Query 042026
Match_columns 335
No_of_seqs 336 out of 2429
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 13:14:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042026.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042026hhsearch_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 2.6E-26 5.7E-31 197.5 6.1 135 156-320 127-264 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.4E-24 3E-29 186.9 5.9 118 186-332 127-248 (279)
3 KOG1074 Transcriptional repres 99.9 2.5E-22 5.5E-27 194.1 8.2 57 272-329 879-937 (958)
4 KOG3623 Homeobox transcription 99.8 1E-19 2.2E-24 173.5 4.0 59 272-331 894-954 (1007)
5 KOG3608 Zn finger proteins [Ge 99.7 8.7E-18 1.9E-22 148.6 5.8 155 156-322 204-376 (467)
6 KOG1074 Transcriptional repres 99.6 4.1E-17 8.9E-22 158.3 2.9 58 159-218 353-410 (958)
7 KOG3608 Zn finger proteins [Ge 99.6 6.1E-16 1.3E-20 137.0 4.8 150 165-330 185-355 (467)
8 KOG3576 Ovo and related transc 99.5 3.3E-15 7.2E-20 123.0 2.3 108 187-324 115-237 (267)
9 KOG3623 Homeobox transcription 99.5 4.3E-15 9.2E-20 142.3 1.8 80 185-320 890-971 (1007)
10 KOG3576 Ovo and related transc 99.3 1.6E-12 3.6E-17 107.2 5.4 119 157-297 115-237 (267)
11 PHA00733 hypothetical protein 99.0 4.1E-10 8.9E-15 89.4 4.8 84 186-324 37-124 (128)
12 PLN03086 PRLI-interacting fact 99.0 1.3E-09 2.8E-14 105.5 9.0 135 158-321 406-562 (567)
13 PHA02768 hypothetical protein; 98.9 4.2E-10 9.2E-15 74.0 1.3 42 272-316 5-48 (55)
14 PLN03086 PRLI-interacting fact 98.9 2.6E-09 5.7E-14 103.4 5.8 119 189-331 407-545 (567)
15 PHA02768 hypothetical protein; 98.7 7.4E-09 1.6E-13 68.2 1.6 24 190-213 6-29 (55)
16 PF13465 zf-H2C2_2: Zinc-finge 98.6 2.6E-08 5.6E-13 56.0 2.2 24 288-311 1-26 (26)
17 PHA00616 hypothetical protein 98.6 3E-08 6.5E-13 62.1 1.8 31 300-330 1-32 (44)
18 PHA00733 hypothetical protein 98.5 5.1E-08 1.1E-12 77.4 3.0 78 159-294 40-120 (128)
19 PHA00616 hypothetical protein 98.3 2E-07 4.3E-12 58.4 1.4 32 272-304 1-33 (44)
20 KOG3993 Transcription factor ( 98.3 2.3E-07 4.9E-12 85.0 0.8 53 271-324 294-381 (500)
21 PHA00732 hypothetical protein 98.2 8.2E-07 1.8E-11 64.1 2.8 45 272-323 1-48 (79)
22 PF13465 zf-H2C2_2: Zinc-finge 98.2 1.1E-06 2.3E-11 49.4 2.6 13 271-284 13-25 (26)
23 PF05605 zf-Di19: Drought indu 98.0 9.8E-06 2.1E-10 54.2 3.9 49 272-324 2-54 (54)
24 KOG3993 Transcription factor ( 97.9 1.5E-06 3.3E-11 79.7 -1.5 113 159-296 267-380 (500)
25 PF00096 zf-C2H2: Zinc finger, 97.9 9.6E-06 2.1E-10 44.0 2.1 23 190-212 1-23 (23)
26 PF00096 zf-C2H2: Zinc finger, 97.9 1.3E-05 2.9E-10 43.4 2.5 22 301-322 1-23 (23)
27 PHA00732 hypothetical protein 97.8 1.2E-05 2.6E-10 58.1 2.3 23 189-211 1-23 (79)
28 PF05605 zf-Di19: Drought indu 97.8 4.6E-05 1E-09 50.9 4.3 51 160-213 3-53 (54)
29 COG5189 SFP1 Putative transcri 97.7 1E-05 2.3E-10 71.7 0.2 50 270-320 347-419 (423)
30 COG5189 SFP1 Putative transcri 97.6 2.8E-05 6.2E-10 69.0 1.5 71 187-295 347-420 (423)
31 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00014 3.1E-09 39.5 2.4 22 301-322 1-23 (24)
32 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00013 2.8E-09 39.6 2.2 24 190-213 1-24 (24)
33 PF13912 zf-C2H2_6: C2H2-type 97.4 0.00015 3.2E-09 40.9 2.3 23 300-322 1-24 (27)
34 PF13912 zf-C2H2_6: C2H2-type 97.1 0.00036 7.9E-09 39.3 2.1 24 272-296 1-25 (27)
35 PF12756 zf-C2H2_2: C2H2 type 97.0 0.00049 1.1E-08 51.9 2.7 48 274-322 1-73 (100)
36 PF09237 GAGA: GAGA factor; I 96.9 0.00088 1.9E-08 43.1 2.4 38 290-327 12-52 (54)
37 smart00355 ZnF_C2H2 zinc finge 96.7 0.0014 3.1E-08 35.9 2.2 22 301-322 1-23 (26)
38 PRK04860 hypothetical protein; 96.7 0.00079 1.7E-08 55.5 1.4 38 271-313 118-157 (160)
39 smart00355 ZnF_C2H2 zinc finge 96.6 0.0015 3.2E-08 35.9 1.9 24 190-213 1-24 (26)
40 PF12756 zf-C2H2_2: C2H2 type 96.5 0.0018 3.9E-08 48.7 2.4 23 271-294 49-71 (100)
41 PF09237 GAGA: GAGA factor; I 96.4 0.0036 7.9E-08 40.3 2.8 33 185-217 20-52 (54)
42 PF12874 zf-met: Zinc-finger o 96.2 0.0023 5.1E-08 35.2 1.3 23 190-212 1-23 (25)
43 KOG2231 Predicted E3 ubiquitin 95.9 0.022 4.7E-07 56.8 7.2 130 191-331 117-275 (669)
44 PF13909 zf-H2C2_5: C2H2-type 95.7 0.0085 1.9E-07 32.5 2.1 22 301-323 1-23 (24)
45 PF12874 zf-met: Zinc-finger o 95.7 0.0097 2.1E-07 32.6 2.2 21 301-321 1-22 (25)
46 PRK04860 hypothetical protein; 95.3 0.015 3.3E-07 47.9 2.9 29 188-220 118-146 (160)
47 PF13909 zf-H2C2_5: C2H2-type 95.1 0.016 3.4E-07 31.5 1.8 23 190-213 1-23 (24)
48 PF12171 zf-C2H2_jaz: Zinc-fin 95.1 0.0039 8.4E-08 35.1 -0.8 22 190-211 2-23 (27)
49 KOG1146 Homeobox protein [Gene 94.6 0.034 7.4E-07 58.8 4.1 127 162-320 439-610 (1406)
50 COG5048 FOG: Zn-finger [Genera 94.4 0.006 1.3E-07 58.2 -1.9 59 160-219 290-353 (467)
51 PF12171 zf-C2H2_jaz: Zinc-fin 93.7 0.029 6.3E-07 31.4 0.8 21 273-294 2-22 (27)
52 COG5048 FOG: Zn-finger [Genera 92.9 0.045 9.9E-07 52.1 1.2 135 188-331 288-450 (467)
53 PF13913 zf-C2HC_2: zinc-finge 92.6 0.095 2.1E-06 28.8 1.8 19 302-321 4-23 (25)
54 smart00451 ZnF_U1 U1-like zinc 91.4 0.13 2.8E-06 30.5 1.6 23 189-211 3-25 (35)
55 KOG1146 Homeobox protein [Gene 90.8 0.53 1.2E-05 50.3 6.2 47 157-209 1258-1304(1406)
56 PF13913 zf-C2HC_2: zinc-finge 90.8 0.18 4E-06 27.7 1.6 21 190-211 3-23 (25)
57 KOG2482 Predicted C2H2-type Zn 90.1 0.38 8.3E-06 43.8 4.0 49 273-322 280-357 (423)
58 smart00451 ZnF_U1 U1-like zinc 89.7 0.31 6.7E-06 28.8 2.2 22 272-294 3-24 (35)
59 KOG2893 Zn finger protein [Gen 89.4 0.1 2.3E-06 44.9 -0.1 48 160-213 11-59 (341)
60 KOG2893 Zn finger protein [Gen 88.7 0.12 2.7E-06 44.5 -0.1 48 271-323 10-59 (341)
61 COG5236 Uncharacterized conser 86.7 0.62 1.3E-05 42.5 3.1 41 281-324 259-306 (493)
62 KOG2231 Predicted E3 ubiquitin 85.3 1.7 3.6E-05 43.8 5.5 126 160-303 100-274 (669)
63 PHA00626 hypothetical protein 83.2 1.1 2.5E-05 29.5 2.3 31 255-286 2-36 (59)
64 COG4049 Uncharacterized protei 82.8 0.61 1.3E-05 30.7 0.9 25 269-294 14-38 (65)
65 cd00350 rubredoxin_like Rubred 82.0 0.74 1.6E-05 27.1 1.0 7 273-279 2-8 (33)
66 PF09538 FYDLN_acid: Protein o 80.5 0.92 2E-05 34.8 1.3 29 255-286 11-39 (108)
67 PRK00464 nrdR transcriptional 80.4 0.41 8.9E-06 39.2 -0.7 13 273-286 29-41 (154)
68 COG5236 Uncharacterized conser 77.6 4.1 9E-05 37.4 4.7 16 281-296 289-306 (493)
69 KOG4173 Alpha-SNAP protein [In 77.1 0.83 1.8E-05 38.7 0.2 48 274-322 108-170 (253)
70 PF12013 DUF3505: Protein of u 76.7 5.9 0.00013 30.3 4.9 24 301-324 81-109 (109)
71 COG2888 Predicted Zn-ribbon RN 76.6 1.6 3.4E-05 29.3 1.3 9 271-279 49-57 (61)
72 PF09986 DUF2225: Uncharacteri 76.4 0.67 1.5E-05 40.3 -0.6 41 271-312 4-61 (214)
73 KOG2186 Cell growth-regulating 75.6 1.9 4.2E-05 37.7 2.1 44 273-320 4-49 (276)
74 PF08271 TF_Zn_Ribbon: TFIIB z 75.2 2.5 5.5E-05 26.4 2.0 26 254-279 1-26 (43)
75 COG4049 Uncharacterized protei 74.9 1.8 3.8E-05 28.5 1.2 30 295-324 12-42 (65)
76 PF02892 zf-BED: BED zinc fing 74.7 2.6 5.7E-05 26.4 2.0 26 186-211 13-42 (45)
77 COG1997 RPL43A Ribosomal prote 74.7 3.1 6.8E-05 30.2 2.6 31 252-285 34-65 (89)
78 smart00614 ZnF_BED BED zinc fi 74.2 2.8 6E-05 27.2 2.1 25 189-213 18-48 (50)
79 TIGR02098 MJ0042_CXXC MJ0042 f 72.6 2.4 5.1E-05 25.6 1.4 33 273-310 3-36 (38)
80 PF12760 Zn_Tnp_IS1595: Transp 72.2 4.8 0.0001 25.5 2.8 26 254-279 19-44 (46)
81 PF05443 ROS_MUCR: ROS/MUCR tr 71.9 1.6 3.6E-05 34.7 0.7 25 271-299 71-96 (132)
82 PRK00398 rpoP DNA-directed RNA 71.7 2.8 6.1E-05 26.6 1.6 8 272-279 3-10 (46)
83 cd00729 rubredoxin_SM Rubredox 71.5 2 4.4E-05 25.4 0.8 8 272-279 18-25 (34)
84 COG1592 Rubrerythrin [Energy p 70.7 2.6 5.6E-05 34.9 1.6 11 296-306 145-156 (166)
85 PF10571 UPF0547: Uncharacteri 69.2 2.4 5.3E-05 23.5 0.8 8 302-309 16-24 (26)
86 PRK14890 putative Zn-ribbon RN 68.6 3.2 6.9E-05 27.9 1.4 8 299-306 47-55 (59)
87 PF09538 FYDLN_acid: Protein o 68.5 3.6 7.9E-05 31.5 1.9 31 159-202 9-39 (108)
88 TIGR02300 FYDLN_acid conserved 68.3 3 6.5E-05 32.7 1.4 28 255-285 11-38 (129)
89 PF01780 Ribosomal_L37ae: Ribo 68.2 3.6 7.9E-05 30.3 1.8 31 252-284 34-64 (90)
90 smart00531 TFIIE Transcription 67.6 3.4 7.3E-05 33.6 1.7 35 271-309 98-133 (147)
91 PRK00464 nrdR transcriptional 66.6 4.5 9.8E-05 33.1 2.2 14 300-313 28-42 (154)
92 PF05443 ROS_MUCR: ROS/MUCR tr 65.9 3.5 7.6E-05 32.8 1.4 24 190-216 73-96 (132)
93 PTZ00255 60S ribosomal protein 65.3 5.4 0.00012 29.4 2.2 32 252-285 35-66 (90)
94 PF07776 zf-AD: Zinc-finger as 64.8 0.4 8.8E-06 33.4 -3.8 63 65-127 1-64 (75)
95 TIGR00280 L37a ribosomal prote 64.6 5.5 0.00012 29.4 2.1 32 252-285 34-65 (91)
96 PF15269 zf-C2H2_7: Zinc-finge 64.4 5.6 0.00012 24.9 1.8 21 301-321 21-42 (54)
97 PF13719 zinc_ribbon_5: zinc-r 64.0 4.9 0.00011 24.2 1.5 33 273-310 3-36 (37)
98 KOG2785 C2H2-type Zn-finger pr 62.6 9.5 0.00021 35.6 3.7 52 160-211 167-242 (390)
99 PF13717 zinc_ribbon_4: zinc-r 62.3 4.7 0.0001 24.2 1.2 34 160-200 3-36 (36)
100 COG1996 RPC10 DNA-directed RNA 62.3 4.9 0.00011 26.0 1.3 28 271-308 5-33 (49)
101 KOG2186 Cell growth-regulating 61.8 2 4.3E-05 37.7 -0.7 29 263-294 21-49 (276)
102 COG4957 Predicted transcriptio 60.8 6 0.00013 31.3 1.8 26 271-300 75-101 (148)
103 COG1592 Rubrerythrin [Energy p 60.3 4.1 8.8E-05 33.8 0.9 23 253-279 134-156 (166)
104 PRK03976 rpl37ae 50S ribosomal 59.5 7.8 0.00017 28.5 2.1 32 252-285 35-66 (90)
105 COG1198 PriA Primosomal protei 58.5 8.7 0.00019 39.6 3.0 12 297-308 472-484 (730)
106 PF04959 ARS2: Arsenite-resist 57.3 4 8.8E-05 35.3 0.4 28 269-297 74-103 (214)
107 PF09986 DUF2225: Uncharacteri 57.3 2.9 6.2E-05 36.3 -0.5 20 187-206 3-22 (214)
108 KOG4167 Predicted DNA-binding 57.3 3.9 8.4E-05 41.3 0.3 29 187-215 790-818 (907)
109 PRK14873 primosome assembly pr 56.5 9.3 0.0002 39.1 2.9 29 264-308 402-431 (665)
110 TIGR00373 conserved hypothetic 56.5 6.5 0.00014 32.4 1.5 30 271-309 108-138 (158)
111 PRK09678 DNA-binding transcrip 55.8 3 6.6E-05 29.4 -0.5 6 305-310 35-40 (72)
112 KOG2785 C2H2-type Zn-finger pr 55.2 13 0.00027 34.9 3.2 50 272-322 3-91 (390)
113 PF09723 Zn-ribbon_8: Zinc rib 55.0 8.8 0.00019 23.8 1.6 8 272-279 26-33 (42)
114 COG4957 Predicted transcriptio 54.3 6.9 0.00015 30.9 1.2 24 191-217 78-101 (148)
115 PRK06266 transcription initiat 53.8 7.1 0.00015 32.9 1.3 30 271-309 116-146 (178)
116 TIGR02300 FYDLN_acid conserved 52.3 11 0.00023 29.6 2.0 35 159-206 9-43 (129)
117 COG4530 Uncharacterized protei 52.3 9.6 0.00021 29.0 1.6 12 271-283 25-36 (129)
118 TIGR00622 ssl1 transcription f 51.9 21 0.00046 27.5 3.5 48 274-323 57-105 (112)
119 TIGR00595 priA primosomal prot 51.5 11 0.00024 37.3 2.5 17 263-279 231-247 (505)
120 COG1198 PriA Primosomal protei 51.2 9.2 0.0002 39.4 1.9 10 191-200 437-446 (730)
121 PRK04023 DNA polymerase II lar 50.3 14 0.00031 39.0 3.1 11 252-262 625-635 (1121)
122 PF06524 NOA36: NOA36 protein; 48.9 5.5 0.00012 35.2 -0.1 93 212-322 137-232 (314)
123 PF14353 CpXC: CpXC protein 48.8 2.1 4.5E-05 33.8 -2.5 50 160-209 2-58 (128)
124 KOG1280 Uncharacterized conser 47.6 16 0.00034 33.8 2.6 44 269-313 76-124 (381)
125 smart00834 CxxC_CXXC_SSSS Puta 46.9 15 0.00033 22.2 1.7 10 273-283 6-15 (41)
126 smart00734 ZnF_Rad18 Rad18-lik 46.0 18 0.0004 19.9 1.8 19 274-294 3-21 (26)
127 PF03604 DNA_RNApol_7kD: DNA d 45.5 9.3 0.0002 22.3 0.5 11 273-284 1-11 (32)
128 COG1571 Predicted DNA-binding 45.4 10 0.00022 36.2 1.1 29 274-313 352-381 (421)
129 PF12013 DUF3505: Protein of u 44.6 17 0.00037 27.7 2.1 25 190-214 81-109 (109)
130 PF07754 DUF1610: Domain of un 44.3 18 0.00039 19.6 1.5 8 272-279 16-23 (24)
131 COG5188 PRP9 Splicing factor 3 43.1 20 0.00044 33.1 2.5 27 189-215 238-266 (470)
132 smart00659 RPOLCX RNA polymera 42.9 18 0.00038 22.8 1.5 11 273-284 3-13 (44)
133 KOG4173 Alpha-SNAP protein [In 42.3 13 0.00028 31.7 1.1 47 160-211 80-128 (253)
134 PF04959 ARS2: Arsenite-resist 42.2 20 0.00044 31.0 2.4 28 297-324 74-102 (214)
135 KOG2482 Predicted C2H2-type Zn 41.8 16 0.00036 33.6 1.8 25 272-297 195-222 (423)
136 PRK05580 primosome assembly pr 40.9 24 0.00052 36.3 3.1 11 298-308 419-430 (679)
137 KOG2807 RNA polymerase II tran 40.8 31 0.00067 31.7 3.3 65 252-322 275-368 (378)
138 PF05290 Baculo_IE-1: Baculovi 40.5 17 0.00038 28.7 1.5 58 248-313 75-135 (140)
139 PF13451 zf-trcl: Probable zin 39.8 19 0.00042 23.3 1.4 37 270-307 2-41 (49)
140 PF07282 OrfB_Zn_ribbon: Putat 39.8 20 0.00043 24.6 1.6 23 256-279 31-53 (69)
141 smart00731 SprT SprT homologue 39.7 16 0.00034 29.5 1.3 31 272-309 112-143 (146)
142 TIGR02605 CxxC_CxxC_SSSS putat 39.5 20 0.00044 23.1 1.5 11 273-284 6-16 (52)
143 PF04810 zf-Sec23_Sec24: Sec23 38.6 24 0.00052 21.6 1.7 10 270-279 22-31 (40)
144 PF11672 DUF3268: Protein of u 37.5 13 0.00028 28.1 0.4 9 253-261 2-10 (102)
145 KOG4124 Putative transcription 37.1 4.1 8.8E-05 37.5 -2.8 48 270-318 347-417 (442)
146 PRK00432 30S ribosomal protein 36.9 23 0.00049 23.0 1.4 9 300-308 37-46 (50)
147 COG1998 RPS31 Ribosomal protei 36.2 21 0.00045 23.1 1.1 8 300-307 37-45 (51)
148 PF09845 DUF2072: Zn-ribbon co 35.5 19 0.00041 28.5 1.0 15 272-287 1-15 (131)
149 PRK03824 hypA hydrogenase nick 35.0 20 0.00044 28.6 1.2 21 265-286 63-83 (135)
150 PRK06266 transcription initiat 34.6 12 0.00025 31.5 -0.3 8 272-279 136-143 (178)
151 KOG3408 U1-like Zn-finger-cont 34.2 26 0.00055 27.3 1.5 27 185-211 53-79 (129)
152 KOG4167 Predicted DNA-binding 34.1 8.8 0.00019 38.9 -1.2 25 271-296 791-816 (907)
153 PRK14873 primosome assembly pr 34.0 11 0.00023 38.7 -0.8 25 248-279 405-429 (665)
154 PF03811 Zn_Tnp_IS1: InsA N-te 33.9 11 0.00023 22.7 -0.5 10 295-304 24-33 (36)
155 PF14446 Prok-RING_1: Prokaryo 33.7 26 0.00056 23.2 1.3 31 159-203 5-35 (54)
156 PRK05978 hypothetical protein; 33.6 25 0.00055 28.5 1.5 29 255-284 35-63 (148)
157 PF15135 UPF0515: Uncharacteri 33.5 44 0.00095 29.5 3.0 12 272-284 155-166 (278)
158 smart00661 RPOL9 RNA polymeras 33.4 32 0.00069 22.0 1.7 8 272-279 20-27 (52)
159 COG2331 Uncharacterized protei 32.3 25 0.00054 24.9 1.1 31 272-310 12-44 (82)
160 KOG2593 Transcription initiati 30.7 32 0.00069 32.9 1.8 35 271-308 127-162 (436)
161 smart00440 ZnF_C2C2 C2C2 Zinc 30.5 12 0.00025 23.1 -0.7 38 161-200 2-39 (40)
162 PF12907 zf-met2: Zinc-binding 30.5 9.6 0.00021 23.5 -1.1 30 301-330 2-36 (40)
163 PF01363 FYVE: FYVE zinc finge 29.8 22 0.00047 24.4 0.5 9 274-283 11-19 (69)
164 KOG4317 Predicted Zn-finger pr 29.5 14 0.00031 33.5 -0.6 29 256-292 10-38 (383)
165 PF13824 zf-Mss51: Zinc-finger 29.4 35 0.00076 22.7 1.4 9 271-279 13-21 (55)
166 COG3091 SprT Zn-dependent meta 28.7 35 0.00075 27.8 1.5 32 271-308 116-149 (156)
167 PF13878 zf-C2H2_3: zinc-finge 28.2 52 0.0011 20.3 1.9 21 273-294 14-36 (41)
168 KOG2071 mRNA cleavage and poly 28.1 36 0.00078 33.9 1.8 32 184-215 413-444 (579)
169 KOG0402 60S ribosomal protein 27.5 21 0.00045 25.7 0.0 30 253-284 36-65 (92)
170 COG5151 SSL1 RNA polymerase II 27.5 44 0.00096 30.4 2.1 46 273-322 363-411 (421)
171 cd00065 FYVE FYVE domain; Zinc 26.9 34 0.00074 22.3 1.0 10 275-285 5-14 (57)
172 COG1656 Uncharacterized conser 26.9 47 0.001 27.4 2.0 20 271-291 129-148 (165)
173 KOG3408 U1-like Zn-finger-cont 26.7 40 0.00087 26.2 1.5 22 299-320 56-78 (129)
174 PF08790 zf-LYAR: LYAR-type C2 26.6 14 0.0003 20.9 -0.8 10 273-283 1-10 (28)
175 COG1594 RPB9 DNA-directed RNA 26.3 32 0.00069 26.6 0.9 41 159-201 72-112 (113)
176 KOG2807 RNA polymerase II tran 25.9 52 0.0011 30.3 2.3 29 271-306 344-374 (378)
177 PF04216 FdhE: Protein involve 25.8 24 0.00052 32.1 0.1 9 299-307 237-246 (290)
178 KOG2907 RNA polymerase I trans 25.8 24 0.00051 27.1 0.1 14 188-201 24-37 (116)
179 KOG2593 Transcription initiati 25.5 34 0.00074 32.7 1.1 36 157-197 126-161 (436)
180 PF13453 zf-TFIIB: Transcripti 25.2 1.1E+02 0.0024 18.6 3.0 19 271-290 18-36 (41)
181 KOG3002 Zn finger protein [Gen 25.1 34 0.00074 31.3 1.0 25 278-304 116-140 (299)
182 PF01096 TFIIS_C: Transcriptio 25.0 57 0.0012 19.8 1.7 11 272-283 28-38 (39)
183 PF09332 Mcm10: Mcm10 replicat 24.8 33 0.00072 32.0 0.9 9 271-279 284-292 (344)
184 PF02150 RNA_POL_M_15KD: RNA p 24.8 71 0.0015 18.9 2.0 24 256-279 4-27 (35)
185 KOG2071 mRNA cleavage and poly 24.6 41 0.00089 33.5 1.5 27 297-323 415-442 (579)
186 COG4896 Uncharacterized protei 24.3 73 0.0016 21.6 2.1 9 300-308 31-40 (68)
187 PF11931 DUF3449: Domain of un 23.9 26 0.00057 29.9 0.0 28 267-294 96-123 (196)
188 COG0068 HypF Hydrogenase matur 23.6 24 0.00051 36.0 -0.4 15 191-205 125-139 (750)
189 smart00064 FYVE Protein presen 22.8 47 0.001 22.6 1.2 10 274-284 12-21 (68)
190 COG3677 Transposase and inacti 22.8 58 0.0012 25.8 1.8 14 271-285 52-65 (129)
191 KOG4727 U1-like Zn-finger prot 22.8 47 0.001 27.5 1.2 24 187-210 73-96 (193)
192 PRK04023 DNA polymerase II lar 22.6 78 0.0017 33.8 3.0 9 254-262 639-647 (1121)
193 PF04438 zf-HIT: HIT zinc fing 22.5 40 0.00086 19.3 0.6 13 271-284 12-24 (30)
194 PF11781 RRN7: RNA polymerase 22.5 90 0.0019 18.6 2.2 22 256-279 11-32 (36)
195 COG1779 C4-type Zn-finger prot 22.0 20 0.00043 30.5 -1.0 10 301-310 44-54 (201)
196 PF13240 zinc_ribbon_2: zinc-r 21.9 59 0.0013 17.2 1.1 8 191-198 15-22 (23)
197 PF08738 Gon7: Gon7 family; I 21.8 1.8E+02 0.0038 22.1 4.1 30 17-46 48-77 (103)
198 PHA02998 RNA polymerase subuni 21.8 31 0.00067 28.8 0.0 42 158-201 142-183 (195)
199 PF14690 zf-ISL3: zinc-finger 21.8 70 0.0015 19.8 1.7 10 253-262 2-11 (47)
200 cd02341 ZZ_ZZZ3 Zinc finger, Z 21.7 75 0.0016 20.4 1.8 22 254-279 1-22 (48)
201 PF01927 Mut7-C: Mut7-C RNAse 21.4 82 0.0018 25.4 2.5 20 271-291 123-142 (147)
202 TIGR03830 CxxCG_CxxCG_HTH puta 21.3 1.1E+02 0.0023 23.6 3.1 20 271-291 30-49 (127)
203 PRK12380 hydrogenase nickel in 21.3 70 0.0015 24.6 1.9 32 264-307 62-94 (113)
204 PRK00415 rps27e 30S ribosomal 21.2 91 0.002 21.0 2.2 30 255-285 13-42 (59)
205 CHL00174 accD acetyl-CoA carbo 21.2 25 0.00053 32.1 -0.7 31 255-286 40-70 (296)
206 KOG0978 E3 ubiquitin ligase in 21.1 17 0.00038 37.0 -1.8 20 271-291 677-696 (698)
207 PF07295 DUF1451: Protein of u 21.1 58 0.0013 26.4 1.5 25 254-279 113-137 (146)
208 PF04780 DUF629: Protein of un 21.0 66 0.0014 31.3 2.1 27 271-298 56-84 (466)
209 smart00868 zf-AD Zinc-finger a 20.6 9.4 0.0002 25.7 -2.9 61 66-127 2-62 (73)
210 smart00154 ZnF_AN1 AN1-like Zi 20.4 55 0.0012 19.9 1.0 14 272-286 12-25 (39)
211 PF04780 DUF629: Protein of un 20.4 65 0.0014 31.4 1.9 27 298-324 55-83 (466)
212 TIGR00100 hypA hydrogenase nic 20.2 99 0.0021 23.9 2.6 35 262-308 60-95 (115)
213 PHA01819 hypothetical protein 20.1 72 0.0016 23.6 1.6 28 23-50 70-97 (129)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.93 E-value=2.6e-26 Score=197.50 Aligned_cols=135 Identities=29% Similarity=0.479 Sum_probs=111.5
Q ss_pred CCCCCCCCCCCCcCCCcchhHHHHHHhhcC-CCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcC
Q 042026 156 NNANIPVAENGESFSEINGDIIEVDAVDLL-AKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMG 234 (335)
Q Consensus 156 ~~~~~~c~~c~~~~~~~~~~~~h~~~~~~~-~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~ 234 (335)
....+.|.+|++.+.+.+.|.+|...+... .++.+.|++|||.|.+-..|+||+|+|+ .+..| ..||
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C----------~iCG 194 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCEC----------GICG 194 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCccc----------cccc
Confidence 344588999999999999999998887643 4567899999999999999999999997 34444 4568
Q ss_pred chhhhhhHHHHHHhcCCCCCCCcccccceeeeeeCCcceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCH
Q 042026 235 KTMSLQSKLWNKKHAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRK 312 (335)
Q Consensus 235 ~~f~~~l~~h~~~h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~ 312 (335)
|.|+..+.+ +.|+|+|+|||||.|..|+ |+|...++|+.||. |.+.|+|.|. |+|+|+++
T Consensus 195 KaFSRPWLL-----------------QGHiRTHTGEKPF~C~hC~-kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~ 256 (279)
T KOG2462|consen 195 KAFSRPWLL-----------------QGHIRTHTGEKPFSCPHCG-KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALK 256 (279)
T ss_pred ccccchHHh-----------------hcccccccCCCCccCCccc-chhcchHHHHHHHHhhcCCccccCcchhhHHHHH
Confidence 888743333 3455555556888999999 99999999999999 9999999999 99999999
Q ss_pred HHHHHHHh
Q 042026 313 DKLMGHVA 320 (335)
Q Consensus 313 ~~L~~H~~ 320 (335)
+.|.+|..
T Consensus 257 SyLnKH~E 264 (279)
T KOG2462|consen 257 SYLNKHSE 264 (279)
T ss_pred HHHHHhhh
Confidence 99999965
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.90 E-value=1.4e-24 Score=186.87 Aligned_cols=118 Identities=23% Similarity=0.377 Sum_probs=99.5
Q ss_pred CCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhh--hhhHHHHHHhcCCCCCCCcccccce
Q 042026 186 AKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMS--LQSKLWNKKHAKFQPLKSMICVKNH 263 (335)
Q Consensus 186 ~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~--~~l~~h~~~h~~~~p~~C~~C~k~h 263 (335)
....|+|..|||.|.+.++|.+|..+|..-.. ...+.|..|+|.|. -.|..|+|+|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s-------~ka~~C~~C~K~YvSmpALkMHirTH~-------------- 185 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDS-------KKAFSCKYCGKVYVSMPALKMHIRTHT-------------- 185 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccc-------cccccCCCCCceeeehHHHhhHhhccC--------------
Confidence 45569999999999999999999999865421 22223356677776 34555666665
Q ss_pred eeeeeCCcceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHHHHHhhhcCCCCcccCC
Q 042026 264 YKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNVN 332 (335)
Q Consensus 264 ~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~gekp~~c~~ 332 (335)
-+++|.+|| |.|+..|.|+.|+| |||||||.|+ |+|.|..+++|+.||++|.+.|+|+|-.
T Consensus 186 -------l~c~C~iCG-KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~ 248 (279)
T KOG2462|consen 186 -------LPCECGICG-KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPR 248 (279)
T ss_pred -------CCccccccc-ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcc
Confidence 578999999 99999999999999 9999999999 9999999999999999999999999953
No 3
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.86 E-value=2.5e-22 Score=194.10 Aligned_cols=57 Identities=30% Similarity=0.590 Sum_probs=53.6
Q ss_pred ceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHHHHHhhhcCCCCcc
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLMGHVALFVGHTPAV 329 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~gekp~~ 329 (335)
...|..|| +.|+..++|..|+| |+|+|||.|. |++.|..+.+|+.||.+|....|+.
T Consensus 879 ~h~C~vCg-k~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~s 937 (958)
T KOG1074|consen 879 AHVCNVCG-KQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPS 937 (958)
T ss_pred hhhhccch-hcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCc
Confidence 47899999 99999999999999 9999999999 9999999999999999998776653
No 4
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.77 E-value=1e-19 Score=173.53 Aligned_cols=59 Identities=36% Similarity=0.706 Sum_probs=57.8
Q ss_pred ceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHHHHHhhhcCCCCcccC
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLMGHVALFVGHTPAVNV 331 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~gekp~~c~ 331 (335)
+|.|..|+ |+|...+.|.+|.- |+|.|||+|. |.|.|+.+.+|..|+|+|.|||||.|-
T Consensus 894 myaCDqCD-K~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCd 954 (1007)
T KOG3623|consen 894 MYACDQCD-KAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCD 954 (1007)
T ss_pred cchHHHHH-HHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhh
Confidence 89999999 99999999999999 9999999999 999999999999999999999999984
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.71 E-value=8.7e-18 Score=148.60 Aligned_cols=155 Identities=21% Similarity=0.358 Sum_probs=128.7
Q ss_pred CCCCCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCc
Q 042026 156 NNANIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGK 235 (335)
Q Consensus 156 ~~~~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~ 235 (335)
.+....|+.|+.-|.+...+..|+.........+|.|..|.|+|.++..|++|++.|..- |+|++| ..+-
T Consensus 204 ~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~--ykCplC--------dmtc 273 (467)
T KOG3608|consen 204 NEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNC--YKCPLC--------DMTC 273 (467)
T ss_pred CCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhc--cccccc--------ccCC
Confidence 344577999999999999999999888888888999999999999999999999999754 677776 3333
Q ss_pred hhhhhhHHHHH-HhcCCCCCCCccccc---------ceeeeeeCCcceeccc--CCCccCCCHHHHHHHHh--ccCCC--
Q 042026 236 TMSLQSKLWNK-KHAKFQPLKSMICVK---------NHYKRSHCPKMYVCKR--CNRKQFSVLSDLRTHEK--HCGDS-- 299 (335)
Q Consensus 236 ~f~~~l~~h~~-~h~~~~p~~C~~C~k---------~h~~~h~~~k~y~C~~--C~~k~F~~~~~L~~H~~--H~g~~-- 299 (335)
...+.|..|++ .|...|||+|+.|++ +|...|. +-.|.|.. |. ..|.+...+++|++ |.|..
T Consensus 274 ~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~-~s~r~~~q~~~H~~evhEg~np~ 351 (467)
T KOG3608|consen 274 SSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCH-YSVRTYTQMRRHFLEVHEGNNPI 351 (467)
T ss_pred CChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCc-HHHHHHHHHHHHHHHhccCCCCC
Confidence 44578888987 688999999999987 4667666 67899988 99 99999999999998 65654
Q ss_pred Ceeec-cCccccCHHHHHHHHh-hh
Q 042026 300 KWQCS-CGTTFSRKDKLMGHVA-LF 322 (335)
Q Consensus 300 ~~~C~-C~~~F~~~~~L~~H~~-~H 322 (335)
+|.|- |.+.|.+--+|..|++ .|
T Consensus 352 ~Y~CH~Cdr~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 352 LYACHCCDRFFTSGKSLSAHLMKKH 376 (467)
T ss_pred ceeeecchhhhccchhHHHHHHHhh
Confidence 49999 9999999999999954 44
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.65 E-value=4.1e-17 Score=158.35 Aligned_cols=58 Identities=21% Similarity=0.419 Sum_probs=52.2
Q ss_pred CCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHhcCCCcC
Q 042026 159 NIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKT 218 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~ 218 (335)
..+|..|.+.|...+.|++|++.++ +++||+|.+||.+|.++.+|+.|...|...+|.
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHT--GERPfqCnvCG~~FSTkGNLKvH~~rH~e~~p~ 410 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHT--GERPFQCNVCGNRFSTKGNLKVHFQRHREKYPH 410 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccC--CCCCeeecccccccccccceeeeeeeccccCCc
Confidence 3779999999999999999999887 899999999999999999999999888888754
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.60 E-value=6.1e-16 Score=136.98 Aligned_cols=150 Identities=19% Similarity=0.278 Sum_probs=92.2
Q ss_pred CCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHh--cCCCcCcccccCCCccCCCCcCchhhh--h
Q 042026 165 NGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAH--GDEYKTSAALTNPLKKNGSSMGKTMSL--Q 240 (335)
Q Consensus 165 c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H--~~~~~~~c~lc~~~~~~~~~c~~~f~~--~ 240 (335)
|-+.+.++..|+.|++.+. +++...|+.||.-|.++..|-.|.|.- ....+|+|+ .|.|.|.. .
T Consensus 185 Ct~~~~~k~~LreH~r~Hs--~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~----------~C~KrFaTekl 252 (467)
T KOG3608|consen 185 CTKHMGNKYRLREHIRTHS--NEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCA----------QCFKRFATEKL 252 (467)
T ss_pred hhhhhccHHHHHHHHHhcC--CCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHH----------HHHHHHhHHHH
Confidence 4444555555555544443 444455555555555555555554332 222344443 34666663 3
Q ss_pred hHHHHHHhcCCCCCCCccccc---------ceee-eeeCCcceecccCCCccCCCHHHHHHHHh-ccCCCCeeec---cC
Q 042026 241 SKLWNKKHAKFQPLKSMICVK---------NHYK-RSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS---CG 306 (335)
Q Consensus 241 l~~h~~~h~~~~p~~C~~C~k---------~h~~-~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~---C~ 306 (335)
|.-|+..|. .-|+|+.|+. +|++ +|..+|||+|..|. +.|...++|.+|.. |. +..|+|. |.
T Consensus 253 L~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd-~~c~~esdL~kH~~~HS-~~~y~C~h~~C~ 328 (467)
T KOG3608|consen 253 LKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECD-TRCVRESDLAKHVQVHS-KTVYQCEHPDCH 328 (467)
T ss_pred HHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchh-hhhccHHHHHHHHHhcc-ccceecCCCCCc
Confidence 455776665 4578888865 4554 45557888888888 88888888888888 77 5668885 88
Q ss_pred ccccCHHHHHHHHhhhc-CCC--Cccc
Q 042026 307 TTFSRKDKLMGHVALFV-GHT--PAVN 330 (335)
Q Consensus 307 ~~F~~~~~L~~H~~~H~-gek--p~~c 330 (335)
.+|+....|++|++.++ |.. +|.|
T Consensus 329 ~s~r~~~q~~~H~~evhEg~np~~Y~C 355 (467)
T KOG3608|consen 329 YSVRTYTQMRRHFLEVHEGNNPILYAC 355 (467)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCceee
Confidence 88888888888876444 544 5555
No 8
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.52 E-value=3.3e-15 Score=122.97 Aligned_cols=108 Identities=28% Similarity=0.527 Sum_probs=74.2
Q ss_pred CcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhh--hhhHHHHHHhcCCCCCCCccccccee
Q 042026 187 KYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMS--LQSKLWNKKHAKFQPLKSMICVKNHY 264 (335)
Q Consensus 187 ~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~--~~l~~h~~~h~~~~p~~C~~C~k~h~ 264 (335)
...|.|.+|+|.|.-...|.+||+.|...+.+.|..| |+.|. ..|.+|.|+|+|.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~c----------gkgfndtfdlkrh~rthtgv------------- 171 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFC----------GKGFNDTFDLKRHTRTHTGV------------- 171 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhc----------cCcccchhhhhhhhccccCc-------------
Confidence 3457777777777777777777777777777766544 66665 3455555555554
Q ss_pred eeeeCCcceecccCCCccCCCHHHHHHHHh--cc----------CCCCeeec-cCccccCHHHHHHHHhhhcC
Q 042026 265 KRSHCPKMYVCKRCNRKQFSVLSDLRTHEK--HC----------GDSKWQCS-CGTTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 265 ~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~--H~----------g~~~~~C~-C~~~F~~~~~L~~H~~~H~g 324 (335)
+||+|..|+ |+|.+.-.|..|.+ |. ..+.|.|. ||.+-.+...+..|++.|+.
T Consensus 172 ------rpykc~~c~-kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 172 ------RPYKCSLCE-KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred ------cccchhhhh-HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 566667777 77777777777776 53 24557787 88777777777777777753
No 9
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.50 E-value=4.3e-15 Score=142.28 Aligned_cols=80 Identities=28% Similarity=0.601 Sum_probs=73.4
Q ss_pred CCCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhhhhhHHHHHHhcCCCCCCCccccccee
Q 042026 185 LAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMSLQSKLWNKKHAKFQPLKSMICVKNHY 264 (335)
Q Consensus 185 ~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~~~l~~h~~~h~~~~p~~C~~C~k~h~ 264 (335)
.....|.|+.|+|.|...++|.+|.-.|+|.
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsGq------------------------------------------------- 920 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSGQ------------------------------------------------- 920 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcCC-------------------------------------------------
Confidence 3567899999999999999999999888888
Q ss_pred eeeeCCcceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHHHHHh
Q 042026 265 KRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLMGHVA 320 (335)
Q Consensus 265 ~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~~H~~ 320 (335)
|||+|.+|. |+|..+.+|..|+| |.|+|||+|+ |+|+|+.......||-
T Consensus 921 ------RPyqC~iCk-KAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 921 ------RPYQCIICK-KAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred ------CCcccchhh-HhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 788888898 99999999999999 9999999999 9999999999999974
No 10
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.33 E-value=1.6e-12 Score=107.18 Aligned_cols=119 Identities=21% Similarity=0.293 Sum_probs=93.0
Q ss_pred CCCCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCch
Q 042026 157 NANIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKT 236 (335)
Q Consensus 157 ~~~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~ 236 (335)
...+.|..|++.|.-..-|.+|++-+. .-+.|-|..|||+|.....|++|+|+|+|.+||+|.+| ++.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~--~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c----------~ka 182 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHS--DVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLC----------EKA 182 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhcc--HHHHHHHhhccCcccchhhhhhhhccccCccccchhhh----------hHH
Confidence 445899999999999889999998887 44558999999999999999999999999999999765 888
Q ss_pred hhh--hhHHHHH-HhcCCCCCCCcccccceeeeeeCCcceecccCCCccCCCHHHHHHHHh-ccC
Q 042026 237 MSL--QSKLWNK-KHAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCG 297 (335)
Q Consensus 237 f~~--~l~~h~~-~h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g 297 (335)
|.. .|..|.+ +|.-...|. ......|.|.|+.|| ..-.....+..|.+ |..
T Consensus 183 ftqrcsleshl~kvhgv~~~ya---------ykerr~kl~vcedcg-~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 183 FTQRCSLESHLKKVHGVQHQYA---------YKERRAKLYVCEDCG-YTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HHhhccHHHHHHHHcCchHHHH---------HHHhhhheeeecccC-CCCCChhHHHHHHHhcCC
Confidence 874 4555654 333221111 011224899999999 88889999999999 643
No 11
>PHA00733 hypothetical protein
Probab=99.00 E-value=4.1e-10 Score=89.39 Aligned_cols=84 Identities=21% Similarity=0.284 Sum_probs=68.4
Q ss_pred CCcceecccccccccCcHHHHHH--HHHhcCCCcCcccccCCCccCCCCcCchhhhhhHHHHHHhcCCCCCCCcccccce
Q 042026 186 AKYTHYCQVCGKGFKRDANLRMH--MRAHGDEYKTSAALTNPLKKNGSSMGKTMSLQSKLWNKKHAKFQPLKSMICVKNH 263 (335)
Q Consensus 186 ~~~~~~C~~C~k~f~~~~~L~~H--~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~~~l~~h~~~h~~~~p~~C~~C~k~h 263 (335)
..+++.|.+|.+.|.....|..| ++.|.
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~-------------------------------------------------- 66 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLL-------------------------------------------------- 66 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhc--------------------------------------------------
Confidence 35678999999999887777766 33221
Q ss_pred eeeeeCCcceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHHHHHhhhcC
Q 042026 264 YKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 264 ~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~g 324 (335)
.+++.+||.|+.|| +.|...+.|..|++ | +.+|.|. |++.|...+.|..|++..++
T Consensus 67 --~~~~~kPy~C~~Cg-k~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 67 --TSKAVSPYVCPLCL-MPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred --ccCCCCCccCCCCC-CcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 11224899999999 99999999999999 8 4679999 99999999999999987765
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.00 E-value=1.3e-09 Score=105.50 Aligned_cols=135 Identities=16% Similarity=0.324 Sum_probs=88.4
Q ss_pred CCCCCCCCCCcCCCcchhHHHHHHhhcCCCcceeccc--ccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCc
Q 042026 158 ANIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQV--CGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGK 235 (335)
Q Consensus 158 ~~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~--C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~ 235 (335)
....|+.|..... ...+..|...- ....-.|+. ||..|. +..|..|. .| ..|++
T Consensus 406 ~~V~C~NC~~~i~-l~~l~lHe~~C---~r~~V~Cp~~~Cg~v~~-r~el~~H~---------~C----------~~Cgk 461 (567)
T PLN03086 406 DTVECRNCKHYIP-SRSIALHEAYC---SRHNVVCPHDGCGIVLR-VEEAKNHV---------HC----------EKCGQ 461 (567)
T ss_pred CeEECCCCCCccc-hhHHHHHHhhC---CCcceeCCcccccceee-ccccccCc---------cC----------CCCCC
Confidence 3456888876544 34455555322 112235663 777663 33333332 33 34566
Q ss_pred hhh-hhhHHHHHHhcCCCCCCCccccc--------ceeeeeeCCcceecccCCCccCC----------CHHHHHHHHhcc
Q 042026 236 TMS-LQSKLWNKKHAKFQPLKSMICVK--------NHYKRSHCPKMYVCKRCNRKQFS----------VLSDLRTHEKHC 296 (335)
Q Consensus 236 ~f~-~~l~~h~~~h~~~~p~~C~~C~k--------~h~~~h~~~k~y~C~~C~~k~F~----------~~~~L~~H~~H~ 296 (335)
.|. ..+..|+++|+ +|+.|+ |++ .|+..|...|++.|..|+ +.|. ..+.|..|+..+
T Consensus 462 ~f~~s~LekH~~~~H--kpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC~-~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 462 AFQQGEMEKHMKVFH--EPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFCG-DMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred ccchHHHHHHHHhcC--CCccCC-CCCCcchhHHHhhhhccCCCCceeCCCCC-CccccCccccchhhhhhhHHHHHHhc
Confidence 665 55677777764 778887 866 366667778899999999 8884 245899998856
Q ss_pred CCCCeeec-cCccccCHHHHHHHHhh
Q 042026 297 GDSKWQCS-CGTTFSRKDKLMGHVAL 321 (335)
Q Consensus 297 g~~~~~C~-C~~~F~~~~~L~~H~~~ 321 (335)
|.+++.|. ||+.|+.+. |..|+..
T Consensus 538 G~rt~~C~~Cgk~Vrlrd-m~~H~~~ 562 (567)
T PLN03086 538 GSRTAPCDSCGRSVMLKE-MDIHQIA 562 (567)
T ss_pred CCcceEccccCCeeeehh-HHHHHHH
Confidence 99999999 999988775 6677543
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.90 E-value=4.2e-10 Score=74.03 Aligned_cols=42 Identities=21% Similarity=0.415 Sum_probs=38.8
Q ss_pred ceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHH
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLM 316 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~ 316 (335)
-|.|+.|| |.|+..++|..|++ |+ ++|+|. |++.|.+.+.|.
T Consensus 5 ~y~C~~CG-K~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICG-EIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhC-CeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 48999999 99999999999999 98 799999 999999888764
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.87 E-value=2.6e-09 Score=103.43 Aligned_cols=119 Identities=17% Similarity=0.297 Sum_probs=86.6
Q ss_pred ceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhhhhhHHHHHHhcCCCCCCCccccc-------
Q 042026 189 THYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMSLQSKLWNKKHAKFQPLKSMICVK------- 261 (335)
Q Consensus 189 ~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~~~l~~h~~~h~~~~p~~C~~C~k------- 261 (335)
...|+.|.+... ..+|..|.....- .. ..|+...|+..|.. ..-.+++.|+.|++
T Consensus 407 ~V~C~NC~~~i~-l~~l~lHe~~C~r-~~--------V~Cp~~~Cg~v~~r--------~el~~H~~C~~Cgk~f~~s~L 468 (567)
T PLN03086 407 TVECRNCKHYIP-SRSIALHEAYCSR-HN--------VVCPHDGCGIVLRV--------EEAKNHVHCEKCGQAFQQGEM 468 (567)
T ss_pred eEECCCCCCccc-hhHHHHHHhhCCC-cc--------eeCCcccccceeec--------cccccCccCCCCCCccchHHH
Confidence 357999987655 4466677633211 11 11221258888852 22335579999987
Q ss_pred -ceeeeeeCCcceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCcccc----------CHHHHHHHHhhhcCCCCc
Q 042026 262 -NHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFS----------RKDKLMGHVALFVGHTPA 328 (335)
Q Consensus 262 -~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~----------~~~~L~~H~~~H~gekp~ 328 (335)
.|++.+| ++|.|+ || +.| ....|..|+. |++.+++.|. |++.|. ..+.|..|..++ |.+++
T Consensus 469 ekH~~~~H--kpv~Cp-Cg-~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~ 542 (567)
T PLN03086 469 EKHMKVFH--EPLQCP-CG-VVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTA 542 (567)
T ss_pred HHHHHhcC--CCccCC-CC-CCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcce
Confidence 4666765 899999 99 766 6789999999 9999999999 999995 246899999996 99999
Q ss_pred ccC
Q 042026 329 VNV 331 (335)
Q Consensus 329 ~c~ 331 (335)
.|.
T Consensus 543 ~C~ 545 (567)
T PLN03086 543 PCD 545 (567)
T ss_pred Ecc
Confidence 994
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.68 E-value=7.4e-09 Score=68.19 Aligned_cols=24 Identities=25% Similarity=0.688 Sum_probs=23.0
Q ss_pred eecccccccccCcHHHHHHHHHhc
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAHG 213 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H~ 213 (335)
|.|+.||+.|.+..+|..|||+|+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~ 29 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN 29 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC
Confidence 899999999999999999999987
No 16
>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=98.60 E-value=2.6e-08 Score=56.02 Aligned_cols=24 Identities=42% Similarity=1.088 Sum_probs=21.8
Q ss_pred HHHHHHh-ccCCCCeeec-cCccccC
Q 042026 288 DLRTHEK-HCGDSKWQCS-CGTTFSR 311 (335)
Q Consensus 288 ~L~~H~~-H~g~~~~~C~-C~~~F~~ 311 (335)
+|++|++ |+|++||.|+ |+++|.+
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 5889999 9999999999 9999974
No 17
>PHA00616 hypothetical protein
Probab=98.56 E-value=3e-08 Score=62.12 Aligned_cols=31 Identities=23% Similarity=0.511 Sum_probs=17.1
Q ss_pred Ceeec-cCccccCHHHHHHHHhhhcCCCCccc
Q 042026 300 KWQCS-CGTTFSRKDKLMGHVALFVGHTPAVN 330 (335)
Q Consensus 300 ~~~C~-C~~~F~~~~~L~~H~~~H~gekp~~c 330 (335)
||+|+ ||+.|.+++.|.+|++.|+|++|+.|
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~ 32 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTL 32 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccce
Confidence 45555 55555555555555555555555544
No 18
>PHA00733 hypothetical protein
Probab=98.53 E-value=5.1e-08 Score=77.42 Aligned_cols=78 Identities=19% Similarity=0.184 Sum_probs=61.3
Q ss_pred CCCCCCCCCcCCCcchhHHH--HHH-hhcCCCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCc
Q 042026 159 NIPVAENGESFSEINGDIIE--VDA-VDLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGK 235 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h--~~~-~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~ 235 (335)
.+.|..|.+.|.....+..+ +.. ....+.++|.|+.||+.|.....|..|++.| .
T Consensus 40 ~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~-------------------- 97 (128)
T PHA00733 40 RLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--E-------------------- 97 (128)
T ss_pred hHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--C--------------------
Confidence 37788888888776666555 211 1223577899999999999999999999865 2
Q ss_pred hhhhhhHHHHHHhcCCCCCCCcccccceeeeeeCCcceecccCCCccCCCHHHHHHHHh
Q 042026 236 TMSLQSKLWNKKHAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 236 ~f~~~l~~h~~~h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
++|.|..|+ +.|.....|..|+.
T Consensus 98 -----------------------------------~~~~C~~Cg-K~F~~~~sL~~H~~ 120 (128)
T PHA00733 98 -----------------------------------HSKVCPVCG-KEFRNTDSTLDHVC 120 (128)
T ss_pred -----------------------------------cCccCCCCC-CccCCHHHHHHHHH
Confidence 457889999 99999999999998
No 19
>PHA00616 hypothetical protein
Probab=98.33 E-value=2e-07 Score=58.44 Aligned_cols=32 Identities=25% Similarity=0.401 Sum_probs=30.8
Q ss_pred ceecccCCCccCCCHHHHHHHHh-ccCCCCeeec
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS 304 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~ 304 (335)
||+|..|| +.|...+.|.+|++ |+|++++.|+
T Consensus 1 pYqC~~CG-~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCG-GIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhh-HHHhhHHHHHHHHHHhcCCCcccee
Confidence 69999999 99999999999999 9999999987
No 20
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.27 E-value=2.3e-07 Score=85.02 Aligned_cols=53 Identities=32% Similarity=0.668 Sum_probs=41.9
Q ss_pred cceecccCCCccCCCHHHHHHHHh-cc--------C-------------------------CCCeeec-cCccccCHHHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HC--------G-------------------------DSKWQCS-CGTTFSRKDKL 315 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~--------g-------------------------~~~~~C~-C~~~F~~~~~L 315 (335)
-.|+|++|+ |.|+-..+|..|.| |. | +.-|.|. |+|.|.+...|
T Consensus 294 vEYrCPEC~-KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYL 372 (500)
T KOG3993|consen 294 VEYRCPECD-KVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYL 372 (500)
T ss_pred eeecCCccc-ccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHH
Confidence 357778888 88888888888877 64 1 1139999 99999999999
Q ss_pred HHHHhhhcC
Q 042026 316 MGHVALFVG 324 (335)
Q Consensus 316 ~~H~~~H~g 324 (335)
++|+.+|+.
T Consensus 373 rKHqlthq~ 381 (500)
T KOG3993|consen 373 RKHQLTHQR 381 (500)
T ss_pred HHhHHhhhc
Confidence 999988863
No 21
>PHA00732 hypothetical protein
Probab=98.22 E-value=8.2e-07 Score=64.08 Aligned_cols=45 Identities=24% Similarity=0.528 Sum_probs=38.9
Q ss_pred ceecccCCCccCCCHHHHHHHHh--ccCCCCeeec-cCccccCHHHHHHHHhhhc
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK--HCGDSKWQCS-CGTTFSRKDKLMGHVALFV 323 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~--H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~ 323 (335)
||.|..|| +.|.....|+.|++ |. ++.|+ ||++|. .|..|++++.
T Consensus 1 py~C~~Cg-k~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICG-FTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCC-CccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 68999999 99999999999997 54 46899 999998 5888987654
No 22
>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=98.22 E-value=1.1e-06 Score=49.41 Aligned_cols=13 Identities=54% Similarity=1.037 Sum_probs=7.8
Q ss_pred cceecccCCCccCC
Q 042026 271 KMYVCKRCNRKQFS 284 (335)
Q Consensus 271 k~y~C~~C~~k~F~ 284 (335)
|||.|+.|+ +.|.
T Consensus 13 k~~~C~~C~-k~F~ 25 (26)
T PF13465_consen 13 KPYKCPYCG-KSFS 25 (26)
T ss_dssp SSEEESSSS-EEES
T ss_pred CCCCCCCCc-CeeC
Confidence 556666666 6654
No 23
>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=97.97 E-value=9.8e-06 Score=54.21 Aligned_cols=49 Identities=27% Similarity=0.546 Sum_probs=40.0
Q ss_pred ceecccCCCccCCCHHHHHHHHh--ccCC-CCeeec-cCccccCHHHHHHHHhhhcC
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK--HCGD-SKWQCS-CGTTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~--H~g~-~~~~C~-C~~~F~~~~~L~~H~~~H~g 324 (335)
.|.|++|+ +.| ....|..|.. |..+ +.+.|+ |...+. ..|.+|+..+++
T Consensus 2 ~f~CP~C~-~~~-~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCG-KGF-SESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCC-Ccc-CHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 48999999 855 5678999987 8876 569999 998755 499999988764
No 24
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.89 E-value=1.5e-06 Score=79.69 Aligned_cols=113 Identities=19% Similarity=0.252 Sum_probs=71.4
Q ss_pred CCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhh
Q 042026 159 NIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMS 238 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~ 238 (335)
+|.|..|...|.+...|..|.-.... ...|+|+.|+|.|.-.+||..|.|+|.-...-.-.-..+. .+...
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV--~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~-------k~~~~ 337 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIV--HVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPP-------KQAVE 337 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeE--EeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCCh-------hhhhh
Confidence 38899999999999999888754432 2349999999999999999999999965421100000000 00000
Q ss_pred hhhHHHHHHhcCCCCCCCcccccceeeeeeCCcceecccCCCccCCCHHHHHHHHh-cc
Q 042026 239 LQSKLWNKKHAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK-HC 296 (335)
Q Consensus 239 ~~l~~h~~~h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~-H~ 296 (335)
...........|.. ..+-.|.|.+|+ |.|.....|++|+. |.
T Consensus 338 ~rae~~ea~rsg~d---------------ss~gi~~C~~C~-KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 338 TRAEVQEAERSGDD---------------SSSGIFSCHTCG-KKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred hhhhhhhccccCCc---------------ccCceeecHHhh-hhhHHHHHHHHhHHhhh
Confidence 00000000001110 123489999999 99999999999987 54
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=97.87 E-value=9.6e-06 Score=44.03 Aligned_cols=23 Identities=48% Similarity=1.006 Sum_probs=21.6
Q ss_pred eecccccccccCcHHHHHHHHHh
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAH 212 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H 212 (335)
|.|++|++.|.++..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999876
No 26
>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=97.85 E-value=1.3e-05 Score=43.45 Aligned_cols=22 Identities=36% Similarity=0.863 Sum_probs=14.5
Q ss_pred eeec-cCccccCHHHHHHHHhhh
Q 042026 301 WQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 301 ~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
|.|+ |++.|.++..|..|++.|
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 5666 666666666666666654
No 27
>PHA00732 hypothetical protein
Probab=97.81 E-value=1.2e-05 Score=58.08 Aligned_cols=23 Identities=26% Similarity=0.431 Sum_probs=21.0
Q ss_pred ceecccccccccCcHHHHHHHHH
Q 042026 189 THYCQVCGKGFKRDANLRMHMRA 211 (335)
Q Consensus 189 ~~~C~~C~k~f~~~~~L~~H~r~ 211 (335)
+|.|..||+.|.+..+|+.|++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~ 23 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARR 23 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhc
Confidence 47899999999999999999984
No 28
>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=97.75 E-value=4.6e-05 Score=50.94 Aligned_cols=51 Identities=12% Similarity=0.154 Sum_probs=41.2
Q ss_pred CCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHhc
Q 042026 160 IPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAHG 213 (335)
Q Consensus 160 ~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~ 213 (335)
|.|+.|++ .-+...|..|....+....+.+.|++|...+. .+|.+|++.++
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 78999999 45567899999888877777899999988655 48999987654
No 29
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.66 E-value=1e-05 Score=71.66 Aligned_cols=50 Identities=28% Similarity=0.571 Sum_probs=43.9
Q ss_pred Ccceeccc--CCCccCCCHHHHHHHHh--cc------------------CCCCeeec-cCccccCHHHHHHHHh
Q 042026 270 PKMYVCKR--CNRKQFSVLSDLRTHEK--HC------------------GDSKWQCS-CGTTFSRKDKLMGHVA 320 (335)
Q Consensus 270 ~k~y~C~~--C~~k~F~~~~~L~~H~~--H~------------------g~~~~~C~-C~~~F~~~~~L~~H~~ 320 (335)
+|||+|++ |+ |.|.....|+.|+. |. ..|||+|+ |+|+|++.-.|+-|+.
T Consensus 347 ~KpykCpV~gC~-K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCN-KKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCch-hhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 48999976 99 99999999999998 73 24899999 9999999999998853
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.57 E-value=2.8e-05 Score=68.96 Aligned_cols=71 Identities=30% Similarity=0.532 Sum_probs=48.9
Q ss_pred Ccceeccc--ccccccCcHHHHHHHHH-hcCCCcCcccccCCCccCCCCcCchhhhhhHHHHHHhcCCCCCCCcccccce
Q 042026 187 KYTHYCQV--CGKGFKRDANLRMHMRA-HGDEYKTSAALTNPLKKNGSSMGKTMSLQSKLWNKKHAKFQPLKSMICVKNH 263 (335)
Q Consensus 187 ~~~~~C~~--C~k~f~~~~~L~~H~r~-H~~~~~~~c~lc~~~~~~~~~c~~~f~~~l~~h~~~h~~~~p~~C~~C~k~h 263 (335)
+++|+|++ |.|.|+....|+.||.- |...+...-+ .| ..|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p------------------------------~p-------~~~ 389 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP------------------------------SP-------EKM 389 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC------------------------------Cc-------ccc
Confidence 58999987 99999999999999753 3333211100 00 011
Q ss_pred eeeeeCCcceecccCCCccCCCHHHHHHHHhc
Q 042026 264 YKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKH 295 (335)
Q Consensus 264 ~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~H 295 (335)
.......|||+|++|+ |+|.....|+.|..|
T Consensus 390 ~~F~~~~KPYrCevC~-KRYKNlNGLKYHr~H 420 (423)
T COG5189 390 NIFSAKDKPYRCEVCD-KRYKNLNGLKYHRKH 420 (423)
T ss_pred ccccccCCceeccccc-hhhccCccceecccc
Confidence 1112234999999999 999999999999874
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.39 E-value=0.00014 Score=39.46 Aligned_cols=22 Identities=36% Similarity=0.853 Sum_probs=12.2
Q ss_pred eeec-cCccccCHHHHHHHHhhh
Q 042026 301 WQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 301 ~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
|.|+ |++.|.+...|..|+++|
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 4566 666666666666666554
No 32
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.39 E-value=0.00013 Score=39.63 Aligned_cols=24 Identities=46% Similarity=1.029 Sum_probs=20.1
Q ss_pred eecccccccccCcHHHHHHHHHhc
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAHG 213 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H~ 213 (335)
|.|++|++.|.+...|+.|+++|.
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 689999999999999999998863
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.37 E-value=0.00015 Score=40.93 Aligned_cols=23 Identities=35% Similarity=0.687 Sum_probs=13.3
Q ss_pred Ceeec-cCccccCHHHHHHHHhhh
Q 042026 300 KWQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 300 ~~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
||.|. |++.|.+...|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 35555 666666666666665555
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.11 E-value=0.00036 Score=39.28 Aligned_cols=24 Identities=50% Similarity=1.088 Sum_probs=22.5
Q ss_pred ceecccCCCccCCCHHHHHHHHh-cc
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK-HC 296 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~-H~ 296 (335)
+|.|..|+ +.|.....|..|++ |.
T Consensus 1 ~~~C~~C~-~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECG-KTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTT-EEESSHHHHHHHHCTTT
T ss_pred CCCCCccC-CccCChhHHHHHhHHhc
Confidence 68999999 99999999999999 75
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.01 E-value=0.00049 Score=51.85 Aligned_cols=48 Identities=31% Similarity=0.629 Sum_probs=20.6
Q ss_pred ecccCCCccCCCHHHHHHHHh--ccC----------------------CCCeeec-cCccccCHHHHHHHHhhh
Q 042026 274 VCKRCNRKQFSVLSDLRTHEK--HCG----------------------DSKWQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 274 ~C~~C~~k~F~~~~~L~~H~~--H~g----------------------~~~~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
.|..|+ ..|.....|..|+. |.- ...|.|. |++.|.....|..||+.+
T Consensus 1 ~C~~C~-~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCD-ESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccc-cccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 477788 78888888888876 531 1258999 999999999999999975
No 36
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.87 E-value=0.00088 Score=43.07 Aligned_cols=38 Identities=18% Similarity=0.378 Sum_probs=22.0
Q ss_pred HHHHh--ccCCCCeeec-cCccccCHHHHHHHHhhhcCCCC
Q 042026 290 RTHEK--HCGDSKWQCS-CGTTFSRKDKLMGHVALFVGHTP 327 (335)
Q Consensus 290 ~~H~~--H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~gekp 327 (335)
..+.+ +..+.|-.|+ |+..+++..+|++|+.++++.||
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 34444 4456778888 88888888888888888887776
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.67 E-value=0.0014 Score=35.90 Aligned_cols=22 Identities=32% Similarity=0.807 Sum_probs=12.1
Q ss_pred eeec-cCccccCHHHHHHHHhhh
Q 042026 301 WQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 301 ~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
|.|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 3455 555555555555555544
No 38
>PRK04860 hypothetical protein; Provisional
Probab=96.66 E-value=0.00079 Score=55.47 Aligned_cols=38 Identities=32% Similarity=0.714 Sum_probs=32.8
Q ss_pred cceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKD 313 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~ 313 (335)
-+|.|. |+ + ....+++|.+ |+|+++|.|. |+..|....
T Consensus 118 ~~Y~C~-C~-~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQ-E---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CC-C---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 479998 99 6 6677899999 9999999999 999987543
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.61 E-value=0.0015 Score=35.87 Aligned_cols=24 Identities=46% Similarity=0.836 Sum_probs=21.4
Q ss_pred eecccccccccCcHHHHHHHHHhc
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAHG 213 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H~ 213 (335)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999998775
No 40
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.49 E-value=0.0018 Score=48.66 Aligned_cols=23 Identities=30% Similarity=0.668 Sum_probs=20.7
Q ss_pred cceecccCCCccCCCHHHHHHHHh
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
..+.|..|+ +.|.....|..|++
T Consensus 49 ~~~~C~~C~-~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 49 ESFRCPYCN-KTFRSREALQEHMR 71 (100)
T ss_dssp SSEEBSSSS--EESSHHHHHHHHH
T ss_pred CCCCCCccC-CCCcCHHHHHHHHc
Confidence 469999999 99999999999999
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.38 E-value=0.0036 Score=40.28 Aligned_cols=33 Identities=21% Similarity=0.432 Sum_probs=23.2
Q ss_pred CCCcceecccccccccCcHHHHHHHHHhcCCCc
Q 042026 185 LAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYK 217 (335)
Q Consensus 185 ~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~ 217 (335)
....|..|++|+..+.+..+|++|+..+++.+|
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 456789999999999999999999988776543
No 42
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.24 E-value=0.0023 Score=35.16 Aligned_cols=23 Identities=39% Similarity=1.039 Sum_probs=21.0
Q ss_pred eecccccccccCcHHHHHHHHHh
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAH 212 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H 212 (335)
|.|.+|++.|.+...|+.|++.+
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 68999999999999999999764
No 43
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.94 E-value=0.022 Score=56.78 Aligned_cols=130 Identities=21% Similarity=0.272 Sum_probs=69.4
Q ss_pred ecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhh-hhhHHHHHHhc-CCC----CCCCccccc---
Q 042026 191 YCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMS-LQSKLWNKKHA-KFQ----PLKSMICVK--- 261 (335)
Q Consensus 191 ~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~-~~l~~h~~~h~-~~~----p~~C~~C~k--- 261 (335)
.|..| -.|.....|+.||+.-+ ..+.|.+|-.....+-.+.+.|. ..+.+|+..-- +++ .-.|..|..
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 35555 55668889999995432 33567676544444445566666 56777765311 111 123555533
Q ss_pred ------ceeeeeeCCcceecccC------CCccCCCHHHHHHHHhccCCCCeeec---cC-cccc----CHHHHHHHHhh
Q 042026 262 ------NHYKRSHCPKMYVCKRC------NRKQFSVLSDLRTHEKHCGDSKWQCS---CG-TTFS----RKDKLMGHVAL 321 (335)
Q Consensus 262 ------~h~~~h~~~k~y~C~~C------~~k~F~~~~~L~~H~~H~g~~~~~C~---C~-~~F~----~~~~L~~H~~~ 321 (335)
+|++.+| |.|..| + .-|....+|..|-| +.-|.|. |. +.|. ....|+.|.+.
T Consensus 194 d~~el~rH~~~~h----~~chfC~~~~~~n-eyy~~~~dLe~HfR---~~HflCE~~~C~~~~f~~~~~~ei~lk~~~~~ 265 (669)
T KOG2231|consen 194 DDDELYRHLRFDH----EFCHFCDYKTGQN-EYYNDYDDLEEHFR---KGHFLCEEEFCRTKKFYVAFELEIELKAHNRF 265 (669)
T ss_pred cHHHHHHhhccce----eheeecCcccccc-hhcccchHHHHHhh---hcCccccccccccceeeehhHHHHHHHhhccc
Confidence 4544433 334444 4 45667777888877 1115664 43 2333 33455555444
Q ss_pred hcCCCCcccC
Q 042026 322 FVGHTPAVNV 331 (335)
Q Consensus 322 H~gekp~~c~ 331 (335)
+.-|+-|.|.
T Consensus 266 ~~~e~~~~~~ 275 (669)
T KOG2231|consen 266 IQHEKCYICR 275 (669)
T ss_pred cchheeccCC
Confidence 4445555554
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.75 E-value=0.0085 Score=32.54 Aligned_cols=22 Identities=27% Similarity=0.579 Sum_probs=12.5
Q ss_pred eeec-cCccccCHHHHHHHHhhhc
Q 042026 301 WQCS-CGTTFSRKDKLMGHVALFV 323 (335)
Q Consensus 301 ~~C~-C~~~F~~~~~L~~H~~~H~ 323 (335)
|+|+ |+.... +..|.+|+++|+
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 5666 666655 666666666654
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.68 E-value=0.0097 Score=32.60 Aligned_cols=21 Identities=29% Similarity=0.735 Sum_probs=12.6
Q ss_pred eeec-cCccccCHHHHHHHHhh
Q 042026 301 WQCS-CGTTFSRKDKLMGHVAL 321 (335)
Q Consensus 301 ~~C~-C~~~F~~~~~L~~H~~~ 321 (335)
|.|. |++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566 66666666666666554
No 46
>PRK04860 hypothetical protein; Provisional
Probab=95.26 E-value=0.015 Score=47.91 Aligned_cols=29 Identities=21% Similarity=0.407 Sum_probs=19.0
Q ss_pred cceecccccccccCcHHHHHHHHHhcCCCcCcc
Q 042026 188 YTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSA 220 (335)
Q Consensus 188 ~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c 220 (335)
.+|.|. |++ ...++++|.++|.++++|.|
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC 146 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRC 146 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEEC
Confidence 457776 776 56677777777777744433
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.11 E-value=0.016 Score=31.46 Aligned_cols=23 Identities=26% Similarity=0.566 Sum_probs=18.1
Q ss_pred eecccccccccCcHHHHHHHHHhc
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAHG 213 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H~ 213 (335)
|+|+.|+.... +..|..|++.|.
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 68999998887 889999998864
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=95.08 E-value=0.0039 Score=35.07 Aligned_cols=22 Identities=36% Similarity=0.921 Sum_probs=20.0
Q ss_pred eecccccccccCcHHHHHHHHH
Q 042026 190 HYCQVCGKGFKRDANLRMHMRA 211 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~ 211 (335)
|.|..|++.|.+...|..|+++
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 7899999999999999999864
No 49
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=94.63 E-value=0.034 Score=58.77 Aligned_cols=127 Identities=18% Similarity=0.266 Sum_probs=78.7
Q ss_pred CCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHHhcCCCcCcccccCCCccCCCCcCchhhhhh
Q 042026 162 VAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRAHGDEYKTSAALTNPLKKNGSSMGKTMSLQS 241 (335)
Q Consensus 162 c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~~~~~c~lc~~~~~~~~~c~~~f~~~l 241 (335)
+..|+..+.....+..|+...+. ..+.|+|+.|+..|+....|-.|||.-+-+... .+|...
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S-~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~g--------------- 500 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHS-FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKAG--------------- 500 (1406)
T ss_pred ccchhhhhhhhcccccceeeeec-ccccccCCccchhhhhHHHhhhcccccccccch--hHhHhc---------------
Confidence 33444444444444444333332 337899999999999999999999983333111 222111
Q ss_pred HHHHHHhcCCCCCCCcccccceeeeeeCCcceecccCCCccCCCHHHHHHHHh---ccC---------------------
Q 042026 242 KLWNKKHAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK---HCG--------------------- 297 (335)
Q Consensus 242 ~~h~~~h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~---H~g--------------------- 297 (335)
..|.+.-.| ..|.|+. ++|.|..|. ..|+....|..|+. |..
T Consensus 501 q~~~~~arg-~~~~~~~------------~p~~C~~C~-~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~ 566 (1406)
T KOG1146|consen 501 QNHPRLARG-EVYRCPG------------KPYPCRACN-YSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVT 566 (1406)
T ss_pred ccccccccc-ccccCCC------------Ccccceeee-eeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhc
Confidence 111111100 1233333 899999999 99999999999987 531
Q ss_pred --------------------CCCeeec-cCccccCHHHHHHHHh
Q 042026 298 --------------------DSKWQCS-CGTTFSRKDKLMGHVA 320 (335)
Q Consensus 298 --------------------~~~~~C~-C~~~F~~~~~L~~H~~ 320 (335)
.-.|.|. |+..-.-...|+-||.
T Consensus 567 s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmt 610 (1406)
T KOG1146|consen 567 SAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMT 610 (1406)
T ss_pred ccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccc
Confidence 1139999 9988777778888875
No 50
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.40 E-value=0.006 Score=58.17 Aligned_cols=59 Identities=22% Similarity=0.301 Sum_probs=28.9
Q ss_pred CCCCCCCCcCCCcchhHHHHHH-hhcCCC--cceecc--cccccccCcHHHHHHHHHhcCCCcCc
Q 042026 160 IPVAENGESFSEINGDIIEVDA-VDLLAK--YTHYCQ--VCGKGFKRDANLRMHMRAHGDEYKTS 219 (335)
Q Consensus 160 ~~c~~c~~~~~~~~~~~~h~~~-~~~~~~--~~~~C~--~C~k~f~~~~~L~~H~r~H~~~~~~~ 219 (335)
+.|..|...|.....+..|... .+ ..+ +++.|+ .|++.|.+...+..|...|.+..+..
T Consensus 290 ~~~~~~~~~~s~~~~l~~~~~~~~h-~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (467)
T COG5048 290 IKSKQCNISFSRSSPLTRHLRSVNH-SGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAK 353 (467)
T ss_pred CCCccccCCcccccccccccccccc-ccccCCceeeeccCCCccccccccccCCcccccCCCccc
Confidence 4455555555555555555542 11 123 455555 45555555555555555555554333
No 51
>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=93.70 E-value=0.029 Score=31.42 Aligned_cols=21 Identities=38% Similarity=0.820 Sum_probs=15.6
Q ss_pred eecccCCCccCCCHHHHHHHHh
Q 042026 273 YVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 273 y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
|.|..|+ +.|.....|..|++
T Consensus 2 ~~C~~C~-k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACD-KYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTT-BBBSSHHHHHCCTT
T ss_pred CCcccCC-CCcCCHHHHHHHHc
Confidence 5677777 77777777777765
No 52
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.85 E-value=0.045 Score=52.06 Aligned_cols=135 Identities=24% Similarity=0.324 Sum_probs=95.8
Q ss_pred cceecccccccccCcHHHHHHHH--HhcCC--CcCcccccCCCccCCCCcCchhh--hhhHHHHHHhcCCCCCCCccccc
Q 042026 188 YTHYCQVCGKGFKRDANLRMHMR--AHGDE--YKTSAALTNPLKKNGSSMGKTMS--LQSKLWNKKHAKFQPLKSMICVK 261 (335)
Q Consensus 188 ~~~~C~~C~k~f~~~~~L~~H~r--~H~~~--~~~~c~lc~~~~~~~~~c~~~f~--~~l~~h~~~h~~~~p~~C~~C~k 261 (335)
.++.|..|...|.....|..|.+ .|.++ +++.|.+- .|++.|. ..+..|..+|++..++++..-..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYS--------LCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeecc--------CCCccccccccccCCcccccCCCccccccccC
Confidence 46899999999999999999999 89999 88888632 4678887 45677888999988877755422
Q ss_pred --ce--------------eeeeeCCcceeccc--CCCccCCCHHHHHHHHh-ccCCCCee--ec-cCccccCHHHHHHHH
Q 042026 262 --NH--------------YKRSHCPKMYVCKR--CNRKQFSVLSDLRTHEK-HCGDSKWQ--CS-CGTTFSRKDKLMGHV 319 (335)
Q Consensus 262 --~h--------------~~~h~~~k~y~C~~--C~~k~F~~~~~L~~H~~-H~g~~~~~--C~-C~~~F~~~~~L~~H~ 319 (335)
.+ +......+.+.|.. |- ..+.....+..|.. |...+++. +. |.+.|.....|..|+
T Consensus 360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 (467)
T COG5048 360 SSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCI-RNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHK 438 (467)
T ss_pred ccccccccCCCCccchhhccCccCCccccccccchh-hhhccccccccccccccccCCcCCCCCcchhhccCcccccccc
Confidence 11 11111234444432 55 67777777777777 77666544 44 888888888888888
Q ss_pred hhhcCCCCcccC
Q 042026 320 ALFVGHTPAVNV 331 (335)
Q Consensus 320 ~~H~gekp~~c~ 331 (335)
+.|....++.|.
T Consensus 439 ~~~~~~~~~~~~ 450 (467)
T COG5048 439 KIHTNHAPLLCS 450 (467)
T ss_pred cccccCCceeec
Confidence 888777666554
No 53
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.60 E-value=0.095 Score=28.82 Aligned_cols=19 Identities=37% Similarity=0.898 Sum_probs=11.1
Q ss_pred eec-cCccccCHHHHHHHHhh
Q 042026 302 QCS-CGTTFSRKDKLMGHVAL 321 (335)
Q Consensus 302 ~C~-C~~~F~~~~~L~~H~~~ 321 (335)
.|+ ||+.| ..+.|.+|+++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 466 66666 55556666543
No 54
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.36 E-value=0.13 Score=30.50 Aligned_cols=23 Identities=22% Similarity=0.777 Sum_probs=20.5
Q ss_pred ceecccccccccCcHHHHHHHHH
Q 042026 189 THYCQVCGKGFKRDANLRMHMRA 211 (335)
Q Consensus 189 ~~~C~~C~k~f~~~~~L~~H~r~ 211 (335)
+|.|.+|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58999999999999999999854
No 55
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=90.77 E-value=0.53 Score=50.25 Aligned_cols=47 Identities=19% Similarity=0.272 Sum_probs=37.5
Q ss_pred CCCCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHH
Q 042026 157 NANIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHM 209 (335)
Q Consensus 157 ~~~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~ 209 (335)
...+.|..|++.+.....+. ++. ....|+|..|...|...+.|..|.
T Consensus 1258 sGe~~c~~~~~~~~~~~~~~-~l~-----~~~~~~~~~~~~~~~~~~~l~~~~ 1304 (1406)
T KOG1146|consen 1258 SGEGECGAVDELLTPSFGIS-TLD-----VTHRYLCRQCKMAFDGEAPLTAHQ 1304 (1406)
T ss_pred CCcchhhhccccccCcccee-ecc-----cchhHHHHHHHhhhcchhHHHHHH
Confidence 34488999999888766655 544 445699999999999999999997
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=90.76 E-value=0.18 Score=27.67 Aligned_cols=21 Identities=29% Similarity=0.706 Sum_probs=16.0
Q ss_pred eecccccccccCcHHHHHHHHH
Q 042026 190 HYCQVCGKGFKRDANLRMHMRA 211 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~ 211 (335)
..|+.||+.| ....|.+|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4688888888 66788888753
No 57
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=90.12 E-value=0.38 Score=43.78 Aligned_cols=49 Identities=27% Similarity=0.373 Sum_probs=39.0
Q ss_pred eecccCCCccCCCHHHHHHHHh--ccC--------------------------CCCeeec-cCccccCHHHHHHHHhhh
Q 042026 273 YVCKRCNRKQFSVLSDLRTHEK--HCG--------------------------DSKWQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 273 y~C~~C~~k~F~~~~~L~~H~~--H~g--------------------------~~~~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
.+|-.|. ...-+...|..||+ |.- .+.-.|- |...|-....|..||.-+
T Consensus 280 v~CLfC~-~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCT-NFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeec-cchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 6999999 88888999999999 741 1123466 999999999999998744
No 58
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=89.71 E-value=0.31 Score=28.78 Aligned_cols=22 Identities=32% Similarity=0.566 Sum_probs=16.6
Q ss_pred ceecccCCCccCCCHHHHHHHHh
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
+|.|..|+ +.|.....+..|++
T Consensus 3 ~~~C~~C~-~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCN-VTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccC-CccCCHHHHHHHHC
Confidence 46778887 77877777777775
No 59
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=89.43 E-value=0.1 Score=44.92 Aligned_cols=48 Identities=21% Similarity=0.251 Sum_probs=40.0
Q ss_pred CCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHH-HHHhc
Q 042026 160 IPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMH-MRAHG 213 (335)
Q Consensus 160 ~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H-~r~H~ 213 (335)
--|=.|...|.+..-|+.|++..| |+|.+|.|...+--.|..| |.+|.
T Consensus 11 pwcwycnrefddekiliqhqkakh------fkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAKH------FKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred ceeeecccccchhhhhhhhhhhcc------ceeeeehhhhccCCCceeehhhhhh
Confidence 347789999999999999998877 9999999987777778777 66664
No 60
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=88.71 E-value=0.12 Score=44.47 Aligned_cols=48 Identities=25% Similarity=0.488 Sum_probs=38.5
Q ss_pred cceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccccCHHHHHHH-Hhhhc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTFSRKDKLMGH-VALFV 323 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F~~~~~L~~H-~~~H~ 323 (335)
|+| |.+|+ +.|.....|..|++ .|-|+|. |.|...+--.|..| |.+|.
T Consensus 10 kpw-cwycn-refddekiliqhqk---akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 10 KPW-CWYCN-REFDDEKILIQHQK---AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred Cce-eeecc-cccchhhhhhhhhh---hccceeeeehhhhccCCCceeehhhhhh
Confidence 454 78999 99999999999988 3349999 99887777777777 77773
No 61
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.75 E-value=0.62 Score=42.52 Aligned_cols=41 Identities=24% Similarity=0.572 Sum_probs=28.3
Q ss_pred ccCCCHHHHHHHHhccCCCCeeec---cC----ccccCHHHHHHHHhhhcC
Q 042026 281 KQFSVLSDLRTHEKHCGDSKWQCS---CG----TTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 281 k~F~~~~~L~~H~~H~g~~~~~C~---C~----~~F~~~~~L~~H~~~H~g 324 (335)
.-|..-.+|-+|-+| .-|.|. |- ..|.....|..|+...+|
T Consensus 259 QYFK~Y~~Le~HF~~---~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 259 QYFKSYEDLEAHFRN---AHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred hhhhCHHHHHHHhhc---CceEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 347777888888772 227775 63 368888899999765544
No 62
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.28 E-value=1.7 Score=43.83 Aligned_cols=126 Identities=16% Similarity=0.262 Sum_probs=70.4
Q ss_pred CCCCCCCCcCC---------------CcchhHHHHHHhhcCCCcceeccccccc---c------cCcHHHHHHHHHhc-C
Q 042026 160 IPVAENGESFS---------------EINGDIIEVDAVDLLAKYTHYCQVCGKG---F------KRDANLRMHMRAHG-D 214 (335)
Q Consensus 160 ~~c~~c~~~~~---------------~~~~~~~h~~~~~~~~~~~~~C~~C~k~---f------~~~~~L~~H~r~H~-~ 214 (335)
+.|..|+..|. ....|..|+...| +.+.|..|-.. | .+...|..|++.-- +
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H----~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d 175 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQH----KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPD 175 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhh----hhhccccccccceeeeeeeehehHHHHHHHHhcCCCc
Confidence 56777776663 5667778886555 33666666421 2 33456777775421 2
Q ss_pred CCcCcccccCCCccCCCCcCchhh--hhhHHHHHHhcCCCCCCCccccc---------------ceeeeeeCCcceecc-
Q 042026 215 EYKTSAALTNPLKKNGSSMGKTMS--LQSKLWNKKHAKFQPLKSMICVK---------------NHYKRSHCPKMYVCK- 276 (335)
Q Consensus 215 ~~~~~c~lc~~~~~~~~~c~~~f~--~~l~~h~~~h~~~~p~~C~~C~k---------------~h~~~h~~~k~y~C~- 276 (335)
+..+.- .-.|..|...|- ..+.+|++. .-|.|..|.+ .|++.+ -|.|.
T Consensus 176 ~~s~rG------hp~C~~C~~~fld~~el~rH~~~----~h~~chfC~~~~~~neyy~~~~dLe~HfR~~----HflCE~ 241 (669)
T KOG2231|consen 176 DESCRG------HPLCKFCHERFLDDDELYRHLRF----DHEFCHFCDYKTGQNEYYNDYDDLEEHFRKG----HFLCEE 241 (669)
T ss_pred cccccC------CccchhhhhhhccHHHHHHhhcc----ceeheeecCcccccchhcccchHHHHHhhhc----Cccccc
Confidence 221111 111245666665 445555554 4477888853 244443 47787
Q ss_pred -cCCCccCCCHHHHHHHHh-c----cCCCCeee
Q 042026 277 -RCNRKQFSVLSDLRTHEK-H----CGDSKWQC 303 (335)
Q Consensus 277 -~C~~k~F~~~~~L~~H~~-H----~g~~~~~C 303 (335)
.|..+.|...-.+..|++ | .-++-|.|
T Consensus 242 ~~C~~~~f~~~~~~ei~lk~~~~~~~~e~~~~~ 274 (669)
T KOG2231|consen 242 EFCRTKKFYVAFELEIELKAHNRFIQHEKCYIC 274 (669)
T ss_pred cccccceeeehhHHHHHHHhhccccchheeccC
Confidence 677677777756666665 3 34444555
No 63
>PHA00626 hypothetical protein
Probab=83.22 E-value=1.1 Score=29.47 Aligned_cols=31 Identities=23% Similarity=0.244 Sum_probs=18.4
Q ss_pred CCcccccc-eeeeeeC---CcceecccCCCccCCCH
Q 042026 255 KSMICVKN-HYKRSHC---PKMYVCKRCNRKQFSVL 286 (335)
Q Consensus 255 ~C~~C~k~-h~~~h~~---~k~y~C~~C~~k~F~~~ 286 (335)
.|+.|+.. +++.-.. ...|+|+.|| ..|+..
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCG-Y~ft~~ 36 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCG-YNDSKD 36 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcCCCC-Ceechh
Confidence 46777763 5443332 2468888888 766543
No 64
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=82.80 E-value=0.61 Score=30.68 Aligned_cols=25 Identities=24% Similarity=0.436 Sum_probs=17.1
Q ss_pred CCcceecccCCCccCCCHHHHHHHHh
Q 042026 269 CPKMYVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 269 ~~k~y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
++--+.|+.|| ..|....++.+|..
T Consensus 14 GE~~lrCPRC~-~~FR~~K~Y~RHVN 38 (65)
T COG4049 14 GEEFLRCPRCG-MVFRRRKDYIRHVN 38 (65)
T ss_pred CceeeeCCchh-HHHHHhHHHHHHhh
Confidence 45566777777 77777777777765
No 65
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=81.97 E-value=0.74 Score=27.06 Aligned_cols=7 Identities=57% Similarity=1.521 Sum_probs=4.1
Q ss_pred eecccCC
Q 042026 273 YVCKRCN 279 (335)
Q Consensus 273 y~C~~C~ 279 (335)
|.|..||
T Consensus 2 ~~C~~CG 8 (33)
T cd00350 2 YVCPVCG 8 (33)
T ss_pred EECCCCC
Confidence 5566666
No 66
>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=80.47 E-value=0.92 Score=34.77 Aligned_cols=29 Identities=21% Similarity=0.495 Sum_probs=16.0
Q ss_pred CCcccccceeeeeeCCcceecccCCCccCCCH
Q 042026 255 KSMICVKNHYKRSHCPKMYVCKRCNRKQFSVL 286 (335)
Q Consensus 255 ~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~ 286 (335)
.|+.||++||-... .|..|+.|| ..|.-.
T Consensus 11 ~Cp~CG~kFYDLnk--~PivCP~CG-~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDLNK--DPIVCPKCG-TEFPPE 39 (108)
T ss_pred cCCCCcchhccCCC--CCccCCCCC-CccCcc
Confidence 45555555554444 556666666 555443
No 67
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=80.40 E-value=0.41 Score=39.20 Aligned_cols=13 Identities=31% Similarity=0.825 Sum_probs=7.1
Q ss_pred eecccCCCccCCCH
Q 042026 273 YVCKRCNRKQFSVL 286 (335)
Q Consensus 273 y~C~~C~~k~F~~~ 286 (335)
|.|+.|| +.|...
T Consensus 29 ~~c~~c~-~~f~~~ 41 (154)
T PRK00464 29 RECLACG-KRFTTF 41 (154)
T ss_pred eeccccC-CcceEe
Confidence 5555555 555543
No 68
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=77.56 E-value=4.1 Score=37.36 Aligned_cols=16 Identities=25% Similarity=0.277 Sum_probs=12.6
Q ss_pred ccCCCHHHHHHHHh--cc
Q 042026 281 KQFSVLSDLRTHEK--HC 296 (335)
Q Consensus 281 k~F~~~~~L~~H~~--H~ 296 (335)
..|.....|..|+. |.
T Consensus 289 ~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 289 YVFPYHTELLEHLTRFHK 306 (493)
T ss_pred EEeccHHHHHHHHHHHhh
Confidence 47888888999986 64
No 69
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.05 E-value=0.83 Score=38.67 Aligned_cols=48 Identities=25% Similarity=0.528 Sum_probs=41.0
Q ss_pred ecccCCCccCCCHHHHHHHHh--cc---------CCCCeeec---cCccccCHHHHHHHH-hhh
Q 042026 274 VCKRCNRKQFSVLSDLRTHEK--HC---------GDSKWQCS---CGTTFSRKDKLMGHV-ALF 322 (335)
Q Consensus 274 ~C~~C~~k~F~~~~~L~~H~~--H~---------g~~~~~C~---C~~~F~~~~~L~~H~-~~H 322 (335)
.|..|. +.|.+...|..|+. |. |.-.|.|- |+..|.+...-+.|+ ++|
T Consensus 108 sCs~C~-r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 108 SCSFCK-RAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhHHHH-HhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 699999 99999999999987 64 55669995 999999999999995 555
No 70
>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=76.72 E-value=5.9 Score=30.27 Aligned_cols=24 Identities=25% Similarity=0.497 Sum_probs=22.0
Q ss_pred eee----c-cCccccCHHHHHHHHhhhcC
Q 042026 301 WQC----S-CGTTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 301 ~~C----~-C~~~F~~~~~L~~H~~~H~g 324 (335)
|.| . |+..+.+...+.+|++.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 8 99999999999999998875
No 71
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=76.57 E-value=1.6 Score=29.26 Aligned_cols=9 Identities=33% Similarity=1.098 Sum_probs=4.0
Q ss_pred cceecccCC
Q 042026 271 KMYVCKRCN 279 (335)
Q Consensus 271 k~y~C~~C~ 279 (335)
.+|+|+.||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 344444444
No 72
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=76.38 E-value=0.67 Score=40.27 Aligned_cols=41 Identities=24% Similarity=0.536 Sum_probs=24.4
Q ss_pred cceecccCCCccCCCHHHHHHHHh--c---------cCCCC-----eeec-cCccccCH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK--H---------CGDSK-----WQCS-CGTTFSRK 312 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~--H---------~g~~~-----~~C~-C~~~F~~~ 312 (335)
|.+.|+.|+ +.|....-+....+ . .+..| +.|+ ||.+|...
T Consensus 4 k~~~CPvC~-~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCG-KEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCC-CeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 566777777 77766544333332 1 13344 6799 99877644
No 73
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=75.60 E-value=1.9 Score=37.73 Aligned_cols=44 Identities=23% Similarity=0.594 Sum_probs=21.0
Q ss_pred eecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCccccCHHHHHHHHh
Q 042026 273 YVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTTFSRKDKLMGHVA 320 (335)
Q Consensus 273 y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~F~~~~~L~~H~~ 320 (335)
|.|..|| -... ...+-+|+. -++ .-|.|- |++.|-+ .....|..
T Consensus 4 FtCnvCg-EsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCG-ESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhh-hhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 5555555 3333 223445554 222 445565 6666655 34444543
No 74
>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=75.20 E-value=2.5 Score=26.38 Aligned_cols=26 Identities=19% Similarity=0.305 Sum_probs=15.6
Q ss_pred CCCcccccceeeeeeCCcceecccCC
Q 042026 254 LKSMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 254 ~~C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|+|+.|+...+-.......+.|..||
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG 26 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNCG 26 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT-
T ss_pred CCCcCCcCCceEEcCCCCeEECCCCC
Confidence 45777776654444445567777777
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=74.95 E-value=1.8 Score=28.55 Aligned_cols=30 Identities=30% Similarity=0.665 Sum_probs=24.5
Q ss_pred ccCCCCeeec-cCccccCHHHHHHHHhhhcC
Q 042026 295 HCGDSKWQCS-CGTTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 295 H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~g 324 (335)
-.||.-++|+ ||.-|.+.....+|+-.-+|
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3577889999 99999999999999764443
No 76
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=74.74 E-value=2.6 Score=26.39 Aligned_cols=26 Identities=35% Similarity=0.664 Sum_probs=16.8
Q ss_pred CCcceecccccccccCc----HHHHHHHHH
Q 042026 186 AKYTHYCQVCGKGFKRD----ANLRMHMRA 211 (335)
Q Consensus 186 ~~~~~~C~~C~k~f~~~----~~L~~H~r~ 211 (335)
+.....|.+|++.+... ++|..|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 45567899999998774 789999843
No 77
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=74.74 E-value=3.1 Score=30.21 Aligned_cols=31 Identities=13% Similarity=0.444 Sum_probs=17.8
Q ss_pred CCCCCcccccc-eeeeeeCCcceecccCCCccCCC
Q 042026 252 QPLKSMICVKN-HYKRSHCPKMYVCKRCNRKQFSV 285 (335)
Q Consensus 252 ~p~~C~~C~k~-h~~~h~~~k~y~C~~C~~k~F~~ 285 (335)
..|.|+.|++. +.+... .-+.|..|| ..|.-
T Consensus 34 ~~~~Cp~C~~~~VkR~a~--GIW~C~kCg-~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRTTVKRIAT--GIWKCRKCG-AKFAG 65 (89)
T ss_pred cCCcCCCCCCcceeeecc--CeEEcCCCC-Ceecc
Confidence 55677777664 222222 456777777 66653
No 78
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=74.17 E-value=2.8 Score=27.16 Aligned_cols=25 Identities=44% Similarity=0.876 Sum_probs=18.5
Q ss_pred ceecccccccccCc-----HHHHHHHH-Hhc
Q 042026 189 THYCQVCGKGFKRD-----ANLRMHMR-AHG 213 (335)
Q Consensus 189 ~~~C~~C~k~f~~~-----~~L~~H~r-~H~ 213 (335)
.-.|..|++.+... ++|.+|++ .|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 35788888888665 58999987 453
No 79
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=72.61 E-value=2.4 Score=25.61 Aligned_cols=33 Identities=24% Similarity=0.650 Sum_probs=18.6
Q ss_pred eecccCCCccCCCHHHHHHHHhccCCCCeeec-cCcccc
Q 042026 273 YVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTFS 310 (335)
Q Consensus 273 y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F~ 310 (335)
+.|+.|+ ..|....... ..+.....|+ |+..|.
T Consensus 3 ~~CP~C~-~~~~v~~~~~----~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCK-TSFRVVDSQL----GANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCC-CEEEeCHHHc----CCCCCEEECCCCCCEEE
Confidence 5677787 6666554321 1112246787 877664
No 80
>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=72.15 E-value=4.8 Score=25.54 Aligned_cols=26 Identities=23% Similarity=0.406 Sum_probs=17.2
Q ss_pred CCCcccccceeeeeeCCcceecccCC
Q 042026 254 LKSMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 254 ~~C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
+.|+.||......-.....|.|..|+
T Consensus 19 ~~CP~Cg~~~~~~~~~~~~~~C~~C~ 44 (46)
T PF12760_consen 19 FVCPHCGSTKHYRLKTRGRYRCKACR 44 (46)
T ss_pred CCCCCCCCeeeEEeCCCCeEECCCCC
Confidence 66888877543333336778888887
No 81
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=71.89 E-value=1.6 Score=34.65 Aligned_cols=25 Identities=32% Similarity=0.765 Sum_probs=13.1
Q ss_pred cceecccCCCccCCCHHHHHHHHh-ccCCC
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HCGDS 299 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~ 299 (335)
....|-+|| |.|.. |++|++ |.|-.
T Consensus 71 d~i~clecG-k~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 71 DYIICLECG-KKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp S-EE-TBT---EESB---HHHHHHHTT-S-
T ss_pred CeeEEccCC-cccch---HHHHHHHccCCC
Confidence 456788888 77765 477777 76654
No 82
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=71.70 E-value=2.8 Score=26.59 Aligned_cols=8 Identities=50% Similarity=1.323 Sum_probs=4.1
Q ss_pred ceecccCC
Q 042026 272 MYVCKRCN 279 (335)
Q Consensus 272 ~y~C~~C~ 279 (335)
.|.|+.||
T Consensus 3 ~y~C~~CG 10 (46)
T PRK00398 3 EYKCARCG 10 (46)
T ss_pred EEECCCCC
Confidence 35555555
No 83
>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=71.53 E-value=2 Score=25.45 Aligned_cols=8 Identities=25% Similarity=0.567 Sum_probs=4.3
Q ss_pred ceecccCC
Q 042026 272 MYVCKRCN 279 (335)
Q Consensus 272 ~y~C~~C~ 279 (335)
|..|+.||
T Consensus 18 p~~CP~Cg 25 (34)
T cd00729 18 PEKCPICG 25 (34)
T ss_pred CCcCcCCC
Confidence 44555555
No 84
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=70.68 E-value=2.6 Score=34.92 Aligned_cols=11 Identities=36% Similarity=0.939 Sum_probs=6.3
Q ss_pred cCCCCeeec-cC
Q 042026 296 CGDSKWQCS-CG 306 (335)
Q Consensus 296 ~g~~~~~C~-C~ 306 (335)
.|+.|..|| ||
T Consensus 145 ~ge~P~~CPiCg 156 (166)
T COG1592 145 EGEAPEVCPICG 156 (166)
T ss_pred cCCCCCcCCCCC
Confidence 345566666 65
No 85
>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=69.16 E-value=2.4 Score=23.45 Aligned_cols=8 Identities=50% Similarity=1.352 Sum_probs=4.2
Q ss_pred eec-cCccc
Q 042026 302 QCS-CGTTF 309 (335)
Q Consensus 302 ~C~-C~~~F 309 (335)
.|+ ||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 455 55555
No 86
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=68.63 E-value=3.2 Score=27.86 Aligned_cols=8 Identities=38% Similarity=1.431 Sum_probs=4.4
Q ss_pred CCeeec-cC
Q 042026 299 SKWQCS-CG 306 (335)
Q Consensus 299 ~~~~C~-C~ 306 (335)
.+|.|+ ||
T Consensus 47 ~~Y~CP~CG 55 (59)
T PRK14890 47 NPYTCPKCG 55 (59)
T ss_pred CceECCCCC
Confidence 445555 55
No 87
>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=68.47 E-value=3.6 Score=31.52 Aligned_cols=31 Identities=23% Similarity=0.502 Sum_probs=24.1
Q ss_pred CCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCc
Q 042026 159 NIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRD 202 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~ 202 (335)
...|+.||+.|-.+ ++.|-.|+.||..|.-.
T Consensus 9 KR~Cp~CG~kFYDL-------------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDL-------------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccC-------------CCCCccCCCCCCccCcc
Confidence 36799999988644 45677899999988766
No 88
>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=68.32 E-value=3 Score=32.65 Aligned_cols=28 Identities=14% Similarity=0.074 Sum_probs=13.5
Q ss_pred CCcccccceeeeeeCCcceecccCCCccCCC
Q 042026 255 KSMICVKNHYKRSHCPKMYVCKRCNRKQFSV 285 (335)
Q Consensus 255 ~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~ 285 (335)
.|+.||+++|-... .|..|+.|| ..|..
T Consensus 11 ~Cp~cg~kFYDLnk--~p~vcP~cg-~~~~~ 38 (129)
T TIGR02300 11 ICPNTGSKFYDLNR--RPAVSPYTG-EQFPP 38 (129)
T ss_pred cCCCcCccccccCC--CCccCCCcC-CccCc
Confidence 34555554444333 455555555 44433
No 89
>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=68.19 E-value=3.6 Score=30.25 Aligned_cols=31 Identities=29% Similarity=0.641 Sum_probs=18.0
Q ss_pred CCCCCcccccceeeeeeCCcceecccCCCccCC
Q 042026 252 QPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFS 284 (335)
Q Consensus 252 ~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~ 284 (335)
..|.|+.|++.-+++.... -|.|..|+ +.|.
T Consensus 34 ~ky~Cp~Cgk~~vkR~a~G-IW~C~~C~-~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSVKRVATG-IWKCKKCG-KKFA 64 (90)
T ss_dssp S-BEESSSSSSEEEEEETT-EEEETTTT-EEEE
T ss_pred CCCcCCCCCCceeEEeeeE-EeecCCCC-CEEe
Confidence 4566777776555444432 36777777 6664
No 90
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.59 E-value=3.4 Score=33.57 Aligned_cols=35 Identities=23% Similarity=0.727 Sum_probs=24.1
Q ss_pred cceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTF 309 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F 309 (335)
.-|.|+.|+ +.|.....+.. .+. ...|.|+ ||...
T Consensus 98 ~~Y~Cp~C~-~~y~~~ea~~~--~d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQ-SKYTFLEANQL--LDM-DGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCC-CEeeHHHHHHh--cCC-CCcEECCCCCCEE
Confidence 579999999 99986544322 122 3449999 99765
No 91
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.56 E-value=4.5 Score=33.14 Aligned_cols=14 Identities=29% Similarity=0.902 Sum_probs=9.7
Q ss_pred Ceeec-cCccccCHH
Q 042026 300 KWQCS-CGTTFSRKD 313 (335)
Q Consensus 300 ~~~C~-C~~~F~~~~ 313 (335)
.|+|+ ||++|....
T Consensus 28 ~~~c~~c~~~f~~~e 42 (154)
T PRK00464 28 RRECLACGKRFTTFE 42 (154)
T ss_pred eeeccccCCcceEeE
Confidence 37888 888876543
No 92
>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=65.95 E-value=3.5 Score=32.79 Aligned_cols=24 Identities=42% Similarity=0.765 Sum_probs=15.7
Q ss_pred eecccccccccCcHHHHHHHHHhcCCC
Q 042026 190 HYCQVCGKGFKRDANLRMHMRAHGDEY 216 (335)
Q Consensus 190 ~~C~~C~k~f~~~~~L~~H~r~H~~~~ 216 (335)
..|-+|||.|+ .|++|++.|+|-.
T Consensus 73 i~clecGk~~k---~LkrHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFK---TLKRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EES---BHHHHHHHTT-S-
T ss_pred eEEccCCcccc---hHHHHHHHccCCC
Confidence 57889999887 4699999997763
No 93
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=65.32 E-value=5.4 Score=29.36 Aligned_cols=32 Identities=25% Similarity=0.451 Sum_probs=19.8
Q ss_pred CCCCCcccccceeeeeeCCcceecccCCCccCCC
Q 042026 252 QPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSV 285 (335)
Q Consensus 252 ~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~ 285 (335)
..|.|+.|++.-+++... ..+.|..|+ +.|.-
T Consensus 35 a~y~CpfCgk~~vkR~a~-GIW~C~~C~-~~~AG 66 (90)
T PTZ00255 35 AKYFCPFCGKHAVKRQAV-GIWRCKGCK-KTVAG 66 (90)
T ss_pred CCccCCCCCCCceeeeee-EEEEcCCCC-CEEeC
Confidence 567777777654443332 467777777 66653
No 94
>PF07776 zf-AD: Zinc-finger associated domain (zf-AD) ; InterPro: IPR012934 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 zf-AD domain, also known as ZAD, forms an atypical treble-cleft-like zinc co-ordinating fold. The zf-AD domain is thought to be involved in mediating dimer formation, but does not bind to DNA []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 1PZW_A.
Probab=64.81 E-value=0.4 Score=33.36 Aligned_cols=63 Identities=17% Similarity=0.050 Sum_probs=38.3
Q ss_pred HHHHHh-cCCccccccccCCCCCCCCCCCccccccccccCCCCCccccccccccccchhhhhhh
Q 042026 65 VQEIIL-TASSLMVTCQQMSPPPASTSGTNNITTNEISQLDPNNNQEISSGLQGCYNFSEAFDT 127 (335)
Q Consensus 65 i~~i~~-~~~s~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~e~~~~ 127 (335)
+||+|. .....+.+++..........++...++.++...+..|..+|..|....+....+...
T Consensus 1 ~CRlCl~~~~~~~~~i~~~~~~~~l~~~i~~~~~~~i~~~~~lp~~IC~~C~~~l~~~~~F~~~ 64 (75)
T PF07776_consen 1 ICRLCLSESNENLVSIFDSSEESSLAEMIEECTGIQISPDDDLPQQICSSCWEKLQQFYRFRRK 64 (75)
T ss_dssp B-TTT---SSTTEEESS-SS-S-SHHHHHHHH-SS---SS-SS-SEEEHHHHHHHHHHHHHHHH
T ss_pred CcccCCCCCCCCcccCcCCcchhHHHHHHHHHhCCcCcCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 467777 566666677777766666777777888888888889999999998877777665554
No 95
>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=64.62 E-value=5.5 Score=29.36 Aligned_cols=32 Identities=22% Similarity=0.571 Sum_probs=19.1
Q ss_pred CCCCCcccccceeeeeeCCcceecccCCCccCCC
Q 042026 252 QPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSV 285 (335)
Q Consensus 252 ~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~ 285 (335)
..|.|+.|++.-+++... ..+.|..|+ +.|.-
T Consensus 34 a~y~CpfCgk~~vkR~a~-GIW~C~~C~-~~~AG 65 (91)
T TIGR00280 34 AKYVCPFCGKKTVKRGST-GIWTCRKCG-AKFAG 65 (91)
T ss_pred cCccCCCCCCCceEEEee-EEEEcCCCC-CEEeC
Confidence 457777777654433322 357777777 66653
No 96
>PF15269 zf-C2H2_7: Zinc-finger
Probab=64.40 E-value=5.6 Score=24.95 Aligned_cols=21 Identities=29% Similarity=0.675 Sum_probs=15.7
Q ss_pred eeec-cCccccCHHHHHHHHhh
Q 042026 301 WQCS-CGTTFSRKDKLMGHVAL 321 (335)
Q Consensus 301 ~~C~-C~~~F~~~~~L~~H~~~ 321 (335)
|+|- |..+..-+++|..||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6676 77777778888888764
No 97
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=64.00 E-value=4.9 Score=24.23 Aligned_cols=33 Identities=33% Similarity=0.785 Sum_probs=19.6
Q ss_pred eecccCCCccCCCHHHHHHHHhccCCCCeeec-cCcccc
Q 042026 273 YVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTFS 310 (335)
Q Consensus 273 y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F~ 310 (335)
..|+.|+ ..|....+- .-.+.+..+|+ |+..|.
T Consensus 3 i~CP~C~-~~f~v~~~~----l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQ-TRFRVPDDK----LPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCC-ceEEcCHHH----cccCCcEEECCCCCcEee
Confidence 3677787 777665431 12233457788 877764
No 98
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=62.55 E-value=9.5 Score=35.63 Aligned_cols=52 Identities=13% Similarity=0.193 Sum_probs=42.9
Q ss_pred CCCCCCCCcCCCcchhHHHHHHhhcCC---------------------Ccceeccccc---ccccCcHHHHHHHHH
Q 042026 160 IPVAENGESFSEINGDIIEVDAVDLLA---------------------KYTHYCQVCG---KGFKRDANLRMHMRA 211 (335)
Q Consensus 160 ~~c~~c~~~~~~~~~~~~h~~~~~~~~---------------------~~~~~C~~C~---k~f~~~~~L~~H~r~ 211 (335)
-.|-.|++.+.+...-..||...|..- ..-|.|-.|. +.|.+-...+.||+.
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 779999999999999999998877421 1237888898 999999999999965
No 99
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=62.33 E-value=4.7 Score=24.18 Aligned_cols=34 Identities=18% Similarity=0.242 Sum_probs=22.6
Q ss_pred CCCCCCCCcCCCcchhHHHHHHhhcCCCcceeccccccccc
Q 042026 160 IPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFK 200 (335)
Q Consensus 160 ~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~ 200 (335)
+.|+.|+..|.-....+. ......+|..|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~~ip-------~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIP-------PKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCC-------CCCcEEECCCCCCEeC
Confidence 568888888875544321 2334588999998873
No 100
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=62.26 E-value=4.9 Score=25.95 Aligned_cols=28 Identities=25% Similarity=0.707 Sum_probs=16.6
Q ss_pred cceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCcc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTT 308 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~ 308 (335)
..|.|..|| +.|... ......+|+ ||..
T Consensus 5 ~~Y~C~~Cg-~~~~~~---------~~~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCG-REVELD---------QETRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcC-Ceeehh---------hccCceeCCCCCcE
Confidence 457888888 777211 123457787 7743
No 101
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=61.82 E-value=2 Score=37.69 Aligned_cols=29 Identities=28% Similarity=0.623 Sum_probs=22.1
Q ss_pred eeeeeeCCcceecccCCCccCCCHHHHHHHHh
Q 042026 263 HYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 263 h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
|+.+-++ .-|.|-.|+ +.|.. .+++.|..
T Consensus 21 H~srCrn-~~fSCIDC~-k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 21 HMSRCRN-AYFSCIDCG-KTFER-VSYKNHTK 49 (276)
T ss_pred HHHhccC-CeeEEeecc-ccccc-chhhhhhh
Confidence 5444444 678999999 99988 67888877
No 102
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.84 E-value=6 Score=31.26 Aligned_cols=26 Identities=27% Similarity=0.524 Sum_probs=18.7
Q ss_pred cceecccCCCccCCCHHHHHHHHh-ccCCCC
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HCGDSK 300 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~ 300 (335)
--..|-++| |.|. .|++|+. |.|-.|
T Consensus 75 D~IicLEDG-kkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 75 DYIICLEDG-KKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred CeEEEeccC-cchH---HHHHHHhcccCCCH
Confidence 346788888 7775 4778888 777655
No 103
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=60.35 E-value=4.1 Score=33.77 Aligned_cols=23 Identities=22% Similarity=0.337 Sum_probs=18.2
Q ss_pred CCCCcccccceeeeeeCCcceecccCC
Q 042026 253 PLKSMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 253 p~~C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
-|.|++||..|.. +-|-+|+.||
T Consensus 134 ~~vC~vCGy~~~g----e~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTHEG----EAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcccC----CCCCcCCCCC
Confidence 5888888876643 6788899998
No 104
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=59.53 E-value=7.8 Score=28.54 Aligned_cols=32 Identities=19% Similarity=0.513 Sum_probs=19.5
Q ss_pred CCCCCcccccceeeeeeCCcceecccCCCccCCC
Q 042026 252 QPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSV 285 (335)
Q Consensus 252 ~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~ 285 (335)
..|.|+.|++.-+++... ..+.|..|+ +.|.-
T Consensus 35 a~y~CpfCgk~~vkR~a~-GIW~C~~C~-~~~AG 66 (90)
T PRK03976 35 AKHVCPVCGRPKVKRVGT-GIWECRKCG-AKFAG 66 (90)
T ss_pred cCccCCCCCCCceEEEEE-EEEEcCCCC-CEEeC
Confidence 457777777654443322 357777777 66653
No 105
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=58.46 E-value=8.7 Score=39.57 Aligned_cols=12 Identities=25% Similarity=0.695 Sum_probs=8.1
Q ss_pred CCCCeeec-cCcc
Q 042026 297 GDSKWQCS-CGTT 308 (335)
Q Consensus 297 g~~~~~C~-C~~~ 308 (335)
...|..|+ ||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 34677888 8754
No 106
>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=57.31 E-value=4 Score=35.32 Aligned_cols=28 Identities=25% Similarity=0.306 Sum_probs=20.5
Q ss_pred CCcceecccCCCccCCCHHHHHHHHh--ccC
Q 042026 269 CPKMYVCKRCNRKQFSVLSDLRTHEK--HCG 297 (335)
Q Consensus 269 ~~k~y~C~~C~~k~F~~~~~L~~H~~--H~g 297 (335)
.+..|.|..|+ |.|.-....++|+. |..
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 764
No 107
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=57.30 E-value=2.9 Score=36.34 Aligned_cols=20 Identities=35% Similarity=0.586 Sum_probs=14.6
Q ss_pred CcceecccccccccCcHHHH
Q 042026 187 KYTHYCQVCGKGFKRDANLR 206 (335)
Q Consensus 187 ~~~~~C~~C~k~f~~~~~L~ 206 (335)
++...|++|++.|..+.-..
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs 22 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRS 22 (214)
T ss_pred CCceECCCCCCeeeeeEEEc
Confidence 35578999999998775443
No 108
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=57.25 E-value=3.9 Score=41.28 Aligned_cols=29 Identities=28% Similarity=0.496 Sum_probs=25.6
Q ss_pred CcceecccccccccCcHHHHHHHHHhcCC
Q 042026 187 KYTHYCQVCGKGFKRDANLRMHMRAHGDE 215 (335)
Q Consensus 187 ~~~~~C~~C~k~f~~~~~L~~H~r~H~~~ 215 (335)
...|-|..|+|.|....++..||++|.-.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 45699999999999999999999999654
No 109
>PRK14873 primosome assembly protein PriA; Provisional
Probab=56.51 E-value=9.3 Score=39.12 Aligned_cols=29 Identities=21% Similarity=0.741 Sum_probs=17.2
Q ss_pred eeeeeCCcceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCcc
Q 042026 264 YKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTT 308 (335)
Q Consensus 264 ~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~ 308 (335)
+..|...+...|.+|| . . ..|+.|+ ||..
T Consensus 402 L~~h~~~~~l~Ch~CG-~--------------~-~~p~~Cp~Cgs~ 431 (665)
T PRK14873 402 LGLPSAGGTPRCRWCG-R--------------A-APDWRCPRCGSD 431 (665)
T ss_pred eeEecCCCeeECCCCc-C--------------C-CcCccCCCCcCC
Confidence 3444444556666666 2 1 2478899 9864
No 110
>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=56.49 E-value=6.5 Score=32.35 Aligned_cols=30 Identities=17% Similarity=0.663 Sum_probs=24.2
Q ss_pred cceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTF 309 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F 309 (335)
.-|.|+.|+ ..|+....+. .-|.|+ ||...
T Consensus 108 ~~Y~Cp~c~-~r~tf~eA~~--------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 108 MFFICPNMC-VRFTFNEAME--------LNFTCPRCGAML 138 (158)
T ss_pred CeEECCCCC-cEeeHHHHHH--------cCCcCCCCCCEe
Confidence 679999999 8998887774 359999 99754
No 111
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=55.80 E-value=3 Score=29.38 Aligned_cols=6 Identities=50% Similarity=1.121 Sum_probs=2.9
Q ss_pred cCcccc
Q 042026 305 CGTTFS 310 (335)
Q Consensus 305 C~~~F~ 310 (335)
||.+|.
T Consensus 35 Cg~tF~ 40 (72)
T PRK09678 35 CSATFI 40 (72)
T ss_pred CCCEEE
Confidence 554443
No 112
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=55.22 E-value=13 Score=34.85 Aligned_cols=50 Identities=26% Similarity=0.535 Sum_probs=40.3
Q ss_pred ceecccCCCccCCCHHHHHHHHh---cc-----------------------------------CCCCeeec-cCccccCH
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK---HC-----------------------------------GDSKWQCS-CGTTFSRK 312 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~---H~-----------------------------------g~~~~~C~-C~~~F~~~ 312 (335)
-|+|.-|. ..|.....-+.|++ |. +.-++.|. |.+.|...
T Consensus 3 ~ftC~tC~-v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~ 81 (390)
T KOG2785|consen 3 GFTCNTCN-VEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASP 81 (390)
T ss_pred cceeecee-eeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccCh
Confidence 47899999 99999888888887 63 23468999 99999999
Q ss_pred HHHHHHHhhh
Q 042026 313 DKLMGHVALF 322 (335)
Q Consensus 313 ~~L~~H~~~H 322 (335)
..-..|+..-
T Consensus 82 ~a~~~hl~Sk 91 (390)
T KOG2785|consen 82 KAHENHLKSK 91 (390)
T ss_pred hhHHHHHHHh
Confidence 8888887643
No 113
>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=54.99 E-value=8.8 Score=23.83 Aligned_cols=8 Identities=25% Similarity=0.745 Sum_probs=3.6
Q ss_pred ceecccCC
Q 042026 272 MYVCKRCN 279 (335)
Q Consensus 272 ~y~C~~C~ 279 (335)
+-.|+.||
T Consensus 26 ~~~CP~Cg 33 (42)
T PF09723_consen 26 PVPCPECG 33 (42)
T ss_pred CCcCCCCC
Confidence 34444444
No 114
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=54.28 E-value=6.9 Score=30.93 Aligned_cols=24 Identities=33% Similarity=0.486 Sum_probs=18.8
Q ss_pred ecccccccccCcHHHHHHHHHhcCCCc
Q 042026 191 YCQVCGKGFKRDANLRMHMRAHGDEYK 217 (335)
Q Consensus 191 ~C~~C~k~f~~~~~L~~H~r~H~~~~~ 217 (335)
.|-.+||.|+ +|++|+++|.+-.|
T Consensus 78 icLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEeccCcchH---HHHHHHhcccCCCH
Confidence 4777787776 79999999887743
No 115
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=53.81 E-value=7.1 Score=32.85 Aligned_cols=30 Identities=20% Similarity=0.775 Sum_probs=23.5
Q ss_pred cceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTF 309 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F 309 (335)
.-|.|+.|+ +.|+....+. .-|.|+ ||...
T Consensus 116 ~~Y~Cp~C~-~rytf~eA~~--------~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCH-IRFTFDEAME--------YGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCC-cEEeHHHHhh--------cCCcCCCCCCCC
Confidence 578999999 8888877653 359999 99754
No 116
>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=52.30 E-value=11 Score=29.62 Aligned_cols=35 Identities=14% Similarity=0.320 Sum_probs=26.0
Q ss_pred CCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHH
Q 042026 159 NIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLR 206 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~ 206 (335)
...|+.|++.|-.+ ++.|-.|+.||..|.-...++
T Consensus 9 Kr~Cp~cg~kFYDL-------------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNTGSKFYDL-------------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCcCcccccc-------------CCCCccCCCcCCccCcchhhc
Confidence 36799999988643 556788999999987664443
No 117
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.28 E-value=9.6 Score=28.96 Aligned_cols=12 Identities=17% Similarity=0.193 Sum_probs=7.1
Q ss_pred cceecccCCCccC
Q 042026 271 KMYVCKRCNRKQF 283 (335)
Q Consensus 271 k~y~C~~C~~k~F 283 (335)
.|..|++|| ++|
T Consensus 25 dPiVsPytG-~s~ 36 (129)
T COG4530 25 DPIVSPYTG-KSY 36 (129)
T ss_pred CccccCccc-ccc
Confidence 455666666 555
No 118
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.89 E-value=21 Score=27.47 Aligned_cols=48 Identities=17% Similarity=0.363 Sum_probs=27.9
Q ss_pred ecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccccCHHHHHHHHhhhc
Q 042026 274 VCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTFSRKDKLMGHVALFV 323 (335)
Q Consensus 274 ~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F~~~~~L~~H~~~H~ 323 (335)
.|--|. +.|........- .-.....|.|+ |...|-..-....|..+|.
T Consensus 57 ~C~~C~-~~f~~~~~~~~~-~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQ-GPFPKPPVSPFD-ELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcC-CCCCCccccccc-ccccccceeCCCCCCccccccchhhhhhccC
Confidence 377777 777654211100 01223467888 8888877777777777764
No 119
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.51 E-value=11 Score=37.27 Aligned_cols=17 Identities=12% Similarity=0.254 Sum_probs=9.8
Q ss_pred eeeeeeCCcceecccCC
Q 042026 263 HYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 263 h~~~h~~~k~y~C~~C~ 279 (335)
.+..|.......|.+||
T Consensus 231 ~l~~h~~~~~l~Ch~Cg 247 (505)
T TIGR00595 231 SLTYHKKEGKLRCHYCG 247 (505)
T ss_pred ceEEecCCCeEEcCCCc
Confidence 34444455566666666
No 120
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=51.19 E-value=9.2 Score=39.40 Aligned_cols=10 Identities=30% Similarity=0.683 Sum_probs=5.9
Q ss_pred eccccccccc
Q 042026 191 YCQVCGKGFK 200 (335)
Q Consensus 191 ~C~~C~k~f~ 200 (335)
.|..||..+.
T Consensus 437 ~C~~Cg~v~~ 446 (730)
T COG1198 437 LCRDCGYIAE 446 (730)
T ss_pred ecccCCCccc
Confidence 5666665543
No 121
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.27 E-value=14 Score=38.98 Aligned_cols=11 Identities=27% Similarity=0.223 Sum_probs=6.9
Q ss_pred CCCCCcccccc
Q 042026 252 QPLKSMICVKN 262 (335)
Q Consensus 252 ~p~~C~~C~k~ 262 (335)
....|+.||+.
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34567777764
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=48.93 E-value=5.5 Score=35.16 Aligned_cols=93 Identities=14% Similarity=0.166 Sum_probs=43.7
Q ss_pred hcCCCcCcccccCCCccCCCCcCchhhhhhHHHHH--HhcCCCCCCCcccccceeeeeeCCcceecccCCCccCCCHHHH
Q 042026 212 HGDEYKTSAALTNPLKKNGSSMGKTMSLQSKLWNK--KHAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDL 289 (335)
Q Consensus 212 H~~~~~~~c~lc~~~~~~~~~c~~~f~~~l~~h~~--~h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L 289 (335)
.+|.+.|.|.+|..+.|.- -.|. |+. .-.....|+|..|.+. -.|.|-.|. -.|-.-.-.
T Consensus 137 ~hGGrif~CsfC~~flCED----DQFE-----HQAsCQvLe~E~~KC~SCNrl--------Gq~sCLRCK-~cfCddHvr 198 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCED----DQFE-----HQASCQVLESETFKCQSCNRL--------GQYSCLRCK-ICFCDDHVR 198 (314)
T ss_pred cCCCeEEEeecCCCeeecc----chhh-----hhhhhhhhhcccccccccccc--------cchhhhhee-eeehhhhhh
Confidence 3455667777775555542 2222 111 0112245777777552 235555554 444332221
Q ss_pred HHHHhccCCCCeeec-cCccccCHHHHHHHHhhh
Q 042026 290 RTHEKHCGDSKWQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 290 ~~H~~H~g~~~~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
++-.+-...+++.|+ ||........|..-.|+|
T Consensus 199 rKg~ky~k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 199 RKGFKYEKGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred hcccccccCCCCCCCCCCCcccccccceeeeecc
Confidence 111121122567777 776655555555444444
No 123
>PF14353 CpXC: CpXC protein
Probab=48.80 E-value=2.1 Score=33.81 Aligned_cols=50 Identities=22% Similarity=0.317 Sum_probs=30.0
Q ss_pred CCCCCCCCcCCCcchhHHH------HHHhhc-CCCcceecccccccccCcHHHHHHH
Q 042026 160 IPVAENGESFSEINGDIIE------VDAVDL-LAKYTHYCQVCGKGFKRDANLRMHM 209 (335)
Q Consensus 160 ~~c~~c~~~~~~~~~~~~h------~~~~~~-~~~~~~~C~~C~k~f~~~~~L~~H~ 209 (335)
+.|+.|+..|.......+. ++..-. ..=..|.|+.||+.|.-...+..|-
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEc
Confidence 6799999887654332222 111111 1223589999999988777665554
No 124
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=47.62 E-value=16 Score=33.75 Aligned_cols=44 Identities=20% Similarity=0.295 Sum_probs=30.0
Q ss_pred CCcceecccCCCccCCCHHHHHHHHh--ccCCCC-eeec-cC-ccccCHH
Q 042026 269 CPKMYVCKRCNRKQFSVLSDLRTHEK--HCGDSK-WQCS-CG-TTFSRKD 313 (335)
Q Consensus 269 ~~k~y~C~~C~~k~F~~~~~L~~H~~--H~g~~~-~~C~-C~-~~F~~~~ 313 (335)
.+.-|.|++|+ +.=.+...|..|.. |....+ ..|+ |+ ..|....
T Consensus 76 ~~qSftCPyC~-~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~~~~~qp~ 124 (381)
T KOG1280|consen 76 DPQSFTCPYCG-IMGFTERQFGTHVLSQHPEASTSVICPLCAANPEMQPI 124 (381)
T ss_pred ccccccCCccc-ccccchhHHHHHhhhcCcccCcceeeeccccCcccCch
Confidence 35689999999 66667788999987 764432 4566 75 3444443
No 125
>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=46.89 E-value=15 Score=22.19 Aligned_cols=10 Identities=40% Similarity=1.255 Sum_probs=4.5
Q ss_pred eecccCCCccC
Q 042026 273 YVCKRCNRKQF 283 (335)
Q Consensus 273 y~C~~C~~k~F 283 (335)
|+|..|| +.|
T Consensus 6 y~C~~Cg-~~f 15 (41)
T smart00834 6 YRCEDCG-HTF 15 (41)
T ss_pred EEcCCCC-CEE
Confidence 4444444 444
No 126
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=46.04 E-value=18 Score=19.87 Aligned_cols=19 Identities=16% Similarity=0.368 Sum_probs=11.8
Q ss_pred ecccCCCccCCCHHHHHHHHh
Q 042026 274 VCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 274 ~C~~C~~k~F~~~~~L~~H~~ 294 (335)
.|+.|+ +.+ ....+..|..
T Consensus 3 ~CPiC~-~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCF-REV-PENLINSHLD 21 (26)
T ss_pred cCCCCc-Ccc-cHHHHHHHHH
Confidence 577777 666 4456666653
No 127
>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=45.51 E-value=9.3 Score=22.30 Aligned_cols=11 Identities=27% Similarity=1.066 Sum_probs=6.0
Q ss_pred eecccCCCccCC
Q 042026 273 YVCKRCNRKQFS 284 (335)
Q Consensus 273 y~C~~C~~k~F~ 284 (335)
|.|..|| ..+.
T Consensus 1 Y~C~~Cg-~~~~ 11 (32)
T PF03604_consen 1 YICGECG-AEVE 11 (32)
T ss_dssp EBESSSS-SSE-
T ss_pred CCCCcCC-CeeE
Confidence 5666666 5443
No 128
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=45.40 E-value=10 Score=36.21 Aligned_cols=29 Identities=34% Similarity=0.804 Sum_probs=18.8
Q ss_pred ecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccccCHH
Q 042026 274 VCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTFSRKD 313 (335)
Q Consensus 274 ~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F~~~~ 313 (335)
.|+.|| .+ |+-.|.+-|+|+ ||+.+....
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 888776543
No 129
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=44.64 E-value=17 Score=27.67 Aligned_cols=25 Identities=24% Similarity=0.430 Sum_probs=19.3
Q ss_pred eec----ccccccccCcHHHHHHHHHhcC
Q 042026 190 HYC----QVCGKGFKRDANLRMHMRAHGD 214 (335)
Q Consensus 190 ~~C----~~C~k~f~~~~~L~~H~r~H~~ 214 (335)
|.| ..|+..+.+...++.|++.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 677 7888888888888888876553
No 130
>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=44.27 E-value=18 Score=19.60 Aligned_cols=8 Identities=25% Similarity=0.999 Sum_probs=4.3
Q ss_pred ceecccCC
Q 042026 272 MYVCKRCN 279 (335)
Q Consensus 272 ~y~C~~C~ 279 (335)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555555
No 131
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=43.10 E-value=20 Score=33.13 Aligned_cols=27 Identities=33% Similarity=0.775 Sum_probs=21.8
Q ss_pred ceecccccccccCcHHHHHHHH--HhcCC
Q 042026 189 THYCQVCGKGFKRDANLRMHMR--AHGDE 215 (335)
Q Consensus 189 ~~~C~~C~k~f~~~~~L~~H~r--~H~~~ 215 (335)
.+.|..|++-|++..-+..|+. .|..+
T Consensus 238 ~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~ 266 (470)
T COG5188 238 KVYCVKCGREFSRSKVFEYHLEGKRHCKE 266 (470)
T ss_pred ceeeHhhhhHhhhhHHHHHHHhhhhhhhh
Confidence 4789999999999999999974 46544
No 132
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=42.91 E-value=18 Score=22.83 Aligned_cols=11 Identities=27% Similarity=1.063 Sum_probs=5.7
Q ss_pred eecccCCCccCC
Q 042026 273 YVCKRCNRKQFS 284 (335)
Q Consensus 273 y~C~~C~~k~F~ 284 (335)
|.|..|| ..|.
T Consensus 3 Y~C~~Cg-~~~~ 13 (44)
T smart00659 3 YICGECG-RENE 13 (44)
T ss_pred EECCCCC-CEee
Confidence 5555555 4443
No 133
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.30 E-value=13 Score=31.73 Aligned_cols=47 Identities=13% Similarity=0.262 Sum_probs=35.6
Q ss_pred CCCC--CCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcHHHHHHHHH
Q 042026 160 IPVA--ENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDANLRMHMRA 211 (335)
Q Consensus 160 ~~c~--~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~~L~~H~r~ 211 (335)
+.|+ -|...|.....+..|....|. -.|..|.+.|.+..-|..|+..
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~-----~sCs~C~r~~Pt~hLLd~HI~E 128 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG-----NSCSFCKRAFPTGHLLDAHILE 128 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc-----chhHHHHHhCCchhhhhHHHHH
Confidence 4454 466678888877777766652 4699999999999999999754
No 134
>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=42.21 E-value=20 Score=31.03 Aligned_cols=28 Identities=25% Similarity=0.617 Sum_probs=20.6
Q ss_pred CCCCeeec-cCccccCHHHHHHHHhhhcC
Q 042026 297 GDSKWQCS-CGTTFSRKDKLMGHVALFVG 324 (335)
Q Consensus 297 g~~~~~C~-C~~~F~~~~~L~~H~~~H~g 324 (335)
++..|.|. |+|.|.-....++|+..-+.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 34569999 99999999999999875543
No 135
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=41.77 E-value=16 Score=33.59 Aligned_cols=25 Identities=28% Similarity=0.486 Sum_probs=21.8
Q ss_pred ceecccCCCccCCCHHHHHHHHh---ccC
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEK---HCG 297 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~---H~g 297 (335)
.+.|-.|. |.|..+..|+.||| |..
T Consensus 195 r~~CLyCe-kifrdkntLkeHMrkK~Hrr 222 (423)
T KOG2482|consen 195 RLRCLYCE-KIFRDKNTLKEHMRKKRHRR 222 (423)
T ss_pred hheeeeec-cccCCcHHHHHHHHhccCcc
Confidence 68899999 99999999999997 653
No 136
>PRK05580 primosome assembly protein PriA; Validated
Probab=40.92 E-value=24 Score=36.34 Aligned_cols=11 Identities=36% Similarity=0.824 Sum_probs=6.8
Q ss_pred CCCeeec-cCcc
Q 042026 298 DSKWQCS-CGTT 308 (335)
Q Consensus 298 ~~~~~C~-C~~~ 308 (335)
..|+.|+ ||..
T Consensus 419 ~~~~~Cp~Cg~~ 430 (679)
T PRK05580 419 PIPKACPECGST 430 (679)
T ss_pred CCCCCCCCCcCC
Confidence 3466777 7653
No 137
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=40.79 E-value=31 Score=31.66 Aligned_cols=65 Identities=17% Similarity=0.353 Sum_probs=46.8
Q ss_pred CCCCCcccccceeeeeeCCcceecccCCCccCCCHHHHHHHHhcc----------------------------CCCCeee
Q 042026 252 QPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHC----------------------------GDSKWQC 303 (335)
Q Consensus 252 ~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~H~----------------------------g~~~~~C 303 (335)
.-|-|+.|..++ +.-|-.|+.|+ -......+|.+-.+|- +.-.|+|
T Consensus 275 ~Gy~CP~Ckakv-----CsLP~eCpiC~-ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C 348 (378)
T KOG2807|consen 275 GGYFCPQCKAKV-----CSLPIECPICS-LTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRC 348 (378)
T ss_pred CceeCCcccCee-----ecCCccCCccc-eeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEc
Confidence 458888885533 55688899999 8887777777644331 1124888
Q ss_pred c-cCccccCHHHHHHHHhhh
Q 042026 304 S-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 304 ~-C~~~F~~~~~L~~H~~~H 322 (335)
. |...|-.--....|..+|
T Consensus 349 ~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 349 ESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred hhccceeeccchHHHHhhhh
Confidence 8 998998887788888887
No 138
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=40.45 E-value=17 Score=28.72 Aligned_cols=58 Identities=17% Similarity=0.311 Sum_probs=29.9
Q ss_pred hcCCCCCCCcccccceeeeeeCCcceecccCCCccCCC--HHHHHHHHhccCCCCeeec-cCccccCHH
Q 042026 248 HAKFQPLKSMICVKNHYKRSHCPKMYVCKRCNRKQFSV--LSDLRTHEKHCGDSKWQCS-CGTTFSRKD 313 (335)
Q Consensus 248 h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~--~~~L~~H~~H~g~~~~~C~-C~~~F~~~~ 313 (335)
....+-|+|.+|...-...|.- ||-.| || ...-. -..|.+|-. --| .|+ |..+|+..+
T Consensus 75 F~d~~lYeCnIC~etS~ee~FL-KPneC--Cg-Y~iCn~Cya~LWK~~~---~yp-vCPvCkTSFKss~ 135 (140)
T PF05290_consen 75 FLDPKLYECNICKETSAEERFL-KPNEC--CG-YSICNACYANLWKFCN---LYP-VCPVCKTSFKSSS 135 (140)
T ss_pred ecCCCceeccCcccccchhhcC-Ccccc--cc-hHHHHHHHHHHHHHcc---cCC-CCCcccccccccc
Confidence 4445667788886533222222 45454 33 22211 123444433 223 799 999998754
No 139
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=39.79 E-value=19 Score=23.26 Aligned_cols=37 Identities=19% Similarity=0.460 Sum_probs=21.5
Q ss_pred CcceecccCCCccCCCHHHHHHHHhcc--CCCCeeec-cCc
Q 042026 270 PKMYVCKRCNRKQFSVLSDLRTHEKHC--GDSKWQCS-CGT 307 (335)
Q Consensus 270 ~k~y~C~~C~~k~F~~~~~L~~H~~H~--g~~~~~C~-C~~ 307 (335)
++.+.|..|| ..|.....=+....-. ...|-+|. |..
T Consensus 2 Dk~l~C~dCg-~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR~ 41 (49)
T PF13451_consen 2 DKTLTCKDCG-AEFVFTAGEQKFYAEKGFDNEPKRCPSCRQ 41 (49)
T ss_pred CeeEEcccCC-CeEEEehhHHHHHHhcCCcCCCccCHHHHH
Confidence 4678889998 7777655433333211 12456777 753
No 140
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=39.79 E-value=20 Score=24.63 Aligned_cols=23 Identities=17% Similarity=0.553 Sum_probs=10.8
Q ss_pred CcccccceeeeeeCCcceecccCC
Q 042026 256 SMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 256 C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|+.||..... ....+.|.|+.||
T Consensus 31 C~~CG~~~~~-~~~~r~~~C~~Cg 53 (69)
T PF07282_consen 31 CPRCGHRNKK-RRSGRVFTCPNCG 53 (69)
T ss_pred ccCccccccc-ccccceEEcCCCC
Confidence 4445443333 2223556666666
No 141
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=39.72 E-value=16 Score=29.53 Aligned_cols=31 Identities=23% Similarity=0.750 Sum_probs=18.2
Q ss_pred ceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCccc
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTTF 309 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~F 309 (335)
.|.|..|+ ..+. +|.||.....|.|. |+-.|
T Consensus 112 ~y~C~~C~-~~~~------~~rr~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCG-QRYL------RVRRSNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCC-CCCc------eEccccCcceEEcCCCCCEE
Confidence 67777777 5542 33334444557777 77654
No 142
>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=39.55 E-value=20 Score=23.08 Aligned_cols=11 Identities=36% Similarity=1.150 Sum_probs=5.1
Q ss_pred eecccCCCccCC
Q 042026 273 YVCKRCNRKQFS 284 (335)
Q Consensus 273 y~C~~C~~k~F~ 284 (335)
|+|..|| ..|.
T Consensus 6 y~C~~Cg-~~fe 16 (52)
T TIGR02605 6 YRCTACG-HRFE 16 (52)
T ss_pred EEeCCCC-CEeE
Confidence 4444554 4443
No 143
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=38.59 E-value=24 Score=21.58 Aligned_cols=10 Identities=30% Similarity=0.972 Sum_probs=4.6
Q ss_pred CcceecccCC
Q 042026 270 PKMYVCKRCN 279 (335)
Q Consensus 270 ~k~y~C~~C~ 279 (335)
.+.|.|..|+
T Consensus 22 ~~~w~C~~C~ 31 (40)
T PF04810_consen 22 GKTWICNFCG 31 (40)
T ss_dssp TTEEEETTT-
T ss_pred CCEEECcCCC
Confidence 3455555555
No 144
>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=37.47 E-value=13 Score=28.13 Aligned_cols=9 Identities=22% Similarity=0.460 Sum_probs=4.5
Q ss_pred CCCCccccc
Q 042026 253 PLKSMICVK 261 (335)
Q Consensus 253 p~~C~~C~k 261 (335)
|-.|+.||.
T Consensus 2 p~~CpYCg~ 10 (102)
T PF11672_consen 2 PIICPYCGG 10 (102)
T ss_pred CcccCCCCC
Confidence 445555544
No 145
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=37.14 E-value=4.1 Score=37.47 Aligned_cols=48 Identities=27% Similarity=0.699 Sum_probs=38.0
Q ss_pred Ccceeccc--CCCccCCCHHHHHHHHh--cc------------------CCCCeeec-cCccccCHHHHHHH
Q 042026 270 PKMYVCKR--CNRKQFSVLSDLRTHEK--HC------------------GDSKWQCS-CGTTFSRKDKLMGH 318 (335)
Q Consensus 270 ~k~y~C~~--C~~k~F~~~~~L~~H~~--H~------------------g~~~~~C~-C~~~F~~~~~L~~H 318 (335)
.++|+|.+ |. +.++....|+.|.. |+ ..|+|+|+ |.++++.--.|+-|
T Consensus 347 ~~~~~~~vp~~~-~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCD-KAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcch-hhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 37899954 98 99999888888876 54 24789999 99998877666655
No 146
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=36.95 E-value=23 Score=22.99 Aligned_cols=9 Identities=56% Similarity=1.800 Sum_probs=4.4
Q ss_pred Ceeec-cCcc
Q 042026 300 KWQCS-CGTT 308 (335)
Q Consensus 300 ~~~C~-C~~~ 308 (335)
.|.|. ||..
T Consensus 37 r~~C~~Cgyt 46 (50)
T PRK00432 37 RWHCGKCGYT 46 (50)
T ss_pred cEECCCcCCE
Confidence 44555 5543
No 147
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=36.22 E-value=21 Score=23.06 Aligned_cols=8 Identities=50% Similarity=1.863 Sum_probs=4.2
Q ss_pred Ceeec-cCc
Q 042026 300 KWQCS-CGT 307 (335)
Q Consensus 300 ~~~C~-C~~ 307 (335)
.|.|- ||.
T Consensus 37 R~~CGkCgy 45 (51)
T COG1998 37 RWACGKCGY 45 (51)
T ss_pred eeEeccccc
Confidence 45555 553
No 148
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=35.54 E-value=19 Score=28.49 Aligned_cols=15 Identities=27% Similarity=0.521 Sum_probs=10.6
Q ss_pred ceecccCCCccCCCHH
Q 042026 272 MYVCKRCNRKQFSVLS 287 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~ 287 (335)
|++|..|| +.|...+
T Consensus 1 PH~Ct~Cg-~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCG-RVFEDGS 15 (131)
T ss_pred CcccCcCC-CCcCCCc
Confidence 56788888 7777554
No 149
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=34.99 E-value=20 Score=28.59 Aligned_cols=21 Identities=14% Similarity=0.409 Sum_probs=14.5
Q ss_pred eeeeCCcceecccCCCccCCCH
Q 042026 265 KRSHCPKMYVCKRCNRKQFSVL 286 (335)
Q Consensus 265 ~~h~~~k~y~C~~C~~k~F~~~ 286 (335)
....-+..|.|..|| ..|...
T Consensus 63 ~i~~~p~~~~C~~CG-~~~~~~ 83 (135)
T PRK03824 63 IFEEEEAVLKCRNCG-NEWSLK 83 (135)
T ss_pred EEEecceEEECCCCC-CEEecc
Confidence 344445678899999 887654
No 150
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.58 E-value=12 Score=31.53 Aligned_cols=8 Identities=25% Similarity=0.995 Sum_probs=5.0
Q ss_pred ceecccCC
Q 042026 272 MYVCKRCN 279 (335)
Q Consensus 272 ~y~C~~C~ 279 (335)
-|.|+.||
T Consensus 136 ~F~Cp~Cg 143 (178)
T PRK06266 136 GFRCPQCG 143 (178)
T ss_pred CCcCCCCC
Confidence 46666666
No 151
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=34.22 E-value=26 Score=27.27 Aligned_cols=27 Identities=22% Similarity=0.492 Sum_probs=23.1
Q ss_pred CCCcceecccccccccCcHHHHHHHHH
Q 042026 185 LAKYTHYCQVCGKGFKRDANLRMHMRA 211 (335)
Q Consensus 185 ~~~~~~~C~~C~k~f~~~~~L~~H~r~ 211 (335)
.+-..|.|-.|.+-|.....|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 355669999999999999999999865
No 152
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=34.13 E-value=8.8 Score=38.85 Aligned_cols=25 Identities=28% Similarity=0.647 Sum_probs=22.8
Q ss_pred cceecccCCCccCCCHHHHHHHHh-cc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HC 296 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~ 296 (335)
.-|.|..|+ |.|.....+..||+ |.
T Consensus 791 giFpCreC~-kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECG-KVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHH-HHHHHHhhhhHHHHHHH
Confidence 369999999 99999999999999 85
No 153
>PRK14873 primosome assembly protein PriA; Provisional
Probab=34.02 E-value=11 Score=38.72 Aligned_cols=25 Identities=16% Similarity=0.352 Sum_probs=18.8
Q ss_pred hcCCCCCCCcccccceeeeeeCCcceecccCC
Q 042026 248 HAKFQPLKSMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 248 h~~~~p~~C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|.......|..||... .++.|+.||
T Consensus 405 h~~~~~l~Ch~CG~~~-------~p~~Cp~Cg 429 (665)
T PRK14873 405 PSAGGTPRCRWCGRAA-------PDWRCPRCG 429 (665)
T ss_pred ecCCCeeECCCCcCCC-------cCccCCCCc
Confidence 5555678888888632 588999999
No 154
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=33.93 E-value=11 Score=22.72 Aligned_cols=10 Identities=20% Similarity=0.870 Sum_probs=5.0
Q ss_pred ccCCCCeeec
Q 042026 295 HCGDSKWQCS 304 (335)
Q Consensus 295 H~g~~~~~C~ 304 (335)
..|...|+|.
T Consensus 24 ~~G~qryrC~ 33 (36)
T PF03811_consen 24 PSGHQRYRCK 33 (36)
T ss_pred CCCCEeEecC
Confidence 4444455555
No 155
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=33.65 E-value=26 Score=23.19 Aligned_cols=31 Identities=23% Similarity=0.519 Sum_probs=21.9
Q ss_pred CCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccCcH
Q 042026 159 NIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKRDA 203 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~~~ 203 (335)
...|..|++.|....+ ...|+.||..+-+.-
T Consensus 5 ~~~C~~Cg~~~~~~dD--------------iVvCp~CgapyHR~C 35 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDD--------------IVVCPECGAPYHRDC 35 (54)
T ss_pred CccChhhCCcccCCCC--------------EEECCCCCCcccHHH
Confidence 3679999998864433 367999988765543
No 156
>PRK05978 hypothetical protein; Provisional
Probab=33.57 E-value=25 Score=28.53 Aligned_cols=29 Identities=17% Similarity=0.455 Sum_probs=14.0
Q ss_pred CCcccccceeeeeeCCcceecccCCCccCC
Q 042026 255 KSMICVKNHYKRSHCPKMYVCKRCNRKQFS 284 (335)
Q Consensus 255 ~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~ 284 (335)
+|+.|++.++-..--.-.-.|+.|| ..|.
T Consensus 35 rCP~CG~G~LF~g~Lkv~~~C~~CG-~~~~ 63 (148)
T PRK05978 35 RCPACGEGKLFRAFLKPVDHCAACG-EDFT 63 (148)
T ss_pred cCCCCCCCcccccccccCCCccccC-Cccc
Confidence 5666666544332222233566666 4443
No 157
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=33.54 E-value=44 Score=29.49 Aligned_cols=12 Identities=25% Similarity=0.960 Sum_probs=6.2
Q ss_pred ceecccCCCccCC
Q 042026 272 MYVCKRCNRKQFS 284 (335)
Q Consensus 272 ~y~C~~C~~k~F~ 284 (335)
.|.|..|+ ..|.
T Consensus 155 ef~C~~C~-h~F~ 166 (278)
T PF15135_consen 155 EFHCPKCR-HNFR 166 (278)
T ss_pred eeeccccc-ccch
Confidence 35555555 5554
No 158
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=33.38 E-value=32 Score=22.00 Aligned_cols=8 Identities=38% Similarity=1.481 Sum_probs=3.9
Q ss_pred ceecccCC
Q 042026 272 MYVCKRCN 279 (335)
Q Consensus 272 ~y~C~~C~ 279 (335)
.|.|+.||
T Consensus 20 ~~vC~~Cg 27 (52)
T smart00661 20 RFVCRKCG 27 (52)
T ss_pred EEECCcCC
Confidence 34455554
No 159
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.28 E-value=25 Score=24.91 Aligned_cols=31 Identities=29% Similarity=0.784 Sum_probs=18.4
Q ss_pred ceecccCCCccCCCHHHHHHHHhccCCCC-eeec-cCcccc
Q 042026 272 MYVCKRCNRKQFSVLSDLRTHEKHCGDSK-WQCS-CGTTFS 310 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~~~L~~H~~H~g~~~-~~C~-C~~~F~ 310 (335)
.|+|..|| ..| ++..|+. +-| -.|+ |+-.|+
T Consensus 12 ~Y~c~~cg-~~~----dvvq~~~---ddplt~ce~c~a~~k 44 (82)
T COG2331 12 SYECTECG-NRF----DVVQAMT---DDPLTTCEECGARLK 44 (82)
T ss_pred EEeecccc-hHH----HHHHhcc---cCccccChhhChHHH
Confidence 58888888 655 3444444 333 3577 876543
No 160
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=30.68 E-value=32 Score=32.85 Aligned_cols=35 Identities=29% Similarity=0.762 Sum_probs=23.8
Q ss_pred cceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCcc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTT 308 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~ 308 (335)
.-|.|+.|. +.|+....++-= -...-.|.|. |+..
T Consensus 127 ~~Y~Cp~C~-kkyt~Lea~~L~--~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 127 AGYVCPNCQ-KKYTSLEALQLL--DNETGEFHCENCGGE 162 (436)
T ss_pred ccccCCccc-cchhhhHHHHhh--cccCceEEEecCCCc
Confidence 678899998 888877665421 2223458888 8754
No 161
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=30.55 E-value=12 Score=23.06 Aligned_cols=38 Identities=16% Similarity=0.346 Sum_probs=19.3
Q ss_pred CCCCCCCcCCCcchhHHHHHHhhcCCCcceeccccccccc
Q 042026 161 PVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFK 200 (335)
Q Consensus 161 ~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~ 200 (335)
+|+.|+..-.... ....+..+.....-|.|..|+..|.
T Consensus 2 ~Cp~C~~~~a~~~--q~Q~RsaDE~mT~fy~C~~C~~~w~ 39 (40)
T smart00440 2 PCPKCGNREATFF--QLQTRSADEPMTVFYVCTKCGHRWR 39 (40)
T ss_pred cCCCCCCCeEEEE--EEcccCCCCCCeEEEEeCCCCCEeC
Confidence 5777764422111 1222222222334588988988765
No 162
>PF12907 zf-met2: Zinc-binding
Probab=30.48 E-value=9.6 Score=23.52 Aligned_cols=30 Identities=23% Similarity=0.324 Sum_probs=14.7
Q ss_pred eeec-cCccccC---HHHHHHHHh-hhcCCCCccc
Q 042026 301 WQCS-CGTTFSR---KDKLMGHVA-LFVGHTPAVN 330 (335)
Q Consensus 301 ~~C~-C~~~F~~---~~~L~~H~~-~H~gekp~~c 330 (335)
+.|. |..+|.. ...|..|.. .|....+..|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 4566 6654433 345666643 5554433333
No 163
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=29.83 E-value=22 Score=24.43 Aligned_cols=9 Identities=44% Similarity=1.076 Sum_probs=2.5
Q ss_pred ecccCCCccC
Q 042026 274 VCKRCNRKQF 283 (335)
Q Consensus 274 ~C~~C~~k~F 283 (335)
.|..|+ +.|
T Consensus 11 ~C~~C~-~~F 19 (69)
T PF01363_consen 11 NCMICG-KKF 19 (69)
T ss_dssp B-TTT---B-
T ss_pred cCcCcC-CcC
Confidence 345555 555
No 164
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=29.49 E-value=14 Score=33.54 Aligned_cols=29 Identities=34% Similarity=0.694 Sum_probs=17.1
Q ss_pred CcccccceeeeeeCCcceecccCCCccCCCHHHHHHH
Q 042026 256 SMICVKNHYKRSHCPKMYVCKRCNRKQFSVLSDLRTH 292 (335)
Q Consensus 256 C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H 292 (335)
|.+|++.. +.|+|++|+ -.|.+..-++.|
T Consensus 10 C~ic~vq~-------~~YtCPRCn-~~YCsl~CYr~h 38 (383)
T KOG4317|consen 10 CGICGVQK-------REYTCPRCN-LLYCSLKCYRNH 38 (383)
T ss_pred cccccccc-------ccccCCCCC-ccceeeeeecCC
Confidence 55555544 557888887 666555444433
No 165
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=29.41 E-value=35 Score=22.65 Aligned_cols=9 Identities=22% Similarity=0.807 Sum_probs=6.0
Q ss_pred cceecccCC
Q 042026 271 KMYVCKRCN 279 (335)
Q Consensus 271 k~y~C~~C~ 279 (335)
-.|.|+.||
T Consensus 13 v~~~Cp~cG 21 (55)
T PF13824_consen 13 VNFECPDCG 21 (55)
T ss_pred cCCcCCCCC
Confidence 456777777
No 166
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=28.70 E-value=35 Score=27.76 Aligned_cols=32 Identities=28% Similarity=0.886 Sum_probs=19.5
Q ss_pred cceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cCcc
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CGTT 308 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~~~ 308 (335)
-+|.|. |+ ..|-+. ++|-. -.|+ .|.|. |+-.
T Consensus 116 ~~Y~C~-C~-q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQ-QHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cC-Cccchh---hhcccccccc-eEEeccCCce
Confidence 478888 88 665432 34434 4455 68888 8754
No 167
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=28.20 E-value=52 Score=20.26 Aligned_cols=21 Identities=29% Similarity=0.566 Sum_probs=10.5
Q ss_pred eecccCCCccCC--CHHHHHHHHh
Q 042026 273 YVCKRCNRKQFS--VLSDLRTHEK 294 (335)
Q Consensus 273 y~C~~C~~k~F~--~~~~L~~H~~ 294 (335)
-+|+.|| -.|. ...+-+.|.+
T Consensus 14 ~~C~~Cg-M~Y~~~~~eD~~~H~~ 36 (41)
T PF13878_consen 14 TTCPTCG-MLYSPGSPEDEKLHKK 36 (41)
T ss_pred cCCCCCC-CEECCCCHHHHHHHHH
Confidence 3566666 4443 3444455554
No 168
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=28.09 E-value=36 Score=33.86 Aligned_cols=32 Identities=28% Similarity=0.514 Sum_probs=26.6
Q ss_pred cCCCcceecccccccccCcHHHHHHHHHhcCC
Q 042026 184 LLAKYTHYCQVCGKGFKRDANLRMHMRAHGDE 215 (335)
Q Consensus 184 ~~~~~~~~C~~C~k~f~~~~~L~~H~r~H~~~ 215 (335)
.....+..|..||.+|........||-.|.+.
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 34667889999999999999988888777554
No 169
>KOG0402 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=27.49 E-value=21 Score=25.74 Aligned_cols=30 Identities=23% Similarity=0.516 Sum_probs=14.5
Q ss_pred CCCCcccccceeeeeeCCcceecccCCCccCC
Q 042026 253 PLKSMICVKNHYKRSHCPKMYVCKRCNRKQFS 284 (335)
Q Consensus 253 p~~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~ 284 (335)
.|.|+.|||.-+++..- --|.|..|. +.|.
T Consensus 36 ky~CsfCGK~~vKR~Av-GiW~C~~C~-kv~a 65 (92)
T KOG0402|consen 36 KYTCSFCGKKTVKRKAV-GIWKCGSCK-KVVA 65 (92)
T ss_pred hhhhhhcchhhhhhhce-eEEecCCcc-ceec
Confidence 35566665544333222 245555555 5543
No 170
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=27.48 E-value=44 Score=30.44 Aligned_cols=46 Identities=22% Similarity=0.446 Sum_probs=29.4
Q ss_pred eecccCCCccCCCHHHHHHHHh--ccCCCCeeec-cCccccCHHHHHHHHhhh
Q 042026 273 YVCKRCNRKQFSVLSDLRTHEK--HCGDSKWQCS-CGTTFSRKDKLMGHVALF 322 (335)
Q Consensus 273 y~C~~C~~k~F~~~~~L~~H~~--H~g~~~~~C~-C~~~F~~~~~L~~H~~~H 322 (335)
--|-.|. -.|.-.. .|.. -+....|+|+ |...|-.-.....|..+|
T Consensus 363 ~~Cf~CQ-~~fp~~~---~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 363 THCFVCQ-GPFPKPP---VSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ccceecc-CCCCCCC---CCcccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 3455565 5554322 2322 2334568998 988888888888888877
No 171
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=26.92 E-value=34 Score=22.29 Aligned_cols=10 Identities=40% Similarity=1.142 Sum_probs=5.3
Q ss_pred cccCCCccCCC
Q 042026 275 CKRCNRKQFSV 285 (335)
Q Consensus 275 C~~C~~k~F~~ 285 (335)
|..|+ +.|..
T Consensus 5 C~~C~-~~F~~ 14 (57)
T cd00065 5 CMGCG-KPFTL 14 (57)
T ss_pred CcccC-ccccC
Confidence 55555 55544
No 172
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=26.85 E-value=47 Score=27.44 Aligned_cols=20 Identities=30% Similarity=0.625 Sum_probs=13.4
Q ss_pred cceecccCCCccCCCHHHHHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRT 291 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~ 291 (335)
.-|.|+.|| +.|..-+++.+
T Consensus 129 ~f~~C~~Cg-kiYW~GsHw~~ 148 (165)
T COG1656 129 EFYRCPKCG-KIYWKGSHWRR 148 (165)
T ss_pred ceeECCCCc-ccccCchHHHH
Confidence 456788888 77776665543
No 173
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=26.70 E-value=40 Score=26.21 Aligned_cols=22 Identities=23% Similarity=0.534 Sum_probs=14.9
Q ss_pred CCeeec-cCccccCHHHHHHHHh
Q 042026 299 SKWQCS-CGTTFSRKDKLMGHVA 320 (335)
Q Consensus 299 ~~~~C~-C~~~F~~~~~L~~H~~ 320 (335)
..|.|- |.+-|.+...|..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 346666 7777777777777755
No 174
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=26.63 E-value=14 Score=20.86 Aligned_cols=10 Identities=40% Similarity=1.222 Sum_probs=5.5
Q ss_pred eecccCCCccC
Q 042026 273 YVCKRCNRKQF 283 (335)
Q Consensus 273 y~C~~C~~k~F 283 (335)
|.|-.|+ +.|
T Consensus 1 ~sCiDC~-~~F 10 (28)
T PF08790_consen 1 FSCIDCS-KDF 10 (28)
T ss_dssp EEETTTT-EEE
T ss_pred CeeecCC-CCc
Confidence 3455565 555
No 175
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=26.29 E-value=32 Score=26.56 Aligned_cols=41 Identities=12% Similarity=0.144 Sum_probs=26.1
Q ss_pred CCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccC
Q 042026 159 NIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKR 201 (335)
Q Consensus 159 ~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~ 201 (335)
...|+.|+..-. ...+.+.+..+.....-|.|..||.+|..
T Consensus 72 ~~~CpkCg~~ea--~y~~~QtRsaDEp~T~Fy~C~~Cg~~wre 112 (113)
T COG1594 72 KEKCPKCGNKEA--YYWQLQTRSADEPETRFYKCTRCGYRWRE 112 (113)
T ss_pred cccCCCCCCcee--EEEeeehhccCCCceEEEEecccCCEeec
Confidence 467888886533 23333444444445556999999998763
No 176
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=25.93 E-value=52 Score=30.25 Aligned_cols=29 Identities=34% Similarity=0.848 Sum_probs=21.1
Q ss_pred cceecccCCCccCCCHHHHHHHHh-ccCCCCeeec-cC
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK-HCGDSKWQCS-CG 306 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~-H~g~~~~~C~-C~ 306 (335)
-.|.|..|. ..|-.--+.-.|.. | .|+ |.
T Consensus 344 ~~y~C~~Ck-~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 344 GRYRCESCK-NVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred CcEEchhcc-ceeeccchHHHHhhhh------cCCCcC
Confidence 468888888 88877777777766 5 566 64
No 177
>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=25.82 E-value=24 Score=32.11 Aligned_cols=9 Identities=33% Similarity=0.874 Sum_probs=5.6
Q ss_pred CCeeec-cCc
Q 042026 299 SKWQCS-CGT 307 (335)
Q Consensus 299 ~~~~C~-C~~ 307 (335)
+-+.|. |+.
T Consensus 237 rve~C~~C~~ 246 (290)
T PF04216_consen 237 RVEVCESCGS 246 (290)
T ss_dssp EEEEETTTTE
T ss_pred EEEECCcccc
Confidence 446677 774
No 178
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=25.78 E-value=24 Score=27.06 Aligned_cols=14 Identities=21% Similarity=0.387 Sum_probs=8.6
Q ss_pred cceecccccccccC
Q 042026 188 YTHYCQVCGKGFKR 201 (335)
Q Consensus 188 ~~~~C~~C~k~f~~ 201 (335)
....|..|+..|..
T Consensus 24 ~~~~C~~Ck~~~~v 37 (116)
T KOG2907|consen 24 STVLCIRCKIEYPV 37 (116)
T ss_pred CceEeccccccCCH
Confidence 33557777776653
No 179
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.48 E-value=34 Score=32.66 Aligned_cols=36 Identities=11% Similarity=0.175 Sum_probs=23.2
Q ss_pred CCCCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccc
Q 042026 157 NANIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGK 197 (335)
Q Consensus 157 ~~~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k 197 (335)
..+|.|+.|.+.|..+..+..-- -....|.|..|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~~-----~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLLD-----NETGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHHhhc-----ccCceEEEecCCC
Confidence 34488888888887666554321 1245688888874
No 180
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=25.25 E-value=1.1e+02 Score=18.60 Aligned_cols=19 Identities=21% Similarity=0.494 Sum_probs=10.4
Q ss_pred cceecccCCCccCCCHHHHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLR 290 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~ 290 (335)
..+.|..|+ -.|.....|.
T Consensus 18 ~id~C~~C~-G~W~d~~el~ 36 (41)
T PF13453_consen 18 EIDVCPSCG-GIWFDAGELE 36 (41)
T ss_pred EEEECCCCC-eEEccHHHHH
Confidence 345666666 5555555444
No 181
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=25.13 E-value=34 Score=31.32 Aligned_cols=25 Identities=32% Similarity=0.603 Sum_probs=10.3
Q ss_pred CCCccCCCHHHHHHHHhccCCCCeeec
Q 042026 278 CNRKQFSVLSDLRTHEKHCGDSKWQCS 304 (335)
Q Consensus 278 C~~k~F~~~~~L~~H~~H~g~~~~~C~ 304 (335)
|. +.|..... ..|.+.+.-+||.|+
T Consensus 116 C~-~~~~Y~~~-~~HE~~C~f~~~~CP 140 (299)
T KOG3002|consen 116 CT-KSFPYGEK-SKHEKVCEFRPCSCP 140 (299)
T ss_pred Cc-eeeccccc-cccccccccCCcCCC
Confidence 44 44444443 334442222445554
No 182
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=25.03 E-value=57 Score=19.77 Aligned_cols=11 Identities=36% Similarity=1.192 Sum_probs=7.2
Q ss_pred ceecccCCCccC
Q 042026 272 MYVCKRCNRKQF 283 (335)
Q Consensus 272 ~y~C~~C~~k~F 283 (335)
-|.|..|| +.|
T Consensus 28 fy~C~~C~-~~w 38 (39)
T PF01096_consen 28 FYVCCNCG-HRW 38 (39)
T ss_dssp EEEESSST-EEE
T ss_pred EEEeCCCC-Cee
Confidence 47777777 554
No 183
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=24.77 E-value=33 Score=32.00 Aligned_cols=9 Identities=33% Similarity=1.257 Sum_probs=3.7
Q ss_pred cceecccCC
Q 042026 271 KMYVCKRCN 279 (335)
Q Consensus 271 k~y~C~~C~ 279 (335)
+-|+|..|+
T Consensus 284 RFFkC~~C~ 292 (344)
T PF09332_consen 284 RFFKCKDCG 292 (344)
T ss_dssp EEEE-T-TS
T ss_pred eeEECCCCC
Confidence 345555555
No 184
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=24.77 E-value=71 Score=18.89 Aligned_cols=24 Identities=21% Similarity=0.455 Sum_probs=11.0
Q ss_pred CcccccceeeeeeCCcceecccCC
Q 042026 256 SMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 256 C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|+.|+.--+..........|..|+
T Consensus 4 Cp~C~nlL~p~~~~~~~~~C~~C~ 27 (35)
T PF02150_consen 4 CPECGNLLYPKEDKEKRVACRTCG 27 (35)
T ss_dssp ETTTTSBEEEEEETTTTEEESSSS
T ss_pred CCCCCccceEcCCCccCcCCCCCC
Confidence 444444333333333333676676
No 185
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=24.56 E-value=41 Score=33.46 Aligned_cols=27 Identities=30% Similarity=0.570 Sum_probs=20.2
Q ss_pred CCCCeeec-cCccccCHHHHHHHHhhhc
Q 042026 297 GDSKWQCS-CGTTFSRKDKLMGHVALFV 323 (335)
Q Consensus 297 g~~~~~C~-C~~~F~~~~~L~~H~~~H~ 323 (335)
...|-.|. ||.+|.+.....+||-+|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 34567888 8888888877777777774
No 186
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.33 E-value=73 Score=21.57 Aligned_cols=9 Identities=22% Similarity=0.936 Sum_probs=4.3
Q ss_pred Ceeec-cCcc
Q 042026 300 KWQCS-CGTT 308 (335)
Q Consensus 300 ~~~C~-C~~~ 308 (335)
.|.|+ |..+
T Consensus 31 tymC~eC~~R 40 (68)
T COG4896 31 TYMCPECEHR 40 (68)
T ss_pred eEechhhHhh
Confidence 35555 5433
No 187
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=23.86 E-value=26 Score=29.88 Aligned_cols=28 Identities=14% Similarity=0.329 Sum_probs=0.0
Q ss_pred eeCCcceecccCCCccCCCHHHHHHHHh
Q 042026 267 SHCPKMYVCKRCNRKQFSVLSDLRTHEK 294 (335)
Q Consensus 267 h~~~k~y~C~~C~~k~F~~~~~L~~H~~ 294 (335)
|--.+.|.|.+||-..|.-+..+.+|-.
T Consensus 96 hGL~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 96 HGLGVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp ----------------------------
T ss_pred hCCCCeeeeEeCCCcceecHHHHHHhcC
Confidence 3344778888888556666666667654
No 188
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.61 E-value=24 Score=36.01 Aligned_cols=15 Identities=33% Similarity=0.645 Sum_probs=10.2
Q ss_pred ecccccccccCcHHH
Q 042026 191 YCQVCGKGFKRDANL 205 (335)
Q Consensus 191 ~C~~C~k~f~~~~~L 205 (335)
.|..||-+|+--..|
T Consensus 125 ~CT~CGPRfTIi~al 139 (750)
T COG0068 125 NCTNCGPRFTIIEAL 139 (750)
T ss_pred ccCCCCcceeeeccC
Confidence 488888888755443
No 189
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.79 E-value=58 Score=25.80 Aligned_cols=14 Identities=43% Similarity=1.054 Sum_probs=8.5
Q ss_pred cceecccCCCccCCC
Q 042026 271 KMYVCKRCNRKQFSV 285 (335)
Q Consensus 271 k~y~C~~C~~k~F~~ 285 (335)
..|+|..|+ +.|..
T Consensus 52 qRyrC~~C~-~tf~~ 65 (129)
T COG3677 52 QRYKCKSCG-STFTV 65 (129)
T ss_pred cccccCCcC-cceee
Confidence 356666666 66653
No 191
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=22.76 E-value=47 Score=27.51 Aligned_cols=24 Identities=33% Similarity=0.516 Sum_probs=20.5
Q ss_pred CcceecccccccccCcHHHHHHHH
Q 042026 187 KYTHYCQVCGKGFKRDANLRMHMR 210 (335)
Q Consensus 187 ~~~~~C~~C~k~f~~~~~L~~H~r 210 (335)
..-|.|.+|+-.|+...++..|+.
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cCceeeeecceeehhhHHHHHHhc
Confidence 345999999999999999988873
No 192
>PRK04023 DNA polymerase II large subunit; Validated
Probab=22.55 E-value=78 Score=33.85 Aligned_cols=9 Identities=11% Similarity=0.323 Sum_probs=4.5
Q ss_pred CCCcccccc
Q 042026 254 LKSMICVKN 262 (335)
Q Consensus 254 ~~C~~C~k~ 262 (335)
+.|+.||..
T Consensus 639 frCP~CG~~ 647 (1121)
T PRK04023 639 RRCPFCGTH 647 (1121)
T ss_pred ccCCCCCCC
Confidence 445555543
No 193
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=22.52 E-value=40 Score=19.27 Aligned_cols=13 Identities=31% Similarity=0.968 Sum_probs=5.7
Q ss_pred cceecccCCCccCC
Q 042026 271 KMYVCKRCNRKQFS 284 (335)
Q Consensus 271 k~y~C~~C~~k~F~ 284 (335)
..|.|+.|+ ..+-
T Consensus 12 ~kY~Cp~C~-~~~C 24 (30)
T PF04438_consen 12 AKYRCPRCG-ARYC 24 (30)
T ss_dssp ESEE-TTT---EES
T ss_pred CEEECCCcC-Ccee
Confidence 456666666 4443
No 194
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=22.51 E-value=90 Score=18.65 Aligned_cols=22 Identities=23% Similarity=0.493 Sum_probs=10.2
Q ss_pred CcccccceeeeeeCCcceecccCC
Q 042026 256 SMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 256 C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|..|+.. .....+-.|-|..||
T Consensus 11 C~~C~~~--~~~~~dG~~yC~~cG 32 (36)
T PF11781_consen 11 CPVCGSR--WFYSDDGFYYCDRCG 32 (36)
T ss_pred CCCCCCe--EeEccCCEEEhhhCc
Confidence 5555444 233333445555555
No 195
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=22.01 E-value=20 Score=30.46 Aligned_cols=10 Identities=30% Similarity=0.697 Sum_probs=5.2
Q ss_pred eeec-cCcccc
Q 042026 301 WQCS-CGTTFS 310 (335)
Q Consensus 301 ~~C~-C~~~F~ 310 (335)
+.|. ||.++.
T Consensus 44 ~~C~~CgYR~~ 54 (201)
T COG1779 44 GVCERCGYRST 54 (201)
T ss_pred EEccccCCccc
Confidence 4455 555543
No 196
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=21.90 E-value=59 Score=17.25 Aligned_cols=8 Identities=38% Similarity=1.281 Sum_probs=4.9
Q ss_pred eccccccc
Q 042026 191 YCQVCGKG 198 (335)
Q Consensus 191 ~C~~C~k~ 198 (335)
+|+.||..
T Consensus 15 fC~~CG~~ 22 (23)
T PF13240_consen 15 FCPNCGTP 22 (23)
T ss_pred chhhhCCc
Confidence 47777653
No 197
>PF08738 Gon7: Gon7 family; InterPro: IPR014849 In Saccharomyces cerevisiae Gon7 is a member of the KEOPS protein complex. A protein complex proposed to be involved in transcription and promoting telomere uncapping and telomere elongation [].
Probab=21.83 E-value=1.8e+02 Score=22.13 Aligned_cols=30 Identities=17% Similarity=0.128 Sum_probs=24.2
Q ss_pred chhhhhhhhhHHHHHHHHHHHHHHHHhcCC
Q 042026 17 NVSSLLYSVSFLKQKVHQLQSVITILVSQD 46 (335)
Q Consensus 17 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 46 (335)
+.......|+-|+..|-.||+.|..++..+
T Consensus 48 ~s~~K~t~L~~LR~~lt~lQddIN~fLTeR 77 (103)
T PF08738_consen 48 PSEDKDTYLSELRAQLTTLQDDINEFLTER 77 (103)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566789999999999999999887544
No 198
>PHA02998 RNA polymerase subunit; Provisional
Probab=21.76 E-value=31 Score=28.77 Aligned_cols=42 Identities=26% Similarity=0.349 Sum_probs=25.5
Q ss_pred CCCCCCCCCCcCCCcchhHHHHHHhhcCCCcceecccccccccC
Q 042026 158 ANIPVAENGESFSEINGDIIEVDAVDLLAKYTHYCQVCGKGFKR 201 (335)
Q Consensus 158 ~~~~c~~c~~~~~~~~~~~~h~~~~~~~~~~~~~C~~C~k~f~~ 201 (335)
....|+.|+..-. .....+.+..+.....-|.|..||+.|.-
T Consensus 142 t~v~CPkCg~~~A--~f~qlQTRSADEPmT~FYkC~~CG~~wkp 183 (195)
T PHA02998 142 YNTPCPNCKSKNT--TPMMIQTRAADEPPLVRHACRDCKKHFKP 183 (195)
T ss_pred cCCCCCCCCCCce--EEEEEeeccCCCCceEEEEcCCCCCccCC
Confidence 4578998885432 22333444444334455899999988764
No 199
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=21.75 E-value=70 Score=19.84 Aligned_cols=10 Identities=20% Similarity=0.364 Sum_probs=5.5
Q ss_pred CCCCcccccc
Q 042026 253 PLKSMICVKN 262 (335)
Q Consensus 253 p~~C~~C~k~ 262 (335)
|..|+.||..
T Consensus 2 ~~~Cp~Cg~~ 11 (47)
T PF14690_consen 2 PPRCPHCGSP 11 (47)
T ss_pred CccCCCcCCC
Confidence 4456666543
No 200
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=21.74 E-value=75 Score=20.37 Aligned_cols=22 Identities=23% Similarity=0.507 Sum_probs=10.8
Q ss_pred CCCcccccceeeeeeCCcceecccCC
Q 042026 254 LKSMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 254 ~~C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|+|..|++..+. ...|.|..|.
T Consensus 1 y~Cd~C~~~pI~----G~R~~C~~C~ 22 (48)
T cd02341 1 FKCDSCGIEPIP----GTRYHCSECD 22 (48)
T ss_pred CCCCCCCCCccc----cceEECCCCC
Confidence 345555543322 2456666665
No 201
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=21.43 E-value=82 Score=25.40 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=13.5
Q ss_pred cceecccCCCccCCCHHHHHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRT 291 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~ 291 (335)
.-|.|+.|| |.|..-+++++
T Consensus 123 ~f~~C~~C~-kiyW~GsH~~~ 142 (147)
T PF01927_consen 123 EFWRCPGCG-KIYWEGSHWRR 142 (147)
T ss_pred eEEECCCCC-CEecccccHHH
Confidence 467788888 77776665543
No 202
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=21.31 E-value=1.1e+02 Score=23.59 Aligned_cols=20 Identities=10% Similarity=0.368 Sum_probs=12.8
Q ss_pred cceecccCCCccCCCHHHHHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRT 291 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~ 291 (335)
.-|.|+.|| ..|........
T Consensus 30 ~~~~C~~CG-e~~~~~e~~~~ 49 (127)
T TIGR03830 30 PGWYCPACG-EELLDPEESKR 49 (127)
T ss_pred eeeECCCCC-CEEEcHHHHHH
Confidence 457788888 66666554443
No 203
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=21.28 E-value=70 Score=24.63 Aligned_cols=32 Identities=19% Similarity=0.380 Sum_probs=19.1
Q ss_pred eeeeeCCcceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCc
Q 042026 264 YKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGT 307 (335)
Q Consensus 264 ~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~ 307 (335)
+.+..-+-.+.|..|| ..|... ...|.|+ ||.
T Consensus 62 L~I~~vp~~~~C~~Cg-~~~~~~-----------~~~~~CP~Cgs 94 (113)
T PRK12380 62 LHIVYKPAQAWCWDCS-QVVEIH-----------QHDAQCPHCHG 94 (113)
T ss_pred EEEEeeCcEEEcccCC-CEEecC-----------CcCccCcCCCC
Confidence 3444445567888888 666442 2345688 874
No 204
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=21.21 E-value=91 Score=21.02 Aligned_cols=30 Identities=23% Similarity=0.375 Sum_probs=18.1
Q ss_pred CCcccccceeeeeeCCcceecccCCCccCCC
Q 042026 255 KSMICVKNHYKRSHCPKMYVCKRCNRKQFSV 285 (335)
Q Consensus 255 ~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~ 285 (335)
+|+.|+.--.--.|....-.|..|| .....
T Consensus 13 kCp~C~n~q~vFsha~t~V~C~~Cg-~~L~~ 42 (59)
T PRK00415 13 KCPDCGNEQVVFSHASTVVRCLVCG-KTLAE 42 (59)
T ss_pred ECCCCCCeEEEEecCCcEEECcccC-CCccc
Confidence 5666766544444555667777777 55443
No 205
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=21.15 E-value=25 Score=32.14 Aligned_cols=31 Identities=23% Similarity=0.505 Sum_probs=18.4
Q ss_pred CCcccccceeeeeeCCcceecccCCCccCCCH
Q 042026 255 KSMICVKNHYKRSHCPKMYVCKRCNRKQFSVL 286 (335)
Q Consensus 255 ~C~~C~k~h~~~h~~~k~y~C~~C~~k~F~~~ 286 (335)
+|+.|++..+...-.+..|.|+.|+ ..|.-.
T Consensus 40 kc~~C~~~~~~~~l~~~~~vcp~c~-~h~rlt 70 (296)
T CHL00174 40 QCENCYGLNYKKFLKSKMNICEQCG-YHLKMS 70 (296)
T ss_pred ECCCccchhhHHHHHHcCCCCCCCC-CCcCCC
Confidence 4666665544444444567777787 666533
No 206
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=21.08 E-value=17 Score=36.98 Aligned_cols=20 Identities=25% Similarity=0.514 Sum_probs=12.7
Q ss_pred cceecccCCCccCCCHHHHHH
Q 042026 271 KMYVCKRCNRKQFSVLSDLRT 291 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~ 291 (335)
|.-+||.|+ .+|.....++.
T Consensus 677 RqRKCP~Cn-~aFganDv~~I 696 (698)
T KOG0978|consen 677 RQRKCPKCN-AAFGANDVHRI 696 (698)
T ss_pred hcCCCCCCC-CCCCccccccc
Confidence 445678888 78876554443
No 207
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=21.06 E-value=58 Score=26.41 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=10.6
Q ss_pred CCCcccccceeeeeeCCcceecccCC
Q 042026 254 LKSMICVKNHYKRSHCPKMYVCKRCN 279 (335)
Q Consensus 254 ~~C~~C~k~h~~~h~~~k~y~C~~C~ 279 (335)
|.|..||....-.+. ..--.|+.||
T Consensus 113 l~C~~Cg~~~~~~~~-~~l~~Cp~C~ 137 (146)
T PF07295_consen 113 LVCENCGHEVELTHP-ERLPPCPKCG 137 (146)
T ss_pred EecccCCCEEEecCC-CcCCCCCCCC
Confidence 455555543332332 2233455555
No 208
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=21.02 E-value=66 Score=31.35 Aligned_cols=27 Identities=30% Similarity=0.698 Sum_probs=24.2
Q ss_pred cceecccCCCccCCCHHHHHHHHh--ccCC
Q 042026 271 KMYVCKRCNRKQFSVLSDLRTHEK--HCGD 298 (335)
Q Consensus 271 k~y~C~~C~~k~F~~~~~L~~H~~--H~g~ 298 (335)
+-+.|+.|. +.|.....+..|+. |.+.
T Consensus 56 rFWiCp~Cs-kkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 56 RFWICPRCS-KKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eEeeCCccc-ceeCCHHHHHHHHHHhhhhh
Confidence 568999999 99999999999998 8765
No 209
>smart00868 zf-AD Zinc-finger associated domain (zf-AD). The zf-AD domain, also known as ZAD, forms an atypical treble-cleft-like zinc co-ordinating fold. The zf-AD domain is thought to be involved in mediating dimer formation, but does not bind to DNA.
Probab=20.61 E-value=9.4 Score=25.74 Aligned_cols=61 Identities=16% Similarity=0.093 Sum_probs=31.3
Q ss_pred HHHHhcCCccccccccCCCCCCCCCCCccccccccccCCCCCccccccccccccchhhhhhh
Q 042026 66 QEIILTASSLMVTCQQMSPPPASTSGTNNITTNEISQLDPNNNQEISSGLQGCYNFSEAFDT 127 (335)
Q Consensus 66 ~~i~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~e~~~~ 127 (335)
|++|......+.+++.... ......+....+..+...+..|..+|..|....+....+...
T Consensus 2 Cr~C~~~~~~~~~~~~~~~-~~~~~~i~~~~~~~~~~~~~~p~~iC~~C~~~l~~~~~f~~~ 62 (73)
T smart00868 2 CRLCLSEGENLVSIFDESS-PSLAEMIEECTGIEIEPDDDLPKKICGDCLEKLESFYKFRER 62 (73)
T ss_pred ccccCCCCCCcccccCCCC-ccHHHHHHHHcCeeccCCCCCcHHHHHHHHHHHHHHHHHHHH
Confidence 4555444433334333221 122223333344444444457788999988777766665444
No 210
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=20.41 E-value=55 Score=19.91 Aligned_cols=14 Identities=21% Similarity=0.638 Sum_probs=11.7
Q ss_pred ceecccCCCccCCCH
Q 042026 272 MYVCKRCNRKQFSVL 286 (335)
Q Consensus 272 ~y~C~~C~~k~F~~~ 286 (335)
||.|..|+ +.|-..
T Consensus 12 ~f~C~~C~-~~FC~~ 25 (39)
T smart00154 12 GFKCRHCG-NLFCGE 25 (39)
T ss_pred CeECCccC-Cccccc
Confidence 88999999 888654
No 211
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=20.38 E-value=65 Score=31.39 Aligned_cols=27 Identities=22% Similarity=0.544 Sum_probs=22.5
Q ss_pred CCCeeec-cCccccCHHHHHHHHh-hhcC
Q 042026 298 DSKWQCS-CGTTFSRKDKLMGHVA-LFVG 324 (335)
Q Consensus 298 ~~~~~C~-C~~~F~~~~~L~~H~~-~H~g 324 (335)
-+-|.|+ |.+.|.....+..|+. .|-+
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 3558899 9999999999999976 6654
No 212
>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=20.16 E-value=99 Score=23.86 Aligned_cols=35 Identities=17% Similarity=0.436 Sum_probs=21.7
Q ss_pred ceeeeeeCCcceecccCCCccCCCHHHHHHHHhccCCCCeeec-cCcc
Q 042026 262 NHYKRSHCPKMYVCKRCNRKQFSVLSDLRTHEKHCGDSKWQCS-CGTT 308 (335)
Q Consensus 262 ~h~~~h~~~k~y~C~~C~~k~F~~~~~L~~H~~H~g~~~~~C~-C~~~ 308 (335)
+-+....-+-.+.|..|| +.|.... ..|.|+ ||..
T Consensus 60 a~L~I~~~p~~~~C~~Cg-~~~~~~~-----------~~~~CP~Cgs~ 95 (115)
T TIGR00100 60 AKLNIEDEPVECECEDCS-EEVSPEI-----------DLYRCPKCHGI 95 (115)
T ss_pred CEEEEEeeCcEEEcccCC-CEEecCC-----------cCccCcCCcCC
Confidence 444555555678888888 7765432 236788 8753
No 213
>PHA01819 hypothetical protein
Probab=20.11 E-value=72 Score=23.58 Aligned_cols=28 Identities=25% Similarity=0.509 Sum_probs=20.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHhcCCCCCC
Q 042026 23 YSVSFLKQKVHQLQSVITILVSQDHHQP 50 (335)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 50 (335)
+.--+|+|+|..|.+.+-.+++.+-++|
T Consensus 70 fdpvvleqri~sleqq~ttflssq~qqp 97 (129)
T PHA01819 70 FDPVVLEQRIASLEQQVTTFLSSQMQQP 97 (129)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 3455899999988888887776654444
Done!