Query 012364
Match_columns 465
No_of_seqs 455 out of 3131
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 01:52:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012364.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012364hhsearch_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 7.3E-26 1.6E-30 216.4 4.0 137 267-437 127-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.4E-23 3.1E-28 200.7 6.5 133 240-406 130-265 (279)
3 KOG1074 Transcriptional repres 99.8 1.9E-19 4.1E-24 192.2 5.1 86 357-443 605-696 (958)
4 KOG3608 Zn finger proteins [Ge 99.7 3.2E-17 7E-22 160.7 4.9 168 255-440 192-377 (467)
5 KOG1074 Transcriptional repres 99.7 1.2E-16 2.7E-21 170.9 7.2 64 386-452 880-944 (958)
6 KOG3576 Ovo and related transc 99.6 1.6E-15 3.5E-20 139.0 6.2 112 267-410 114-238 (267)
7 KOG3576 Ovo and related transc 99.6 4.4E-16 9.5E-21 142.7 0.4 112 318-440 116-237 (267)
8 KOG3608 Zn finger proteins [Ge 99.5 2.4E-15 5.3E-20 147.6 2.6 155 270-443 177-350 (467)
9 KOG3623 Homeobox transcription 99.4 3.9E-14 8.4E-19 149.6 2.7 106 270-406 210-331 (1007)
10 KOG3623 Homeobox transcription 99.3 1.5E-13 3.3E-18 145.2 0.8 79 355-437 892-972 (1007)
11 PLN03086 PRLI-interacting fact 99.0 8.1E-10 1.7E-14 118.0 7.7 99 318-437 452-562 (567)
12 PLN03086 PRLI-interacting fact 99.0 9.4E-10 2E-14 117.5 7.5 81 358-447 454-545 (567)
13 PHA00733 hypothetical protein 98.9 6E-10 1.3E-14 98.1 3.3 98 337-440 20-124 (128)
14 PHA00733 hypothetical protein 98.8 6E-09 1.3E-13 91.8 4.1 84 318-409 39-124 (128)
15 PHA02768 hypothetical protein; 98.6 1.1E-08 2.4E-13 75.7 1.8 41 386-431 6-47 (55)
16 PHA02768 hypothetical protein; 98.6 3.2E-08 6.9E-13 73.4 2.9 42 357-401 5-48 (55)
17 KOG3993 Transcription factor ( 98.3 3.1E-07 6.7E-12 93.1 3.0 128 318-457 266-446 (500)
18 PF13465 zf-H2C2_2: Zinc-finge 98.3 4.6E-07 9.9E-12 57.3 1.7 24 373-396 1-26 (26)
19 PHA00616 hypothetical protein 98.0 3E-06 6.5E-11 60.0 1.3 27 270-296 1-27 (44)
20 PHA00616 hypothetical protein 97.9 3.8E-06 8.3E-11 59.4 1.3 29 385-413 1-30 (44)
21 PHA00732 hypothetical protein 97.9 1.1E-05 2.3E-10 65.1 3.1 45 357-407 1-47 (79)
22 PHA00732 hypothetical protein 97.7 2.1E-05 4.6E-10 63.3 3.1 45 385-438 1-47 (79)
23 KOG3993 Transcription factor ( 97.7 6.8E-06 1.5E-10 83.6 -0.2 152 270-437 295-480 (500)
24 PF13465 zf-H2C2_2: Zinc-finge 97.7 1.9E-05 4.1E-10 49.9 1.6 21 285-326 1-21 (26)
25 PF00096 zf-C2H2: Zinc finger, 97.6 4.9E-05 1.1E-09 46.2 2.2 23 271-293 1-23 (23)
26 COG5189 SFP1 Putative transcri 97.5 2E-05 4.2E-10 77.6 0.1 51 354-405 346-419 (423)
27 PF05605 zf-Di19: Drought indu 97.5 0.00012 2.6E-09 54.5 4.3 48 357-408 2-53 (54)
28 COG5189 SFP1 Putative transcri 97.4 4.2E-05 9.1E-10 75.3 0.3 56 317-381 347-421 (423)
29 PF00096 zf-C2H2: Zinc finger, 97.2 0.00017 3.7E-09 43.8 1.8 22 386-407 1-23 (23)
30 PF13894 zf-C2H2_4: C2H2-type 97.1 0.00043 9.4E-09 41.9 2.7 24 271-294 1-24 (24)
31 PF13912 zf-C2H2_6: C2H2-type 96.9 0.00058 1.3E-08 43.1 1.8 26 270-295 1-26 (27)
32 PF05605 zf-Di19: Drought indu 96.7 0.0021 4.5E-08 47.9 3.6 50 385-439 2-53 (54)
33 PF13894 zf-C2H2_4: C2H2-type 96.6 0.0014 3.1E-08 39.5 2.2 22 386-407 1-23 (24)
34 KOG2231 Predicted E3 ubiquitin 96.5 0.0031 6.8E-08 68.9 4.8 44 359-407 184-235 (669)
35 COG5048 FOG: Zn-finger [Genera 96.4 0.0016 3.5E-08 66.9 2.1 150 269-449 288-452 (467)
36 smart00355 ZnF_C2H2 zinc finge 96.3 0.0039 8.5E-08 38.0 2.5 24 271-294 1-24 (26)
37 PF13912 zf-C2H2_6: C2H2-type 96.3 0.0026 5.6E-08 40.1 1.7 21 358-379 2-22 (27)
38 PF12756 zf-C2H2_2: C2H2 type 96.2 0.0026 5.7E-08 52.4 2.1 24 272-295 1-24 (100)
39 PF12756 zf-C2H2_2: C2H2 type 96.1 0.004 8.7E-08 51.3 2.4 23 385-407 50-73 (100)
40 PRK04860 hypothetical protein; 95.8 0.0039 8.4E-08 57.1 1.4 37 357-398 119-157 (160)
41 smart00355 ZnF_C2H2 zinc finge 95.7 0.0086 1.9E-07 36.4 2.4 22 386-407 1-23 (26)
42 PF09237 GAGA: GAGA factor; I 95.7 0.0082 1.8E-07 43.7 2.3 30 382-411 21-51 (54)
43 KOG1146 Homeobox protein [Gene 95.5 0.0045 9.7E-08 71.4 0.8 54 315-379 461-539 (1406)
44 PF12874 zf-met: Zinc-finger o 95.5 0.0092 2E-07 36.8 1.7 23 271-293 1-23 (25)
45 PF09237 GAGA: GAGA factor; I 95.1 0.016 3.5E-07 42.2 2.3 31 354-385 21-52 (54)
46 PRK04860 hypothetical protein; 94.5 0.025 5.3E-07 51.8 2.6 33 269-326 118-150 (160)
47 PF13909 zf-H2C2_5: C2H2-type 94.1 0.04 8.7E-07 33.6 2.1 23 271-294 1-23 (24)
48 PF12171 zf-C2H2_jaz: Zinc-fin 94.0 0.016 3.4E-07 36.7 0.1 22 271-292 2-23 (27)
49 KOG1146 Homeobox protein [Gene 93.7 0.02 4.3E-07 66.3 0.3 77 360-437 439-540 (1406)
50 KOG2231 Predicted E3 ubiquitin 93.2 0.077 1.7E-06 58.4 3.8 94 338-439 123-236 (669)
51 PF13909 zf-H2C2_5: C2H2-type 92.3 0.1 2.2E-06 31.8 1.9 21 386-407 1-22 (24)
52 PF12874 zf-met: Zinc-finger o 92.1 0.096 2.1E-06 32.1 1.6 21 358-379 1-21 (25)
53 COG5048 FOG: Zn-finger [Genera 91.7 0.15 3.2E-06 52.4 3.4 120 318-448 288-421 (467)
54 PF12171 zf-C2H2_jaz: Zinc-fin 89.9 0.13 2.9E-06 32.3 0.7 21 358-379 2-22 (27)
55 smart00451 ZnF_U1 U1-like zinc 89.6 0.29 6.3E-06 32.4 2.2 23 270-292 3-25 (35)
56 KOG2482 Predicted C2H2-type Zn 89.5 0.34 7.3E-06 48.9 3.5 23 270-292 195-217 (423)
57 PF13913 zf-C2HC_2: zinc-finge 88.5 0.42 9.2E-06 29.7 2.2 21 271-292 3-23 (25)
58 TIGR00622 ssl1 transcription f 87.7 0.77 1.7E-05 39.4 4.1 45 360-407 58-104 (112)
59 KOG4173 Alpha-SNAP protein [In 87.2 0.19 4.1E-06 47.2 0.2 77 318-406 78-168 (253)
60 COG5236 Uncharacterized conser 86.4 0.76 1.6E-05 46.5 3.8 25 271-295 152-178 (493)
61 PF13913 zf-C2HC_2: zinc-finge 85.2 0.74 1.6E-05 28.6 2.0 18 387-405 4-22 (25)
62 KOG2785 C2H2-type Zn-finger pr 83.9 2.2 4.7E-05 43.9 5.8 26 267-292 65-90 (390)
63 smart00451 ZnF_U1 U1-like zinc 83.0 0.96 2.1E-05 29.8 2.0 22 357-379 3-24 (35)
64 TIGR00622 ssl1 transcription f 81.3 2.6 5.7E-05 36.2 4.5 78 354-438 12-104 (112)
65 PF06524 NOA36: NOA36 protein; 80.7 1.6 3.5E-05 42.6 3.4 86 351-439 136-233 (314)
66 KOG2482 Predicted C2H2-type Zn 77.8 2.1 4.6E-05 43.3 3.3 152 269-437 143-356 (423)
67 KOG2071 mRNA cleavage and poly 77.1 1.9 4.2E-05 46.7 3.0 32 265-296 413-444 (579)
68 KOG2785 C2H2-type Zn-finger pr 76.6 3.4 7.3E-05 42.6 4.4 22 271-292 4-25 (390)
69 PRK00464 nrdR transcriptional 76.2 0.72 1.6E-05 42.0 -0.4 15 358-373 29-43 (154)
70 COG4049 Uncharacterized protei 75.2 1.1 2.5E-05 33.3 0.5 28 265-292 12-39 (65)
71 PHA00626 hypothetical protein 74.5 2.4 5.2E-05 31.6 2.0 12 357-369 23-34 (59)
72 COG5236 Uncharacterized conser 73.9 2.1 4.6E-05 43.4 2.1 40 367-409 260-306 (493)
73 PF09538 FYDLN_acid: Protein o 72.9 2.4 5.1E-05 36.3 1.9 12 417-428 28-39 (108)
74 PRK00464 nrdR transcriptional 72.1 1.6 3.5E-05 39.7 0.8 17 385-401 28-45 (154)
75 COG1198 PriA Primosomal protei 70.6 3.2 7E-05 46.8 2.9 15 350-364 437-451 (730)
76 KOG2893 Zn finger protein [Gen 70.0 1.4 3.1E-05 42.3 0.0 40 360-403 13-53 (341)
77 PF01352 KRAB: KRAB box; Inte 69.9 0.17 3.7E-06 35.5 -4.7 38 157-194 1-39 (41)
78 COG3364 Zn-ribbon containing p 69.8 2.3 4.9E-05 35.7 1.1 14 270-283 2-15 (112)
79 TIGR00595 priA primosomal prot 69.1 3.1 6.6E-05 45.2 2.3 15 350-364 215-229 (505)
80 PF09538 FYDLN_acid: Protein o 68.8 3.8 8.2E-05 35.1 2.3 32 355-397 7-39 (108)
81 KOG2186 Cell growth-regulating 68.0 2.4 5.2E-05 41.3 1.0 22 356-379 28-49 (276)
82 cd00350 rubredoxin_like Rubred 67.8 3.5 7.7E-05 27.3 1.5 6 417-422 19-24 (33)
83 PF09845 DUF2072: Zn-ribbon co 67.5 3.1 6.8E-05 36.6 1.5 15 270-284 1-15 (131)
84 PF09986 DUF2225: Uncharacteri 65.6 1.1 2.3E-05 43.1 -1.9 15 414-428 47-61 (214)
85 smart00531 TFIIE Transcription 65.1 4.9 0.00011 36.1 2.4 20 267-286 96-115 (147)
86 TIGR00373 conserved hypothetic 65.1 4.4 9.6E-05 37.0 2.1 21 267-287 106-126 (158)
87 cd00729 rubredoxin_SM Rubredox 65.1 4.6 9.9E-05 27.0 1.6 12 270-281 2-13 (34)
88 COG1198 PriA Primosomal protei 65.0 3.5 7.6E-05 46.5 1.8 18 347-364 461-482 (730)
89 PRK06266 transcription initiat 65.0 4.2 9.1E-05 37.9 2.0 19 268-286 115-133 (178)
90 COG4049 Uncharacterized protei 64.5 3 6.5E-05 31.1 0.7 24 355-379 15-38 (65)
91 PRK14873 primosome assembly pr 64.2 4.1 8.9E-05 45.7 2.1 16 349-364 384-399 (665)
92 TIGR00373 conserved hypothetic 63.5 7.1 0.00015 35.6 3.2 33 380-424 104-137 (158)
93 KOG2807 RNA polymerase II tran 63.2 9.7 0.00021 38.5 4.2 54 353-407 286-368 (378)
94 PF02892 zf-BED: BED zinc fing 63.0 6 0.00013 27.7 2.1 25 267-291 13-41 (45)
95 COG2888 Predicted Zn-ribbon RN 60.8 3.3 7.2E-05 31.3 0.4 10 355-364 48-57 (61)
96 smart00614 ZnF_BED BED zinc fi 60.3 7.3 0.00016 28.2 2.1 25 270-294 18-48 (50)
97 COG1592 Rubrerythrin [Energy p 59.4 5.2 0.00011 36.8 1.5 11 354-364 146-156 (166)
98 TIGR02300 FYDLN_acid conserved 57.9 7.3 0.00016 34.1 2.1 14 384-397 25-39 (129)
99 TIGR02300 FYDLN_acid conserved 57.6 8.8 0.00019 33.7 2.5 33 386-432 10-43 (129)
100 PRK06266 transcription initiat 55.3 9.8 0.00021 35.5 2.6 31 383-425 115-146 (178)
101 TIGR00595 priA primosomal prot 54.8 8.1 0.00018 41.9 2.3 17 348-364 240-260 (505)
102 PF04216 FdhE: Protein involve 54.5 3.5 7.7E-05 41.3 -0.5 7 320-326 173-179 (290)
103 PRK14873 primosome assembly pr 54.0 7.7 0.00017 43.6 2.0 34 320-364 384-417 (665)
104 PF09986 DUF2225: Uncharacteri 53.9 7.3 0.00016 37.4 1.6 9 318-326 4-12 (214)
105 TIGR02605 CxxC_CxxC_SSSS putat 53.9 4.2 9E-05 29.6 -0.1 14 270-283 5-18 (52)
106 COG1996 RPC10 DNA-directed RNA 53.9 6.2 0.00013 28.8 0.8 12 269-280 5-16 (49)
107 KOG2893 Zn finger protein [Gen 53.8 6.2 0.00013 38.2 1.0 46 383-436 9-55 (341)
108 PRK14714 DNA polymerase II lar 53.6 14 0.0003 43.9 3.9 7 320-326 668-674 (1337)
109 TIGR02098 MJ0042_CXXC MJ0042 f 53.3 8.3 0.00018 26.0 1.4 6 321-326 4-9 (38)
110 PF10571 UPF0547: Uncharacteri 52.9 11 0.00023 23.7 1.7 10 417-426 16-25 (26)
111 COG1592 Rubrerythrin [Energy p 52.5 7.8 0.00017 35.7 1.5 23 357-392 134-157 (166)
112 PF05443 ROS_MUCR: ROS/MUCR tr 51.8 10 0.00022 33.7 2.0 27 267-296 69-95 (132)
113 PRK04023 DNA polymerase II lar 50.9 13 0.00029 43.1 3.2 10 270-279 626-635 (1121)
114 PRK14890 putative Zn-ribbon RN 50.5 6.5 0.00014 29.8 0.5 9 318-326 24-32 (59)
115 COG1997 RPL43A Ribosomal prote 50.0 6.6 0.00014 32.1 0.5 9 386-394 54-63 (89)
116 PRK05580 primosome assembly pr 49.9 9.9 0.00021 42.9 2.1 16 349-364 382-397 (679)
117 PF15135 UPF0515: Uncharacteri 49.4 15 0.00032 35.9 2.8 64 282-371 91-168 (278)
118 smart00659 RPOLCX RNA polymera 49.1 12 0.00026 26.7 1.6 13 270-282 2-14 (44)
119 COG1997 RPL43A Ribosomal prote 48.8 14 0.0003 30.2 2.2 32 318-370 34-65 (89)
120 KOG4167 Predicted DNA-binding 48.0 4.3 9.2E-05 45.1 -1.1 23 271-293 793-815 (907)
121 KOG2186 Cell growth-regulating 47.4 6.7 0.00014 38.3 0.2 51 270-354 3-53 (276)
122 PF06524 NOA36: NOA36 protein; 46.2 6.9 0.00015 38.4 0.1 90 316-407 139-232 (314)
123 PRK05580 primosome assembly pr 45.9 13 0.00029 41.9 2.3 17 348-364 408-428 (679)
124 PF09416 UPF1_Zn_bind: RNA hel 45.7 16 0.00035 33.1 2.4 7 320-326 1-7 (152)
125 TIGR00280 L37a ribosomal prote 45.6 5.5 0.00012 32.9 -0.6 11 385-395 53-64 (91)
126 PRK09678 DNA-binding transcrip 45.3 6.5 0.00014 31.1 -0.2 6 321-326 3-8 (72)
127 KOG0978 E3 ubiquitin ligase in 45.3 15 0.00032 41.2 2.5 19 417-435 680-698 (698)
128 smart00531 TFIIE Transcription 45.1 23 0.0005 31.8 3.3 12 385-396 99-111 (147)
129 PF05443 ROS_MUCR: ROS/MUCR tr 44.1 11 0.00023 33.5 0.9 10 359-369 74-83 (132)
130 KOG4124 Putative transcription 43.9 6.4 0.00014 40.1 -0.5 28 267-295 210-238 (442)
131 PRK00398 rpoP DNA-directed RNA 43.8 18 0.00038 25.7 1.9 9 318-326 2-10 (46)
132 PF12760 Zn_Tnp_IS1595: Transp 43.3 21 0.00045 25.4 2.2 10 355-364 35-44 (46)
133 PF13719 zinc_ribbon_5: zinc-r 43.1 17 0.00036 24.7 1.6 8 357-364 25-32 (37)
134 PF13717 zinc_ribbon_4: zinc-r 42.9 18 0.00039 24.5 1.7 9 386-394 26-35 (36)
135 KOG1280 Uncharacterized conser 40.6 13 0.00028 38.0 1.0 22 357-379 79-100 (381)
136 COG5151 SSL1 RNA polymerase II 40.3 24 0.00052 35.6 2.8 25 383-407 386-411 (421)
137 PRK03564 formate dehydrogenase 39.7 15 0.00032 37.4 1.3 9 318-326 186-194 (309)
138 PTZ00255 60S ribosomal protein 39.6 18 0.0004 29.8 1.6 9 318-326 35-43 (90)
139 COG3357 Predicted transcriptio 39.1 21 0.00046 29.4 1.9 13 384-396 57-70 (97)
140 PF03604 DNA_RNApol_7kD: DNA d 38.9 26 0.00057 23.2 2.0 9 386-394 1-10 (32)
141 PF04959 ARS2: Arsenite-resist 38.9 16 0.00035 35.1 1.4 27 267-293 74-100 (214)
142 PRK04023 DNA polymerase II lar 38.8 25 0.00054 40.9 3.0 9 318-326 625-633 (1121)
143 KOG4173 Alpha-SNAP protein [In 38.8 5.8 0.00013 37.5 -1.6 78 270-382 79-172 (253)
144 TIGR01562 FdhE formate dehydro 38.6 16 0.00036 37.0 1.4 72 322-427 187-264 (305)
145 smart00734 ZnF_Rad18 Rad18-lik 38.5 28 0.0006 21.8 1.9 20 271-291 2-21 (26)
146 PF12013 DUF3505: Protein of u 38.4 27 0.00058 29.5 2.6 25 271-295 81-109 (109)
147 COG4957 Predicted transcriptio 37.8 18 0.00038 32.1 1.3 23 271-296 77-99 (148)
148 PF15269 zf-C2H2_7: Zinc-finge 37.7 22 0.00047 25.4 1.5 21 386-406 21-42 (54)
149 PF01780 Ribosomal_L37ae: Ribo 36.9 17 0.00036 30.1 1.0 9 318-326 34-42 (90)
150 KOG2593 Transcription initiati 36.3 13 0.00027 39.2 0.2 37 353-392 124-161 (436)
151 PF03833 PolC_DP2: DNA polymer 36.1 12 0.00026 42.6 0.0 7 320-326 656-662 (900)
152 COG2331 Uncharacterized protei 35.3 10 0.00022 30.2 -0.5 9 386-394 13-22 (82)
153 PRK12496 hypothetical protein; 35.2 25 0.00055 32.2 2.0 9 386-394 128-137 (164)
154 PF14353 CpXC: CpXC protein 34.7 33 0.00072 29.7 2.6 20 357-377 38-57 (128)
155 COG3677 Transposase and inacti 33.3 14 0.00031 32.5 0.1 14 356-370 52-65 (129)
156 PF09723 Zn-ribbon_8: Zinc rib 32.6 24 0.00053 24.6 1.1 10 355-364 24-33 (42)
157 COG1571 Predicted DNA-binding 32.4 23 0.0005 37.3 1.4 29 359-398 352-381 (421)
158 PF12013 DUF3505: Protein of u 32.3 33 0.00072 28.9 2.1 25 269-294 10-34 (109)
159 PRK03976 rpl37ae 50S ribosomal 31.8 28 0.0006 28.8 1.5 9 318-326 35-43 (90)
160 PF15269 zf-C2H2_7: Zinc-finge 31.6 42 0.00091 24.0 2.1 26 267-292 17-42 (54)
161 TIGR00244 transcriptional regu 30.5 25 0.00054 31.7 1.1 17 357-374 28-44 (147)
162 COG1327 Predicted transcriptio 30.3 16 0.00035 33.0 -0.1 17 356-373 27-43 (156)
163 PRK03824 hypA hydrogenase nick 30.3 22 0.00047 31.6 0.7 15 269-283 69-83 (135)
164 KOG4124 Putative transcription 30.2 16 0.00034 37.4 -0.3 25 413-437 396-420 (442)
165 PF08271 TF_Zn_Ribbon: TFIIB z 30.1 38 0.00083 23.6 1.8 9 356-364 18-26 (43)
166 KOG0717 Molecular chaperone (D 29.9 27 0.00059 37.1 1.4 22 271-292 293-314 (508)
167 PRK14714 DNA polymerase II lar 29.9 42 0.00092 40.1 3.0 10 270-279 667-676 (1337)
168 COG4530 Uncharacterized protei 29.8 27 0.00058 29.8 1.1 12 383-394 24-36 (129)
169 PF04959 ARS2: Arsenite-resist 29.1 23 0.0005 34.1 0.7 28 354-382 74-103 (214)
170 COG0068 HypF Hydrogenase matur 29.1 10 0.00023 42.2 -1.8 29 359-393 153-182 (750)
171 COG1327 Predicted transcriptio 28.9 28 0.0006 31.5 1.1 13 385-397 28-41 (156)
172 PRK14559 putative protein seri 27.3 41 0.00088 37.8 2.3 11 387-397 43-54 (645)
173 smart00440 ZnF_C2C2 C2C2 Zinc 26.9 34 0.00073 23.7 1.0 12 357-369 28-39 (40)
174 COG4957 Predicted transcriptio 26.5 40 0.00086 29.9 1.6 12 400-411 89-100 (148)
175 PF07295 DUF1451: Protein of u 26.3 43 0.00093 30.2 1.8 6 417-422 132-137 (146)
176 PF13878 zf-C2H2_3: zinc-finge 25.4 72 0.0016 22.2 2.5 24 271-294 14-39 (41)
177 KOG3002 Zn finger protein [Gen 25.2 60 0.0013 32.9 2.9 102 318-437 47-161 (299)
178 PRK12380 hydrogenase nickel in 25.1 40 0.00088 28.9 1.4 14 269-282 69-82 (113)
179 KOG2907 RNA polymerase I trans 24.9 41 0.00089 28.9 1.4 13 271-283 26-38 (116)
180 COG4888 Uncharacterized Zn rib 24.3 41 0.00088 28.3 1.2 10 317-326 20-29 (104)
181 smart00731 SprT SprT homologue 24.1 34 0.00073 30.5 0.8 8 319-326 112-119 (146)
182 KOG2636 Splicing factor 3a, su 24.1 47 0.001 35.2 1.9 25 267-291 398-423 (497)
183 PF07295 DUF1451: Protein of u 23.8 58 0.0012 29.4 2.2 11 316-326 109-119 (146)
184 PF01155 HypA: Hydrogenase exp 23.7 36 0.00078 29.1 0.8 15 269-283 69-83 (113)
185 smart00834 CxxC_CXXC_SSSS Puta 23.7 40 0.00086 22.8 0.9 14 270-283 5-18 (41)
186 COG3091 SprT Zn-dependent meta 22.9 38 0.00082 30.7 0.8 8 385-392 140-148 (156)
187 COG1655 Uncharacterized protei 22.3 16 0.00035 35.3 -1.7 30 267-296 16-45 (267)
188 KOG0402 60S ribosomal protein 22.2 38 0.00082 27.5 0.6 7 320-326 37-43 (92)
189 PF05191 ADK_lid: Adenylate ki 21.6 46 0.001 22.5 0.9 9 386-394 2-11 (36)
190 PF11672 DUF3268: Protein of u 21.5 39 0.00084 28.6 0.6 9 318-326 1-9 (102)
191 PF09332 Mcm10: Mcm10 replicat 21.1 48 0.001 34.2 1.3 39 356-395 251-296 (344)
192 PF07754 DUF1610: Domain of un 20.9 52 0.0011 20.4 0.9 10 269-278 15-24 (24)
193 PF09416 UPF1_Zn_bind: RNA hel 20.9 96 0.0021 28.2 3.0 50 269-328 13-69 (152)
194 TIGR00100 hypA hydrogenase nic 20.7 56 0.0012 28.1 1.5 14 269-282 69-82 (115)
195 PRK00564 hypA hydrogenase nick 20.4 58 0.0012 28.1 1.4 14 269-282 70-83 (117)
196 PF14690 zf-ISL3: zinc-finger 20.3 63 0.0014 22.5 1.4 9 318-326 1-9 (47)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.92 E-value=7.3e-26 Score=216.35 Aligned_cols=137 Identities=23% Similarity=0.398 Sum_probs=125.1
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccchhhhhhc
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVK 346 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~ 346 (465)
....|+|..|||.|.+..+|.+|..+|..- ...+.|.|++|| +.|...-.|+
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 345699999999999999999999999543 112789999999 9999999999
Q ss_pred cceeeeccCCccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 012364 347 NHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLA 424 (465)
Q Consensus 347 ~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~ 424 (465)
.|+++|. -+++|.+|| |.|++..-|+.|+| |+|||||.|. |+|.|..+++|+.||++|.+.|+| .|+.|+|.
T Consensus 179 MHirTH~--l~c~C~iCG-KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~---qC~~C~Ks 252 (279)
T KOG2462|consen 179 MHIRTHT--LPCECGICG-KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKH---QCPRCGKS 252 (279)
T ss_pred hHhhccC--CCccccccc-ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccc---cCcchhhH
Confidence 9999987 689999999 99999999999999 9999999999 999999999999999999998755 79999999
Q ss_pred CCCChhhhhhhcc
Q 012364 425 GPSDRREGNEATS 437 (465)
Q Consensus 425 F~~~~~L~~H~~~ 437 (465)
|+..+.|.+|...
T Consensus 253 Fsl~SyLnKH~ES 265 (279)
T KOG2462|consen 253 FALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHHhhhh
Confidence 9999999999854
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.88 E-value=1.4e-23 Score=200.66 Aligned_cols=133 Identities=23% Similarity=0.434 Sum_probs=118.8
Q ss_pred CCCCcccCCCCCCCChhhhhhhhhhc-cCCcceecCCCCCccCCHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccc
Q 012364 240 DEDDADDGEQLPPGSYEILQLEKEEI-LAPHTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIK 318 (465)
Q Consensus 240 ~e~~~e~~~~~~~~s~~~~~~~~~~~-~~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ek 318 (465)
...|.+|++.+...+.+..|.+.+.. ...+.+.|++|||.|..-..|++|+|+|+ -
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~-----------------------l 186 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT-----------------------L 186 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC-----------------------C
Confidence 45688899988876666666555433 34677999999999999999999999995 5
Q ss_pred cccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCC
Q 012364 319 RYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSR 396 (465)
Q Consensus 319 py~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~ 396 (465)
+++|.+|| +.|.+.--|..|++.|+++|||.|..|+ |.|..+++|+.||. |.+.|+|+|. |+|+|++
T Consensus 187 ~c~C~iCG----------KaFSRPWLLQGHiRTHTGEKPF~C~hC~-kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 187 PCECGICG----------KAFSRPWLLQGHIRTHTGEKPFSCPHCG-KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred Cccccccc----------ccccchHHhhcccccccCCCCccCCccc-chhcchHHHHHHHHhhcCCccccCcchhhHHHH
Confidence 79999999 8899888999999999999999999999 99999999999999 9999999999 9999999
Q ss_pred hhHHHHHHHh
Q 012364 397 KDKLFGHIAL 406 (465)
Q Consensus 397 ~s~L~~H~r~ 406 (465)
++.|.+|...
T Consensus 256 ~SyLnKH~ES 265 (279)
T KOG2462|consen 256 KSYLNKHSES 265 (279)
T ss_pred HHHHHHhhhh
Confidence 9999999874
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.77 E-value=1.9e-19 Score=192.20 Aligned_cols=86 Identities=21% Similarity=0.405 Sum_probs=78.6
Q ss_pred ccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHHHHHHhhcCCCCC-CCCCCC---CCCCCCCCChh
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPA-IPLDET---IKGLAGPSDRR 430 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~-~~~~C~---~Cg~~F~~~~~ 430 (465)
|-.|-+|- |..+-++.|+.|.| |+||+||+|. ||+.|+++.+|+.||-+|...-++ .++.|+ ||-+.|...-.
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 45799999 99999999999999 9999999999 999999999999999999766554 478999 99999999999
Q ss_pred hhhhhcccCCCCC
Q 012364 431 EGNEATSKIGSTN 443 (465)
Q Consensus 431 L~~H~~~h~g~~~ 443 (465)
|..|+|.|.|...
T Consensus 684 lpQhIriH~~~~~ 696 (958)
T KOG1074|consen 684 LPQHIRIHLGGQI 696 (958)
T ss_pred ccceEEeecCCCC
Confidence 9999999986543
No 4
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.67 E-value=3.2e-17 Score=160.71 Aligned_cols=168 Identities=18% Similarity=0.284 Sum_probs=141.8
Q ss_pred hhhhhhhhhhccCCcceecCCCCCccCCHHHHHHHHHHhCCC-------------CCChhhhhcccccCCCCcCcccccc
Q 012364 255 YEILQLEKEEILAPHTHFCTICGKGFKRDANLRMHMRGHGDE-------------YKTPAALAKPHKESSSEPMLIKRYS 321 (465)
Q Consensus 255 ~~~~~~~~~~~~~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~e-------------f~~~~~L~~H~~~h~~~h~~ekpy~ 321 (465)
...+..+.+.+.++|...|+.||.-|.++..|-.|.|.-+.- |.+...|..|+..|. .-|+
T Consensus 192 k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv------n~yk 265 (467)
T KOG3608|consen 192 KYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV------NCYK 265 (467)
T ss_pred HHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh------hccc
Confidence 334455566777889999999999999999999998765432 788888999988775 6699
Q ss_pred CCCCCCCCCcccCCcccchhhhhhcccee-eeccCCccccCCCCCCccCChhhHHHHHh-hcCCCccccC---CCCccCC
Q 012364 322 CPYAGCKRNKDHKKFQPLKTILCVKNHYK-RTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS---CGTTFSR 396 (465)
Q Consensus 322 C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k-~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~---Cgk~F~~ 396 (465)
||.|. ........|.+|++ +|..+|||+|+.|+ +.|.+.++|.+|.. |. +..|.|. |...|++
T Consensus 266 CplCd----------mtc~~~ssL~~H~r~rHs~dkpfKCd~Cd-~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~ 333 (467)
T KOG3608|consen 266 CPLCD----------MTCSSASSLTTHIRYRHSKDKPFKCDECD-TRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRT 333 (467)
T ss_pred ccccc----------cCCCChHHHHHHHHhhhccCCCccccchh-hhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHH
Confidence 99999 77888888999987 45668999999999 99999999999999 88 6789997 9999999
Q ss_pred hhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhhhhhcccCC
Q 012364 397 KDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEATSKIG 440 (465)
Q Consensus 397 ~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~~h~g 440 (465)
...|++|++-|+...-..+|.|..|.+.|.+...|..|+++.++
T Consensus 334 ~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 334 YTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred HHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhc
Confidence 99999999976644445579999999999999999999987544
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.65 E-value=1.2e-16 Score=170.91 Aligned_cols=64 Identities=17% Similarity=0.137 Sum_probs=58.1
Q ss_pred cccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhhhhhcccCCCCCCCCCCCCCC
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEATSKIGSTNFNFGSSVPN 452 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~~h~g~~~~s~~ss~s~ 452 (465)
..|. ||+.|...+.|..|+|+|+|+||+ .|.+|++.|.++..|+.||..|....+++--+..+.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF---~C~fC~~aFttrgnLKvHMgtH~w~q~~srrG~~~~ 944 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPF---FCHFCEEAFTTRGNLKVHMGTHMWVQPPSRRGPSPF 944 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCc---cchhhhhhhhhhhhhhhhhccccccCCCccCCCCcc
Confidence 5799 999999999999999999999885 799999999999999999999999988887765543
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.58 E-value=1.6e-15 Score=139.00 Aligned_cols=112 Identities=29% Similarity=0.591 Sum_probs=93.9
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccchhhhhhc
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVK 346 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~ 346 (465)
+...|.|.+|||.|.....|.+||+-|... |+|-|..|| +.|.....|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~v---------------------kr~lct~cg----------kgfndtfdlk 162 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDV---------------------KRHLCTFCG----------KGFNDTFDLK 162 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHH---------------------HHHHHhhcc----------Ccccchhhhh
Confidence 345699999999999999999999988776 889999999 7777888889
Q ss_pred cceeeeccCCccccCCCCCCccCChhhHHHHHh--hc----------CCCccccC-CCCccCChhHHHHHHHhhcCC
Q 012364 347 NHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--HC----------GKDKWLCS-CGTTFSRKDKLFGHIALFQGH 410 (465)
Q Consensus 347 ~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~--H~----------gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~ 410 (465)
+|+++|++.+||+|..|+ |.|..+..|..|.+ |. .+|.|.|. ||.+-.+...+..|++.|+..
T Consensus 163 rh~rthtgvrpykc~~c~-kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 163 RHTRTHTGVRPYKCSLCE-KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred hhhccccCccccchhhhh-HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 999999999999999998 99999999999987 53 24668888 888888888888888877543
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.56 E-value=4.4e-16 Score=142.70 Aligned_cols=112 Identities=21% Similarity=0.316 Sum_probs=101.3
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccC
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFS 395 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~ 395 (465)
..|.|.+|| +.|.....|.+|++||...|.|-|..|| |.|...-+|++|+| |+|.+||+|. |+|.|.
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 8888888899999999999999999999 99999999999999 9999999999 999999
Q ss_pred ChhHHHHHHHhhcC--------CCCCCCCCCCCCCCCCCCChhhhhhhcccCC
Q 012364 396 RKDKLFGHIALFQG--------HTPAIPLDETIKGLAGPSDRREGNEATSKIG 440 (465)
Q Consensus 396 ~~s~L~~H~r~H~g--------~kp~~~~~C~~Cg~~F~~~~~L~~H~~~h~g 440 (465)
+...|..|++.-+| ++..+.|.|+.||..-.....+..|+..|+.
T Consensus 185 qrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 185 QRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred hhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 99999999874333 3345678999999999999999999988653
No 8
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.53 E-value=2.4e-15 Score=147.64 Aligned_cols=155 Identities=21% Similarity=0.372 Sum_probs=121.9
Q ss_pred ceecC--CCCCccCCHHHHHHHHHHhCCC-----------CCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCc
Q 012364 270 THFCT--ICGKGFKRDANLRMHMRGHGDE-----------YKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKF 336 (465)
Q Consensus 270 ~~~C~--~Cgk~F~~~~~L~~H~r~H~~e-----------f~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~ 336 (465)
.+.|. -|-+.|..++.|++|+|.|+++ |.++..|-.|.+.... ....+|.|..|-
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 VTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTE--LNTNSFQCAQCF---------- 244 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhh--hcCCchHHHHHH----------
Confidence 36676 4999999999999999999998 5555555555543211 112456666666
Q ss_pred ccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHh--hcCCCccccC-CCCccCChhHHHHHHHhhcCCCCC
Q 012364 337 QPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPA 413 (465)
Q Consensus 337 k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~--H~gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~ 413 (465)
+.|.+...|+.|+.+|. .-|+|+.|+ ......+.|.+|++ |...|||+|+ |++.|.+.+.|.+|+.+|+ +.
T Consensus 245 KrFaTeklL~~Hv~rHv--n~ykCplCd-mtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~-- 318 (467)
T KOG3608|consen 245 KRFATEKLLKSHVVRHV--NCYKCPLCD-MTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KT-- 318 (467)
T ss_pred HHHhHHHHHHHHHHHhh--hcccccccc-cCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-cc--
Confidence 55666666666666554 359999999 99999999999998 9999999999 9999999999999999997 33
Q ss_pred CCCCCCC--CCCCCCCChhhhhhhcccC-CCCC
Q 012364 414 IPLDETI--KGLAGPSDRREGNEATSKI-GSTN 443 (465)
Q Consensus 414 ~~~~C~~--Cg~~F~~~~~L~~H~~~h~-g~~~ 443 (465)
.|.|+. |...|.+...+++|++.++ |..|
T Consensus 319 -~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np 350 (467)
T KOG3608|consen 319 -VYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNP 350 (467)
T ss_pred -ceecCCCCCcHHHHHHHHHHHHHHHhccCCCC
Confidence 357877 9999999999999998854 6555
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.43 E-value=3.9e-14 Score=149.64 Aligned_cols=106 Identities=24% Similarity=0.540 Sum_probs=89.9
Q ss_pred ceecCCCCCccCCHHHHHHHHHH-hCCCCCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccchhhhhhccc
Q 012364 270 THFCTICGKGFKRDANLRMHMRG-HGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNH 348 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~-H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H 348 (465)
...|++|.+++++...|+.|++. |... +..|.|..|. ..|.....|.+|
T Consensus 210 lltcpycdrgykrltslkeHikyrhekn--------------------e~nfsC~lCs----------ytFAyRtQLErh 259 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKN--------------------EPNFSCMLCS----------YTFAYRTQLERH 259 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhC--------------------CCCCcchhhh----------hhhhhHHHHHHH
Confidence 36899999999999999999874 4321 2569999999 888888889999
Q ss_pred eeeeccC-------------CccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHHHHHHh
Q 012364 349 YKRTHCD-------------KSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIAL 406 (465)
Q Consensus 349 ~k~h~~~-------------Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~~H~r~ 406 (465)
+..|.-+ +.|+|.+|| |.|+.+.+|+.|+| |.|||||.|+ |+|+|+....+..||..
T Consensus 260 m~~hkpg~dqa~sltqsa~lRKFKCtECg-KAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 260 MQLHKPGGDQAISLTQSALLRKFKCTECG-KAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred HHhhcCCCcccccccchhhhccccccccc-hhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 8877643 579999999 99999999999999 9999999999 99999988888888763
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.35 E-value=1.5e-13 Score=145.20 Aligned_cols=79 Identities=24% Similarity=0.430 Sum_probs=74.3
Q ss_pred CCccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhh
Q 012364 355 DKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREG 432 (465)
Q Consensus 355 ~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~ 432 (465)
+-+|.|+.|+ |.|...+.|.+|.. |+|.+||+|. |.|.|..+..|..|+|+|.|+||| .|..|+|+|+...++.
T Consensus 892 ~gmyaCDqCD-K~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPf---QCdKClKRFSHSGSYS 967 (1007)
T KOG3623|consen 892 DGMYACDQCD-KAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPF---QCDKCLKRFSHSGSYS 967 (1007)
T ss_pred cccchHHHHH-HHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcc---hhhhhhhhcccccchH
Confidence 4589999999 99999999999999 9999999999 999999999999999999999888 6999999999999999
Q ss_pred hhhcc
Q 012364 433 NEATS 437 (465)
Q Consensus 433 ~H~~~ 437 (465)
.||.-
T Consensus 968 QHMNH 972 (1007)
T KOG3623|consen 968 QHMNH 972 (1007)
T ss_pred hhhcc
Confidence 99843
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.98 E-value=8.1e-10 Score=117.98 Aligned_cols=99 Identities=17% Similarity=0.289 Sum_probs=78.3
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccC
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFS 395 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~ 395 (465)
+.+.|+.|| +.|. ...+++|++.+| ++|.|+ || +.+ .+..|..|+. |++++++.|. |++.|.
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 456799999 6564 456788988775 899999 99 765 6689999999 9999999999 999995
Q ss_pred C----------hhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhhhhhcc
Q 012364 396 R----------KDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEATS 437 (465)
Q Consensus 396 ~----------~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~~ 437 (465)
. ...|..|..++ |.+++ .|..||+.|.. +.+..|+..
T Consensus 516 ~g~~~~d~~d~~s~Lt~HE~~C-G~rt~---~C~~Cgk~Vrl-rdm~~H~~~ 562 (567)
T PLN03086 516 AGGSAMDVRDRLRGMSEHESIC-GSRTA---PCDSCGRSVML-KEMDIHQIA 562 (567)
T ss_pred cCccccchhhhhhhHHHHHHhc-CCcce---EccccCCeeee-hhHHHHHHH
Confidence 2 45788898875 55554 79999998865 677777754
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.97 E-value=9.4e-10 Score=117.47 Aligned_cols=81 Identities=19% Similarity=0.303 Sum_probs=52.7
Q ss_pred cccCCCCCCccCChhhHHHHHh-hcCCCccccCCCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCC---------
Q 012364 358 YVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCSCGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPS--------- 427 (465)
Q Consensus 358 y~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~--------- 427 (465)
+.|+.|+ +.|. ...|..|++ |+ ++|.|+||+.| .+..|..|+++|...+++ .|..|++.|..
T Consensus 454 ~~C~~Cg-k~f~-~s~LekH~~~~H--kpv~CpCg~~~-~R~~L~~H~~thCp~Kpi---~C~fC~~~v~~g~~~~d~~d 525 (567)
T PLN03086 454 VHCEKCG-QAFQ-QGEMEKHMKVFH--EPLQCPCGVVL-EKEQMVQHQASTCPLRLI---TCRFCGDMVQAGGSAMDVRD 525 (567)
T ss_pred ccCCCCC-Cccc-hHHHHHHHHhcC--CCccCCCCCCc-chhHHHhhhhccCCCCce---eCCCCCCccccCccccchhh
Confidence 4677777 7774 566777777 53 67777777654 457777777766554444 57777777742
Q ss_pred -ChhhhhhhcccCCCCCCCCC
Q 012364 428 -DRREGNEATSKIGSTNFNFG 447 (465)
Q Consensus 428 -~~~L~~H~~~h~g~~~~s~~ 447 (465)
...|..|.... |.+++.+.
T Consensus 526 ~~s~Lt~HE~~C-G~rt~~C~ 545 (567)
T PLN03086 526 RLRGMSEHESIC-GSRTAPCD 545 (567)
T ss_pred hhhhHHHHHHhc-CCcceEcc
Confidence 23567776664 66665553
No 13
>PHA00733 hypothetical protein
Probab=98.92 E-value=6e-10 Score=98.09 Aligned_cols=98 Identities=14% Similarity=0.029 Sum_probs=73.3
Q ss_pred ccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHH--H----hhcCCCccccC-CCCccCChhHHHHHHHhhcC
Q 012364 337 QPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTH--E----KHCGKDKWLCS-CGTTFSRKDKLFGHIALFQG 409 (465)
Q Consensus 337 k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H--~----~H~gekpy~C~-Cgk~F~~~s~L~~H~r~H~g 409 (465)
..+.....|+.+.......|++.|.+|. +.|.....|..| + .+.+.+||.|. ||+.|.+...|..|+++|.
T Consensus 20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~- 97 (128)
T PHA00733 20 FIHVTLEELKRYHSLTPEQKRLIRAVVK-TLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTE- 97 (128)
T ss_pred EEecCHHHhhhhhcCChhhhhHHHHHHh-hhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCC-
Confidence 3334444444433333345789999998 888887777666 2 24568899999 9999999999999999762
Q ss_pred CCCCCCCCCCCCCCCCCCChhhhhhhcccCC
Q 012364 410 HTPAIPLDETIKGLAGPSDRREGNEATSKIG 440 (465)
Q Consensus 410 ~kp~~~~~C~~Cg~~F~~~~~L~~H~~~h~g 440 (465)
. ++.|..|++.|.....|..|+...++
T Consensus 98 -~---~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 98 -H---SKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred -c---CccCCCCCCccCCHHHHHHHHHHhcC
Confidence 2 36899999999999999999987654
No 14
>PHA00733 hypothetical protein
Probab=98.76 E-value=6e-09 Score=91.80 Aligned_cols=84 Identities=23% Similarity=0.350 Sum_probs=63.6
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccC
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFS 395 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~ 395 (465)
|++.|.+|.. .+.. ...+.....|.+|+ .++..+||.|+.|+ +.|.....|..|++ | +.+|.|. |++.|.
T Consensus 39 ~~~~~~~~~~-~~~~---~~~l~~~~~l~~~~-~~~~~kPy~C~~Cg-k~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~ 110 (128)
T PHA00733 39 KRLIRAVVKT-LIYN---PQLLDESSYLYKLL-TSKAVSPYVCPLCL-MPFSSSVSLKQHIRYT--EHSKVCPVCGKEFR 110 (128)
T ss_pred hhHHHHHHhh-hccC---hhhhcchHHHHhhc-ccCCCCCccCCCCC-CcCCCHHHHHHHHhcC--CcCccCCCCCCccC
Confidence 8899999881 1111 01222333355554 44558999999999 99999999999999 7 4679999 999999
Q ss_pred ChhHHHHHHHhhcC
Q 012364 396 RKDKLFGHIALFQG 409 (465)
Q Consensus 396 ~~s~L~~H~r~H~g 409 (465)
....|..|++..++
T Consensus 111 ~~~sL~~H~~~~h~ 124 (128)
T PHA00733 111 NTDSTLDHVCKKHN 124 (128)
T ss_pred CHHHHHHHHHHhcC
Confidence 99999999986543
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.64 E-value=1.1e-08 Score=75.73 Aligned_cols=41 Identities=15% Similarity=0.319 Sum_probs=22.2
Q ss_pred cccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRRE 431 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L 431 (465)
|.|+ |||.|++.++|..|+++|+ + +++|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k---~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--T---NLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--C---cccCCcccceeccccee
Confidence 4555 5555555555555555554 2 33455555555554444
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.59 E-value=3.2e-08 Score=73.36 Aligned_cols=42 Identities=21% Similarity=0.397 Sum_probs=38.6
Q ss_pred ccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHH
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLF 401 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~ 401 (465)
-|.|+.|| +.|+...+|..|++ |+ ++|+|. |++.|.+.+.|.
T Consensus 5 ~y~C~~CG-K~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICG-EIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhC-CeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 38999999 99999999999999 98 799999 999999887764
No 17
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.31 E-value=3.1e-07 Score=93.11 Aligned_cols=128 Identities=24% Similarity=0.415 Sum_probs=89.5
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhccceeeec-cCCccccCCCCCCccCChhhHHHHHh-hc--------CC----
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTH-CDKSYVCSRCNTKKFSVIADLKTHEK-HC--------GK---- 383 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~-~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~--------ge---- 383 (465)
.-|.|..|. ..|.....|..| +|.. -.--|+|++|+ |.|+-..+|..|.| |. +.
T Consensus 266 GdyiCqLCK----------~kYeD~F~LAQH-rC~RIV~vEYrCPEC~-KVFsCPANLASHRRWHKPR~eaa~a~~~P~k 333 (500)
T KOG3993|consen 266 GDYICQLCK----------EKYEDAFALAQH-RCPRIVHVEYRCPECD-KVFSCPANLASHRRWHKPRPEAAKAGSPPPK 333 (500)
T ss_pred HHHHHHHHH----------HhhhhHHHHhhc-cCCeeEEeeecCCccc-ccccCchhhhhhhcccCCchhhhhcCCCChh
Confidence 449999998 667777777776 2221 12369999999 99999999999999 84 11
Q ss_pred ---------------------CccccC-CCCccCChhHHHHHHHhhcCCCCCC--------------CCCCCCCCCCCCC
Q 012364 384 ---------------------DKWLCS-CGTTFSRKDKLFGHIALFQGHTPAI--------------PLDETIKGLAGPS 427 (465)
Q Consensus 384 ---------------------kpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~--------------~~~C~~Cg~~F~~ 427 (465)
.-|.|. |+|.|.+...|++|+.+|+..-..+ .+-|..|+-.+..
T Consensus 334 ~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a 413 (500)
T KOG3993|consen 334 QAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSA 413 (500)
T ss_pred hhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccccc
Confidence 138999 9999999999999999886432111 2456667777766
Q ss_pred ChhhhhhhcccCCCC---CCCCCCCCCCCCCCC
Q 012364 428 DRREGNEATSKIGST---NFNFGSSVPNGTGVS 457 (465)
Q Consensus 428 ~~~L~~H~~~h~g~~---~~s~~ss~s~~s~~~ 457 (465)
...-..|...+.+.. .+.++++++++++.+
T Consensus 414 ~~~~g~~vl~~a~sael~~pp~~~~ppsss~~s 446 (500)
T KOG3993|consen 414 SDSHGDEVLYVAGSAELELPPYDGSPPSSSGSS 446 (500)
T ss_pred ccccccceeeeeccccccCCCCCCCCcccCCCC
Confidence 666666665555433 245555555555544
No 18
>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=98.25 E-value=4.6e-07 Score=57.30 Aligned_cols=24 Identities=38% Similarity=0.995 Sum_probs=19.0
Q ss_pred hHHHHHh-hcCCCccccC-CCCccCC
Q 012364 373 DLKTHEK-HCGKDKWLCS-CGTTFSR 396 (465)
Q Consensus 373 ~L~~H~~-H~gekpy~C~-Cgk~F~~ 396 (465)
+|.+|++ |+|++||.|+ |+++|.+
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 19
>PHA00616 hypothetical protein
Probab=97.96 E-value=3e-06 Score=59.97 Aligned_cols=27 Identities=19% Similarity=0.390 Sum_probs=26.0
Q ss_pred ceecCCCCCccCCHHHHHHHHHHhCCC
Q 012364 270 THFCTICGKGFKRDANLRMHMRGHGDE 296 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~H~~e 296 (465)
+|+|..||+.|..+..|++|++.|+++
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 20
>PHA00616 hypothetical protein
Probab=97.92 E-value=3.8e-06 Score=59.44 Aligned_cols=29 Identities=21% Similarity=0.563 Sum_probs=14.0
Q ss_pred ccccC-CCCccCChhHHHHHHHhhcCCCCC
Q 012364 385 KWLCS-CGTTFSRKDKLFGHIALFQGHTPA 413 (465)
Q Consensus 385 py~C~-Cgk~F~~~s~L~~H~r~H~g~kp~ 413 (465)
||+|. ||+.|..++.|..|++.|+|++++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 34444 555555555555555544444443
No 21
>PHA00732 hypothetical protein
Probab=97.86 E-value=1.1e-05 Score=65.07 Aligned_cols=45 Identities=20% Similarity=0.425 Sum_probs=31.6
Q ss_pred ccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHHHHHHhh
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
||.|..|+ +.|.....|+.|++ ++. ++.|+ ||++|. .|..|++++
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 57788887 88888888888876 322 35788 888886 467777554
No 22
>PHA00732 hypothetical protein
Probab=97.74 E-value=2.1e-05 Score=63.35 Aligned_cols=45 Identities=18% Similarity=0.088 Sum_probs=37.7
Q ss_pred ccccC-CCCccCChhHHHHHHHh-hcCCCCCCCCCCCCCCCCCCCChhhhhhhccc
Q 012364 385 KWLCS-CGTTFSRKDKLFGHIAL-FQGHTPAIPLDETIKGLAGPSDRREGNEATSK 438 (465)
Q Consensus 385 py~C~-Cgk~F~~~s~L~~H~r~-H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~~h 438 (465)
||.|. ||+.|.+...|..|++. |++ +.|+.||+.|. .|..|.+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~------~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL------TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC------CccCCCCCEeC---Chhhhhccc
Confidence 68999 99999999999999985 542 37999999998 578887543
No 23
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.72 E-value=6.8e-06 Score=83.59 Aligned_cols=152 Identities=17% Similarity=0.074 Sum_probs=96.5
Q ss_pred ceecCCCCCccCCHHHHHHHHHHhCCCC--------C------ChhhhhcccccCCCCcCccccccCCCCCCCCCcccCC
Q 012364 270 THFCTICGKGFKRDANLRMHMRGHGDEY--------K------TPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKK 335 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~H~~ef--------~------~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~ 335 (465)
-|+|+.|+|.|.-..+|..|.|-|.-.- . +....+.-.| .+....+.-|.|.+||
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r--sg~dss~gi~~C~~C~--------- 363 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER--SGDDSSSGIFSCHTCG--------- 363 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc--cCCcccCceeecHHhh---------
Confidence 3999999999999999999999984320 0 0000000000 1112223469999999
Q ss_pred cccchhhhhhccceeeeccC---C--------------ccccCCCCCCccCChhhHHHHHh-hcC-CCccccC-CCCccC
Q 012364 336 FQPLKTILCVKNHYKRTHCD---K--------------SYVCSRCNTKKFSVIADLKTHEK-HCG-KDKWLCS-CGTTFS 395 (465)
Q Consensus 336 ~k~f~~~~~l~~H~k~h~~~---K--------------py~C~~Cg~K~F~~~~~L~~H~~-H~g-ekpy~C~-Cgk~F~ 395 (465)
+.|++...|++|...|+.. | .+-|..|. -.+.....--.|.. +.+ .....|. ||-.|.
T Consensus 364 -KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a-~h~~a~~~~g~~vl~~a~sael~~pp~~~~pps 441 (500)
T KOG3993|consen 364 -KKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVA-THSSASDSHGDEVLYVAGSAELELPPYDGSPPS 441 (500)
T ss_pred -hhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccc-cccccccccccceeeeeccccccCCCCCCCCcc
Confidence 8888888899997766642 1 24566666 44443332222222 222 2234577 888888
Q ss_pred ChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhhhhhcc
Q 012364 396 RKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEATS 437 (465)
Q Consensus 396 ~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~~ 437 (465)
.+..--.|.+.-. ++.-|.|++|-..|-....|.+|+..
T Consensus 442 ss~~sgg~~rlg~---~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 442 SSGSSGGYGRLGI---AEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred cCCCCCccccccc---hhhccccccchHhhhcCcchHhHhhh
Confidence 7776666665432 23446799999999999999999876
No 24
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.69 E-value=1.9e-05 Score=49.86 Aligned_cols=21 Identities=67% Similarity=1.229 Sum_probs=19.4
Q ss_pred HHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCC
Q 012364 285 NLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAG 326 (465)
Q Consensus 285 ~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cg 326 (465)
+|.+||++|+++ |||.|++|+
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 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=97.58 E-value=4.9e-05 Score=46.23 Aligned_cols=23 Identities=52% Similarity=1.001 Sum_probs=21.9
Q ss_pred eecCCCCCccCCHHHHHHHHHHh
Q 012364 271 HFCTICGKGFKRDANLRMHMRGH 293 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H 293 (465)
|.|++|++.|.+...|+.||+.|
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 78999999999999999999976
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.53 E-value=2e-05 Score=77.58 Aligned_cols=51 Identities=29% Similarity=0.515 Sum_probs=39.9
Q ss_pred cCCccccCC--CCCCccCChhhHHHHHh--hc------------------CCCccccC-CCCccCChhHHHHHHH
Q 012364 354 CDKSYVCSR--CNTKKFSVIADLKTHEK--HC------------------GKDKWLCS-CGTTFSRKDKLFGHIA 405 (465)
Q Consensus 354 ~~Kpy~C~~--Cg~K~F~~~~~L~~H~~--H~------------------gekpy~C~-Cgk~F~~~s~L~~H~r 405 (465)
.+|||+|++ |. |.|+....|+.|+. |. ..|||+|. |+|+|.....|+-|+.
T Consensus 346 d~KpykCpV~gC~-K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCN-KKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCch-hhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 358888877 88 88888888888887 52 24788888 8888888888887764
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=97.53 E-value=0.00012 Score=54.55 Aligned_cols=48 Identities=25% Similarity=0.556 Sum_probs=33.7
Q ss_pred ccccCCCCCCccCChhhHHHHHh--hcCC-CccccC-CCCccCChhHHHHHHHhhc
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK--HCGK-DKWLCS-CGTTFSRKDKLFGHIALFQ 408 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~--H~ge-kpy~C~-Cgk~F~~~s~L~~H~r~H~ 408 (465)
.|.|++|+ +. .....|..|.. |..+ +.+.|+ |...+. .+|..|+..++
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 37788888 74 45667888876 6654 468888 887654 37888887654
No 28
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.39 E-value=4.2e-05 Score=75.30 Aligned_cols=56 Identities=38% Similarity=0.719 Sum_probs=33.2
Q ss_pred cccccCCCCCCCCCcccCCcccchhhhhhccceeeecc-------------------CCccccCCCCCCccCChhhHHHH
Q 012364 317 IKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHC-------------------DKSYVCSRCNTKKFSVIADLKTH 377 (465)
Q Consensus 317 ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~-------------------~Kpy~C~~Cg~K~F~~~~~L~~H 377 (465)
+|||+|++-||. +.++....|+-|+.--|| .|||+|++|+ |+|+....|+.|
T Consensus 347 ~KpykCpV~gC~--------K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~-KRYKNlNGLKYH 417 (423)
T COG5189 347 GKPYKCPVEGCN--------KKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCD-KRYKNLNGLKYH 417 (423)
T ss_pred CceecCCCCCch--------hhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccc-hhhccCccceec
Confidence 467777776665 445554455555432222 2577777777 777777777766
Q ss_pred Hhhc
Q 012364 378 EKHC 381 (465)
Q Consensus 378 ~~H~ 381 (465)
++|.
T Consensus 418 r~Hs 421 (423)
T COG5189 418 RKHS 421 (423)
T ss_pred cccc
Confidence 5553
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=97.25 E-value=0.00017 Score=43.77 Aligned_cols=22 Identities=36% Similarity=0.794 Sum_probs=13.1
Q ss_pred cccC-CCCccCChhHHHHHHHhh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
|.|+ |++.|.++..|..|++.|
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 4566 666666666666666553
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=97.13 E-value=0.00043 Score=41.87 Aligned_cols=24 Identities=50% Similarity=1.010 Sum_probs=20.4
Q ss_pred eecCCCCCccCCHHHHHHHHHHhC
Q 012364 271 HFCTICGKGFKRDANLRMHMRGHG 294 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H~ 294 (465)
|.|++|++.|.+...|+.|+++|+
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=96.89 E-value=0.00058 Score=43.12 Aligned_cols=26 Identities=38% Similarity=0.638 Sum_probs=23.7
Q ss_pred ceecCCCCCccCCHHHHHHHHHHhCC
Q 012364 270 THFCTICGKGFKRDANLRMHMRGHGD 295 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~H~~ 295 (465)
+|.|..|++.|.....|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 58999999999999999999988753
No 32
>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=96.67 E-value=0.0021 Score=47.87 Aligned_cols=50 Identities=16% Similarity=0.207 Sum_probs=37.5
Q ss_pred ccccC-CCCccCChhHHHHHHHh-hcCCCCCCCCCCCCCCCCCCCChhhhhhhcccC
Q 012364 385 KWLCS-CGTTFSRKDKLFGHIAL-FQGHTPAIPLDETIKGLAGPSDRREGNEATSKI 439 (465)
Q Consensus 385 py~C~-Cgk~F~~~s~L~~H~r~-H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~~h~ 439 (465)
.|.|+ |++.| ....|..|... |..+. +.+.|++|...+. ..|..|+..++
T Consensus 2 ~f~CP~C~~~~-~~~~L~~H~~~~H~~~~--~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKGF-SESSLVEHCEDEHRSES--KNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCcc-CHHHHHHHHHhHCcCCC--CCccCCCchhhhh--hHHHHHHHHhc
Confidence 48999 99955 56789999875 44432 2468999998755 48899988754
No 33
>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=96.64 E-value=0.0014 Score=39.53 Aligned_cols=22 Identities=32% Similarity=0.779 Sum_probs=11.3
Q ss_pred cccC-CCCccCChhHHHHHHHhh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
|.|+ |++.|.+...|..|+++|
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 4555 555555555555555554
No 34
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.46 E-value=0.0031 Score=68.95 Aligned_cols=44 Identities=23% Similarity=0.457 Sum_probs=27.7
Q ss_pred ccCCCCCCccCChhhHHHHHh-hcCCCccccC-C------CCccCChhHHHHHHHhh
Q 012364 359 VCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-C------GTTFSRKDKLFGHIALF 407 (465)
Q Consensus 359 ~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-C------gk~F~~~s~L~~H~r~H 407 (465)
.|..|. ..|.....|.+|++ ++ |.|. | +--|.....|..|.|.+
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 577777 77777777777776 22 3333 3 44566667777777754
No 35
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.38 E-value=0.0016 Score=66.94 Aligned_cols=150 Identities=17% Similarity=0.153 Sum_probs=112.6
Q ss_pred cceecCCCCCccCCHHHHHHHHH--HhCCCCCChhhhhcccccCCCCcCccccccCC--CCCCCCCcccCCcccchhhhh
Q 012364 269 HTHFCTICGKGFKRDANLRMHMR--GHGDEYKTPAALAKPHKESSSEPMLIKRYSCP--YAGCKRNKDHKKFQPLKTILC 344 (465)
Q Consensus 269 k~~~C~~Cgk~F~~~~~L~~H~r--~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~--~Cgc~~~~~~~~~k~f~~~~~ 344 (465)
.++.|..|...|.+...|..|.+ .|.++- -+++.|+ .|+ +.|.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~-------------------~~~~~~p~~~~~----------~~~~~~~~ 338 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGES-------------------LKPFSCPYSLCG----------KLFSRNDA 338 (467)
T ss_pred cCCCCccccCCcccccccccccccccccccc-------------------CCceeeeccCCC----------cccccccc
Confidence 46999999999999999999998 566540 1899999 799 88888888
Q ss_pred hccceeeeccCCccccCC--CCCCccCChhhH----HHHHh--hcCCCccccC---CCCccCChhHHHHHHHhhcCCCCC
Q 012364 345 VKNHYKRTHCDKSYVCSR--CNTKKFSVIADL----KTHEK--HCGKDKWLCS---CGTTFSRKDKLFGHIALFQGHTPA 413 (465)
Q Consensus 345 l~~H~k~h~~~Kpy~C~~--Cg~K~F~~~~~L----~~H~~--H~gekpy~C~---Cgk~F~~~s~L~~H~r~H~g~kp~ 413 (465)
+..|+..|.+.+++.|.. |. +.+.....- ..+.. ....+.+.|. |-..+.+...+..|...|....++
T Consensus 339 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 417 (467)
T COG5048 339 LKRHILLHTSISPAKEKLLNSS-SKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPY 417 (467)
T ss_pred ccCCcccccCCCccccccccCc-cccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCc
Confidence 999999999988887765 55 444444331 11111 3345567776 888888888888888877665544
Q ss_pred CCCCCCCCCCCCCCChhhhhhhcccCCCCCCCCCCC
Q 012364 414 IPLDETIKGLAGPSDRREGNEATSKIGSTNFNFGSS 449 (465)
Q Consensus 414 ~~~~C~~Cg~~F~~~~~L~~H~~~h~g~~~~s~~ss 449 (465)
.+.|..|.+.|.....+..|++.|....++.....
T Consensus 418 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 452 (467)
T COG5048 418 -NCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSIL 452 (467)
T ss_pred -CCCCCcchhhccCcccccccccccccCCceeeccc
Confidence 46788899999999999999888877776655443
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.26 E-value=0.0039 Score=38.00 Aligned_cols=24 Identities=46% Similarity=0.786 Sum_probs=22.2
Q ss_pred eecCCCCCccCCHHHHHHHHHHhC
Q 012364 271 HFCTICGKGFKRDANLRMHMRGHG 294 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H~ 294 (465)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999875
No 37
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.25 E-value=0.0026 Score=40.09 Aligned_cols=21 Identities=33% Similarity=0.937 Sum_probs=10.4
Q ss_pred cccCCCCCCccCChhhHHHHHh
Q 012364 358 YVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 358 y~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
|.|..|+ +.|.....|..|++
T Consensus 2 ~~C~~C~-~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 2 FECDECG-KTFSSLSALREHKR 22 (27)
T ss_dssp EEETTTT-EEESSHHHHHHHHC
T ss_pred CCCCccC-CccCChhHHHHHhH
Confidence 4455554 45555555555544
No 38
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.22 E-value=0.0026 Score=52.39 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=0.0
Q ss_pred ecCCCCCccCCHHHHHHHHHHhCC
Q 012364 272 FCTICGKGFKRDANLRMHMRGHGD 295 (465)
Q Consensus 272 ~C~~Cgk~F~~~~~L~~H~r~H~~ 295 (465)
+|..|+..|.....|..||...++
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~ 24 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG 24 (100)
T ss_dssp ------------------------
T ss_pred Cccccccccccccccccccccccc
Confidence 488999999999999999865443
No 39
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.05 E-value=0.004 Score=51.27 Aligned_cols=23 Identities=26% Similarity=0.618 Sum_probs=13.6
Q ss_pred ccccC-CCCccCChhHHHHHHHhh
Q 012364 385 KWLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 385 py~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
.|.|. |++.|.....|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 46666 666666666666666643
No 40
>PRK04860 hypothetical protein; Provisional
Probab=95.81 E-value=0.0039 Score=57.07 Aligned_cols=37 Identities=27% Similarity=0.688 Sum_probs=31.4
Q ss_pred ccccCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChh
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKD 398 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s 398 (465)
+|.|. |+ + ....+++|.+ |.|+++|.|. |++.|....
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 69998 98 6 6677899999 9999999999 999987543
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.74 E-value=0.0086 Score=36.42 Aligned_cols=22 Identities=32% Similarity=0.736 Sum_probs=13.6
Q ss_pred cccC-CCCccCChhHHHHHHHhh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
|.|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 4566 666666666666666654
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.65 E-value=0.0082 Score=43.72 Aligned_cols=30 Identities=17% Similarity=0.395 Sum_probs=12.4
Q ss_pred CCCccccC-CCCccCChhHHHHHHHhhcCCC
Q 012364 382 GKDKWLCS-CGTTFSRKDKLFGHIALFQGHT 411 (465)
Q Consensus 382 gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~k 411 (465)
.+.|..|+ |+..+++..+|++|+.++++.+
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 34445555 5555555555555554444443
No 43
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.52 E-value=0.0045 Score=71.43 Aligned_cols=54 Identities=24% Similarity=0.425 Sum_probs=39.8
Q ss_pred CccccccCCCCCCCCCcccCCcccchhhhhhccceeeecc-------------------------CCccccCCCCCCccC
Q 012364 315 MLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHC-------------------------DKSYVCSRCNTKKFS 369 (465)
Q Consensus 315 ~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~-------------------------~Kpy~C~~Cg~K~F~ 369 (465)
+..|-|.|+.|+ ..|+....|..|+|..|- +++|.|..|. ..++
T Consensus 461 S~~kt~~cpkc~----------~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~-~stt 529 (1406)
T KOG1146|consen 461 SFFKTLKCPKCN----------WHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACN-YSTT 529 (1406)
T ss_pred cccccccCCccc----------hhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeee-eeee
Confidence 334889999999 888888899999887332 2467777777 7777
Q ss_pred ChhhHHHHHh
Q 012364 370 VIADLKTHEK 379 (465)
Q Consensus 370 ~~~~L~~H~~ 379 (465)
.+.+|..|+.
T Consensus 530 tng~Lsihlq 539 (1406)
T KOG1146|consen 530 TNGNLSIHLQ 539 (1406)
T ss_pred cchHHHHHHH
Confidence 7777777765
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.45 E-value=0.0092 Score=36.78 Aligned_cols=23 Identities=39% Similarity=0.990 Sum_probs=21.3
Q ss_pred eecCCCCCccCCHHHHHHHHHHh
Q 012364 271 HFCTICGKGFKRDANLRMHMRGH 293 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H 293 (465)
|.|.+|++.|.....|+.|++.+
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 45
>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=95.13 E-value=0.016 Score=42.24 Aligned_cols=31 Identities=16% Similarity=0.313 Sum_probs=22.3
Q ss_pred cCCccccCCCCCCccCChhhHHHHHh-hcCCCc
Q 012364 354 CDKSYVCSRCNTKKFSVIADLKTHEK-HCGKDK 385 (465)
Q Consensus 354 ~~Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekp 385 (465)
.+.|..|++|+ ..+.+..+|++|+. +++.||
T Consensus 21 S~~PatCP~C~-a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICG-AVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT---EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcch-hhccchhhHHHHHHHHhcccC
Confidence 46789999999 99999999999998 777765
No 46
>PRK04860 hypothetical protein; Provisional
Probab=94.54 E-value=0.025 Score=51.84 Aligned_cols=33 Identities=27% Similarity=0.511 Sum_probs=30.1
Q ss_pred cceecCCCCCccCCHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCC
Q 012364 269 HTHFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAG 326 (465)
Q Consensus 269 k~~~C~~Cgk~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cg 326 (465)
.+|.|. |++ ....+++|+++|.++ ++|.|..|+
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 677899999999998 999999999
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.12 E-value=0.04 Score=33.62 Aligned_cols=23 Identities=26% Similarity=0.544 Sum_probs=18.8
Q ss_pred eecCCCCCccCCHHHHHHHHHHhC
Q 012364 271 HFCTICGKGFKRDANLRMHMRGHG 294 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H~ 294 (465)
|+|+.|+.... ...|..|++.|+
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 78999999998 999999999864
No 48
>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=94.00 E-value=0.016 Score=36.67 Aligned_cols=22 Identities=32% Similarity=0.842 Sum_probs=20.5
Q ss_pred eecCCCCCccCCHHHHHHHHHH
Q 012364 271 HFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
|.|..|++.|.....|..|++.
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 49
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.72 E-value=0.02 Score=66.34 Aligned_cols=77 Identities=12% Similarity=0.108 Sum_probs=56.3
Q ss_pred cCCCCCCccCChhhHHHHHh--hcCCCccccC-CCCccCChhHHHHHHHh-h---------------------cCCCCCC
Q 012364 360 CSRCNTKKFSVIADLKTHEK--HCGKDKWLCS-CGTTFSRKDKLFGHIAL-F---------------------QGHTPAI 414 (465)
Q Consensus 360 C~~Cg~K~F~~~~~L~~H~~--H~gekpy~C~-Cgk~F~~~s~L~~H~r~-H---------------------~g~kp~~ 414 (465)
|..|+ ..+.+...+-.|+. |.-.+.|+|+ |+-.|.....|..|||. | ...-+++
T Consensus 439 ~~~~e-~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 439 LTKAE-PLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred ccchh-hhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 44455 55556666666665 6666777777 77777777777777776 1 1233788
Q ss_pred CCCCCCCCCCCCCChhhhhhhcc
Q 012364 415 PLDETIKGLAGPSDRREGNEATS 437 (465)
Q Consensus 415 ~~~C~~Cg~~F~~~~~L~~H~~~ 437 (465)
+|.|..|...+..+..|.+|+.+
T Consensus 518 p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 518 PYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred cccceeeeeeeecchHHHHHHHH
Confidence 99999999999999999999865
No 50
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.25 E-value=0.077 Score=58.38 Aligned_cols=94 Identities=20% Similarity=0.256 Sum_probs=58.9
Q ss_pred cchhhhhhccceeeec-------c---CCccccCCCCCCccCChhhHHHHHh--hcCCC----ccccC-CCCccCChhHH
Q 012364 338 PLKTILCVKNHYKRTH-------C---DKSYVCSRCNTKKFSVIADLKTHEK--HCGKD----KWLCS-CGTTFSRKDKL 400 (465)
Q Consensus 338 ~f~~~~~l~~H~k~h~-------~---~Kpy~C~~Cg~K~F~~~~~L~~H~~--H~gek----py~C~-Cgk~F~~~s~L 400 (465)
.|+....|++|+...| | .|-|. .|. |.| +...|..|+. -.+++ --.|. |...|.....|
T Consensus 123 ~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~--~e~-k~Y-t~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el 198 (669)
T KOG2231|consen 123 EFKSVENLKNHMRDQHKLHLCSLCLQNLKIFI--NER-KLY-TRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDEL 198 (669)
T ss_pred chhHHHHHHHHHHHhhhhhccccccccceeee--eee-ehe-hHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHH
Confidence 4567777888874332 2 12232 233 555 4566777776 22232 24699 99999999999
Q ss_pred HHHHHhhcCCCCCCCCCC---CCCCCCCCCChhhhhhhcccC
Q 012364 401 FGHIALFQGHTPAIPLDE---TIKGLAGPSDRREGNEATSKI 439 (465)
Q Consensus 401 ~~H~r~H~g~kp~~~~~C---~~Cg~~F~~~~~L~~H~~~h~ 439 (465)
.+|++.++ |.|.-| +.++..|.....|..|-|.++
T Consensus 199 ~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 199 YRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred HHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 99999764 333344 334566666777777776643
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=92.35 E-value=0.1 Score=31.80 Aligned_cols=21 Identities=29% Similarity=0.567 Sum_probs=8.8
Q ss_pred cccC-CCCccCChhHHHHHHHhh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
|+|. |+.... ...|..|+++|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 3444 444444 44455554443
No 52
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.05 E-value=0.096 Score=32.10 Aligned_cols=21 Identities=38% Similarity=0.801 Sum_probs=10.9
Q ss_pred cccCCCCCCccCChhhHHHHHh
Q 012364 358 YVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 358 y~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
|.|..|+ +.|.+...|+.|++
T Consensus 1 ~~C~~C~-~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICN-KSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTT-EEESSHHHHHHHHT
T ss_pred CCCCCCC-CCcCCHHHHHHHHC
Confidence 3455555 55555555555544
No 53
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.66 E-value=0.15 Score=52.40 Aligned_cols=120 Identities=13% Similarity=0.081 Sum_probs=84.5
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhcccee--eeccC--CccccC--CCCCCccCChhhHHHHHh-hcCCCccccC-
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYK--RTHCD--KSYVCS--RCNTKKFSVIADLKTHEK-HCGKDKWLCS- 389 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k--~h~~~--Kpy~C~--~Cg~K~F~~~~~L~~H~~-H~gekpy~C~- 389 (465)
.++.|..|. ..+.....+..|++ .|..+ +++.|+ .|+ +.|.+...+.+|.. |.+.+++.|.
T Consensus 288 ~~~~~~~~~----------~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (467)
T COG5048 288 LPIKSKQCN----------ISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCG-KLFSRNDALKRHILLHTSISPAKEKL 356 (467)
T ss_pred cCCCCcccc----------CCccccccccccccccccccccCCceeeeccCCC-ccccccccccCCcccccCCCcccccc
Confidence 478899998 78888888999998 78888 999999 799 99999999999999 9999888886
Q ss_pred --CCCccCChhHHHHHHHh--hcCCCCCCCCCC--CCCCCCCCCChhhhhhhcccCCCCCCCCCC
Q 012364 390 --CGTTFSRKDKLFGHIAL--FQGHTPAIPLDE--TIKGLAGPSDRREGNEATSKIGSTNFNFGS 448 (465)
Q Consensus 390 --Cgk~F~~~s~L~~H~r~--H~g~kp~~~~~C--~~Cg~~F~~~~~L~~H~~~h~g~~~~s~~s 448 (465)
|.+.+.....-..+..+ +.+........| ..|-..+.....+..|...|....++....
T Consensus 357 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 421 (467)
T COG5048 357 LNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKN 421 (467)
T ss_pred ccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCC
Confidence 77777665542211111 112222222333 226677777777788877777666544433
No 54
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=89.88 E-value=0.13 Score=32.30 Aligned_cols=21 Identities=43% Similarity=0.805 Sum_probs=13.3
Q ss_pred cccCCCCCCccCChhhHHHHHh
Q 012364 358 YVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 358 y~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
|.|..|+ +.|.+...|..|++
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 5566666 66666666666654
No 55
>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=89.60 E-value=0.29 Score=32.42 Aligned_cols=23 Identities=22% Similarity=0.820 Sum_probs=20.9
Q ss_pred ceecCCCCCccCCHHHHHHHHHH
Q 012364 270 THFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
+|.|.+|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 48999999999999999999864
No 56
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=89.51 E-value=0.34 Score=48.88 Aligned_cols=23 Identities=35% Similarity=0.613 Sum_probs=21.5
Q ss_pred ceecCCCCCccCCHHHHHHHHHH
Q 012364 270 THFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
.+.|-.|.|.|+.+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 48999999999999999999985
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=88.47 E-value=0.42 Score=29.71 Aligned_cols=21 Identities=33% Similarity=0.656 Sum_probs=18.0
Q ss_pred eecCCCCCccCCHHHHHHHHHH
Q 012364 271 HFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
..|+.||+.| ....|..|+++
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 67789999865
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=87.72 E-value=0.77 Score=39.39 Aligned_cols=45 Identities=20% Similarity=0.425 Sum_probs=24.8
Q ss_pred cCCCCCCccCChhhHHHHHh-hcCCCccccC-CCCccCChhHHHHHHHhh
Q 012364 360 CSRCNTKKFSVIADLKTHEK-HCGKDKWLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 360 C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
|--|. +.|....... .. -.....|.|. |...|=-.-....|-.+|
T Consensus 58 C~~C~-~~f~~~~~~~--~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 58 CFGCQ-GPFPKPPVSP--FDELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ccCcC-CCCCCccccc--ccccccccceeCCCCCCccccccchhhhhhcc
Confidence 66666 6665432111 00 1223457777 777777666666676666
No 59
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.25 E-value=0.19 Score=47.21 Aligned_cols=77 Identities=27% Similarity=0.527 Sum_probs=61.9
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHh--hc---------CCCcc
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEK--HC---------GKDKW 386 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~--H~---------gekpy 386 (465)
+.|.|++-||- ..|..+...+.||..-|+ -.|.+|. +.|.+...|..|+. |- |..-|
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 67999998876 566666666677755443 3799999 99999999999987 62 56679
Q ss_pred ccC---CCCccCChhHHHHHHHh
Q 012364 387 LCS---CGTTFSRKDKLFGHIAL 406 (465)
Q Consensus 387 ~C~---Cgk~F~~~s~L~~H~r~ 406 (465)
.|- |+-.|.+....+.|+..
T Consensus 146 ~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 146 QCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred HHHHHhhhhhhhhhhhhhhHHHH
Confidence 996 99999999999999864
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.37 E-value=0.76 Score=46.47 Aligned_cols=25 Identities=16% Similarity=0.355 Sum_probs=18.7
Q ss_pred eecCC--CCCccCCHHHHHHHHHHhCC
Q 012364 271 HFCTI--CGKGFKRDANLRMHMRGHGD 295 (465)
Q Consensus 271 ~~C~~--Cgk~F~~~~~L~~H~r~H~~ 295 (465)
|.|+. |..+......|+.|.+.-++
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~ 178 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG 178 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC
Confidence 88885 77666667889999887443
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=85.23 E-value=0.74 Score=28.62 Aligned_cols=18 Identities=39% Similarity=0.807 Sum_probs=10.8
Q ss_pred ccC-CCCccCChhHHHHHHH
Q 012364 387 LCS-CGTTFSRKDKLFGHIA 405 (465)
Q Consensus 387 ~C~-Cgk~F~~~s~L~~H~r 405 (465)
.|+ ||+.| ..+.|.+|++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 466 66666 4555666654
No 62
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=83.91 E-value=2.2 Score=43.92 Aligned_cols=26 Identities=23% Similarity=0.566 Sum_probs=22.6
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHH
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
++-++.|.+|.|.|........|+..
T Consensus 65 ~~~~~~c~~c~k~~~s~~a~~~hl~S 90 (390)
T KOG2785|consen 65 AESVVYCEACNKSFASPKAHENHLKS 90 (390)
T ss_pred cccceehHHhhccccChhhHHHHHHH
Confidence 45579999999999999999999864
No 63
>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=82.99 E-value=0.96 Score=29.85 Aligned_cols=22 Identities=27% Similarity=0.608 Sum_probs=15.3
Q ss_pred ccccCCCCCCccCChhhHHHHHh
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
+|.|..|+ +.|.....+..|++
T Consensus 3 ~~~C~~C~-~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCN-VTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccC-CccCCHHHHHHHHC
Confidence 46677777 77777777777765
No 64
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=81.32 E-value=2.6 Score=36.16 Aligned_cols=78 Identities=12% Similarity=0.085 Sum_probs=51.7
Q ss_pred cCCccccCCCCCCccCChhhHHHHHhhc------CCCc-------cccC-CCCccCChhHHHHHHHhhcC-CCCCCCCCC
Q 012364 354 CDKSYVCSRCNTKKFSVIADLKTHEKHC------GKDK-------WLCS-CGTTFSRKDKLFGHIALFQG-HTPAIPLDE 418 (465)
Q Consensus 354 ~~Kpy~C~~Cg~K~F~~~~~L~~H~~H~------gekp-------y~C~-Cgk~F~~~s~L~~H~r~H~g-~kp~~~~~C 418 (465)
|+=|-.|+.|| -......+|.|--.|. .+-+ ..|- |.+.|....... .+ -..-..|.|
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 55688999999 8888877777643331 1222 2399 999998654211 11 122345789
Q ss_pred CCCCCCCCCChhhhhhhccc
Q 012364 419 TIKGLAGPSDRREGNEATSK 438 (465)
Q Consensus 419 ~~Cg~~F~~~~~L~~H~~~h 438 (465)
+.|...|=-.=..-.|...|
T Consensus 85 ~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 85 AVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred CCCCCccccccchhhhhhcc
Confidence 99999998877777777655
No 65
>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=80.73 E-value=1.6 Score=42.60 Aligned_cols=86 Identities=16% Similarity=0.246 Sum_probs=57.2
Q ss_pred eeccCCccccCCCCCCccCChhhHHHHHh---hcCCCccccC-CCCccCChhHH-------HHHHHhhc-CCCCCCCCCC
Q 012364 351 RTHCDKSYVCSRCNTKKFSVIADLKTHEK---HCGKDKWLCS-CGTTFSRKDKL-------FGHIALFQ-GHTPAIPLDE 418 (465)
Q Consensus 351 ~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~---H~gekpy~C~-Cgk~F~~~s~L-------~~H~r~H~-g~kp~~~~~C 418 (465)
..|+++.|+|.+|. .|.-..+--.|+. -.....|+|. |.+. -+.+-| ..|+|.-. .-...+++.|
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 35678899999997 5665555567765 3344568887 7753 223333 35665411 1112357789
Q ss_pred CCCCCCCCCChhhhhhhcccC
Q 012364 419 TIKGLAGPSDRREGNEATSKI 439 (465)
Q Consensus 419 ~~Cg~~F~~~~~L~~H~~~h~ 439 (465)
+.||........|.+..|.|.
T Consensus 213 PKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 213 PKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred CCCCCcccccccceeeeecch
Confidence 999999999999998888864
No 66
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=77.79 E-value=2.1 Score=43.33 Aligned_cols=152 Identities=15% Similarity=0.200 Sum_probs=81.9
Q ss_pred cceecCCCCCccC-CHHHHHHHHH-HhCCC------CCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccch
Q 012364 269 HTHFCTICGKGFK-RDANLRMHMR-GHGDE------YKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLK 340 (465)
Q Consensus 269 k~~~C~~Cgk~F~-~~~~L~~H~r-~H~~e------f~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~ 340 (465)
..-.|-.|...+. .++..-.|+- +|+-. ......|..|.+... -.+.|-+|. +.|+
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 3457999987764 4556667763 45322 233344444443211 468899988 8888
Q ss_pred hhhhhccceeee--cc--C------CccccC--CCCCCccC-ChhhHHHHHh--hc------------CCCc--cccC-C
Q 012364 341 TILCVKNHYKRT--HC--D------KSYVCS--RCNTKKFS-VIADLKTHEK--HC------------GKDK--WLCS-C 390 (465)
Q Consensus 341 ~~~~l~~H~k~h--~~--~------Kpy~C~--~Cg~K~F~-~~~~L~~H~~--H~------------gekp--y~C~-C 390 (465)
.+..|+.||+.. .. . |-|.=. .-| |+.. +...+.+-.. +. +..+ .+|- |
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 888888887532 21 1 111111 122 2211 1111110000 00 1112 3677 7
Q ss_pred CCccCChhHHHHHHHhhcCCC------------------------CCCCCCCCCCCCCCCCChhhhhhhcc
Q 012364 391 GTTFSRKDKLFGHIALFQGHT------------------------PAIPLDETIKGLAGPSDRREGNEATS 437 (465)
Q Consensus 391 gk~F~~~s~L~~H~r~H~g~k------------------------p~~~~~C~~Cg~~F~~~~~L~~H~~~ 437 (465)
....-+...|..||++-+.-. ......|-.|...|.....|..||.-
T Consensus 286 ~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 286 TNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred ccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 777777777777776432100 11124677888999999999999965
No 67
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=77.12 E-value=1.9 Score=46.72 Aligned_cols=32 Identities=25% Similarity=0.437 Sum_probs=27.6
Q ss_pred ccCCcceecCCCCCccCCHHHHHHHHHHhCCC
Q 012364 265 ILAPHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (465)
Q Consensus 265 ~~~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~e 296 (465)
....++..|..||.+|........||-.|...
T Consensus 413 Ly~~~pnqC~~CG~R~~~~ee~sk~md~H~dw 444 (579)
T KOG2071|consen 413 LYKDSPNQCKSCGLRFDDSEERSKHMDIHDDW 444 (579)
T ss_pred hccCCcchhcccccccccchhhhhHhhhhhhh
Confidence 44667899999999999999999999998654
No 68
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=76.61 E-value=3.4 Score=42.56 Aligned_cols=22 Identities=23% Similarity=0.566 Sum_probs=20.6
Q ss_pred eecCCCCCccCCHHHHHHHHHH
Q 012364 271 HFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
|.|.-|...|.....-+.|+++
T Consensus 4 ftC~tC~v~F~~ad~Qr~HyKS 25 (390)
T KOG2785|consen 4 FTCNTCNVEFDDADEQRAHYKS 25 (390)
T ss_pred ceeeceeeeeccHHHHHHHhhh
Confidence 8999999999999999999986
No 69
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=76.24 E-value=0.72 Score=41.98 Aligned_cols=15 Identities=27% Similarity=0.713 Sum_probs=9.6
Q ss_pred cccCCCCCCccCChhh
Q 012364 358 YVCSRCNTKKFSVIAD 373 (465)
Q Consensus 358 y~C~~Cg~K~F~~~~~ 373 (465)
|.|+.|| ++|.....
T Consensus 29 ~~c~~c~-~~f~~~e~ 43 (154)
T PRK00464 29 RECLACG-KRFTTFER 43 (154)
T ss_pred eeccccC-CcceEeEe
Confidence 6677777 77765433
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=75.21 E-value=1.1 Score=33.29 Aligned_cols=28 Identities=21% Similarity=0.333 Sum_probs=24.1
Q ss_pred ccCCcceecCCCCCccCCHHHHHHHHHH
Q 012364 265 ILAPHTHFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 265 ~~~~k~~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
..++--+.|+.||+.|.....+.+|...
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3466679999999999999999999864
No 71
>PHA00626 hypothetical protein
Probab=74.50 E-value=2.4 Score=31.64 Aligned_cols=12 Identities=42% Similarity=0.869 Sum_probs=7.3
Q ss_pred ccccCCCCCCccC
Q 012364 357 SYVCSRCNTKKFS 369 (465)
Q Consensus 357 py~C~~Cg~K~F~ 369 (465)
.|+|..|| ..|+
T Consensus 23 rYkCkdCG-Y~ft 34 (59)
T PHA00626 23 DYVCCDCG-YNDS 34 (59)
T ss_pred ceEcCCCC-Ceec
Confidence 46666666 5554
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.86 E-value=2.1 Score=43.35 Aligned_cols=40 Identities=25% Similarity=0.594 Sum_probs=25.0
Q ss_pred ccCChhhHHHHHhhcCCCccccC---CC----CccCChhHHHHHHHhhcC
Q 012364 367 KFSVIADLKTHEKHCGKDKWLCS---CG----TTFSRKDKLFGHIALFQG 409 (465)
Q Consensus 367 ~F~~~~~L~~H~~H~gekpy~C~---Cg----k~F~~~s~L~~H~r~H~g 409 (465)
-|+....|-.|-+| .-|.|. |- ..|.....|..|+...++
T Consensus 260 YFK~Y~~Le~HF~~---~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 260 YFKSYEDLEAHFRN---AHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred hhhCHHHHHHHhhc---CceEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 36677777777662 126664 42 257777788888765544
No 73
>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=72.94 E-value=2.4 Score=36.31 Aligned_cols=12 Identities=17% Similarity=0.005 Sum_probs=6.9
Q ss_pred CCCCCCCCCCCC
Q 012364 417 DETIKGLAGPSD 428 (465)
Q Consensus 417 ~C~~Cg~~F~~~ 428 (465)
.|+.||..|.-.
T Consensus 28 vCP~CG~~~~~~ 39 (108)
T PF09538_consen 28 VCPKCGTEFPPE 39 (108)
T ss_pred cCCCCCCccCcc
Confidence 466666666554
No 74
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=72.05 E-value=1.6 Score=39.68 Aligned_cols=17 Identities=24% Similarity=0.667 Sum_probs=12.3
Q ss_pred ccccC-CCCccCChhHHH
Q 012364 385 KWLCS-CGTTFSRKDKLF 401 (465)
Q Consensus 385 py~C~-Cgk~F~~~s~L~ 401 (465)
.++|+ ||++|.+...+.
T Consensus 28 ~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 28 RRECLACGKRFTTFERVE 45 (154)
T ss_pred eeeccccCCcceEeEecc
Confidence 48898 999888665443
No 75
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=70.56 E-value=3.2 Score=46.84 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=7.1
Q ss_pred eeeccCCccccCCCC
Q 012364 350 KRTHCDKSYVCSRCN 364 (465)
Q Consensus 350 k~h~~~Kpy~C~~Cg 364 (465)
.|+.|+..++|+.|+
T Consensus 437 ~C~~Cg~v~~Cp~Cd 451 (730)
T COG1198 437 LCRDCGYIAECPNCD 451 (730)
T ss_pred ecccCCCcccCCCCC
Confidence 344444444555554
No 76
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=70.03 E-value=1.4 Score=42.35 Aligned_cols=40 Identities=28% Similarity=0.490 Sum_probs=22.4
Q ss_pred cCCCCCCccCChhhHHHHHhhcCCCccccC-CCCccCChhHHHHH
Q 012364 360 CSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKDKLFGH 403 (465)
Q Consensus 360 C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk~F~~~s~L~~H 403 (465)
|=+|+ +.|.....|..|++ .|-|+|. |-|...+--.|..|
T Consensus 13 cwycn-refddekiliqhqk---akhfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCN-REFDDEKILIQHQK---AKHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecc-cccchhhhhhhhhh---hccceeeeehhhhccCCCceee
Confidence 55566 66666666666655 1226666 66655555555544
No 77
>PF01352 KRAB: KRAB box; InterPro: IPR001909 The Krueppel-associated box (KRAB) is a domain of around 75 amino acids that is found in the N-terminal part of about one third of eukaryotic Krueppel-type C2H2 zinc finger proteins (ZFPs) []. It is enriched in charged amino acids and can be divided into subregions A and B, which are predicted to fold into two amphipathic alpha-helices. The KRAB A and B boxes can be separated by variable spacer segments and many KRAB proteins contain only the A box []. The functions currently known for members of the KRAB-containing protein family include transcriptional repression of RNA polymerase I, II, and III promoters, binding and splicing of RNA, and control of nucleolus function. The KRAB domain functions as a transcriptional repressor when tethered to the template DNA by a DNA-binding domain. A sequence of 45 amino acids in the KRAB A subdomain has been shown to be necessary and sufficient for transcriptional repression. The B box does not repress by itself but does potentiate the repression exerted by the KRAB A subdomain [, ]. Gene silencing requires the binding of the KRAB domain to the RING-B box-coiled coil (RBCC) domain of the KAP-1/TIF1-beta corepressor. As KAP-1 binds to the heterochromatin proteins HP1, it has been proposed that the KRAB-ZFP-bound target gene could be silenced following recruitment to heterochromatin [, ]. KRAB-ZFPs probably constitute the single largest class of transcription factors within the human genome []. Although the function of KRAB-ZFPs is largely unknown, they appear to play important roles during cell differentiation and development. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1V65_A.
Probab=69.92 E-value=0.17 Score=35.49 Aligned_cols=38 Identities=8% Similarity=-0.178 Sum_probs=23.0
Q ss_pred hhhhhcccccc-ccccccCCCCCCCCcccccCCCCCCCC
Q 012364 157 VQLISTAGSLL-PSMKHTLSAATPSMGQLGQFGGVPFPP 194 (465)
Q Consensus 157 ~ql~~~a~sl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (465)
+.+.++|..|+ ++|+++.+.++.++++++++++..+.+
T Consensus 1 Vtf~Dvav~fs~eEW~~L~~~Qk~ly~dvm~Eny~~l~s 39 (41)
T PF01352_consen 1 VTFEDVAVYFSQEEWELLDPAQKNLYRDVMLENYRNLVS 39 (41)
T ss_dssp ------TT---HHHHHTS-HHHHHHHHHHHHHTTTS---
T ss_pred CeEEEEEEEcChhhcccccceecccchhHHHHhhcccEe
Confidence 35678999999 779999999999999999998887654
No 78
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=69.80 E-value=2.3 Score=35.67 Aligned_cols=14 Identities=43% Similarity=0.914 Sum_probs=12.3
Q ss_pred ceecCCCCCccCCH
Q 012364 270 THFCTICGKGFKRD 283 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~ 283 (465)
+|.|..||..|..-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 68999999999874
No 79
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.14 E-value=3.1 Score=45.20 Aligned_cols=15 Identities=20% Similarity=0.643 Sum_probs=7.9
Q ss_pred eeeccCCccccCCCC
Q 012364 350 KRTHCDKSYVCSRCN 364 (465)
Q Consensus 350 k~h~~~Kpy~C~~Cg 364 (465)
.|..|+....|+.|+
T Consensus 215 ~C~~Cg~~~~C~~C~ 229 (505)
T TIGR00595 215 LCRSCGYILCCPNCD 229 (505)
T ss_pred EhhhCcCccCCCCCC
Confidence 444455555555555
No 80
>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=68.78 E-value=3.8 Score=35.07 Aligned_cols=32 Identities=34% Similarity=0.809 Sum_probs=25.2
Q ss_pred CCccccCCCCCCccCChhhHHHHHhhcCCCccccC-CCCccCCh
Q 012364 355 DKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRK 397 (465)
Q Consensus 355 ~Kpy~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk~F~~~ 397 (465)
+....|+.|| ++|.-. ++.|..|+ ||..|.-.
T Consensus 7 GtKR~Cp~CG-~kFYDL----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 7 GTKRTCPSCG-AKFYDL----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCcccCCCCc-chhccC----------CCCCccCCCCCCccCcc
Confidence 4457899999 888542 45799999 99999765
No 81
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=68.02 E-value=2.4 Score=41.27 Aligned_cols=22 Identities=32% Similarity=0.682 Sum_probs=9.8
Q ss_pred CccccCCCCCCccCChhhHHHHHh
Q 012364 356 KSYVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 356 Kpy~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
.-|.|--|+ +.|.. .+.+.|..
T Consensus 28 ~~fSCIDC~-k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 28 AYFSCIDCG-KTFER-VSYKNHTK 49 (276)
T ss_pred CeeEEeecc-ccccc-chhhhhhh
Confidence 344444444 44443 34444443
No 82
>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=67.84 E-value=3.5 Score=27.27 Aligned_cols=6 Identities=17% Similarity=0.063 Sum_probs=2.8
Q ss_pred CCCCCC
Q 012364 417 DETIKG 422 (465)
Q Consensus 417 ~C~~Cg 422 (465)
.|++||
T Consensus 19 ~CP~Cg 24 (33)
T cd00350 19 VCPVCG 24 (33)
T ss_pred cCcCCC
Confidence 444444
No 83
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=67.50 E-value=3.1 Score=36.62 Aligned_cols=15 Identities=40% Similarity=0.933 Sum_probs=12.6
Q ss_pred ceecCCCCCccCCHH
Q 012364 270 THFCTICGKGFKRDA 284 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~ 284 (465)
||+|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 589999999998643
No 84
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=65.62 E-value=1.1 Score=43.08 Aligned_cols=15 Identities=13% Similarity=-0.161 Sum_probs=10.2
Q ss_pred CCCCCCCCCCCCCCC
Q 012364 414 IPLDETIKGLAGPSD 428 (465)
Q Consensus 414 ~~~~C~~Cg~~F~~~ 428 (465)
....|+.||.+|...
T Consensus 47 ~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 47 EVWVCPHCGYAAFEE 61 (214)
T ss_pred eEEECCCCCCccccc
Confidence 345788888777655
No 85
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=65.14 E-value=4.9 Score=36.14 Aligned_cols=20 Identities=10% Similarity=0.062 Sum_probs=15.0
Q ss_pred CCcceecCCCCCccCCHHHH
Q 012364 267 APHTHFCTICGKGFKRDANL 286 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L 286 (465)
...-|.|+.|++.|.....+
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~ 115 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEAN 115 (147)
T ss_pred CCcEEECcCCCCEeeHHHHH
Confidence 34569999999999865443
No 86
>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=65.08 E-value=4.4 Score=36.96 Aligned_cols=21 Identities=10% Similarity=0.135 Sum_probs=16.8
Q ss_pred CCcceecCCCCCccCCHHHHH
Q 012364 267 APHTHFCTICGKGFKRDANLR 287 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~ 287 (465)
...-|.|+.|+..|+....+.
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH
Confidence 345599999999999887773
No 87
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=65.06 E-value=4.6 Score=27.04 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=9.4
Q ss_pred ceecCCCCCccC
Q 012364 270 THFCTICGKGFK 281 (465)
Q Consensus 270 ~~~C~~Cgk~F~ 281 (465)
.|.|.+||..+.
T Consensus 2 ~~~C~~CG~i~~ 13 (34)
T cd00729 2 VWVCPVCGYIHE 13 (34)
T ss_pred eEECCCCCCEeE
Confidence 489999997654
No 88
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=65.04 E-value=3.5 Score=46.55 Aligned_cols=18 Identities=17% Similarity=0.575 Sum_probs=10.6
Q ss_pred cceeeeccC----CccccCCCC
Q 012364 347 NHYKRTHCD----KSYVCSRCN 364 (465)
Q Consensus 347 ~H~k~h~~~----Kpy~C~~Cg 364 (465)
+.++||+|+ .|..|+.||
T Consensus 461 ~~L~CH~Cg~~~~~p~~Cp~Cg 482 (730)
T COG1198 461 GQLRCHYCGYQEPIPQSCPECG 482 (730)
T ss_pred CeeEeCCCCCCCCCCCCCCCCC
Confidence 345666664 356666666
No 89
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=65.02 E-value=4.2 Score=37.90 Aligned_cols=19 Identities=26% Similarity=0.516 Sum_probs=15.5
Q ss_pred CcceecCCCCCccCCHHHH
Q 012364 268 PHTHFCTICGKGFKRDANL 286 (465)
Q Consensus 268 ~k~~~C~~Cgk~F~~~~~L 286 (465)
..-|.|+.|++.|+....+
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CCEEECCCCCcEEeHHHHh
Confidence 3459999999999887665
No 90
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=64.46 E-value=3 Score=31.13 Aligned_cols=24 Identities=25% Similarity=0.470 Sum_probs=12.7
Q ss_pred CCccccCCCCCCccCChhhHHHHHh
Q 012364 355 DKSYVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 355 ~Kpy~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
+--+.|+.|| +.|....+..+|..
T Consensus 15 E~~lrCPRC~-~~FR~~K~Y~RHVN 38 (65)
T COG4049 15 EEFLRCPRCG-MVFRRRKDYIRHVN 38 (65)
T ss_pred ceeeeCCchh-HHHHHhHHHHHHhh
Confidence 3345555555 55555555555554
No 91
>PRK14873 primosome assembly protein PriA; Provisional
Probab=64.19 E-value=4.1 Score=45.72 Aligned_cols=16 Identities=19% Similarity=0.625 Sum_probs=10.9
Q ss_pred eeeeccCCccccCCCC
Q 012364 349 YKRTHCDKSYVCSRCN 364 (465)
Q Consensus 349 ~k~h~~~Kpy~C~~Cg 364 (465)
+.|..|+....|+.|+
T Consensus 384 l~C~~Cg~~~~C~~C~ 399 (665)
T PRK14873 384 LACARCRTPARCRHCT 399 (665)
T ss_pred eEhhhCcCeeECCCCC
Confidence 4566666777777776
No 92
>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=63.55 E-value=7.1 Score=35.62 Aligned_cols=33 Identities=9% Similarity=0.182 Sum_probs=21.3
Q ss_pred hcCCCccccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCC
Q 012364 380 HCGKDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLA 424 (465)
Q Consensus 380 H~gekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~ 424 (465)
..+..-|.|+ |+.+|+.-.++. .-|.|+.||..
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 3344557777 777777777664 13567777754
No 93
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.17 E-value=9.7 Score=38.54 Aligned_cols=54 Identities=20% Similarity=0.453 Sum_probs=33.4
Q ss_pred ccCCccccCCCCCCccCChhhHHHHHhhc----------------------------CCCccccC-CCCccCChhHHHHH
Q 012364 353 HCDKSYVCSRCNTKKFSVIADLKTHEKHC----------------------------GKDKWLCS-CGTTFSRKDKLFGH 403 (465)
Q Consensus 353 ~~~Kpy~C~~Cg~K~F~~~~~L~~H~~H~----------------------------gekpy~C~-Cgk~F~~~s~L~~H 403 (465)
.|.-|-.|+.|+ -......+|.+-.+|. +...|.|. |...|-..-....|
T Consensus 286 vCsLP~eCpiC~-ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iH 364 (378)
T KOG2807|consen 286 VCSLPIECPICS-LTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIH 364 (378)
T ss_pred eecCCccCCccc-eeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHH
Confidence 456688899998 7777777776543331 11235666 66666666666666
Q ss_pred HHhh
Q 012364 404 IALF 407 (465)
Q Consensus 404 ~r~H 407 (465)
-.+|
T Consensus 365 esLh 368 (378)
T KOG2807|consen 365 ESLH 368 (378)
T ss_pred hhhh
Confidence 6655
No 94
>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=63.03 E-value=6 Score=27.67 Aligned_cols=25 Identities=32% Similarity=0.652 Sum_probs=16.9
Q ss_pred CCcceecCCCCCccCCH----HHHHHHHH
Q 012364 267 APHTHFCTICGKGFKRD----ANLRMHMR 291 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~----~~L~~H~r 291 (465)
+....+|..|++.+... ..|..|++
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 45568999999999774 78999984
No 95
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=60.78 E-value=3.3 Score=31.32 Aligned_cols=10 Identities=30% Similarity=1.119 Sum_probs=6.2
Q ss_pred CCccccCCCC
Q 012364 355 DKSYVCSRCN 364 (465)
Q Consensus 355 ~Kpy~C~~Cg 364 (465)
+.+|+|+.||
T Consensus 48 g~~Y~Cp~CG 57 (61)
T COG2888 48 GNPYRCPKCG 57 (61)
T ss_pred CCceECCCcC
Confidence 3466666666
No 96
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=60.33 E-value=7.3 Score=28.20 Aligned_cols=25 Identities=44% Similarity=0.837 Sum_probs=20.1
Q ss_pred ceecCCCCCccCCH-----HHHHHHHH-HhC
Q 012364 270 THFCTICGKGFKRD-----ANLRMHMR-GHG 294 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~-----~~L~~H~r-~H~ 294 (465)
.-.|..|++.+... ++|.+|++ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 46799999999765 68999988 554
No 97
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=59.41 E-value=5.2 Score=36.83 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=6.5
Q ss_pred cCCccccCCCC
Q 012364 354 CDKSYVCSRCN 364 (465)
Q Consensus 354 ~~Kpy~C~~Cg 364 (465)
++-|-+|+.||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 35566666665
No 98
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=57.87 E-value=7.3 Score=34.13 Aligned_cols=14 Identities=14% Similarity=0.275 Sum_probs=7.3
Q ss_pred CccccC-CCCccCCh
Q 012364 384 DKWLCS-CGTTFSRK 397 (465)
Q Consensus 384 kpy~C~-Cgk~F~~~ 397 (465)
.|..|+ ||..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 455555 55555433
No 99
>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=57.60 E-value=8.8 Score=33.65 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=23.2
Q ss_pred cccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREG 432 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~ 432 (465)
..|+ ||++|.-. +. .|..|+.||..|.....++
T Consensus 10 r~Cp~cg~kFYDL-----------nk---~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NR---RPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred ccCCCcCcccccc-----------CC---CCccCCCcCCccCcchhhc
Confidence 6899 99999632 12 3447999999997764443
No 100
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=55.25 E-value=9.8 Score=35.45 Aligned_cols=31 Identities=13% Similarity=0.204 Sum_probs=18.5
Q ss_pred CCccccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCC
Q 012364 383 KDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAG 425 (465)
Q Consensus 383 ekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F 425 (465)
..-|.|+ |++.|+.-.++. .-|.|+.||...
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 3456777 777776666552 135677777543
No 101
>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=54.82 E-value=8.1 Score=41.94 Aligned_cols=17 Identities=18% Similarity=0.622 Sum_probs=9.7
Q ss_pred ceeeeccCC----ccccCCCC
Q 012364 348 HYKRTHCDK----SYVCSRCN 364 (465)
Q Consensus 348 H~k~h~~~K----py~C~~Cg 364 (465)
.++||.|+. |..|+.|+
T Consensus 240 ~l~Ch~Cg~~~~~~~~Cp~C~ 260 (505)
T TIGR00595 240 KLRCHYCGYQEPIPKTCPQCG 260 (505)
T ss_pred eEEcCCCcCcCCCCCCCCCCC
Confidence 355666653 45566666
No 102
>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=54.49 E-value=3.5 Score=41.30 Aligned_cols=7 Identities=43% Similarity=0.913 Sum_probs=4.2
Q ss_pred ccCCCCC
Q 012364 320 YSCPYAG 326 (465)
Q Consensus 320 y~C~~Cg 326 (465)
-.||+||
T Consensus 173 g~CPvCG 179 (290)
T PF04216_consen 173 GYCPVCG 179 (290)
T ss_dssp SS-TTT-
T ss_pred CcCCCCC
Confidence 4799999
No 103
>PRK14873 primosome assembly protein PriA; Provisional
Probab=53.97 E-value=7.7 Score=43.61 Aligned_cols=34 Identities=15% Similarity=0.391 Sum_probs=18.0
Q ss_pred ccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCC
Q 012364 320 YSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCN 364 (465)
Q Consensus 320 y~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg 364 (465)
..|..|| ...++.+|- ..+..|.......|.+||
T Consensus 384 l~C~~Cg----------~~~~C~~C~-~~L~~h~~~~~l~Ch~CG 417 (665)
T PRK14873 384 LACARCR----------TPARCRHCT-GPLGLPSAGGTPRCRWCG 417 (665)
T ss_pred eEhhhCc----------CeeECCCCC-CceeEecCCCeeECCCCc
Confidence 3677777 544444432 123333344556777777
No 104
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=53.93 E-value=7.3 Score=37.36 Aligned_cols=9 Identities=44% Similarity=1.176 Sum_probs=7.5
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
|.+.||+|+
T Consensus 4 k~~~CPvC~ 12 (214)
T PF09986_consen 4 KKITCPVCG 12 (214)
T ss_pred CceECCCCC
Confidence 667899988
No 105
>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=53.93 E-value=4.2 Score=29.56 Aligned_cols=14 Identities=36% Similarity=0.657 Sum_probs=11.7
Q ss_pred ceecCCCCCccCCH
Q 012364 270 THFCTICGKGFKRD 283 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~ 283 (465)
.|+|..||..|...
T Consensus 5 ey~C~~Cg~~fe~~ 18 (52)
T TIGR02605 5 EYRCTACGHRFEVL 18 (52)
T ss_pred EEEeCCCCCEeEEE
Confidence 49999999999743
No 106
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=53.86 E-value=6.2 Score=28.81 Aligned_cols=12 Identities=25% Similarity=0.636 Sum_probs=10.7
Q ss_pred cceecCCCCCcc
Q 012364 269 HTHFCTICGKGF 280 (465)
Q Consensus 269 k~~~C~~Cgk~F 280 (465)
..|.|..||+.|
T Consensus 5 ~~Y~C~~Cg~~~ 16 (49)
T COG1996 5 MEYKCARCGREV 16 (49)
T ss_pred EEEEhhhcCCee
Confidence 459999999999
No 107
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=53.81 E-value=6.2 Score=38.15 Aligned_cols=46 Identities=17% Similarity=0.223 Sum_probs=34.6
Q ss_pred CCccccC-CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCCCCCCCChhhhhhhc
Q 012364 383 KDKWLCS-CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKGLAGPSDRREGNEAT 436 (465)
Q Consensus 383 ekpy~C~-Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg~~F~~~~~L~~H~~ 436 (465)
.||| |- |++.|-...-|..|++. + -|+|.||-+..-+.-.|..|-.
T Consensus 9 ~kpw-cwycnrefddekiliqhqka----k---hfkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKA----K---HFKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhh----c---cceeeeehhhhccCCCceeehh
Confidence 4666 77 99999999999999873 2 2579999876666677777643
No 108
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=53.60 E-value=14 Score=43.95 Aligned_cols=7 Identities=43% Similarity=1.061 Sum_probs=5.1
Q ss_pred ccCCCCC
Q 012364 320 YSCPYAG 326 (465)
Q Consensus 320 y~C~~Cg 326 (465)
++||.||
T Consensus 668 rkCPkCG 674 (1337)
T PRK14714 668 RRCPSCG 674 (1337)
T ss_pred EECCCCC
Confidence 6777777
No 109
>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=53.30 E-value=8.3 Score=26.03 Aligned_cols=6 Identities=33% Similarity=0.960 Sum_probs=2.6
Q ss_pred cCCCCC
Q 012364 321 SCPYAG 326 (465)
Q Consensus 321 ~C~~Cg 326 (465)
.||.|+
T Consensus 4 ~CP~C~ 9 (38)
T TIGR02098 4 QCPNCK 9 (38)
T ss_pred ECCCCC
Confidence 344444
No 110
>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=52.86 E-value=11 Score=23.74 Aligned_cols=10 Identities=10% Similarity=-0.390 Sum_probs=7.2
Q ss_pred CCCCCCCCCC
Q 012364 417 DETIKGLAGP 426 (465)
Q Consensus 417 ~C~~Cg~~F~ 426 (465)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5777777774
No 111
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=52.54 E-value=7.8 Score=35.71 Aligned_cols=23 Identities=35% Similarity=0.931 Sum_probs=18.3
Q ss_pred ccccCCCCCCccCChhhHHHHHhhcCCCccccC-CCC
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGT 392 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk 392 (465)
-|.|.+|| .. |.|+-|.+|+ ||-
T Consensus 134 ~~vC~vCG-y~------------~~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCG-YT------------HEGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCC-Cc------------ccCCCCCcCCCCCC
Confidence 68899998 43 5678899999 994
No 112
>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=51.84 E-value=10 Score=33.67 Aligned_cols=27 Identities=41% Similarity=0.772 Sum_probs=17.4
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHHhCCC
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~e 296 (465)
.+....|-+|||.|+. |++|.+.|+|-
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 3445789999999986 59999999764
No 113
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.86 E-value=13 Score=43.06 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=7.9
Q ss_pred ceecCCCCCc
Q 012364 270 THFCTICGKG 279 (465)
Q Consensus 270 ~~~C~~Cgk~ 279 (465)
..+|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 4678888876
No 114
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=50.49 E-value=6.5 Score=29.78 Aligned_cols=9 Identities=33% Similarity=1.065 Sum_probs=5.7
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
-.|.||.||
T Consensus 24 ~~F~CPnCG 32 (59)
T PRK14890 24 VKFLCPNCG 32 (59)
T ss_pred CEeeCCCCC
Confidence 346677776
No 115
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=50.05 E-value=6.6 Score=32.08 Aligned_cols=9 Identities=56% Similarity=1.819 Sum_probs=4.3
Q ss_pred cccC-CCCcc
Q 012364 386 WLCS-CGTTF 394 (465)
Q Consensus 386 y~C~-Cgk~F 394 (465)
|.|. ||..|
T Consensus 54 W~C~kCg~~f 63 (89)
T COG1997 54 WKCRKCGAKF 63 (89)
T ss_pred EEcCCCCCee
Confidence 4444 44444
No 116
>PRK05580 primosome assembly protein PriA; Validated
Probab=49.94 E-value=9.9 Score=42.87 Aligned_cols=16 Identities=19% Similarity=0.524 Sum_probs=8.8
Q ss_pred eeeeccCCccccCCCC
Q 012364 349 YKRTHCDKSYVCSRCN 364 (465)
Q Consensus 349 ~k~h~~~Kpy~C~~Cg 364 (465)
+.|..|+...+|+.|+
T Consensus 382 ~~C~~Cg~~~~C~~C~ 397 (679)
T PRK05580 382 LLCRDCGWVAECPHCD 397 (679)
T ss_pred eEhhhCcCccCCCCCC
Confidence 3455555555666665
No 117
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=49.35 E-value=15 Score=35.93 Aligned_cols=64 Identities=19% Similarity=0.437 Sum_probs=37.2
Q ss_pred CHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccchhhhhhccceeeeccCC-----
Q 012364 282 RDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDK----- 356 (465)
Q Consensus 282 ~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~K----- 356 (465)
+..+|+++.+.+.+. +....+.|.|..|.--+ ++..-.-+.--+|+.|.+
T Consensus 91 Te~Nlrm~d~a~~~~----------------ip~~drqFaC~~Cd~~W---------wRrvp~rKeVSRCr~C~~rYDPV 145 (278)
T PF15135_consen 91 TEENLRMFDDAQENL----------------IPSVDRQFACSSCDHMW---------WRRVPQRKEVSRCRKCRKRYDPV 145 (278)
T ss_pred hHHHHHHhhhhhhcc----------------ccccceeeeccccchHH---------HhccCcccccccccccccccCCC
Confidence 457788887776544 33444789999987111 111111112234555543
Q ss_pred ---------ccccCCCCCCccCCh
Q 012364 357 ---------SYVCSRCNTKKFSVI 371 (465)
Q Consensus 357 ---------py~C~~Cg~K~F~~~ 371 (465)
-|.|..|+ ..|.-.
T Consensus 146 P~dkmwG~aef~C~~C~-h~F~G~ 168 (278)
T PF15135_consen 146 PCDKMWGIAEFHCPKCR-HNFRGF 168 (278)
T ss_pred ccccccceeeeeccccc-ccchhh
Confidence 38899998 888644
No 118
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=49.12 E-value=12 Score=26.66 Aligned_cols=13 Identities=23% Similarity=0.554 Sum_probs=10.9
Q ss_pred ceecCCCCCccCC
Q 012364 270 THFCTICGKGFKR 282 (465)
Q Consensus 270 ~~~C~~Cgk~F~~ 282 (465)
.|.|..||..|.-
T Consensus 2 ~Y~C~~Cg~~~~~ 14 (44)
T smart00659 2 IYICGECGRENEI 14 (44)
T ss_pred EEECCCCCCEeec
Confidence 3899999998874
No 119
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=48.76 E-value=14 Score=30.23 Aligned_cols=32 Identities=22% Similarity=0.650 Sum_probs=21.4
Q ss_pred ccccCCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCC
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSV 370 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~ 370 (465)
..|.||.|+ +. .+.+ ..-.-+.|..|| ..|.-
T Consensus 34 ~~~~Cp~C~----------~~--------~VkR--~a~GIW~C~kCg-~~fAG 65 (89)
T COG1997 34 AKHVCPFCG----------RT--------TVKR--IATGIWKCRKCG-AKFAG 65 (89)
T ss_pred cCCcCCCCC----------Cc--------ceee--eccCeEEcCCCC-Ceecc
Confidence 679999999 32 1111 123468999999 88854
No 120
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=47.98 E-value=4.3 Score=45.09 Aligned_cols=23 Identities=35% Similarity=0.596 Sum_probs=0.0
Q ss_pred eecCCCCCccCCHHHHHHHHHHh
Q 012364 271 HFCTICGKGFKRDANLRMHMRGH 293 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H 293 (465)
|.|..|+|.|..-.++..||++|
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHH
No 121
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=47.42 E-value=6.7 Score=38.31 Aligned_cols=51 Identities=25% Similarity=0.511 Sum_probs=38.1
Q ss_pred ceecCCCCCccCCHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccchhhhhhccce
Q 012364 270 THFCTICGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKNHY 349 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~H~ 349 (465)
.|.|.+||...+.. .|.+||-..++ .-|.|-.|| +.|-. ...++|.
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn----------------------~~fSCIDC~----------k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN----------------------AYFSCIDCG----------KTFER-VSYKNHT 48 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC----------------------CeeEEeecc----------ccccc-chhhhhh
Confidence 38999999988754 57779877665 469999999 66655 4566777
Q ss_pred eeecc
Q 012364 350 KRTHC 354 (465)
Q Consensus 350 k~h~~ 354 (465)
+|-+.
T Consensus 49 kCITE 53 (276)
T KOG2186|consen 49 KCITE 53 (276)
T ss_pred hhcch
Confidence 77664
No 122
>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=46.21 E-value=6.9 Score=38.35 Aligned_cols=90 Identities=16% Similarity=0.280 Sum_probs=46.4
Q ss_pred ccccccCCCCCCCCCcccCCcccchhhhhhc-cceeeeccCC--ccccCCCCCCccCChhhHHHHHhhcCCCccccC-CC
Q 012364 316 LIKRYSCPYAGCKRNKDHKKFQPLKTILCVK-NHYKRTHCDK--SYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CG 391 (465)
Q Consensus 316 ~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~-~H~k~h~~~K--py~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cg 391 (465)
|.+.|+|.+|. .|.-.-..|.+-..-..|. .-++|..|.| .|.|-.|. -.|-.-.-.+.-.+-...+++.|+ ||
T Consensus 139 GGrif~CsfC~-~flCEDDQFEHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK-~cfCddHvrrKg~ky~k~k~~PCPKCg 216 (314)
T PF06524_consen 139 GGRIFKCSFCD-NFLCEDDQFEHQASCQVLESETFKCQSCNRLGQYSCLRCK-ICFCDDHVRRKGFKYEKGKPIPCPKCG 216 (314)
T ss_pred CCeEEEeecCC-Ceeeccchhhhhhhhhhhhcccccccccccccchhhhhee-eeehhhhhhhcccccccCCCCCCCCCC
Confidence 34778888887 3333333332221111121 1245555544 46666664 444322211111123345789999 99
Q ss_pred CccCChhHHHHHHHhh
Q 012364 392 TTFSRKDKLFGHIALF 407 (465)
Q Consensus 392 k~F~~~s~L~~H~r~H 407 (465)
........|..-.|+|
T Consensus 217 ~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 217 YETQETKDLSMSTRSH 232 (314)
T ss_pred Ccccccccceeeeecc
Confidence 8887777776555555
No 123
>PRK05580 primosome assembly protein PriA; Validated
Probab=45.89 E-value=13 Score=41.88 Aligned_cols=17 Identities=24% Similarity=0.763 Sum_probs=10.5
Q ss_pred ceeeeccCC----ccccCCCC
Q 012364 348 HYKRTHCDK----SYVCSRCN 364 (465)
Q Consensus 348 H~k~h~~~K----py~C~~Cg 364 (465)
-+.||.|+. +..|+.||
T Consensus 408 ~l~Ch~Cg~~~~~~~~Cp~Cg 428 (679)
T PRK05580 408 RLRCHHCGYQEPIPKACPECG 428 (679)
T ss_pred eEECCCCcCCCCCCCCCCCCc
Confidence 356666654 45677776
No 124
>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=45.74 E-value=16 Score=33.09 Aligned_cols=7 Identities=43% Similarity=1.217 Sum_probs=3.6
Q ss_pred ccCCCCC
Q 012364 320 YSCPYAG 326 (465)
Q Consensus 320 y~C~~Cg 326 (465)
+.|.+||
T Consensus 1 haC~YCG 7 (152)
T PF09416_consen 1 HACAYCG 7 (152)
T ss_dssp TS-TTT-
T ss_pred CCccccC
Confidence 3588888
No 125
>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=45.65 E-value=5.5 Score=32.91 Aligned_cols=11 Identities=45% Similarity=1.482 Sum_probs=5.6
Q ss_pred ccccC-CCCccC
Q 012364 385 KWLCS-CGTTFS 395 (465)
Q Consensus 385 py~C~-Cgk~F~ 395 (465)
.|.|. |++.|.
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 35555 555543
No 126
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=45.30 E-value=6.5 Score=31.11 Aligned_cols=6 Identities=33% Similarity=1.021 Sum_probs=3.0
Q ss_pred cCCCCC
Q 012364 321 SCPYAG 326 (465)
Q Consensus 321 ~C~~Cg 326 (465)
.||.||
T Consensus 3 ~CP~Cg 8 (72)
T PRK09678 3 HCPLCQ 8 (72)
T ss_pred cCCCCC
Confidence 455555
No 127
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=45.28 E-value=15 Score=41.18 Aligned_cols=19 Identities=5% Similarity=-0.272 Sum_probs=15.3
Q ss_pred CCCCCCCCCCCChhhhhhh
Q 012364 417 DETIKGLAGPSDRREGNEA 435 (465)
Q Consensus 417 ~C~~Cg~~F~~~~~L~~H~ 435 (465)
+||.|+.+|.....+..|+
T Consensus 680 KCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 680 KCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred CCCCCCCCCCcccccccCC
Confidence 6999999998887776663
No 128
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=45.12 E-value=23 Score=31.78 Aligned_cols=12 Identities=17% Similarity=0.758 Sum_probs=6.0
Q ss_pred ccccC-CCCccCC
Q 012364 385 KWLCS-CGTTFSR 396 (465)
Q Consensus 385 py~C~-Cgk~F~~ 396 (465)
-|.|+ |++.|..
T Consensus 99 ~Y~Cp~C~~~y~~ 111 (147)
T smart00531 99 YYKCPNCQSKYTF 111 (147)
T ss_pred EEECcCCCCEeeH
Confidence 35555 5555543
No 129
>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=44.10 E-value=11 Score=33.54 Aligned_cols=10 Identities=50% Similarity=1.275 Sum_probs=3.3
Q ss_pred ccCCCCCCccC
Q 012364 359 VCSRCNTKKFS 369 (465)
Q Consensus 359 ~C~~Cg~K~F~ 369 (465)
.|-+|| |.|+
T Consensus 74 ~clecG-k~~k 83 (132)
T PF05443_consen 74 ICLECG-KKFK 83 (132)
T ss_dssp E-TBT---EES
T ss_pred EEccCC-cccc
Confidence 445555 4443
No 130
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=43.90 E-value=6.4 Score=40.12 Aligned_cols=28 Identities=11% Similarity=-0.101 Sum_probs=21.7
Q ss_pred CCcceecCCCCCccCCHHHHHHH-HHHhCC
Q 012364 267 APHTHFCTICGKGFKRDANLRMH-MRGHGD 295 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H-~r~H~~ 295 (465)
..++|+| .|++.+.++..|+.| |..|-+
T Consensus 210 ~~~p~k~-~~~~~~~T~~~l~~HS~N~~~~ 238 (442)
T KOG4124|consen 210 TGTPKKM-PESLVMDTSSPLSDHSMNIDVG 238 (442)
T ss_pred ccCCccC-cccccccccchhhhccccCCCC
Confidence 4578998 689999999999888 455533
No 131
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=43.79 E-value=18 Score=25.69 Aligned_cols=9 Identities=33% Similarity=0.925 Sum_probs=6.2
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
..|.|+.||
T Consensus 2 ~~y~C~~CG 10 (46)
T PRK00398 2 AEYKCARCG 10 (46)
T ss_pred CEEECCCCC
Confidence 357777777
No 132
>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=43.34 E-value=21 Score=25.37 Aligned_cols=10 Identities=30% Similarity=0.899 Sum_probs=7.6
Q ss_pred CCccccCCCC
Q 012364 355 DKSYVCSRCN 364 (465)
Q Consensus 355 ~Kpy~C~~Cg 364 (465)
...|+|..|+
T Consensus 35 ~~~~~C~~C~ 44 (46)
T PF12760_consen 35 RGRYRCKACR 44 (46)
T ss_pred CCeEECCCCC
Confidence 5668888886
No 133
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.13 E-value=17 Score=24.73 Aligned_cols=8 Identities=25% Similarity=0.978 Sum_probs=3.4
Q ss_pred ccccCCCC
Q 012364 357 SYVCSRCN 364 (465)
Q Consensus 357 py~C~~Cg 364 (465)
..+|..|+
T Consensus 25 ~vrC~~C~ 32 (37)
T PF13719_consen 25 KVRCPKCG 32 (37)
T ss_pred EEECCCCC
Confidence 34444444
No 134
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=42.94 E-value=18 Score=24.47 Aligned_cols=9 Identities=56% Similarity=1.246 Sum_probs=3.8
Q ss_pred cccC-CCCcc
Q 012364 386 WLCS-CGTTF 394 (465)
Q Consensus 386 y~C~-Cgk~F 394 (465)
.+|. |+..|
T Consensus 26 v~C~~C~~~f 35 (36)
T PF13717_consen 26 VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEe
Confidence 3444 44443
No 135
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=40.65 E-value=13 Score=37.97 Aligned_cols=22 Identities=23% Similarity=0.316 Sum_probs=14.4
Q ss_pred ccccCCCCCCccCChhhHHHHHh
Q 012364 357 SYVCSRCNTKKFSVIADLKTHEK 379 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H~~ 379 (465)
.|.|++|+ +.=.+...|..|..
T Consensus 79 SftCPyC~-~~Gfte~~f~~Hv~ 100 (381)
T KOG1280|consen 79 SFTCPYCG-IMGFTERQFGTHVL 100 (381)
T ss_pred cccCCccc-ccccchhHHHHHhh
Confidence 57777777 55555666777765
No 136
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=40.32 E-value=24 Score=35.56 Aligned_cols=25 Identities=28% Similarity=0.644 Sum_probs=18.6
Q ss_pred CCccccC-CCCccCChhHHHHHHHhh
Q 012364 383 KDKWLCS-CGTTFSRKDKLFGHIALF 407 (465)
Q Consensus 383 ekpy~C~-Cgk~F~~~s~L~~H~r~H 407 (465)
...|.|. |...|-.......|-.+|
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHh
Confidence 3457888 888887777777777776
No 137
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=39.72 E-value=15 Score=37.36 Aligned_cols=9 Identities=44% Similarity=0.992 Sum_probs=7.4
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
..-.||+||
T Consensus 186 ~~~~CPvCG 194 (309)
T PRK03564 186 QRQFCPVCG 194 (309)
T ss_pred CCCCCCCCC
Confidence 456799999
No 138
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=39.63 E-value=18 Score=29.83 Aligned_cols=9 Identities=44% Similarity=1.427 Sum_probs=5.6
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
..|.|++||
T Consensus 35 a~y~CpfCg 43 (90)
T PTZ00255 35 AKYFCPFCG 43 (90)
T ss_pred CCccCCCCC
Confidence 456666666
No 139
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=39.09 E-value=21 Score=29.42 Aligned_cols=13 Identities=31% Similarity=0.697 Sum_probs=9.5
Q ss_pred CccccC-CCCccCC
Q 012364 384 DKWLCS-CGTTFSR 396 (465)
Q Consensus 384 kpy~C~-Cgk~F~~ 396 (465)
+|-.|. ||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 567788 8888853
No 140
>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=38.95 E-value=26 Score=23.17 Aligned_cols=9 Identities=33% Similarity=1.387 Sum_probs=4.1
Q ss_pred cccC-CCCcc
Q 012364 386 WLCS-CGTTF 394 (465)
Q Consensus 386 y~C~-Cgk~F 394 (465)
|.|. ||..+
T Consensus 1 Y~C~~Cg~~~ 10 (32)
T PF03604_consen 1 YICGECGAEV 10 (32)
T ss_dssp EBESSSSSSE
T ss_pred CCCCcCCCee
Confidence 3444 44444
No 141
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=38.89 E-value=16 Score=35.08 Aligned_cols=27 Identities=30% Similarity=0.541 Sum_probs=21.2
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHHh
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRGH 293 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H 293 (465)
.+..|.|..|+|.|+-..-.+.|+..-
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nK 100 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNK 100 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhc
Confidence 344599999999999999999998753
No 142
>PRK04023 DNA polymerase II large subunit; Validated
Probab=38.84 E-value=25 Score=40.94 Aligned_cols=9 Identities=44% Similarity=0.969 Sum_probs=6.3
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
....|+.||
T Consensus 625 g~RfCpsCG 633 (1121)
T PRK04023 625 GRRKCPSCG 633 (1121)
T ss_pred cCccCCCCC
Confidence 446788887
No 143
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.77 E-value=5.8 Score=37.54 Aligned_cols=78 Identities=23% Similarity=0.392 Sum_probs=48.7
Q ss_pred ceecCC--CCCccCCHHHHHHHHHHhCCCCCChhhhhcccccCCCCcCccccccCCCCCCCCCcccCCcccchhhhhhcc
Q 012364 270 THFCTI--CGKGFKRDANLRMHMRGHGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCKRNKDHKKFQPLKTILCVKN 347 (465)
Q Consensus 270 ~~~C~~--Cgk~F~~~~~L~~H~r~H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~~~~~~~~~k~f~~~~~l~~ 347 (465)
.|.|.+ |-..|.....+..|-.+-++. .|.+|. +.|.+.+-|..
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 666776666666665432221 477777 66666666655
Q ss_pred ceeeec----------cCCccccCC--CCCCccCChhhHHHHHh--hcC
Q 012364 348 HYKRTH----------CDKSYVCSR--CNTKKFSVIADLKTHEK--HCG 382 (465)
Q Consensus 348 H~k~h~----------~~Kpy~C~~--Cg~K~F~~~~~L~~H~~--H~g 382 (465)
|+.--| +.-+|.|-+ |+ -.|.+...-+.|+- |.-
T Consensus 125 HI~E~HDs~Fqa~veRG~dMy~ClvEgCt-~KFkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 125 HILEWHDSLFQALVERGQDMYQCLVEGCT-EKFKTSRDRKDHMIRMHKY 172 (253)
T ss_pred HHHHHHHHHHHHHHHcCccHHHHHHHhhh-hhhhhhhhhhhHHHHhccC
Confidence 543222 234788854 98 88998888888875 643
No 144
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=38.60 E-value=16 Score=36.96 Aligned_cols=72 Identities=15% Similarity=0.243 Sum_probs=0.0
Q ss_pred CCCCCCCCCcccCCcccchhhhhhccceeeeccCCccccCCCCCCccCChhhHHHHHhhcCCCccccC-CCCccCChhHH
Q 012364 322 CPYAGCKRNKDHKKFQPLKTILCVKNHYKRTHCDKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKDKL 400 (465)
Q Consensus 322 C~~Cgc~~~~~~~~~k~f~~~~~l~~H~k~h~~~Kpy~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk~F~~~s~L 400 (465)
||+|| ..-...+...-....+.+-..|..|+ -.+... +-+|. ||..
T Consensus 187 CPvCG------------s~P~~s~~~~~~~~~G~RyL~CslC~-teW~~~-------------R~~C~~Cg~~------- 233 (305)
T TIGR01562 187 CPACG------------SPPVASMVRQGGKETGLRYLSCSLCA-TEWHYV-------------RVKCSHCEES------- 233 (305)
T ss_pred CCCCC------------ChhhhhhhcccCCCCCceEEEcCCCC-Cccccc-------------CccCCCCCCC-------
Q ss_pred HHHHHhhc-----CCCCCCCCCCCCCCCCCCC
Q 012364 401 FGHIALFQ-----GHTPAIPLDETIKGLAGPS 427 (465)
Q Consensus 401 ~~H~r~H~-----g~kp~~~~~C~~Cg~~F~~ 427 (465)
+++..++ ++..++-..|..|+...+.
T Consensus 234 -~~l~y~~~e~~~~~~~~r~e~C~~C~~YlK~ 264 (305)
T TIGR01562 234 -KHLAYLSLEHDAEKAVLKAETCDSCQGYLKI 264 (305)
T ss_pred -CceeeEeecCCCCCcceEEeeccccccchhh
No 145
>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=38.47 E-value=28 Score=21.80 Aligned_cols=20 Identities=15% Similarity=0.453 Sum_probs=15.9
Q ss_pred eecCCCCCccCCHHHHHHHHH
Q 012364 271 HFCTICGKGFKRDANLRMHMR 291 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r 291 (465)
..|++|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4699999999 5677888865
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=38.41 E-value=27 Score=29.47 Aligned_cols=25 Identities=24% Similarity=0.404 Sum_probs=22.9
Q ss_pred eec----CCCCCccCCHHHHHHHHHHhCC
Q 012364 271 HFC----TICGKGFKRDANLRMHMRGHGD 295 (465)
Q Consensus 271 ~~C----~~Cgk~F~~~~~L~~H~r~H~~ 295 (465)
|.| ..|+..+.+...++.|++.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 999 9999999999999999998754
No 147
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=37.81 E-value=18 Score=32.11 Aligned_cols=23 Identities=35% Similarity=0.504 Sum_probs=19.9
Q ss_pred eecCCCCCccCCHHHHHHHHHHhCCC
Q 012364 271 HFCTICGKGFKRDANLRMHMRGHGDE 296 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~H~~e 296 (465)
..|-+|||.|+ +|++|..+|.+-
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 148
>PF15269 zf-C2H2_7: Zinc-finger
Probab=37.68 E-value=22 Score=25.43 Aligned_cols=21 Identities=33% Similarity=0.717 Sum_probs=15.5
Q ss_pred cccC-CCCccCChhHHHHHHHh
Q 012364 386 WLCS-CGTTFSRKDKLFGHIAL 406 (465)
Q Consensus 386 y~C~-Cgk~F~~~s~L~~H~r~ 406 (465)
|+|- |..+..-++.|..||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5677 77777778888888763
No 149
>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=36.91 E-value=17 Score=30.07 Aligned_cols=9 Identities=44% Similarity=1.586 Sum_probs=5.5
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
..|.||+||
T Consensus 34 ~ky~Cp~Cg 42 (90)
T PF01780_consen 34 AKYTCPFCG 42 (90)
T ss_dssp S-BEESSSS
T ss_pred CCCcCCCCC
Confidence 456777777
No 150
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.29 E-value=13 Score=39.19 Aligned_cols=37 Identities=27% Similarity=0.694 Sum_probs=24.3
Q ss_pred ccCCccccCCCCCCccCChhhHHHHHhhcCCCccccC-CCC
Q 012364 353 HCDKSYVCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGT 392 (465)
Q Consensus 353 ~~~Kpy~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk 392 (465)
+...-|.|+.|. +.|+....++.= -.....|.|. |+-
T Consensus 124 t~~~~Y~Cp~C~-kkyt~Lea~~L~--~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQ-KKYTSLEALQLL--DNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccc-cchhhhHHHHhh--cccCceEEEecCCC
Confidence 334579999998 888876655422 2234468888 873
No 151
>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=36.08 E-value=12 Score=42.61 Aligned_cols=7 Identities=43% Similarity=1.051 Sum_probs=0.0
Q ss_pred ccCCCCC
Q 012364 320 YSCPYAG 326 (465)
Q Consensus 320 y~C~~Cg 326 (465)
+.|+.||
T Consensus 656 r~Cp~Cg 662 (900)
T PF03833_consen 656 RRCPKCG 662 (900)
T ss_dssp -------
T ss_pred ccCcccC
Confidence 4455555
No 152
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.29 E-value=10 Score=30.22 Aligned_cols=9 Identities=44% Similarity=1.468 Sum_probs=4.8
Q ss_pred cccC-CCCcc
Q 012364 386 WLCS-CGTTF 394 (465)
Q Consensus 386 y~C~-Cgk~F 394 (465)
|.|. ||..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 5555 55544
No 153
>PRK12496 hypothetical protein; Provisional
Probab=35.23 E-value=25 Score=32.24 Aligned_cols=9 Identities=22% Similarity=0.948 Sum_probs=4.2
Q ss_pred cccC-CCCcc
Q 012364 386 WLCS-CGTTF 394 (465)
Q Consensus 386 y~C~-Cgk~F 394 (465)
|.|. ||+.|
T Consensus 128 ~~C~gC~~~~ 137 (164)
T PRK12496 128 KVCKGCKKKY 137 (164)
T ss_pred EECCCCCccc
Confidence 4444 44444
No 154
>PF14353 CpXC: CpXC protein
Probab=34.73 E-value=33 Score=29.74 Aligned_cols=20 Identities=35% Similarity=0.728 Sum_probs=13.2
Q ss_pred ccccCCCCCCccCChhhHHHH
Q 012364 357 SYVCSRCNTKKFSVIADLKTH 377 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L~~H 377 (465)
.|.|+.|| +.|.....+..|
T Consensus 38 ~~~CP~Cg-~~~~~~~p~lY~ 57 (128)
T PF14353_consen 38 SFTCPSCG-HKFRLEYPLLYH 57 (128)
T ss_pred EEECCCCC-CceecCCCEEEE
Confidence 47888888 777655554444
No 155
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=33.25 E-value=14 Score=32.50 Aligned_cols=14 Identities=36% Similarity=1.018 Sum_probs=8.8
Q ss_pred CccccCCCCCCccCC
Q 012364 356 KSYVCSRCNTKKFSV 370 (465)
Q Consensus 356 Kpy~C~~Cg~K~F~~ 370 (465)
-.|+|..|+ +.|..
T Consensus 52 qRyrC~~C~-~tf~~ 65 (129)
T COG3677 52 QRYKCKSCG-STFTV 65 (129)
T ss_pred cccccCCcC-cceee
Confidence 356777776 66654
No 156
>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=32.61 E-value=24 Score=24.58 Aligned_cols=10 Identities=30% Similarity=0.896 Sum_probs=6.6
Q ss_pred CCccccCCCC
Q 012364 355 DKSYVCSRCN 364 (465)
Q Consensus 355 ~Kpy~C~~Cg 364 (465)
..+-.|+.||
T Consensus 24 ~~~~~CP~Cg 33 (42)
T PF09723_consen 24 DDPVPCPECG 33 (42)
T ss_pred CCCCcCCCCC
Confidence 4556777777
No 157
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=32.36 E-value=23 Score=37.34 Aligned_cols=29 Identities=34% Similarity=0.836 Sum_probs=19.5
Q ss_pred ccCCCCCCccCChhhHHHHHhhcCCCccccC-CCCccCChh
Q 012364 359 VCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTTFSRKD 398 (465)
Q Consensus 359 ~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk~F~~~s 398 (465)
.|+.|| .+ |+-.|.+-|+|. ||+++....
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 688888 43 333455578888 888886544
No 158
>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=32.29 E-value=33 Score=28.92 Aligned_cols=25 Identities=16% Similarity=0.442 Sum_probs=19.6
Q ss_pred cceecCCCCCccCCHHHHHHHHHHhC
Q 012364 269 HTHFCTICGKGFKRDANLRMHMRGHG 294 (465)
Q Consensus 269 k~~~C~~Cgk~F~~~~~L~~H~r~H~ 294 (465)
+...|..|+.+..- ..+..|++..+
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 45689999988876 78999998543
No 159
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=31.76 E-value=28 Score=28.79 Aligned_cols=9 Identities=33% Similarity=0.896 Sum_probs=5.5
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
..|.|++||
T Consensus 35 a~y~CpfCg 43 (90)
T PRK03976 35 AKHVCPVCG 43 (90)
T ss_pred cCccCCCCC
Confidence 446666666
No 160
>PF15269 zf-C2H2_7: Zinc-finger
Probab=31.64 E-value=42 Score=24.01 Aligned_cols=26 Identities=23% Similarity=0.327 Sum_probs=21.8
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHH
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
.+-.|+|-+|..+...+++|-.||+-
T Consensus 17 kp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 17 KPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCccceeecCCcccchHHHHHHHHHH
Confidence 34458999999999999999999973
No 161
>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=30.47 E-value=25 Score=31.70 Aligned_cols=17 Identities=18% Similarity=0.598 Sum_probs=12.6
Q ss_pred ccccCCCCCCccCChhhH
Q 012364 357 SYVCSRCNTKKFSVIADL 374 (465)
Q Consensus 357 py~C~~Cg~K~F~~~~~L 374 (465)
.=.|..|+ +.|++....
T Consensus 28 RReC~~C~-~RFTTyErv 44 (147)
T TIGR00244 28 RRECLECH-ERFTTFERA 44 (147)
T ss_pred cccCCccC-Cccceeeec
Confidence 45788999 899876543
No 162
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=30.28 E-value=16 Score=32.99 Aligned_cols=17 Identities=18% Similarity=0.659 Sum_probs=11.9
Q ss_pred CccccCCCCCCccCChhh
Q 012364 356 KSYVCSRCNTKKFSVIAD 373 (465)
Q Consensus 356 Kpy~C~~Cg~K~F~~~~~ 373 (465)
+.-.|..|+ +.|++...
T Consensus 27 RRReC~~C~-~RFTTfE~ 43 (156)
T COG1327 27 RRRECLECG-ERFTTFER 43 (156)
T ss_pred hhhcccccc-cccchhhe
Confidence 345788888 88876643
No 163
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.26 E-value=22 Score=31.60 Aligned_cols=15 Identities=20% Similarity=0.503 Sum_probs=12.2
Q ss_pred cceecCCCCCccCCH
Q 012364 269 HTHFCTICGKGFKRD 283 (465)
Q Consensus 269 k~~~C~~Cgk~F~~~ 283 (465)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 459999999988654
No 164
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=30.17 E-value=16 Score=37.40 Aligned_cols=25 Identities=8% Similarity=-0.154 Sum_probs=19.9
Q ss_pred CCCCCCCCCCCCCCCChhhhhhhcc
Q 012364 413 AIPLDETIKGLAGPSDRREGNEATS 437 (465)
Q Consensus 413 ~~~~~C~~Cg~~F~~~~~L~~H~~~ 437 (465)
.++|+|++|.++++..-.|..|+..
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cCcccChhhhhhhccCCCCCceeeh
Confidence 3567899999999988888887643
No 165
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=30.11 E-value=38 Score=23.56 Aligned_cols=9 Identities=33% Similarity=0.984 Sum_probs=5.3
Q ss_pred CccccCCCC
Q 012364 356 KSYVCSRCN 364 (465)
Q Consensus 356 Kpy~C~~Cg 364 (465)
.-+.|..||
T Consensus 18 g~~vC~~CG 26 (43)
T PF08271_consen 18 GELVCPNCG 26 (43)
T ss_dssp TEEEETTT-
T ss_pred CeEECCCCC
Confidence 346777777
No 166
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=29.90 E-value=27 Score=37.12 Aligned_cols=22 Identities=32% Similarity=0.841 Sum_probs=19.9
Q ss_pred eecCCCCCccCCHHHHHHHHHH
Q 012364 271 HFCTICGKGFKRDANLRMHMRG 292 (465)
Q Consensus 271 ~~C~~Cgk~F~~~~~L~~H~r~ 292 (465)
+.|.+|.|.|++...|..|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999754
No 167
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=29.89 E-value=42 Score=40.09 Aligned_cols=10 Identities=30% Similarity=0.813 Sum_probs=8.2
Q ss_pred ceecCCCCCc
Q 012364 270 THFCTICGKG 279 (465)
Q Consensus 270 ~~~C~~Cgk~ 279 (465)
.++|+.||..
T Consensus 667 ~rkCPkCG~~ 676 (1337)
T PRK14714 667 RRRCPSCGTE 676 (1337)
T ss_pred EEECCCCCCc
Confidence 3899999974
No 168
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.84 E-value=27 Score=29.83 Aligned_cols=12 Identities=17% Similarity=0.559 Sum_probs=7.3
Q ss_pred CCccccC-CCCcc
Q 012364 383 KDKWLCS-CGTTF 394 (465)
Q Consensus 383 ekpy~C~-Cgk~F 394 (465)
..|..|+ ||++|
T Consensus 24 rdPiVsPytG~s~ 36 (129)
T COG4530 24 RDPIVSPYTGKSY 36 (129)
T ss_pred CCccccCcccccc
Confidence 3566666 66666
No 169
>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=29.13 E-value=23 Score=34.07 Aligned_cols=28 Identities=21% Similarity=0.338 Sum_probs=20.6
Q ss_pred cCCccccCCCCCCccCChhhHHHHHh--hcC
Q 012364 354 CDKSYVCSRCNTKKFSVIADLKTHEK--HCG 382 (465)
Q Consensus 354 ~~Kpy~C~~Cg~K~F~~~~~L~~H~~--H~g 382 (465)
.+..|.|..|+ |.|.-..-.++|+. |..
T Consensus 74 ~~~K~~C~lc~-KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCG-KLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS--EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCC-cccCChHHHHHHHhhcCHH
Confidence 44579999999 99999999999987 765
No 170
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.12 E-value=10 Score=42.24 Aligned_cols=29 Identities=24% Similarity=0.693 Sum_probs=17.0
Q ss_pred ccCCCCCCccCChhhHHHHHhhcCCCccccC-CCCc
Q 012364 359 VCSRCNTKKFSVIADLKTHEKHCGKDKWLCS-CGTT 393 (465)
Q Consensus 359 ~C~~Cg~K~F~~~~~L~~H~~H~gekpy~C~-Cgk~ 393 (465)
-|+.|. +.|...-+-+-| -.|..|+ ||-.
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 666666554333 2356677 7753
No 171
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=28.93 E-value=28 Score=31.54 Aligned_cols=13 Identities=31% Similarity=0.782 Sum_probs=7.4
Q ss_pred ccccC-CCCccCCh
Q 012364 385 KWLCS-CGTTFSRK 397 (465)
Q Consensus 385 py~C~-Cgk~F~~~ 397 (465)
.-.|. ||++|++-
T Consensus 28 RReC~~C~~RFTTf 41 (156)
T COG1327 28 RRECLECGERFTTF 41 (156)
T ss_pred hhcccccccccchh
Confidence 34566 66666554
No 172
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=27.29 E-value=41 Score=37.76 Aligned_cols=11 Identities=27% Similarity=0.742 Sum_probs=6.9
Q ss_pred ccC-CCCccCCh
Q 012364 387 LCS-CGTTFSRK 397 (465)
Q Consensus 387 ~C~-Cgk~F~~~ 397 (465)
.|+ ||....+.
T Consensus 43 fC~~CG~~~~~~ 54 (645)
T PRK14559 43 HCPNCGAETGTI 54 (645)
T ss_pred cccccCCcccch
Confidence 577 77765544
No 173
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=26.89 E-value=34 Score=23.69 Aligned_cols=12 Identities=33% Similarity=1.184 Sum_probs=8.1
Q ss_pred ccccCCCCCCccC
Q 012364 357 SYVCSRCNTKKFS 369 (465)
Q Consensus 357 py~C~~Cg~K~F~ 369 (465)
-|.|..|+ ..|.
T Consensus 28 fy~C~~C~-~~w~ 39 (40)
T smart00440 28 FYVCTKCG-HRWR 39 (40)
T ss_pred EEEeCCCC-CEeC
Confidence 47787787 6553
No 174
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=26.49 E-value=40 Score=29.94 Aligned_cols=12 Identities=33% Similarity=0.368 Sum_probs=5.5
Q ss_pred HHHHHHhhcCCC
Q 012364 400 LFGHIALFQGHT 411 (465)
Q Consensus 400 L~~H~r~H~g~k 411 (465)
|++|+.+|.|-.
T Consensus 89 LKRHL~t~~gmT 100 (148)
T COG4957 89 LKRHLTTHYGLT 100 (148)
T ss_pred HHHHHhcccCCC
Confidence 444544444433
No 175
>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=26.29 E-value=43 Score=30.23 Aligned_cols=6 Identities=17% Similarity=-0.103 Sum_probs=3.0
Q ss_pred CCCCCC
Q 012364 417 DETIKG 422 (465)
Q Consensus 417 ~C~~Cg 422 (465)
.|+.||
T Consensus 132 ~Cp~C~ 137 (146)
T PF07295_consen 132 PCPKCG 137 (146)
T ss_pred CCCCCC
Confidence 355554
No 176
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=25.43 E-value=72 Score=22.18 Aligned_cols=24 Identities=21% Similarity=0.538 Sum_probs=18.3
Q ss_pred eecCCCCCccCC--HHHHHHHHHHhC
Q 012364 271 HFCTICGKGFKR--DANLRMHMRGHG 294 (465)
Q Consensus 271 ~~C~~Cgk~F~~--~~~L~~H~r~H~ 294 (465)
-.|+.||..|.. ...-+.|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 589999999854 566777877764
No 177
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=25.24 E-value=60 Score=32.86 Aligned_cols=102 Identities=18% Similarity=0.260 Sum_probs=61.5
Q ss_pred ccccCCCCCCCCCcccCCcccc--hhhhhhccceeeeccC--CccccCCCCCCccCChhhHHHHHh-hcCCCccccC---
Q 012364 318 KRYSCPYAGCKRNKDHKKFQPL--KTILCVKNHYKRTHCD--KSYVCSRCNTKKFSVIADLKTHEK-HCGKDKWLCS--- 389 (465)
Q Consensus 318 kpy~C~~Cgc~~~~~~~~~k~f--~~~~~l~~H~k~h~~~--Kpy~C~~Cg~K~F~~~~~L~~H~~-H~gekpy~C~--- 389 (465)
.-+.||+|. ... ....+-.-|+.|..|- +..+|+.|. ..+... ..++|. -.....+.|.
T Consensus 47 ~lleCPvC~----------~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr-~~~g~~--R~~amEkV~e~~~vpC~~~~ 113 (299)
T KOG3002|consen 47 DLLDCPVCF----------NPLSPPIFQCDNGHLACSSCRTKVSNKCPTCR-LPIGNI--RCRAMEKVAEAVLVPCKNAK 113 (299)
T ss_pred hhccCchhh----------ccCcccceecCCCcEehhhhhhhhcccCCccc-cccccH--HHHHHHHHHHhceecccccc
Confidence 457899997 221 1223344578888774 678999998 777644 445554 3344556775
Q ss_pred --CCCccCChhHHHHHHHhhcCCCCCCCCCCCCCC--CCCCC-Chhhhhhhcc
Q 012364 390 --CGTTFSRKDKLFGHIALFQGHTPAIPLDETIKG--LAGPS-DRREGNEATS 437 (465)
Q Consensus 390 --Cgk~F~~~s~L~~H~r~H~g~kp~~~~~C~~Cg--~~F~~-~~~L~~H~~~ 437 (465)
|.++|..... ..|-+.- .+.++.|+.-| -.+.. -..|..|.+.
T Consensus 114 ~GC~~~~~Y~~~-~~HE~~C----~f~~~~CP~p~~~C~~~G~~~~l~~H~~~ 161 (299)
T KOG3002|consen 114 LGCTKSFPYGEK-SKHEKVC----EFRPCSCPVPGAECKYTGSYKDLYAHLND 161 (299)
T ss_pred cCCceeeccccc-ccccccc----ccCCcCCCCCcccCCccCcHHHHHHHHHh
Confidence 9999998777 4455543 34556676542 22222 2455666655
No 178
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=25.09 E-value=40 Score=28.90 Aligned_cols=14 Identities=14% Similarity=0.363 Sum_probs=11.2
Q ss_pred cceecCCCCCccCC
Q 012364 269 HTHFCTICGKGFKR 282 (465)
Q Consensus 269 k~~~C~~Cgk~F~~ 282 (465)
-.+.|..||..|..
T Consensus 69 ~~~~C~~Cg~~~~~ 82 (113)
T PRK12380 69 AQAWCWDCSQVVEI 82 (113)
T ss_pred cEEEcccCCCEEec
Confidence 34899999988864
No 179
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=24.93 E-value=41 Score=28.88 Aligned_cols=13 Identities=15% Similarity=0.488 Sum_probs=9.4
Q ss_pred eecCCCCCccCCH
Q 012364 271 HFCTICGKGFKRD 283 (465)
Q Consensus 271 ~~C~~Cgk~F~~~ 283 (465)
..|..|+..|.-.
T Consensus 26 ~~C~~Ck~~~~v~ 38 (116)
T KOG2907|consen 26 VLCIRCKIEYPVS 38 (116)
T ss_pred eEeccccccCCHH
Confidence 5588888877643
No 180
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=24.31 E-value=41 Score=28.33 Aligned_cols=10 Identities=40% Similarity=1.046 Sum_probs=7.1
Q ss_pred cccccCCCCC
Q 012364 317 IKRYSCPYAG 326 (465)
Q Consensus 317 ekpy~C~~Cg 326 (465)
++.|.|+.||
T Consensus 20 ~k~FtCp~Cg 29 (104)
T COG4888 20 PKTFTCPRCG 29 (104)
T ss_pred CceEecCccC
Confidence 3567777777
No 181
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=24.13 E-value=34 Score=30.53 Aligned_cols=8 Identities=38% Similarity=0.891 Sum_probs=4.0
Q ss_pred cccCCCCC
Q 012364 319 RYSCPYAG 326 (465)
Q Consensus 319 py~C~~Cg 326 (465)
.|.|..|+
T Consensus 112 ~y~C~~C~ 119 (146)
T smart00731 112 PYRCTGCG 119 (146)
T ss_pred EEECCCCC
Confidence 45555454
No 182
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=24.10 E-value=47 Score=35.21 Aligned_cols=25 Identities=24% Similarity=0.438 Sum_probs=21.0
Q ss_pred CCcceecCCCC-CccCCHHHHHHHHH
Q 012364 267 APHTHFCTICG-KGFKRDANLRMHMR 291 (465)
Q Consensus 267 ~~k~~~C~~Cg-k~F~~~~~L~~H~r 291 (465)
-...|.|.+|| +++.-+..+.+|-.
T Consensus 398 L~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 398 LDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CCcccceeeccCccccCcHHHHHHhH
Confidence 34569999999 89999999999965
No 183
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=23.75 E-value=58 Score=29.41 Aligned_cols=11 Identities=18% Similarity=0.226 Sum_probs=8.8
Q ss_pred ccccccCCCCC
Q 012364 316 LIKRYSCPYAG 326 (465)
Q Consensus 316 ~ekpy~C~~Cg 326 (465)
|...|.|..||
T Consensus 109 g~G~l~C~~Cg 119 (146)
T PF07295_consen 109 GPGTLVCENCG 119 (146)
T ss_pred cCceEecccCC
Confidence 34569999999
No 184
>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=23.72 E-value=36 Score=29.15 Aligned_cols=15 Identities=33% Similarity=0.720 Sum_probs=10.9
Q ss_pred cceecCCCCCccCCH
Q 012364 269 HTHFCTICGKGFKRD 283 (465)
Q Consensus 269 k~~~C~~Cgk~F~~~ 283 (465)
-.+.|..||+.|.-.
T Consensus 69 ~~~~C~~Cg~~~~~~ 83 (113)
T PF01155_consen 69 ARARCRDCGHEFEPD 83 (113)
T ss_dssp -EEEETTTS-EEECH
T ss_pred CcEECCCCCCEEecC
Confidence 348999999999754
No 185
>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=23.65 E-value=40 Score=22.77 Aligned_cols=14 Identities=29% Similarity=0.522 Sum_probs=11.6
Q ss_pred ceecCCCCCccCCH
Q 012364 270 THFCTICGKGFKRD 283 (465)
Q Consensus 270 ~~~C~~Cgk~F~~~ 283 (465)
.|+|..||+.|...
T Consensus 5 ~y~C~~Cg~~fe~~ 18 (41)
T smart00834 5 EYRCEDCGHTFEVL 18 (41)
T ss_pred EEEcCCCCCEEEEE
Confidence 49999999999643
No 186
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=22.87 E-value=38 Score=30.71 Aligned_cols=8 Identities=38% Similarity=1.211 Sum_probs=4.2
Q ss_pred ccccC-CCC
Q 012364 385 KWLCS-CGT 392 (465)
Q Consensus 385 py~C~-Cgk 392 (465)
.|.|. |+-
T Consensus 140 ~YrC~~C~g 148 (156)
T COG3091 140 VYRCGKCGG 148 (156)
T ss_pred eEEeccCCc
Confidence 45555 543
No 187
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.34 E-value=16 Score=35.25 Aligned_cols=30 Identities=20% Similarity=0.346 Sum_probs=20.3
Q ss_pred CCcceecCCCCCccCCHHHHHHHHHHhCCC
Q 012364 267 APHTHFCTICGKGFKRDANLRMHMRGHGDE 296 (465)
Q Consensus 267 ~~k~~~C~~Cgk~F~~~~~L~~H~r~H~~e 296 (465)
-++.+.|++|+..|.....+..-.|+-.|+
T Consensus 16 ~kk~ieCPvC~tkFkkeev~tgsiRiiagD 45 (267)
T COG1655 16 YKKTIECPVCNTKFKKEEVKTGSIRIIAGD 45 (267)
T ss_pred hhceeccCcccchhhhhheeccceeEeccc
Confidence 456799999999998875544444443333
No 188
>KOG0402 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=22.21 E-value=38 Score=27.49 Aligned_cols=7 Identities=43% Similarity=1.587 Sum_probs=3.6
Q ss_pred ccCCCCC
Q 012364 320 YSCPYAG 326 (465)
Q Consensus 320 y~C~~Cg 326 (465)
|.|++||
T Consensus 37 y~CsfCG 43 (92)
T KOG0402|consen 37 YTCSFCG 43 (92)
T ss_pred hhhhhcc
Confidence 5555555
No 189
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=21.62 E-value=46 Score=22.55 Aligned_cols=9 Identities=33% Similarity=1.313 Sum_probs=5.6
Q ss_pred cccC-CCCcc
Q 012364 386 WLCS-CGTTF 394 (465)
Q Consensus 386 y~C~-Cgk~F 394 (465)
+.|. ||+.|
T Consensus 2 r~C~~Cg~~Y 11 (36)
T PF05191_consen 2 RICPKCGRIY 11 (36)
T ss_dssp EEETTTTEEE
T ss_pred cCcCCCCCcc
Confidence 4566 66666
No 190
>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=21.47 E-value=39 Score=28.62 Aligned_cols=9 Identities=56% Similarity=1.250 Sum_probs=7.0
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
||-.|++||
T Consensus 1 ~p~~CpYCg 9 (102)
T PF11672_consen 1 KPIICPYCG 9 (102)
T ss_pred CCcccCCCC
Confidence 567788888
No 191
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=21.12 E-value=48 Score=34.19 Aligned_cols=39 Identities=23% Similarity=0.403 Sum_probs=16.4
Q ss_pred CccccCCCCCCccCChhhHHH---HHh--hcCC-CccccC-CCCccC
Q 012364 356 KSYVCSRCNTKKFSVIADLKT---HEK--HCGK-DKWLCS-CGTTFS 395 (465)
Q Consensus 356 Kpy~C~~Cg~K~F~~~~~L~~---H~~--H~ge-kpy~C~-Cgk~F~ 395 (465)
+-|.|..|. +.+......-. |.. |.+. +-|+|. |+++..
T Consensus 251 kav~C~~C~-yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~ 296 (344)
T PF09332_consen 251 KAVTCKQCK-YTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTI 296 (344)
T ss_dssp EEEEETTT---EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEE
T ss_pred EEEEcCCCC-CcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeee
Confidence 346677776 55544444332 322 3333 346787 877654
No 192
>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=20.92 E-value=52 Score=20.39 Aligned_cols=10 Identities=30% Similarity=0.594 Sum_probs=8.2
Q ss_pred cceecCCCCC
Q 012364 269 HTHFCTICGK 278 (465)
Q Consensus 269 k~~~C~~Cgk 278 (465)
-.|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3599999985
No 193
>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=20.91 E-value=96 Score=28.19 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=24.6
Q ss_pred cceecCCCCCcc------CCHHHHHHHHHH-hCCCCCChhhhhcccccCCCCcCccccccCCCCCCC
Q 012364 269 HTHFCTICGKGF------KRDANLRMHMRG-HGDEYKTPAALAKPHKESSSEPMLIKRYSCPYAGCK 328 (465)
Q Consensus 269 k~~~C~~Cgk~F------~~~~~L~~H~r~-H~~ef~~~~~L~~H~~~h~~~h~~ekpy~C~~Cgc~ 328 (465)
-..+|..|+|-| ...+++..|+.. .+.+ ...|.....++..+.|-.||++
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 347899998888 355778888653 3322 2334444556678999999965
No 194
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=20.73 E-value=56 Score=28.07 Aligned_cols=14 Identities=14% Similarity=0.285 Sum_probs=11.3
Q ss_pred cceecCCCCCccCC
Q 012364 269 HTHFCTICGKGFKR 282 (465)
Q Consensus 269 k~~~C~~Cgk~F~~ 282 (465)
-...|..||+.|..
T Consensus 69 ~~~~C~~Cg~~~~~ 82 (115)
T TIGR00100 69 VECECEDCSEEVSP 82 (115)
T ss_pred cEEEcccCCCEEec
Confidence 34899999988864
No 195
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.37 E-value=58 Score=28.12 Aligned_cols=14 Identities=29% Similarity=0.439 Sum_probs=11.2
Q ss_pred cceecCCCCCccCC
Q 012364 269 HTHFCTICGKGFKR 282 (465)
Q Consensus 269 k~~~C~~Cgk~F~~ 282 (465)
-.+.|..||..|..
T Consensus 70 ~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 70 VELECKDCSHVFKP 83 (117)
T ss_pred CEEEhhhCCCcccc
Confidence 35899999988864
No 196
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=20.25 E-value=63 Score=22.52 Aligned_cols=9 Identities=44% Similarity=0.851 Sum_probs=7.3
Q ss_pred ccccCCCCC
Q 012364 318 KRYSCPYAG 326 (465)
Q Consensus 318 kpy~C~~Cg 326 (465)
+|..|+.||
T Consensus 1 ~~~~Cp~Cg 9 (47)
T PF14690_consen 1 KPPRCPHCG 9 (47)
T ss_pred CCccCCCcC
Confidence 367899999
Done!