Query 009831
Match_columns 524
No_of_seqs 599 out of 3463
Neff 7.1
Searched_HMMs 46136
Date Thu Mar 28 17:51:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009831.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009831hhsearch_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 99.9 1.1E-26 2.3E-31 225.4 3.3 137 267-437 127-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 4.3E-25 9.4E-30 214.2 5.6 135 238-406 128-265 (279)
3 KOG1074 Transcriptional repres 99.8 8.7E-21 1.9E-25 205.4 9.2 86 357-443 605-696 (958)
4 KOG3623 Homeobox transcription 99.8 1.8E-19 3.9E-24 192.1 2.5 76 357-436 894-971 (1007)
5 KOG1074 Transcriptional repres 99.7 9.1E-18 2E-22 182.2 6.0 54 241-296 606-659 (958)
6 KOG3608 Zn finger proteins [Ge 99.7 2.2E-18 4.8E-23 171.2 1.0 169 256-442 193-379 (467)
7 KOG3576 Ovo and related transc 99.6 2E-16 4.3E-21 146.9 1.2 109 269-409 116-237 (267)
8 KOG3576 Ovo and related transc 99.6 1.8E-16 3.9E-21 147.3 -1.2 113 318-441 116-238 (267)
9 KOG3608 Zn finger proteins [Ge 99.5 2.4E-15 5.2E-20 149.8 0.3 155 270-443 177-350 (467)
10 KOG3623 Homeobox transcription 99.4 7.6E-14 1.7E-18 149.6 0.7 79 267-405 891-971 (1007)
11 PLN03086 PRLI-interacting fact 99.0 3.3E-10 7.1E-15 122.9 6.6 98 318-436 452-561 (567)
12 PLN03086 PRLI-interacting fact 99.0 4.8E-10 1E-14 121.7 6.1 114 271-406 434-562 (567)
13 PHA00733 hypothetical protein 98.9 1.5E-09 3.3E-14 97.1 3.4 78 318-409 39-124 (128)
14 PHA00733 hypothetical protein 98.8 1.2E-09 2.7E-14 97.7 1.6 94 341-440 24-124 (128)
15 PHA02768 hypothetical protein; 98.7 4.3E-09 9.3E-14 79.1 1.2 40 358-400 6-47 (55)
16 PHA02768 hypothetical protein; 98.6 3.8E-08 8.1E-13 74.0 3.1 43 385-432 5-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.3 1.8E-07 3.9E-12 60.0 1.2 24 373-396 1-26 (26)
18 KOG3993 Transcription factor ( 98.3 3.3E-07 7.2E-12 94.3 2.9 81 318-409 266-381 (500)
19 PHA00616 hypothetical protein 98.0 2E-06 4.4E-11 61.7 0.6 26 385-410 1-27 (44)
20 PHA00616 hypothetical protein 97.9 4E-06 8.7E-11 60.2 1.1 27 270-296 1-27 (44)
21 PHA00732 hypothetical protein 97.9 7.1E-06 1.5E-10 67.2 2.7 44 357-407 1-47 (79)
22 KOG3993 Transcription factor ( 97.9 5.8E-06 1.2E-10 85.3 2.5 158 269-440 294-483 (500)
23 PF13465 zf-H2C2_2: Zinc-finge 97.8 1.4E-05 3E-10 51.3 1.8 21 285-326 1-21 (26)
24 PHA00732 hypothetical protein 97.7 2.5E-05 5.5E-10 63.9 3.0 46 385-439 1-48 (79)
25 PF00096 zf-C2H2: Zinc finger, 97.6 4.5E-05 9.8E-10 47.1 2.0 23 271-293 1-23 (23)
26 COG5189 SFP1 Putative transcri 97.6 2.4E-05 5.2E-10 78.1 1.1 49 355-404 347-418 (423)
27 PF05605 zf-Di19: Drought indu 97.5 0.00011 2.3E-09 55.8 3.4 48 357-408 2-53 (54)
28 COG5189 SFP1 Putative transcri 97.4 4.4E-05 9.5E-10 76.2 0.6 57 316-381 346-421 (423)
29 PF00096 zf-C2H2: Zinc finger, 97.3 0.00013 2.8E-09 45.0 2.1 22 386-407 1-23 (23)
30 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00045 9.7E-09 42.5 2.4 24 271-294 1-24 (24)
31 PF13912 zf-C2H2_6: C2H2-type 96.9 0.00064 1.4E-08 43.6 2.0 26 270-295 1-26 (27)
32 PF13894 zf-C2H2_4: C2H2-type 96.8 0.0011 2.4E-08 40.7 2.4 22 386-407 1-23 (24)
33 PF05605 zf-Di19: Drought indu 96.7 0.00053 1.1E-08 51.9 0.7 47 319-379 2-50 (54)
34 PF13912 zf-C2H2_6: C2H2-type 96.6 0.0013 2.8E-08 42.2 1.6 23 385-407 1-24 (27)
35 KOG2231 Predicted E3 ubiquitin 96.5 0.022 4.8E-07 63.5 11.8 128 271-419 100-275 (669)
36 COG5048 FOG: Zn-finger [Genera 96.4 0.0026 5.5E-08 66.9 3.6 145 269-444 288-447 (467)
37 PF12756 zf-C2H2_2: C2H2 type 96.4 0.0023 5.1E-08 53.7 2.6 72 321-407 1-73 (100)
38 smart00355 ZnF_C2H2 zinc finge 96.2 0.0039 8.4E-08 38.7 2.5 24 271-294 1-24 (26)
39 PF12756 zf-C2H2_2: C2H2 type 96.2 0.0021 4.6E-08 53.9 1.4 71 272-379 1-71 (100)
40 PRK04860 hypothetical protein; 96.1 0.002 4.3E-08 60.0 1.0 37 357-398 119-157 (160)
41 KOG1146 Homeobox protein [Gene 96.1 0.01 2.2E-07 69.7 6.7 110 317-440 463-614 (1406)
42 KOG1146 Homeobox protein [Gene 95.8 0.012 2.7E-07 69.0 5.8 29 268-296 463-491 (1406)
43 PF09237 GAGA: GAGA factor; I 95.8 0.0097 2.1E-07 44.0 3.1 38 375-412 12-52 (54)
44 smart00355 ZnF_C2H2 zinc finge 95.8 0.0071 1.5E-07 37.5 2.2 23 386-408 1-24 (26)
45 PF12874 zf-met: Zinc-finger o 95.4 0.0098 2.1E-07 37.3 1.8 23 271-293 1-23 (25)
46 PF09237 GAGA: GAGA factor; I 95.0 0.012 2.7E-07 43.5 1.5 32 353-385 20-52 (54)
47 COG5048 FOG: Zn-finger [Genera 94.7 0.02 4.3E-07 60.1 2.7 152 240-419 289-450 (467)
48 PRK04860 hypothetical protein; 94.6 0.025 5.3E-07 52.7 2.8 33 269-326 118-150 (160)
49 PF12171 zf-C2H2_jaz: Zinc-fin 94.0 0.017 3.7E-07 37.1 0.3 22 271-292 2-23 (27)
50 PF13909 zf-H2C2_5: C2H2-type 93.8 0.043 9.3E-07 34.1 1.8 23 271-294 1-23 (24)
51 PF13909 zf-H2C2_5: C2H2-type 93.6 0.059 1.3E-06 33.4 2.1 22 386-408 1-23 (24)
52 PF12874 zf-met: Zinc-finger o 93.2 0.054 1.2E-06 33.8 1.6 21 386-406 1-22 (25)
53 KOG2231 Predicted E3 ubiquitin 91.9 0.094 2E-06 58.7 2.3 44 359-407 184-235 (669)
54 COG5236 Uncharacterized conser 91.7 0.57 1.2E-05 48.0 7.4 124 271-409 152-306 (493)
55 PF12171 zf-C2H2_jaz: Zinc-fin 90.5 0.15 3.3E-06 32.6 1.3 21 358-379 2-22 (27)
56 smart00451 ZnF_U1 U1-like zinc 89.1 0.32 7E-06 32.7 2.2 23 270-292 3-25 (35)
57 PF13913 zf-C2HC_2: zinc-finge 88.8 0.35 7.7E-06 30.6 2.0 21 271-292 3-23 (25)
58 TIGR00622 ssl1 transcription f 88.6 0.77 1.7E-05 40.1 4.7 48 359-408 57-105 (112)
59 PF13913 zf-C2HC_2: zinc-finge 87.1 0.49 1.1E-05 29.9 1.9 20 386-406 3-23 (25)
60 KOG4173 Alpha-SNAP protein [In 85.5 0.19 4E-06 48.0 -0.9 77 318-406 78-168 (253)
61 KOG2482 Predicted C2H2-type Zn 84.3 0.73 1.6E-05 47.3 2.6 23 270-292 195-217 (423)
62 KOG2893 Zn finger protein [Gen 83.7 0.62 1.3E-05 45.5 1.8 48 356-408 10-59 (341)
63 COG5236 Uncharacterized conser 83.7 0.52 1.1E-05 48.3 1.3 20 387-406 222-242 (493)
64 KOG2893 Zn finger protein [Gen 82.0 0.43 9.2E-06 46.5 -0.0 43 321-378 12-54 (341)
65 smart00451 ZnF_U1 U1-like zinc 80.3 0.95 2.1E-05 30.4 1.3 22 357-379 3-24 (35)
66 TIGR00622 ssl1 transcription f 80.1 2.8 6.2E-05 36.6 4.4 79 354-439 12-105 (112)
67 PRK00464 nrdR transcriptional 80.0 0.76 1.6E-05 42.5 0.9 14 358-372 29-42 (154)
68 KOG2071 mRNA cleavage and poly 79.8 1.4 3.1E-05 48.5 3.0 31 266-296 414-444 (579)
69 COG1997 RPL43A Ribosomal prote 76.6 1.5 3.3E-05 36.3 1.6 10 386-395 54-64 (89)
70 KOG2785 C2H2-type Zn-finger pr 76.5 3.5 7.6E-05 43.1 4.6 49 357-406 166-242 (390)
71 PF09986 DUF2225: Uncharacteri 74.6 1.5 3.3E-05 42.8 1.3 12 386-397 49-61 (214)
72 COG4049 Uncharacterized protei 72.7 1.3 2.8E-05 33.5 0.2 30 265-294 12-42 (65)
73 TIGR00595 priA primosomal prot 71.3 3.4 7.4E-05 45.7 3.2 28 490-517 345-372 (505)
74 KOG2785 C2H2-type Zn-finger pr 70.5 3.3 7.1E-05 43.4 2.7 53 385-437 166-242 (390)
75 PHA00626 hypothetical protein 70.3 3.3 7.1E-05 31.4 1.9 6 321-326 2-7 (59)
76 PRK00464 nrdR transcriptional 69.7 2.1 4.6E-05 39.6 1.0 18 384-401 27-45 (154)
77 cd00350 rubredoxin_like Rubred 68.1 4.5 9.7E-05 27.2 2.1 7 358-364 2-8 (33)
78 KOG2186 Cell growth-regulating 67.9 2.9 6.3E-05 41.4 1.6 44 358-405 4-49 (276)
79 PF09538 FYDLN_acid: Protein o 66.9 3.8 8.3E-05 35.6 2.0 10 417-426 28-37 (108)
80 COG1198 PriA Primosomal protei 66.6 4.4 9.5E-05 46.6 2.9 30 488-517 565-594 (730)
81 PF02892 zf-BED: BED zinc fing 65.5 4.9 0.00011 28.6 2.0 25 267-291 13-41 (45)
82 KOG2482 Predicted C2H2-type Zn 64.8 4.7 0.0001 41.6 2.4 154 269-439 143-358 (423)
83 KOG2807 RNA polymerase II tran 63.3 9.1 0.0002 39.3 4.1 26 353-379 286-311 (378)
84 cd00729 rubredoxin_SM Rubredox 63.1 5.8 0.00013 27.0 1.9 9 356-364 17-25 (34)
85 COG4049 Uncharacterized protei 62.3 3.8 8.2E-05 31.1 0.9 24 382-405 14-38 (65)
86 PF05443 ROS_MUCR: ROS/MUCR tr 62.2 4.9 0.00011 36.2 1.8 27 267-296 69-95 (132)
87 PRK14873 primosome assembly pr 62.1 5.8 0.00013 45.3 2.8 31 487-517 500-530 (665)
88 smart00614 ZnF_BED BED zinc fi 61.6 6.6 0.00014 28.9 2.2 25 270-294 18-48 (50)
89 KOG4124 Putative transcription 59.9 3.9 8.4E-05 42.2 0.8 29 266-295 209-238 (442)
90 smart00531 TFIIE Transcription 59.8 7 0.00015 35.8 2.4 20 267-286 96-115 (147)
91 COG3364 Zn-ribbon containing p 59.7 4.7 0.0001 34.4 1.2 15 270-284 2-16 (112)
92 PRK14890 putative Zn-ribbon RN 59.2 13 0.00028 28.6 3.4 10 270-279 25-34 (59)
93 PRK04023 DNA polymerase II lar 58.9 8.8 0.00019 45.1 3.5 11 269-279 625-635 (1121)
94 COG1592 Rubrerythrin [Energy p 58.9 5.7 0.00012 37.2 1.7 13 352-364 144-156 (166)
95 PF09986 DUF2225: Uncharacteri 58.2 6.1 0.00013 38.6 1.9 9 318-326 4-12 (214)
96 PF09845 DUF2072: Zn-ribbon co 57.7 6 0.00013 35.5 1.5 15 270-284 1-15 (131)
97 COG1198 PriA Primosomal protei 57.5 9.6 0.00021 43.9 3.5 34 349-392 436-470 (730)
98 PF02892 zf-BED: BED zinc fing 56.8 8.4 0.00018 27.4 1.9 14 356-370 15-28 (45)
99 KOG2186 Cell growth-regulating 56.7 3.8 8.2E-05 40.6 0.1 51 270-354 3-53 (276)
100 TIGR02098 MJ0042_CXXC MJ0042 f 56.5 8.3 0.00018 26.5 1.8 9 386-394 26-35 (38)
101 PRK05580 primosome assembly pr 54.6 11 0.00023 43.4 3.4 29 489-517 512-540 (679)
102 COG1592 Rubrerythrin [Energy p 54.4 7.1 0.00015 36.6 1.5 22 357-391 134-156 (166)
103 COG2888 Predicted Zn-ribbon RN 54.2 5.6 0.00012 30.6 0.7 9 318-326 26-34 (61)
104 TIGR01384 TFS_arch transcripti 53.7 11 0.00024 32.1 2.6 36 357-395 62-101 (104)
105 PTZ00255 60S ribosomal protein 52.7 6.7 0.00014 32.9 0.9 12 384-395 53-65 (90)
106 PF06524 NOA36: NOA36 protein; 52.3 15 0.00033 36.6 3.5 87 351-440 136-234 (314)
107 PF04216 FdhE: Protein involve 52.2 5.4 0.00012 40.8 0.4 7 320-326 173-179 (290)
108 PRK09678 DNA-binding transcrip 52.1 6.9 0.00015 31.5 0.9 14 383-396 25-41 (72)
109 TIGR00595 priA primosomal prot 52.0 10 0.00022 42.0 2.5 8 385-392 253-261 (505)
110 KOG4167 Predicted DNA-binding 51.9 3.2 6.9E-05 46.7 -1.3 26 270-295 792-817 (907)
111 TIGR00373 conserved hypothetic 51.4 12 0.00027 34.7 2.7 33 380-424 104-137 (158)
112 TIGR00373 conserved hypothetic 51.3 14 0.00031 34.2 3.1 21 267-287 106-126 (158)
113 TIGR02300 FYDLN_acid conserved 51.3 11 0.00023 33.7 2.1 32 357-399 9-41 (129)
114 smart00614 ZnF_BED BED zinc fi 51.3 10 0.00022 27.9 1.7 20 386-405 19-44 (50)
115 COG1996 RPC10 DNA-directed RNA 51.0 7.3 0.00016 28.9 0.8 12 269-280 5-16 (49)
116 PF05443 ROS_MUCR: ROS/MUCR tr 51.0 9 0.0002 34.6 1.6 23 386-411 73-96 (132)
117 PRK06266 transcription initiat 50.1 14 0.0003 35.0 2.8 19 268-286 115-133 (178)
118 PRK14873 primosome assembly pr 48.8 11 0.00024 43.2 2.2 15 350-364 385-399 (665)
119 smart00531 TFIIE Transcription 48.7 10 0.00023 34.6 1.7 11 358-369 100-110 (147)
120 TIGR00280 L37a ribosomal prote 48.0 8.1 0.00018 32.5 0.8 11 385-395 53-64 (91)
121 KOG3990 Uncharacterized conser 46.7 21 0.00046 35.4 3.5 72 318-403 69-146 (305)
122 PRK06266 transcription initiat 46.4 15 0.00032 34.9 2.4 31 383-425 115-146 (178)
123 KOG4173 Alpha-SNAP protein [In 45.0 3.7 8E-05 39.4 -1.9 77 270-381 79-171 (253)
124 PF13717 zinc_ribbon_4: zinc-r 44.4 19 0.00041 24.8 2.1 31 359-394 4-35 (36)
125 smart00659 RPOLCX RNA polymera 44.4 17 0.00036 26.3 1.8 13 270-282 2-14 (44)
126 COG5151 SSL1 RNA polymerase II 44.2 16 0.00035 37.3 2.3 47 357-407 362-411 (421)
127 PRK05580 primosome assembly pr 43.1 16 0.00034 42.1 2.3 9 384-392 420-429 (679)
128 PRK03976 rpl37ae 50S ribosomal 42.7 10 0.00022 31.8 0.6 11 385-395 54-65 (90)
129 COG1997 RPL43A Ribosomal prote 41.6 19 0.00042 29.9 2.0 32 318-370 34-65 (89)
130 PF15135 UPF0515: Uncharacteri 41.5 25 0.00055 34.9 3.2 30 281-326 90-119 (278)
131 KOG2593 Transcription initiati 41.3 8.6 0.00019 41.0 -0.1 38 354-394 125-163 (436)
132 PRK00398 rpoP DNA-directed RNA 40.7 24 0.00051 25.5 2.2 9 318-326 2-10 (46)
133 KOG1280 Uncharacterized conser 40.4 19 0.00041 37.4 2.1 22 357-379 79-100 (381)
134 PF09538 FYDLN_acid: Protein o 40.3 17 0.00036 31.7 1.6 31 356-397 8-39 (108)
135 PRK03564 formate dehydrogenase 40.2 22 0.00047 36.8 2.6 77 318-426 186-263 (309)
136 PF12760 Zn_Tnp_IS1595: Transp 39.3 23 0.00049 25.6 1.9 10 355-364 35-44 (46)
137 PF09723 Zn-ribbon_8: Zinc rib 39.1 13 0.00029 26.4 0.7 9 356-364 25-33 (42)
138 PRK14714 DNA polymerase II lar 38.5 34 0.00073 41.5 4.1 10 385-394 692-702 (1337)
139 TIGR00244 transcriptional regu 38.4 14 0.0003 33.9 0.8 19 356-375 27-45 (147)
140 PF12013 DUF3505: Protein of u 38.4 23 0.00051 30.4 2.2 25 269-294 10-34 (109)
141 PF13719 zinc_ribbon_5: zinc-r 38.3 24 0.00052 24.4 1.8 10 385-394 25-35 (37)
142 PF01780 Ribosomal_L37ae: Ribo 37.5 18 0.00038 30.4 1.2 9 386-394 54-63 (90)
143 PF04959 ARS2: Arsenite-resist 37.0 16 0.00035 35.7 1.0 29 267-295 74-102 (214)
144 PTZ00255 60S ribosomal protein 36.9 20 0.00043 30.1 1.4 14 356-370 53-66 (90)
145 COG4957 Predicted transcriptio 36.4 23 0.00049 31.9 1.8 25 386-413 77-102 (148)
146 PF12013 DUF3505: Protein of u 36.1 28 0.00061 29.9 2.3 25 271-295 81-109 (109)
147 TIGR01562 FdhE formate dehydro 35.4 25 0.00055 36.3 2.2 59 322-391 187-259 (305)
148 COG4957 Predicted transcriptio 35.3 25 0.00053 31.7 1.8 23 271-296 77-99 (148)
149 PF09416 UPF1_Zn_bind: RNA hel 35.3 24 0.00051 32.6 1.8 10 358-368 15-24 (152)
150 KOG2932 E3 ubiquitin ligase in 35.3 3.3E+02 0.0071 28.2 9.9 41 358-406 124-169 (389)
151 smart00440 ZnF_C2C2 C2C2 Zinc 34.6 17 0.00037 25.6 0.6 6 321-326 2-7 (40)
152 COG1327 Predicted transcriptio 34.2 17 0.00038 33.3 0.7 17 356-373 27-43 (156)
153 smart00834 CxxC_CXXC_SSSS Puta 34.1 24 0.00052 24.3 1.3 8 319-326 5-12 (41)
154 PF14353 CpXC: CpXC protein 34.0 10 0.00022 33.7 -0.8 22 357-379 38-59 (128)
155 smart00734 ZnF_Rad18 Rad18-lik 33.6 35 0.00075 21.7 1.8 20 271-291 2-21 (26)
156 COG3677 Transposase and inacti 33.6 19 0.00041 32.3 0.9 13 357-370 53-65 (129)
157 PRK09678 DNA-binding transcrip 33.3 20 0.00044 28.8 0.9 20 354-374 24-45 (72)
158 PF07295 DUF1451: Protein of u 33.0 34 0.00073 31.5 2.4 35 316-370 109-143 (146)
159 TIGR02605 CxxC_CxxC_SSSS putat 33.0 24 0.00053 25.9 1.2 7 320-326 6-12 (52)
160 COG3357 Predicted transcriptio 32.7 29 0.00063 29.1 1.7 12 384-395 57-69 (97)
161 PRK04023 DNA polymerase II lar 32.4 49 0.0011 39.3 4.0 8 319-326 626-633 (1121)
162 PF15269 zf-C2H2_7: Zinc-finge 32.1 30 0.00066 25.1 1.5 21 386-406 21-42 (54)
163 PF01096 TFIIS_C: Transcriptio 31.8 10 0.00022 26.6 -0.9 7 358-364 29-35 (39)
164 COG1571 Predicted DNA-binding 30.3 28 0.0006 37.4 1.6 29 359-398 352-381 (421)
165 PF10571 UPF0547: Uncharacteri 30.0 40 0.00086 21.5 1.7 11 271-281 15-25 (26)
166 smart00731 SprT SprT homologue 29.9 30 0.00065 31.5 1.6 31 357-394 112-143 (146)
167 PF04959 ARS2: Arsenite-resist 29.9 26 0.00056 34.3 1.2 22 357-379 77-98 (214)
168 KOG3002 Zn finger protein [Gen 29.5 28 0.00062 35.8 1.5 87 318-422 47-143 (299)
169 PF13878 zf-C2H2_3: zinc-finge 29.5 49 0.0011 23.4 2.2 24 271-294 14-39 (41)
170 PF11672 DUF3268: Protein of u 29.2 37 0.00079 29.3 1.8 9 318-326 1-9 (102)
171 KOG4124 Putative transcription 28.9 21 0.00045 37.2 0.3 24 268-291 347-372 (442)
172 PF09416 UPF1_Zn_bind: RNA hel 27.7 71 0.0015 29.5 3.5 50 269-328 13-69 (152)
173 KOG0717 Molecular chaperone (D 27.4 33 0.00071 37.1 1.5 21 271-291 293-313 (508)
174 PRK12496 hypothetical protein; 27.4 46 0.00099 31.1 2.3 7 358-364 128-134 (164)
175 COG0068 HypF Hydrogenase matur 27.3 21 0.00045 40.7 0.0 29 359-393 153-182 (750)
176 TIGR02300 FYDLN_acid conserved 27.2 41 0.00089 30.1 1.8 15 356-371 25-39 (129)
177 COG4530 Uncharacterized protei 26.9 33 0.00072 29.8 1.2 27 358-395 10-37 (129)
178 KOG2907 RNA polymerase I trans 26.7 28 0.00062 30.3 0.7 12 271-282 26-37 (116)
179 KOG0696 Serine/threonine prote 26.5 35 0.00076 36.7 1.5 45 345-391 81-128 (683)
180 PF15269 zf-C2H2_7: Zinc-finge 25.7 55 0.0012 23.8 1.9 25 268-292 18-42 (54)
181 PF08271 TF_Zn_Ribbon: TFIIB z 25.1 48 0.001 23.5 1.6 9 356-364 18-26 (43)
182 COG2331 Uncharacterized protei 25.1 26 0.00056 28.4 0.2 9 386-394 13-22 (82)
183 COG1327 Predicted transcriptio 24.8 38 0.00083 31.2 1.2 15 384-398 27-42 (156)
184 PRK14714 DNA polymerase II lar 24.7 60 0.0013 39.5 3.1 10 270-279 667-676 (1337)
185 KOG4377 Zn-finger protein [Gen 24.7 1E+02 0.0022 33.0 4.4 36 42-77 49-87 (480)
186 PF04216 FdhE: Protein involve 24.5 22 0.00047 36.3 -0.5 7 358-364 173-179 (290)
187 PF03604 DNA_RNApol_7kD: DNA d 23.9 66 0.0014 21.6 1.9 11 358-369 1-11 (32)
188 PF03811 Zn_Tnp_IS1: InsA N-te 23.9 39 0.00084 23.4 0.8 15 375-389 18-33 (36)
189 PF01155 HypA: Hydrogenase exp 23.0 40 0.00086 29.4 1.0 15 269-283 69-83 (113)
190 PF03833 PolC_DP2: DNA polymer 23.0 28 0.0006 40.5 0.0 10 385-394 680-690 (900)
191 PF04810 zf-Sec23_Sec24: Sec23 22.8 50 0.0011 23.1 1.3 11 354-364 21-31 (40)
192 COG1779 C4-type Zn-finger prot 21.8 35 0.00075 32.8 0.4 10 386-395 44-54 (201)
193 PRK12380 hydrogenase nickel in 21.7 51 0.0011 28.8 1.4 14 269-282 69-82 (113)
194 PF07295 DUF1451: Protein of u 21.6 76 0.0017 29.1 2.6 7 358-364 113-119 (146)
195 PF06524 NOA36: NOA36 protein; 21.1 38 0.00083 33.9 0.5 89 317-407 140-232 (314)
196 PRK14559 putative protein seri 21.1 70 0.0015 36.6 2.7 11 387-397 43-54 (645)
197 COG4888 Uncharacterized Zn rib 21.0 50 0.0011 28.3 1.1 9 318-326 21-29 (104)
198 COG3091 SprT Zn-dependent meta 20.8 49 0.0011 30.5 1.1 7 385-391 140-147 (156)
199 PRK03824 hypA hydrogenase nick 20.3 59 0.0013 29.3 1.6 10 358-368 71-80 (135)
200 PF07754 DUF1610: Domain of un 20.3 53 0.0011 20.7 0.8 10 269-278 15-24 (24)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.92 E-value=1.1e-26 Score=225.42 Aligned_cols=137 Identities=23% Similarity=0.395 Sum_probs=125.1
Q ss_pred CCcceecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhccc
Q 009831 267 APHTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVK 346 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~ 346 (524)
..-.|+|+.|||.+.+.++|.+|.++|... ...+.+.|++|| +.|...-.|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~------------------~s~ka~~C~~C~----------K~YvSmpALk 178 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSL------------------DSKKAFSCKYCG----------KVYVSMPALK 178 (279)
T ss_pred cCCceeccccccccccccccchhhcccccc------------------cccccccCCCCC----------ceeeehHHHh
Confidence 345699999999999999999999999653 112779999999 9999999999
Q ss_pred cceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 009831 347 NHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLA 424 (524)
Q Consensus 347 ~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~~C~~~ 424 (524)
.|+++|. -+++|.+|| |.|.+..-|+.|+| |||||||.|. |+|+|..+++|+.||.+|.+ .|.|+|..|+|.
T Consensus 179 MHirTH~--l~c~C~iCG-KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~---~K~~qC~~C~Ks 252 (279)
T KOG2462|consen 179 MHIRTHT--LPCECGICG-KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSD---VKKHQCPRCGKS 252 (279)
T ss_pred hHhhccC--CCccccccc-ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcC---CccccCcchhhH
Confidence 9999997 689999999 99999999999999 9999999999 99999999999999999999 568899999999
Q ss_pred CCCCccccccccc
Q 009831 425 GPSDRREGNEATS 437 (524)
Q Consensus 425 f~~~~~l~~H~~~ 437 (524)
|+..+.|++|..+
T Consensus 253 Fsl~SyLnKH~ES 265 (279)
T KOG2462|consen 253 FALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHHhhhh
Confidence 9999999999754
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.91 E-value=4.3e-25 Score=214.23 Aligned_cols=135 Identities=23% Similarity=0.438 Sum_probs=123.3
Q ss_pred CCCCCCcccCCCCCCCChhhhhhhhhhccC-CcceecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCc
Q 009831 238 LKDEDDADDGEQLPPGSYEILQLEKEEILA-PHTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPML 316 (524)
Q Consensus 238 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~-~k~~~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ 316 (524)
.....|.+|++.....+.+..|...+..+. .+.+.|++|||.|.....|++|+|+|+
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~---------------------- 185 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT---------------------- 185 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC----------------------
Confidence 345679999999988888877777765444 567999999999999999999999996
Q ss_pred cccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCcc
Q 009831 317 IKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTF 394 (524)
Q Consensus 317 ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F 394 (524)
-+++|.+|| |.|.+..-|+-|+|.|+|||||.|..|+ |.|..+++|+.||+ |.+.|+|+|. |+|+|
T Consensus 186 -l~c~C~iCG----------KaFSRPWLLQGHiRTHTGEKPF~C~hC~-kAFADRSNLRAHmQTHS~~K~~qC~~C~KsF 253 (279)
T KOG2462|consen 186 -LPCECGICG----------KAFSRPWLLQGHIRTHTGEKPFSCPHCG-KAFADRSNLRAHMQTHSDVKKHQCPRCGKSF 253 (279)
T ss_pred -CCccccccc----------ccccchHHhhcccccccCCCCccCCccc-chhcchHHHHHHHHhhcCCccccCcchhhHH
Confidence 579999999 9999999999999999999999999999 99999999999999 9999999999 99999
Q ss_pred CChhHHHHHHHh
Q 009831 395 SRKDKLFGHIAL 406 (524)
Q Consensus 395 ~~ks~L~~H~r~ 406 (524)
++++.|.+|...
T Consensus 254 sl~SyLnKH~ES 265 (279)
T KOG2462|consen 254 ALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHhhhh
Confidence 999999999864
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.83 E-value=8.7e-21 Score=205.36 Aligned_cols=86 Identities=21% Similarity=0.384 Sum_probs=79.2
Q ss_pred ccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChhHHHHHHHhhcCCCCCC-CCCCC---CCCCCCCCCcc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAI-PLDET---IKGLAGPSDRR 430 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~k-~~~C~---~C~~~f~~~~~ 430 (524)
|-.|-+|. |..+-.+.|+.|.| |+|||||+|. ||++|++|.+|+.||-+|...-|.+ ++.|+ ||-+.|...-.
T Consensus 605 PNqCiiC~-rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 605 PNQCIICL-RVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred ccceeeee-ecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 57899999 99999999999999 9999999999 9999999999999999997655554 69999 99999999999
Q ss_pred ccccccccCCCCC
Q 009831 431 EGNEATSKIGSTN 443 (524)
Q Consensus 431 l~~H~~~~~gs~~ 443 (524)
|..|++.|.+...
T Consensus 684 lpQhIriH~~~~~ 696 (958)
T KOG1074|consen 684 LPQHIRIHLGGQI 696 (958)
T ss_pred ccceEEeecCCCC
Confidence 9999999997543
No 4
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.76 E-value=1.8e-19 Score=192.09 Aligned_cols=76 Identities=24% Similarity=0.440 Sum_probs=72.9
Q ss_pred ccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCcccccc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNE 434 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~~C~~~f~~~~~l~~H 434 (524)
+|.|+.|+ |.|...+.|.+|.- |+|.|||+|. |.|+|+.|..|..|+|+|.| +|||.|+.|+|+|+...+...|
T Consensus 894 myaCDqCD-K~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSG---EKPfQCdKClKRFSHSGSYSQH 969 (1007)
T KOG3623|consen 894 MYACDQCD-KAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSG---EKPFQCDKCLKRFSHSGSYSQH 969 (1007)
T ss_pred cchHHHHH-HHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccC---CCcchhhhhhhhcccccchHhh
Confidence 59999999 99999999999998 9999999999 99999999999999999999 6778899999999999999999
Q ss_pred cc
Q 009831 435 AT 436 (524)
Q Consensus 435 ~~ 436 (524)
|.
T Consensus 970 MN 971 (1007)
T KOG3623|consen 970 MN 971 (1007)
T ss_pred hc
Confidence 85
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.70 E-value=9.1e-18 Score=182.20 Aligned_cols=54 Identities=22% Similarity=0.265 Sum_probs=42.0
Q ss_pred CCCcccCCCCCCCChhhhhhhhhhccCCcceecCCCCCccCChHHHHHHHhhhCCC
Q 009831 241 EDDADDGEQLPPGSYEILQLEKEEILAPHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (524)
Q Consensus 241 ~~~~~~~~~~~~~s~~~~~~~~~~~~~~k~~~C~~CgK~F~~~~~L~~H~r~H~~e 296 (524)
..|.-|-+...+.+.+.+ |.++|+||+||+|++||+.|.++.+|+.||-+|...
T Consensus 606 NqCiiC~rVlSC~saLqm--HyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~ 659 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQM--HYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAK 659 (958)
T ss_pred cceeeeeecccchhhhhh--hhhcccCcCccccccccchhccccchhhcccccccC
Confidence 446666666666665544 455677999999999999999999999999999654
No 6
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.70 E-value=2.2e-18 Score=171.19 Aligned_cols=169 Identities=18% Similarity=0.268 Sum_probs=137.5
Q ss_pred hhhhhhhhhccCCcceecCCCCCccCChHHHHHHHhhhCCC-------------CCChhhhcCccccCCCCCCccccccC
Q 009831 256 EILQLEKEEILAPHTHFCTICGKGFKRDANLRMHMRGHGDE-------------YKTPAALAKPHKESSSEPMLIKRYSC 322 (524)
Q Consensus 256 ~~~~~~~~~~~~~k~~~C~~CgK~F~~~~~L~~H~r~H~~e-------------f~~~~~L~~H~~~h~~~h~~ekpy~C 322 (524)
..+..+.+.|.++|...|+.||.-|.++..|-.|.|.-+.- |.+...|+.|+.+|. .-|+|
T Consensus 193 ~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv------n~ykC 266 (467)
T KOG3608|consen 193 YRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV------NCYKC 266 (467)
T ss_pred HHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh------hcccc
Confidence 33444555666777777777777777777777777654322 677777777777654 56999
Q ss_pred CCCCcccCcCcCCccccchhhccccceee-ecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc---CCCccCCh
Q 009831 323 PYAGCKRNKDHKKFQPLKTILCVKNHYKR-THCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS---CGTTFSRK 397 (524)
Q Consensus 323 ~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~-h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~---Cgk~F~~k 397 (524)
+.|. ......+.|.+|++. |...|||+|+.|+ +.|.+.++|.+|.. |. +--|.|+ |..+|++.
T Consensus 267 plCd----------mtc~~~ssL~~H~r~rHs~dkpfKCd~Cd-~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~ 334 (467)
T KOG3608|consen 267 PLCD----------MTCSSASSLTTHIRYRHSKDKPFKCDECD-TRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTY 334 (467)
T ss_pred cccc----------cCCCChHHHHHHHHhhhccCCCccccchh-hhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHH
Confidence 9999 888899999999875 4568999999999 99999999999999 98 6679997 99999999
Q ss_pred hHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCccccccccccCCCC
Q 009831 398 DKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEATSKIGST 442 (524)
Q Consensus 398 s~L~~H~r~Htg~kp~k~~~C~~C~~~f~~~~~l~~H~~~~~gs~ 442 (524)
..|++|++-|+......+|.|-.|.+.|.+...|..|.+..++-+
T Consensus 335 ~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 335 TQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred HHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhccc
Confidence 999999998775555678999999999999999999998877643
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.59 E-value=2e-16 Score=146.92 Aligned_cols=109 Identities=29% Similarity=0.609 Sum_probs=97.4
Q ss_pred cceecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhccccc
Q 009831 269 HTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNH 348 (524)
Q Consensus 269 k~~~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H 348 (524)
..|.|.+|+|.|.....|.+||+-|... |+|-|..|| +.|.....|++|
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~v---------------------kr~lct~cg----------kgfndtfdlkrh 164 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDV---------------------KRHLCTFCG----------KGFNDTFDLKRH 164 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHH---------------------HHHHHhhcc----------Ccccchhhhhhh
Confidence 4599999999999999999999999887 999999999 888888899999
Q ss_pred eeeecCCCccccCCCCCccccChhhhhhhhc--cc----------CCCceecc-CCCccCChhHHHHHHHhhcC
Q 009831 349 YKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--HC----------GKDKWLCS-CGTTFSRKDKLFGHIALFQG 409 (524)
Q Consensus 349 ~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r--Ht----------gekpy~C~-Cgk~F~~ks~L~~H~r~Htg 409 (524)
+|+|++.+||+|..|+ |.|.++-.|..|.+ |. .+|-|.|+ ||.+-.+...+..|++.|+.
T Consensus 165 ~rthtgvrpykc~~c~-kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 165 TRTHTGVRPYKCSLCE-KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred hccccCccccchhhhh-HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 9999999999999999 99999999999986 63 25678999 99999999999999998765
No 8
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.57 E-value=1.8e-16 Score=147.26 Aligned_cols=113 Identities=21% Similarity=0.305 Sum_probs=103.1
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccC
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFS 395 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~ 395 (524)
..|.|.+|| +.|....-|.+|++||..-|.|-|..|| |.|...-+|++|+| |+|.+||+|. |+|+|+
T Consensus 116 d~ftCrvCg----------K~F~lQRmlnrh~kch~~vkr~lct~cg-kgfndtfdlkrh~rthtgvrpykc~~c~kaft 184 (267)
T KOG3576|consen 116 DSFTCRVCG----------KKFGLQRMLNRHLKCHSDVKRHLCTFCG-KGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFT 184 (267)
T ss_pred Ceeeeehhh----------hhhhHHHHHHHHhhhccHHHHHHHhhcc-CcccchhhhhhhhccccCccccchhhhhHHHH
Confidence 679999999 8899888999999999999999999999 99999999999999 9999999999 999999
Q ss_pred ChhHHHHHHHhhcC--------CCCCCCCCCCCCCCCCCCCccccccccccCCC
Q 009831 396 RKDKLFGHIALFQG--------HTPAIPLDETIKGLAGPSDRREGNEATSKIGS 441 (524)
Q Consensus 396 ~ks~L~~H~r~Htg--------~kp~k~~~C~~C~~~f~~~~~l~~H~~~~~gs 441 (524)
+.-.|..|++.-+| ++..+.|.|+.||..-.....+..|.+.|+..
T Consensus 185 qrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 185 QRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred hhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 99999999875444 45678899999999999888888998887653
No 9
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.51 E-value=2.4e-15 Score=149.76 Aligned_cols=155 Identities=20% Similarity=0.352 Sum_probs=132.6
Q ss_pred ceecCC--CCCccCChHHHHHHHhhhCCC-----------CCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCc
Q 009831 270 THFCTI--CGKGFKRDANLRMHMRGHGDE-----------YKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKF 336 (524)
Q Consensus 270 ~~~C~~--CgK~F~~~~~L~~H~r~H~~e-----------f~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~ 336 (524)
.+.|.. |-+.|..++.|+.|+|.|+++ |.++..|-.|.++.. -....+|.|..|-
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt--~l~~n~fqC~~C~---------- 244 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQT--ELNTNSFQCAQCF---------- 244 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhh--hhcCCchHHHHHH----------
Confidence 366764 999999999999999999998 888888888876532 2233689999998
Q ss_pred cccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc--ccCCCceecc-CCCccCChhHHHHHHHhhcCCCCC
Q 009831 337 QPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPA 413 (524)
Q Consensus 337 k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r--Htgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~ 413 (524)
|.|.+...|+.|+++|. .-|+|+.|+ -.....+.|.+|+| |..+|||+|+ |.+.|.+.+.|.+|+.+|. .
T Consensus 245 KrFaTeklL~~Hv~rHv--n~ykCplCd-mtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS----~ 317 (467)
T KOG3608|consen 245 KRFATEKLLKSHVVRHV--NCYKCPLCD-MTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS----K 317 (467)
T ss_pred HHHhHHHHHHHHHHHhh--hcccccccc-cCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc----c
Confidence 88999888999988886 459999999 99999999999998 9999999999 9999999999999999997 3
Q ss_pred CCCCCCC--CCCCCCCCccccccccccC-CCCC
Q 009831 414 IPLDETI--KGLAGPSDRREGNEATSKI-GSTN 443 (524)
Q Consensus 414 k~~~C~~--C~~~f~~~~~l~~H~~~~~-gs~~ 443 (524)
..|.|+. |...|.....+.+|++.++ |..+
T Consensus 318 ~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np 350 (467)
T KOG3608|consen 318 TVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNP 350 (467)
T ss_pred cceecCCCCCcHHHHHHHHHHHHHHHhccCCCC
Confidence 4577877 9899998899999999876 5443
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.38 E-value=7.6e-14 Score=149.59 Aligned_cols=79 Identities=25% Similarity=0.548 Sum_probs=60.2
Q ss_pred CCcceecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhccc
Q 009831 267 APHTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVK 346 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~ 346 (524)
.+-.|.|+.|+|+|...+.|.+|..-|+|. |||+|.+|.
T Consensus 891 e~gmyaCDqCDK~FqKqSSLaRHKYEHsGq---------------------RPyqC~iCk-------------------- 929 (1007)
T KOG3623|consen 891 EDGMYACDQCDKAFQKQSSLARHKYEHSGQ---------------------RPYQCIICK-------------------- 929 (1007)
T ss_pred ccccchHHHHHHHHHhhHHHHHhhhhhcCC---------------------CCcccchhh--------------------
Confidence 445688888888888888888887767665 666555554
Q ss_pred cceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChhHHHHHHH
Q 009831 347 NHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIA 405 (524)
Q Consensus 347 ~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks~L~~H~r 405 (524)
|.|+.+.+|..|+| |.|||||+|+ |+|+|+......+||-
T Consensus 930 -------------------KAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 930 -------------------KAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred -------------------HhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 77777778888888 8888888888 8888888888888875
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.02 E-value=3.3e-10 Score=122.95 Aligned_cols=98 Identities=16% Similarity=0.273 Sum_probs=75.4
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccC
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFS 395 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~ 395 (524)
+.+.|++|+ +.|. ...|+.|++.+| ++|.|+ |+ +.+ .+..|..|++ |+.+|++.|. |++.|.
T Consensus 452 ~H~~C~~Cg----------k~f~-~s~LekH~~~~H--kpv~Cp-Cg-~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 452 NHVHCEKCG----------QAFQ-QGEMEKHMKVFH--EPLQCP-CG-VVL-EKEQMVQHQASTCPLRLITCRFCGDMVQ 515 (567)
T ss_pred cCccCCCCC----------Cccc-hHHHHHHHHhcC--CCccCC-CC-CCc-chhHHHhhhhccCCCCceeCCCCCCccc
Confidence 446899999 6664 466888988876 889999 98 766 5689999998 9999999999 999985
Q ss_pred C----------hhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCcccccccc
Q 009831 396 R----------KDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEAT 436 (524)
Q Consensus 396 ~----------ks~L~~H~r~Htg~kp~k~~~C~~C~~~f~~~~~l~~H~~ 436 (524)
. .+.|..|..++ | .+++.|..||+.+.. ..+..|+.
T Consensus 516 ~g~~~~d~~d~~s~Lt~HE~~C-G---~rt~~C~~Cgk~Vrl-rdm~~H~~ 561 (567)
T PLN03086 516 AGGSAMDVRDRLRGMSEHESIC-G---SRTAPCDSCGRSVML-KEMDIHQI 561 (567)
T ss_pred cCccccchhhhhhhHHHHHHhc-C---CcceEccccCCeeee-hhHHHHHH
Confidence 2 35788888875 5 667788889887765 34455543
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.98 E-value=4.8e-10 Score=121.69 Aligned_cols=114 Identities=21% Similarity=0.390 Sum_probs=69.7
Q ss_pred eecCC--CCCccCChHHHHHHHh--hhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhccc
Q 009831 271 HFCTI--CGKGFKRDANLRMHMR--GHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVK 346 (524)
Q Consensus 271 ~~C~~--CgK~F~~~~~L~~H~r--~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~ 346 (524)
-.|+. ||..|. +..|..|.. .....| ....|..|++.|+ ++|.|+ || +.+ ....|.
T Consensus 434 V~Cp~~~Cg~v~~-r~el~~H~~C~~Cgk~f-~~s~LekH~~~~H------kpv~Cp-Cg----------~~~-~R~~L~ 493 (567)
T PLN03086 434 VVCPHDGCGIVLR-VEEAKNHVHCEKCGQAF-QQGEMEKHMKVFH------EPLQCP-CG----------VVL-EKEQMV 493 (567)
T ss_pred eeCCcccccceee-ccccccCccCCCCCCcc-chHHHHHHHHhcC------CCccCC-CC----------CCc-chhHHH
Confidence 45663 777773 445566642 112224 3456777766531 677777 77 433 345677
Q ss_pred cceeeecCCCccccCCCCCcccc----------ChhhhhhhhcccCCCceecc-CCCccCChhHHHHHHHh
Q 009831 347 NHYKRTHCDKSYVCSRCNTKKFS----------VIADLKTHEKHCGKDKWLCS-CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 347 ~H~~~h~~~Kpy~C~~C~~K~F~----------~~s~L~~H~rHtgekpy~C~-Cgk~F~~ks~L~~H~r~ 406 (524)
.|++.|...|++.|..|+ +.|. ....|..|+..+|.+++.|. ||+.|..+. |..|+..
T Consensus 494 ~H~~thCp~Kpi~C~fC~-~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlrd-m~~H~~~ 562 (567)
T PLN03086 494 QHQASTCPLRLITCRFCG-DMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLKE-MDIHQIA 562 (567)
T ss_pred hhhhccCCCCceeCCCCC-CccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeehh-HHHHHHH
Confidence 777666667777777777 7764 23467777774477777777 777776443 5666544
No 13
>PHA00733 hypothetical protein
Probab=98.85 E-value=1.5e-09 Score=97.13 Aligned_cols=78 Identities=22% Similarity=0.385 Sum_probs=58.5
Q ss_pred ccccCCCCCcccCcCcCCccccchhhc------cccceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILC------VKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS- 389 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~------L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~- 389 (524)
|++.|.+|. +.+..... |.+|+ .++.++||.|+.|+ +.|.....|..|++ | +++|.|.
T Consensus 39 ~~~~~~~~~----------~~~~~~~~l~~~~~l~~~~-~~~~~kPy~C~~Cg-k~Fss~s~L~~H~r~h--~~~~~C~~ 104 (128)
T PHA00733 39 KRLIRAVVK----------TLIYNPQLLDESSYLYKLL-TSKAVSPYVCPLCL-MPFSSSVSLKQHIRYT--EHSKVCPV 104 (128)
T ss_pred hhHHHHHHh----------hhccChhhhcchHHHHhhc-ccCCCCCccCCCCC-CcCCCHHHHHHHHhcC--CcCccCCC
Confidence 778888887 33333333 44453 33457889999998 88999899988888 7 4578898
Q ss_pred CCCccCChhHHHHHHHhhcC
Q 009831 390 CGTTFSRKDKLFGHIALFQG 409 (524)
Q Consensus 390 Cgk~F~~ks~L~~H~r~Htg 409 (524)
|++.|.....|..|++..++
T Consensus 105 CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 105 CGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCccCCHHHHHHHHHHhcC
Confidence 99999999999888887654
No 14
>PHA00733 hypothetical protein
Probab=98.82 E-value=1.2e-09 Score=97.74 Aligned_cols=94 Identities=15% Similarity=0.054 Sum_probs=73.8
Q ss_pred hhhccccceeeecCCCccccCCCCCccccChhhhhhh------hcccCCCceecc-CCCccCChhHHHHHHHhhcCCCCC
Q 009831 341 TILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTH------EKHCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPA 413 (524)
Q Consensus 341 ~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H------~rHtgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~ 413 (524)
+...|+++....-..|++.|.+|. +.|.....|..| +.+.+++||.|. ||+.|.+...|..|+++|.
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~----- 97 (128)
T PHA00733 24 TLEELKRYHSLTPEQKRLIRAVVK-TLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTE----- 97 (128)
T ss_pred CHHHhhhhhcCChhhhhHHHHHHh-hhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCC-----
Confidence 333343333333335789999998 888887777666 234568999999 9999999999999999863
Q ss_pred CCCCCCCCCCCCCCCccccccccccCC
Q 009831 414 IPLDETIKGLAGPSDRREGNEATSKIG 440 (524)
Q Consensus 414 k~~~C~~C~~~f~~~~~l~~H~~~~~g 440 (524)
.+|.|.+|++.|.....|..|+...++
T Consensus 98 ~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 98 HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 358999999999999999999987765
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.71 E-value=4.3e-09 Score=79.09 Aligned_cols=40 Identities=23% Similarity=0.405 Sum_probs=21.3
Q ss_pred cccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChhHH
Q 009831 358 YVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKL 400 (524)
Q Consensus 358 y~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks~L 400 (524)
|.|+.|| |.|.+..+|..|+| |+ ++|+|. |+|.|.+.+.|
T Consensus 6 y~C~~CG-K~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICG-EIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhC-CeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 4555555 55555555555555 55 455555 55555554444
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.58 E-value=3.8e-08 Score=74.04 Aligned_cols=43 Identities=12% Similarity=0.237 Sum_probs=37.8
Q ss_pred ceecc-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCcccc
Q 009831 385 KWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREG 432 (524)
Q Consensus 385 py~C~-Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~~C~~~f~~~~~l~ 432 (524)
-|.|+ |||.|++.++|..|+++|+ ++++|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-----k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-----TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-----CcccCCcccceecccceeE
Confidence 38999 9999999999999999997 4778899999998776654
No 17
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.33 E-value=1.8e-07 Score=60.03 Aligned_cols=24 Identities=38% Similarity=0.995 Sum_probs=19.2
Q ss_pred hhhhhhc-ccCCCceecc-CCCccCC
Q 009831 373 DLKTHEK-HCGKDKWLCS-CGTTFSR 396 (524)
Q Consensus 373 ~L~~H~r-Htgekpy~C~-Cgk~F~~ 396 (524)
+|++|++ |+|+|||.|+ |+++|.+
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 4778888 8888888888 8888863
No 18
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.30 E-value=3.3e-07 Score=94.27 Aligned_cols=81 Identities=27% Similarity=0.531 Sum_probs=65.3
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc-cc--------CCC----
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HC--------GKD---- 384 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Ht--------gek---- 384 (524)
.-|.|..|. ..|.....|.+|.---.-.--|+|++|+ |.|+-..+|..|.| |. |..
T Consensus 266 GdyiCqLCK----------~kYeD~F~LAQHrC~RIV~vEYrCPEC~-KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~ 334 (500)
T KOG3993|consen 266 GDYICQLCK----------EKYEDAFALAQHRCPRIVHVEYRCPECD-KVFSCPANLASHRRWHKPRPEAAKAGSPPPKQ 334 (500)
T ss_pred HHHHHHHHH----------HhhhhHHHHhhccCCeeEEeeecCCccc-ccccCchhhhhhhcccCCchhhhhcCCCChhh
Confidence 459999998 7777777888773211122359999999 99999999999999 83 211
Q ss_pred ---------------------ceecc-CCCccCChhHHHHHHHhhcC
Q 009831 385 ---------------------KWLCS-CGTTFSRKDKLFGHIALFQG 409 (524)
Q Consensus 385 ---------------------py~C~-Cgk~F~~ks~L~~H~r~Htg 409 (524)
-|.|. |+|.|.+...|++|+.+|+.
T Consensus 335 ~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 335 AVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 38999 99999999999999999874
No 19
>PHA00616 hypothetical protein
Probab=97.97 E-value=2e-06 Score=61.70 Aligned_cols=26 Identities=23% Similarity=0.644 Sum_probs=12.9
Q ss_pred ceecc-CCCccCChhHHHHHHHhhcCC
Q 009831 385 KWLCS-CGTTFSRKDKLFGHIALFQGH 410 (524)
Q Consensus 385 py~C~-Cgk~F~~ks~L~~H~r~Htg~ 410 (524)
||+|. ||+.|.+++.|.+|++.|+|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC
Confidence 34455 555555555555555555543
No 20
>PHA00616 hypothetical protein
Probab=97.90 E-value=4e-06 Score=60.19 Aligned_cols=27 Identities=19% Similarity=0.390 Sum_probs=26.0
Q ss_pred ceecCCCCCccCChHHHHHHHhhhCCC
Q 009831 270 THFCTICGKGFKRDANLRMHMRGHGDE 296 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~~L~~H~r~H~~e 296 (524)
+|+|..||+.|..+..|.+|++.|+++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC
Confidence 589999999999999999999999998
No 21
>PHA00732 hypothetical protein
Probab=97.90 E-value=7.1e-06 Score=67.17 Aligned_cols=44 Identities=23% Similarity=0.485 Sum_probs=30.5
Q ss_pred ccccCCCCCccccChhhhhhhhc--ccCCCceecc-CCCccCChhHHHHHHHhh
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK--HCGKDKWLCS-CGTTFSRKDKLFGHIALF 407 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r--Htgekpy~C~-Cgk~F~~ks~L~~H~r~H 407 (524)
||.|..|+ +.|.+...|+.|++ |. ++.|. ||++|. .|..|++++
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 46777777 77777777777775 43 34677 777776 466777554
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.89 E-value=5.8e-06 Score=85.35 Aligned_cols=158 Identities=16% Similarity=0.042 Sum_probs=100.9
Q ss_pred cceecCCCCCccCChHHHHHHHhhhCCCC----------CChhhhcCc--cccCCCCCCccccccCCCCCcccCcCcCCc
Q 009831 269 HTHFCTICGKGFKRDANLRMHMRGHGDEY----------KTPAALAKP--HKESSSEPMLIKRYSCPYAGCKRNKDHKKF 336 (524)
Q Consensus 269 k~~~C~~CgK~F~~~~~L~~H~r~H~~ef----------~~~~~L~~H--~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~ 336 (524)
-.|+|++|+|+|....+|..|.|.|.-.- +....-..- ..........+.-|.|.+|+
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~---------- 363 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCG---------- 363 (500)
T ss_pred eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhh----------
Confidence 34999999999999999999999994320 000000000 00001111223479999999
Q ss_pred cccchhhccccceeeecCC---C--------------ccccCCCCCccccChhhhhhhhc-ccC-CCceecc-CCCccCC
Q 009831 337 QPLKTILCVKNHYKRTHCD---K--------------SYVCSRCNTKKFSVIADLKTHEK-HCG-KDKWLCS-CGTTFSR 396 (524)
Q Consensus 337 k~f~~~~~L~~H~~~h~~~---K--------------py~C~~C~~K~F~~~s~L~~H~r-Htg-ekpy~C~-Cgk~F~~ 396 (524)
+.|++...|++|...|+.- | .+-|..|. -.+.....--.|.- +.+ .....|. ||-.|..
T Consensus 364 KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a-~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppss 442 (500)
T KOG3993|consen 364 KKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVA-THSSASDSHGDEVLYVAGSAELELPPYDGSPPSS 442 (500)
T ss_pred hhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccc-cccccccccccceeeeeccccccCCCCCCCCccc
Confidence 8999999999997777641 1 25566666 44443332222222 322 1224567 8888888
Q ss_pred hhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCCccccccccccCC
Q 009831 397 KDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEATSKIG 440 (524)
Q Consensus 397 ks~L~~H~r~Htg~kp~k~~~C~~C~~~f~~~~~l~~H~~~~~g 440 (524)
+..--.|.+.-. .+.-|.|.+|-..|.....|.+|+...+-
T Consensus 443 s~~sgg~~rlg~---~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 443 SGSSGGYGRLGI---AEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred CCCCCccccccc---hhhccccccchHhhhcCcchHhHhhhcCh
Confidence 877766766522 25678899999999999999998876543
No 23
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.76 E-value=1.4e-05 Score=51.25 Aligned_cols=21 Identities=67% Similarity=1.229 Sum_probs=19.4
Q ss_pred HHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCC
Q 009831 285 NLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAG 326 (524)
Q Consensus 285 ~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cg 326 (524)
+|.+||++|+++ |||.|++|+
T Consensus 1 ~l~~H~~~H~~~---------------------k~~~C~~C~ 21 (26)
T PF13465_consen 1 NLRRHMRTHTGE---------------------KPYKCPYCG 21 (26)
T ss_dssp HHHHHHHHHSSS---------------------SSEEESSSS
T ss_pred CHHHHhhhcCCC---------------------CCCCCCCCc
Confidence 588999999988 999999999
No 24
>PHA00732 hypothetical protein
Probab=97.70 E-value=2.5e-05 Score=63.93 Aligned_cols=46 Identities=17% Similarity=0.081 Sum_probs=38.1
Q ss_pred ceecc-CCCccCChhHHHHHHHh-hcCCCCCCCCCCCCCCCCCCCCccccccccccC
Q 009831 385 KWLCS-CGTTFSRKDKLFGHIAL-FQGHTPAIPLDETIKGLAGPSDRREGNEATSKI 439 (524)
Q Consensus 385 py~C~-Cgk~F~~ks~L~~H~r~-Htg~kp~k~~~C~~C~~~f~~~~~l~~H~~~~~ 439 (524)
||.|. ||+.|.+...|..|++. |++ +.|+.|++.|. .+..|.+++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~------~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL------TKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC------CccCCCCCEeC---ChhhhhcccC
Confidence 68999 99999999999999985 543 47999999997 4777775443
No 25
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.56 E-value=4.5e-05 Score=47.11 Aligned_cols=23 Identities=52% Similarity=1.001 Sum_probs=21.9
Q ss_pred eecCCCCCccCChHHHHHHHhhh
Q 009831 271 HFCTICGKGFKRDANLRMHMRGH 293 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~H 293 (524)
|.|++|++.|.+...|+.||+.|
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 78999999999999999999986
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.56 E-value=2.4e-05 Score=78.10 Aligned_cols=49 Identities=31% Similarity=0.580 Sum_probs=29.2
Q ss_pred CCccccCC--CCCccccChhhhhhhhc--c------------------cCCCceecc-CCCccCChhHHHHHH
Q 009831 355 DKSYVCSR--CNTKKFSVIADLKTHEK--H------------------CGKDKWLCS-CGTTFSRKDKLFGHI 404 (524)
Q Consensus 355 ~Kpy~C~~--C~~K~F~~~s~L~~H~r--H------------------tgekpy~C~-Cgk~F~~ks~L~~H~ 404 (524)
+|||+|++ |. |+|+..-.|+-|+. | ...|||+|+ |+|+|+....|+-|+
T Consensus 347 ~KpykCpV~gC~-K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 347 GKPYKCPVEGCN-KKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CceecCCCCCch-hhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 35555554 55 55555555555554 4 124677777 777777777776664
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.48 E-value=0.00011 Score=55.78 Aligned_cols=48 Identities=25% Similarity=0.556 Sum_probs=36.3
Q ss_pred ccccCCCCCccccChhhhhhhhc--ccCC-Cceecc-CCCccCChhHHHHHHHhhc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK--HCGK-DKWLCS-CGTTFSRKDKLFGHIALFQ 408 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r--Htge-kpy~C~-Cgk~F~~ks~L~~H~r~Ht 408 (524)
.|.|++|+ +. .....|..|.. |..+ +.+.|+ |...+. .+|..|+..++
T Consensus 2 ~f~CP~C~-~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCG-KG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCC-Cc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 47888898 84 45678899976 7765 568899 988655 48888988765
No 28
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.40 E-value=4.4e-05 Score=76.25 Aligned_cols=57 Identities=37% Similarity=0.683 Sum_probs=46.1
Q ss_pred ccccccCCCCCcccCcCcCCccccchhhccccceeeecC-------------------CCccccCCCCCccccChhhhhh
Q 009831 316 LIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHC-------------------DKSYVCSRCNTKKFSVIADLKT 376 (524)
Q Consensus 316 ~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~-------------------~Kpy~C~~C~~K~F~~~s~L~~ 376 (524)
++|||+|++-||. |.++....|+.|+.--|+ .|||+|++|+ |+|+..-.|+-
T Consensus 346 d~KpykCpV~gC~--------K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~-KRYKNlNGLKY 416 (423)
T COG5189 346 DGKPYKCPVEGCN--------KKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD-KRYKNLNGLKY 416 (423)
T ss_pred cCceecCCCCCch--------hhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccc-hhhccCcccee
Confidence 4699999998887 778888888888654442 3799999999 99999999999
Q ss_pred hhccc
Q 009831 377 HEKHC 381 (524)
Q Consensus 377 H~rHt 381 (524)
|++|.
T Consensus 417 Hr~Hs 421 (423)
T COG5189 417 HRKHS 421 (423)
T ss_pred ccccc
Confidence 97775
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=97.35 E-value=0.00013 Score=45.05 Aligned_cols=22 Identities=36% Similarity=0.794 Sum_probs=16.5
Q ss_pred eecc-CCCccCChhHHHHHHHhh
Q 009831 386 WLCS-CGTTFSRKDKLFGHIALF 407 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~H 407 (524)
|.|. |++.|.++..|..|++.|
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 6677 777777777777777764
No 30
>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=97.07 E-value=0.00045 Score=42.51 Aligned_cols=24 Identities=50% Similarity=1.010 Sum_probs=20.4
Q ss_pred eecCCCCCccCChHHHHHHHhhhC
Q 009831 271 HFCTICGKGFKRDANLRMHMRGHG 294 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~H~ 294 (524)
|.|++|++.|.+...|+.|+++|+
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 789999999999999999999874
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.88 E-value=0.00064 Score=43.62 Aligned_cols=26 Identities=38% Similarity=0.638 Sum_probs=23.8
Q ss_pred ceecCCCCCccCChHHHHHHHhhhCC
Q 009831 270 THFCTICGKGFKRDANLRMHMRGHGD 295 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~~L~~H~r~H~~ 295 (524)
+|+|..|++.|.....|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 58999999999999999999998853
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=96.77 E-value=0.0011 Score=40.68 Aligned_cols=22 Identities=32% Similarity=0.779 Sum_probs=14.5
Q ss_pred eecc-CCCccCChhHHHHHHHhh
Q 009831 386 WLCS-CGTTFSRKDKLFGHIALF 407 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~H 407 (524)
|.|. |++.|.++..|..|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 5677 777777777777777765
No 33
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.72 E-value=0.00053 Score=51.93 Aligned_cols=47 Identities=26% Similarity=0.588 Sum_probs=37.1
Q ss_pred cccCCCCCcccCcCcCCccccchhhccccceeeecC--CCccccCCCCCccccChhhhhhhhc
Q 009831 319 RYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHC--DKSYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 319 py~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~--~Kpy~C~~C~~K~F~~~s~L~~H~r 379 (524)
.|.||+|+ + ..+...|..|....|. .+.+.|++|. ..+. .+|..|++
T Consensus 2 ~f~CP~C~----------~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~-~~~~--~~l~~Hl~ 50 (54)
T PF05605_consen 2 SFTCPYCG----------K-GFSESSLVEHCEDEHRSESKNVVCPICS-SRVT--DNLIRHLN 50 (54)
T ss_pred CcCCCCCC----------C-ccCHHHHHHHHHhHCcCCCCCccCCCch-hhhh--hHHHHHHH
Confidence 48999999 7 4455678899777665 3689999999 7655 49999997
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.55 E-value=0.0013 Score=42.17 Aligned_cols=23 Identities=35% Similarity=0.595 Sum_probs=13.8
Q ss_pred ceecc-CCCccCChhHHHHHHHhh
Q 009831 385 KWLCS-CGTTFSRKDKLFGHIALF 407 (524)
Q Consensus 385 py~C~-Cgk~F~~ks~L~~H~r~H 407 (524)
||.|. |++.|.....|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 45566 666666666666666554
No 35
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.022 Score=63.52 Aligned_cols=128 Identities=23% Similarity=0.278 Sum_probs=75.1
Q ss_pred eecCCCCCcc---------------CChHHHHHHHh-hhCCC-----------------CCChhhhcCccccCCC---CC
Q 009831 271 HFCTICGKGF---------------KRDANLRMHMR-GHGDE-----------------YKTPAALAKPHKESSS---EP 314 (524)
Q Consensus 271 ~~C~~CgK~F---------------~~~~~L~~H~r-~H~~e-----------------f~~~~~L~~H~~~h~~---~h 314 (524)
+.|.+|++.| .....|+.||+ .|..- ..+...|..|++.-.. .+
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~ 179 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESC 179 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccc
Confidence 5677776666 36788999985 45322 2355667777653211 11
Q ss_pred CccccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCC------CCccccChhhhhhhhc-ccCCCcee
Q 009831 315 MLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRC------NTKKFSVIADLKTHEK-HCGKDKWL 387 (524)
Q Consensus 315 ~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C------~~K~F~~~s~L~~H~r-Htgekpy~ 387 (524)
.| --.|.+|. ..|-....|.+|++.+| |.|..| + .-|....+|..|-| ++ |.
T Consensus 180 rG--hp~C~~C~----------~~fld~~el~rH~~~~h----~~chfC~~~~~~n-eyy~~~~dLe~HfR~~H----fl 238 (669)
T KOG2231|consen 180 RG--HPLCKFCH----------ERFLDDDELYRHLRFDH----EFCHFCDYKTGQN-EYYNDYDDLEEHFRKGH----FL 238 (669)
T ss_pred cC--Cccchhhh----------hhhccHHHHHHhhccce----eheeecCcccccc-hhcccchHHHHHhhhcC----cc
Confidence 11 13677887 67777777777776555 455555 3 45777788999987 32 66
Q ss_pred cc---C-CCccCChhHHHHHHHhhcC-CCCCCCCCCC
Q 009831 388 CS---C-GTTFSRKDKLFGHIALFQG-HTPAIPLDET 419 (524)
Q Consensus 388 C~---C-gk~F~~ks~L~~H~r~Htg-~kp~k~~~C~ 419 (524)
|. | .+.|.....+..|++.|.. ++.+++|-|.
T Consensus 239 CE~~~C~~~~f~~~~~~ei~lk~~~~~~~~e~~~~~~ 275 (669)
T KOG2231|consen 239 CEEEFCRTKKFYVAFELEIELKAHNRFIQHEKCYICR 275 (669)
T ss_pred ccccccccceeeehhHHHHHHHhhccccchheeccCC
Confidence 75 5 3455555455555553331 2234555553
No 36
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.38 E-value=0.0026 Score=66.86 Aligned_cols=145 Identities=18% Similarity=0.176 Sum_probs=108.5
Q ss_pred cceecCCCCCccCChHHHHHHHh--hhCCCCCChhhhcCccccCCCCCCccccccCC--CCCcccCcCcCCccccchhhc
Q 009831 269 HTHFCTICGKGFKRDANLRMHMR--GHGDEYKTPAALAKPHKESSSEPMLIKRYSCP--YAGCKRNKDHKKFQPLKTILC 344 (524)
Q Consensus 269 k~~~C~~CgK~F~~~~~L~~H~r--~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~--~Cgc~~~~~~~~~k~f~~~~~ 344 (524)
.++.|..|.+.|.+...|.+|.+ .|.++- -+++.|+ .|+ +.|.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~-------------------~~~~~~p~~~~~----------~~~~~~~~ 338 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGES-------------------LKPFSCPYSLCG----------KLFSRNDA 338 (467)
T ss_pred cCCCCccccCCcccccccccccccccccccc-------------------CCceeeeccCCC----------cccccccc
Confidence 47999999999999999999998 565540 1899999 799 88999999
Q ss_pred cccceeeecCCCccccCC--CCCccccChhhhh----hhh-c-ccCCCceecc---CCCccCChhHHHHHHHhhcCCCCC
Q 009831 345 VKNHYKRTHCDKSYVCSR--CNTKKFSVIADLK----THE-K-HCGKDKWLCS---CGTTFSRKDKLFGHIALFQGHTPA 413 (524)
Q Consensus 345 L~~H~~~h~~~Kpy~C~~--C~~K~F~~~s~L~----~H~-r-Htgekpy~C~---Cgk~F~~ks~L~~H~r~Htg~kp~ 413 (524)
+..|+.+|.+.+++.|.. |. +.+.....-. .+. . ....+.+.|. |-..+.+...+..|...|.... .
T Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ 416 (467)
T COG5048 339 LKRHILLHTSISPAKEKLLNSS-SKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFR-P 416 (467)
T ss_pred ccCCcccccCCCccccccccCc-cccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccC-C
Confidence 999999999988888754 55 5555544421 111 1 3345667776 8888888888888888776533 2
Q ss_pred CCCCCCCCCCCCCCCccccccccccCCCCCC
Q 009831 414 IPLDETIKGLAGPSDRREGNEATSKIGSTNF 444 (524)
Q Consensus 414 k~~~C~~C~~~f~~~~~l~~H~~~~~gs~~~ 444 (524)
..+.|..|.+.+.....+..|++.+......
T Consensus 417 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 417 YNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred cCCCCCcchhhccCcccccccccccccCCce
Confidence 3567888888888888888888777654443
No 37
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.37 E-value=0.0023 Score=53.69 Aligned_cols=72 Identities=18% Similarity=0.282 Sum_probs=20.4
Q ss_pred cCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCChhH
Q 009831 321 SCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKDK 399 (524)
Q Consensus 321 ~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~ks~ 399 (524)
+|.+|+ ..|.....|..|+...|+-..- .. +.+.....|..+.+..-...|.|. |++.|.....
T Consensus 1 ~C~~C~----------~~f~~~~~l~~H~~~~H~~~~~----~~-~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~ 65 (100)
T PF12756_consen 1 QCLFCD----------ESFSSVDDLLQHMKKKHGFDIP----DQ-KYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREA 65 (100)
T ss_dssp ---------------------------------------------------------------SSEEBSSSS-EESSHHH
T ss_pred Cccccc----------cccccccccccccccccccccc----cc-cccccccccccccccccCCCCCCCccCCCCcCHHH
Confidence 488888 7788888888888766653211 11 223334444445442223379999 9999999999
Q ss_pred HHHHHHhh
Q 009831 400 LFGHIALF 407 (524)
Q Consensus 400 L~~H~r~H 407 (524)
|..||+.+
T Consensus 66 l~~Hm~~~ 73 (100)
T PF12756_consen 66 LQEHMRSK 73 (100)
T ss_dssp HHHHHHHT
T ss_pred HHHHHcCc
Confidence 99999975
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.24 E-value=0.0039 Score=38.70 Aligned_cols=24 Identities=46% Similarity=0.786 Sum_probs=22.3
Q ss_pred eecCCCCCccCChHHHHHHHhhhC
Q 009831 271 HFCTICGKGFKRDANLRMHMRGHG 294 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~H~ 294 (524)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999875
No 39
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.19 E-value=0.0021 Score=53.94 Aligned_cols=71 Identities=23% Similarity=0.364 Sum_probs=20.1
Q ss_pred ecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhccccceee
Q 009831 272 FCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKR 351 (524)
Q Consensus 272 ~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~ 351 (524)
+|..|+..|.....|..||+..++-. .+ . . ..+.....+..+++.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~--------------------~~----~-~----------~~l~~~~~~~~~~~~ 45 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD--------------------IP----D-Q----------KYLVDPNRLLNYLRK 45 (100)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred Cccccccccccccccccccccccccc--------------------cc----c-c----------ccccccccccccccc
Confidence 59999999999999999997544320 00 0 0 011111112222221
Q ss_pred ecCCCccccCCCCCccccChhhhhhhhc
Q 009831 352 THCDKSYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 352 h~~~Kpy~C~~C~~K~F~~~s~L~~H~r 379 (524)
.....+.|..|+ +.|.....|..|++
T Consensus 46 -~~~~~~~C~~C~-~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 46 -KVKESFRCPYCN-KTFRSREALQEHMR 71 (100)
T ss_dssp ----SSEEBSSSS--EESSHHHHHHHHH
T ss_pred -ccCCCCCCCccC-CCCcCHHHHHHHHc
Confidence 122369999999 99999999999998
No 40
>PRK04860 hypothetical protein; Provisional
Probab=96.13 E-value=0.002 Score=59.97 Aligned_cols=37 Identities=27% Similarity=0.688 Sum_probs=31.1
Q ss_pred ccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChh
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKD 398 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks 398 (524)
+|.|. |+ + ....+++|.+ |+|+++|.|. |++.|....
T Consensus 119 ~Y~C~-C~-~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK-CQ-E---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC-CC-C---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 68998 98 6 6677899999 9999999999 999887654
No 41
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.10 E-value=0.01 Score=69.66 Aligned_cols=110 Identities=16% Similarity=0.216 Sum_probs=69.4
Q ss_pred cccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCcc
Q 009831 317 IKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTF 394 (524)
Q Consensus 317 ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F 394 (524)
.|.|+|+.|+ ..|+....|..|+|..|-+-.- .+| +.+.....+.+=.- -.+-++|.|. |..+|
T Consensus 463 ~kt~~cpkc~----------~~yk~a~~L~vhmRskhp~~~~--~~c--~~gq~~~~~arg~~~~~~~~p~~C~~C~~st 528 (1406)
T KOG1146|consen 463 FKTLKCPKCN----------WHYKLAQTLGVHMRSKHPESQS--AYC--KAGQNHPRLARGEVYRCPGKPYPCRACNYST 528 (1406)
T ss_pred cccccCCccc----------hhhhhHHHhhhcccccccccch--hHh--HhccccccccccccccCCCCcccceeeeeee
Confidence 3889999999 8999999999999885533111 444 23322222222112 3445667777 77777
Q ss_pred CChhHHHHHHHh--hc--------------------------------------CCCCCCCCCCCCCCCCCCCCcccccc
Q 009831 395 SRKDKLFGHIAL--FQ--------------------------------------GHTPAIPLDETIKGLAGPSDRREGNE 434 (524)
Q Consensus 395 ~~ks~L~~H~r~--Ht--------------------------------------g~kp~k~~~C~~C~~~f~~~~~l~~H 434 (524)
+.+.+|.+|+.. |- +-+++-.+.|.+|++--.-...|+.|
T Consensus 529 ttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrih 608 (1406)
T KOG1146|consen 529 TTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIH 608 (1406)
T ss_pred ecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccc
Confidence 777777777642 11 12344468899998887777788888
Q ss_pred ccccCC
Q 009831 435 ATSKIG 440 (524)
Q Consensus 435 ~~~~~g 440 (524)
|.....
T Consensus 609 mtss~~ 614 (1406)
T KOG1146|consen 609 MTASPS 614 (1406)
T ss_pred cccCCC
Confidence 865443
No 42
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.82 E-value=0.012 Score=69.02 Aligned_cols=29 Identities=31% Similarity=0.447 Sum_probs=25.3
Q ss_pred CcceecCCCCCccCChHHHHHHHhhhCCC
Q 009831 268 PHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (524)
Q Consensus 268 ~k~~~C~~CgK~F~~~~~L~~H~r~H~~e 296 (524)
.|.|+|+.|+..|+....|..|||.-+-+
T Consensus 463 ~kt~~cpkc~~~yk~a~~L~vhmRskhp~ 491 (1406)
T KOG1146|consen 463 FKTLKCPKCNWHYKLAQTLGVHMRSKHPE 491 (1406)
T ss_pred cccccCCccchhhhhHHHhhhcccccccc
Confidence 48899999999999999999999974433
No 43
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.79 E-value=0.0097 Score=43.98 Aligned_cols=38 Identities=18% Similarity=0.386 Sum_probs=19.0
Q ss_pred hhhhc--ccCCCceecc-CCCccCChhHHHHHHHhhcCCCC
Q 009831 375 KTHEK--HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTP 412 (524)
Q Consensus 375 ~~H~r--Htgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp 412 (524)
..+.+ +..+.|-.|+ |+..+.+..+|++|+.++++.+|
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 34444 3456677777 77777777777777777666544
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.79 E-value=0.0071 Score=37.46 Aligned_cols=23 Identities=30% Similarity=0.704 Sum_probs=16.7
Q ss_pred eecc-CCCccCChhHHHHHHHhhc
Q 009831 386 WLCS-CGTTFSRKDKLFGHIALFQ 408 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~Ht 408 (524)
|.|. |++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 4677 7777777777777777654
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.43 E-value=0.0098 Score=37.26 Aligned_cols=23 Identities=39% Similarity=0.990 Sum_probs=21.4
Q ss_pred eecCCCCCccCChHHHHHHHhhh
Q 009831 271 HFCTICGKGFKRDANLRMHMRGH 293 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~H 293 (524)
|.|.+|++.|.....|+.|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999865
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=95.03 E-value=0.012 Score=43.46 Aligned_cols=32 Identities=16% Similarity=0.316 Sum_probs=22.7
Q ss_pred cCCCccccCCCCCccccChhhhhhhhc-ccCCCc
Q 009831 353 HCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDK 385 (524)
Q Consensus 353 ~~~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekp 385 (524)
..+.|.+|++|+ ..+.+..+|++|+. +++.||
T Consensus 20 ~S~~PatCP~C~-a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICG-AVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT---EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcch-hhccchhhHHHHHHHHhcccC
Confidence 356899999999 99999999999998 777765
No 47
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.68 E-value=0.02 Score=60.06 Aligned_cols=152 Identities=18% Similarity=0.217 Sum_probs=93.7
Q ss_pred CCCCcccCCCCCCCChhhhhhhhhhccCC--cceecC--CCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCC
Q 009831 240 DEDDADDGEQLPPGSYEILQLEKEEILAP--HTHFCT--ICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPM 315 (524)
Q Consensus 240 ~~~~~~~~~~~~~~s~~~~~~~~~~~~~~--k~~~C~--~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~ 315 (524)
...+..|...+........+.....|..+ +++.|+ .|++.|.+...|..|...|.+.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~------------------- 349 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI------------------- 349 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCC-------------------
Confidence 45566666666555444444442245577 999999 7999999999999999999876
Q ss_pred ccccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCC--CCCccccChhhhhhhhc-ccCCCceec--c-
Q 009831 316 LIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSR--CNTKKFSVIADLKTHEK-HCGKDKWLC--S- 389 (524)
Q Consensus 316 ~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~--C~~K~F~~~s~L~~H~r-Htgekpy~C--~- 389 (524)
+++.|....+........... .......+......+.+.|.. |- +.+.....+..|.. |...+++.| .
T Consensus 350 --~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 423 (467)
T COG5048 350 --SPAKEKLLNSSSKFSPLLNNE---PPQSLQQYKDLKNDKKSETLSNSCI-RNFKRDSNLSLHIITHLSFRPYNCKNPP 423 (467)
T ss_pred --CccccccccCccccccccCCC---CccchhhccCccCCccccccccchh-hhhccccccccccccccccCCcCCCCCc
Confidence 555555444221111100000 000111122223345556644 66 77788888888877 777665444 4
Q ss_pred CCCccCChhHHHHHHHhhcCCCCCCCCCCC
Q 009831 390 CGTTFSRKDKLFGHIALFQGHTPAIPLDET 419 (524)
Q Consensus 390 Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~ 419 (524)
|.+.|.....|..|++.|.. +.++.|.
T Consensus 424 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~ 450 (467)
T COG5048 424 CSKSFNRHYNLIPHKKIHTN---HAPLLCS 450 (467)
T ss_pred chhhccCccccccccccccc---CCceeec
Confidence 88899988899988888776 3444444
No 48
>PRK04860 hypothetical protein; Provisional
Probab=94.61 E-value=0.025 Score=52.72 Aligned_cols=33 Identities=27% Similarity=0.511 Sum_probs=30.3
Q ss_pred cceecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCC
Q 009831 269 HTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAG 326 (524)
Q Consensus 269 k~~~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cg 326 (524)
.+|.|. |++ ....+++|.++|.++ ++|.|..|+
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 579998 998 678899999999998 999999999
No 49
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.05 E-value=0.017 Score=37.10 Aligned_cols=22 Identities=32% Similarity=0.842 Sum_probs=20.5
Q ss_pred eecCCCCCccCChHHHHHHHhh
Q 009831 271 HFCTICGKGFKRDANLRMHMRG 292 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~ 292 (524)
|.|..|++.|.+...|..|++.
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 7899999999999999999875
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=93.77 E-value=0.043 Score=34.05 Aligned_cols=23 Identities=26% Similarity=0.544 Sum_probs=18.8
Q ss_pred eecCCCCCccCChHHHHHHHhhhC
Q 009831 271 HFCTICGKGFKRDANLRMHMRGHG 294 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~H~ 294 (524)
|+|+.|+.... ...|..|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999888 899999999864
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=93.55 E-value=0.059 Score=33.43 Aligned_cols=22 Identities=27% Similarity=0.560 Sum_probs=13.9
Q ss_pred eecc-CCCccCChhHHHHHHHhhc
Q 009831 386 WLCS-CGTTFSRKDKLFGHIALFQ 408 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~Ht 408 (524)
|+|. |..... +..|.+|+++|+
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 5677 777776 677777777654
No 52
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.22 E-value=0.054 Score=33.80 Aligned_cols=21 Identities=29% Similarity=0.754 Sum_probs=14.1
Q ss_pred eecc-CCCccCChhHHHHHHHh
Q 009831 386 WLCS-CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~ 406 (524)
|.|. |++.|.....|..|++.
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 5666 77777777777777654
No 53
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.91 E-value=0.094 Score=58.68 Aligned_cols=44 Identities=23% Similarity=0.457 Sum_probs=23.2
Q ss_pred ccCCCCCccccChhhhhhhhc-ccCCCceecc-C------CCccCChhHHHHHHHhh
Q 009831 359 VCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-C------GTTFSRKDKLFGHIALF 407 (524)
Q Consensus 359 ~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-C------gk~F~~ks~L~~H~r~H 407 (524)
.|..|. ..|-....|.+|++ ++ |.|. | +.-|.....|..|.|.+
T Consensus 184 ~C~~C~-~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 184 LCKFCH-ERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKG 235 (669)
T ss_pred cchhhh-hhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhc
Confidence 455565 56666666666655 22 3333 3 33445555666666653
No 54
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.71 E-value=0.57 Score=48.03 Aligned_cols=124 Identities=18% Similarity=0.362 Sum_probs=61.9
Q ss_pred eecCC--CCCccCChHHHHHHHhhhCCC------------CC------ChhhhcCccccCCCCCCccc-cccCCCCCccc
Q 009831 271 HFCTI--CGKGFKRDANLRMHMRGHGDE------------YK------TPAALAKPHKESSSEPMLIK-RYSCPYAGCKR 329 (524)
Q Consensus 271 ~~C~~--CgK~F~~~~~L~~H~r~H~~e------------f~------~~~~L~~H~~~h~~~h~~ek-py~C~~Cgc~~ 329 (524)
|.|+. |..+......|+.|.+.-++. |. ++..|..|...-... .|-| --.|.+|.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e-~GFKGHP~C~FC~--- 227 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEE-EGFKGHPLCIFCK--- 227 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccc-cCcCCCchhhhcc---
Confidence 78875 766666677888888764433 21 223334443210000 0111 12577776
Q ss_pred CcCcCCccccchhhccccceeeecCCCccccCCCC---CccccChhhhhhhhcccCCCceecc---C--CC--ccCChhH
Q 009831 330 NKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCN---TKKFSVIADLKTHEKHCGKDKWLCS---C--GT--TFSRKDK 399 (524)
Q Consensus 330 ~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~---~K~F~~~s~L~~H~rHtgekpy~C~---C--gk--~F~~ks~ 399 (524)
+.|-.-..|.+|+|-.| ++-|.|+.-+ ..-|.....|-.|.+|. -|.|. | || .|.....
T Consensus 228 -------~~FYdDDEL~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~~~---hy~ct~qtc~~~k~~vf~~~~e 296 (493)
T COG5236 228 -------IYFYDDDELRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFRNA---HYCCTFQTCRVGKCYVFPYHTE 296 (493)
T ss_pred -------ceecChHHHHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhhcC---ceEEEEEEEecCcEEEeccHHH
Confidence 55555445555543322 1112222111 02366666677776511 26665 5 22 5677777
Q ss_pred HHHHHHhhcC
Q 009831 400 LFGHIALFQG 409 (524)
Q Consensus 400 L~~H~r~Htg 409 (524)
|..|+...+|
T Consensus 297 l~~h~~~~h~ 306 (493)
T COG5236 297 LLEHLTRFHK 306 (493)
T ss_pred HHHHHHHHhh
Confidence 8888766544
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=90.49 E-value=0.15 Score=32.62 Aligned_cols=21 Identities=43% Similarity=0.805 Sum_probs=14.4
Q ss_pred cccCCCCCccccChhhhhhhhc
Q 009831 358 YVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 358 y~C~~C~~K~F~~~s~L~~H~r 379 (524)
|.|..|+ +.|.....|..|++
T Consensus 2 ~~C~~C~-k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACD-KYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTT-BBBSSHHHHHCCTT
T ss_pred CCcccCC-CCcCCHHHHHHHHc
Confidence 5677777 77777777777665
No 56
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=89.06 E-value=0.32 Score=32.73 Aligned_cols=23 Identities=22% Similarity=0.820 Sum_probs=20.8
Q ss_pred ceecCCCCCccCChHHHHHHHhh
Q 009831 270 THFCTICGKGFKRDANLRMHMRG 292 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~~L~~H~r~ 292 (524)
+|.|++|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 48999999999999999999864
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=88.77 E-value=0.35 Score=30.56 Aligned_cols=21 Identities=33% Similarity=0.656 Sum_probs=18.0
Q ss_pred eecCCCCCccCChHHHHHHHhh
Q 009831 271 HFCTICGKGFKRDANLRMHMRG 292 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~ 292 (524)
..|+.||+.| ....|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 67889999864
No 58
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.60 E-value=0.77 Score=40.05 Aligned_cols=48 Identities=21% Similarity=0.419 Sum_probs=27.9
Q ss_pred ccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCChhHHHHHHHhhc
Q 009831 359 VCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKDKLFGHIALFQ 408 (524)
Q Consensus 359 ~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~ks~L~~H~r~Ht 408 (524)
.|--|. +.|........-. -.....|.|. |...|-..-++..|..+|.
T Consensus 57 ~C~~C~-~~f~~~~~~~~~~-~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQ-GPFPKPPVSPFDE-LKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcC-CCCCCcccccccc-cccccceeCCCCCCccccccchhhhhhccC
Confidence 377777 7776543111000 1223467777 7777777777777777663
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=87.10 E-value=0.49 Score=29.91 Aligned_cols=20 Identities=35% Similarity=0.730 Sum_probs=14.2
Q ss_pred eecc-CCCccCChhHHHHHHHh
Q 009831 386 WLCS-CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~ 406 (524)
..|. ||+.| ..+.|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3577 88888 57777777764
No 60
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.47 E-value=0.19 Score=48.00 Aligned_cols=77 Identities=27% Similarity=0.531 Sum_probs=62.7
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhc--c---------cCCCce
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--H---------CGKDKW 386 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r--H---------tgekpy 386 (524)
+.|.|++-||- +.|..+.....||..-|+ -.|..|. +.|.+..-|..|+- | .|..-|
T Consensus 78 ~~~~cqvagc~--------~~~d~lD~~E~hY~~~h~---~sCs~C~-r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy 145 (253)
T KOG4173|consen 78 PAFACQVAGCC--------QVFDALDDYEHHYHTLHG---NSCSFCK-RAFPTGHLLDAHILEWHDSLFQALVERGQDMY 145 (253)
T ss_pred ccccccccchH--------HHHhhhhhHHHhhhhccc---chhHHHH-HhCCchhhhhHHHHHHHHHHHHHHHHcCccHH
Confidence 66999998876 667777767777755554 3799999 99999999999986 6 255679
Q ss_pred ecc---CCCccCChhHHHHHHHh
Q 009831 387 LCS---CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 387 ~C~---Cgk~F~~ks~L~~H~r~ 406 (524)
.|- |+-.|.+...-+.|+-.
T Consensus 146 ~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 146 QCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHHHhhhhhhhhhhhhhhHHHH
Confidence 996 99999999999999765
No 61
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=84.29 E-value=0.73 Score=47.28 Aligned_cols=23 Identities=35% Similarity=0.613 Sum_probs=21.4
Q ss_pred ceecCCCCCccCChHHHHHHHhh
Q 009831 270 THFCTICGKGFKRDANLRMHMRG 292 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~~L~~H~r~ 292 (524)
.+.|-.|.|.|+.+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 48999999999999999999985
No 62
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=83.73 E-value=0.62 Score=45.46 Aligned_cols=48 Identities=25% Similarity=0.500 Sum_probs=36.6
Q ss_pred CccccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCChhHHHHH-HHhhc
Q 009831 356 KSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKDKLFGH-IALFQ 408 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~ks~L~~H-~r~Ht 408 (524)
|+| |-+|+ +.|.....|.+|++ -|-|+|. |.|...+--.|..| |.+|.
T Consensus 10 kpw-cwycn-refddekiliqhqk---akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 10 KPW-CWYCN-REFDDEKILIQHQK---AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred Cce-eeecc-cccchhhhhhhhhh---hccceeeeehhhhccCCCceeehhhhhh
Confidence 443 88899 99999999998887 1238999 98888777778777 55553
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=83.72 E-value=0.52 Score=48.32 Aligned_cols=20 Identities=40% Similarity=0.682 Sum_probs=14.6
Q ss_pred ecc-CCCccCChhHHHHHHHh
Q 009831 387 LCS-CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 387 ~C~-Cgk~F~~ks~L~~H~r~ 406 (524)
.|. |.+.|..-+.|.+|+|.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~ 242 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRL 242 (493)
T ss_pred hhhhccceecChHHHHHHHHh
Confidence 477 77777777777777774
No 64
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=81.99 E-value=0.43 Score=46.55 Aligned_cols=43 Identities=26% Similarity=0.403 Sum_probs=30.5
Q ss_pred cCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhh
Q 009831 321 SCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHE 378 (524)
Q Consensus 321 ~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~ 378 (524)
.|=+|. +.|-....|..|.+. |-|+|.+|. |..-+--.|..|-
T Consensus 12 wcwycn----------refddekiliqhqka----khfkchich-kkl~sgpglsihc 54 (341)
T KOG2893|consen 12 WCWYCN----------REFDDEKILIQHQKA----KHFKCHICH-KKLFSGPGLSIHC 54 (341)
T ss_pred eeeecc----------cccchhhhhhhhhhh----ccceeeeeh-hhhccCCCceeeh
Confidence 477888 777777777777654 458899998 6665666677774
No 65
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=80.34 E-value=0.95 Score=30.40 Aligned_cols=22 Identities=27% Similarity=0.608 Sum_probs=13.9
Q ss_pred ccccCCCCCccccChhhhhhhhc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r 379 (524)
+|.|++|+ +.|.....+..|++
T Consensus 3 ~~~C~~C~-~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCN-VTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccC-CccCCHHHHHHHHC
Confidence 35566666 66666666666654
No 66
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.10 E-value=2.8 Score=36.56 Aligned_cols=79 Identities=11% Similarity=0.079 Sum_probs=51.8
Q ss_pred CCCccccCCCCCccccChhhhhhhhccc------CCCc-------eecc-CCCccCChhHHHHHHHhhcC-CCCCCCCCC
Q 009831 354 CDKSYVCSRCNTKKFSVIADLKTHEKHC------GKDK-------WLCS-CGTTFSRKDKLFGHIALFQG-HTPAIPLDE 418 (524)
Q Consensus 354 ~~Kpy~C~~C~~K~F~~~s~L~~H~rHt------gekp-------y~C~-Cgk~F~~ks~L~~H~r~Htg-~kp~k~~~C 418 (524)
++-|-.|+.|+ -......+|.+-..|. .|-+ ..|- |.+.|....... .| ......|+|
T Consensus 12 C~LP~~CpiCg-LtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~------~~~~~~~~~y~C 84 (112)
T TIGR00622 12 CELPVECPICG-LTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP------FDELKDSHRYVC 84 (112)
T ss_pred cCCCCcCCcCC-CEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccc------ccccccccceeC
Confidence 66788999999 8888888887643331 1222 2399 999998654221 11 122457899
Q ss_pred CCCCCCCCCCccccccccccC
Q 009831 419 TIKGLAGPSDRREGNEATSKI 439 (524)
Q Consensus 419 ~~C~~~f~~~~~l~~H~~~~~ 439 (524)
+.|...|--.=..-.|..-|.
T Consensus 85 ~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 85 AVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred CCCCCccccccchhhhhhccC
Confidence 999999977766666655543
No 67
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=79.95 E-value=0.76 Score=42.55 Aligned_cols=14 Identities=29% Similarity=0.771 Sum_probs=7.9
Q ss_pred cccCCCCCccccChh
Q 009831 358 YVCSRCNTKKFSVIA 372 (524)
Q Consensus 358 y~C~~C~~K~F~~~s 372 (524)
|.|+.|| ++|....
T Consensus 29 ~~c~~c~-~~f~~~e 42 (154)
T PRK00464 29 RECLACG-KRFTTFE 42 (154)
T ss_pred eeccccC-CcceEeE
Confidence 5566666 6665443
No 68
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=79.79 E-value=1.4 Score=48.53 Aligned_cols=31 Identities=26% Similarity=0.421 Sum_probs=26.9
Q ss_pred cCCcceecCCCCCccCChHHHHHHHhhhCCC
Q 009831 266 LAPHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (524)
Q Consensus 266 ~~~k~~~C~~CgK~F~~~~~L~~H~r~H~~e 296 (524)
...++.+|..||.+|........||-.|...
T Consensus 414 y~~~pnqC~~CG~R~~~~ee~sk~md~H~dw 444 (579)
T KOG2071|consen 414 YKDSPNQCKSCGLRFDDSEERSKHMDIHDDW 444 (579)
T ss_pred ccCCcchhcccccccccchhhhhHhhhhhhh
Confidence 3456799999999999999999999998664
No 69
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=76.62 E-value=1.5 Score=36.28 Aligned_cols=10 Identities=50% Similarity=1.673 Sum_probs=6.6
Q ss_pred eecc-CCCccC
Q 009831 386 WLCS-CGTTFS 395 (524)
Q Consensus 386 y~C~-Cgk~F~ 395 (524)
|.|. ||..|.
T Consensus 54 W~C~kCg~~fA 64 (89)
T COG1997 54 WKCRKCGAKFA 64 (89)
T ss_pred EEcCCCCCeec
Confidence 6666 666664
No 70
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=76.49 E-value=3.5 Score=43.13 Aligned_cols=49 Identities=22% Similarity=0.411 Sum_probs=38.6
Q ss_pred ccccCCCCCccccChhhhhhhhc-ccCC----C-------------------ceecc-CC---CccCChhHHHHHHHh
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK-HCGK----D-------------------KWLCS-CG---TTFSRKDKLFGHIAL 406 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r-Htge----k-------------------py~C~-Cg---k~F~~ks~L~~H~r~ 406 (524)
|-.|-.|+ +.|.....-..||. |+|- + -|.|- |. +.|......+.||..
T Consensus 166 Pt~CLfC~-~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCD-KKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecC-CCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 57899999 99999999999998 5541 1 35677 77 888888888888874
No 71
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=74.58 E-value=1.5 Score=42.82 Aligned_cols=12 Identities=33% Similarity=1.143 Sum_probs=9.0
Q ss_pred eecc-CCCccCCh
Q 009831 386 WLCS-CGTTFSRK 397 (524)
Q Consensus 386 y~C~-Cgk~F~~k 397 (524)
+.|+ ||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5688 98888754
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=72.71 E-value=1.3 Score=33.54 Aligned_cols=30 Identities=27% Similarity=0.451 Sum_probs=25.0
Q ss_pred ccCCcceecCCCCCccCChHHHHHHHhh-hC
Q 009831 265 ILAPHTHFCTICGKGFKRDANLRMHMRG-HG 294 (524)
Q Consensus 265 ~~~~k~~~C~~CgK~F~~~~~L~~H~r~-H~ 294 (524)
..++--++|+.||+.|.....+.+|... |.
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3466779999999999999999999754 53
No 73
>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=71.27 E-value=3.4 Score=45.67 Aligned_cols=28 Identities=18% Similarity=0.229 Sum_probs=19.9
Q ss_pred CCCCCCCCCCcccccCCCCCCCCCCCCc
Q 009831 490 RPPFDDSENAFSFLIPGSCNYIQKTGGE 517 (524)
Q Consensus 490 ~p~~~~s~~s~~~~~~~~~~~~~~~~~~ 517 (524)
.|.|...+-.|+.+..-++..|....+|
T Consensus 345 ~pd~ra~E~~~~ll~q~~GRagR~~~~g 372 (505)
T TIGR00595 345 SPDFRAAERGFQLLTQVAGRAGRAEDPG 372 (505)
T ss_pred CcccchHHHHHHHHHHHHhccCCCCCCC
Confidence 4677777788888888777776644444
No 74
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=70.52 E-value=3.3 Score=43.36 Aligned_cols=53 Identities=15% Similarity=-0.001 Sum_probs=39.4
Q ss_pred ceecc-CCCccCChhHHHHHHHhhcCCC-----------------------CCCCCCCCCCCCCCCCCccccccccc
Q 009831 385 KWLCS-CGTTFSRKDKLFGHIALFQGHT-----------------------PAIPLDETIKGLAGPSDRREGNEATS 437 (524)
Q Consensus 385 py~C~-Cgk~F~~ks~L~~H~r~Htg~k-----------------------p~k~~~C~~C~~~f~~~~~l~~H~~~ 437 (524)
|-.|- |++.|..-..-.+||..|+|=- -+.|..|..-++.|.+-..-..||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 56688 9999999999999999887621 11234444444889888888889875
No 75
>PHA00626 hypothetical protein
Probab=70.27 E-value=3.3 Score=31.44 Aligned_cols=6 Identities=67% Similarity=1.459 Sum_probs=4.0
Q ss_pred cCCCCC
Q 009831 321 SCPYAG 326 (524)
Q Consensus 321 ~C~~Cg 326 (524)
.||.||
T Consensus 2 ~CP~CG 7 (59)
T PHA00626 2 SCPKCG 7 (59)
T ss_pred CCCCCC
Confidence 467777
No 76
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=69.69 E-value=2.1 Score=39.63 Aligned_cols=18 Identities=22% Similarity=0.624 Sum_probs=13.8
Q ss_pred Cceecc-CCCccCChhHHH
Q 009831 384 DKWLCS-CGTTFSRKDKLF 401 (524)
Q Consensus 384 kpy~C~-Cgk~F~~ks~L~ 401 (524)
+.|+|. ||++|.....+.
T Consensus 27 ~~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 27 RRRECLACGKRFTTFERVE 45 (154)
T ss_pred eeeeccccCCcceEeEecc
Confidence 349999 999998766544
No 77
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=68.11 E-value=4.5 Score=27.25 Aligned_cols=7 Identities=57% Similarity=1.568 Sum_probs=3.2
Q ss_pred cccCCCC
Q 009831 358 YVCSRCN 364 (524)
Q Consensus 358 y~C~~C~ 364 (524)
|+|..||
T Consensus 2 ~~C~~CG 8 (33)
T cd00350 2 YVCPVCG 8 (33)
T ss_pred EECCCCC
Confidence 3444444
No 78
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=67.92 E-value=2.9 Score=41.37 Aligned_cols=44 Identities=23% Similarity=0.539 Sum_probs=20.5
Q ss_pred cccCCCCCccccChhhhhhhhc-ccCCCceecc-CCCccCChhHHHHHHH
Q 009831 358 YVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIA 405 (524)
Q Consensus 358 y~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~-Cgk~F~~ks~L~~H~r 405 (524)
|.|..|| ... -+..|-+|+- -++ .-|.|- |++.|.+ .....|..
T Consensus 4 FtCnvCg-Esv-KKp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCG-ESV-KKPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhh-hhc-cccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 4555555 332 2334444553 222 345555 6666555 44445544
No 79
>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=66.93 E-value=3.8 Score=35.63 Aligned_cols=10 Identities=20% Similarity=-0.097 Sum_probs=4.6
Q ss_pred CCCCCCCCCC
Q 009831 417 DETIKGLAGP 426 (524)
Q Consensus 417 ~C~~C~~~f~ 426 (524)
.|+.||..|.
T Consensus 28 vCP~CG~~~~ 37 (108)
T PF09538_consen 28 VCPKCGTEFP 37 (108)
T ss_pred cCCCCCCccC
Confidence 3444444443
No 80
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=66.65 E-value=4.4 Score=46.59 Aligned_cols=30 Identities=20% Similarity=0.242 Sum_probs=22.7
Q ss_pred CCCCCCCCCCCCcccccCCCCCCCCCCCCc
Q 009831 488 FPRPPFDDSENAFSFLIPGSCNYIQKTGGE 517 (524)
Q Consensus 488 ~~~p~~~~s~~s~~~~~~~~~~~~~~~~~~ 517 (524)
...|.|-.++-.|+.+..-++.-|...+.|
T Consensus 565 L~~~DfRA~Er~fqll~QvaGRAgR~~~~G 594 (730)
T COG1198 565 LGSPDFRASERTFQLLMQVAGRAGRAGKPG 594 (730)
T ss_pred hcCCCcchHHHHHHHHHHHHhhhccCCCCC
Confidence 446788888889999988888877754443
No 81
>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=65.51 E-value=4.9 Score=28.64 Aligned_cols=25 Identities=32% Similarity=0.652 Sum_probs=16.9
Q ss_pred CCcceecCCCCCccCCh----HHHHHHHh
Q 009831 267 APHTHFCTICGKGFKRD----ANLRMHMR 291 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~----~~L~~H~r 291 (524)
.....+|..|++.+... .+|.+|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 45668999999998764 78999984
No 82
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=64.81 E-value=4.7 Score=41.60 Aligned_cols=154 Identities=15% Similarity=0.198 Sum_probs=87.6
Q ss_pred cceecCCCCCcc-CChHHHHHHH-hhhCCC------CCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccc
Q 009831 269 HTHFCTICGKGF-KRDANLRMHM-RGHGDE------YKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLK 340 (524)
Q Consensus 269 k~~~C~~CgK~F-~~~~~L~~H~-r~H~~e------f~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~ 340 (524)
...+|-.|...+ ..++....|+ ++|+-. ......|..|.+... ..+.|-+|. +.|+
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL------~r~~CLyCe----------kifr 206 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKL------ERLRCLYCE----------KIFR 206 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHH------hhheeeeec----------cccC
Confidence 446799998766 4456666675 456422 223334444444211 468999999 8999
Q ss_pred hhhccccceeeec--C--C------CccccCC--CCCcccc-Chhhhhh-----hhcc---------cCCCc--eecc-C
Q 009831 341 TILCVKNHYKRTH--C--D------KSYVCSR--CNTKKFS-VIADLKT-----HEKH---------CGKDK--WLCS-C 390 (524)
Q Consensus 341 ~~~~L~~H~~~h~--~--~------Kpy~C~~--C~~K~F~-~~s~L~~-----H~rH---------tgekp--y~C~-C 390 (524)
.+..|+.||+... . . |-|.=.+ =| |+.. +.+.+.+ |..| .+..+ .+|- |
T Consensus 207 dkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~-ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC 285 (423)
T KOG2482|consen 207 DKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVG-KSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFC 285 (423)
T ss_pred CcHHHHHHHHhccCcccCCCccccceEEEEeHhhcC-CccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEee
Confidence 9999998876432 1 1 1122111 22 2221 1111110 0000 01112 4788 9
Q ss_pred CCccCChhHHHHHHHhhcCC------------------------CCCCCCCCCCCCCCCCCCccccccccccC
Q 009831 391 GTTFSRKDKLFGHIALFQGH------------------------TPAIPLDETIKGLAGPSDRREGNEATSKI 439 (524)
Q Consensus 391 gk~F~~ks~L~~H~r~Htg~------------------------kp~k~~~C~~C~~~f~~~~~l~~H~~~~~ 439 (524)
....-+...|..||++-+.= +..+...|-.|...|-....|..||.-+.
T Consensus 286 ~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k 358 (423)
T KOG2482|consen 286 TNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDK 358 (423)
T ss_pred ccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccccc
Confidence 88888888899998763310 11123467778889999999999986543
No 83
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.26 E-value=9.1 Score=39.34 Aligned_cols=26 Identities=15% Similarity=0.330 Sum_probs=19.1
Q ss_pred cCCCccccCCCCCccccChhhhhhhhc
Q 009831 353 HCDKSYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 353 ~~~Kpy~C~~C~~K~F~~~s~L~~H~r 379 (524)
.|.-|-.|+.|+ -......+|.+-.+
T Consensus 286 vCsLP~eCpiC~-ltLVss~hLARSyh 311 (378)
T KOG2807|consen 286 VCSLPIECPICS-LTLVSSPHLARSYH 311 (378)
T ss_pred eecCCccCCccc-eeEecchHHHHHHH
Confidence 466788999998 77777777766443
No 84
>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=63.15 E-value=5.8 Score=26.97 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=6.6
Q ss_pred CccccCCCC
Q 009831 356 KSYVCSRCN 364 (524)
Q Consensus 356 Kpy~C~~C~ 364 (524)
.|..|++|+
T Consensus 17 ~p~~CP~Cg 25 (34)
T cd00729 17 APEKCPICG 25 (34)
T ss_pred CCCcCcCCC
Confidence 467788887
No 85
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=62.28 E-value=3.8 Score=31.06 Aligned_cols=24 Identities=29% Similarity=0.801 Sum_probs=11.8
Q ss_pred CCCceecc-CCCccCChhHHHHHHH
Q 009831 382 GKDKWLCS-CGTTFSRKDKLFGHIA 405 (524)
Q Consensus 382 gekpy~C~-Cgk~F~~ks~L~~H~r 405 (524)
||--+.|+ ||+.|.+.....+|+.
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhh
Confidence 44444555 5555555555555543
No 86
>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=62.19 E-value=4.9 Score=36.23 Aligned_cols=27 Identities=41% Similarity=0.772 Sum_probs=17.5
Q ss_pred CCcceecCCCCCccCChHHHHHHHhhhCCC
Q 009831 267 APHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~~~L~~H~r~H~~e 296 (524)
.+.-..|-+|||.|+. |++|++.|+|-
T Consensus 69 ~~d~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 69 TPDYIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp -SS-EE-TBT--EESB---HHHHHHHTT-S
T ss_pred ccCeeEEccCCcccch---HHHHHHHccCC
Confidence 3445789999999975 69999999765
No 87
>PRK14873 primosome assembly protein PriA; Provisional
Probab=62.12 E-value=5.8 Score=45.34 Aligned_cols=31 Identities=10% Similarity=0.170 Sum_probs=22.9
Q ss_pred CCCCCCCCCCCCCcccccCCCCCCCCCCCCc
Q 009831 487 EFPRPPFDDSENAFSFLIPGSCNYIQKTGGE 517 (524)
Q Consensus 487 ~~~~p~~~~s~~s~~~~~~~~~~~~~~~~~~ 517 (524)
.+..|.|...+-.|+.+...++..++...+|
T Consensus 500 ~L~~pDfRA~Er~~qll~qvagragr~~~~G 530 (665)
T PRK14873 500 LLGRQDLRAAEDTLRRWMAAAALVRPRADGG 530 (665)
T ss_pred hhcCCCcChHHHHHHHHHHHHHhhcCCCCCC
Confidence 3456889999999998888877776544444
No 88
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=61.63 E-value=6.6 Score=28.92 Aligned_cols=25 Identities=44% Similarity=0.837 Sum_probs=20.1
Q ss_pred ceecCCCCCccCCh-----HHHHHHHh-hhC
Q 009831 270 THFCTICGKGFKRD-----ANLRMHMR-GHG 294 (524)
Q Consensus 270 ~~~C~~CgK~F~~~-----~~L~~H~r-~H~ 294 (524)
.-.|..|++.+... ++|.+|++ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 36799999999766 68999988 554
No 89
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=59.95 E-value=3.9 Score=42.25 Aligned_cols=29 Identities=10% Similarity=-0.112 Sum_probs=22.3
Q ss_pred cCCcceecCCCCCccCChHHHHHH-HhhhCC
Q 009831 266 LAPHTHFCTICGKGFKRDANLRMH-MRGHGD 295 (524)
Q Consensus 266 ~~~k~~~C~~CgK~F~~~~~L~~H-~r~H~~ 295 (524)
+..++|+| .|++++.++..|+.| +.+|-+
T Consensus 209 t~~~p~k~-~~~~~~~T~~~l~~HS~N~~~~ 238 (442)
T KOG4124|consen 209 TTGTPKKM-PESLVMDTSSPLSDHSMNIDVG 238 (442)
T ss_pred cccCCccC-cccccccccchhhhccccCCCC
Confidence 34578999 589999999999888 455633
No 90
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=59.83 E-value=7 Score=35.78 Aligned_cols=20 Identities=10% Similarity=0.062 Sum_probs=14.9
Q ss_pred CCcceecCCCCCccCChHHH
Q 009831 267 APHTHFCTICGKGFKRDANL 286 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~~~L 286 (524)
...-|.|+.|++.|.....+
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~ 115 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEAN 115 (147)
T ss_pred CCcEEECcCCCCEeeHHHHH
Confidence 34569999999999864433
No 91
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=59.67 E-value=4.7 Score=34.35 Aligned_cols=15 Identities=40% Similarity=0.877 Sum_probs=12.8
Q ss_pred ceecCCCCCccCChH
Q 009831 270 THFCTICGKGFKRDA 284 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~ 284 (524)
+|+|..||+.|..-+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 689999999998743
No 92
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=59.24 E-value=13 Score=28.62 Aligned_cols=10 Identities=30% Similarity=0.893 Sum_probs=8.8
Q ss_pred ceecCCCCCc
Q 009831 270 THFCTICGKG 279 (524)
Q Consensus 270 ~~~C~~CgK~ 279 (524)
.|.|+.||+.
T Consensus 25 ~F~CPnCG~~ 34 (59)
T PRK14890 25 KFLCPNCGEV 34 (59)
T ss_pred EeeCCCCCCe
Confidence 4999999987
No 93
>PRK04023 DNA polymerase II large subunit; Validated
Probab=58.93 E-value=8.8 Score=45.12 Aligned_cols=11 Identities=36% Similarity=0.788 Sum_probs=8.4
Q ss_pred cceecCCCCCc
Q 009831 269 HTHFCTICGKG 279 (524)
Q Consensus 269 k~~~C~~CgK~ 279 (524)
...+|+.||+.
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34679999887
No 94
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=58.85 E-value=5.7 Score=37.21 Aligned_cols=13 Identities=23% Similarity=0.588 Sum_probs=9.5
Q ss_pred ecCCCccccCCCC
Q 009831 352 THCDKSYVCSRCN 364 (524)
Q Consensus 352 h~~~Kpy~C~~C~ 364 (524)
+.++-|-+|++||
T Consensus 144 ~~ge~P~~CPiCg 156 (166)
T COG1592 144 HEGEAPEVCPICG 156 (166)
T ss_pred ccCCCCCcCCCCC
Confidence 4456788888887
No 95
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=58.23 E-value=6.1 Score=38.60 Aligned_cols=9 Identities=44% Similarity=1.176 Sum_probs=8.3
Q ss_pred ccccCCCCC
Q 009831 318 KRYSCPYAG 326 (524)
Q Consensus 318 kpy~C~~Cg 326 (524)
|.+.||+|+
T Consensus 4 k~~~CPvC~ 12 (214)
T PF09986_consen 4 KKITCPVCG 12 (214)
T ss_pred CceECCCCC
Confidence 778999999
No 96
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=57.67 E-value=6 Score=35.46 Aligned_cols=15 Identities=40% Similarity=0.933 Sum_probs=12.7
Q ss_pred ceecCCCCCccCChH
Q 009831 270 THFCTICGKGFKRDA 284 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~ 284 (524)
||+|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 689999999998654
No 97
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=57.51 E-value=9.6 Score=43.90 Aligned_cols=34 Identities=21% Similarity=0.547 Sum_probs=22.0
Q ss_pred eeeecCCCccccCCCCCccccChhhhhhhhcccCCCceecc-CCC
Q 009831 349 YKRTHCDKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGT 392 (524)
Q Consensus 349 ~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk 392 (524)
+.|+.|+..++|+.|+ -.+ .- |...+...|. ||+
T Consensus 436 l~C~~Cg~v~~Cp~Cd-~~l------t~---H~~~~~L~CH~Cg~ 470 (730)
T COG1198 436 LLCRDCGYIAECPNCD-SPL------TL---HKATGQLRCHYCGY 470 (730)
T ss_pred eecccCCCcccCCCCC-cce------EE---ecCCCeeEeCCCCC
Confidence 5677777888888888 432 22 4444556777 774
No 98
>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=56.80 E-value=8.4 Score=27.42 Aligned_cols=14 Identities=29% Similarity=0.539 Sum_probs=5.0
Q ss_pred CccccCCCCCccccC
Q 009831 356 KSYVCSRCNTKKFSV 370 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~ 370 (524)
...+|.+|+ +.+..
T Consensus 15 ~~a~C~~C~-~~~~~ 28 (45)
T PF02892_consen 15 KKAKCKYCG-KVIKY 28 (45)
T ss_dssp S-EEETTTT-EE---
T ss_pred CeEEeCCCC-eEEee
Confidence 334555555 44443
No 99
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=56.66 E-value=3.8 Score=40.61 Aligned_cols=51 Identities=25% Similarity=0.517 Sum_probs=37.6
Q ss_pred ceecCCCCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhccccce
Q 009831 270 THFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHY 349 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~ 349 (524)
.|.|.+||...+. ..|.+||-..++ .-|.|-.|+ +.|-. ...++|.
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn----------------------~~fSCIDC~----------k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN----------------------AYFSCIDCG----------KTFER-VSYKNHT 48 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC----------------------CeeEEeecc----------ccccc-chhhhhh
Confidence 3889999998765 567778876655 458999999 66666 5567787
Q ss_pred eeecC
Q 009831 350 KRTHC 354 (524)
Q Consensus 350 ~~h~~ 354 (524)
.|-+.
T Consensus 49 kCITE 53 (276)
T KOG2186|consen 49 KCITE 53 (276)
T ss_pred hhcch
Confidence 77664
No 100
>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=56.48 E-value=8.3 Score=26.50 Aligned_cols=9 Identities=33% Similarity=1.054 Sum_probs=4.6
Q ss_pred eecc-CCCcc
Q 009831 386 WLCS-CGTTF 394 (524)
Q Consensus 386 y~C~-Cgk~F 394 (524)
..|. |+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4455 55544
No 101
>PRK05580 primosome assembly protein PriA; Validated
Probab=54.61 E-value=11 Score=43.40 Aligned_cols=29 Identities=21% Similarity=0.178 Sum_probs=20.8
Q ss_pred CCCCCCCCCCCcccccCCCCCCCCCCCCc
Q 009831 489 PRPPFDDSENAFSFLIPGSCNYIQKTGGE 517 (524)
Q Consensus 489 ~~p~~~~s~~s~~~~~~~~~~~~~~~~~~ 517 (524)
..|.|...+-.|+.+..-++..|....+|
T Consensus 512 ~~pdfra~Er~~~~l~q~~GRagR~~~~g 540 (679)
T PRK05580 512 FSPDFRASERTFQLLTQVAGRAGRAEKPG 540 (679)
T ss_pred cCCccchHHHHHHHHHHHHhhccCCCCCC
Confidence 35778888888888888877766644444
No 102
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=54.42 E-value=7.1 Score=36.60 Aligned_cols=22 Identities=36% Similarity=0.965 Sum_probs=16.3
Q ss_pred ccccCCCCCccccChhhhhhhhcccCCCceecc-CC
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CG 391 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cg 391 (524)
-|.|.+|| .. |-|+-|.+|+ ||
T Consensus 134 ~~vC~vCG-y~------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCG-YT------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCC-Cc------------ccCCCCCcCCCCC
Confidence 58888888 33 4567788888 87
No 103
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=54.20 E-value=5.6 Score=30.59 Aligned_cols=9 Identities=33% Similarity=1.158 Sum_probs=6.2
Q ss_pred ccccCCCCC
Q 009831 318 KRYSCPYAG 326 (524)
Q Consensus 318 kpy~C~~Cg 326 (524)
-.|.|+.||
T Consensus 26 v~F~CPnCG 34 (61)
T COG2888 26 VKFPCPNCG 34 (61)
T ss_pred eEeeCCCCC
Confidence 347777777
No 104
>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=53.70 E-value=11 Score=32.12 Aligned_cols=36 Identities=19% Similarity=0.513 Sum_probs=18.8
Q ss_pred ccccCCCCCccccChhhhhhhhcccC---CCceecc-CCCccC
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEKHCG---KDKWLCS-CGTTFS 395 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~rHtg---ekpy~C~-Cgk~F~ 395 (524)
...|+.|| ..-.....++ +|-.. ..-|.|. |+..++
T Consensus 62 ~~~Cp~Cg-~~~a~f~~~Q--~RsadE~~T~fy~C~~C~~~w~ 101 (104)
T TIGR01384 62 RVECPKCG-HKEAYYWLLQ--TRRADEPETRFYKCTKCGYVWR 101 (104)
T ss_pred cCCCCCCC-CCeeEEEEec--cCCCCCCcEEEEEeCCCCCeeE
Confidence 46888888 4432222221 12111 2348888 887765
No 105
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=52.69 E-value=6.7 Score=32.92 Aligned_cols=12 Identities=33% Similarity=0.994 Sum_probs=7.9
Q ss_pred Cceecc-CCCccC
Q 009831 384 DKWLCS-CGTTFS 395 (524)
Q Consensus 384 kpy~C~-Cgk~F~ 395 (524)
..|.|. |++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PTZ00255 53 GIWRCKGCKKTVA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 347777 777765
No 106
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=52.28 E-value=15 Score=36.63 Aligned_cols=87 Identities=16% Similarity=0.227 Sum_probs=54.2
Q ss_pred eecCCCccccCCCCCccccChhhhhhhhc---ccCCCceecc-CCCccCChhHH-------HHHHHhhc-CCCCCCCCCC
Q 009831 351 RTHCDKSYVCSRCNTKKFSVIADLKTHEK---HCGKDKWLCS-CGTTFSRKDKL-------FGHIALFQ-GHTPAIPLDE 418 (524)
Q Consensus 351 ~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r---Htgekpy~C~-Cgk~F~~ks~L-------~~H~r~Ht-g~kp~k~~~C 418 (524)
..|+++.|+|..|. .|.-..+--.|+. -..-..|+|. |.+. .+-+-| ..|+|.-- .-..-+++.|
T Consensus 136 w~hGGrif~CsfC~--~flCEDDQFEHQAsCQvLe~E~~KC~SCNrl-Gq~sCLRCK~cfCddHvrrKg~ky~k~k~~PC 212 (314)
T PF06524_consen 136 WDHGGRIFKCSFCD--NFLCEDDQFEHQASCQVLESETFKCQSCNRL-GQYSCLRCKICFCDDHVRRKGFKYEKGKPIPC 212 (314)
T ss_pred ccCCCeEEEeecCC--Ceeeccchhhhhhhhhhhhcccccccccccc-cchhhhheeeeehhhhhhhcccccccCCCCCC
Confidence 45678899999997 4554444455654 2223457777 7652 233333 25655421 1112378899
Q ss_pred CCCCCCCCCCccccccccccCC
Q 009831 419 TIKGLAGPSDRREGNEATSKIG 440 (524)
Q Consensus 419 ~~C~~~f~~~~~l~~H~~~~~g 440 (524)
+.||........|....++|.-
T Consensus 213 PKCg~et~eTkdLSmStR~hky 234 (314)
T PF06524_consen 213 PKCGYETQETKDLSMSTRSHKY 234 (314)
T ss_pred CCCCCcccccccceeeeecchh
Confidence 9999988888888887777763
No 107
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=52.23 E-value=5.4 Score=40.76 Aligned_cols=7 Identities=43% Similarity=0.913 Sum_probs=4.3
Q ss_pred ccCCCCC
Q 009831 320 YSCPYAG 326 (524)
Q Consensus 320 y~C~~Cg 326 (524)
-.||+||
T Consensus 173 g~CPvCG 179 (290)
T PF04216_consen 173 GYCPVCG 179 (290)
T ss_dssp SS-TTT-
T ss_pred CcCCCCC
Confidence 4899999
No 108
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=52.07 E-value=6.9 Score=31.48 Aligned_cols=14 Identities=29% Similarity=0.669 Sum_probs=7.0
Q ss_pred CCceecc---CCCccCC
Q 009831 383 KDKWLCS---CGTTFSR 396 (524)
Q Consensus 383 ekpy~C~---Cgk~F~~ 396 (524)
++-+.|. ||.+|..
T Consensus 25 ~~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 25 ERYHQCQNVNCSATFIT 41 (72)
T ss_pred eeeeecCCCCCCCEEEE
Confidence 3445554 5555543
No 109
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.96 E-value=10 Score=42.01 Aligned_cols=8 Identities=38% Similarity=1.087 Sum_probs=4.1
Q ss_pred ceecc-CCC
Q 009831 385 KWLCS-CGT 392 (524)
Q Consensus 385 py~C~-Cgk 392 (524)
|+.|+ ||-
T Consensus 253 ~~~Cp~C~s 261 (505)
T TIGR00595 253 PKTCPQCGS 261 (505)
T ss_pred CCCCCCCCC
Confidence 45555 543
No 110
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=51.90 E-value=3.2 Score=46.72 Aligned_cols=26 Identities=31% Similarity=0.519 Sum_probs=23.7
Q ss_pred ceecCCCCCccCChHHHHHHHhhhCC
Q 009831 270 THFCTICGKGFKRDANLRMHMRGHGD 295 (524)
Q Consensus 270 ~~~C~~CgK~F~~~~~L~~H~r~H~~ 295 (524)
.|.|.+|+|.|.....+..||++|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48999999999999999999999953
No 111
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=51.43 E-value=12 Score=34.66 Aligned_cols=33 Identities=9% Similarity=0.182 Sum_probs=21.2
Q ss_pred ccCCCceecc-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 009831 380 HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLA 424 (524)
Q Consensus 380 Htgekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~~C~~~ 424 (524)
.....-|.|+ |+.+|+.-.++. .-|.|+.||..
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~------------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME------------LNFTCPRCGAM 137 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH------------cCCcCCCCCCE
Confidence 3444557777 777777777764 13677777754
No 112
>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=51.33 E-value=14 Score=34.24 Aligned_cols=21 Identities=10% Similarity=0.135 Sum_probs=16.9
Q ss_pred CCcceecCCCCCccCChHHHH
Q 009831 267 APHTHFCTICGKGFKRDANLR 287 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~~~L~ 287 (524)
...-|.|+.|+..|+....+.
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH
Confidence 345699999999998887774
No 113
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=51.31 E-value=11 Score=33.68 Aligned_cols=32 Identities=19% Similarity=0.417 Sum_probs=19.1
Q ss_pred ccccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCChhH
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKDK 399 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~ks~ 399 (524)
...|+.|| ++|.- | +..|..|+ ||..|.-...
T Consensus 9 Kr~Cp~cg-~kFYD---L-------nk~p~vcP~cg~~~~~~~~ 41 (129)
T TIGR02300 9 KRICPNTG-SKFYD---L-------NRRPAVSPYTGEQFPPEEA 41 (129)
T ss_pred cccCCCcC-ccccc---c-------CCCCccCCCcCCccCcchh
Confidence 45677777 66642 2 24567777 7777654433
No 114
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=51.25 E-value=10 Score=27.87 Aligned_cols=20 Identities=35% Similarity=0.708 Sum_probs=12.3
Q ss_pred eecc-CCCccCCh-----hHHHHHHH
Q 009831 386 WLCS-CGTTFSRK-----DKLFGHIA 405 (524)
Q Consensus 386 y~C~-Cgk~F~~k-----s~L~~H~r 405 (524)
-.|. |++.+... ++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 3455 66666554 47777776
No 115
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=51.02 E-value=7.3 Score=28.90 Aligned_cols=12 Identities=25% Similarity=0.636 Sum_probs=10.7
Q ss_pred cceecCCCCCcc
Q 009831 269 HTHFCTICGKGF 280 (524)
Q Consensus 269 k~~~C~~CgK~F 280 (524)
..|+|..||+.|
T Consensus 5 ~~Y~C~~Cg~~~ 16 (49)
T COG1996 5 MEYKCARCGREV 16 (49)
T ss_pred EEEEhhhcCCee
Confidence 459999999999
No 116
>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=51.00 E-value=9 Score=34.55 Aligned_cols=23 Identities=35% Similarity=0.732 Sum_probs=8.8
Q ss_pred eecc-CCCccCChhHHHHHHHhhcCCC
Q 009831 386 WLCS-CGTTFSRKDKLFGHIALFQGHT 411 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~Htg~k 411 (524)
..|- |||.|.. |++|++.|+|-+
T Consensus 73 i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred eEEccCCcccch---HHHHHHHccCCC
Confidence 4454 5555542 355555555433
No 117
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=50.08 E-value=14 Score=35.05 Aligned_cols=19 Identities=26% Similarity=0.516 Sum_probs=15.4
Q ss_pred CcceecCCCCCccCChHHH
Q 009831 268 PHTHFCTICGKGFKRDANL 286 (524)
Q Consensus 268 ~k~~~C~~CgK~F~~~~~L 286 (524)
..-|.|+.|++.|+....+
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CCEEECCCCCcEEeHHHHh
Confidence 3569999999999877665
No 118
>PRK14873 primosome assembly protein PriA; Provisional
Probab=48.82 E-value=11 Score=43.17 Aligned_cols=15 Identities=20% Similarity=0.667 Sum_probs=7.4
Q ss_pred eeecCCCccccCCCC
Q 009831 350 KRTHCDKSYVCSRCN 364 (524)
Q Consensus 350 ~~h~~~Kpy~C~~C~ 364 (524)
.|..|+...+|+.|+
T Consensus 385 ~C~~Cg~~~~C~~C~ 399 (665)
T PRK14873 385 ACARCRTPARCRHCT 399 (665)
T ss_pred EhhhCcCeeECCCCC
Confidence 344444455555555
No 119
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=48.66 E-value=10 Score=34.64 Aligned_cols=11 Identities=36% Similarity=1.222 Sum_probs=4.7
Q ss_pred cccCCCCCcccc
Q 009831 358 YVCSRCNTKKFS 369 (524)
Q Consensus 358 y~C~~C~~K~F~ 369 (524)
|.|+.|+ +.|.
T Consensus 100 Y~Cp~C~-~~y~ 110 (147)
T smart00531 100 YKCPNCQ-SKYT 110 (147)
T ss_pred EECcCCC-CEee
Confidence 4444444 4443
No 120
>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=48.05 E-value=8.1 Score=32.46 Aligned_cols=11 Identities=45% Similarity=1.482 Sum_probs=7.5
Q ss_pred ceecc-CCCccC
Q 009831 385 KWLCS-CGTTFS 395 (524)
Q Consensus 385 py~C~-Cgk~F~ 395 (524)
.|.|. |++.|.
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 47777 777764
No 121
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.68 E-value=21 Score=35.39 Aligned_cols=72 Identities=22% Similarity=0.397 Sum_probs=37.6
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCC----CccccCCCC-CccccChhhhhhhhcccCCCc-eeccCC
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCD----KSYVCSRCN-TKKFSVIADLKTHEKHCGKDK-WLCSCG 391 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~----Kpy~C~~C~-~K~F~~~s~L~~H~rHtgekp-y~C~Cg 391 (524)
+|+.|..|.-. ..|.... =++|...+ -|+.|+.|- .-+|.++...+ .+-.|+.+ |.|.|.
T Consensus 69 ~P~pC~~Ckii--------aAF~g~k----c~rctn~e~kyGpp~~C~~Cklq~afdrkde~~--kkV~gkllcwlc~~s 134 (305)
T KOG3990|consen 69 TPKPCQYCKII--------AAFIGRK----CQRCTNSEKKYGPPLLCEQCKLQCAFDRKDEVR--KKVDGKLLCWLCTGS 134 (305)
T ss_pred CCCcchhhhhh--------hhhccch----hhhccchhhccCCchhHHHHHHHhhhcchhhcc--ccCCccccchhcccc
Confidence 78889988711 1232222 23444333 478999884 02344443322 11445544 666666
Q ss_pred CccCChhHHHHH
Q 009831 392 TTFSRKDKLFGH 403 (524)
Q Consensus 392 k~F~~ks~L~~H 403 (524)
.+-.++..|+.|
T Consensus 135 ~~~s~~r~~qk~ 146 (305)
T KOG3990|consen 135 STLSYKRVLQKT 146 (305)
T ss_pred hHHHHHHHHHhc
Confidence 666666666655
No 122
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=46.38 E-value=15 Score=34.88 Aligned_cols=31 Identities=13% Similarity=0.204 Sum_probs=19.3
Q ss_pred CCceecc-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCC
Q 009831 383 KDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAG 425 (524)
Q Consensus 383 ekpy~C~-Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~~C~~~f 425 (524)
..-|.|+ |+++|+.-.++. .-|.|+.||...
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~------------~~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME------------YGFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh------------cCCcCCCCCCCC
Confidence 3457777 777777666652 146777777544
No 123
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.00 E-value=3.7 Score=39.42 Aligned_cols=77 Identities=23% Similarity=0.419 Sum_probs=47.8
Q ss_pred ceecCC--CCCccCChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCCcccCcCcCCccccchhhcccc
Q 009831 270 THFCTI--CGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKN 347 (524)
Q Consensus 270 ~~~C~~--CgK~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~ 347 (524)
.|.|++ |-..|.....+..|-.+-++. .|.+|. +.|.+.+.|..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~~------------------------sCs~C~----------r~~Pt~hLLd~ 124 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHGN------------------------SCSFCK----------RAFPTGHLLDA 124 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcccc------------------------hhHHHH----------HhCCchhhhhH
Confidence 366765 556666666566554332222 477776 66666666666
Q ss_pred ceeeec----------CCCccccC--CCCCccccChhhhhhhhc--cc
Q 009831 348 HYKRTH----------CDKSYVCS--RCNTKKFSVIADLKTHEK--HC 381 (524)
Q Consensus 348 H~~~h~----------~~Kpy~C~--~C~~K~F~~~s~L~~H~r--Ht 381 (524)
|+.--| +.-+|.|- .|+ -.|.+...-+.|+- |.
T Consensus 125 HI~E~HDs~Fqa~veRG~dMy~ClvEgCt-~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 125 HILEWHDSLFQALVERGQDMYQCLVEGCT-EKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHHHHHHHHHHHHHcCccHHHHHHHhhh-hhhhhhhhhhhHHHHhcc
Confidence 643222 23468884 488 88988888888874 64
No 124
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=44.38 E-value=19 Score=24.76 Aligned_cols=31 Identities=29% Similarity=0.648 Sum_probs=14.5
Q ss_pred ccCCCCCccccChhhhhhhhcccCCCceecc-CCCcc
Q 009831 359 VCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTF 394 (524)
Q Consensus 359 ~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F 394 (524)
.|+.|+ +.|....... -.+.+..+|. |+..|
T Consensus 4 ~Cp~C~-~~y~i~d~~i----p~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQ-AKYEIDDEKI----PPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCC-CEEeCCHHHC----CCCCcEEECCCCCCEe
Confidence 456665 5554443321 1112245566 66555
No 125
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=44.37 E-value=17 Score=26.34 Aligned_cols=13 Identities=23% Similarity=0.554 Sum_probs=10.8
Q ss_pred ceecCCCCCccCC
Q 009831 270 THFCTICGKGFKR 282 (524)
Q Consensus 270 ~~~C~~CgK~F~~ 282 (524)
.|.|..||..|.-
T Consensus 2 ~Y~C~~Cg~~~~~ 14 (44)
T smart00659 2 IYICGECGRENEI 14 (44)
T ss_pred EEECCCCCCEeec
Confidence 3899999998864
No 126
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=44.19 E-value=16 Score=37.27 Aligned_cols=47 Identities=23% Similarity=0.441 Sum_probs=33.3
Q ss_pred ccccCCCCCccccChhhhhhhhc--ccCCCceecc-CCCccCChhHHHHHHHhh
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK--HCGKDKWLCS-CGTTFSRKDKLFGHIALF 407 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r--Htgekpy~C~-Cgk~F~~ks~L~~H~r~H 407 (524)
.-.|-.|. -.|... ..|.. -+....|.|+ |...|-.--+...|...|
T Consensus 362 s~~Cf~CQ-~~fp~~---~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 362 STHCFVCQ-GPFPKP---PVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred Cccceecc-CCCCCC---CCCcccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 34577887 667543 33433 3345579999 999999888888898876
No 127
>PRK05580 primosome assembly protein PriA; Validated
Probab=43.07 E-value=16 Score=42.09 Aligned_cols=9 Identities=33% Similarity=0.830 Sum_probs=4.5
Q ss_pred Cceecc-CCC
Q 009831 384 DKWLCS-CGT 392 (524)
Q Consensus 384 kpy~C~-Cgk 392 (524)
.|+.|+ ||.
T Consensus 420 ~~~~Cp~Cg~ 429 (679)
T PRK05580 420 IPKACPECGS 429 (679)
T ss_pred CCCCCCCCcC
Confidence 345555 544
No 128
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=42.68 E-value=10 Score=31.79 Aligned_cols=11 Identities=45% Similarity=1.437 Sum_probs=7.4
Q ss_pred ceecc-CCCccC
Q 009831 385 KWLCS-CGTTFS 395 (524)
Q Consensus 385 py~C~-Cgk~F~ 395 (524)
.|.|. |++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PRK03976 54 IWECRKCGAKFA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 47777 777664
No 129
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=41.64 E-value=19 Score=29.94 Aligned_cols=32 Identities=22% Similarity=0.649 Sum_probs=21.6
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccC
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSV 370 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~ 370 (524)
..|.||.|+ +. .+.+.. -.-+.|..|+ ..|.-
T Consensus 34 ~~~~Cp~C~----------~~--------~VkR~a--~GIW~C~kCg-~~fAG 65 (89)
T COG1997 34 AKHVCPFCG----------RT--------TVKRIA--TGIWKCRKCG-AKFAG 65 (89)
T ss_pred cCCcCCCCC----------Cc--------ceeeec--cCeEEcCCCC-Ceecc
Confidence 679999999 22 122222 2458999999 88864
No 130
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=41.53 E-value=25 Score=34.85 Aligned_cols=30 Identities=20% Similarity=0.408 Sum_probs=21.5
Q ss_pred CChHHHHHHHhhhCCCCCChhhhcCccccCCCCCCccccccCCCCC
Q 009831 281 KRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAG 326 (524)
Q Consensus 281 ~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cg 326 (524)
.+..+|+++.+.+.+. +....+-|.|..|.
T Consensus 90 LTe~Nlrm~d~a~~~~----------------ip~~drqFaC~~Cd 119 (278)
T PF15135_consen 90 LTEENLRMFDDAQENL----------------IPSVDRQFACSSCD 119 (278)
T ss_pred chHHHHHHhhhhhhcc----------------ccccceeeeccccc
Confidence 4567888888776554 33445789999998
No 131
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=41.27 E-value=8.6 Score=41.02 Aligned_cols=38 Identities=26% Similarity=0.695 Sum_probs=25.9
Q ss_pred CCCccccCCCCCccccChhhhhhhhcccCCCceecc-CCCcc
Q 009831 354 CDKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTF 394 (524)
Q Consensus 354 ~~Kpy~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F 394 (524)
...-|.|+.|. +.|.....|+.= -...-.|.|. |+--.
T Consensus 125 ~~~~Y~Cp~C~-kkyt~Lea~~L~--~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQ-KKYTSLEALQLL--DNETGEFHCENCGGEL 163 (436)
T ss_pred ccccccCCccc-cchhhhHHHHhh--cccCceEEEecCCCch
Confidence 34579999999 999887766432 2223458998 87543
No 132
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=40.73 E-value=24 Score=25.48 Aligned_cols=9 Identities=33% Similarity=0.925 Sum_probs=6.1
Q ss_pred ccccCCCCC
Q 009831 318 KRYSCPYAG 326 (524)
Q Consensus 318 kpy~C~~Cg 326 (524)
..|.|+.||
T Consensus 2 ~~y~C~~CG 10 (46)
T PRK00398 2 AEYKCARCG 10 (46)
T ss_pred CEEECCCCC
Confidence 357777777
No 133
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=40.36 E-value=19 Score=37.43 Aligned_cols=22 Identities=23% Similarity=0.316 Sum_probs=12.3
Q ss_pred ccccCCCCCccccChhhhhhhhc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r 379 (524)
.|.|++|+ +.=.+...|..|.-
T Consensus 79 SftCPyC~-~~Gfte~~f~~Hv~ 100 (381)
T KOG1280|consen 79 SFTCPYCG-IMGFTERQFGTHVL 100 (381)
T ss_pred cccCCccc-ccccchhHHHHHhh
Confidence 46666666 54445555556654
No 134
>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=40.26 E-value=17 Score=31.67 Aligned_cols=31 Identities=39% Similarity=0.847 Sum_probs=20.5
Q ss_pred CccccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCCh
Q 009831 356 KSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRK 397 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~k 397 (524)
....|+.|| ++|.- | +..|..|+ ||..|.-.
T Consensus 8 tKR~Cp~CG-~kFYD---L-------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCG-AKFYD---L-------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCc-chhcc---C-------CCCCccCCCCCCccCcc
Confidence 345777787 77743 2 24577788 88888655
No 135
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=40.24 E-value=22 Score=36.80 Aligned_cols=77 Identities=22% Similarity=0.322 Sum_probs=39.3
Q ss_pred ccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCC
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSR 396 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~ 396 (524)
..-.||+||.. +... + .+.....+.|-..|..|+ -.. | -+.-+|. ||..
T Consensus 186 ~~~~CPvCGs~---------P~~s---~-v~~~~~~G~RyL~CslC~-teW-----------~--~~R~~C~~Cg~~--- 235 (309)
T PRK03564 186 QRQFCPVCGSM---------PVSS---V-VQIGTTQGLRYLHCNLCE-SEW-----------H--VVRVKCSNCEQS--- 235 (309)
T ss_pred CCCCCCCCCCc---------chhh---e-eeccCCCCceEEEcCCCC-Ccc-----------c--ccCccCCCCCCC---
Confidence 45689999921 1111 1 122223455677889998 322 1 1245788 9852
Q ss_pred hhHHHHHHHhhcCCCCCCCCCCCCCCCCCC
Q 009831 397 KDKLFGHIALFQGHTPAIPLDETIKGLAGP 426 (524)
Q Consensus 397 ks~L~~H~r~Htg~kp~k~~~C~~C~~~f~ 426 (524)
..|.-+ .+-.++..++-..|..|+.-..
T Consensus 236 -~~l~y~-~~~~~~~~~r~e~C~~C~~YlK 263 (309)
T PRK03564 236 -GKLHYW-SLDSEQAAVKAESCGDCGTYLK 263 (309)
T ss_pred -Cceeee-eecCCCcceEeeecccccccce
Confidence 122111 1111223567778888875443
No 136
>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=39.32 E-value=23 Score=25.62 Aligned_cols=10 Identities=30% Similarity=0.899 Sum_probs=6.9
Q ss_pred CCccccCCCC
Q 009831 355 DKSYVCSRCN 364 (524)
Q Consensus 355 ~Kpy~C~~C~ 364 (524)
...|+|..|+
T Consensus 35 ~~~~~C~~C~ 44 (46)
T PF12760_consen 35 RGRYRCKACR 44 (46)
T ss_pred CCeEECCCCC
Confidence 4567777776
No 137
>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=39.11 E-value=13 Score=26.35 Aligned_cols=9 Identities=22% Similarity=0.822 Sum_probs=4.7
Q ss_pred CccccCCCC
Q 009831 356 KSYVCSRCN 364 (524)
Q Consensus 356 Kpy~C~~C~ 364 (524)
..-.|+.||
T Consensus 25 ~~~~CP~Cg 33 (42)
T PF09723_consen 25 DPVPCPECG 33 (42)
T ss_pred CCCcCCCCC
Confidence 444555555
No 138
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=38.51 E-value=34 Score=41.54 Aligned_cols=10 Identities=30% Similarity=1.159 Sum_probs=6.5
Q ss_pred ceecc-CCCcc
Q 009831 385 KWLCS-CGTTF 394 (524)
Q Consensus 385 py~C~-Cgk~F 394 (524)
.|.|. ||...
T Consensus 692 vy~CPsCGaev 702 (1337)
T PRK14714 692 VYVCPDCGAEV 702 (1337)
T ss_pred ceeCccCCCcc
Confidence 56777 77653
No 139
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=38.42 E-value=14 Score=33.89 Aligned_cols=19 Identities=16% Similarity=0.604 Sum_probs=12.9
Q ss_pred CccccCCCCCccccChhhhh
Q 009831 356 KSYVCSRCNTKKFSVIADLK 375 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~~s~L~ 375 (524)
+.=.|..|+ +.|++.....
T Consensus 27 RRReC~~C~-~RFTTyErve 45 (147)
T TIGR00244 27 RRRECLECH-ERFTTFERAE 45 (147)
T ss_pred ecccCCccC-Cccceeeecc
Confidence 345788888 8887765443
No 140
>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=38.41 E-value=23 Score=30.40 Aligned_cols=25 Identities=16% Similarity=0.442 Sum_probs=19.3
Q ss_pred cceecCCCCCccCChHHHHHHHhhhC
Q 009831 269 HTHFCTICGKGFKRDANLRMHMRGHG 294 (524)
Q Consensus 269 k~~~C~~CgK~F~~~~~L~~H~r~H~ 294 (524)
+...|..|+.+..- ..+..|++..+
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H 34 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRH 34 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhc
Confidence 45789999987765 88999998543
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=38.31 E-value=24 Score=24.37 Aligned_cols=10 Identities=50% Similarity=1.168 Sum_probs=4.7
Q ss_pred ceecc-CCCcc
Q 009831 385 KWLCS-CGTTF 394 (524)
Q Consensus 385 py~C~-Cgk~F 394 (524)
..+|. |+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 34454 54444
No 142
>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=37.48 E-value=18 Score=30.44 Aligned_cols=9 Identities=56% Similarity=1.811 Sum_probs=4.6
Q ss_pred eecc-CCCcc
Q 009831 386 WLCS-CGTTF 394 (524)
Q Consensus 386 y~C~-Cgk~F 394 (524)
|.|. |++.|
T Consensus 54 W~C~~C~~~~ 63 (90)
T PF01780_consen 54 WKCKKCGKKF 63 (90)
T ss_dssp EEETTTTEEE
T ss_pred eecCCCCCEE
Confidence 5555 55544
No 143
>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=37.00 E-value=16 Score=35.71 Aligned_cols=29 Identities=28% Similarity=0.480 Sum_probs=22.0
Q ss_pred CCcceecCCCCCccCChHHHHHHHhhhCC
Q 009831 267 APHTHFCTICGKGFKRDANLRMHMRGHGD 295 (524)
Q Consensus 267 ~~k~~~C~~CgK~F~~~~~L~~H~r~H~~ 295 (524)
.+..|.|..|+|.|+-..-.++|+..-+.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 44569999999999999999999876433
No 144
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=36.89 E-value=20 Score=30.12 Aligned_cols=14 Identities=21% Similarity=0.555 Sum_probs=11.2
Q ss_pred CccccCCCCCccccC
Q 009831 356 KSYVCSRCNTKKFSV 370 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~ 370 (524)
-.+.|..|+ +.|.-
T Consensus 53 GIW~C~~C~-~~~AG 66 (90)
T PTZ00255 53 GIWRCKGCK-KTVAG 66 (90)
T ss_pred EEEEcCCCC-CEEeC
Confidence 458999999 88864
No 145
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=36.43 E-value=23 Score=31.93 Aligned_cols=25 Identities=32% Similarity=0.557 Sum_probs=16.0
Q ss_pred eecc-CCCccCChhHHHHHHHhhcCCCCC
Q 009831 386 WLCS-CGTTFSRKDKLFGHIALFQGHTPA 413 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~Htg~kp~ 413 (524)
..|- |||.|. .|++|+.+|.|-.|.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTPd 102 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTPD 102 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCHH
Confidence 4566 666664 577777777765544
No 146
>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=36.09 E-value=28 Score=29.91 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=22.9
Q ss_pred eec----CCCCCccCChHHHHHHHhhhCC
Q 009831 271 HFC----TICGKGFKRDANLRMHMRGHGD 295 (524)
Q Consensus 271 ~~C----~~CgK~F~~~~~L~~H~r~H~~ 295 (524)
|.| ..|+..+.+...+++|++.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999998764
No 147
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=35.43 E-value=25 Score=36.25 Aligned_cols=59 Identities=19% Similarity=0.318 Sum_probs=0.0
Q ss_pred CCCCCcccCcCcCCccccchh-------hccccceeeecCC-----CccccCCCCCccccChhhhhhhhc-ccCCCceec
Q 009831 322 CPYAGCKRNKDHKKFQPLKTI-------LCVKNHYKRTHCD-----KSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLC 388 (524)
Q Consensus 322 C~~Cgc~~~~~~~~~k~f~~~-------~~L~~H~~~h~~~-----Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C 388 (524)
||+|| ..-... ....+++.|..|+ +.-+|..|| ..-.-..--...-. ..+.|-..|
T Consensus 187 CPvCG----------s~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg-~~~~l~y~~~e~~~~~~~~r~e~C 255 (305)
T TIGR01562 187 CPACG----------SPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCE-ESKHLAYLSLEHDAEKAVLKAETC 255 (305)
T ss_pred CCCCC----------ChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCC-CCCceeeEeecCCCCCcceEEeec
Q ss_pred c-CC
Q 009831 389 S-CG 391 (524)
Q Consensus 389 ~-Cg 391 (524)
. |+
T Consensus 256 ~~C~ 259 (305)
T TIGR01562 256 DSCQ 259 (305)
T ss_pred cccc
No 148
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=35.32 E-value=25 Score=31.70 Aligned_cols=23 Identities=35% Similarity=0.504 Sum_probs=20.0
Q ss_pred eecCCCCCccCChHHHHHHHhhhCCC
Q 009831 271 HFCTICGKGFKRDANLRMHMRGHGDE 296 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r~H~~e 296 (524)
..|-+|||.|+ .|++|+++|.+-
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCC
Confidence 67999999996 699999998764
No 149
>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=35.30 E-value=24 Score=32.60 Aligned_cols=10 Identities=50% Similarity=1.046 Sum_probs=6.0
Q ss_pred cccCCCCCccc
Q 009831 358 YVCSRCNTKKF 368 (524)
Q Consensus 358 y~C~~C~~K~F 368 (524)
.+|..|+ |.|
T Consensus 15 v~C~~c~-kWF 24 (152)
T PF09416_consen 15 VKCNTCN-KWF 24 (152)
T ss_dssp EEETTTT-EEE
T ss_pred eEcCCCC-cEe
Confidence 4566666 555
No 150
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=35.27 E-value=3.3e+02 Score=28.23 Aligned_cols=41 Identities=20% Similarity=0.486 Sum_probs=28.3
Q ss_pred cccCCCCCccccChhhhhhhhc-ccCCCceecc----CCCccCChhHHHHHHHh
Q 009831 358 YVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS----CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 358 y~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~----Cgk~F~~ks~L~~H~r~ 406 (524)
-.|..|. ... .-+. -+-+--|.|. |-++|..+..|..|+.-
T Consensus 124 K~Cp~C~-d~V-------qrIeq~~~g~iFmC~~~~GC~RTyLsqrDlqAHInh 169 (389)
T KOG2932|consen 124 KICPLCD-DRV-------QRIEQIMMGGIFMCAAPHGCLRTYLSQRDLQAHINH 169 (389)
T ss_pred ccCcCcc-cHH-------HHHHHhcccceEEeecchhHHHHHhhHHHHHHHhhh
Confidence 3588887 322 1111 3345569996 99999999999999753
No 151
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=34.61 E-value=17 Score=25.61 Aligned_cols=6 Identities=50% Similarity=1.359 Sum_probs=3.3
Q ss_pred cCCCCC
Q 009831 321 SCPYAG 326 (524)
Q Consensus 321 ~C~~Cg 326 (524)
.|+.||
T Consensus 2 ~Cp~C~ 7 (40)
T smart00440 2 PCPKCG 7 (40)
T ss_pred cCCCCC
Confidence 455555
No 152
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=34.19 E-value=17 Score=33.35 Aligned_cols=17 Identities=18% Similarity=0.659 Sum_probs=11.5
Q ss_pred CccccCCCCCccccChhh
Q 009831 356 KSYVCSRCNTKKFSVIAD 373 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~~s~ 373 (524)
+.-.|..|+ +.|++...
T Consensus 27 RRReC~~C~-~RFTTfE~ 43 (156)
T COG1327 27 RRRECLECG-ERFTTFER 43 (156)
T ss_pred hhhcccccc-cccchhhe
Confidence 345788888 88876643
No 153
>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=34.12 E-value=24 Score=24.33 Aligned_cols=8 Identities=38% Similarity=0.970 Sum_probs=5.8
Q ss_pred cccCCCCC
Q 009831 319 RYSCPYAG 326 (524)
Q Consensus 319 py~C~~Cg 326 (524)
.|+|+.||
T Consensus 5 ~y~C~~Cg 12 (41)
T smart00834 5 EYRCEDCG 12 (41)
T ss_pred EEEcCCCC
Confidence 37777777
No 154
>PF14353 CpXC: CpXC protein
Probab=34.03 E-value=10 Score=33.65 Aligned_cols=22 Identities=32% Similarity=0.694 Sum_probs=16.0
Q ss_pred ccccCCCCCccccChhhhhhhhc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r 379 (524)
.|.|+.|| +.|.....+.-|-.
T Consensus 38 ~~~CP~Cg-~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 38 SFTCPSCG-HKFRLEYPLLYHDP 59 (128)
T ss_pred EEECCCCC-CceecCCCEEEEcC
Confidence 58899998 88877666666543
No 155
>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=33.60 E-value=35 Score=21.71 Aligned_cols=20 Identities=15% Similarity=0.453 Sum_probs=15.9
Q ss_pred eecCCCCCccCChHHHHHHHh
Q 009831 271 HFCTICGKGFKRDANLRMHMR 291 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r 291 (524)
..|++|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4699999998 5577888875
No 156
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=33.57 E-value=19 Score=32.30 Aligned_cols=13 Identities=38% Similarity=1.058 Sum_probs=7.2
Q ss_pred ccccCCCCCccccC
Q 009831 357 SYVCSRCNTKKFSV 370 (524)
Q Consensus 357 py~C~~C~~K~F~~ 370 (524)
.|+|..|+ +.|..
T Consensus 53 RyrC~~C~-~tf~~ 65 (129)
T COG3677 53 RYKCKSCG-STFTV 65 (129)
T ss_pred ccccCCcC-cceee
Confidence 45666665 55543
No 157
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=33.33 E-value=20 Score=28.83 Aligned_cols=20 Identities=15% Similarity=0.466 Sum_probs=14.6
Q ss_pred CCCccccC--CCCCccccChhhh
Q 009831 354 CDKSYVCS--RCNTKKFSVIADL 374 (524)
Q Consensus 354 ~~Kpy~C~--~C~~K~F~~~s~L 374 (524)
.++-+.|. .|| .+|.....+
T Consensus 24 ~~~Y~qC~N~eCg-~tF~t~es~ 45 (72)
T PRK09678 24 KERYHQCQNVNCS-ATFITYESV 45 (72)
T ss_pred heeeeecCCCCCC-CEEEEEEEE
Confidence 35668998 899 999765443
No 158
>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=33.04 E-value=34 Score=31.46 Aligned_cols=35 Identities=20% Similarity=0.427 Sum_probs=20.9
Q ss_pred ccccccCCCCCcccCcCcCCccccchhhccccceeeecCCCccccCCCCCccccC
Q 009831 316 LIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSV 370 (524)
Q Consensus 316 ~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~~H~~~h~~~Kpy~C~~C~~K~F~~ 370 (524)
|...|.|..|| . .+...+.+.--.|+.|+...|.+
T Consensus 109 g~G~l~C~~Cg----------~----------~~~~~~~~~l~~Cp~C~~~~F~R 143 (146)
T PF07295_consen 109 GPGTLVCENCG----------H----------EVELTHPERLPPCPKCGHTEFTR 143 (146)
T ss_pred cCceEecccCC----------C----------EEEecCCCcCCCCCCCCCCeeee
Confidence 33559999999 1 11122234456899998555654
No 159
>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=33.01 E-value=24 Score=25.91 Aligned_cols=7 Identities=43% Similarity=1.146 Sum_probs=5.2
Q ss_pred ccCCCCC
Q 009831 320 YSCPYAG 326 (524)
Q Consensus 320 y~C~~Cg 326 (524)
|+|..||
T Consensus 6 y~C~~Cg 12 (52)
T TIGR02605 6 YRCTACG 12 (52)
T ss_pred EEeCCCC
Confidence 6777777
No 160
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=32.68 E-value=29 Score=29.10 Aligned_cols=12 Identities=33% Similarity=0.764 Sum_probs=7.7
Q ss_pred Cceecc-CCCccC
Q 009831 384 DKWLCS-CGTTFS 395 (524)
Q Consensus 384 kpy~C~-Cgk~F~ 395 (524)
+|-.|. ||..|.
T Consensus 57 ~Pa~CkkCGfef~ 69 (97)
T COG3357 57 RPARCKKCGFEFR 69 (97)
T ss_pred cChhhcccCcccc
Confidence 456677 777664
No 161
>PRK04023 DNA polymerase II large subunit; Validated
Probab=32.40 E-value=49 Score=39.29 Aligned_cols=8 Identities=50% Similarity=1.136 Sum_probs=4.6
Q ss_pred cccCCCCC
Q 009831 319 RYSCPYAG 326 (524)
Q Consensus 319 py~C~~Cg 326 (524)
...|+.||
T Consensus 626 ~RfCpsCG 633 (1121)
T PRK04023 626 RRKCPSCG 633 (1121)
T ss_pred CccCCCCC
Confidence 34566666
No 162
>PF15269 zf-C2H2_7: Zinc-finger
Probab=32.06 E-value=30 Score=25.09 Aligned_cols=21 Identities=33% Similarity=0.717 Sum_probs=16.7
Q ss_pred eecc-CCCccCChhHHHHHHHh
Q 009831 386 WLCS-CGTTFSRKDKLFGHIAL 406 (524)
Q Consensus 386 y~C~-Cgk~F~~ks~L~~H~r~ 406 (524)
|+|- |..+..-++.|..||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6777 88888888888888874
No 163
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=31.78 E-value=10 Score=26.56 Aligned_cols=7 Identities=57% Similarity=1.663 Sum_probs=3.7
Q ss_pred cccCCCC
Q 009831 358 YVCSRCN 364 (524)
Q Consensus 358 y~C~~C~ 364 (524)
|.|..|+
T Consensus 29 y~C~~C~ 35 (39)
T PF01096_consen 29 YVCCNCG 35 (39)
T ss_dssp EEESSST
T ss_pred EEeCCCC
Confidence 5555555
No 164
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.32 E-value=28 Score=37.43 Aligned_cols=29 Identities=34% Similarity=0.836 Sum_probs=17.1
Q ss_pred ccCCCCCccccChhhhhhhhcccCCCceecc-CCCccCChh
Q 009831 359 VCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKD 398 (524)
Q Consensus 359 ~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~~ks 398 (524)
.|+.|| .+ |+-.|.+-|+|. ||+++....
T Consensus 352 ~Cp~Cg-~~----------m~S~G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCG-GR----------MKSAGRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccC-Cc----------hhhcCCCCcccccccccCCccc
Confidence 677777 33 233344467777 777776443
No 165
>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=30.03 E-value=40 Score=21.55 Aligned_cols=11 Identities=45% Similarity=1.250 Sum_probs=9.2
Q ss_pred eecCCCCCccC
Q 009831 271 HFCTICGKGFK 281 (524)
Q Consensus 271 ~~C~~CgK~F~ 281 (524)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 56999999885
No 166
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=29.92 E-value=30 Score=31.45 Aligned_cols=31 Identities=19% Similarity=0.763 Sum_probs=14.8
Q ss_pred ccccCCCCCccccChhhhhhhhcccCCCceecc-CCCcc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTF 394 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F 394 (524)
.|.|..|+ ..+. +|.||.....|.|. |+-.|
T Consensus 112 ~y~C~~C~-~~~~------~~rr~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCG-QRYL------RVRRSNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCC-CCCc------eEccccCcceEEcCCCCCEE
Confidence 35565565 4431 23334333456665 65544
No 167
>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=29.85 E-value=26 Score=34.31 Aligned_cols=22 Identities=23% Similarity=0.398 Sum_probs=11.4
Q ss_pred ccccCCCCCccccChhhhhhhhc
Q 009831 357 SYVCSRCNTKKFSVIADLKTHEK 379 (524)
Q Consensus 357 py~C~~C~~K~F~~~s~L~~H~r 379 (524)
.|.|..|+ |.|.-..-.++|+.
T Consensus 77 K~~C~lc~-KlFkg~eFV~KHI~ 98 (214)
T PF04959_consen 77 KWRCPLCG-KLFKGPEFVRKHIF 98 (214)
T ss_dssp EEEE-SSS--EESSHHHHHHHHH
T ss_pred EECCCCCC-cccCChHHHHHHHh
Confidence 45566665 56655555555554
No 168
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=29.51 E-value=28 Score=35.79 Aligned_cols=87 Identities=21% Similarity=0.374 Sum_probs=55.5
Q ss_pred ccccCCCCCcccCcCcCCccccc--hhhccccceeeecC--CCccccCCCCCccccChhhhhhhhc-ccCCCceecc---
Q 009831 318 KRYSCPYAGCKRNKDHKKFQPLK--TILCVKNHYKRTHC--DKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS--- 389 (524)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~--~~~~L~~H~~~h~~--~Kpy~C~~C~~K~F~~~s~L~~H~r-Htgekpy~C~--- 389 (524)
.-+.||+|. .... ...+-.-|+.|..| ++..+|+.|. ..+.... .++|. -.....+.|.
T Consensus 47 ~lleCPvC~----------~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr-~~~g~~R--~~amEkV~e~~~vpC~~~~ 113 (299)
T KOG3002|consen 47 DLLDCPVCF----------NPLSPPIFQCDNGHLACSSCRTKVSNKCPTCR-LPIGNIR--CRAMEKVAEAVLVPCKNAK 113 (299)
T ss_pred hhccCchhh----------ccCcccceecCCCcEehhhhhhhhcccCCccc-cccccHH--HHHHHHHHHhceecccccc
Confidence 457899997 2222 12233457777776 4688999998 7777443 34443 3334457775
Q ss_pred --CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCC
Q 009831 390 --CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKG 422 (524)
Q Consensus 390 --Cgk~F~~ks~L~~H~r~Htg~kp~k~~~C~~C~ 422 (524)
|.++|.+... ..|.+... +.++.|+.-+
T Consensus 114 ~GC~~~~~Y~~~-~~HE~~C~----f~~~~CP~p~ 143 (299)
T KOG3002|consen 114 LGCTKSFPYGEK-SKHEKVCE----FRPCSCPVPG 143 (299)
T ss_pred cCCceeeccccc-cccccccc----cCCcCCCCCc
Confidence 9999998887 55665543 5777777653
No 169
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=29.50 E-value=49 Score=23.44 Aligned_cols=24 Identities=21% Similarity=0.538 Sum_probs=18.3
Q ss_pred eecCCCCCccCC--hHHHHHHHhhhC
Q 009831 271 HFCTICGKGFKR--DANLRMHMRGHG 294 (524)
Q Consensus 271 ~~C~~CgK~F~~--~~~L~~H~r~H~ 294 (524)
-.|+.||..|.. ...-+.|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 589999998854 466777887774
No 170
>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=29.22 E-value=37 Score=29.28 Aligned_cols=9 Identities=56% Similarity=1.250 Sum_probs=5.8
Q ss_pred ccccCCCCC
Q 009831 318 KRYSCPYAG 326 (524)
Q Consensus 318 kpy~C~~Cg 326 (524)
||-.|++||
T Consensus 1 ~p~~CpYCg 9 (102)
T PF11672_consen 1 KPIICPYCG 9 (102)
T ss_pred CCcccCCCC
Confidence 455677776
No 171
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=28.93 E-value=21 Score=37.15 Aligned_cols=24 Identities=25% Similarity=0.598 Sum_probs=19.4
Q ss_pred CcceecCC--CCCccCChHHHHHHHh
Q 009831 268 PHTHFCTI--CGKGFKRDANLRMHMR 291 (524)
Q Consensus 268 ~k~~~C~~--CgK~F~~~~~L~~H~r 291 (524)
.++|+|.+ |.|.++...-|+.|..
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~ 372 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKL 372 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccc
Confidence 47899976 9999998888877754
No 172
>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=27.68 E-value=71 Score=29.54 Aligned_cols=50 Identities=18% Similarity=0.321 Sum_probs=24.5
Q ss_pred cceecCCCCCcc------CChHHHHHHHh-hhCCCCCChhhhcCccccCCCCCCccccccCCCCCcc
Q 009831 269 HTHFCTICGKGF------KRDANLRMHMR-GHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCK 328 (524)
Q Consensus 269 k~~~C~~CgK~F------~~~~~L~~H~r-~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~ 328 (524)
-..+|..|+|.| +..+++..|+. ..+.+ ...|.....++..++|-.||++
T Consensus 13 ~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~e----------v~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 13 CVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKE----------VSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp CEEEETTTTEEEES--TTSSS-HHHHHHHHHT-------------EEE-TTSTT-S-B---TTT---
T ss_pred cEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCc----------eeeCCCCCCCCcEEEEEecCCC
Confidence 447899999988 34577888864 33333 2333334556688999999965
No 173
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=27.36 E-value=33 Score=37.14 Aligned_cols=21 Identities=33% Similarity=0.874 Sum_probs=19.4
Q ss_pred eecCCCCCccCChHHHHHHHh
Q 009831 271 HFCTICGKGFKRDANLRMHMR 291 (524)
Q Consensus 271 ~~C~~CgK~F~~~~~L~~H~r 291 (524)
+.|.+|.|.|++...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 789999999999999999974
No 174
>PRK12496 hypothetical protein; Provisional
Probab=27.36 E-value=46 Score=31.11 Aligned_cols=7 Identities=43% Similarity=1.151 Sum_probs=3.6
Q ss_pred cccCCCC
Q 009831 358 YVCSRCN 364 (524)
Q Consensus 358 y~C~~C~ 364 (524)
|.|.-|+
T Consensus 128 ~~C~gC~ 134 (164)
T PRK12496 128 KVCKGCK 134 (164)
T ss_pred EECCCCC
Confidence 4455555
No 175
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=27.31 E-value=21 Score=40.67 Aligned_cols=29 Identities=24% Similarity=0.693 Sum_probs=17.0
Q ss_pred ccCCCCCccccChhhhhhhhcccCCCceecc-CCCc
Q 009831 359 VCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTT 393 (524)
Q Consensus 359 ~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~ 393 (524)
-|+.|. +.|...-+-+-| -.|.-|+ ||-.
T Consensus 153 lC~~C~-~EY~dP~nRRfH-----AQp~aCp~CGP~ 182 (750)
T COG0068 153 LCPFCD-KEYKDPLNRRFH-----AQPIACPKCGPH 182 (750)
T ss_pred CCHHHH-HHhcCccccccc-----cccccCcccCCC
Confidence 477777 766665553333 2356677 7753
No 176
>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=27.23 E-value=41 Score=30.08 Aligned_cols=15 Identities=13% Similarity=0.191 Sum_probs=12.1
Q ss_pred CccccCCCCCccccCh
Q 009831 356 KSYVCSRCNTKKFSVI 371 (524)
Q Consensus 356 Kpy~C~~C~~K~F~~~ 371 (524)
.|..|++|| ..|...
T Consensus 25 ~p~vcP~cg-~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTG-EQFPPE 39 (129)
T ss_pred CCccCCCcC-CccCcc
Confidence 578999999 887554
No 177
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.89 E-value=33 Score=29.77 Aligned_cols=27 Identities=22% Similarity=0.400 Sum_probs=18.3
Q ss_pred cccCCCCCccccChhhhhhhhcccCCCceecc-CCCccC
Q 009831 358 YVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFS 395 (524)
Q Consensus 358 y~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk~F~ 395 (524)
-.|+.|+ |.|.. | ..+|..|+ ||++|.
T Consensus 10 ridPetg-~KFYD---L-------NrdPiVsPytG~s~P 37 (129)
T COG4530 10 RIDPETG-KKFYD---L-------NRDPIVSPYTGKSYP 37 (129)
T ss_pred ccCcccc-chhhc---c-------CCCccccCcccccch
Confidence 4677787 77642 2 35678888 888884
No 178
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=26.74 E-value=28 Score=30.33 Aligned_cols=12 Identities=17% Similarity=0.514 Sum_probs=7.9
Q ss_pred eecCCCCCccCC
Q 009831 271 HFCTICGKGFKR 282 (524)
Q Consensus 271 ~~C~~CgK~F~~ 282 (524)
..|..|...|.-
T Consensus 26 ~~C~~Ck~~~~v 37 (116)
T KOG2907|consen 26 VLCIRCKIEYPV 37 (116)
T ss_pred eEeccccccCCH
Confidence 447777777653
No 179
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=26.50 E-value=35 Score=36.71 Aligned_cols=45 Identities=18% Similarity=0.323 Sum_probs=32.7
Q ss_pred cccceeeecCCCccccCCCCCccccChhhhhhhhc--ccCCCceecc-CC
Q 009831 345 VKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--HCGKDKWLCS-CG 391 (524)
Q Consensus 345 L~~H~~~h~~~Kpy~C~~C~~K~F~~~s~L~~H~r--Htgekpy~C~-Cg 391 (524)
+..|.|||.- -.|.|+--+ |.+..-..-.+|.- |+-..|--|+ ||
T Consensus 81 fvvHkrChef-VtF~CPGad-kg~dtDdpr~kHkf~~~tYssPTFCDhCG 128 (683)
T KOG0696|consen 81 FVVHKRCHEF-VTFSCPGAD-KGPDTDDPRSKHKFKIHTYSSPTFCDHCG 128 (683)
T ss_pred ehhhhhhcce-EEEECCCCC-CCCCCCCcccccceeeeecCCCchhhhHH
Confidence 4567676642 357888877 88877777778864 8877787788 88
No 180
>PF15269 zf-C2H2_7: Zinc-finger
Probab=25.66 E-value=55 Score=23.79 Aligned_cols=25 Identities=24% Similarity=0.345 Sum_probs=21.1
Q ss_pred CcceecCCCCCccCChHHHHHHHhh
Q 009831 268 PHTHFCTICGKGFKRDANLRMHMRG 292 (524)
Q Consensus 268 ~k~~~C~~CgK~F~~~~~L~~H~r~ 292 (524)
+..|+|-+|..+...+++|-.||+.
T Consensus 18 p~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 18 PFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CccceeecCCcccchHHHHHHHHHH
Confidence 3458999999999999999999974
No 181
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=25.13 E-value=48 Score=23.49 Aligned_cols=9 Identities=33% Similarity=0.984 Sum_probs=4.9
Q ss_pred CccccCCCC
Q 009831 356 KSYVCSRCN 364 (524)
Q Consensus 356 Kpy~C~~C~ 364 (524)
.-+.|..||
T Consensus 18 g~~vC~~CG 26 (43)
T PF08271_consen 18 GELVCPNCG 26 (43)
T ss_dssp TEEEETTT-
T ss_pred CeEECCCCC
Confidence 345677776
No 182
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.11 E-value=26 Score=28.40 Aligned_cols=9 Identities=44% Similarity=1.468 Sum_probs=4.5
Q ss_pred eecc-CCCcc
Q 009831 386 WLCS-CGTTF 394 (524)
Q Consensus 386 y~C~-Cgk~F 394 (524)
|+|. ||..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 4555 55444
No 183
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=24.78 E-value=38 Score=31.16 Aligned_cols=15 Identities=27% Similarity=0.731 Sum_probs=11.0
Q ss_pred Cceecc-CCCccCChh
Q 009831 384 DKWLCS-CGTTFSRKD 398 (524)
Q Consensus 384 kpy~C~-Cgk~F~~ks 398 (524)
+.-.|. ||++|++..
T Consensus 27 RRReC~~C~~RFTTfE 42 (156)
T COG1327 27 RRRECLECGERFTTFE 42 (156)
T ss_pred hhhcccccccccchhh
Confidence 455788 888888654
No 184
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=24.72 E-value=60 Score=39.53 Aligned_cols=10 Identities=30% Similarity=0.813 Sum_probs=7.9
Q ss_pred ceecCCCCCc
Q 009831 270 THFCTICGKG 279 (524)
Q Consensus 270 ~~~C~~CgK~ 279 (524)
.++|+.||..
T Consensus 667 ~rkCPkCG~~ 676 (1337)
T PRK14714 667 RRRCPSCGTE 676 (1337)
T ss_pred EEECCCCCCc
Confidence 3789999874
No 185
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=24.67 E-value=1e+02 Score=33.01 Aligned_cols=36 Identities=19% Similarity=0.232 Sum_probs=25.1
Q ss_pred hhhcCCCCcccc---ceeecccccccCCCCCCCCCCCCC
Q 009831 42 QQKWEDPSILDY---DIRINPAFQEFNQPPQNQSSLPCD 77 (524)
Q Consensus 42 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~ 77 (524)
+--|+-|+..-+ ++-.-|-...||++|+.++.+.+.
T Consensus 49 ~~~~~~Ps~~i~~~i~~s~~~~~~~~~~~ss~~Hl~t~~ 87 (480)
T KOG4377|consen 49 LKNSEIPSDRIFYHIDVSCGSDRCQFNRNSSHWHLATCQ 87 (480)
T ss_pred CCCCCCccHHHHHHhhcccCcchhhhhcchhhHHHHhhc
Confidence 456888876332 233446667799999999988876
No 186
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.52 E-value=22 Score=36.34 Aligned_cols=7 Identities=29% Similarity=0.795 Sum_probs=3.2
Q ss_pred cccCCCC
Q 009831 358 YVCSRCN 364 (524)
Q Consensus 358 y~C~~C~ 364 (524)
-.|++||
T Consensus 173 g~CPvCG 179 (290)
T PF04216_consen 173 GYCPVCG 179 (290)
T ss_dssp SS-TTT-
T ss_pred CcCCCCC
Confidence 3577777
No 187
>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=23.93 E-value=66 Score=21.64 Aligned_cols=11 Identities=27% Similarity=1.096 Sum_probs=5.8
Q ss_pred cccCCCCCcccc
Q 009831 358 YVCSRCNTKKFS 369 (524)
Q Consensus 358 y~C~~C~~K~F~ 369 (524)
|.|..|+ ..+.
T Consensus 1 Y~C~~Cg-~~~~ 11 (32)
T PF03604_consen 1 YICGECG-AEVE 11 (32)
T ss_dssp EBESSSS-SSE-
T ss_pred CCCCcCC-CeeE
Confidence 5566666 5443
No 188
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=23.86 E-value=39 Score=23.38 Aligned_cols=15 Identities=27% Similarity=0.671 Sum_probs=7.0
Q ss_pred hhhhc-ccCCCceecc
Q 009831 375 KTHEK-HCGKDKWLCS 389 (524)
Q Consensus 375 ~~H~r-Htgekpy~C~ 389 (524)
.+|=+ ..|.-.|.|.
T Consensus 18 ~k~G~~~~G~qryrC~ 33 (36)
T PF03811_consen 18 KKNGKSPSGHQRYRCK 33 (36)
T ss_pred eeCCCCCCCCEeEecC
Confidence 34434 4444455555
No 189
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=23.04 E-value=40 Score=29.40 Aligned_cols=15 Identities=33% Similarity=0.720 Sum_probs=10.7
Q ss_pred cceecCCCCCccCCh
Q 009831 269 HTHFCTICGKGFKRD 283 (524)
Q Consensus 269 k~~~C~~CgK~F~~~ 283 (524)
-.++|..||+.|.-.
T Consensus 69 ~~~~C~~Cg~~~~~~ 83 (113)
T PF01155_consen 69 ARARCRDCGHEFEPD 83 (113)
T ss_dssp -EEEETTTS-EEECH
T ss_pred CcEECCCCCCEEecC
Confidence 348999999999653
No 190
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=23.01 E-value=28 Score=40.47 Aligned_cols=10 Identities=30% Similarity=1.119 Sum_probs=0.0
Q ss_pred ceecc-CCCcc
Q 009831 385 KWLCS-CGTTF 394 (524)
Q Consensus 385 py~C~-Cgk~F 394 (524)
-|.|. |+...
T Consensus 680 ~~~Cp~C~~~~ 690 (900)
T PF03833_consen 680 VYVCPDCGIEV 690 (900)
T ss_dssp -----------
T ss_pred ceecccccccc
Confidence 35566 66543
No 191
>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=22.82 E-value=50 Score=23.14 Aligned_cols=11 Identities=27% Similarity=0.942 Sum_probs=5.0
Q ss_pred CCCccccCCCC
Q 009831 354 CDKSYVCSRCN 364 (524)
Q Consensus 354 ~~Kpy~C~~C~ 364 (524)
..+.+.|..|+
T Consensus 21 ~~~~w~C~~C~ 31 (40)
T PF04810_consen 21 GGKTWICNFCG 31 (40)
T ss_dssp TTTEEEETTT-
T ss_pred CCCEEECcCCC
Confidence 34445555554
No 192
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=21.81 E-value=35 Score=32.85 Aligned_cols=10 Identities=30% Similarity=0.806 Sum_probs=6.1
Q ss_pred eecc-CCCccC
Q 009831 386 WLCS-CGTTFS 395 (524)
Q Consensus 386 y~C~-Cgk~F~ 395 (524)
+.|. ||++++
T Consensus 44 ~~C~~CgYR~~ 54 (201)
T COG1779 44 GVCERCGYRST 54 (201)
T ss_pred EEccccCCccc
Confidence 5566 666654
No 193
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.67 E-value=51 Score=28.80 Aligned_cols=14 Identities=14% Similarity=0.363 Sum_probs=10.9
Q ss_pred cceecCCCCCccCC
Q 009831 269 HTHFCTICGKGFKR 282 (524)
Q Consensus 269 k~~~C~~CgK~F~~ 282 (524)
-.++|..||..|..
T Consensus 69 ~~~~C~~Cg~~~~~ 82 (113)
T PRK12380 69 AQAWCWDCSQVVEI 82 (113)
T ss_pred cEEEcccCCCEEec
Confidence 34889999988754
No 194
>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=21.59 E-value=76 Score=29.13 Aligned_cols=7 Identities=43% Similarity=1.298 Sum_probs=4.0
Q ss_pred cccCCCC
Q 009831 358 YVCSRCN 364 (524)
Q Consensus 358 y~C~~C~ 364 (524)
|.|..||
T Consensus 113 l~C~~Cg 119 (146)
T PF07295_consen 113 LVCENCG 119 (146)
T ss_pred EecccCC
Confidence 5555555
No 195
>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=21.06 E-value=38 Score=33.89 Aligned_cols=89 Identities=16% Similarity=0.299 Sum_probs=42.1
Q ss_pred cccccCCCCCcccCcCcCCccccchhhccc-cceeeecCCC--ccccCCCCCccccChhhhhhhhcccCCCceecc-CCC
Q 009831 317 IKRYSCPYAGCKRNKDHKKFQPLKTILCVK-NHYKRTHCDK--SYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGT 392 (524)
Q Consensus 317 ekpy~C~~Cgc~~~~~~~~~k~f~~~~~L~-~H~~~h~~~K--py~C~~C~~K~F~~~s~L~~H~rHtgekpy~C~-Cgk 392 (524)
.+-|+|.+|. .|.-...-|.+-..-..|. .-+++..|.| .|.|..|. -.|-.-...++-.+-...+++.|+ ||.
T Consensus 140 Grif~CsfC~-~flCEDDQFEHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK-~cfCddHvrrKg~ky~k~k~~PCPKCg~ 217 (314)
T PF06524_consen 140 GRIFKCSFCD-NFLCEDDQFEHQASCQVLESETFKCQSCNRLGQYSCLRCK-ICFCDDHVRRKGFKYEKGKPIPCPKCGY 217 (314)
T ss_pred CeEEEeecCC-Ceeeccchhhhhhhhhhhhcccccccccccccchhhhhee-eeehhhhhhhcccccccCCCCCCCCCCC
Confidence 3789999987 2221111111111111111 1234444433 35555554 334322111111122334789999 998
Q ss_pred ccCChhHHHHHHHhh
Q 009831 393 TFSRKDKLFGHIALF 407 (524)
Q Consensus 393 ~F~~ks~L~~H~r~H 407 (524)
-...-..|..-.|+|
T Consensus 218 et~eTkdLSmStR~h 232 (314)
T PF06524_consen 218 ETQETKDLSMSTRSH 232 (314)
T ss_pred cccccccceeeeecc
Confidence 877777776555555
No 196
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.06 E-value=70 Score=36.56 Aligned_cols=11 Identities=27% Similarity=0.742 Sum_probs=8.0
Q ss_pred ecc-CCCccCCh
Q 009831 387 LCS-CGTTFSRK 397 (524)
Q Consensus 387 ~C~-Cgk~F~~k 397 (524)
.|. ||....+.
T Consensus 43 fC~~CG~~~~~~ 54 (645)
T PRK14559 43 HCPNCGAETGTI 54 (645)
T ss_pred cccccCCcccch
Confidence 588 99877654
No 197
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=20.96 E-value=50 Score=28.27 Aligned_cols=9 Identities=44% Similarity=1.257 Sum_probs=4.8
Q ss_pred ccccCCCCC
Q 009831 318 KRYSCPYAG 326 (524)
Q Consensus 318 kpy~C~~Cg 326 (524)
+.|.|+.||
T Consensus 21 k~FtCp~Cg 29 (104)
T COG4888 21 KTFTCPRCG 29 (104)
T ss_pred ceEecCccC
Confidence 445555555
No 198
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=20.82 E-value=49 Score=30.49 Aligned_cols=7 Identities=43% Similarity=1.436 Sum_probs=3.7
Q ss_pred ceecc-CC
Q 009831 385 KWLCS-CG 391 (524)
Q Consensus 385 py~C~-Cg 391 (524)
.|.|. |+
T Consensus 140 ~YrC~~C~ 147 (156)
T COG3091 140 VYRCGKCG 147 (156)
T ss_pred eEEeccCC
Confidence 45555 54
No 199
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.30 E-value=59 Score=29.32 Aligned_cols=10 Identities=20% Similarity=0.913 Sum_probs=4.6
Q ss_pred cccCCCCCccc
Q 009831 358 YVCSRCNTKKF 368 (524)
Q Consensus 358 y~C~~C~~K~F 368 (524)
+.|..|| ..|
T Consensus 71 ~~C~~CG-~~~ 80 (135)
T PRK03824 71 LKCRNCG-NEW 80 (135)
T ss_pred EECCCCC-CEE
Confidence 4444444 444
No 200
>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=20.30 E-value=53 Score=20.69 Aligned_cols=10 Identities=30% Similarity=0.594 Sum_probs=8.2
Q ss_pred cceecCCCCC
Q 009831 269 HTHFCTICGK 278 (524)
Q Consensus 269 k~~~C~~CgK 278 (524)
-.|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4599999985
Done!