHH
Q 039549 246 MCRKCGKTFAVKGDWRTHE 264 (324)
Q Consensus 246 ~C~~Cgk~F~~~~~L~~H~ 264 (324)
.|++|++.+ ....+..|.
T Consensus 3 ~CPiC~~~v-~~~~in~HL 20 (26)
T smart00734 3 QCPVCFREV-PENLINSHL 20 (26)
T ss_pred cCCCCcCcc-cHHHHHHHH
Confidence 456666655 344555554
No 118
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=51.73 E-value=8.7 Score=39.09 Aligned_cols=35 Identities=20% Similarity=0.367 Sum_probs=24.3
Q ss_pred eecccccceecchHHHHHHHHhcCCeeeec-CCcccCChhH
Q 039549 245 FMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHKRS 284 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~~~ 284 (324)
-.|..|++.|..... ....+.|-|. ||..|....+
T Consensus 461 dtC~~C~kkFfSlsK-----~L~~RKHHCRkCGrVFC~~CS 496 (1374)
T PTZ00303 461 DSCPSCGRAFISLSR-----PLGTRAHHCRSCGIRLCVFCI 496 (1374)
T ss_pred CcccCcCCccccccc-----ccccccccccCCccccCcccc
Confidence 469999999976411 0245677887 9998876643
No 119
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=51.44 E-value=9.7 Score=30.17 Aligned_cols=26 Identities=35% Similarity=0.797 Sum_probs=15.7
Q ss_pred cccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCc
Q 039549 204 RLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKP 244 (324)
Q Consensus 204 ~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp 244 (324)
-..|-+|| |.|+. |.+|++.|+|-.|
T Consensus 72 ~i~clecG------------k~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 72 YIICLECG------------KKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -EE-TBT--------------EESB---HHHHHHHTT-S-H
T ss_pred eeEEccCC------------cccch---HHHHHHHccCCCH
Confidence 46799999 77764 6899999987544
No 120
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=49.53 E-value=20 Score=32.65 Aligned_cols=25 Identities=16% Similarity=0.214 Sum_probs=19.0
Q ss_pred CCeeeec-CCcccCChhHHHHHHHhh
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
...|.|. |.-.|..--..-.|-..|
T Consensus 343 ~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCcEEchhccceeeccchHHHHhhhh
Confidence 4568887 888888877777777665
No 121
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=46.92 E-value=6 Score=36.27 Aligned_cols=56 Identities=11% Similarity=0.006 Sum_probs=39.8
Q ss_pred CCCceeccc--ccceecchHHHHHHHH-------hcCCeeeecCCcccCChhHHHHHHHhhCCCC
Q 039549 241 GAKPFMCRK--CGKTFAVKGDWRTHEK-------NCGKLWYCTCGSDFKHKRSLKDHIRSFGKGH 296 (324)
Q Consensus 241 gekp~~C~~--Cgk~F~~~~~L~~H~~-------~~~k~~~C~Cgk~F~~~~~L~~H~r~~h~~~ 296 (324)
.|+++.|.. |.++.........|-. +-.+||.|.|++.+..++.|..|--..|.+.
T Consensus 175 EE~~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~t~~~p~k~~~~~~~~T~~~l~~HS~N~~~~~ 239 (442)
T KOG4124|consen 175 EEYRVSVVVPAAAAAAAAANSSDMSSDEASSTAETTGTPKKMPESLVMDTSSPLSDHSMNIDVGE 239 (442)
T ss_pred ccccccccCchhhhhhhccccccccccccccccccccCCccCcccccccccchhhhccccCCCCc
Confidence 578888866 6666655444444433 3468999999999999999988876665543
No 122
>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=46.49 E-value=5.7 Score=22.31 Aligned_cols=10 Identities=50% Similarity=1.242 Sum_probs=5.5
Q ss_pred eeccccccee
Q 039549 245 FMCRKCGKTF 254 (324)
Q Consensus 245 ~~C~~Cgk~F 254 (324)
|.|..|++.|
T Consensus 1 ~sCiDC~~~F 10 (28)
T PF08790_consen 1 FSCIDCSKDF 10 (28)
T ss_dssp EEETTTTEEE
T ss_pred CeeecCCCCc
Confidence 3455555555
No 123
>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=46.21 E-value=23 Score=28.67 Aligned_cols=6 Identities=33% Similarity=1.171 Sum_probs=2.3
Q ss_pred cCCCCC
Q 039549 206 PCYCCA 211 (324)
Q Consensus 206 ~C~~C~ 211 (324)
.|.+||
T Consensus 2 aC~YCG 7 (152)
T PF09416_consen 2 ACAYCG 7 (152)
T ss_dssp S-TTT-
T ss_pred CccccC
Confidence 366666
No 124
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=45.74 E-value=13 Score=23.87 Aligned_cols=9 Identities=33% Similarity=0.903 Sum_probs=4.7
Q ss_pred ceecccccc
Q 039549 244 PFMCRKCGK 252 (324)
Q Consensus 244 p~~C~~Cgk 252 (324)
...|+.||.
T Consensus 24 ~irCp~Cg~ 32 (49)
T COG1996 24 GIRCPYCGS 32 (49)
T ss_pred ceeCCCCCc
Confidence 445555553
No 125
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.67 E-value=20 Score=37.86 Aligned_cols=9 Identities=33% Similarity=0.796 Sum_probs=4.3
Q ss_pred eeccccchh
Q 039549 161 FACSICSKT 169 (324)
Q Consensus 161 ~~C~~C~k~ 169 (324)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 345555543
No 126
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=44.12 E-value=13 Score=27.69 Aligned_cols=17 Identities=24% Similarity=0.671 Sum_probs=13.4
Q ss_pred CceeccccchhccChhH
Q 039549 159 MQFACSICSKTFNRYNN 175 (324)
Q Consensus 159 ~~~~C~~C~k~F~~~~~ 175 (324)
+|+.|..||..|..-+.
T Consensus 1 MpH~CtrCG~vf~~g~~ 17 (112)
T COG3364 1 MPHQCTRCGEVFDDGSE 17 (112)
T ss_pred CCceecccccccccccH
Confidence 47889999999988543
No 127
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=42.94 E-value=17 Score=29.78 Aligned_cols=22 Identities=23% Similarity=0.354 Sum_probs=17.5
Q ss_pred cCCCceeccccchhccChhHHH
Q 039549 156 VGPMQFACSICSKTFNRYNNMQ 177 (324)
Q Consensus 156 ~~~~~~~C~~C~k~F~~~~~L~ 177 (324)
.+..-|.|+.|+..|+....+.
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH
Confidence 3456799999999988877774
No 128
>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=42.58 E-value=15 Score=21.35 Aligned_cols=9 Identities=22% Similarity=0.534 Sum_probs=7.0
Q ss_pred CcccCCCCC
Q 039549 203 LRLPCYCCA 211 (324)
Q Consensus 203 ~~~~C~~C~ 211 (324)
.+..|..||
T Consensus 16 ~~irC~~CG 24 (32)
T PF03604_consen 16 DPIRCPECG 24 (32)
T ss_dssp STSSBSSSS
T ss_pred CcEECCcCC
Confidence 456799998
No 129
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=41.50 E-value=32 Score=31.63 Aligned_cols=22 Identities=36% Similarity=0.770 Sum_probs=16.1
Q ss_pred eeeec-CCcccCChhHHHHHHHh
Q 039549 270 LWYCT-CGSDFKHKRSLKDHIRS 291 (324)
Q Consensus 270 ~~~C~-Cgk~F~~~~~L~~H~r~ 291 (324)
.+.|- |.|.|+.+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 36676 77777777777777775
No 130
>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=41.19 E-value=19 Score=27.28 Aligned_cols=26 Identities=15% Similarity=0.330 Sum_probs=20.7
Q ss_pred ceec----cccchhccChhHHHHhHhhhCC
Q 039549 160 QFAC----SICSKTFNRYNNMQMHMWGHGS 185 (324)
Q Consensus 160 ~~~C----~~C~k~F~~~~~L~~H~~~H~~ 185 (324)
-|.| ..|+..+.+...|..|.+.++|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3678 8888888888888888887654
No 131
>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=40.93 E-value=11 Score=28.16 Aligned_cols=20 Identities=35% Similarity=0.816 Sum_probs=16.1
Q ss_pred HhhhcCCCceecccccceecc
Q 039549 236 FKRKHGAKPFMCRKCGKTFAV 256 (324)
Q Consensus 236 ~r~H~gekp~~C~~Cgk~F~~ 256 (324)
++.+.| +|++|..||..|.-
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEE
Confidence 456677 79999999998863
No 132
>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=40.06 E-value=15 Score=22.07 Aligned_cols=30 Identities=37% Similarity=0.799 Sum_probs=20.4
Q ss_pred ceecccccceecchHHHHHHHHhcCCeeeec-CCcc
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSD 278 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~ 278 (324)
.|+|..||+.|....... ....-.|+ ||..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~-----~~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKIS-----DDPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecC-----CCCCCCCCCCCCc
Confidence 389999999987543321 14566787 9874
No 133
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=39.27 E-value=19 Score=30.10 Aligned_cols=20 Identities=30% Similarity=0.507 Sum_probs=15.9
Q ss_pred CCCceeccccchhccChhHH
Q 039549 157 GPMQFACSICSKTFNRYNNM 176 (324)
Q Consensus 157 ~~~~~~C~~C~k~F~~~~~L 176 (324)
...-|.|+.|+..|+....+
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CCCEEECCCCCcEEeHHHHh
Confidence 34569999999988877765
No 134
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=39.02 E-value=15 Score=29.03 Aligned_cols=25 Identities=28% Similarity=0.534 Sum_probs=19.9
Q ss_pred ccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCc
Q 039549 205 LPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKP 244 (324)
Q Consensus 205 ~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp 244 (324)
..|.++| |.|+ +|++|+.+|.|--|
T Consensus 77 IicLEDG------------kkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDG------------KKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccC------------cchH---HHHHHHhcccCCCH
Confidence 5688999 7776 59999999987544
No 135
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=36.90 E-value=20 Score=23.14 Aligned_cols=12 Identities=42% Similarity=0.838 Sum_probs=7.6
Q ss_pred Cceeccccccee
Q 039549 243 KPFMCRKCGKTF 254 (324)
Q Consensus 243 kp~~C~~Cgk~F 254 (324)
..+.|..||..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 456777777654
No 136
>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=36.75 E-value=16 Score=19.73 Aligned_cols=8 Identities=63% Similarity=1.734 Sum_probs=4.5
Q ss_pred ceeccccc
Q 039549 244 PFMCRKCG 251 (324)
Q Consensus 244 p~~C~~Cg 251 (324)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45565555
No 137
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.56 E-value=14 Score=37.75 Aligned_cols=13 Identities=8% Similarity=-0.046 Sum_probs=7.5
Q ss_pred ccccccccccchh
Q 039549 58 LDEGVRCLPLLSR 70 (324)
Q Consensus 58 ~eEav~~~e~ler 70 (324)
|..+..+++++.-
T Consensus 188 Gk~vLvLvPEi~l 200 (665)
T PRK14873 188 GRGALVVVPDQRD 200 (665)
T ss_pred CCeEEEEecchhh
Confidence 5556666666543
No 138
>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=35.05 E-value=20 Score=22.06 Aligned_cols=29 Identities=31% Similarity=0.712 Sum_probs=20.2
Q ss_pred ceecccccceecchHHHHHHHHhcCCeeeec-CCc
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGS 277 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk 277 (324)
.|.|..||..|.....+. ...+-.|+ ||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~-----~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSIS-----EDDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcC-----CCCCCcCCCCCC
Confidence 389999999988643211 14667887 887
No 139
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=34.37 E-value=20 Score=26.28 Aligned_cols=12 Identities=42% Similarity=1.406 Sum_probs=6.6
Q ss_pred Ceeeec-CCcccC
Q 039549 269 KLWYCT-CGSDFK 280 (324)
Q Consensus 269 k~~~C~-Cgk~F~ 280 (324)
--+.|. |++.|.
T Consensus 52 GIW~C~~C~~~~A 64 (90)
T PF01780_consen 52 GIWKCKKCGKKFA 64 (90)
T ss_dssp TEEEETTTTEEEE
T ss_pred EEeecCCCCCEEe
Confidence 346665 666653
No 140
>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=33.95 E-value=16 Score=35.88 Aligned_cols=9 Identities=22% Similarity=0.722 Sum_probs=5.3
Q ss_pred eccccchhc
Q 039549 162 ACSICSKTF 170 (324)
Q Consensus 162 ~C~~C~k~F 170 (324)
.|..||...
T Consensus 215 ~C~~Cg~~~ 223 (505)
T TIGR00595 215 LCRSCGYIL 223 (505)
T ss_pred EhhhCcCcc
Confidence 566666654
No 141
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=33.60 E-value=24 Score=33.55 Aligned_cols=28 Identities=21% Similarity=0.698 Sum_probs=16.0
Q ss_pred ecccccceecchHHHHHHHHhcCCeeeec-CCcccCCh
Q 039549 246 MCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKHK 282 (324)
Q Consensus 246 ~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~~ 282 (324)
.|+.||.+... .|.+-|.|. ||.++...
T Consensus 352 ~Cp~Cg~~m~S---------~G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKS---------AGRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhh---------cCCCCcccccccccCCcc
Confidence 47777764443 233367776 77666554
No 142
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=33.55 E-value=24 Score=21.87 Aligned_cols=16 Identities=19% Similarity=0.696 Sum_probs=12.9
Q ss_pred eccccchhccChhHHH
Q 039549 162 ACSICSKTFNRYNNMQ 177 (324)
Q Consensus 162 ~C~~C~k~F~~~~~L~ 177 (324)
.|..||+.|.......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 4999999998877665
No 143
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.63 E-value=50 Score=31.43 Aligned_cols=40 Identities=18% Similarity=0.498 Sum_probs=27.3
Q ss_pred hhhcCCCceecccccceecchHHHHHHHHhcCCeeeec-CCc
Q 039549 237 KRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGS 277 (324)
Q Consensus 237 r~H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk 277 (324)
+.-+....|.|+.|.+.|+....|+-- -.-.--|.|. |+-
T Consensus 121 ~d~t~~~~Y~Cp~C~kkyt~Lea~~L~-~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 121 RDDTNVAGYVCPNCQKKYTSLEALQLL-DNETGEFHCENCGG 161 (436)
T ss_pred hhccccccccCCccccchhhhHHHHhh-cccCceEEEecCCC
Confidence 334566779999999999877665431 1224579997 884
No 144
>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=32.49 E-value=21 Score=31.51 Aligned_cols=23 Identities=30% Similarity=0.572 Sum_probs=14.6
Q ss_pred CceecccccceecchHHHHHHHH
Q 039549 243 KPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 243 kp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
+++.|+.||.-...-..|..-.|
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR 230 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTR 230 (314)
T ss_pred CCCCCCCCCCcccccccceeeee
Confidence 67778888766665555544444
No 145
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=31.89 E-value=28 Score=22.93 Aligned_cols=9 Identities=33% Similarity=1.025 Sum_probs=4.1
Q ss_pred eccccccee
Q 039549 246 MCRKCGKTF 254 (324)
Q Consensus 246 ~C~~Cgk~F 254 (324)
+|+.||..+
T Consensus 4 ~CP~CG~~i 12 (54)
T TIGR01206 4 ECPDCGAEI 12 (54)
T ss_pred CCCCCCCEE
Confidence 444444443
No 146
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=31.74 E-value=24 Score=22.75 Aligned_cols=35 Identities=20% Similarity=0.463 Sum_probs=19.8
Q ss_pred CCceecccccceecchHHHHHHHH---hcCCeeeec-CC
Q 039549 242 AKPFMCRKCGKTFAVKGDWRTHEK---NCGKLWYCT-CG 276 (324)
Q Consensus 242 ekp~~C~~Cgk~F~~~~~L~~H~~---~~~k~~~C~-Cg 276 (324)
.+++.|..||..|..-..=+..-. ....|-.|. |-
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR 40 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSCR 40 (49)
T ss_pred CeeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHHH
Confidence 467788888888776544333222 123455564 53
No 147
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=31.13 E-value=23 Score=26.01 Aligned_cols=13 Identities=23% Similarity=0.836 Sum_probs=7.1
Q ss_pred CCeeeec-CCcccC
Q 039549 268 GKLWYCT-CGSDFK 280 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~ 280 (324)
.-.+.|. |++.|.
T Consensus 52 ~GIW~C~~C~~~~A 65 (90)
T PTZ00255 52 VGIWRCKGCKKTVA 65 (90)
T ss_pred eEEEEcCCCCCEEe
Confidence 3455665 666554
No 148
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=30.84 E-value=24 Score=21.40 Aligned_cols=14 Identities=43% Similarity=1.042 Sum_probs=10.6
Q ss_pred ceecccccceecch
Q 039549 244 PFMCRKCGKTFAVK 257 (324)
Q Consensus 244 p~~C~~Cgk~F~~~ 257 (324)
||.|..|++.|=..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78888888877643
No 149
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=30.39 E-value=17 Score=29.06 Aligned_cols=21 Identities=33% Similarity=0.757 Sum_probs=12.2
Q ss_pred eeeec-CCcccCChhHHHHHHH
Q 039549 270 LWYCT-CGSDFKHKRSLKDHIR 290 (324)
Q Consensus 270 ~~~C~-Cgk~F~~~~~L~~H~r 290 (324)
+|.|. ||-.+....-|..|..
T Consensus 129 ~ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred hhHHHhcCCceeechhhhhccc
Confidence 35565 6666666666655543
No 150
>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=30.09 E-value=24 Score=25.97 Aligned_cols=13 Identities=38% Similarity=1.293 Sum_probs=7.2
Q ss_pred CCeeeec-CCcccC
Q 039549 268 GKLWYCT-CGSDFK 280 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~ 280 (324)
.-.+.|. |++.|.
T Consensus 51 ~GIW~C~~C~~~~A 64 (91)
T TIGR00280 51 TGIWTCRKCGAKFA 64 (91)
T ss_pred eEEEEcCCCCCEEe
Confidence 3456665 666654
No 151
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=30.05 E-value=12 Score=37.87 Aligned_cols=54 Identities=19% Similarity=0.377 Sum_probs=24.5
Q ss_pred ccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceecccccceecchHHHHHH
Q 039549 205 LPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTH 263 (324)
Q Consensus 205 ~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~Cgk~F~~~~~L~~H 263 (324)
..|+.|...++..+.-.|+..|... -++.-.+-|.-+|+.|+.+|....-+..|
T Consensus 644 LkCs~Cn~R~Kd~vI~kC~H~FC~~-----Cvq~r~etRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 644 LKCSVCNTRWKDAVITKCGHVFCEE-----CVQTRYETRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred eeCCCccCchhhHHHHhcchHHHHH-----HHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence 4688888443333322222222211 11111222334577777777665544433
No 152
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.89 E-value=22 Score=36.03 Aligned_cols=56 Identities=18% Similarity=0.313 Sum_probs=38.2
Q ss_pred ccCCCCCCCCCCCCcchhhhhhcCCCce-eccccchhccChhHHHHhHhhhCCCCcCCCCCCCCCCCCccCcccCCCCCC
Q 039549 134 SFHGCSLNKDSRFWIPTPAQILVGPMQF-ACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQ 212 (324)
Q Consensus 134 ~c~~C~~~~~~~~~l~~H~~~h~~~~~~-~C~~C~k~F~~~~~L~~H~~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~ 212 (324)
.|..|+..|+....|.--.. ++.-+.| .|+.|.+.|.+..+- |-|. .|..|+.||-
T Consensus 125 ~CT~CGPRfTIi~alPYDR~-nTsM~~F~lC~~C~~EY~dP~nR----RfHA------------------Qp~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRE-NTSMADFPLCPFCDKEYKDPLNR----RFHA------------------QPIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCCCCcc-cCccccCcCCHHHHHHhcCcccc----cccc------------------ccccCcccCC
Confidence 79999999988777655432 2222333 599999988877653 3333 4577999995
No 153
>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=29.71 E-value=42 Score=28.97 Aligned_cols=24 Identities=29% Similarity=0.416 Sum_probs=18.6
Q ss_pred CCceecccccceecchHHHHHHHH
Q 039549 242 AKPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 242 ekp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
+.-|.|..|+|.|.-..-...|+.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~ 98 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIF 98 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHh
Confidence 345899999999999998888886
No 154
>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=29.68 E-value=25 Score=22.06 Aligned_cols=10 Identities=20% Similarity=0.674 Sum_probs=6.6
Q ss_pred CCeeeec-CCc
Q 039549 268 GKLWYCT-CGS 277 (324)
Q Consensus 268 ~k~~~C~-Cgk 277 (324)
...|.|. |++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 5667776 765
No 155
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=29.55 E-value=24 Score=21.79 Aligned_cols=14 Identities=57% Similarity=1.504 Sum_probs=8.6
Q ss_pred ceecccccceecch
Q 039549 244 PFMCRKCGKTFAVK 257 (324)
Q Consensus 244 p~~C~~Cgk~F~~~ 257 (324)
||.|..|++.|=..
T Consensus 13 ~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 13 PFKCKHCGKSFCLK 26 (43)
T ss_dssp HEE-TTTS-EE-TT
T ss_pred CeECCCCCcccCcc
Confidence 78888888888654
No 156
>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=29.50 E-value=17 Score=29.30 Aligned_cols=31 Identities=26% Similarity=0.792 Sum_probs=16.0
Q ss_pred ceecccccceecchHHHHHHHHhcCCeeeec-CCcccC
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFK 280 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~ 280 (324)
.|.|..|+..+.. |.+.....|.|. |+..|.
T Consensus 123 ~~~C~~C~~~~~r------~~~~~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREYKR------HRRSKRKRYRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEeee------ecccchhhEECCCCCCEEE
Confidence 3567667665532 222323346675 665543
No 157
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=29.33 E-value=24 Score=22.96 Aligned_cols=27 Identities=19% Similarity=0.388 Sum_probs=16.0
Q ss_pred CCceeccccchhccChhHHHHhHhhhC
Q 039549 158 PMQFACSICSKTFNRYNNMQMHMWGHG 184 (324)
Q Consensus 158 ~~~~~C~~C~k~F~~~~~L~~H~~~H~ 184 (324)
...|.|+.|+..|-.--.+-.|..+|.
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CCeEECCCCCCccccCcChhhhccccC
Confidence 467999999999988888777876663
No 158
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=29.07 E-value=41 Score=22.05 Aligned_cols=27 Identities=19% Similarity=0.509 Sum_probs=13.9
Q ss_pred hHHHHHHhhhcCCCceeccc----ccceecc
Q 039549 230 RTLQTHFKRKHGAKPFMCRK----CGKTFAV 256 (324)
Q Consensus 230 ~~L~~H~r~H~gekp~~C~~----Cgk~F~~ 256 (324)
..|..|+...=..++..|.. |+..+..
T Consensus 24 ~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 24 KELDDHLENECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp CCHHHHHHTTSTTSEEE-SS----S--EEEH
T ss_pred HHHHHHHHccCCCCcEECCCCCCCCCCccch
Confidence 35666666444455666666 6665553
No 159
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=28.96 E-value=27 Score=23.21 Aligned_cols=8 Identities=38% Similarity=1.344 Sum_probs=4.2
Q ss_pred ceeccccc
Q 039549 244 PFMCRKCG 251 (324)
Q Consensus 244 p~~C~~Cg 251 (324)
.|-|..|.
T Consensus 31 tYmC~eC~ 38 (56)
T PF09963_consen 31 TYMCDECK 38 (56)
T ss_pred ceeChhHH
Confidence 35555553
No 160
>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=28.86 E-value=32 Score=19.64 Aligned_cols=7 Identities=43% Similarity=1.592 Sum_probs=3.2
Q ss_pred eeccccc
Q 039549 245 FMCRKCG 251 (324)
Q Consensus 245 ~~C~~Cg 251 (324)
|.|+.|+
T Consensus 20 ~vCp~C~ 26 (30)
T PF08274_consen 20 LVCPECG 26 (30)
T ss_dssp EEETTTT
T ss_pred EeCCccc
Confidence 4444444
No 161
>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=28.39 E-value=35 Score=23.26 Aligned_cols=15 Identities=27% Similarity=0.791 Sum_probs=8.8
Q ss_pred CCCceecccccceec
Q 039549 241 GAKPFMCRKCGKTFA 255 (324)
Q Consensus 241 gekp~~C~~Cgk~F~ 255 (324)
..+-|.|..||..+.
T Consensus 43 ~~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 43 SGRVFTCPNCGFEMD 57 (69)
T ss_pred ccceEEcCCCCCEEC
Confidence 344567777766543
No 162
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=28.30 E-value=29 Score=32.94 Aligned_cols=22 Identities=18% Similarity=0.614 Sum_probs=17.4
Q ss_pred CCCceeccccchhccChhHHHH
Q 039549 157 GPMQFACSICSKTFNRYNNMQM 178 (324)
Q Consensus 157 ~~~~~~C~~C~k~F~~~~~L~~ 178 (324)
...-|.|+.|.+.|+....+..
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L 146 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL 146 (436)
T ss_pred ccccccCCccccchhhhHHHHh
Confidence 3456999999999988777653
No 163
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.02 E-value=33 Score=27.03 Aligned_cols=16 Identities=38% Similarity=1.055 Sum_probs=12.6
Q ss_pred CCceecccccceecch
Q 039549 242 AKPFMCRKCGKTFAVK 257 (324)
Q Consensus 242 ekp~~C~~Cgk~F~~~ 257 (324)
.-.|+|..|++.|...
T Consensus 51 ~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccCCcCcceeee
Confidence 4468999999998854
No 164
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=27.87 E-value=34 Score=26.26 Aligned_cols=11 Identities=18% Similarity=0.625 Sum_probs=5.5
Q ss_pred eecccccceec
Q 039549 245 FMCRKCGKTFA 255 (324)
Q Consensus 245 ~~C~~Cgk~F~ 255 (324)
+.|..||..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PRK12380 71 AWCWDCSQVVE 81 (113)
T ss_pred EEcccCCCEEe
Confidence 44555554444
No 165
>PLN02294 cytochrome c oxidase subunit Vb
Probab=27.78 E-value=25 Score=28.98 Aligned_cols=20 Identities=35% Similarity=0.767 Sum_probs=15.2
Q ss_pred HhhhcCCCceecccccceecc
Q 039549 236 FKRKHGAKPFMCRKCGKTFAV 256 (324)
Q Consensus 236 ~r~H~gekp~~C~~Cgk~F~~ 256 (324)
++.+.| +|++|.+||..|.-
T Consensus 134 f~L~kG-kp~RCpeCG~~fkL 153 (174)
T PLN02294 134 FWLEKG-KSFECPVCTQYFEL 153 (174)
T ss_pred EEecCC-CceeCCCCCCEEEE
Confidence 345555 69999999998874
No 166
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=27.42 E-value=30 Score=32.97 Aligned_cols=20 Identities=30% Similarity=0.537 Sum_probs=15.6
Q ss_pred cCCCceecccccceecchHH
Q 039549 240 HGAKPFMCRKCGKTFAVKGD 259 (324)
Q Consensus 240 ~gekp~~C~~Cgk~F~~~~~ 259 (324)
.|.+-|+|..||.++.....
T Consensus 363 ~G~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 363 AGRNGFRCKKCGTRARETLI 382 (421)
T ss_pred cCCCCcccccccccCCcccc
Confidence 45568999999998887544
No 167
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.86 E-value=42 Score=24.57 Aligned_cols=29 Identities=10% Similarity=0.190 Sum_probs=21.0
Q ss_pred CccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchh
Q 039549 131 SRKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKT 169 (324)
Q Consensus 131 ~~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~ 169 (324)
....|..||+.|.... -.+|-+|+.|..-
T Consensus 57 ~Pa~CkkCGfef~~~~----------ik~pSRCP~CKSE 85 (97)
T COG3357 57 RPARCKKCGFEFRDDK----------IKKPSRCPKCKSE 85 (97)
T ss_pred cChhhcccCccccccc----------cCCcccCCcchhh
Confidence 4568999999998821 1357889999653
No 168
>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 COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.45 E-value=32 Score=26.09 Aligned_cols=11 Identities=18% Similarity=0.069 Sum_probs=6.2
Q ss_pred eccccchhccC
Q 039549 162 ACSICSKTFNR 172 (324)
Q Consensus 162 ~C~~C~k~F~~ 172 (324)
.|+.||+.|..
T Consensus 11 idPetg~KFYD 21 (129)
T COG4530 11 IDPETGKKFYD 21 (129)
T ss_pred cCccccchhhc
Confidence 36666666543
No 170
>PRK14873 primosome assembly protein PriA; Provisional
Probab=26.19 E-value=30 Score=35.34 Aligned_cols=26 Identities=38% Similarity=0.931 Sum_probs=15.9
Q ss_pred hcCCCceecccccceecchHHHHHHHHhcCCeeeec-CCcc
Q 039549 239 KHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSD 278 (324)
Q Consensus 239 H~gekp~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~ 278 (324)
|.......|..||.. ..|+.|+ ||..
T Consensus 405 h~~~~~l~Ch~CG~~--------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 405 PSAGGTPRCRWCGRA--------------APDWRCPRCGSD 431 (665)
T ss_pred ecCCCeeECCCCcCC--------------CcCccCCCCcCC
Confidence 334456678777741 2367887 8865
No 171
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=26.18 E-value=41 Score=26.09 Aligned_cols=23 Identities=30% Similarity=0.579 Sum_probs=19.2
Q ss_pred CceecccccceecchHHHHHHHH
Q 039549 243 KPFMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 243 kp~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
-.|-|-.|.+-|.....|..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 34788888888888888888877
No 172
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=26.05 E-value=30 Score=27.71 Aligned_cols=30 Identities=23% Similarity=0.850 Sum_probs=15.0
Q ss_pred ceecccccceecchHHHHHHHHhcC-Ceeeec-CCccc
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCG-KLWYCT-CGSDF 279 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~-k~~~C~-Cgk~F 279 (324)
.|.|..||..+. +|.|... ..|.|. |+-.|
T Consensus 112 ~y~C~~C~~~~~------~~rr~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RVRRSNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eEccccCcceEEcCCCCCEE
Confidence 466666665543 2233222 556665 66544
No 173
>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=25.87 E-value=33 Score=33.79 Aligned_cols=12 Identities=25% Similarity=0.653 Sum_probs=6.3
Q ss_pred CCCceecccccc
Q 039549 241 GAKPFMCRKCGK 252 (324)
Q Consensus 241 gekp~~C~~Cgk 252 (324)
......|..||.
T Consensus 237 ~~~~l~Ch~Cg~ 248 (505)
T TIGR00595 237 KEGKLRCHYCGY 248 (505)
T ss_pred CCCeEEcCCCcC
Confidence 344455666653
No 174
>PRK04351 hypothetical protein; Provisional
Probab=25.83 E-value=38 Score=27.46 Aligned_cols=32 Identities=22% Similarity=0.644 Sum_probs=17.4
Q ss_pred ceecccccceecchHHHHHHHHhcCCeeeec-CCcccCC
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDFKH 281 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F~~ 281 (324)
.|.|..||..+.+ +.+.....|.|. |+-.+..
T Consensus 112 ~Y~C~~Cg~~~~r------~Rr~n~~~yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLR------KRRINTKRYRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeee------eeecCCCcEEeCCCCcEeee
Confidence 3667667755532 222334667775 7765543
No 175
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=25.78 E-value=47 Score=22.60 Aligned_cols=28 Identities=11% Similarity=0.189 Sum_probs=12.5
Q ss_pred ccccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhcc
Q 039549 132 RKSFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFN 171 (324)
Q Consensus 132 ~~~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~ 171 (324)
...|..|++.|... .+.+.|..||..|-
T Consensus 9 ~~~C~~C~~~F~~~------------~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 9 ASNCMICGKKFSLF------------RRRHHCRNCGRVVC 36 (69)
T ss_dssp -SB-TTT--B-BSS------------S-EEE-TTT--EEE
T ss_pred CCcCcCcCCcCCCc------------eeeEccCCCCCEEC
Confidence 44788899988432 24566888888764
No 176
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=25.69 E-value=31 Score=18.27 Aligned_cols=6 Identities=50% Similarity=1.641 Sum_probs=2.7
Q ss_pred cccccc
Q 039549 247 CRKCGK 252 (324)
Q Consensus 247 C~~Cgk 252 (324)
|..||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444443
No 177
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=25.51 E-value=14 Score=31.27 Aligned_cols=12 Identities=25% Similarity=0.603 Sum_probs=6.4
Q ss_pred eecccccceecc
Q 039549 245 FMCRKCGKTFAV 256 (324)
Q Consensus 245 ~~C~~Cgk~F~~ 256 (324)
+.|..||++++-
T Consensus 44 ~~C~~CgYR~~D 55 (201)
T COG1779 44 GVCERCGYRSTD 55 (201)
T ss_pred EEccccCCcccc
Confidence 356666655543
No 178
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=25.16 E-value=44 Score=25.88 Aligned_cols=25 Identities=32% Similarity=0.804 Sum_probs=21.1
Q ss_pred cCCeeeec-CCcccCChhHHHHHHHh
Q 039549 267 CGKLWYCT-CGSDFKHKRSLKDHIRS 291 (324)
Q Consensus 267 ~~k~~~C~-Cgk~F~~~~~L~~H~r~ 291 (324)
|.-.|.|- |.+-|.....|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44567776 99999999999999876
No 179
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=25.11 E-value=32 Score=25.23 Aligned_cols=13 Identities=38% Similarity=1.273 Sum_probs=7.2
Q ss_pred CCeeeec-CCcccC
Q 039549 268 GKLWYCT-CGSDFK 280 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~ 280 (324)
--.+.|. |++.|.
T Consensus 52 ~GIW~C~~C~~~~A 65 (90)
T PRK03976 52 TGIWECRKCGAKFA 65 (90)
T ss_pred EEEEEcCCCCCEEe
Confidence 3455665 666654
No 180
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=25.06 E-value=16 Score=22.26 Aligned_cols=17 Identities=29% Similarity=0.833 Sum_probs=9.4
Q ss_pred hhhcCCCceecccccce
Q 039549 237 KRKHGAKPFMCRKCGKT 253 (324)
Q Consensus 237 r~H~gekp~~C~~Cgk~ 253 (324)
.+..+.+-+.|..|+..
T Consensus 17 ~~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 17 QFDDGGKTWICNFCGTK 33 (40)
T ss_dssp EEETTTTEEEETTT--E
T ss_pred eEcCCCCEEECcCCCCc
Confidence 33445567788888754
No 181
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=24.57 E-value=30 Score=27.28 Aligned_cols=15 Identities=40% Similarity=1.003 Sum_probs=12.8
Q ss_pred ceecccccceecchH
Q 039549 244 PFMCRKCGKTFAVKG 258 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~ 258 (324)
|++|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 689999999998655
No 182
>PLN03239 histone acetyltransferase; Provisional
Probab=24.52 E-value=74 Score=29.57 Aligned_cols=24 Identities=21% Similarity=0.239 Sum_probs=18.8
Q ss_pred CCeeeec-CCcccCChhHHHHHHHh
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRS 291 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~ 291 (324)
...|.|. |-+-|.+...|.+|+..
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~~ 128 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQAK 128 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHHh
Confidence 4678888 88888888888888654
No 183
>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=24.48 E-value=28 Score=28.16 Aligned_cols=35 Identities=23% Similarity=0.532 Sum_probs=22.3
Q ss_pred hhhcCCCc----eecccccceecchHHHHHHHHhcCCeeeec-CCccc
Q 039549 237 KRKHGAKP----FMCRKCGKTFAVKGDWRTHEKNCGKLWYCT-CGSDF 279 (324)
Q Consensus 237 r~H~gekp----~~C~~Cgk~F~~~~~L~~H~~~~~k~~~C~-Cgk~F 279 (324)
.-|+|+++ |.|..||....-.. -...-.|+ ||...
T Consensus 101 ~Y~sGE~~g~G~l~C~~Cg~~~~~~~--------~~~l~~Cp~C~~~~ 140 (146)
T PF07295_consen 101 VYHSGEVVGPGTLVCENCGHEVELTH--------PERLPPCPKCGHTE 140 (146)
T ss_pred CeecCcEecCceEecccCCCEEEecC--------CCcCCCCCCCCCCe
Confidence 34677765 99999996544321 13455787 88763
No 184
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=24.48 E-value=42 Score=33.27 Aligned_cols=25 Identities=20% Similarity=0.444 Sum_probs=16.8
Q ss_pred CCeeeec-CCcccCChhHHHHHHHhh
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
.+|..|. ||.+|.......+|+..|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhh
Confidence 5667776 777777766666665554
No 185
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=24.32 E-value=58 Score=33.60 Aligned_cols=11 Identities=18% Similarity=0.531 Sum_probs=8.3
Q ss_pred CcccCCCCCCC
Q 039549 203 LRLPCYCCAQG 213 (324)
Q Consensus 203 ~~~~C~~C~~~ 213 (324)
.|..|+.||-.
T Consensus 474 ~p~~Cp~Cgs~ 484 (730)
T COG1198 474 IPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCC
Confidence 67789999843
No 186
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.77 E-value=16 Score=25.80 Aligned_cols=7 Identities=29% Similarity=0.861 Sum_probs=3.5
Q ss_pred ccCCCCC
Q 039549 205 LPCYCCA 211 (324)
Q Consensus 205 ~~C~~C~ 211 (324)
|.|..|+
T Consensus 13 Y~c~~cg 19 (82)
T COG2331 13 YECTECG 19 (82)
T ss_pred Eeecccc
Confidence 4455554
No 187
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=23.65 E-value=45 Score=19.45 Aligned_cols=13 Identities=31% Similarity=0.715 Sum_probs=9.0
Q ss_pred Cceecccccceec
Q 039549 243 KPFMCRKCGKTFA 255 (324)
Q Consensus 243 kp~~C~~Cgk~F~ 255 (324)
-.+.|..||..|.
T Consensus 20 ~~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 20 DYEVCIFCGSSFP 32 (33)
T ss_pred CeEEcccCCcEee
Confidence 3466888887764
No 188
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=23.30 E-value=31 Score=29.17 Aligned_cols=17 Identities=12% Similarity=0.393 Sum_probs=11.7
Q ss_pred ccCcccCCCCCCCCccC
Q 039549 201 AMLRLPCYCCAQGCKNN 217 (324)
Q Consensus 201 ~~~~~~C~~C~~~~~~~ 217 (324)
...||.|.+|.+.+..-
T Consensus 193 e~IPF~C~iCKkdy~sp 209 (259)
T COG5152 193 EKIPFLCGICKKDYESP 209 (259)
T ss_pred CCCceeehhchhhccch
Confidence 34789999999544433
No 189
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=23.10 E-value=27 Score=21.29 Aligned_cols=12 Identities=17% Similarity=0.825 Sum_probs=9.5
Q ss_pred ceeccccchhcc
Q 039549 160 QFACSICSKTFN 171 (324)
Q Consensus 160 ~~~C~~C~k~F~ 171 (324)
-|.|..|+..|.
T Consensus 28 fy~C~~C~~~w~ 39 (40)
T smart00440 28 FYVCTKCGHRWR 39 (40)
T ss_pred EEEeCCCCCEeC
Confidence 489999998764
No 190
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=22.78 E-value=25 Score=35.68 Aligned_cols=24 Identities=38% Similarity=0.649 Sum_probs=13.6
Q ss_pred ceecccccceecchHHHHHHHHhc
Q 039549 244 PFMCRKCGKTFAVKGDWRTHEKNC 267 (324)
Q Consensus 244 p~~C~~Cgk~F~~~~~L~~H~~~~ 267 (324)
-|.|..|||.|-.-..+..||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 355556666655555555555544
No 191
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.63 E-value=43 Score=25.27 Aligned_cols=8 Identities=25% Similarity=0.800 Sum_probs=4.2
Q ss_pred cccCCCCC
Q 039549 204 RLPCYCCA 211 (324)
Q Consensus 204 ~~~C~~C~ 211 (324)
|..|+.||
T Consensus 2 p~~CpYCg 9 (102)
T PF11672_consen 2 PIICPYCG 9 (102)
T ss_pred CcccCCCC
Confidence 44555555
No 192
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=22.61 E-value=38 Score=26.03 Aligned_cols=11 Identities=18% Similarity=0.721 Sum_probs=4.8
Q ss_pred eecccccceec
Q 039549 245 FMCRKCGKTFA 255 (324)
Q Consensus 245 ~~C~~Cgk~F~ 255 (324)
..|..||..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 34444444443
No 193
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=22.57 E-value=64 Score=19.75 Aligned_cols=24 Identities=17% Similarity=0.398 Sum_probs=15.2
Q ss_pred eeccccchhccCh--hHHHHhHhhhC
Q 039549 161 FACSICSKTFNRY--NNMQMHMWGHG 184 (324)
Q Consensus 161 ~~C~~C~k~F~~~--~~L~~H~~~H~ 184 (324)
-+|+.||..|... ..-..|.+.|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 4688888777553 34456766663
No 194
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=22.40 E-value=86 Score=28.30 Aligned_cols=26 Identities=31% Similarity=0.609 Sum_probs=23.0
Q ss_pred CCeeeec-CCcccCChhHHHHHHHhhC
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
...|.|. |-+-|.....|.+|+....
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~~C~ 72 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLAKCD 72 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHHhCC
Confidence 5789998 9999999999999998764
No 195
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=22.27 E-value=97 Score=28.28 Aligned_cols=78 Identities=22% Similarity=0.413 Sum_probs=49.7
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCCCceeccc----ccceecchHHHHHHHHhcC-CeeeecCC-
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRK----CGKTFAVKGDWRTHEKNCG-KLWYCTCG- 276 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~gekp~~C~~----Cgk~F~~~~~L~~H~~~~~-k~~~C~Cg- 276 (324)
....|+.|. ..+.....+ ++-.-...-.+.|.. |.++|.+-.. ..|.+..+ +||.|++.
T Consensus 79 ~~~~CP~Cr------------~~~g~~R~~--amEkV~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C~f~~~~CP~p~ 143 (299)
T KOG3002|consen 79 VSNKCPTCR------------LPIGNIRCR--AMEKVAEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVCEFRPCSCPVPG 143 (299)
T ss_pred hcccCCccc------------cccccHHHH--HHHHHHHhceecccccccCCceeeccccc-cccccccccCCcCCCCCc
Confidence 345688887 555544332 333334445667764 9999998877 67777432 88888633
Q ss_pred ---cccCChhHHHHHHHhhCCC
Q 039549 277 ---SDFKHKRSLKDHIRSFGKG 295 (324)
Q Consensus 277 ---k~F~~~~~L~~H~r~~h~~ 295 (324)
+--.....|..|.+.-|+.
T Consensus 144 ~~C~~~G~~~~l~~H~~~~hk~ 165 (299)
T KOG3002|consen 144 AECKYTGSYKDLYAHLNDTHKS 165 (299)
T ss_pred ccCCccCcHHHHHHHHHhhChh
Confidence 1124566899998887765
No 196
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=22.23 E-value=36 Score=21.65 Aligned_cols=11 Identities=55% Similarity=1.183 Sum_probs=5.5
Q ss_pred ceeccccccee
Q 039549 244 PFMCRKCGKTF 254 (324)
Q Consensus 244 p~~C~~Cgk~F 254 (324)
.|.|..||..+
T Consensus 20 ~~vC~~Cg~~~ 30 (52)
T smart00661 20 RFVCRKCGYEE 30 (52)
T ss_pred EEECCcCCCeE
Confidence 35555555443
No 197
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=21.99 E-value=32 Score=23.75 Aligned_cols=17 Identities=53% Similarity=0.897 Sum_probs=9.6
Q ss_pred hhcCCCceecccccceec
Q 039549 238 RKHGAKPFMCRKCGKTFA 255 (324)
Q Consensus 238 ~H~gekp~~C~~Cgk~F~ 255 (324)
..-+.|.-+| .||+...
T Consensus 14 a~e~~kTkkC-~CG~~l~ 30 (68)
T PF09082_consen 14 AKEGAKTKKC-VCGKTLK 30 (68)
T ss_dssp EETT-SEEEE-TTTEEEE
T ss_pred ecCCcceeEe-cCCCeee
Confidence 3445566677 7776544
No 198
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=21.99 E-value=1.4e+02 Score=27.94 Aligned_cols=77 Identities=19% Similarity=0.418 Sum_probs=44.7
Q ss_pred CcccCCCCCCCCccCcCCCCCccCCChhHHHHHHhhhcCC----CceecccccceecchHHHHHHHH-hcCCeeeec-CC
Q 039549 203 LRLPCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGA----KPFMCRKCGKTFAVKGDWRTHEK-NCGKLWYCT-CG 276 (324)
Q Consensus 203 ~~~~C~~C~~~~~~~~~~~~~k~f~~~~~L~~H~r~H~ge----kp~~C~~Cgk~F~~~~~L~~H~~-~~~k~~~C~-Cg 276 (324)
.|-.|..|+ +.+++.-.-..||..++|- +-|- +-...|..-+. .-..-|.|- |.
T Consensus 165 ~Pt~CLfC~------------~~~k~~e~~~~HM~~~HgffIPdreYL--------~D~~GLl~YLgeKV~~~~~CL~CN 224 (390)
T KOG2785|consen 165 IPTDCLFCD------------KKSKSLEENLKHMFKEHGFFIPDREYL--------TDEKGLLKYLGEKVGIGFICLFCN 224 (390)
T ss_pred CCcceeecC------------CCcccHHHHHHHHhhccCCcCCchHhh--------hchhHHHHHHHHHhccCceEEEec
Confidence 445677777 7777766667777777652 1111 11222333322 123557776 87
Q ss_pred ---cccCChhHHHHHHHhhCCCCCCC
Q 039549 277 ---SDFKHKRSLKDHIRSFGKGHSPH 299 (324)
Q Consensus 277 ---k~F~~~~~L~~H~r~~h~~~~~~ 299 (324)
+.|.+--+.++||+....-.-||
T Consensus 225 ~~~~~f~sleavr~HM~~K~HCkl~y 250 (390)
T KOG2785|consen 225 ELGRPFSSLEAVRAHMRDKGHCKLPY 250 (390)
T ss_pred cccCcccccHHHHHHHhhccCcccCC
Confidence 88888888888888743333344
No 199
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.20 E-value=36 Score=34.85 Aligned_cols=11 Identities=45% Similarity=1.029 Sum_probs=6.1
Q ss_pred Cceecccccce
Q 039549 243 KPFMCRKCGKT 253 (324)
Q Consensus 243 kp~~C~~Cgk~ 253 (324)
.|..|+.||..
T Consensus 420 ~~~~Cp~Cg~~ 430 (679)
T PRK05580 420 IPKACPECGST 430 (679)
T ss_pred CCCCCCCCcCC
Confidence 35556666543
No 200
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.16 E-value=46 Score=26.96 Aligned_cols=8 Identities=50% Similarity=1.389 Sum_probs=4.0
Q ss_pred ceeccccc
Q 039549 244 PFMCRKCG 251 (324)
Q Consensus 244 p~~C~~Cg 251 (324)
.|.|..|+
T Consensus 140 ~YrC~~C~ 147 (156)
T COG3091 140 VYRCGKCG 147 (156)
T ss_pred eEEeccCC
Confidence 45555554
No 201
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.15 E-value=46 Score=25.72 Aligned_cols=7 Identities=43% Similarity=1.061 Sum_probs=3.4
Q ss_pred ccCCCCC
Q 039549 205 LPCYCCA 211 (324)
Q Consensus 205 ~~C~~C~ 211 (324)
+.|..||
T Consensus 72 ~~C~~Cg 78 (117)
T PRK00564 72 LECKDCS 78 (117)
T ss_pred EEhhhCC
Confidence 4455554
No 202
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.15 E-value=44 Score=26.54 Aligned_cols=39 Identities=10% Similarity=0.072 Sum_probs=22.2
Q ss_pred CccccCCCCCCCCCCC---Cc------chhhhhhcCCCceeccccchh
Q 039549 131 SRKSFHGCSLNKDSRF---WI------PTPAQILVGPMQFACSICSKT 169 (324)
Q Consensus 131 ~~~~c~~C~~~~~~~~---~l------~~H~~~h~~~~~~~C~~C~k~ 169 (324)
..+.|..|+..|.... .| ..|.-.-.....+.|+.||..
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~ 116 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSR 116 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCC
Confidence 4678999998876641 11 111111112345779999963
No 203
>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=20.55 E-value=62 Score=20.92 Aligned_cols=27 Identities=22% Similarity=0.439 Sum_probs=17.6
Q ss_pred ccCCCCCCCCCCCCcchhhhhhcCCCceeccccchhccC
Q 039549 134 SFHGCSLNKDSRFWIPTPAQILVGPMQFACSICSKTFNR 172 (324)
Q Consensus 134 ~c~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~k~F~~ 172 (324)
.|..|++.|... .+.+.|..||+.|-.
T Consensus 4 ~C~~C~~~F~~~------------~rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 4 SCMGCGKPFTLT------------RRRHHCRNCGRIFCS 30 (57)
T ss_pred cCcccCccccCC------------ccccccCcCcCCcCh
Confidence 577787777652 234568888887654
No 204
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=20.37 E-value=57 Score=31.39 Aligned_cols=21 Identities=29% Similarity=0.725 Sum_probs=19.9
Q ss_pred eecccccceecchHHHHHHHH
Q 039549 245 FMCRKCGKTFAVKGDWRTHEK 265 (324)
Q Consensus 245 ~~C~~Cgk~F~~~~~L~~H~~ 265 (324)
+-|.+|.|+|.+..+|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 789999999999999999986
No 205
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=20.28 E-value=89 Score=30.16 Aligned_cols=26 Identities=31% Similarity=0.717 Sum_probs=22.3
Q ss_pred CCeeeec-CCcccCChhHHHHHHHhhC
Q 039549 268 GKLWYCT-CGSDFKHKRSLKDHIRSFG 293 (324)
Q Consensus 268 ~k~~~C~-Cgk~F~~~~~L~~H~r~~h 293 (324)
...|.|. |-+-|+....|.+|+....
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~C~ 222 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKKCD 222 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhcCC
Confidence 5689998 9999999999999987663
No 206
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=20.11 E-value=12 Score=34.35 Aligned_cols=51 Identities=25% Similarity=0.574 Sum_probs=39.4
Q ss_pred CCceeccc--ccceecchHHHHHHHHh---------------c------CCeeeec-CCcccCChhHHHHHHHhh
Q 039549 242 AKPFMCRK--CGKTFAVKGDWRTHEKN---------------C------GKLWYCT-CGSDFKHKRSLKDHIRSF 292 (324)
Q Consensus 242 ekp~~C~~--Cgk~F~~~~~L~~H~~~---------------~------~k~~~C~-Cgk~F~~~~~L~~H~r~~ 292 (324)
.+||+|.+ |.+.+.....|..|..+ | .|+|.|. |.++++.-..|+-|+..-
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~~ 421 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTHS 421 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeehh
Confidence 57899976 99999988888877641 1 3789998 999998877776665443
No 207
>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=20.09 E-value=28 Score=20.78 Aligned_cols=13 Identities=23% Similarity=0.652 Sum_probs=6.5
Q ss_pred ceecccccceecc
Q 039549 244 PFMCRKCGKTFAV 256 (324)
Q Consensus 244 p~~C~~Cgk~F~~ 256 (324)
+=.|..||-.+.+
T Consensus 21 ~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 21 EGVCDNCGGELVQ 33 (36)
T ss_dssp TTBCTTTTEBEBE
T ss_pred CCccCCCCCeeEe
Confidence 3456666654443
Done!