Query psy11693
Match_columns 579
No_of_seqs 735 out of 3535
Neff 9.8
Searched_HMMs 46136
Date Fri Aug 16 16:28:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11693hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 1.3E-30 2.9E-35 235.6 7.0 135 314-450 128-265 (279)
2 KOG1074|consensus 100.0 3.2E-31 7E-36 270.2 3.3 228 188-458 605-937 (958)
3 KOG1074|consensus 100.0 7.6E-30 1.6E-34 260.2 6.5 205 259-464 605-915 (958)
4 KOG2462|consensus 100.0 3.6E-29 7.8E-34 226.4 6.8 136 285-422 127-265 (279)
5 KOG3608|consensus 99.9 3.7E-27 8.1E-32 217.7 13.9 282 134-456 69-380 (467)
6 KOG3608|consensus 99.9 4.3E-27 9.4E-32 217.3 8.4 242 106-392 69-372 (467)
7 KOG3623|consensus 99.9 4.3E-25 9.3E-30 221.5 7.2 77 373-449 895-971 (1007)
8 KOG3623|consensus 99.9 3.1E-24 6.7E-29 215.4 10.1 105 105-209 209-330 (1007)
9 KOG3576|consensus 99.7 6.5E-19 1.4E-23 151.0 3.0 112 343-454 116-238 (267)
10 KOG3576|consensus 99.7 5.1E-18 1.1E-22 145.6 2.9 115 314-428 115-240 (267)
11 PLN03086 PRLI-interacting fact 99.4 8.3E-13 1.8E-17 135.8 8.5 102 345-453 454-565 (567)
12 PLN03086 PRLI-interacting fact 99.3 3.7E-12 8.1E-17 131.0 9.7 146 259-424 407-564 (567)
13 PHA00733 hypothetical protein 99.2 3.2E-11 6.9E-16 101.3 5.1 84 369-454 37-125 (128)
14 PHA00733 hypothetical protein 99.1 1.5E-10 3.3E-15 97.3 5.0 81 342-425 38-124 (128)
15 KOG3993|consensus 98.9 1.3E-10 2.8E-15 111.5 0.1 208 104-337 265-479 (500)
16 PHA02768 hypothetical protein; 98.8 1.1E-09 2.4E-14 74.9 1.7 43 400-444 5-47 (55)
17 KOG3993|consensus 98.8 2.9E-10 6.3E-15 109.2 -2.2 196 258-454 266-484 (500)
18 PHA02768 hypothetical protein; 98.8 2E-09 4.3E-14 73.7 1.5 43 372-416 5-47 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.6 4.3E-08 9.3E-13 57.3 2.5 24 416-439 2-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.6 3.7E-08 8.1E-13 57.5 2.0 26 387-412 1-26 (26)
21 PHA00616 hypothetical protein 98.3 2.9E-07 6.3E-12 59.9 2.2 34 400-433 1-34 (44)
22 PHA00616 hypothetical protein 98.3 3.5E-07 7.6E-12 59.5 2.0 34 372-405 1-34 (44)
23 PHA00732 hypothetical protein 98.0 2.5E-06 5.4E-11 64.7 2.4 46 372-423 1-47 (79)
24 PHA00732 hypothetical protein 98.0 3.8E-06 8.2E-11 63.8 2.5 21 107-127 2-22 (79)
25 PF05605 zf-Di19: Drought indu 97.9 1.4E-05 3.1E-10 56.3 4.3 50 401-453 3-54 (54)
26 PF05605 zf-Di19: Drought indu 97.7 6.9E-05 1.5E-09 52.8 4.3 49 373-424 3-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.6 3.5E-05 7.5E-10 43.6 2.0 20 402-421 2-21 (23)
28 PF00096 zf-C2H2: Zinc finger, 97.5 6.8E-05 1.5E-09 42.4 1.9 22 107-128 1-22 (23)
29 COG5189 SFP1 Putative transcri 97.4 2.7E-05 5.9E-10 72.6 -0.2 25 425-449 395-419 (423)
30 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00015 3.1E-09 41.4 2.3 23 401-423 1-23 (24)
31 KOG2231|consensus 97.4 0.00028 6E-09 74.5 5.9 106 136-254 117-236 (669)
32 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00017 3.8E-09 41.1 2.4 24 429-452 1-24 (24)
33 KOG1146|consensus 97.3 7.6E-05 1.7E-09 82.9 1.4 155 167-339 443-641 (1406)
34 KOG2231|consensus 97.3 0.00042 9.1E-09 73.2 6.7 51 261-320 184-240 (669)
35 COG5189 SFP1 Putative transcri 97.3 7.8E-05 1.7E-09 69.7 0.5 70 314-393 347-419 (423)
36 PF12756 zf-C2H2_2: C2H2 type 97.2 0.00018 3.9E-09 58.3 2.3 71 108-182 1-72 (100)
37 PF12756 zf-C2H2_2: C2H2 type 97.2 0.00024 5.3E-09 57.5 2.7 24 428-451 50-73 (100)
38 PF13912 zf-C2H2_6: C2H2-type 97.1 0.00025 5.3E-09 41.9 1.2 25 428-452 1-25 (27)
39 PF13912 zf-C2H2_6: C2H2-type 97.0 0.0003 6.6E-09 41.5 1.3 25 400-424 1-25 (27)
40 KOG1146|consensus 96.8 0.00055 1.2E-08 76.4 2.2 122 318-455 1230-1355(1406)
41 COG5048 FOG: Zn-finger [Genera 96.6 0.00093 2E-08 70.3 2.1 149 287-435 288-453 (467)
42 PF13909 zf-H2C2_5: C2H2-type 96.4 0.0023 5E-08 36.5 2.0 23 429-452 1-23 (24)
43 COG5236 Uncharacterized conser 96.3 0.0034 7.3E-08 59.7 3.7 33 260-295 152-186 (493)
44 smart00355 ZnF_C2H2 zinc finge 96.3 0.0036 7.9E-08 36.1 2.5 20 403-422 3-22 (26)
45 COG5236 Uncharacterized conser 96.3 0.0043 9.3E-08 59.0 4.0 131 135-281 152-303 (493)
46 PF09237 GAGA: GAGA factor; I 96.2 0.0054 1.2E-07 41.0 3.1 25 428-452 24-48 (54)
47 PF09237 GAGA: GAGA factor; I 96.2 0.0046 9.9E-08 41.3 2.7 33 396-428 20-52 (54)
48 PF13909 zf-H2C2_5: C2H2-type 96.0 0.0044 9.6E-08 35.3 1.8 23 401-424 1-23 (24)
49 smart00355 ZnF_C2H2 zinc finge 96.0 0.0058 1.2E-07 35.2 2.4 24 373-396 1-24 (26)
50 PRK04860 hypothetical protein; 96.0 0.0029 6.2E-08 55.4 1.2 36 400-439 119-154 (160)
51 KOG3598|consensus 95.9 0.0019 4.1E-08 72.0 -0.2 19 557-575 2186-2204(2220)
52 KOG2785|consensus 95.8 0.01 2.2E-07 57.8 4.3 178 259-451 3-243 (390)
53 PF12874 zf-met: Zinc-finger o 95.7 0.0063 1.4E-07 35.0 1.6 22 107-128 1-22 (25)
54 PRK04860 hypothetical protein; 95.7 0.003 6.5E-08 55.3 0.2 37 372-412 119-155 (160)
55 PF12874 zf-met: Zinc-finger o 95.7 0.0057 1.2E-07 35.2 1.2 19 402-420 2-20 (25)
56 COG5048 FOG: Zn-finger [Genera 95.6 0.0052 1.1E-07 64.6 1.8 153 258-411 288-457 (467)
57 KOG2785|consensus 94.9 0.071 1.5E-06 52.1 6.6 77 106-182 3-90 (390)
58 KOG3598|consensus 94.7 0.069 1.5E-06 60.3 6.7 15 13-27 1395-1409(2220)
59 PF12171 zf-C2H2_jaz: Zinc-fin 94.6 0.023 5E-07 33.3 1.6 22 317-338 2-23 (27)
60 KOG2482|consensus 94.4 0.1 2.2E-06 50.0 6.4 70 106-182 144-217 (423)
61 PF12171 zf-C2H2_jaz: Zinc-fin 94.2 0.021 4.5E-07 33.5 0.9 21 373-393 2-22 (27)
62 KOG2482|consensus 94.1 0.074 1.6E-06 50.9 4.8 150 301-450 128-356 (423)
63 KOG1883|consensus 93.7 0.091 2E-06 58.2 5.0 26 552-577 1483-1508(1517)
64 PF13913 zf-C2HC_2: zinc-finge 92.1 0.12 2.6E-06 29.6 1.9 19 430-449 4-22 (25)
65 PF13913 zf-C2HC_2: zinc-finge 91.8 0.14 3E-06 29.4 1.9 20 402-422 4-23 (25)
66 KOG4173|consensus 91.3 0.16 3.5E-06 45.0 2.6 74 105-181 78-167 (253)
67 smart00451 ZnF_U1 U1-like zinc 90.4 0.19 4.2E-06 31.4 1.8 22 400-421 3-24 (35)
68 KOG4173|consensus 90.2 0.26 5.7E-06 43.7 3.0 29 425-453 141-171 (253)
69 cd00350 rubredoxin_like Rubred 90.0 0.13 2.8E-06 31.8 0.7 24 401-436 2-25 (33)
70 smart00451 ZnF_U1 U1-like zinc 89.9 0.22 4.8E-06 31.1 1.7 23 428-450 3-25 (35)
71 TIGR00622 ssl1 transcription f 89.6 0.52 1.1E-05 38.1 4.0 48 374-423 57-104 (112)
72 PF12013 DUF3505: Protein of u 89.0 0.68 1.5E-05 38.0 4.5 25 429-453 81-109 (109)
73 KOG2893|consensus 88.8 0.094 2E-06 47.5 -0.8 46 163-212 13-58 (341)
74 KOG2893|consensus 88.7 0.18 4E-06 45.6 0.9 42 261-307 12-53 (341)
75 TIGR00622 ssl1 transcription f 88.6 0.76 1.7E-05 37.2 4.3 24 372-395 81-104 (112)
76 PF11498 Activator_LAG-3: Tran 88.5 0.13 2.9E-06 49.3 0.0 21 48-68 26-46 (468)
77 PF12013 DUF3505: Protein of u 88.4 0.63 1.4E-05 38.2 3.9 26 400-425 80-109 (109)
78 COG4049 Uncharacterized protei 87.7 0.25 5.4E-06 33.7 0.9 31 183-213 12-42 (65)
79 cd00350 rubredoxin_like Rubred 86.7 0.4 8.6E-06 29.6 1.3 8 316-323 17-24 (33)
80 COG4049 Uncharacterized protei 86.1 0.37 8E-06 32.9 1.0 28 426-453 15-42 (65)
81 cd00729 rubredoxin_SM Rubredox 84.3 0.55 1.2E-05 29.2 1.1 25 400-436 2-26 (34)
82 KOG2186|consensus 83.6 0.66 1.4E-05 42.9 1.8 49 401-452 4-52 (276)
83 KOG1883|consensus 81.2 2 4.3E-05 48.2 4.6 10 563-572 1504-1513(1517)
84 PF09538 FYDLN_acid: Protein o 79.0 1.2 2.6E-05 36.2 1.6 30 401-441 10-39 (108)
85 KOG2186|consensus 78.3 1.6 3.4E-05 40.5 2.3 46 106-154 3-48 (276)
86 PF09538 FYDLN_acid: Protein o 77.8 1.3 2.8E-05 36.0 1.5 30 260-301 10-39 (108)
87 PF09986 DUF2225: Uncharacteri 77.4 1.3 2.7E-05 41.3 1.5 19 288-306 5-23 (214)
88 PF09986 DUF2225: Uncharacteri 77.0 0.94 2E-05 42.2 0.6 24 314-337 3-26 (214)
89 PF05290 Baculo_IE-1: Baculovi 74.8 2.5 5.4E-05 35.1 2.3 55 105-174 79-135 (140)
90 COG1592 Rubrerythrin [Energy p 74.2 1.7 3.7E-05 38.2 1.4 11 425-435 146-156 (166)
91 KOG1701|consensus 73.3 1.3 2.8E-05 44.2 0.5 120 108-234 276-411 (468)
92 COG1198 PriA Primosomal protei 71.1 3.1 6.6E-05 46.0 2.7 14 254-267 457-470 (730)
93 PRK00464 nrdR transcriptional 70.6 1.8 4E-05 37.6 0.8 14 317-330 29-42 (154)
94 COG1198 PriA Primosomal protei 70.6 3.4 7.5E-05 45.6 3.0 25 286-325 460-484 (730)
95 smart00659 RPOLCX RNA polymera 70.1 2.6 5.5E-05 28.0 1.2 27 106-143 2-28 (44)
96 TIGR02098 MJ0042_CXXC MJ0042 f 70.0 2.4 5.2E-05 27.0 1.0 7 291-297 5-11 (38)
97 KOG1280|consensus 69.9 10 0.00023 37.0 5.6 23 344-366 79-101 (381)
98 COG1997 RPL43A Ribosomal prote 69.9 1.9 4.1E-05 32.9 0.6 12 400-411 53-64 (89)
99 PF02892 zf-BED: BED zinc fing 69.9 3.9 8.4E-05 27.1 2.1 24 429-452 17-44 (45)
100 PF13719 zinc_ribbon_5: zinc-r 68.9 2.8 6.1E-05 26.6 1.1 8 262-269 5-12 (37)
101 PRK00464 nrdR transcriptional 68.8 2.2 4.8E-05 37.1 0.9 15 289-303 29-43 (154)
102 PF13717 zinc_ribbon_4: zinc-r 68.0 3.4 7.4E-05 26.0 1.4 8 291-298 5-12 (36)
103 COG2888 Predicted Zn-ribbon RN 67.8 2.6 5.7E-05 29.5 0.9 12 157-168 47-58 (61)
104 TIGR02300 FYDLN_acid conserved 67.3 3.1 6.7E-05 34.4 1.3 32 401-443 10-41 (129)
105 PF10571 UPF0547: Uncharacteri 67.2 3.4 7.4E-05 23.9 1.2 7 375-381 17-23 (26)
106 PF06524 NOA36: NOA36 protein; 67.0 3.8 8.2E-05 38.1 2.0 12 105-116 37-48 (314)
107 PRK00398 rpoP DNA-directed RNA 67.0 2.6 5.7E-05 28.2 0.8 29 400-438 3-31 (46)
108 TIGR00373 conserved hypothetic 65.8 5.4 0.00012 35.1 2.7 18 399-416 108-125 (158)
109 smart00531 TFIIE Transcription 65.8 4.7 0.0001 35.0 2.3 37 104-144 97-133 (147)
110 TIGR00373 conserved hypothetic 65.1 5.7 0.00012 35.0 2.8 18 105-122 108-125 (158)
111 smart00834 CxxC_CXXC_SSSS Puta 65.1 3.4 7.4E-05 26.7 1.0 11 289-299 6-16 (41)
112 TIGR02605 CxxC_CxxC_SSSS putat 64.7 3.3 7.1E-05 28.6 0.9 11 289-299 6-16 (52)
113 COG1592 Rubrerythrin [Energy p 64.7 2.8 6.2E-05 36.8 0.7 23 372-407 134-156 (166)
114 TIGR02300 FYDLN_acid conserved 64.4 4.5 9.8E-05 33.4 1.8 30 260-301 10-39 (129)
115 KOG4377|consensus 63.9 6.9 0.00015 39.0 3.2 22 377-398 408-429 (480)
116 PF06524 NOA36: NOA36 protein; 63.5 3.5 7.6E-05 38.3 1.1 25 371-395 208-232 (314)
117 smart00531 TFIIE Transcription 63.4 5 0.00011 34.9 2.0 15 133-147 98-112 (147)
118 PRK04023 DNA polymerase II lar 61.8 7.2 0.00016 43.9 3.2 12 58-69 421-432 (1121)
119 smart00734 ZnF_Rad18 Rad18-lik 60.7 8.3 0.00018 22.3 2.0 19 430-449 3-21 (26)
120 PF03604 DNA_RNApol_7kD: DNA d 60.7 5.5 0.00012 24.3 1.3 9 261-269 2-10 (32)
121 PRK06266 transcription initiat 59.7 7.5 0.00016 35.0 2.5 30 399-437 116-145 (178)
122 PF04959 ARS2: Arsenite-resist 59.3 6.7 0.00015 36.2 2.2 29 426-454 75-103 (214)
123 COG1996 RPC10 DNA-directed RNA 58.8 5.2 0.00011 27.1 1.0 10 289-298 7-16 (49)
124 PRK06266 transcription initiat 58.1 8.4 0.00018 34.6 2.6 15 106-120 117-131 (178)
125 KOG1044|consensus 57.2 0.71 1.5E-05 47.8 -4.8 14 188-201 91-104 (670)
126 PF09723 Zn-ribbon_8: Zinc rib 57.2 5.2 0.00011 26.2 0.8 11 289-299 6-16 (42)
127 smart00614 ZnF_BED BED zinc fi 55.5 9.3 0.0002 26.1 1.9 11 401-411 19-29 (50)
128 PRK14890 putative Zn-ribbon RN 55.0 7.4 0.00016 27.4 1.3 12 157-168 45-56 (59)
129 PF02176 zf-TRAF: TRAF-type zi 54.4 6.5 0.00014 27.9 1.0 40 399-439 8-53 (60)
130 PRK04023 DNA polymerase II lar 52.0 13 0.00027 42.1 3.1 9 345-353 627-635 (1121)
131 PRK09678 DNA-binding transcrip 51.9 6 0.00013 29.4 0.5 16 314-329 25-42 (72)
132 PF14353 CpXC: CpXC protein 51.2 2.7 5.9E-05 35.5 -1.6 18 317-334 39-56 (128)
133 PHA00626 hypothetical protein 50.5 12 0.00027 25.8 1.8 14 258-271 22-35 (59)
134 PRK09678 DNA-binding transcrip 50.1 5.8 0.00013 29.5 0.2 19 286-304 25-45 (72)
135 PF05443 ROS_MUCR: ROS/MUCR tr 49.1 9.4 0.0002 32.3 1.3 24 429-455 73-96 (132)
136 KOG4377|consensus 49.0 5.7 0.00012 39.6 -0.0 21 434-454 409-429 (480)
137 KOG2593|consensus 48.8 13 0.00027 37.8 2.3 39 131-170 125-163 (436)
138 TIGR00595 priA primosomal prot 47.1 14 0.00031 39.4 2.6 14 211-224 234-247 (505)
139 COG5151 SSL1 RNA polymerase II 47.1 18 0.00038 34.7 2.9 25 258-282 387-411 (421)
140 TIGR01384 TFS_arch transcripti 46.6 13 0.00027 30.1 1.7 13 288-300 16-28 (104)
141 KOG2593|consensus 46.2 17 0.00037 36.8 2.8 39 367-408 123-161 (436)
142 PF14353 CpXC: CpXC protein 46.0 16 0.00036 30.7 2.4 48 260-309 2-59 (128)
143 PF05443 ROS_MUCR: ROS/MUCR tr 46.0 11 0.00024 31.8 1.3 26 400-428 72-97 (132)
144 PF09845 DUF2072: Zn-ribbon co 44.8 9.4 0.0002 31.9 0.7 15 400-414 1-15 (131)
145 KOG3648|consensus 44.4 17 0.00037 38.5 2.6 17 548-564 89-105 (1179)
146 PF02176 zf-TRAF: TRAF-type zi 44.3 8.1 0.00018 27.4 0.2 26 386-411 24-53 (60)
147 COG3357 Predicted transcriptio 44.0 18 0.00038 27.9 1.9 29 104-142 56-84 (97)
148 KOG2807|consensus 43.8 30 0.00066 33.6 3.9 25 399-423 344-368 (378)
149 KOG2461|consensus 42.6 15 0.00032 37.6 1.8 39 285-323 207-245 (396)
150 PF05290 Baculo_IE-1: Baculovi 41.9 23 0.00051 29.6 2.5 56 286-358 78-135 (140)
151 PF12907 zf-met2: Zinc-binding 41.1 16 0.00036 23.6 1.2 26 189-214 2-30 (40)
152 PF08274 PhnA_Zn_Ribbon: PhnA 40.9 9.6 0.00021 22.9 0.1 11 426-436 17-27 (30)
153 PRK14714 DNA polymerase II lar 40.5 28 0.0006 40.6 3.6 15 57-71 440-454 (1337)
154 PF05191 ADK_lid: Adenylate ki 40.4 16 0.00035 23.0 1.1 8 291-298 4-11 (36)
155 PRK14873 primosome assembly pr 39.5 20 0.00043 39.7 2.3 9 216-224 409-417 (665)
156 TIGR00595 priA primosomal prot 39.4 22 0.00048 38.0 2.7 11 257-267 238-248 (505)
157 COG3364 Zn-ribbon containing p 38.8 16 0.00035 28.7 1.1 12 401-412 3-14 (112)
158 COG0068 HypF Hydrogenase matur 38.4 8.8 0.00019 41.5 -0.5 79 260-353 102-182 (750)
159 cd00730 rubredoxin Rubredoxin; 38.3 17 0.00036 24.9 1.0 12 107-118 2-13 (50)
160 PF04959 ARS2: Arsenite-resist 38.2 19 0.00041 33.3 1.6 28 159-186 76-103 (214)
161 KOG1244|consensus 37.5 30 0.00065 32.7 2.7 12 186-197 244-255 (336)
162 PRK03564 formate dehydrogenase 37.4 7.3 0.00016 38.2 -1.2 39 313-354 184-222 (309)
163 KOG4167|consensus 36.6 12 0.00027 40.3 0.2 27 104-130 790-816 (907)
164 PRK03564 formate dehydrogenase 36.5 16 0.00035 35.9 0.9 49 287-352 186-234 (309)
165 KOG4124|consensus 36.1 8.4 0.00018 37.5 -1.0 22 315-336 348-371 (442)
166 PRK05580 primosome assembly pr 35.7 26 0.00057 39.0 2.6 11 214-224 405-415 (679)
167 PRK14873 primosome assembly pr 35.6 25 0.00054 38.9 2.3 9 288-296 410-418 (665)
168 PRK14714 DNA polymerase II lar 35.5 32 0.0007 40.1 3.2 10 288-297 692-701 (1337)
169 KOG2807|consensus 35.5 53 0.0012 32.0 4.1 35 159-207 275-309 (378)
170 COG4530 Uncharacterized protei 35.4 20 0.00043 28.6 1.1 26 402-438 11-36 (129)
171 PF15269 zf-C2H2_7: Zinc-finge 35.3 27 0.00059 22.8 1.5 22 429-450 21-42 (54)
172 PTZ00255 60S ribosomal protein 35.2 15 0.00033 28.5 0.5 13 287-299 53-65 (90)
173 KOG4167|consensus 35.1 13 0.00029 40.1 0.1 24 401-424 793-816 (907)
174 KOG2071|consensus 34.9 31 0.00068 36.6 2.7 71 256-326 415-523 (579)
175 PF13878 zf-C2H2_3: zinc-finge 34.0 36 0.00079 22.1 2.0 23 135-157 14-38 (41)
176 PF15135 UPF0515: Uncharacteri 33.6 41 0.0009 31.4 3.0 16 257-272 153-168 (278)
177 COG4068 Uncharacterized protei 33.3 27 0.00058 24.4 1.3 21 6-26 41-61 (64)
178 PF01780 Ribosomal_L37ae: Ribo 33.2 7.9 0.00017 30.1 -1.4 11 289-299 54-64 (90)
179 KOG2907|consensus 32.9 22 0.00047 28.7 0.9 35 107-146 75-114 (116)
180 TIGR00280 L37a ribosomal prote 32.6 15 0.00032 28.6 0.0 13 287-299 52-64 (91)
181 PF09416 UPF1_Zn_bind: RNA hel 32.1 41 0.00089 29.1 2.6 41 396-436 10-68 (152)
182 TIGR01206 lysW lysine biosynth 32.0 15 0.00033 25.6 -0.0 30 401-438 3-32 (54)
183 COG4957 Predicted transcriptio 31.9 21 0.00045 29.8 0.7 25 401-428 77-101 (148)
184 PF13451 zf-trcl: Probable zin 31.4 28 0.0006 23.7 1.2 39 258-296 3-41 (49)
185 smart00440 ZnF_C2C2 C2C2 Zinc 31.4 22 0.00048 23.0 0.7 10 317-326 29-38 (40)
186 KOG4124|consensus 31.1 5.6 0.00012 38.7 -3.0 25 425-449 395-419 (442)
187 PF07975 C1_4: TFIIH C1-like d 30.9 30 0.00066 23.8 1.3 23 316-338 21-43 (51)
188 PF05495 zf-CHY: CHY zinc fing 30.7 18 0.00038 26.9 0.1 11 316-326 41-51 (71)
189 PF04216 FdhE: Protein involve 30.5 6.2 0.00014 38.8 -3.0 14 313-326 194-207 (290)
190 PRK03824 hypA hydrogenase nick 29.0 27 0.00058 29.8 1.0 12 289-300 71-82 (135)
191 COG1655 Uncharacterized protei 29.0 15 0.00033 33.7 -0.5 9 401-409 63-71 (267)
192 COG2331 Uncharacterized protei 28.6 30 0.00065 25.7 1.0 33 105-144 11-43 (82)
193 PF08271 TF_Zn_Ribbon: TFIIB z 28.2 31 0.00066 22.6 1.0 8 317-324 20-27 (43)
194 PF01096 TFIIS_C: Transcriptio 28.2 12 0.00027 24.0 -0.9 9 317-325 29-37 (39)
195 KOG1280|consensus 27.9 65 0.0014 31.7 3.4 31 186-216 77-107 (381)
196 PRK03976 rpl37ae 50S ribosomal 27.6 20 0.00042 27.9 -0.1 13 287-299 53-65 (90)
197 COG4888 Uncharacterized Zn rib 27.6 24 0.00051 27.9 0.4 8 289-296 23-30 (104)
198 KOG2272|consensus 27.6 73 0.0016 29.8 3.5 127 260-390 100-239 (332)
199 COG0068 HypF Hydrogenase matur 27.3 16 0.00035 39.6 -0.8 29 374-408 153-181 (750)
200 COG1656 Uncharacterized conser 27.2 28 0.00062 30.4 0.8 7 108-114 99-105 (165)
201 PF12760 Zn_Tnp_IS1595: Transp 27.0 1.1E+02 0.0023 20.4 3.5 11 314-324 35-45 (46)
202 PF01363 FYVE: FYVE zinc finge 26.9 32 0.00069 25.2 1.0 8 347-354 12-19 (69)
203 PF14446 Prok-RING_1: Prokaryo 26.9 32 0.0007 23.9 0.9 10 374-383 7-16 (54)
204 PRK00432 30S ribosomal protein 26.8 25 0.00054 24.1 0.3 8 401-408 38-45 (50)
205 COG1571 Predicted DNA-binding 26.7 33 0.00072 35.1 1.3 12 400-411 367-378 (421)
206 PF15135 UPF0515: Uncharacteri 26.4 33 0.00071 32.0 1.1 10 315-324 111-120 (278)
207 PF04810 zf-Sec23_Sec24: Sec23 26.1 14 0.00031 23.8 -0.9 16 394-409 18-33 (40)
208 PF07172 GRP: Glycine rich pro 26.0 20 0.00044 28.4 -0.3 9 22-30 17-25 (95)
209 COG5151 SSL1 RNA polymerase II 25.9 35 0.00077 32.8 1.3 88 105-208 307-408 (421)
210 PF07754 DUF1610: Domain of un 25.6 31 0.00066 19.6 0.5 8 400-407 16-23 (24)
211 KOG3408|consensus 25.5 47 0.001 27.2 1.7 26 397-422 54-79 (129)
212 PF07800 DUF1644: Protein of u 25.0 2E+02 0.0043 25.1 5.5 57 160-217 80-137 (162)
213 COG4957 Predicted transcriptio 24.8 47 0.001 27.8 1.6 27 105-134 75-101 (148)
214 PRK10350 hypothetical protein; 24.7 99 0.0021 25.6 3.4 10 513-522 35-44 (145)
215 KOG2636|consensus 24.5 48 0.001 33.8 1.9 29 127-155 394-423 (497)
216 COG1655 Uncharacterized protei 24.2 21 0.00045 32.9 -0.5 9 373-381 63-71 (267)
217 PF10477 EIF4E-T: Nucleocytopl 24.0 79 0.0017 34.4 3.6 11 58-68 48-58 (578)
218 KOG0717|consensus 23.2 47 0.001 34.2 1.6 22 401-422 293-314 (508)
219 PF03833 PolC_DP2: DNA polymer 23.0 28 0.0006 38.7 0.0 15 57-71 433-447 (900)
220 PRK14559 putative protein seri 22.8 73 0.0016 35.1 3.1 8 291-298 18-25 (645)
221 PF13453 zf-TFIIB: Transcripti 22.8 44 0.00096 21.6 0.9 16 317-332 20-35 (41)
222 COG4896 Uncharacterized protei 22.8 46 0.00099 23.5 1.0 7 161-167 32-38 (68)
223 COG1327 Predicted transcriptio 22.6 43 0.00093 28.8 1.0 12 318-329 30-41 (156)
224 TIGR00244 transcriptional regu 22.3 45 0.00098 28.6 1.1 13 318-330 30-42 (147)
225 PF10361 DUF2434: Protein of u 22.0 58 0.0013 31.3 1.9 23 3-25 84-106 (296)
226 PF08790 zf-LYAR: LYAR-type C2 22.0 17 0.00037 21.4 -1.0 20 107-127 1-20 (28)
227 KOG2636|consensus 21.8 61 0.0013 33.1 2.1 42 260-308 250-291 (497)
228 PF06474 MLTD_N: MltD lipid at 21.8 75 0.0016 19.7 1.7 18 3-20 13-30 (34)
229 PF07649 C1_3: C1-like domain; 21.3 37 0.00081 20.2 0.3 9 428-436 15-23 (30)
230 COG3091 SprT Zn-dependent meta 21.3 39 0.00084 29.1 0.5 9 428-436 140-148 (156)
231 TIGR01562 FdhE formate dehydro 21.0 41 0.0009 33.1 0.7 13 313-325 207-219 (305)
232 KOG3408|consensus 20.9 84 0.0018 25.8 2.3 28 100-127 51-78 (129)
233 PF06752 E_Pc_C: Enhancer of P 20.7 79 0.0017 29.2 2.4 28 513-540 6-33 (230)
234 COG3091 SprT Zn-dependent meta 20.6 45 0.00097 28.7 0.7 34 105-143 116-149 (156)
235 PF07282 OrfB_Zn_ribbon: Putat 20.2 69 0.0015 23.4 1.6 9 317-325 47-55 (69)
236 TIGR00100 hypA hydrogenase nic 20.1 49 0.0011 27.3 0.9 7 261-267 72-78 (115)
No 1
>KOG2462|consensus
Probab=99.96 E-value=1.3e-30 Score=235.58 Aligned_cols=135 Identities=39% Similarity=0.729 Sum_probs=123.3
Q ss_pred CCccccCCCCCcCCChhHHHhhhcccC---CCCccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHH
Q psy11693 314 EKPFKCSYCPKAFSHKGHLNEHLYTHS---ENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNR 390 (579)
Q Consensus 314 ~~~~~C~~C~~~f~~~~~l~~H~~~h~---~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 390 (579)
...|+|+.||+.+.+.++|.+|..+|. ..+.+.|++|||.|.+...|+.|+++|+ .+++|.+|||.|....-|+.
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhc
Confidence 345888889999999999999988885 3677999999999999999999999998 78999999999999999999
Q ss_pred HhhhhCCCcceeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHHHHHHHH
Q psy11693 391 HAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEI 450 (579)
Q Consensus 391 H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 450 (579)
|+|+|||||||.|..|++.|.++++|+.||.+|.++|+|.|..|+++|...+.|.+|...
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999865
No 2
>KOG1074|consensus
Probab=99.96 E-value=3.2e-31 Score=270.17 Aligned_cols=228 Identities=25% Similarity=0.470 Sum_probs=156.5
Q ss_pred cccCCCCCCcCCCHHHHHHHHHhhcCCCCcccCCcCCcccccCCCcceeeeeecchhhhhhhhhhccCCCCCcccCCCcc
Q psy11693 188 LFSCNFCLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGELDSHVQTSHRGIKPYVCEICSK 267 (579)
Q Consensus 188 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~l~~h~~~~h~~~~~~~C~~C~~ 267 (579)
+-.|-+|.+...-.+.|..|++ .|.|++||+|.+||+
T Consensus 605 PNqCiiC~rVlSC~saLqmHyr-------------------------------------------tHtGERPFkCKiCgR 641 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYR-------------------------------------------THTGERPFKCKICGR 641 (958)
T ss_pred ccceeeeeecccchhhhhhhhh-------------------------------------------cccCcCccccccccc
Confidence 4679999999999999999973 366777777888888
Q ss_pred ccCCHHHHHHHHHhhCC---CCcccccc---cccccccCchhhccccccccCCC-------------ccccCCCCCcCCC
Q psy11693 268 AFTQQYNLKHHLLLHGD---GNSLFRCD---QCGKAFSRKGHLVQHSFVHGGEK-------------PFKCSYCPKAFSH 328 (579)
Q Consensus 268 ~f~~~~~L~~H~~~h~~---~~~~~~C~---~C~~~f~~~~~L~~H~~~h~~~~-------------~~~C~~C~~~f~~ 328 (579)
.|.++.+|+.|+-+|.. ....|.|+ +|-+.|...-.|..|+++|.+.. .-.|..|.+.|..
T Consensus 642 AFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~ 721 (958)
T KOG1074|consen 642 AFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSD 721 (958)
T ss_pred hhccccchhhcccccccCccccccccCCchhhhcccccccccccceEEeecCCCCCCCcccccccchhcccchhhhcccc
Confidence 88888888888777732 12457788 78888888888888888876321 1357788888877
Q ss_pred hhHHHhhhccc----------------CCCC----ccccCCCcccccChHHHHHHH-----------------------h
Q psy11693 329 KGHLNEHLYTH----------------SENK----CFQCKYCPKTFTLRKHLKAHT-----------------------N 365 (579)
Q Consensus 329 ~~~l~~H~~~h----------------~~~~----~~~C~~C~~~f~~~~~l~~H~-----------------------~ 365 (579)
...+..++..| .++. ++.+..|+..+.....+..+- .
T Consensus 722 a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~ 801 (958)
T KOG1074|consen 722 ARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEE 801 (958)
T ss_pred cccchhhhhccCCcccCCcccccccccccccccCCCccccccccccCcccccccccchhhhhcChhhhcCccccchhhhh
Confidence 77776666544 2222 566777877766554443331 1
Q ss_pred ccCCCCCC-CCccchhccCCHHHHH----HH--------------hhhhCC------------------------Cccee
Q psy11693 366 KHEGVLPH-TCLECSKCFSTKSELN----RH--------------AQIHGG------------------------VKPFA 402 (579)
Q Consensus 366 ~h~~~~~~-~C~~C~~~f~~~~~l~----~H--------------~~~h~~------------------------~k~~~ 402 (579)
.++++++. .+..++..-...-... .- ..++-+ .....
T Consensus 802 ~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~ 881 (958)
T KOG1074|consen 802 DDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHV 881 (958)
T ss_pred cccCCCCcccccCCCcCCccccccCchhhcccccccccccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhh
Confidence 23455555 5555554322211000 00 000000 01267
Q ss_pred ccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHHHHHHHHHcCCCcCC
Q psy11693 403 CTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVHGVITSN 458 (579)
Q Consensus 403 C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 458 (579)
|.+||+.|...++|..|+++|+|+|||.|.+|++.|..+.+|+.||.+|+.+.+..
T Consensus 882 C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~s 937 (958)
T KOG1074|consen 882 CNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPS 937 (958)
T ss_pred hccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCc
Confidence 99999999999999999999999999999999999999999999999888765443
No 3
>KOG1074|consensus
Probab=99.96 E-value=7.6e-30 Score=260.22 Aligned_cols=205 Identities=23% Similarity=0.434 Sum_probs=117.4
Q ss_pred CcccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCchhhccccccccCCC----ccccC---CCCCcCCChhH
Q psy11693 259 PYVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQHSFVHGGEK----PFKCS---YCPKAFSHKGH 331 (579)
Q Consensus 259 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~----~~~C~---~C~~~f~~~~~ 331 (579)
+-.|-+|.+.....+.|+.|+++| +|++||+|.+||+.|.++.+|+.|+-+|.... .|.|+ +|-+.|.+.-.
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtH-tGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTH-TGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcc-cCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 345666666666666666666666 36666666666666666666666666665443 35566 66666666666
Q ss_pred HHhhhcccCCCC-------------ccccCCCcccccChHHHHHHHhccC----------------CCC----CCCCccc
Q psy11693 332 LNEHLYTHSENK-------------CFQCKYCPKTFTLRKHLKAHTNKHE----------------GVL----PHTCLEC 378 (579)
Q Consensus 332 l~~H~~~h~~~~-------------~~~C~~C~~~f~~~~~l~~H~~~h~----------------~~~----~~~C~~C 378 (579)
|..|++.|.+.. .-.|..|.+.|.....+..++..|. ++. +..+..|
T Consensus 684 lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~ 763 (958)
T KOG1074|consen 684 LPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSC 763 (958)
T ss_pred ccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccc
Confidence 666666665210 1246666666666655555554431 112 3455556
Q ss_pred hhccCCHHHHHHHh-----------------------hhhCCCcce-eccccchhcCCHHHHH----HHH----------
Q psy11693 379 SKCFSTKSELNRHA-----------------------QIHGGVKPF-ACTVCNKSFLQKTQLQ----NHL---------- 420 (579)
Q Consensus 379 ~~~f~~~~~l~~H~-----------------------~~h~~~k~~-~C~~C~~~f~~~~~l~----~H~---------- 420 (579)
+..+.....+..+- ..++++++. .+.+++..-...-... .=.
T Consensus 764 ~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t 843 (958)
T KOG1074|consen 764 GRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLAT 843 (958)
T ss_pred ccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccccc
Confidence 65554433333221 122344555 5555554332211000 000
Q ss_pred ----HHhCCC------------------------CccccccccccccCHHHHHHHHHHHcCCCcCCCCCCCC
Q psy11693 421 ----YTHSKV------------------------KPYNCGICAKSFVQRNTYIKHLEIVHGVITSNSANMNI 464 (579)
Q Consensus 421 ----~~H~~~------------------------~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~ 464 (579)
.++-+. ....|.+||+.|...+.|..|+++|.+..+..+..+..
T Consensus 844 ~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~ 915 (958)
T KOG1074|consen 844 KTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEE 915 (958)
T ss_pred ccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhh
Confidence 000000 01679999999999999999999999998877765543
No 4
>KOG2462|consensus
Probab=99.95 E-value=3.6e-29 Score=226.38 Aligned_cols=136 Identities=34% Similarity=0.688 Sum_probs=123.4
Q ss_pred CCcccccccccccccCchhhcccccccc---CCCccccCCCCCcCCChhHHHhhhcccCCCCccccCCCcccccChHHHH
Q psy11693 285 GNSLFRCDQCGKAFSRKGHLVQHSFVHG---GEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLK 361 (579)
Q Consensus 285 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~---~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 361 (579)
....|.|+.||+.+.+.++|.+|...|- ..+.+.|++|||.|.+...|..|+++|+ -+++|.+|||.|...+.|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhh
Confidence 3445888888888888888888888774 3567999999999999999999999997 5799999999999999999
Q ss_pred HHHhccCCCCCCCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCCHHHHHHHHHH
Q psy11693 362 AHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYT 422 (579)
Q Consensus 362 ~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~ 422 (579)
.|+|+|+|||||.|+.|+|+|.++++|+.|+++|.+.|+|+|..|+|+|..++.|.+|...
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999999999999999999999999999765
No 5
>KOG3608|consensus
Probab=99.95 E-value=3.7e-27 Score=217.72 Aligned_cols=282 Identities=25% Similarity=0.496 Sum_probs=219.2
Q ss_pred ccccc--ccccccCC-HHHHHHHHHHcCCcccc--------------cccccccCChHHHHHHHHHhcCCCcccCC--CC
Q psy11693 134 LHKCE--LCYKMFSD-KLLYEKHKMVHRQVFTC--------------EVCMRSFNDRKEFNEHIMKHEKEKLFSCN--FC 194 (579)
Q Consensus 134 ~~~C~--~C~~~f~~-~~~l~~H~~~h~~~~~C--------------~~C~~~f~~~~~l~~H~~~h~~~~~~~C~--~C 194 (579)
.+.|. .|++...+ ...|.+|.-.|----.| ..|...|.....+ -.-...|.|. .|
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~i------p~~g~~f~C~WedC 142 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKI------PALGQNFRCGWEDC 142 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhcc------ccchhhhccChhhc
Confidence 46774 58877766 57888887766311011 1122222221111 0112237775 48
Q ss_pred CCcCCCHHHHHHHHHhhcCCCCcccCCcCCcccccCCCcceeeeeecchhhhhhhhhhccCCCC-CcccC--CCccccCC
Q psy11693 195 LKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGELDSHVQTSHRGIK-PYVCE--ICSKAFTQ 271 (579)
Q Consensus 195 ~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~l~~h~~~~h~~~~-~~~C~--~C~~~f~~ 271 (579)
+..|.+...+..|+.. |.. -|++ + ++....+++ .+.|. .|.+.|.+
T Consensus 143 e~~F~s~~ef~dHV~~-H~l----~cey-d-------------------------~~~~~~D~~pv~~C~W~~Ct~~~~~ 191 (467)
T KOG3608|consen 143 EREFVSIVEFQDHVVK-HAL----FCEY-D-------------------------IQKTPEDERPVTMCNWAMCTKHMGN 191 (467)
T ss_pred CCcccCHHHHHHHHHH-hhh----hhhh-h-------------------------hhhCCCCCCceeeccchhhhhhhcc
Confidence 9999999999999743 321 1111 0 011122232 24564 59999999
Q ss_pred HHHHHHHHHhhCCCCcccccccccccccCchhhcccccccc--CCCccccCCCCCcCCChhHHHhhhcccCCCCccccCC
Q psy11693 272 QYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQHSFVHG--GEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKY 349 (579)
Q Consensus 272 ~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 349 (579)
++.|++|++.|+ +++...|+.||..|+++..|..|.+..+ ...+|.|..|.|.|.+...|..|++.|-. .|+|+.
T Consensus 192 k~~LreH~r~Hs-~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCpl 268 (467)
T KOG3608|consen 192 KYRLREHIRTHS-NEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPL 268 (467)
T ss_pred HHHHHHHHHhcC-CCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccc
Confidence 999999999994 8889999999999999999999987554 45689999999999999999999998864 499999
Q ss_pred CcccccChHHHHHHHhc-cCCCCCCCCccchhccCCHHHHHHHhhhhCCCcceeccc--cchhcCCHHHHHHHHHHhC-C
Q psy11693 350 CPKTFTLRKHLKAHTNK-HEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTV--CNKSFLQKTQLQNHLYTHS-K 425 (579)
Q Consensus 350 C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~--C~~~f~~~~~l~~H~~~H~-~ 425 (579)
|+.+....+.|..|++. |...+||+|+.|++.|.+.++|.+|..+|. +..|.|+. |.++|++...|++|++.++ |
T Consensus 269 Cdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg 347 (467)
T KOG3608|consen 269 CDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEG 347 (467)
T ss_pred cccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccC
Confidence 99999999999999985 888999999999999999999999999998 77899998 9999999999999999766 4
Q ss_pred C--CccccccccccccCHHHHHHHHHHHcCCCc
Q psy11693 426 V--KPYNCGICAKSFVQRNTYIKHLEIVHGVIT 456 (579)
Q Consensus 426 ~--~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 456 (579)
. -+|.|..|++.|.+-.+|..|+.+.|+...
T Consensus 348 ~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~ 380 (467)
T KOG3608|consen 348 NNPILYACHCCDRFFTSGKSLSAHLMKKHGFRL 380 (467)
T ss_pred CCCCceeeecchhhhccchhHHHHHHHhhcccC
Confidence 4 469999999999999999999999998643
No 6
>KOG3608|consensus
Probab=99.94 E-value=4.3e-27 Score=217.30 Aligned_cols=242 Identities=26% Similarity=0.536 Sum_probs=163.8
Q ss_pred eeecc--cchhhcCC-HHHHHHHHHhccC----------------------------------CCcccc--cccccccCC
Q psy11693 106 VFTCE--VCQQAFTR-NADLKVHSMVHKI----------------------------------AQLHKC--ELCYKMFSD 146 (579)
Q Consensus 106 ~~~C~--~C~~~f~~-~~~L~~H~~~h~~----------------------------------~~~~~C--~~C~~~f~~ 146 (579)
.+.|. .|++...+ ..+|.+|...|.. ...|.| +.|+..|.+
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s 148 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVS 148 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccC
Confidence 45665 47776666 5789999765420 012667 579999999
Q ss_pred HHHHHHHHHHcC---------------Cccccc--ccccccCChHHHHHHHHHhcCCCcccCCCCCCcCCCHHHHHHHHH
Q psy11693 147 KLLYEKHKMVHR---------------QVFTCE--VCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHVN 209 (579)
Q Consensus 147 ~~~l~~H~~~h~---------------~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 209 (579)
...|..|+..|. ..+.|. .|.+.|.+++.|++|++.|+++|...|+.||..|.++..|..|++
T Consensus 149 ~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~r 228 (467)
T KOG3608|consen 149 IVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLR 228 (467)
T ss_pred HHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHH
Confidence 999999987763 235674 588899999999999999999999999999999999999999986
Q ss_pred hhcCCCCcccCCcCCcccccCCCcceeeeeecchhhhhhhhhhccCCCCCcccCCCccccCCHHHHHHHHHhhCCCCccc
Q psy11693 210 SVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGELDSHVQTSHRGIKPYVCEICSKAFTQQYNLKHHLLLHGDGNSLF 289 (579)
Q Consensus 210 ~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~l~~h~~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~ 289 (579)
+. .. ....+|.|..|.|.|.+...|+.|+..|- .-|
T Consensus 229 Rq--------------------------------t~---------l~~n~fqC~~C~KrFaTeklL~~Hv~rHv---n~y 264 (467)
T KOG3608|consen 229 RQ--------------------------------TE---------LNTNSFQCAQCFKRFATEKLLKSHVVRHV---NCY 264 (467)
T ss_pred hh--------------------------------hh---------hcCCchHHHHHHHHHhHHHHHHHHHHHhh---hcc
Confidence 41 11 12336888888888888888888888773 347
Q ss_pred ccccccccccCchhhccccc-cccCCCccccCCCCCcCCChhHHHhhhcccCCCCccccCC--CcccccChHHHHHHHhc
Q psy11693 290 RCDQCGKAFSRKGHLVQHSF-VHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKY--CPKTFTLRKHLKAHTNK 366 (579)
Q Consensus 290 ~C~~C~~~f~~~~~L~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~ 366 (579)
+|+.|+.+....++|..|++ .|..++||+|+.|++.|.+.+.|.+|..+|+ +..|.|+. |..+|.+...++.|++.
T Consensus 265 kCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~e 343 (467)
T KOG3608|consen 265 KCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLE 343 (467)
T ss_pred cccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHH
Confidence 77777777777777777765 3555666666666666666666666666665 44555555 55555555555555544
Q ss_pred cC-C--CCCCCCccchhccCCHHHHHHHh
Q psy11693 367 HE-G--VLPHTCLECSKCFSTKSELNRHA 392 (579)
Q Consensus 367 h~-~--~~~~~C~~C~~~f~~~~~l~~H~ 392 (579)
++ | ..+|.|..|++.|.+..+|..|+
T Consensus 344 vhEg~np~~Y~CH~Cdr~ft~G~~L~~HL 372 (467)
T KOG3608|consen 344 VHEGNNPILYACHCCDRFFTSGKSLSAHL 372 (467)
T ss_pred hccCCCCCceeeecchhhhccchhHHHHH
Confidence 32 2 22344444444444444444443
No 7
>KOG3623|consensus
Probab=99.91 E-value=4.3e-25 Score=221.54 Aligned_cols=77 Identities=36% Similarity=0.814 Sum_probs=75.9
Q ss_pred CCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHHHHHHH
Q psy11693 373 HTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLE 449 (579)
Q Consensus 373 ~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~ 449 (579)
|.|+.|+|.|...+.|.+|.--|+|.+||+|.+|.|.|+.+-.|..|+|.|.|+|||.|+.|++.|+...++-.||.
T Consensus 895 yaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 895 YACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred chHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999985
No 8
>KOG3623|consensus
Probab=99.90 E-value=3.1e-24 Score=215.44 Aligned_cols=105 Identities=30% Similarity=0.614 Sum_probs=96.1
Q ss_pred eeeecccchhhcCCHHHHHHHHHh-c-cCCCcccccccccccCCHHHHHHHHHHcC---------------Ccccccccc
Q psy11693 105 QVFTCEVCQQAFTRNADLKVHSMV-H-KIAQLHKCELCYKMFSDKLLYEKHKMVHR---------------QVFTCEVCM 167 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L~~H~~~-h-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~---------------~~~~C~~C~ 167 (579)
...+|.+|.+.+++...|+.|++- | ..+..|.|..|.+.|..+..|.+|+.+|. +.|+|.+||
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECg 288 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECG 288 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccc
Confidence 457899999999999999999873 3 34567999999999999999999999984 569999999
Q ss_pred cccCChHHHHHHHHHhcCCCcccCCCCCCcCCCHHHHHHHHH
Q psy11693 168 RSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHVN 209 (579)
Q Consensus 168 ~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 209 (579)
+.|+.+..|+.|+|+|.|||||.|+.|+|+|.....+..||.
T Consensus 289 KAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 289 KAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 999999999999999999999999999999999999999974
No 9
>KOG3576|consensus
Probab=99.74 E-value=6.5e-19 Score=151.04 Aligned_cols=112 Identities=34% Similarity=0.702 Sum_probs=68.2
Q ss_pred CccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCCHHHHHHHHHH
Q psy11693 343 KCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYT 422 (579)
Q Consensus 343 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~ 422 (579)
..|.|.+|+|.|.....|.+|++-|...+.|-|..||+.|.+..+|++|+|+|+|.+||+|..|+++|+..-.|..|++.
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 34555555555555555555555555555555555555555555555555555555555555555555555555555543
Q ss_pred hCC-----------CCccccccccccccCHHHHHHHHHHHcCC
Q psy11693 423 HSK-----------VKPYNCGICAKSFVQRNTYIKHLEIVHGV 454 (579)
Q Consensus 423 H~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 454 (579)
-+| .+.|.|..||.+-.....+..|++.+|+.
T Consensus 196 vhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 196 VHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred HcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 332 34577888888777777778888777754
No 10
>KOG3576|consensus
Probab=99.70 E-value=5.1e-18 Score=145.55 Aligned_cols=115 Identities=33% Similarity=0.594 Sum_probs=87.7
Q ss_pred CCccccCCCCCcCCChhHHHhhhcccCCCCccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHHHhh
Q psy11693 314 EKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQ 393 (579)
Q Consensus 314 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 393 (579)
...|.|.+|+|.|.-..-|.+|++-|...+.|.|..||+.|....+|++|+++|+|.+||+|..|+++|..+-.|..|++
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 34567777777777777777777777777777777777777777777777777777777777777777777777777776
Q ss_pred hhCC-----------CcceeccccchhcCCHHHHHHHHHHhCCCCc
Q psy11693 394 IHGG-----------VKPFACTVCNKSFLQKTQLQNHLYTHSKVKP 428 (579)
Q Consensus 394 ~h~~-----------~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~ 428 (579)
.-+| +|-|.|+.||+.-.....+..|++.|+...|
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 4333 4679999999999999999999999876544
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.38 E-value=8.3e-13 Score=135.81 Aligned_cols=102 Identities=18% Similarity=0.419 Sum_probs=75.6
Q ss_pred cccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcC----------CHH
Q psy11693 345 FQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFL----------QKT 414 (579)
Q Consensus 345 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~----------~~~ 414 (579)
+.|+.|++.|. ...|..|++.++ +++.|+ ||+.+ .+..|..|+.+|.+++++.|.+|++.|. ..+
T Consensus 454 ~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s 528 (567)
T PLN03086 454 VHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLR 528 (567)
T ss_pred ccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhh
Confidence 36777777774 466777777764 677887 88644 5678888888888888888888888774 235
Q ss_pred HHHHHHHHhCCCCccccccccccccCHHHHHHHHHHHcC
Q psy11693 415 QLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVHG 453 (579)
Q Consensus 415 ~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 453 (579)
.|..|..++ |.+++.|..||+.+..+ +|..|+..+|.
T Consensus 529 ~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 529 GMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred hHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 788888884 78888888888877654 67888887775
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.33 E-value=3.7e-12 Score=131.03 Aligned_cols=146 Identities=18% Similarity=0.431 Sum_probs=116.8
Q ss_pred CcccCCCccccCCHHHHHHHHHhhCCCCccccccc--ccccccCchhhccccccccCCCccccCCCCCcCCChhHHHhhh
Q psy11693 259 PYVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQ--CGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHL 336 (579)
Q Consensus 259 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 336 (579)
.-.|..|.+.... ..|..|..... ...-.|+. ||..|. +..+..| +.|+.|++.|. ...|..|+
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~--r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~ 472 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCS--RHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCC--CcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHH
Confidence 3579999987765 45668876542 23456884 999883 4445555 58999999996 68899999
Q ss_pred cccCCCCccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccC----------CHHHHHHHhhhhCCCcceecccc
Q psy11693 337 YTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFS----------TKSELNRHAQIHGGVKPFACTVC 406 (579)
Q Consensus 337 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~k~~~C~~C 406 (579)
.+++ +++.|+ ||+.+ .+..|..|+.+|.+.+++.|..|++.|. ..+.|..|...+ |.+++.|..|
T Consensus 473 ~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~C 547 (567)
T PLN03086 473 KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSC 547 (567)
T ss_pred HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEcccc
Confidence 9986 789999 99765 6789999999999999999999999995 246899999985 9999999999
Q ss_pred chhcCCHHHHHHHHHHhC
Q psy11693 407 NKSFLQKTQLQNHLYTHS 424 (579)
Q Consensus 407 ~~~f~~~~~l~~H~~~H~ 424 (579)
|+.|.. ..|..|+..-+
T Consensus 548 gk~Vrl-rdm~~H~~~~h 564 (567)
T PLN03086 548 GRSVML-KEMDIHQIAVH 564 (567)
T ss_pred CCeeee-hhHHHHHHHhh
Confidence 999875 45888876543
No 13
>PHA00733 hypothetical protein
Probab=99.16 E-value=3.2e-11 Score=101.34 Aligned_cols=84 Identities=17% Similarity=0.327 Sum_probs=63.1
Q ss_pred CCCCCCCccchhccCCHHHHHHH--h---hhhCCCcceeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHH
Q psy11693 369 GVLPHTCLECSKCFSTKSELNRH--A---QIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNT 443 (579)
Q Consensus 369 ~~~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~ 443 (579)
..+++.|.+|.+.|.....|..| + ..+.++++|.|+.||+.|.+...|..|++.| +.+|.|.+|++.|.....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 34556666666666665555544 1 1334578899999999999999999888876 357899999999999999
Q ss_pred HHHHHHHHcCC
Q psy11693 444 YIKHLEIVHGV 454 (579)
Q Consensus 444 l~~H~~~~h~~ 454 (579)
|.+|+...|++
T Consensus 115 L~~H~~~~h~~ 125 (128)
T PHA00733 115 TLDHVCKKHNI 125 (128)
T ss_pred HHHHHHHhcCc
Confidence 99999888875
No 14
>PHA00733 hypothetical protein
Probab=99.06 E-value=1.5e-10 Score=97.26 Aligned_cols=81 Identities=20% Similarity=0.306 Sum_probs=54.7
Q ss_pred CCccccCCCcccccChHHHH------HHHhccCCCCCCCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCCHHH
Q psy11693 342 NKCFQCKYCPKTFTLRKHLK------AHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQ 415 (579)
Q Consensus 342 ~~~~~C~~C~~~f~~~~~l~------~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~ 415 (579)
.+++.|.+|++.|.....|. .|+. +.+.+||.|+.|++.|.+...|..|++.| +.+|.|..|++.|.....
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 33444444444444433333 3332 33477888888888888888888888766 356888888888888888
Q ss_pred HHHHHHHhCC
Q psy11693 416 LQNHLYTHSK 425 (579)
Q Consensus 416 l~~H~~~H~~ 425 (579)
|..|+...++
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 8888877665
No 15
>KOG3993|consensus
Probab=98.95 E-value=1.3e-10 Score=111.50 Aligned_cols=208 Identities=18% Similarity=0.241 Sum_probs=114.1
Q ss_pred ceeeecccchhhcCCHHHHHHHHHhccCCCcccccccccccCCHHHHHHHHHHcCCccccc-----ccccccCChHHHHH
Q psy11693 104 VQVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKMVHRQVFTCE-----VCMRSFNDRKEFNE 178 (579)
Q Consensus 104 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~-----~C~~~f~~~~~l~~ 178 (579)
...|.|.+|...|.+...|-.|.-.......|+|++|+|.|+-..+|..|.+.|.-.-.=. -=.....++...+.
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 3568899999999999999998654444456899999999999999999999885210000 00000111111111
Q ss_pred HHHH--hcCCCcccCCCCCCcCCCHHHHHHHHHhhcCCCCcccCCcCCcccccCCCcceeeeeecchhhhhhhhhhccCC
Q psy11693 179 HIMK--HEKEKLFSCNFCLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGELDSHVQTSHRG 256 (579)
Q Consensus 179 H~~~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~l~~h~~~~h~~ 256 (579)
=.+. ...+..|.|..|++.|.+...|+.|...+|.....-.- .-.|..... .
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~---a~~f~~s~~-----------------------~ 398 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEK---APKFLLSRV-----------------------I 398 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhc---ccCcchhhc-----------------------c
Confidence 1110 12245799999999999999999998777654322100 001110000 0
Q ss_pred CCCcccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCchhhccccccccCCCccccCCCCCcCCChhHHHhhh
Q psy11693 257 IKPYVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHL 336 (579)
Q Consensus 257 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 336 (579)
..-+-|..|+-.+...+.--.+...+........|+.|+..+.++..-..+.+.-..+..|.|.+|...|.+..+|.+|+
T Consensus 399 ~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhi 478 (500)
T KOG3993|consen 399 PLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHI 478 (500)
T ss_pred cccccccccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHh
Confidence 00122333333333222222222222222333456666666666555555555555555566666666666666666665
Q ss_pred c
Q psy11693 337 Y 337 (579)
Q Consensus 337 ~ 337 (579)
.
T Consensus 479 n 479 (500)
T KOG3993|consen 479 N 479 (500)
T ss_pred h
Confidence 4
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.84 E-value=1.1e-09 Score=74.92 Aligned_cols=43 Identities=16% Similarity=0.582 Sum_probs=28.9
Q ss_pred ceeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHH
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTY 444 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l 444 (579)
.|.|+.||+.|...++|..|+++|+ ++|+|..|++.|.+.+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 3667777777777777777777766 566777777776665554
No 17
>KOG3993|consensus
Probab=98.83 E-value=2.9e-10 Score=109.18 Aligned_cols=196 Identities=18% Similarity=0.279 Sum_probs=120.2
Q ss_pred CCcccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCchhhccccccccCCCccc--cCCCCC-cCCChhHHHh
Q psy11693 258 KPYVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFK--CSYCPK-AFSHKGHLNE 334 (579)
Q Consensus 258 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~--C~~C~~-~f~~~~~l~~ 334 (579)
..|.|..|...|.+...|.+|.-.-. ....|+|+.|+|.|....+|..|.+.|....--. =..=.+ .-.+....+.
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RI-V~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRI-VHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCee-EEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 45899999999999999999964221 1234999999999999999999999885332100 000000 0000011111
Q ss_pred hhcc--cCCCCccccCCCcccccChHHHHHHHhccCCCC-----------------CCCCccchhccCCHHHHHHHhhhh
Q psy11693 335 HLYT--HSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVL-----------------PHTCLECSKCFSTKSELNRHAQIH 395 (579)
Q Consensus 335 H~~~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~-----------------~~~C~~C~~~f~~~~~l~~H~~~h 395 (579)
-.+. ...+..|.|.+|+|.|.+...|+.|..+|.... -+-|..|+-.+.....-..+...+
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~ 424 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYV 424 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeee
Confidence 1111 133456888888888888888888876664211 134444544433322211121111
Q ss_pred CC-CcceeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHHHHHHHHHcCC
Q psy11693 396 GG-VKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVHGV 454 (579)
Q Consensus 396 ~~-~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 454 (579)
.+ .....|++||..+.++..-..+.+.-..+..|.|.+|.-+|.+...|.+|+...|..
T Consensus 425 a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 425 AGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred eccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 11 112457888887777665555554444456799999999999999999999998854
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.79 E-value=2e-09 Score=73.66 Aligned_cols=43 Identities=14% Similarity=0.362 Sum_probs=30.5
Q ss_pred CCCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCCHHHH
Q psy11693 372 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQL 416 (579)
Q Consensus 372 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~l 416 (579)
-|.|+.||+.|...++|..|+++|+ ++|+|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 3677777777777777777777777 567777777777765554
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.56 E-value=4.3e-08 Score=57.27 Aligned_cols=24 Identities=50% Similarity=0.996 Sum_probs=13.0
Q ss_pred HHHHHHHhCCCCcccccccccccc
Q psy11693 416 LQNHLYTHSKVKPYNCGICAKSFV 439 (579)
Q Consensus 416 l~~H~~~H~~~~~~~C~~C~~~f~ 439 (579)
|.+|+++|+|++||.|++|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 455555555555555555555554
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.55 E-value=3.7e-08 Score=57.53 Aligned_cols=26 Identities=46% Similarity=0.956 Sum_probs=21.7
Q ss_pred HHHHHhhhhCCCcceeccccchhcCC
Q psy11693 387 ELNRHAQIHGGVKPFACTVCNKSFLQ 412 (579)
Q Consensus 387 ~l~~H~~~h~~~k~~~C~~C~~~f~~ 412 (579)
+|.+|+++|+|++||.|+.|+++|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47888888888888888888888863
No 21
>PHA00616 hypothetical protein
Probab=98.34 E-value=2.9e-07 Score=59.88 Aligned_cols=34 Identities=21% Similarity=0.398 Sum_probs=21.8
Q ss_pred ceeccccchhcCCHHHHHHHHHHhCCCCcccccc
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGI 433 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~ 433 (579)
||.|..||+.|..+++|..|++.|+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4566666666666666666666666666666654
No 22
>PHA00616 hypothetical protein
Probab=98.30 E-value=3.5e-07 Score=59.48 Aligned_cols=34 Identities=21% Similarity=0.293 Sum_probs=27.8
Q ss_pred CCCCccchhccCCHHHHHHHhhhhCCCcceeccc
Q psy11693 372 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTV 405 (579)
Q Consensus 372 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~ 405 (579)
||+|+.||+.|..+++|.+|++.|+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5788888888888888888888888888887765
No 23
>PHA00732 hypothetical protein
Probab=98.05 E-value=2.5e-06 Score=64.74 Aligned_cols=46 Identities=35% Similarity=0.597 Sum_probs=26.0
Q ss_pred CCCCccchhccCCHHHHHHHhhh-hCCCcceeccccchhcCCHHHHHHHHHHh
Q psy11693 372 PHTCLECSKCFSTKSELNRHAQI-HGGVKPFACTVCNKSFLQKTQLQNHLYTH 423 (579)
Q Consensus 372 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~k~~~C~~C~~~f~~~~~l~~H~~~H 423 (579)
||.|..|++.|.+..+|..|++. |++ +.|+.||+.|. .|..|+.+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhccc
Confidence 35566666666666666666653 432 35666666665 355565443
No 24
>PHA00732 hypothetical protein
Probab=98.00 E-value=3.8e-06 Score=63.76 Aligned_cols=21 Identities=29% Similarity=0.521 Sum_probs=9.7
Q ss_pred eecccchhhcCCHHHHHHHHH
Q psy11693 107 FTCEVCQQAFTRNADLKVHSM 127 (579)
Q Consensus 107 ~~C~~C~~~f~~~~~L~~H~~ 127 (579)
|.|..|++.|.+...|+.|++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhh
Confidence 344444444444444444444
No 25
>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=97.93 E-value=1.4e-05 Score=56.27 Aligned_cols=50 Identities=30% Similarity=0.599 Sum_probs=32.1
Q ss_pred eeccccchhcCCHHHHHHHHHH-hCCC-CccccccccccccCHHHHHHHHHHHcC
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYT-HSKV-KPYNCGICAKSFVQRNTYIKHLEIVHG 453 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~-H~~~-~~~~C~~C~~~f~~~~~l~~H~~~~h~ 453 (579)
|.|++|++ ..+...|..|... |..+ +.+.|++|...+. .+|..|+...|+
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 67777777 3445667777654 3332 4577777777544 377777777764
No 26
>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=97.66 E-value=6.9e-05 Score=52.76 Aligned_cols=49 Identities=29% Similarity=0.502 Sum_probs=24.2
Q ss_pred CCCccchhccCCHHHHHHHhhh-hCCC-cceeccccchhcCCHHHHHHHHHHhC
Q psy11693 373 HTCLECSKCFSTKSELNRHAQI-HGGV-KPFACTVCNKSFLQKTQLQNHLYTHS 424 (579)
Q Consensus 373 ~~C~~C~~~f~~~~~l~~H~~~-h~~~-k~~~C~~C~~~f~~~~~l~~H~~~H~ 424 (579)
|.|++|++ ..+...|..|... |.++ +.+.|++|...+. .+|..|+..++
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 45555555 3334555555443 2222 3455666655433 25666665543
No 27
>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=97.64 E-value=3.5e-05 Score=43.64 Aligned_cols=20 Identities=40% Similarity=0.914 Sum_probs=8.5
Q ss_pred eccccchhcCCHHHHHHHHH
Q psy11693 402 ACTVCNKSFLQKTQLQNHLY 421 (579)
Q Consensus 402 ~C~~C~~~f~~~~~l~~H~~ 421 (579)
.|+.|++.|.++..|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 34444444444444444443
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.49 E-value=6.8e-05 Score=42.40 Aligned_cols=22 Identities=27% Similarity=0.771 Sum_probs=13.7
Q ss_pred eecccchhhcCCHHHHHHHHHh
Q psy11693 107 FTCEVCQQAFTRNADLKVHSMV 128 (579)
Q Consensus 107 ~~C~~C~~~f~~~~~L~~H~~~ 128 (579)
|.|++|++.|.+...|+.|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666654
No 29
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.45 E-value=2.7e-05 Score=72.63 Aligned_cols=25 Identities=36% Similarity=0.701 Sum_probs=18.4
Q ss_pred CCCccccccccccccCHHHHHHHHH
Q psy11693 425 KVKPYNCGICAKSFVQRNTYIKHLE 449 (579)
Q Consensus 425 ~~~~~~C~~C~~~f~~~~~l~~H~~ 449 (579)
.+|||+|++|++.|.....|+-|..
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCCceeccccchhhccCccceeccc
Confidence 3477888888888887777777754
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.36 E-value=0.00015 Score=41.44 Aligned_cols=23 Identities=48% Similarity=1.041 Sum_probs=10.1
Q ss_pred eeccccchhcCCHHHHHHHHHHh
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTH 423 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H 423 (579)
|.|++|++.|.+...|..|+++|
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 34444555555555554444443
No 31
>KOG2231|consensus
Probab=97.36 E-value=0.00028 Score=74.45 Aligned_cols=106 Identities=27% Similarity=0.518 Sum_probs=66.7
Q ss_pred cccccccccCCHHHHHHHHHHcCCcccccccc---------cccCChHHHHHHHHHhcC-CC----cccCCCCCCcCCCH
Q psy11693 136 KCELCYKMFSDKLLYEKHKMVHRQVFTCEVCM---------RSFNDRKEFNEHIMKHEK-EK----LFSCNFCLKPFLRK 201 (579)
Q Consensus 136 ~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~---------~~f~~~~~l~~H~~~h~~-~~----~~~C~~C~~~f~~~ 201 (579)
.|..| -.|.+...|+.|+..-++.+.|.+|- ....++..|..|++.-.. ++ --.|.+|...|...
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~ 195 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDD 195 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccH
Confidence 46666 66677788888886555566666653 223456777778775322 21 24688888888888
Q ss_pred HHHHHHHHhhcCCCCcccCCcCCcccccCCCcceeeeeecchhhhhhhhhhcc
Q psy11693 202 DLLEAHVNSVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGELDSHVQTSH 254 (579)
Q Consensus 202 ~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~l~~h~~~~h 254 (579)
..|.+|++..| |.|..|++. +..-.++....+|..|.+..|
T Consensus 196 ~el~rH~~~~h-----~~chfC~~~-------~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 196 DELYRHLRFDH-----EFCHFCDYK-------TGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred HHHHHhhccce-----eheeecCcc-------cccchhcccchHHHHHhhhcC
Confidence 88888887665 567777531 011123444667777776655
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=97.34 E-value=0.00017 Score=41.09 Aligned_cols=24 Identities=33% Similarity=0.798 Sum_probs=16.2
Q ss_pred cccccccccccCHHHHHHHHHHHc
Q psy11693 429 YNCGICAKSFVQRNTYIKHLEIVH 452 (579)
Q Consensus 429 ~~C~~C~~~f~~~~~l~~H~~~~h 452 (579)
|.|++|++.|.+...|..|++.+|
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 567777777777777777777665
No 33
>KOG1146|consensus
Probab=97.32 E-value=7.6e-05 Score=82.89 Aligned_cols=155 Identities=17% Similarity=0.169 Sum_probs=94.5
Q ss_pred ccccCChHHHHHHHH-HhcCCCcccCCCCCCcCCCHHHHHHHHHhhcCCCCcccCCcCCcccccCCCcceeeeeecchhh
Q psy11693 167 MRSFNDRKEFNEHIM-KHEKEKLFSCNFCLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGE 245 (579)
Q Consensus 167 ~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~ 245 (579)
+..+.+...+..|+. .+.-.+.|.|+.|+..|+....|..|++..|.+...- .|...-. ..
T Consensus 443 e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~---~c~~gq~---------------~~ 504 (1406)
T KOG1146|consen 443 EPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSA---YCKAGQN---------------HP 504 (1406)
T ss_pred hhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchh---HhHhccc---------------cc
Confidence 333344444444433 2444578999999999999999999999988765442 2211000 00
Q ss_pred hhhhhhhccCCCCCcccCCCccccCCHHHHHHHHHhhC------------------------------------------
Q psy11693 246 LDSHVQTSHRGIKPYVCEICSKAFTQQYNLKHHLLLHG------------------------------------------ 283 (579)
Q Consensus 246 l~~h~~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~------------------------------------------ 283 (579)
....+...-.+.++|.|..|...+....+|..|+..--
T Consensus 505 ~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~p 584 (1406)
T KOG1146|consen 505 RLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGP 584 (1406)
T ss_pred cccccccccCCCCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCC
Confidence 00001112345678999999999999999999986310
Q ss_pred CCCcccccccccccccCchhhccccccccCC-CccccCCCCCcCCChhHHHhhhccc
Q psy11693 284 DGNSLFRCDQCGKAFSRKGHLVQHSFVHGGE-KPFKCSYCPKAFSHKGHLNEHLYTH 339 (579)
Q Consensus 284 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~-~~~~C~~C~~~f~~~~~l~~H~~~h 339 (579)
.....+.|.+|++.-.-..+|+.|+..-... .|..|-.|+-.+.....+..+-+.+
T Consensus 585 ktkP~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 585 KTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred CCCCCcchhhhcchhhhhhccccccccCCCCCChHHHhhhcchhhccccccCcCCCC
Confidence 0012377888888877777888887643332 2355666665555555555554444
No 34
>KOG2231|consensus
Probab=97.32 E-value=0.00042 Score=73.16 Aligned_cols=51 Identities=24% Similarity=0.505 Sum_probs=32.8
Q ss_pred ccCCCccccCCHHHHHHHHHhhCCCCccccccccc------ccccCchhhccccccccCCCccccC
Q psy11693 261 VCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCG------KAFSRKGHLVQHSFVHGGEKPFKCS 320 (579)
Q Consensus 261 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~------~~f~~~~~L~~H~~~h~~~~~~~C~ 320 (579)
.|..|...|.....|.+|++.++ |.|..|+ ..|.....|..|.+.+| |.|+
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE 240 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCE 240 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC----cccc
Confidence 57888888888888888887664 5566663 33445555666555443 4555
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.26 E-value=7.8e-05 Score=69.66 Aligned_cols=70 Identities=21% Similarity=0.404 Sum_probs=36.5
Q ss_pred CCccccCC--CCCcCCChhHHHhhhcccC-CCCccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHH
Q psy11693 314 EKPFKCSY--CPKAFSHKGHLNEHLYTHS-ENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNR 390 (579)
Q Consensus 314 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 390 (579)
+|||+|++ |+|++++...|+.|+.--+ ..+...=+ .-..|...-...|||+|++|+|++.+...|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p----------~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKY 416 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP----------SPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC----------CccccccccccCCceeccccchhhccCcccee
Confidence 46677765 6677777767766654221 11100000 00000000123477888888888887777777
Q ss_pred Hhh
Q psy11693 391 HAQ 393 (579)
Q Consensus 391 H~~ 393 (579)
|+.
T Consensus 417 Hr~ 419 (423)
T COG5189 417 HRK 419 (423)
T ss_pred ccc
Confidence 753
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.23 E-value=0.00018 Score=58.32 Aligned_cols=71 Identities=21% Similarity=0.368 Sum_probs=12.7
Q ss_pred ecccchhhcCCHHHHHHHHHhccCCCcccccccccccCCHHHHHHHHHHcC-CcccccccccccCChHHHHHHHHH
Q psy11693 108 TCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKMVHR-QVFTCEVCMRSFNDRKEFNEHIMK 182 (579)
Q Consensus 108 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~-~~~~C~~C~~~f~~~~~l~~H~~~ 182 (579)
.|.+|+..|.+...|..|+...++-..- ....+.....+..+.+.-. ..+.|..|++.|.+...|..|++.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp ----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred Cccccccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcC
Confidence 3777777777777777777543322111 1111112222222322211 235555555555555555555554
No 37
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.19 E-value=0.00024 Score=57.53 Aligned_cols=24 Identities=25% Similarity=0.657 Sum_probs=12.8
Q ss_pred ccccccccccccCHHHHHHHHHHH
Q psy11693 428 PYNCGICAKSFVQRNTYIKHLEIV 451 (579)
Q Consensus 428 ~~~C~~C~~~f~~~~~l~~H~~~~ 451 (579)
.+.|.+|++.|.+...|..||+.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 455555555555555555555543
No 38
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.08 E-value=0.00025 Score=41.90 Aligned_cols=25 Identities=24% Similarity=0.570 Sum_probs=13.6
Q ss_pred ccccccccccccCHHHHHHHHHHHc
Q psy11693 428 PYNCGICAKSFVQRNTYIKHLEIVH 452 (579)
Q Consensus 428 ~~~C~~C~~~f~~~~~l~~H~~~~h 452 (579)
||.|..|++.|.+...|..|++.++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 3555555555555555555554443
No 39
>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=97.02 E-value=0.0003 Score=41.51 Aligned_cols=25 Identities=36% Similarity=0.816 Sum_probs=16.6
Q ss_pred ceeccccchhcCCHHHHHHHHHHhC
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHS 424 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~ 424 (579)
+|.|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4667777777777777777766654
No 40
>KOG1146|consensus
Probab=96.83 E-value=0.00055 Score=76.38 Aligned_cols=122 Identities=10% Similarity=0.039 Sum_probs=69.8
Q ss_pred ccCCCCCcCCChhHHHhhhccc----CCCCccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHHHhh
Q psy11693 318 KCSYCPKAFSHKGHLNEHLYTH----SENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQ 393 (579)
Q Consensus 318 ~C~~C~~~f~~~~~l~~H~~~h----~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 393 (579)
.|..|...|.....+..|-+-. .....+.|..|++.|...-.+. |+ ....+|.|..|...|.....|..|.
T Consensus 1230 ~~~~~e~~f~~~~~~~~~a~~~~~~~~~sGe~~c~~~~~~~~~~~~~~-~l---~~~~~~~~~~~~~~~~~~~~l~~~~- 1304 (1406)
T KOG1146|consen 1230 LPNALEQPFPQEPEPTATAPPKPPELPASGEGECGAVDELLTPSFGIS-TL---DVTHRYLCRQCKMAFDGEAPLTAHQ- 1304 (1406)
T ss_pred cHHhhhcCccCcccccccCCCCCCcCcCCCcchhhhccccccCcccee-ec---ccchhHHHHHHHhhhcchhHHHHHH-
Confidence 4555566666555555443311 1122355666666555544433 22 2233455666666666555555554
Q ss_pred hhCCCcceeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHHHHHHHHHcCCC
Q psy11693 394 IHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVHGVI 455 (579)
Q Consensus 394 ~h~~~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 455 (579)
..|.+.+.....+.-|...+...++| |.+|...|+....|..||+..++..
T Consensus 1305 ----------~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~~~~~~ 1355 (1406)
T KOG1146|consen 1305 ----------RKFCFAGRGSGGSMPPPLRVPDCTYH-CLACEVLLSGREALQIHMRSSAHRR 1355 (1406)
T ss_pred ----------HHHHhccCccccCCCCcccCcccccc-chHHHhhcchhHHHHHHHHHhhhcc
Confidence 12333444444444444445555677 9999999999999999999887643
No 41
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.62 E-value=0.00093 Score=70.35 Aligned_cols=149 Identities=27% Similarity=0.413 Sum_probs=104.7
Q ss_pred cccccccccccccCchhhccccc--cccCC--CccccC--CCCCcCCChhHHHhhhcccCCCCccccCCC--cccccChH
Q psy11693 287 SLFRCDQCGKAFSRKGHLVQHSF--VHGGE--KPFKCS--YCPKAFSHKGHLNEHLYTHSENKCFQCKYC--PKTFTLRK 358 (579)
Q Consensus 287 ~~~~C~~C~~~f~~~~~L~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C--~~~f~~~~ 358 (579)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.|..- ...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 36888888888888888888888 78888 888888 799999888888888888888887777653 33333222
Q ss_pred H-----HHHHHhccCCCCCCCCc--cchhccCCHHHHHHHhhhhCCCc--ceeccccchhcCCHHHHHHHHHHhCCCCcc
Q psy11693 359 H-----LKAHTNKHEGVLPHTCL--ECSKCFSTKSELNRHAQIHGGVK--PFACTVCNKSFLQKTQLQNHLYTHSKVKPY 429 (579)
Q Consensus 359 ~-----l~~H~~~h~~~~~~~C~--~C~~~f~~~~~l~~H~~~h~~~k--~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~ 429 (579)
. .......-.....+.|. .|...+.....+..|...|.... .+.+..|.+.|.....+..|++.|....++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 2 11111112223334443 36677777777777777776655 456677888888888888888888777776
Q ss_pred cccccc
Q psy11693 430 NCGICA 435 (579)
Q Consensus 430 ~C~~C~ 435 (579)
.|..++
T Consensus 448 ~~~~~~ 453 (467)
T COG5048 448 LCSILK 453 (467)
T ss_pred eecccc
Confidence 665443
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.44 E-value=0.0023 Score=36.46 Aligned_cols=23 Identities=30% Similarity=0.628 Sum_probs=12.2
Q ss_pred cccccccccccCHHHHHHHHHHHc
Q psy11693 429 YNCGICAKSFVQRNTYIKHLEIVH 452 (579)
Q Consensus 429 ~~C~~C~~~f~~~~~l~~H~~~~h 452 (579)
|+|+.|++... ...|.+|++.+|
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 45666665555 556666665555
No 43
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.34 E-value=0.0034 Score=59.67 Aligned_cols=33 Identities=21% Similarity=0.528 Sum_probs=21.3
Q ss_pred cccCC--CccccCCHHHHHHHHHhhCCCCccccccccc
Q psy11693 260 YVCEI--CSKAFTQQYNLKHHLLLHGDGNSLFRCDQCG 295 (579)
Q Consensus 260 ~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~ 295 (579)
|.|+. |.........|+.|.+..+. .+-|.+|-
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~---~~~C~~C~ 186 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG---FVLCSECI 186 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC---cEEhHhhh
Confidence 66753 66666667778888776432 35677764
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.32 E-value=0.0036 Score=36.13 Aligned_cols=20 Identities=40% Similarity=0.821 Sum_probs=8.6
Q ss_pred ccccchhcCCHHHHHHHHHH
Q psy11693 403 CTVCNKSFLQKTQLQNHLYT 422 (579)
Q Consensus 403 C~~C~~~f~~~~~l~~H~~~ 422 (579)
|..|++.|.....|..|++.
T Consensus 3 C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 3 CPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCcchhCCHHHHHHHHHH
Confidence 44444444444444444443
No 45
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.29 E-value=0.0043 Score=59.00 Aligned_cols=131 Identities=26% Similarity=0.506 Sum_probs=80.0
Q ss_pred ccccc--cccccCCHHHHHHHHHHcCCcccccccc---ccc------CChHHHHHHHHHhcCCCcc----cCCCCCCcCC
Q psy11693 135 HKCEL--CYKMFSDKLLYEKHKMVHRQVFTCEVCM---RSF------NDRKEFNEHIMKHEKEKLF----SCNFCLKPFL 199 (579)
Q Consensus 135 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~C~~C~---~~f------~~~~~l~~H~~~h~~~~~~----~C~~C~~~f~ 199 (579)
|.|+. |.........|+.|.+..+..+.|.+|- +.| -+...|+.|...-..+.-| .|.+|...|.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FY 231 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFY 231 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccceec
Confidence 66754 6776667777888887777777777773 223 2345566665543222222 4888888888
Q ss_pred CHHHHHHHHHhhcCCCCcccCCcCCcccccCCCcceeeeeecchhhhhhhhhhccCCCCCcccCC--Cc----cccCCHH
Q psy11693 200 RKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGGVGCVFLYYLSQGELDSHVQTSHRGIKPYVCEI--CS----KAFTQQY 273 (579)
Q Consensus 200 ~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~~~~~~~~~~~~~~l~~h~~~~h~~~~~~~C~~--C~----~~f~~~~ 273 (579)
+.+.|..|++..|. .|-+|++.-.. ...++.+...|..|.+..| |.|.. |. ..|....
T Consensus 232 dDDEL~~HcR~~HE-----~ChICD~v~p~------~~QYFK~Y~~Le~HF~~~h-----y~ct~qtc~~~k~~vf~~~~ 295 (493)
T COG5236 232 DDDELRRHCRLRHE-----ACHICDMVGPI------RYQYFKSYEDLEAHFRNAH-----YCCTFQTCRVGKCYVFPYHT 295 (493)
T ss_pred ChHHHHHHHHhhhh-----hhhhhhccCcc------chhhhhCHHHHHHHhhcCc-----eEEEEEEEecCcEEEeccHH
Confidence 88889888887664 46677654311 1123444566666665544 44432 22 3577777
Q ss_pred HHHHHHHh
Q psy11693 274 NLKHHLLL 281 (579)
Q Consensus 274 ~L~~H~~~ 281 (579)
.|..|+..
T Consensus 296 el~~h~~~ 303 (493)
T COG5236 296 ELLEHLTR 303 (493)
T ss_pred HHHHHHHH
Confidence 77777654
No 46
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.23 E-value=0.0054 Score=40.99 Aligned_cols=25 Identities=40% Similarity=0.728 Sum_probs=8.3
Q ss_pred ccccccccccccCHHHHHHHHHHHc
Q psy11693 428 PYNCGICAKSFVQRNTYIKHLEIVH 452 (579)
Q Consensus 428 ~~~C~~C~~~f~~~~~l~~H~~~~h 452 (579)
|-.|++|+..+.+..+|++|++..|
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHT
T ss_pred CCCCCcchhhccchhhHHHHHHHHh
Confidence 3333334443333444444443333
No 47
>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=96.22 E-value=0.0046 Score=41.30 Aligned_cols=33 Identities=27% Similarity=0.515 Sum_probs=24.4
Q ss_pred CCCcceeccccchhcCCHHHHHHHHHHhCCCCc
Q psy11693 396 GGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKP 428 (579)
Q Consensus 396 ~~~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~ 428 (579)
..+.|-.|++|+..+....+|++|+..+++.+|
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 456789999999999999999999998888775
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.05 E-value=0.0044 Score=35.25 Aligned_cols=23 Identities=35% Similarity=0.684 Sum_probs=15.3
Q ss_pred eeccccchhcCCHHHHHHHHHHhC
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHS 424 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~ 424 (579)
|+|+.|++... ...|.+|++.|+
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 56777777776 777777777654
No 49
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.04 E-value=0.0058 Score=35.25 Aligned_cols=24 Identities=42% Similarity=0.779 Sum_probs=14.4
Q ss_pred CCCccchhccCCHHHHHHHhhhhC
Q psy11693 373 HTCLECSKCFSTKSELNRHAQIHG 396 (579)
Q Consensus 373 ~~C~~C~~~f~~~~~l~~H~~~h~ 396 (579)
|.|..|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 456666666666666666665443
No 50
>PRK04860 hypothetical protein; Provisional
Probab=95.97 E-value=0.0029 Score=55.39 Aligned_cols=36 Identities=22% Similarity=0.669 Sum_probs=19.7
Q ss_pred ceeccccchhcCCHHHHHHHHHHhCCCCcccccccccccc
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFV 439 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~ 439 (579)
+|.|. |+. ....+++|.++|+++++|.|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 45555 554 3444555555555555555555555554
No 51
>KOG3598|consensus
Probab=95.91 E-value=0.0019 Score=72.03 Aligned_cols=19 Identities=32% Similarity=0.184 Sum_probs=13.7
Q ss_pred HHHHHHHhhhcccchhhhc
Q psy11693 557 QRMHQLYALHHDGYMTATA 575 (579)
Q Consensus 557 ~~llq~~a~~~~~~~~~~~ 575 (579)
++++|-||+=||.||--.|
T Consensus 2186 qqQqqtaalVRQlQ~qLs~ 2204 (2220)
T KOG3598|consen 2186 QQQQQTAALVRQLQMQLSA 2204 (2220)
T ss_pred HHHHHHHHHHHHHHHHhhh
Confidence 3446778999999986544
No 52
>KOG2785|consensus
Probab=95.82 E-value=0.01 Score=57.79 Aligned_cols=178 Identities=16% Similarity=0.265 Sum_probs=95.7
Q ss_pred CcccCCCccccCCHHHHHHHHHh--hCCC--Cccccc-ccccccccCchhhcccc---ccccCCCccccCCCCCcCCChh
Q psy11693 259 PYVCEICSKAFTQQYNLKHHLLL--HGDG--NSLFRC-DQCGKAFSRKGHLVQHS---FVHGGEKPFKCSYCPKAFSHKG 330 (579)
Q Consensus 259 ~~~C~~C~~~f~~~~~L~~H~~~--h~~~--~~~~~C-~~C~~~f~~~~~L~~H~---~~h~~~~~~~C~~C~~~f~~~~ 330 (579)
.|.|..|...|.+...-+.|+++ |.-. .+.+.= ++=-..|..+..-..-. ....++-++.|..|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 48999999999999988999874 3100 000000 01111121111000000 0123445678888888888888
Q ss_pred HHHhhhcccCCCCccccCCCcccccChHHHHHHHhccC-----------------CCCCCCCccchhccCCHHHHHHHhh
Q psy11693 331 HLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNKHE-----------------GVLPHTCLECSKCFSTKSELNRHAQ 393 (579)
Q Consensus 331 ~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~-----------------~~~~~~C~~C~~~f~~~~~l~~H~~ 393 (579)
....|+..-. ....+..|.+.-. ..+.-.+..+...+........+..
T Consensus 83 a~~~hl~Sk~---------------h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~ 147 (390)
T KOG2785|consen 83 AHENHLKSKK---------------HVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEE 147 (390)
T ss_pred hHHHHHHHhh---------------cchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhcc
Confidence 8877775321 1111112211000 0000013333333333222222211
Q ss_pred h------------hCCCcceeccccchhcCCHHHHHHHHHHhCCCC-----------------------cccccccc---
Q psy11693 394 I------------HGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVK-----------------------PYNCGICA--- 435 (579)
Q Consensus 394 ~------------h~~~k~~~C~~C~~~f~~~~~l~~H~~~H~~~~-----------------------~~~C~~C~--- 435 (579)
. .....|-.|-+|++.|.+...-..||..++|-- -|.|-+|+
T Consensus 148 dd~~Edi~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~ 227 (390)
T KOG2785|consen 148 DDEEEDIEEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELG 227 (390)
T ss_pred CcchhhhhhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEecccc
Confidence 1 111234678888888888888888888777542 27899999
Q ss_pred ccccCHHHHHHHHHHH
Q psy11693 436 KSFVQRNTYIKHLEIV 451 (579)
Q Consensus 436 ~~f~~~~~l~~H~~~~ 451 (579)
+.|.+....+.||...
T Consensus 228 ~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 228 RPFSSLEAVRAHMRDK 243 (390)
T ss_pred CcccccHHHHHHHhhc
Confidence 9999999999999753
No 53
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.72 E-value=0.0063 Score=34.99 Aligned_cols=22 Identities=27% Similarity=0.803 Sum_probs=15.3
Q ss_pred eecccchhhcCCHHHHHHHHHh
Q psy11693 107 FTCEVCQQAFTRNADLKVHSMV 128 (579)
Q Consensus 107 ~~C~~C~~~f~~~~~L~~H~~~ 128 (579)
|.|.+|++.|.+...|+.|++.
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 5677777777777777777654
No 54
>PRK04860 hypothetical protein; Provisional
Probab=95.71 E-value=0.003 Score=55.26 Aligned_cols=37 Identities=22% Similarity=0.655 Sum_probs=23.5
Q ss_pred CCCCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCC
Q psy11693 372 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQ 412 (579)
Q Consensus 372 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~ 412 (579)
+|.|. |+. ....+.+|.++|+|+++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 46665 665 45556666666666666777767666653
No 55
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.65 E-value=0.0057 Score=35.18 Aligned_cols=19 Identities=47% Similarity=0.987 Sum_probs=8.2
Q ss_pred eccccchhcCCHHHHHHHH
Q psy11693 402 ACTVCNKSFLQKTQLQNHL 420 (579)
Q Consensus 402 ~C~~C~~~f~~~~~l~~H~ 420 (579)
.|++|++.|.+...|..|+
T Consensus 2 ~C~~C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHL 20 (25)
T ss_dssp EETTTTEEESSHHHHHHHH
T ss_pred CCCCCCCCcCCHHHHHHHH
Confidence 3444444444444444444
No 56
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.65 E-value=0.0052 Score=64.64 Aligned_cols=153 Identities=25% Similarity=0.392 Sum_probs=115.2
Q ss_pred CCcccCCCccccCCHHHHHHHHH--hhCCCC--cccccc--cccccccCchhhccccccccCCCccccCC--CCCcCCCh
Q psy11693 258 KPYVCEICSKAFTQQYNLKHHLL--LHGDGN--SLFRCD--QCGKAFSRKGHLVQHSFVHGGEKPFKCSY--CPKAFSHK 329 (579)
Q Consensus 258 ~~~~C~~C~~~f~~~~~L~~H~~--~h~~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~ 329 (579)
.++.|..|...|.....|..|.+ .| .++ .++.|+ .|++.|.....+..|...|.+..++.|.. |...+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h-~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNH-SGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCcccccccccccccccc-ccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccc
Confidence 46899999999999999999999 67 566 899999 79999999999999999999998888765 34444333
Q ss_pred hHH-----HhhhcccCCCCccccCC--CcccccChHHHHHHHhccCCCC--CCCCccchhccCCHHHHHHHhhhhCCCcc
Q psy11693 330 GHL-----NEHLYTHSENKCFQCKY--CPKTFTLRKHLKAHTNKHEGVL--PHTCLECSKCFSTKSELNRHAQIHGGVKP 400 (579)
Q Consensus 330 ~~l-----~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~~~k~ 400 (579)
..- ......-.....+.|.. |...+.....+..|...|.... .+.+..|.+.|.....+..|.+.|....+
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAP 446 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCc
Confidence 221 11111223344455544 6667777777778877776655 56778899999999999999999988887
Q ss_pred eeccccchhcC
Q psy11693 401 FACTVCNKSFL 411 (579)
Q Consensus 401 ~~C~~C~~~f~ 411 (579)
+.|..++....
T Consensus 447 ~~~~~~~~~~~ 457 (467)
T COG5048 447 LLCSILKSFRR 457 (467)
T ss_pred eeeccccccch
Confidence 77766655443
No 57
>KOG2785|consensus
Probab=94.87 E-value=0.071 Score=52.15 Aligned_cols=77 Identities=25% Similarity=0.488 Sum_probs=44.2
Q ss_pred eeecccchhhcCCHHHHHHHHHh--ccCCC---cccc-cccccccCCHHH-----HHHHHHHcCCcccccccccccCChH
Q psy11693 106 VFTCEVCQQAFTRNADLKVHSMV--HKIAQ---LHKC-ELCYKMFSDKLL-----YEKHKMVHRQVFTCEVCMRSFNDRK 174 (579)
Q Consensus 106 ~~~C~~C~~~f~~~~~L~~H~~~--h~~~~---~~~C-~~C~~~f~~~~~-----l~~H~~~h~~~~~C~~C~~~f~~~~ 174 (579)
.|+|.-|...|.+...-+.|+++ |...- .+.= ++=-..|..+.. ...-...-..++.|..|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 58999999999999888888873 32110 0000 111112221111 1111122235678888888888888
Q ss_pred HHHHHHHH
Q psy11693 175 EFNEHIMK 182 (579)
Q Consensus 175 ~l~~H~~~ 182 (579)
....|+..
T Consensus 83 a~~~hl~S 90 (390)
T KOG2785|consen 83 AHENHLKS 90 (390)
T ss_pred hHHHHHHH
Confidence 88888765
No 58
>KOG3598|consensus
Probab=94.69 E-value=0.069 Score=60.32 Aligned_cols=15 Identities=33% Similarity=0.350 Sum_probs=9.2
Q ss_pred HHHHHHhhheeEecc
Q psy11693 13 LILLLTLTIVLVLPV 27 (579)
Q Consensus 13 ~~~~~~~~~~~~~~~ 27 (579)
.+|=|.|+|...+|.
T Consensus 1395 s~leLqLMIKq~~~d 1409 (2220)
T KOG3598|consen 1395 SLLELQLMIKQISPD 1409 (2220)
T ss_pred HHHHHHHHHHhcCCC
Confidence 455666777665554
No 59
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.58 E-value=0.023 Score=33.33 Aligned_cols=22 Identities=36% Similarity=0.803 Sum_probs=13.5
Q ss_pred cccCCCCCcCCChhHHHhhhcc
Q psy11693 317 FKCSYCPKAFSHKGHLNEHLYT 338 (579)
Q Consensus 317 ~~C~~C~~~f~~~~~l~~H~~~ 338 (579)
|.|..|++.|.+...|..|+++
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 4566666666666666666543
No 60
>KOG2482|consensus
Probab=94.43 E-value=0.1 Score=49.97 Aligned_cols=70 Identities=19% Similarity=0.329 Sum_probs=40.5
Q ss_pred eeecccchhhc-CCHHHHHHHHH-hccCC--CcccccccccccCCHHHHHHHHHHcCCcccccccccccCChHHHHHHHH
Q psy11693 106 VFTCEVCQQAF-TRNADLKVHSM-VHKIA--QLHKCELCYKMFSDKLLYEKHKMVHRQVFTCEVCMRSFNDRKEFNEHIM 181 (579)
Q Consensus 106 ~~~C~~C~~~f-~~~~~L~~H~~-~h~~~--~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f~~~~~l~~H~~ 181 (579)
...|-.|...+ .+++....|+- .|.-. .| .....-..|..|++..-..+.|-.|.+.|+++..|+.||+
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlp-------DniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMr 216 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLP-------DNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMR 216 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCC-------cceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHH
Confidence 45788887765 55666777764 33211 11 0011223455555554456777777777777777777776
Q ss_pred H
Q psy11693 182 K 182 (579)
Q Consensus 182 ~ 182 (579)
.
T Consensus 217 k 217 (423)
T KOG2482|consen 217 K 217 (423)
T ss_pred h
Confidence 4
No 61
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.24 E-value=0.021 Score=33.54 Aligned_cols=21 Identities=33% Similarity=0.759 Sum_probs=10.2
Q ss_pred CCCccchhccCCHHHHHHHhh
Q psy11693 373 HTCLECSKCFSTKSELNRHAQ 393 (579)
Q Consensus 373 ~~C~~C~~~f~~~~~l~~H~~ 393 (579)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 344555555555555544443
No 62
>KOG2482|consensus
Probab=94.12 E-value=0.074 Score=50.91 Aligned_cols=150 Identities=23% Similarity=0.407 Sum_probs=89.0
Q ss_pred chhhccccccccC-CCccccCCCCCcCC-ChhHHHhhhcc-cC---C------------------CCccccCCCcccccC
Q psy11693 301 KGHLVQHSFVHGG-EKPFKCSYCPKAFS-HKGHLNEHLYT-HS---E------------------NKCFQCKYCPKTFTL 356 (579)
Q Consensus 301 ~~~L~~H~~~h~~-~~~~~C~~C~~~f~-~~~~l~~H~~~-h~---~------------------~~~~~C~~C~~~f~~ 356 (579)
+..|..|.+--.+ .....|-+|...+. .++....|+-. |. | -..+.|-+|.+.|..
T Consensus 128 ~eaLeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrd 207 (423)
T KOG2482|consen 128 KEALEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRD 207 (423)
T ss_pred HHHHHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCC
Confidence 4456666543322 23457999987654 45556666542 21 1 134789999999999
Q ss_pred hHHHHHHHhc--cCCCCCCCCc----------cchhcc-CCHHHHHHHhhhhC-------------CCcc--eeccccch
Q psy11693 357 RKHLKAHTNK--HEGVLPHTCL----------ECSKCF-STKSELNRHAQIHG-------------GVKP--FACTVCNK 408 (579)
Q Consensus 357 ~~~l~~H~~~--h~~~~~~~C~----------~C~~~f-~~~~~l~~H~~~h~-------------~~k~--~~C~~C~~ 408 (579)
+..|+.||+. |....|-.=. .=|++- ...+.+.+-..... +..+ .+|-+|..
T Consensus 208 kntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~ 287 (423)
T KOG2482|consen 208 KNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTN 287 (423)
T ss_pred cHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeecc
Confidence 9999999875 4333331100 011110 00111100000001 1122 58999999
Q ss_pred hcCCHHHHHHHHHHhCCC---------------------------CccccccccccccCHHHHHHHHHH
Q psy11693 409 SFLQKTQLQNHLYTHSKV---------------------------KPYNCGICAKSFVQRNTYIKHLEI 450 (579)
Q Consensus 409 ~f~~~~~l~~H~~~H~~~---------------------------~~~~C~~C~~~f~~~~~l~~H~~~ 450 (579)
...+...|..||.+-+.- +.-.|..|...|.....|..||.-
T Consensus 288 ~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 288 FYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred chhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 999999999999853310 124688999999999999999964
No 63
>KOG1883|consensus
Probab=93.67 E-value=0.091 Score=58.15 Aligned_cols=26 Identities=27% Similarity=0.148 Sum_probs=15.7
Q ss_pred hhhhHHHHHHHHhhhcccchhhhccc
Q psy11693 552 HHMSQQRMHQLYALHHDGYMTATASI 577 (579)
Q Consensus 552 ~~~s~~~llq~~a~~~~~~~~~~~~~ 577 (579)
+.|--|-++|+.-|.+-++|-|.|--
T Consensus 1483 ~~~y~qHmqqH~h~~~~~~~~a~~h~ 1508 (1517)
T KOG1883|consen 1483 PMQYGQHMQQHPHLPHHQQMPAPMHT 1508 (1517)
T ss_pred chhhHHHHHhccCCCccccCCcchhc
Confidence 44445556676666666677766643
No 64
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.13 E-value=0.12 Score=29.60 Aligned_cols=19 Identities=32% Similarity=0.728 Sum_probs=9.0
Q ss_pred ccccccccccCHHHHHHHHH
Q psy11693 430 NCGICAKSFVQRNTYIKHLE 449 (579)
Q Consensus 430 ~C~~C~~~f~~~~~l~~H~~ 449 (579)
.|++||+.| ..+.|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 344555555 3444444443
No 65
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.80 E-value=0.14 Score=29.38 Aligned_cols=20 Identities=25% Similarity=0.755 Sum_probs=12.8
Q ss_pred eccccchhcCCHHHHHHHHHH
Q psy11693 402 ACTVCNKSFLQKTQLQNHLYT 422 (579)
Q Consensus 402 ~C~~C~~~f~~~~~l~~H~~~ 422 (579)
.|+.||+.| ..+.|..|+..
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 567777777 55666666643
No 66
>KOG4173|consensus
Probab=91.27 E-value=0.16 Score=44.98 Aligned_cols=74 Identities=26% Similarity=0.643 Sum_probs=50.5
Q ss_pred eeeeccc--chhhcCCHHHHHHHHHhccCCCcccccccccccCCHHHHHHHHHH-cC-----------Ccccc--ccccc
Q psy11693 105 QVFTCEV--CQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKMV-HR-----------QVFTC--EVCMR 168 (579)
Q Consensus 105 ~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~-----------~~~~C--~~C~~ 168 (579)
..|.|.+ |...|.+...++.|...-++ -.|..|.+.|.+...|..|+.. |. ..|.| +.|+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4578887 88999999989888754333 3699999999999999999653 32 23445 23555
Q ss_pred ccCChHHHHHHHH
Q psy11693 169 SFNDRKEFNEHIM 181 (579)
Q Consensus 169 ~f~~~~~l~~H~~ 181 (579)
.|.+...-.+|+-
T Consensus 155 KFkT~r~RkdH~I 167 (253)
T KOG4173|consen 155 KFKTSRDRKDHMI 167 (253)
T ss_pred hhhhhhhhhhHHH
Confidence 5555555555543
No 67
>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=90.40 E-value=0.19 Score=31.40 Aligned_cols=22 Identities=32% Similarity=0.760 Sum_probs=14.8
Q ss_pred ceeccccchhcCCHHHHHHHHH
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLY 421 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~ 421 (579)
+|.|++|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4667777777776666666664
No 68
>KOG4173|consensus
Probab=90.19 E-value=0.26 Score=43.70 Aligned_cols=29 Identities=21% Similarity=0.371 Sum_probs=16.8
Q ss_pred CCCccccc--cccccccCHHHHHHHHHHHcC
Q psy11693 425 KVKPYNCG--ICAKSFVQRNTYIKHLEIVHG 453 (579)
Q Consensus 425 ~~~~~~C~--~C~~~f~~~~~l~~H~~~~h~ 453 (579)
|...|.|- -|+..|.+...-..|+-..|.
T Consensus 141 G~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 141 GQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred CccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 33446663 366666666666666666554
No 69
>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=90.02 E-value=0.13 Score=31.83 Aligned_cols=24 Identities=25% Similarity=0.876 Sum_probs=14.3
Q ss_pred eeccccchhcCCHHHHHHHHHHhCCCCccccccccc
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAK 436 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~ 436 (579)
|.|.+||+.+.... .++.|++||.
T Consensus 2 ~~C~~CGy~y~~~~------------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE------------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc------------CCCcCcCCCC
Confidence 56667766654321 5667777764
No 70
>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=89.87 E-value=0.22 Score=31.11 Aligned_cols=23 Identities=22% Similarity=0.520 Sum_probs=21.0
Q ss_pred ccccccccccccCHHHHHHHHHH
Q psy11693 428 PYNCGICAKSFVQRNTYIKHLEI 450 (579)
Q Consensus 428 ~~~C~~C~~~f~~~~~l~~H~~~ 450 (579)
+|.|++|+..|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 68899999999999999999864
No 71
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.59 E-value=0.52 Score=38.14 Aligned_cols=48 Identities=19% Similarity=0.358 Sum_probs=26.1
Q ss_pred CCccchhccCCHHHHHHHhhhhCCCcceeccccchhcCCHHHHHHHHHHh
Q psy11693 374 TCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTH 423 (579)
Q Consensus 374 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~H 423 (579)
.|--|...|........- .-.....|.|+.|...|-..-+.-.|...|
T Consensus 57 ~C~~C~~~f~~~~~~~~~--~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFD--ELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCccccccc--ccccccceeCCCCCCccccccchhhhhhcc
Confidence 366666666543211100 011223577777777777776666776555
No 72
>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=89.01 E-value=0.68 Score=37.96 Aligned_cols=25 Identities=32% Similarity=0.545 Sum_probs=23.2
Q ss_pred ccc----ccccccccCHHHHHHHHHHHcC
Q psy11693 429 YNC----GICAKSFVQRNTYIKHLEIVHG 453 (579)
Q Consensus 429 ~~C----~~C~~~f~~~~~l~~H~~~~h~ 453 (579)
|.| ..|++.+.+...+.+|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999999886
No 73
>KOG2893|consensus
Probab=88.78 E-value=0.094 Score=47.45 Aligned_cols=46 Identities=35% Similarity=0.631 Sum_probs=19.6
Q ss_pred ccccccccCChHHHHHHHHHhcCCCcccCCCCCCcCCCHHHHHHHHHhhc
Q psy11693 163 CEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHVNSVH 212 (579)
Q Consensus 163 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H 212 (579)
|-+|++.|.+..-|..|.+. +.|+|.+|-+...+-..|..|-..+|
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhh
Confidence 33444444444444444332 22445555444444444444443444
No 74
>KOG2893|consensus
Probab=88.69 E-value=0.18 Score=45.65 Aligned_cols=42 Identities=26% Similarity=0.491 Sum_probs=31.1
Q ss_pred ccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCchhhccc
Q psy11693 261 VCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQH 307 (579)
Q Consensus 261 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H 307 (579)
.|-+|++.|.+...|..|.+..+ |+|.+|.+..-+--.|..|
T Consensus 12 wcwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceee
Confidence 47888888888888888876543 7888887776666666666
No 75
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.59 E-value=0.76 Score=37.22 Aligned_cols=24 Identities=21% Similarity=0.553 Sum_probs=10.8
Q ss_pred CCCCccchhccCCHHHHHHHhhhh
Q psy11693 372 PHTCLECSKCFSTKSELNRHAQIH 395 (579)
Q Consensus 372 ~~~C~~C~~~f~~~~~l~~H~~~h 395 (579)
.|.|+.|...|=..-++-.|...|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 344444444444444444444433
No 76
>PF11498 Activator_LAG-3: Transcriptional activator LAG-3; InterPro: IPR021587 The C.elegans Notch pathway, involved in the control of growth, differentiation and patterning in animal development, relies on either of the receptors GLP-1 or LIN-12 []. Both these receptors promote signalling by the recruitment of LAG-3 to target promoters, where it then acts as a transcriptional activator. LAG-3 works as a ternary complex together with the DNA binding protein, LAG-1 []. ; PDB: 2FO1_D.
Probab=88.55 E-value=0.13 Score=49.29 Aligned_cols=21 Identities=19% Similarity=0.248 Sum_probs=4.6
Q ss_pred CCceEEeeccccccchhhhHH
Q psy11693 48 VPMVQVADFVSGVWSLEYVEQ 68 (579)
Q Consensus 48 ~~~~~~~~~~~~~~~~~~~~~ 68 (579)
.+-.+++-+|++.......|+
T Consensus 26 LPnPddEP~vsdm~~~~~geE 46 (468)
T PF11498_consen 26 LPNPDDEPYVSDMRDYQAGEE 46 (468)
T ss_dssp --------SS--HHHHHHHHH
T ss_pred CCCCCCCcchhhhhhhhhhHH
Confidence 333333444555543333333
No 77
>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=88.43 E-value=0.63 Score=38.16 Aligned_cols=26 Identities=15% Similarity=0.353 Sum_probs=23.6
Q ss_pred ceec----cccchhcCCHHHHHHHHHHhCC
Q psy11693 400 PFAC----TVCNKSFLQKTQLQNHLYTHSK 425 (579)
Q Consensus 400 ~~~C----~~C~~~f~~~~~l~~H~~~H~~ 425 (579)
.|.| ..|++.+.+...+.+|++.++|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3899 9999999999999999998775
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=87.71 E-value=0.25 Score=33.69 Aligned_cols=31 Identities=29% Similarity=0.493 Sum_probs=24.0
Q ss_pred hcCCCcccCCCCCCcCCCHHHHHHHHHhhcC
Q psy11693 183 HEKEKLFSCNFCLKPFLRKDLLEAHVNSVHK 213 (579)
Q Consensus 183 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 213 (579)
..||..+.|+-|+..|....+..+|++..|.
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3567778888888888888888888877664
No 79
>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=86.67 E-value=0.4 Score=29.62 Aligned_cols=8 Identities=38% Similarity=1.256 Sum_probs=3.3
Q ss_pred ccccCCCC
Q psy11693 316 PFKCSYCP 323 (579)
Q Consensus 316 ~~~C~~C~ 323 (579)
++.|++||
T Consensus 17 ~~~CP~Cg 24 (33)
T cd00350 17 PWVCPVCG 24 (33)
T ss_pred CCcCcCCC
Confidence 33444443
No 80
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=86.15 E-value=0.37 Score=32.87 Aligned_cols=28 Identities=32% Similarity=0.699 Sum_probs=13.3
Q ss_pred CCccccccccccccCHHHHHHHHHHHcC
Q psy11693 426 VKPYNCGICAKSFVQRNTYIKHLEIVHG 453 (579)
Q Consensus 426 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 453 (579)
+.-+.|+-||..|....++.+|+...|+
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3334444444444444444555444444
No 81
>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=84.25 E-value=0.55 Score=29.21 Aligned_cols=25 Identities=28% Similarity=0.681 Sum_probs=15.3
Q ss_pred ceeccccchhcCCHHHHHHHHHHhCCCCccccccccc
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAK 436 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~ 436 (579)
.|.|.+||+.+... +.|..|++||.
T Consensus 2 ~~~C~~CG~i~~g~------------~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGE------------EAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECC------------cCCCcCcCCCC
Confidence 36777777665421 24567777775
No 82
>KOG2186|consensus
Probab=83.64 E-value=0.66 Score=42.85 Aligned_cols=49 Identities=29% Similarity=0.646 Sum_probs=33.8
Q ss_pred eeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHHHHHHHHHHc
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVH 452 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 452 (579)
|.|.+||.+.. +..+.+|+...++ .-|.|-.||..|.+ .++..|..-..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcc
Confidence 67777777765 3456667777666 56778888888877 66777765433
No 83
>KOG1883|consensus
Probab=81.19 E-value=2 Score=48.23 Aligned_cols=10 Identities=20% Similarity=0.155 Sum_probs=4.7
Q ss_pred Hhhhcccchh
Q psy11693 563 YALHHDGYMT 572 (579)
Q Consensus 563 ~a~~~~~~~~ 572 (579)
||||.+-=|+
T Consensus 1504 a~~h~~n~~~ 1513 (1517)
T KOG1883|consen 1504 APMHTMNPMM 1513 (1517)
T ss_pred cchhccCchh
Confidence 4555544443
No 84
>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=78.95 E-value=1.2 Score=36.16 Aligned_cols=30 Identities=23% Similarity=0.614 Sum_probs=23.4
Q ss_pred eeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCH
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQR 441 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~ 441 (579)
..|+.||+.|... +..|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 5689999998763 34788899999888755
No 85
>KOG2186|consensus
Probab=78.27 E-value=1.6 Score=40.46 Aligned_cols=46 Identities=26% Similarity=0.580 Sum_probs=29.9
Q ss_pred eeecccchhhcCCHHHHHHHHHhccCCCcccccccccccCCHHHHHHHH
Q psy11693 106 VFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHK 154 (579)
Q Consensus 106 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 154 (579)
.|.|.+||....-. .+.+|+....+ .-|.|-.|++.|.. ..+..|.
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 47788888776543 46677766555 55677777777765 4555554
No 86
>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=77.76 E-value=1.3 Score=35.99 Aligned_cols=30 Identities=23% Similarity=0.661 Sum_probs=17.5
Q ss_pred cccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCc
Q psy11693 260 YVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRK 301 (579)
Q Consensus 260 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~ 301 (579)
..|+.||++|... +..|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL------------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL------------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC------------CCCCccCCCCCCccCcc
Confidence 3566666666542 23556666666666544
No 87
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.43 E-value=1.3 Score=41.34 Aligned_cols=19 Identities=32% Similarity=0.564 Sum_probs=10.2
Q ss_pred ccccccccccccCchhhcc
Q psy11693 288 LFRCDQCGKAFSRKGHLVQ 306 (579)
Q Consensus 288 ~~~C~~C~~~f~~~~~L~~ 306 (579)
.+.|++|+..|.++.-...
T Consensus 5 ~~~CPvC~~~F~~~~vrs~ 23 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSG 23 (214)
T ss_pred ceECCCCCCeeeeeEEEcC
Confidence 3556666666655544333
No 88
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.01 E-value=0.94 Score=42.16 Aligned_cols=24 Identities=25% Similarity=0.510 Sum_probs=16.5
Q ss_pred CCccccCCCCCcCCChhHHHhhhc
Q psy11693 314 EKPFKCSYCPKAFSHKGHLNEHLY 337 (579)
Q Consensus 314 ~~~~~C~~C~~~f~~~~~l~~H~~ 337 (579)
++.+.|++|++.|.++.-+....+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 356788888888887765555443
No 89
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=74.78 E-value=2.5 Score=35.12 Aligned_cols=55 Identities=20% Similarity=0.432 Sum_probs=30.7
Q ss_pred eeeecccchhhcCCHHHHHHHHHhccCCCccccccccccc--CCHHHHHHHHHHcCCcccccccccccCChH
Q psy11693 105 QVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMF--SDKLLYEKHKMVHRQVFTCEVCMRSFNDRK 174 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f--~~~~~l~~H~~~h~~~~~C~~C~~~f~~~~ 174 (579)
..|+|.+|..+.....-| +|-.| ||..- .-...|.+|-.+| -.|+.|..+|++..
T Consensus 79 ~lYeCnIC~etS~ee~FL----------KPneC--CgY~iCn~Cya~LWK~~~~y---pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFL----------KPNEC--CGYSICNACYANLWKFCNLY---PVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcC----------Ccccc--cchHHHHHHHHHHHHHcccC---CCCCcccccccccc
Confidence 789999998876544333 35455 33322 1123455554443 25777777776543
No 90
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=74.24 E-value=1.7 Score=38.17 Aligned_cols=11 Identities=36% Similarity=0.763 Sum_probs=5.7
Q ss_pred CCCcccccccc
Q psy11693 425 KVKPYNCGICA 435 (579)
Q Consensus 425 ~~~~~~C~~C~ 435 (579)
|+.|-.|++||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 34455555555
No 91
>KOG1701|consensus
Probab=73.35 E-value=1.3 Score=44.22 Aligned_cols=120 Identities=17% Similarity=0.327 Sum_probs=53.3
Q ss_pred ecccchhhcCCHHHHHHHHHhccCCCcccccccccccCCHHHHHHHHHHc------CCcccccccccccCChHHHHHHHH
Q psy11693 108 TCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKMVH------RQVFTCEVCMRSFNDRKEFNEHIM 181 (579)
Q Consensus 108 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h------~~~~~C~~C~~~f~~~~~l~~H~~ 181 (579)
.|-.|+|...-...=-.=|..---..-|+|..|.+.......+..-.+.- ...-+|..|+.. ..+++.
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~------I~d~iL 349 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEP------IMDRIL 349 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhH------HHHHHH
Confidence 67788876554433222222111123477777766554433322111100 011246666653 344555
Q ss_pred HhcCC----CcccCCCCCCc-----CCCHHHHHHH-HHhhcCCCCcccCCcCCcccccCCCcc
Q psy11693 182 KHEKE----KLFSCNFCLKP-----FLRKDLLEAH-VNSVHKDVKKYNCEECDKYYLSQGGVG 234 (579)
Q Consensus 182 ~h~~~----~~~~C~~C~~~-----f~~~~~l~~H-~~~~H~~~~~~~C~~C~k~f~~~~~~~ 234 (579)
.-.|. .-|.|..|.+. |+-...=..| +...|. ...-+|..|++-..-..+..
T Consensus 350 rA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~-kfAPrCs~C~~PI~P~~G~~ 411 (468)
T KOG1701|consen 350 RALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHK-KFAPRCSVCGNPILPRDGKD 411 (468)
T ss_pred HhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhh-hcCcchhhccCCccCCCCCc
Confidence 44432 23667776543 4322221122 111121 11236888887766555443
No 92
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=71.06 E-value=3.1 Score=45.95 Aligned_cols=14 Identities=21% Similarity=0.627 Sum_probs=6.9
Q ss_pred cCCCCCcccCCCcc
Q psy11693 254 HRGIKPYVCEICSK 267 (579)
Q Consensus 254 h~~~~~~~C~~C~~ 267 (579)
|.......|..||.
T Consensus 457 H~~~~~L~CH~Cg~ 470 (730)
T COG1198 457 HKATGQLRCHYCGY 470 (730)
T ss_pred ecCCCeeEeCCCCC
Confidence 33334455555554
No 93
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=70.58 E-value=1.8 Score=37.63 Aligned_cols=14 Identities=29% Similarity=0.520 Sum_probs=7.6
Q ss_pred cccCCCCCcCCChh
Q psy11693 317 FKCSYCPKAFSHKG 330 (579)
Q Consensus 317 ~~C~~C~~~f~~~~ 330 (579)
+.|+.||++|.+..
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 55555665555443
No 94
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=70.58 E-value=3.4 Score=45.56 Aligned_cols=25 Identities=28% Similarity=0.705 Sum_probs=15.8
Q ss_pred CcccccccccccccCchhhccccccccCCCccccCCCCCc
Q psy11693 286 NSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKA 325 (579)
Q Consensus 286 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 325 (579)
.....|.+||.. ...|..|+.||..
T Consensus 460 ~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 460 TGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred CCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 345777777763 2346677777754
No 95
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=70.14 E-value=2.6 Score=28.00 Aligned_cols=27 Identities=15% Similarity=0.465 Sum_probs=17.8
Q ss_pred eeecccchhhcCCHHHHHHHHHhccCCCcccccccccc
Q psy11693 106 VFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKM 143 (579)
Q Consensus 106 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 143 (579)
.|.|..||..|.-. ...+.+|+.||..
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-----------CCCceECCCCCce
Confidence 47788888877633 2356778888743
No 96
>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=69.96 E-value=2.4 Score=27.02 Aligned_cols=7 Identities=29% Similarity=1.099 Sum_probs=2.7
Q ss_pred ccccccc
Q psy11693 291 CDQCGKA 297 (579)
Q Consensus 291 C~~C~~~ 297 (579)
|+.|+..
T Consensus 5 CP~C~~~ 11 (38)
T TIGR02098 5 CPNCKTS 11 (38)
T ss_pred CCCCCCE
Confidence 3333333
No 97
>KOG1280|consensus
Probab=69.93 E-value=10 Score=36.97 Aligned_cols=23 Identities=22% Similarity=0.482 Sum_probs=12.9
Q ss_pred ccccCCCcccccChHHHHHHHhc
Q psy11693 344 CFQCKYCPKTFTLRKHLKAHTNK 366 (579)
Q Consensus 344 ~~~C~~C~~~f~~~~~l~~H~~~ 366 (579)
.|.|++|++.-.+...|..|...
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s 101 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLS 101 (381)
T ss_pred cccCCcccccccchhHHHHHhhh
Confidence 45566666555555555555543
No 98
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=69.92 E-value=1.9 Score=32.88 Aligned_cols=12 Identities=25% Similarity=0.767 Sum_probs=7.3
Q ss_pred ceeccccchhcC
Q psy11693 400 PFACTVCNKSFL 411 (579)
Q Consensus 400 ~~~C~~C~~~f~ 411 (579)
-|.|..||+.|.
T Consensus 53 IW~C~kCg~~fA 64 (89)
T COG1997 53 IWKCRKCGAKFA 64 (89)
T ss_pred eEEcCCCCCeec
Confidence 366666666664
No 99
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=69.88 E-value=3.9 Score=27.13 Aligned_cols=24 Identities=25% Similarity=0.491 Sum_probs=10.4
Q ss_pred cccccccccccC----HHHHHHHHHHHc
Q psy11693 429 YNCGICAKSFVQ----RNTYIKHLEIVH 452 (579)
Q Consensus 429 ~~C~~C~~~f~~----~~~l~~H~~~~h 452 (579)
..|.+|++.+.. .+.|.+|++..|
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 445555554443 245555554433
No 100
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=68.85 E-value=2.8 Score=26.60 Aligned_cols=8 Identities=38% Similarity=1.099 Sum_probs=3.0
Q ss_pred cCCCcccc
Q psy11693 262 CEICSKAF 269 (579)
Q Consensus 262 C~~C~~~f 269 (579)
|+.|+..|
T Consensus 5 CP~C~~~f 12 (37)
T PF13719_consen 5 CPNCQTRF 12 (37)
T ss_pred CCCCCceE
Confidence 33333333
No 101
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=68.79 E-value=2.2 Score=37.15 Aligned_cols=15 Identities=33% Similarity=0.667 Sum_probs=8.7
Q ss_pred cccccccccccCchh
Q psy11693 289 FRCDQCGKAFSRKGH 303 (579)
Q Consensus 289 ~~C~~C~~~f~~~~~ 303 (579)
+.|+.||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 566666666655443
No 102
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=67.98 E-value=3.4 Score=26.05 Aligned_cols=8 Identities=25% Similarity=1.094 Sum_probs=3.1
Q ss_pred cccccccc
Q psy11693 291 CDQCGKAF 298 (579)
Q Consensus 291 C~~C~~~f 298 (579)
|+.|+..|
T Consensus 5 Cp~C~~~y 12 (36)
T PF13717_consen 5 CPNCQAKY 12 (36)
T ss_pred CCCCCCEE
Confidence 33333333
No 103
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=67.79 E-value=2.6 Score=29.50 Aligned_cols=12 Identities=17% Similarity=0.418 Sum_probs=6.8
Q ss_pred cCCccccccccc
Q psy11693 157 HRQVFTCEVCMR 168 (579)
Q Consensus 157 h~~~~~C~~C~~ 168 (579)
+..+|.|+.||.
T Consensus 47 ~g~~Y~Cp~CGF 58 (61)
T COG2888 47 LGNPYRCPKCGF 58 (61)
T ss_pred cCCceECCCcCc
Confidence 445566666654
No 104
>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=67.34 E-value=3.1 Score=34.38 Aligned_cols=32 Identities=13% Similarity=0.232 Sum_probs=23.6
Q ss_pred eeccccchhcCCHHHHHHHHHHhCCCCccccccccccccCHHH
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNT 443 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f~~~~~ 443 (579)
..|+.||+.|... +..|..|+.||..|.-...
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~ 41 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEA 41 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcchh
Confidence 5688888888653 3568889999988865533
No 105
>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=67.21 E-value=3.4 Score=23.88 Aligned_cols=7 Identities=29% Similarity=0.771 Sum_probs=2.6
Q ss_pred Cccchhc
Q psy11693 375 CLECSKC 381 (579)
Q Consensus 375 C~~C~~~ 381 (579)
|+.||..
T Consensus 17 Cp~CG~~ 23 (26)
T PF10571_consen 17 CPHCGYD 23 (26)
T ss_pred CCCCCCC
Confidence 3333333
No 106
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=67.04 E-value=3.8 Score=38.12 Aligned_cols=12 Identities=25% Similarity=0.786 Sum_probs=6.6
Q ss_pred eeeecccchhhc
Q psy11693 105 QVFTCEVCQQAF 116 (579)
Q Consensus 105 ~~~~C~~C~~~f 116 (579)
....|..|++.=
T Consensus 37 ~~MeCdkC~r~Q 48 (314)
T PF06524_consen 37 ALMECDKCQRKQ 48 (314)
T ss_pred ccccchhhhhhc
Confidence 345566666543
No 107
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=67.01 E-value=2.6 Score=28.24 Aligned_cols=29 Identities=14% Similarity=0.431 Sum_probs=15.3
Q ss_pred ceeccccchhcCCHHHHHHHHHHhCCCCccccccccccc
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSF 438 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f 438 (579)
.|.|+.||..|.... ......|+.||..+
T Consensus 3 ~y~C~~CG~~~~~~~----------~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCARCGREVELDE----------YGTGVRCPYCGYRI 31 (46)
T ss_pred EEECCCCCCEEEECC----------CCCceECCCCCCeE
Confidence 466666666654321 11145666666544
No 108
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=65.80 E-value=5.4 Score=35.11 Aligned_cols=18 Identities=17% Similarity=0.228 Sum_probs=9.2
Q ss_pred cceeccccchhcCCHHHH
Q psy11693 399 KPFACTVCNKSFLQKTQL 416 (579)
Q Consensus 399 k~~~C~~C~~~f~~~~~l 416 (579)
.-|.|+.|+..|+...++
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CeEECCCCCcEeeHHHHH
Confidence 345555555555555444
No 109
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=65.78 E-value=4.7 Score=35.02 Aligned_cols=37 Identities=16% Similarity=0.411 Sum_probs=20.4
Q ss_pred ceeeecccchhhcCCHHHHHHHHHhccCCCccccccccccc
Q psy11693 104 VQVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMF 144 (579)
Q Consensus 104 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 144 (579)
...|.|+.|+..|.....+.. .. ....|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEE
Confidence 346777777777765444322 01 12337777776544
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=65.13 E-value=5.7 Score=34.95 Aligned_cols=18 Identities=28% Similarity=0.399 Sum_probs=9.0
Q ss_pred eeeecccchhhcCCHHHH
Q psy11693 105 QVFTCEVCQQAFTRNADL 122 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L 122 (579)
..|.|+.|+..|+....+
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CeEECCCCCcEeeHHHHH
Confidence 345555555555544444
No 111
>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=65.05 E-value=3.4 Score=26.69 Aligned_cols=11 Identities=45% Similarity=1.555 Sum_probs=5.2
Q ss_pred ccccccccccc
Q psy11693 289 FRCDQCGKAFS 299 (579)
Q Consensus 289 ~~C~~C~~~f~ 299 (579)
|.|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44555554443
No 112
>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=64.73 E-value=3.3 Score=28.58 Aligned_cols=11 Identities=45% Similarity=1.404 Sum_probs=5.1
Q ss_pred ccccccccccc
Q psy11693 289 FRCDQCGKAFS 299 (579)
Q Consensus 289 ~~C~~C~~~f~ 299 (579)
|.|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44444444443
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=64.71 E-value=2.8 Score=36.80 Aligned_cols=23 Identities=30% Similarity=0.781 Sum_probs=15.8
Q ss_pred CCCCccchhccCCHHHHHHHhhhhCCCcceeccccc
Q psy11693 372 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCN 407 (579)
Q Consensus 372 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~ 407 (579)
.|.|++||.. +-|+-|..|++||
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 5777777753 4456677777777
No 114
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=64.42 E-value=4.5 Score=33.41 Aligned_cols=30 Identities=13% Similarity=0.223 Sum_probs=16.8
Q ss_pred cccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCc
Q psy11693 260 YVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRK 301 (579)
Q Consensus 260 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~ 301 (579)
..|+.||++|... +..|..|+.||..|...
T Consensus 10 r~Cp~cg~kFYDL------------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL------------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc------------CCCCccCCCcCCccCcc
Confidence 3566666666541 33456666666665444
No 115
>KOG4377|consensus
Probab=63.92 E-value=6.9 Score=39.04 Aligned_cols=22 Identities=18% Similarity=0.362 Sum_probs=18.3
Q ss_pred cchhccCCHHHHHHHhhhhCCC
Q psy11693 377 ECSKCFSTKSELNRHAQIHGGV 398 (579)
Q Consensus 377 ~C~~~f~~~~~l~~H~~~h~~~ 398 (579)
-|+..+.+.+.+..|.|.|...
T Consensus 408 Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 408 GCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred CCceEEEehhhhhhhhhhhhhh
Confidence 3889999999999999888643
No 116
>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=63.47 E-value=3.5 Score=38.31 Aligned_cols=25 Identities=20% Similarity=0.410 Sum_probs=14.1
Q ss_pred CCCCCccchhccCCHHHHHHHhhhh
Q psy11693 371 LPHTCLECSKCFSTKSELNRHAQIH 395 (579)
Q Consensus 371 ~~~~C~~C~~~f~~~~~l~~H~~~h 395 (579)
+++.|+.||........|..-.|+|
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCcccccccceeeeecc
Confidence 5566666666555555555544444
No 117
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=63.44 E-value=5 Score=34.87 Aligned_cols=15 Identities=20% Similarity=0.385 Sum_probs=9.0
Q ss_pred CcccccccccccCCH
Q psy11693 133 QLHKCELCYKMFSDK 147 (579)
Q Consensus 133 ~~~~C~~C~~~f~~~ 147 (579)
..|.|+.|+..|...
T Consensus 98 ~~Y~Cp~C~~~y~~~ 112 (147)
T smart00531 98 AYYKCPNCQSKYTFL 112 (147)
T ss_pred cEEECcCCCCEeeHH
Confidence 456666666666543
No 118
>PRK04023 DNA polymerase II large subunit; Validated
Probab=61.76 E-value=7.2 Score=43.87 Aligned_cols=12 Identities=17% Similarity=0.183 Sum_probs=6.0
Q ss_pred ccccchhhhHHH
Q psy11693 58 SGVWSLEYVEQS 69 (579)
Q Consensus 58 ~~~~~~~~~~~~ 69 (579)
...|..|.|.+.
T Consensus 421 Ps~y~~EWW~qe 432 (1121)
T PRK04023 421 PSSYCEEWWIQE 432 (1121)
T ss_pred CccccHHHHHHH
Confidence 334555555544
No 119
>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=60.74 E-value=8.3 Score=22.27 Aligned_cols=19 Identities=26% Similarity=0.665 Sum_probs=11.5
Q ss_pred ccccccccccCHHHHHHHHH
Q psy11693 430 NCGICAKSFVQRNTYIKHLE 449 (579)
Q Consensus 430 ~C~~C~~~f~~~~~l~~H~~ 449 (579)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666666 4456666655
No 120
>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=60.68 E-value=5.5 Score=24.34 Aligned_cols=9 Identities=22% Similarity=0.840 Sum_probs=4.0
Q ss_pred ccCCCcccc
Q psy11693 261 VCEICSKAF 269 (579)
Q Consensus 261 ~C~~C~~~f 269 (579)
.|..||..+
T Consensus 2 ~C~~Cg~~~ 10 (32)
T PF03604_consen 2 ICGECGAEV 10 (32)
T ss_dssp BESSSSSSE
T ss_pred CCCcCCCee
Confidence 344444443
No 121
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=59.67 E-value=7.5 Score=34.97 Aligned_cols=30 Identities=20% Similarity=0.541 Sum_probs=15.1
Q ss_pred cceeccccchhcCCHHHHHHHHHHhCCCCcccccccccc
Q psy11693 399 KPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKS 437 (579)
Q Consensus 399 k~~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~ 437 (579)
.-|.|+.|+..|+...++. .-|.|+.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 3355555555555544432 13556666543
No 122
>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=59.26 E-value=6.7 Score=36.20 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=20.3
Q ss_pred CCccccccccccccCHHHHHHHHHHHcCC
Q psy11693 426 VKPYNCGICAKSFVQRNTYIKHLEIVHGV 454 (579)
Q Consensus 426 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 454 (579)
+..|.|.+|++.|.-..-+++|+...|+.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 34588888888888888888888888863
No 123
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.81 E-value=5.2 Score=27.11 Aligned_cols=10 Identities=30% Similarity=1.378 Sum_probs=4.2
Q ss_pred cccccccccc
Q psy11693 289 FRCDQCGKAF 298 (579)
Q Consensus 289 ~~C~~C~~~f 298 (579)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4444444433
No 124
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=58.08 E-value=8.4 Score=34.63 Aligned_cols=15 Identities=33% Similarity=0.720 Sum_probs=6.5
Q ss_pred eeecccchhhcCCHH
Q psy11693 106 VFTCEVCQQAFTRNA 120 (579)
Q Consensus 106 ~~~C~~C~~~f~~~~ 120 (579)
.|.|+.|+..|+...
T Consensus 117 ~Y~Cp~C~~rytf~e 131 (178)
T PRK06266 117 FFFCPNCHIRFTFDE 131 (178)
T ss_pred EEECCCCCcEEeHHH
Confidence 344444444444333
No 125
>KOG1044|consensus
Probab=57.24 E-value=0.71 Score=47.82 Aligned_cols=14 Identities=43% Similarity=0.918 Sum_probs=8.6
Q ss_pred cccCCCCCCcCCCH
Q psy11693 188 LFSCNFCLKPFLRK 201 (579)
Q Consensus 188 ~~~C~~C~~~f~~~ 201 (579)
-|.|..|...|..-
T Consensus 91 cf~cs~ck~pf~~g 104 (670)
T KOG1044|consen 91 CFSCSTCKSPFKSG 104 (670)
T ss_pred cceecccCCCCCCC
Confidence 46666666666544
No 126
>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=57.19 E-value=5.2 Score=26.22 Aligned_cols=11 Identities=45% Similarity=1.561 Sum_probs=5.5
Q ss_pred ccccccccccc
Q psy11693 289 FRCDQCGKAFS 299 (579)
Q Consensus 289 ~~C~~C~~~f~ 299 (579)
|.|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 45555554443
No 127
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=55.52 E-value=9.3 Score=26.07 Aligned_cols=11 Identities=27% Similarity=0.694 Sum_probs=5.5
Q ss_pred eeccccchhcC
Q psy11693 401 FACTVCNKSFL 411 (579)
Q Consensus 401 ~~C~~C~~~f~ 411 (579)
-.|..|++.+.
T Consensus 19 a~C~~C~~~l~ 29 (50)
T smart00614 19 AKCKYCGKKLS 29 (50)
T ss_pred EEecCCCCEee
Confidence 34555555543
No 128
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=55.01 E-value=7.4 Score=27.41 Aligned_cols=12 Identities=25% Similarity=0.600 Sum_probs=7.2
Q ss_pred cCCccccccccc
Q psy11693 157 HRQVFTCEVCMR 168 (579)
Q Consensus 157 h~~~~~C~~C~~ 168 (579)
...+|+|+.||.
T Consensus 45 ~~~~Y~CP~CGF 56 (59)
T PRK14890 45 QSNPYTCPKCGF 56 (59)
T ss_pred cCCceECCCCCC
Confidence 345667777664
No 129
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=54.41 E-value=6.5 Score=27.90 Aligned_cols=40 Identities=25% Similarity=0.662 Sum_probs=19.8
Q ss_pred cceeccc--cchhcCCHHHHHHHHHHhCCCCcccccc----cccccc
Q psy11693 399 KPFACTV--CNKSFLQKTQLQNHLYTHSKVKPYNCGI----CAKSFV 439 (579)
Q Consensus 399 k~~~C~~--C~~~f~~~~~l~~H~~~H~~~~~~~C~~----C~~~f~ 439 (579)
.+..|+. |...+. +..|..|+...-..++..|.+ |+..+.
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 3455665 333333 445667766555556666666 666654
No 130
>PRK04023 DNA polymerase II large subunit; Validated
Probab=51.95 E-value=13 Score=42.06 Aligned_cols=9 Identities=33% Similarity=0.752 Sum_probs=4.6
Q ss_pred cccCCCccc
Q psy11693 345 FQCKYCPKT 353 (579)
Q Consensus 345 ~~C~~C~~~ 353 (579)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 445555544
No 131
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=51.91 E-value=6 Score=29.40 Aligned_cols=16 Identities=25% Similarity=0.621 Sum_probs=7.7
Q ss_pred CCccccC--CCCCcCCCh
Q psy11693 314 EKPFKCS--YCPKAFSHK 329 (579)
Q Consensus 314 ~~~~~C~--~C~~~f~~~ 329 (579)
++-+.|. .||.+|...
T Consensus 25 ~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 25 ERYHQCQNVNCSATFITY 42 (72)
T ss_pred eeeeecCCCCCCCEEEEE
Confidence 3344554 555555443
No 132
>PF14353 CpXC: CpXC protein
Probab=51.22 E-value=2.7 Score=35.54 Aligned_cols=18 Identities=28% Similarity=0.491 Sum_probs=8.1
Q ss_pred cccCCCCCcCCChhHHHh
Q psy11693 317 FKCSYCPKAFSHKGHLNE 334 (579)
Q Consensus 317 ~~C~~C~~~f~~~~~l~~ 334 (579)
|.|+.||..|.-...+..
T Consensus 39 ~~CP~Cg~~~~~~~p~lY 56 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPLLY 56 (128)
T ss_pred EECCCCCCceecCCCEEE
Confidence 445555555444433333
No 133
>PHA00626 hypothetical protein
Probab=50.53 E-value=12 Score=25.84 Aligned_cols=14 Identities=29% Similarity=0.565 Sum_probs=9.1
Q ss_pred CCcccCCCccccCC
Q psy11693 258 KPYVCEICSKAFTQ 271 (579)
Q Consensus 258 ~~~~C~~C~~~f~~ 271 (579)
..|.|+.||..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 34777777776654
No 134
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=50.14 E-value=5.8 Score=29.49 Aligned_cols=19 Identities=16% Similarity=0.544 Sum_probs=10.4
Q ss_pred Ccccccc--cccccccCchhh
Q psy11693 286 NSLFRCD--QCGKAFSRKGHL 304 (579)
Q Consensus 286 ~~~~~C~--~C~~~f~~~~~L 304 (579)
+.-+.|. .||.+|.....+
T Consensus 25 ~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 25 ERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred eeeeecCCCCCCCEEEEEEEE
Confidence 3445665 666666655443
No 135
>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=49.15 E-value=9.4 Score=32.25 Aligned_cols=24 Identities=33% Similarity=0.607 Sum_probs=10.7
Q ss_pred cccccccccccCHHHHHHHHHHHcCCC
Q psy11693 429 YNCGICAKSFVQRNTYIKHLEIVHGVI 455 (579)
Q Consensus 429 ~~C~~C~~~f~~~~~l~~H~~~~h~~~ 455 (579)
..|-+||+.|.. |++|++.+||..
T Consensus 73 i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred eEEccCCcccch---HHHHHHHccCCC
Confidence 345566666653 356666666543
No 136
>KOG4377|consensus
Probab=49.03 E-value=5.7 Score=39.61 Aligned_cols=21 Identities=10% Similarity=0.157 Sum_probs=16.0
Q ss_pred ccccccCHHHHHHHHHHHcCC
Q psy11693 434 CAKSFVQRNTYIKHLEIVHGV 454 (579)
Q Consensus 434 C~~~f~~~~~l~~H~~~~h~~ 454 (579)
|+..+.+.+.+..|.+.|-..
T Consensus 409 c~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 409 CEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred CceEEEehhhhhhhhhhhhhh
Confidence 788888888888887776543
No 137
>KOG2593|consensus
Probab=48.79 E-value=13 Score=37.76 Aligned_cols=39 Identities=18% Similarity=0.239 Sum_probs=24.6
Q ss_pred CCCcccccccccccCCHHHHHHHHHHcCCccccccccccc
Q psy11693 131 IAQLHKCELCYKMFSDKLLYEKHKMVHRQVFTCEVCMRSF 170 (579)
Q Consensus 131 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~~f 170 (579)
....|.|+.|.+.|..-..+.- +..-...|.|..|+-..
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L-~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL-LDNETGEFHCENCGGEL 163 (436)
T ss_pred ccccccCCccccchhhhHHHHh-hcccCceEEEecCCCch
Confidence 3346888888888876555421 11123678888887543
No 138
>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=47.07 E-value=14 Score=39.42 Aligned_cols=14 Identities=36% Similarity=0.712 Sum_probs=7.5
Q ss_pred hcCCCCcccCCcCC
Q psy11693 211 VHKDVKKYNCEECD 224 (579)
Q Consensus 211 ~H~~~~~~~C~~C~ 224 (579)
.|.......|..||
T Consensus 234 ~h~~~~~l~Ch~Cg 247 (505)
T TIGR00595 234 YHKKEGKLRCHYCG 247 (505)
T ss_pred EecCCCeEEcCCCc
Confidence 34444455666666
No 139
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=47.05 E-value=18 Score=34.73 Aligned_cols=25 Identities=32% Similarity=0.693 Sum_probs=17.0
Q ss_pred CCcccCCCccccCCHHHHHHHHHhh
Q psy11693 258 KPYVCEICSKAFTQQYNLKHHLLLH 282 (579)
Q Consensus 258 ~~~~C~~C~~~f~~~~~L~~H~~~h 282 (579)
..|.|+.|...|-..-+.-.|...|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 4577777777777766666666555
No 140
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=46.62 E-value=13 Score=30.11 Aligned_cols=13 Identities=23% Similarity=0.807 Sum_probs=8.5
Q ss_pred ccccccccccccC
Q psy11693 288 LFRCDQCGKAFSR 300 (579)
Q Consensus 288 ~~~C~~C~~~f~~ 300 (579)
.+.|+.|+..+..
T Consensus 16 ~~~C~~C~~~~~~ 28 (104)
T TIGR01384 16 VYVCPSCGYEKEK 28 (104)
T ss_pred eEECcCCCCcccc
Confidence 4677777766554
No 141
>KOG2593|consensus
Probab=46.18 E-value=17 Score=36.83 Aligned_cols=39 Identities=21% Similarity=0.491 Sum_probs=20.5
Q ss_pred cCCCCCCCCccchhccCCHHHHHHHhhhhCCCcceeccccch
Q psy11693 367 HEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNK 408 (579)
Q Consensus 367 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~ 408 (579)
-+...-|.|+.|.+.|.....+.- .-.....|.|..|+-
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred ccccccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 344455666666666665554432 222223466666653
No 142
>PF14353 CpXC: CpXC protein
Probab=46.03 E-value=16 Score=30.72 Aligned_cols=48 Identities=27% Similarity=0.526 Sum_probs=31.7
Q ss_pred cccCCCccccCCH----------HHHHHHHHhhCCCCcccccccccccccCchhhccccc
Q psy11693 260 YVCEICSKAFTQQ----------YNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQHSF 309 (579)
Q Consensus 260 ~~C~~C~~~f~~~----------~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~~ 309 (579)
..|+.|+..|... ..|+.-+. .+.-..|.|+.||..|.-...+..|-.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il--~g~l~~~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKIL--DGSLFSFTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH--cCCcCEEECCCCCCceecCCCEEEEcC
Confidence 4699999988542 23333332 233446999999999987777766643
No 143
>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=46.02 E-value=11 Score=31.82 Aligned_cols=26 Identities=38% Similarity=0.720 Sum_probs=15.5
Q ss_pred ceeccccchhcCCHHHHHHHHHHhCCCCc
Q psy11693 400 PFACTVCNKSFLQKTQLQNHLYTHSKVKP 428 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~~l~~H~~~H~~~~~ 428 (579)
-..|-.||+.|.. |++|++.|+|..|
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred eeEEccCCcccch---HHHHHHHccCCCH
Confidence 3678888888876 5888888877654
No 144
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=44.81 E-value=9.4 Score=31.88 Aligned_cols=15 Identities=33% Similarity=0.860 Sum_probs=9.2
Q ss_pred ceeccccchhcCCHH
Q psy11693 400 PFACTVCNKSFLQKT 414 (579)
Q Consensus 400 ~~~C~~C~~~f~~~~ 414 (579)
|++|..||+.|.+-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 356677777776543
No 145
>KOG3648|consensus
Probab=44.37 E-value=17 Score=38.47 Aligned_cols=17 Identities=0% Similarity=-0.343 Sum_probs=8.8
Q ss_pred cCCchhhhHHHHHHHHh
Q psy11693 548 ANSSHHMSQQRMHQLYA 564 (579)
Q Consensus 548 ~~~s~~~s~~~llq~~a 564 (579)
+++++.--.+|..|-||
T Consensus 89 ~~~~~~~~~~A~~~~~~ 105 (1179)
T KOG3648|consen 89 QPPFPAGGPPARRGGAG 105 (1179)
T ss_pred CCCcccCCCHHHhcCCC
Confidence 34455545555555554
No 146
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=44.34 E-value=8.1 Score=27.41 Aligned_cols=26 Identities=23% Similarity=0.523 Sum_probs=12.4
Q ss_pred HHHHHHhhhhCCCcceeccc----cchhcC
Q psy11693 386 SELNRHAQIHGGVKPFACTV----CNKSFL 411 (579)
Q Consensus 386 ~~l~~H~~~h~~~k~~~C~~----C~~~f~ 411 (579)
..|..|+...-..++..|.+ |+..+.
T Consensus 24 ~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 24 KELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp CCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred HHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 45555555444445556666 665554
No 147
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=43.97 E-value=18 Score=27.91 Aligned_cols=29 Identities=24% Similarity=0.592 Sum_probs=20.0
Q ss_pred ceeeecccchhhcCCHHHHHHHHHhccCCCccccccccc
Q psy11693 104 VQVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYK 142 (579)
Q Consensus 104 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~ 142 (579)
..+-.|..||..|.+.. ...|-+|+.|.-
T Consensus 56 v~Pa~CkkCGfef~~~~----------ik~pSRCP~CKS 84 (97)
T COG3357 56 VRPARCKKCGFEFRDDK----------IKKPSRCPKCKS 84 (97)
T ss_pred ecChhhcccCccccccc----------cCCcccCCcchh
Confidence 35567999999987621 245778888853
No 148
>KOG2807|consensus
Probab=43.83 E-value=30 Score=33.60 Aligned_cols=25 Identities=20% Similarity=0.430 Sum_probs=16.7
Q ss_pred cceeccccchhcCCHHHHHHHHHHh
Q psy11693 399 KPFACTVCNKSFLQKTQLQNHLYTH 423 (579)
Q Consensus 399 k~~~C~~C~~~f~~~~~l~~H~~~H 423 (579)
..|.|..|...|-..-+.-.|...|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 3477777777777666666665554
No 149
>KOG2461|consensus
Probab=42.61 E-value=15 Score=37.65 Aligned_cols=39 Identities=21% Similarity=0.275 Sum_probs=28.4
Q ss_pred CCcccccccccccccCchhhccccccccCCCccccCCCC
Q psy11693 285 GNSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCP 323 (579)
Q Consensus 285 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~ 323 (579)
......++.++..+.....+..+.....++++..+..+.
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (396)
T KOG2461|consen 207 SDSHNLADEESVSLKEQGQLLEPVEVASGPQPVKAGTGH 245 (396)
T ss_pred cccCCccccccccccccccccccccccCcccccccCCCC
Confidence 455567778888888878888888888887776665544
No 150
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=41.86 E-value=23 Score=29.57 Aligned_cols=56 Identities=21% Similarity=0.524 Sum_probs=30.6
Q ss_pred CcccccccccccccCchhhccccccccCCCccccCCCCCcCCC--hhHHHhhhcccCCCCccccCCCcccccChH
Q psy11693 286 NSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSH--KGHLNEHLYTHSENKCFQCKYCPKTFTLRK 358 (579)
Q Consensus 286 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~--~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 358 (579)
...|.|.+|..+.....-| ||-.| ||.+.-. -..|+.|-.+|. .||.|.-+|.+.+
T Consensus 78 ~~lYeCnIC~etS~ee~FL----------KPneC--CgY~iCn~Cya~LWK~~~~yp-----vCPvCkTSFKss~ 135 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFL----------KPNEC--CGYSICNACYANLWKFCNLYP-----VCPVCKTSFKSSS 135 (140)
T ss_pred CCceeccCcccccchhhcC----------Ccccc--cchHHHHHHHHHHHHHcccCC-----CCCcccccccccc
Confidence 3678888887765544433 23333 3332211 245666665553 5777777776543
No 151
>PF12907 zf-met2: Zinc-binding
Probab=41.11 E-value=16 Score=23.59 Aligned_cols=26 Identities=19% Similarity=0.464 Sum_probs=13.0
Q ss_pred ccCCCCCC---cCCCHHHHHHHHHhhcCC
Q psy11693 189 FSCNFCLK---PFLRKDLLEAHVNSVHKD 214 (579)
Q Consensus 189 ~~C~~C~~---~f~~~~~l~~H~~~~H~~ 214 (579)
+.|.+|.. ...+...|..|....|..
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCC
Confidence 34555552 333445566665555544
No 152
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=40.91 E-value=9.6 Score=22.90 Aligned_cols=11 Identities=18% Similarity=0.401 Sum_probs=5.9
Q ss_pred CCccccccccc
Q psy11693 426 VKPYNCGICAK 436 (579)
Q Consensus 426 ~~~~~C~~C~~ 436 (579)
...|.|+.|+.
T Consensus 17 ~~~~vCp~C~~ 27 (30)
T PF08274_consen 17 GELLVCPECGH 27 (30)
T ss_dssp SSSEEETTTTE
T ss_pred CCEEeCCcccc
Confidence 34556666654
No 153
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=40.46 E-value=28 Score=40.59 Aligned_cols=15 Identities=13% Similarity=0.100 Sum_probs=9.6
Q ss_pred cccccchhhhHHHHH
Q psy11693 57 VSGVWSLEYVEQSKE 71 (579)
Q Consensus 57 ~~~~~~~~~~~~~~~ 71 (579)
+...|..|.|.+.-+
T Consensus 440 ~P~~y~~EWw~~e~~ 454 (1337)
T PRK14714 440 LPASYCEEWWIQELV 454 (1337)
T ss_pred CCccchHHHHHHHHH
Confidence 345577777777554
No 154
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=40.40 E-value=16 Score=23.04 Aligned_cols=8 Identities=38% Similarity=1.555 Sum_probs=3.7
Q ss_pred cccccccc
Q psy11693 291 CDQCGKAF 298 (579)
Q Consensus 291 C~~C~~~f 298 (579)
|+.||..|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 44444443
No 155
>PRK14873 primosome assembly protein PriA; Provisional
Probab=39.45 E-value=20 Score=39.68 Aligned_cols=9 Identities=22% Similarity=0.571 Sum_probs=4.3
Q ss_pred CcccCCcCC
Q psy11693 216 KKYNCEECD 224 (579)
Q Consensus 216 ~~~~C~~C~ 224 (579)
....|..||
T Consensus 409 ~~l~Ch~CG 417 (665)
T PRK14873 409 GTPRCRWCG 417 (665)
T ss_pred CeeECCCCc
Confidence 344455554
No 156
>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=39.42 E-value=22 Score=37.98 Aligned_cols=11 Identities=18% Similarity=0.443 Sum_probs=5.4
Q ss_pred CCCcccCCCcc
Q psy11693 257 IKPYVCEICSK 267 (579)
Q Consensus 257 ~~~~~C~~C~~ 267 (579)
.....|..||.
T Consensus 238 ~~~l~Ch~Cg~ 248 (505)
T TIGR00595 238 EGKLRCHYCGY 248 (505)
T ss_pred CCeEEcCCCcC
Confidence 33445555554
No 157
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=38.80 E-value=16 Score=28.75 Aligned_cols=12 Identities=33% Similarity=0.769 Sum_probs=5.8
Q ss_pred eeccccchhcCC
Q psy11693 401 FACTVCNKSFLQ 412 (579)
Q Consensus 401 ~~C~~C~~~f~~ 412 (579)
+.|..||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 345555555544
No 158
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=38.37 E-value=8.8 Score=41.51 Aligned_cols=79 Identities=19% Similarity=0.396 Sum_probs=46.8
Q ss_pred cccCCCccccCCHHHHHHHHHhhCCCCcc-cccccccccccCchhhccccccccCCCcc-ccCCCCCcCCChhHHHhhhc
Q psy11693 260 YVCEICSKAFTQQYNLKHHLLLHGDGNSL-FRCDQCGKAFSRKGHLVQHSFVHGGEKPF-KCSYCPKAFSHKGHLNEHLY 337 (579)
Q Consensus 260 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~-~~C~~C~~~f~~~~~L~~H~~~h~~~~~~-~C~~C~~~f~~~~~l~~H~~ 337 (579)
-.|+.|-+.+.+..+-+-+ .| ..|..||-.|+-...|-.-. -.+.-+.| -|+.|.+.|.+..+-+-|.
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~--------YPF~~CT~CGPRfTIi~alPYDR-~nTsM~~F~lC~~C~~EY~dP~nRRfHA- 171 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYL--------YPFINCTNCGPRFTIIEALPYDR-ENTSMADFPLCPFCDKEYKDPLNRRFHA- 171 (750)
T ss_pred hhhHHHHHHhcCCCCccee--------ccccccCCCCcceeeeccCCCCc-ccCccccCcCCHHHHHHhcCcccccccc-
Confidence 3577777665553321111 11 24888888888776664432 22333333 4888888888777655554
Q ss_pred ccCCCCccccCCCccc
Q psy11693 338 THSENKCFQCKYCPKT 353 (579)
Q Consensus 338 ~h~~~~~~~C~~C~~~ 353 (579)
.+..|+.||-.
T Consensus 172 -----Qp~aCp~CGP~ 182 (750)
T COG0068 172 -----QPIACPKCGPH 182 (750)
T ss_pred -----ccccCcccCCC
Confidence 34678888864
No 159
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=38.30 E-value=17 Score=24.92 Aligned_cols=12 Identities=17% Similarity=0.894 Sum_probs=7.5
Q ss_pred eecccchhhcCC
Q psy11693 107 FTCEVCQQAFTR 118 (579)
Q Consensus 107 ~~C~~C~~~f~~ 118 (579)
|.|.+||..|.-
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 567777766653
No 160
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=38.16 E-value=19 Score=33.32 Aligned_cols=28 Identities=21% Similarity=0.552 Sum_probs=16.5
Q ss_pred CcccccccccccCChHHHHHHHHHhcCC
Q psy11693 159 QVFTCEVCMRSFNDRKEFNEHIMKHEKE 186 (579)
Q Consensus 159 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 186 (579)
..|.|..|++.|+...-.++|+..-|.+
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 3567777777777777777777665543
No 161
>KOG1244|consensus
Probab=37.47 E-value=30 Score=32.66 Aligned_cols=12 Identities=42% Similarity=0.811 Sum_probs=6.9
Q ss_pred CCcccCCCCCCc
Q psy11693 186 EKLFSCNFCLKP 197 (579)
Q Consensus 186 ~~~~~C~~C~~~ 197 (579)
+....|..||+.
T Consensus 244 eelvscsdcgrs 255 (336)
T KOG1244|consen 244 EELVSCSDCGRS 255 (336)
T ss_pred hhhcchhhcCCC
Confidence 445666666653
No 162
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=37.41 E-value=7.3 Score=38.19 Aligned_cols=39 Identities=18% Similarity=0.433 Sum_probs=21.3
Q ss_pred CCCccccCCCCCcCCChhHHHhhhcccCCCCccccCCCcccc
Q psy11693 313 GEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTF 354 (579)
Q Consensus 313 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 354 (579)
++..-.|++||..=.- ++ .+.....|.+-..|..|+-..
T Consensus 184 ~~~~~~CPvCGs~P~~--s~-v~~~~~~G~RyL~CslC~teW 222 (309)
T PRK03564 184 GEQRQFCPVCGSMPVS--SV-VQIGTTQGLRYLHCNLCESEW 222 (309)
T ss_pred ccCCCCCCCCCCcchh--he-eeccCCCCceEEEcCCCCCcc
Confidence 3344568888854211 11 123334566667788887554
No 163
>KOG4167|consensus
Probab=36.63 E-value=12 Score=40.28 Aligned_cols=27 Identities=22% Similarity=0.577 Sum_probs=23.6
Q ss_pred ceeeecccchhhcCCHHHHHHHHHhcc
Q psy11693 104 VQVFTCEVCQQAFTRNADLKVHSMVHK 130 (579)
Q Consensus 104 ~~~~~C~~C~~~f~~~~~L~~H~~~h~ 130 (579)
...|.|..|+|.|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 467999999999999999999998884
No 164
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=36.48 E-value=16 Score=35.90 Aligned_cols=49 Identities=18% Similarity=0.437 Sum_probs=29.5
Q ss_pred cccccccccccccCchhhccccccccCCCccccCCCCCcCCChhHHHhhhcccCCCCccccCCCcc
Q psy11693 287 SLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPK 352 (579)
Q Consensus 287 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 352 (579)
..-.|++||..=. .+ +. +.....|.+-..|..|+..+.. ....|+.||.
T Consensus 186 ~~~~CPvCGs~P~-~s-~v-~~~~~~G~RyL~CslC~teW~~--------------~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPV-SS-VV-QIGTTQGLRYLHCNLCESEWHV--------------VRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcch-hh-ee-eccCCCCceEEEcCCCCCcccc--------------cCccCCCCCC
Confidence 3467999986432 11 11 2333457777889999865532 1256888884
No 165
>KOG4124|consensus
Probab=36.07 E-value=8.4 Score=37.53 Aligned_cols=22 Identities=41% Similarity=0.892 Sum_probs=10.0
Q ss_pred CccccC--CCCCcCCChhHHHhhh
Q psy11693 315 KPFKCS--YCPKAFSHKGHLNEHL 336 (579)
Q Consensus 315 ~~~~C~--~C~~~f~~~~~l~~H~ 336 (579)
++|+|. .|++.+.....|..|.
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~ 371 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHK 371 (442)
T ss_pred CCCCCCCCcchhhcccCcceeecc
Confidence 344443 2555554444444443
No 166
>PRK05580 primosome assembly protein PriA; Validated
Probab=35.66 E-value=26 Score=39.00 Aligned_cols=11 Identities=18% Similarity=0.715 Sum_probs=5.3
Q ss_pred CCCcccCCcCC
Q psy11693 214 DVKKYNCEECD 224 (579)
Q Consensus 214 ~~~~~~C~~C~ 224 (579)
......|..||
T Consensus 405 ~~~~l~Ch~Cg 415 (679)
T PRK05580 405 FQRRLRCHHCG 415 (679)
T ss_pred CCCeEECCCCc
Confidence 33444555555
No 167
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.56 E-value=25 Score=38.89 Aligned_cols=9 Identities=44% Similarity=1.069 Sum_probs=5.0
Q ss_pred ccccccccc
Q psy11693 288 LFRCDQCGK 296 (579)
Q Consensus 288 ~~~C~~C~~ 296 (579)
...|.+||.
T Consensus 410 ~l~Ch~CG~ 418 (665)
T PRK14873 410 TPRCRWCGR 418 (665)
T ss_pred eeECCCCcC
Confidence 455666654
No 168
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=35.46 E-value=32 Score=40.08 Aligned_cols=10 Identities=30% Similarity=1.142 Sum_probs=6.2
Q ss_pred cccccccccc
Q psy11693 288 LFRCDQCGKA 297 (579)
Q Consensus 288 ~~~C~~C~~~ 297 (579)
.|.|+.||..
T Consensus 692 vy~CPsCGae 701 (1337)
T PRK14714 692 VYVCPDCGAE 701 (1337)
T ss_pred ceeCccCCCc
Confidence 3567767664
No 169
>KOG2807|consensus
Probab=35.45 E-value=53 Score=32.00 Aligned_cols=35 Identities=14% Similarity=0.337 Sum_probs=23.7
Q ss_pred CcccccccccccCChHHHHHHHHHhcCCCcccCCCCCCcCCCHHHHHHH
Q psy11693 159 QVFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAH 207 (579)
Q Consensus 159 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 207 (579)
.-|.|+.|.... -.-|..|+.|+-.......|.+-
T Consensus 275 ~Gy~CP~Ckakv--------------CsLP~eCpiC~ltLVss~hLARS 309 (378)
T KOG2807|consen 275 GGYFCPQCKAKV--------------CSLPIECPICSLTLVSSPHLARS 309 (378)
T ss_pred CceeCCcccCee--------------ecCCccCCccceeEecchHHHHH
Confidence 457777776542 24567788888877777777654
No 170
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.43 E-value=20 Score=28.61 Aligned_cols=26 Identities=19% Similarity=0.200 Sum_probs=14.8
Q ss_pred eccccchhcCCHHHHHHHHHHhCCCCccccccccccc
Q psy11693 402 ACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSF 438 (579)
Q Consensus 402 ~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f 438 (579)
.|+.||+.|... +..|..|++||++|
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~ 36 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSY 36 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccc
Confidence 356666666432 24566666666666
No 171
>PF15269 zf-C2H2_7: Zinc-finger
Probab=35.27 E-value=27 Score=22.83 Aligned_cols=22 Identities=18% Similarity=0.547 Sum_probs=14.8
Q ss_pred cccccccccccCHHHHHHHHHH
Q psy11693 429 YNCGICAKSFVQRNTYIKHLEI 450 (579)
Q Consensus 429 ~~C~~C~~~f~~~~~l~~H~~~ 450 (579)
|+|-.|..+...++.|..||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5666677777777777777653
No 172
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=35.18 E-value=15 Score=28.52 Aligned_cols=13 Identities=31% Similarity=0.971 Sum_probs=6.8
Q ss_pred ccccccccccccc
Q psy11693 287 SLFRCDQCGKAFS 299 (579)
Q Consensus 287 ~~~~C~~C~~~f~ 299 (579)
..+.|..|++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PTZ00255 53 GIWRCKGCKKTVA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 3455555555554
No 173
>KOG4167|consensus
Probab=35.07 E-value=13 Score=40.05 Aligned_cols=24 Identities=33% Similarity=0.732 Sum_probs=22.6
Q ss_pred eeccccchhcCCHHHHHHHHHHhC
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHS 424 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~ 424 (579)
|.|..|++.|..-..+..||++|.
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHH
Confidence 999999999999999999999984
No 174
>KOG2071|consensus
Probab=34.85 E-value=31 Score=36.61 Aligned_cols=71 Identities=20% Similarity=0.420 Sum_probs=0.0
Q ss_pred CCCCcccCCCccccCCHHHHHHHHHhhCCCCcc-----------------------cccccccccccCchhhcc------
Q psy11693 256 GIKPYVCEICSKAFTQQYNLKHHLLLHGDGNSL-----------------------FRCDQCGKAFSRKGHLVQ------ 306 (579)
Q Consensus 256 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~-----------------------~~C~~C~~~f~~~~~L~~------ 306 (579)
...+..|..||.+|.+......|+..|.+.... +.|..=+...........
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n~~~r~s~~~~~sR~Wf~s~s~W~~~K~~e~t~e~~~~~~~~~~~~ 494 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKNTTIRGSSKWQKSRSWFPSKSGWLAAKAGEETDEKEKVEHEELQIK 494 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhhhhhhhhhhcccccccccccceeechhhhccccccccccccccccchhhcch
Q ss_pred --------ccccccC-CCccccCCCCCcC
Q psy11693 307 --------HSFVHGG-EKPFKCSYCPKAF 326 (579)
Q Consensus 307 --------H~~~h~~-~~~~~C~~C~~~f 326 (579)
-..+-.. ++...|++|+..|
T Consensus 495 ~~~s~~~k~~~Vp~d~e~~~~C~IC~EkF 523 (579)
T KOG2071|consen 495 KELSLRSKYELVPADSERQASCPICQEKF 523 (579)
T ss_pred hhhhhhccceecccCcccccCCccccccc
No 175
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=34.00 E-value=36 Score=22.12 Aligned_cols=23 Identities=26% Similarity=0.405 Sum_probs=12.5
Q ss_pred ccccccccccC--CHHHHHHHHHHc
Q psy11693 135 HKCELCYKMFS--DKLLYEKHKMVH 157 (579)
Q Consensus 135 ~~C~~C~~~f~--~~~~l~~H~~~h 157 (579)
-+|+.||..|. ....-..|.+.|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 35666666553 344555555554
No 176
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=33.60 E-value=41 Score=31.38 Aligned_cols=16 Identities=25% Similarity=0.623 Sum_probs=11.1
Q ss_pred CCCcccCCCccccCCH
Q psy11693 257 IKPYVCEICSKAFTQQ 272 (579)
Q Consensus 257 ~~~~~C~~C~~~f~~~ 272 (579)
...|.|+.|+..|+..
T Consensus 153 ~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 153 IAEFHCPKCRHNFRGF 168 (278)
T ss_pred eeeeecccccccchhh
Confidence 3457788888877754
No 177
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=33.27 E-value=27 Score=24.44 Aligned_cols=21 Identities=33% Similarity=0.776 Sum_probs=14.3
Q ss_pred hhhHHHHHHHHHHhhheeEec
Q psy11693 6 RRFEIYLLILLLTLTIVLVLP 26 (579)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~ 26 (579)
||+-|.||+.+.-|++...||
T Consensus 41 r~~~~~~~li~aLi~v~vvL~ 61 (64)
T COG4068 41 RNFMILMFLILALILVMVVLP 61 (64)
T ss_pred HHHHHHHHHHHHHHHHHHhhc
Confidence 677888877666666665554
No 178
>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=33.19 E-value=7.9 Score=30.06 Aligned_cols=11 Identities=45% Similarity=1.476 Sum_probs=5.4
Q ss_pred ccccccccccc
Q psy11693 289 FRCDQCGKAFS 299 (579)
Q Consensus 289 ~~C~~C~~~f~ 299 (579)
+.|..|++.|.
T Consensus 54 W~C~~C~~~~A 64 (90)
T PF01780_consen 54 WKCKKCGKKFA 64 (90)
T ss_dssp EEETTTTEEEE
T ss_pred eecCCCCCEEe
Confidence 45555554443
No 179
>KOG2907|consensus
Probab=32.89 E-value=22 Score=28.75 Aligned_cols=35 Identities=17% Similarity=0.534 Sum_probs=20.5
Q ss_pred eecccchhhcCCHHHHHHHHH---hc--cCCCcccccccccccCC
Q psy11693 107 FTCEVCQQAFTRNADLKVHSM---VH--KIAQLHKCELCYKMFSD 146 (579)
Q Consensus 107 ~~C~~C~~~f~~~~~L~~H~~---~h--~~~~~~~C~~C~~~f~~ 146 (579)
.+|+.||-. .|..|-+ .- ....-|.|..|++.|..
T Consensus 75 ~kCpkCghe-----~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHE-----EMSYHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCc-----hhhhhhhhcccccCCceEEEEcCccceeeec
Confidence 479999865 3333422 11 11124888888888764
No 180
>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=32.62 E-value=15 Score=28.65 Aligned_cols=13 Identities=31% Similarity=1.145 Sum_probs=6.7
Q ss_pred ccccccccccccc
Q psy11693 287 SLFRCDQCGKAFS 299 (579)
Q Consensus 287 ~~~~C~~C~~~f~ 299 (579)
..+.|..|++.|.
T Consensus 52 GIW~C~~C~~~~A 64 (91)
T TIGR00280 52 GIWTCRKCGAKFA 64 (91)
T ss_pred EEEEcCCCCCEEe
Confidence 3455555555554
No 181
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=32.14 E-value=41 Score=29.11 Aligned_cols=41 Identities=27% Similarity=0.485 Sum_probs=17.3
Q ss_pred CCCcceeccccchhcCC------HHHHHHHHHH--hC----------CCCccccccccc
Q psy11693 396 GGVKPFACTVCNKSFLQ------KTQLQNHLYT--HS----------KVKPYNCGICAK 436 (579)
Q Consensus 396 ~~~k~~~C~~C~~~f~~------~~~l~~H~~~--H~----------~~~~~~C~~C~~ 436 (579)
...--.+|..|++.|-+ .+.+..|+.. |. |+...+|-.||.
T Consensus 10 ~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 10 DPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp -CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred CcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 34445667777776643 3455566542 11 334567877774
No 182
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=31.97 E-value=15 Score=25.58 Aligned_cols=30 Identities=17% Similarity=0.414 Sum_probs=14.7
Q ss_pred eeccccchhcCCHHHHHHHHHHhCCCCccccccccccc
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSF 438 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~~~C~~C~~~f 438 (579)
|.|+.||..+.-.... -| ....|+.||..|
T Consensus 3 ~~CP~CG~~iev~~~~-------~G-eiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPE-------LG-ELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCc-------cC-CEEeCCCCCCEE
Confidence 4566666655432211 11 245666666555
No 183
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=31.89 E-value=21 Score=29.80 Aligned_cols=25 Identities=36% Similarity=0.574 Sum_probs=17.9
Q ss_pred eeccccchhcCCHHHHHHHHHHhCCCCc
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYTHSKVKP 428 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~H~~~~~ 428 (579)
..|-.+|+.|. .|++|+.+|.|-.|
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCH
Confidence 45777888875 47788888877654
No 184
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=31.42 E-value=28 Score=23.69 Aligned_cols=39 Identities=23% Similarity=0.432 Sum_probs=21.0
Q ss_pred CCcccCCCccccCCHHHHHHHHHhhCCCCcccccccccc
Q psy11693 258 KPYVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGK 296 (579)
Q Consensus 258 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~ 296 (579)
+.+.|..||..|.-...=..-...-.-...|-.|..|-.
T Consensus 3 k~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR~ 41 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSCRQ 41 (49)
T ss_pred eeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHHHH
Confidence 456788888877654443333322211234566766643
No 185
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=31.38 E-value=22 Score=23.00 Aligned_cols=10 Identities=20% Similarity=0.926 Sum_probs=5.0
Q ss_pred cccCCCCCcC
Q psy11693 317 FKCSYCPKAF 326 (579)
Q Consensus 317 ~~C~~C~~~f 326 (579)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 4555555443
No 186
>KOG4124|consensus
Probab=31.06 E-value=5.6 Score=38.66 Aligned_cols=25 Identities=32% Similarity=0.685 Sum_probs=17.4
Q ss_pred CCCccccccccccccCHHHHHHHHH
Q psy11693 425 KVKPYNCGICAKSFVQRNTYIKHLE 449 (579)
Q Consensus 425 ~~~~~~C~~C~~~f~~~~~l~~H~~ 449 (579)
..|+|+|++|.+.++....|.-|+.
T Consensus 395 ~nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 395 ENKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred ccCcccChhhhhhhccCCCCCceee
Confidence 3477888888888776666655543
No 187
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=30.86 E-value=30 Score=23.76 Aligned_cols=23 Identities=17% Similarity=0.398 Sum_probs=8.6
Q ss_pred ccccCCCCCcCCChhHHHhhhcc
Q psy11693 316 PFKCSYCPKAFSHKGHLNEHLYT 338 (579)
Q Consensus 316 ~~~C~~C~~~f~~~~~l~~H~~~ 338 (579)
.|.|+.|...|--.-++-.|...
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~L 43 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHETL 43 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTTS
T ss_pred eEECCCCCCccccCcChhhhccc
Confidence 35555555555444444444443
No 188
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=30.65 E-value=18 Score=26.94 Aligned_cols=11 Identities=18% Similarity=0.456 Sum_probs=4.5
Q ss_pred ccccCCCCCcC
Q psy11693 316 PFKCSYCPKAF 326 (579)
Q Consensus 316 ~~~C~~C~~~f 326 (579)
...|..|+..+
T Consensus 41 ~v~Cg~C~~~~ 51 (71)
T PF05495_consen 41 RVICGKCRTEQ 51 (71)
T ss_dssp EEEETTT--EE
T ss_pred CeECCCCCCcc
Confidence 44555555444
No 189
>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=30.46 E-value=6.2 Score=38.76 Aligned_cols=14 Identities=29% Similarity=0.887 Sum_probs=6.5
Q ss_pred CCCccccCCCCCcC
Q psy11693 313 GEKPFKCSYCPKAF 326 (579)
Q Consensus 313 ~~~~~~C~~C~~~f 326 (579)
|.+-..|..|+..+
T Consensus 194 G~R~L~Cs~C~t~W 207 (290)
T PF04216_consen 194 GKRYLHCSLCGTEW 207 (290)
T ss_dssp -EEEEEETTT--EE
T ss_pred ccEEEEcCCCCCee
Confidence 44556677776543
No 190
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=29.04 E-value=27 Score=29.80 Aligned_cols=12 Identities=33% Similarity=1.085 Sum_probs=6.3
Q ss_pred cccccccccccC
Q psy11693 289 FRCDQCGKAFSR 300 (579)
Q Consensus 289 ~~C~~C~~~f~~ 300 (579)
+.|..||..|..
T Consensus 71 ~~C~~CG~~~~~ 82 (135)
T PRK03824 71 LKCRNCGNEWSL 82 (135)
T ss_pred EECCCCCCEEec
Confidence 555555555443
No 191
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.02 E-value=15 Score=33.70 Aligned_cols=9 Identities=22% Similarity=0.888 Sum_probs=6.0
Q ss_pred eeccccchh
Q psy11693 401 FACTVCNKS 409 (579)
Q Consensus 401 ~~C~~C~~~ 409 (579)
+.|+.|+++
T Consensus 63 vvCP~C~yA 71 (267)
T COG1655 63 VVCPICYYA 71 (267)
T ss_pred EEcchhhHH
Confidence 467777754
No 192
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.61 E-value=30 Score=25.71 Aligned_cols=33 Identities=21% Similarity=0.449 Sum_probs=19.5
Q ss_pred eeeecccchhhcCCHHHHHHHHHhccCCCccccccccccc
Q psy11693 105 QVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMF 144 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 144 (579)
..|+|..|+..|. +..|+. .+..-.|+.|+-.+
T Consensus 11 Y~Y~c~~cg~~~d----vvq~~~---ddplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRFD----VVQAMT---DDPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHHH----HHHhcc---cCccccChhhChHH
Confidence 4688888887763 444443 22234577777543
No 193
>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=28.21 E-value=31 Score=22.62 Aligned_cols=8 Identities=25% Similarity=0.775 Sum_probs=3.1
Q ss_pred cccCCCCC
Q psy11693 317 FKCSYCPK 324 (579)
Q Consensus 317 ~~C~~C~~ 324 (579)
+.|..||.
T Consensus 20 ~vC~~CG~ 27 (43)
T PF08271_consen 20 LVCPNCGL 27 (43)
T ss_dssp EEETTT-B
T ss_pred EECCCCCC
Confidence 34444443
No 194
>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=28.19 E-value=12 Score=23.99 Aligned_cols=9 Identities=22% Similarity=0.870 Sum_probs=4.4
Q ss_pred cccCCCCCc
Q psy11693 317 FKCSYCPKA 325 (579)
Q Consensus 317 ~~C~~C~~~ 325 (579)
|.|..||..
T Consensus 29 y~C~~C~~~ 37 (39)
T PF01096_consen 29 YVCCNCGHR 37 (39)
T ss_dssp EEESSSTEE
T ss_pred EEeCCCCCe
Confidence 445555543
No 195
>KOG1280|consensus
Probab=27.88 E-value=65 Score=31.74 Aligned_cols=31 Identities=23% Similarity=0.418 Sum_probs=24.5
Q ss_pred CCcccCCCCCCcCCCHHHHHHHHHhhcCCCC
Q psy11693 186 EKLFSCNFCLKPFLRKDLLEAHVNSVHKDVK 216 (579)
Q Consensus 186 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 216 (579)
+..|.|++|++.=.+...|..|+...|.+..
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~ 107 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEAS 107 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccC
Confidence 3468899999888888889999888886543
No 196
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=27.61 E-value=20 Score=27.95 Aligned_cols=13 Identities=31% Similarity=1.160 Sum_probs=6.6
Q ss_pred ccccccccccccc
Q psy11693 287 SLFRCDQCGKAFS 299 (579)
Q Consensus 287 ~~~~C~~C~~~f~ 299 (579)
..+.|..|++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PRK03976 53 GIWECRKCGAKFA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 3455555555543
No 197
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=27.56 E-value=24 Score=27.87 Aligned_cols=8 Identities=50% Similarity=1.572 Sum_probs=3.8
Q ss_pred cccccccc
Q psy11693 289 FRCDQCGK 296 (579)
Q Consensus 289 ~~C~~C~~ 296 (579)
|.|+.||.
T Consensus 23 FtCp~Cgh 30 (104)
T COG4888 23 FTCPRCGH 30 (104)
T ss_pred EecCccCC
Confidence 44444443
No 198
>KOG2272|consensus
Probab=27.56 E-value=73 Score=29.77 Aligned_cols=127 Identities=18% Similarity=0.363 Sum_probs=0.0
Q ss_pred cccCCCccccCCHHHHHHH---------HHhhCCCCcccccccccccccCchhhccccccccCCCccccCCCCCcCCChh
Q psy11693 260 YVCEICSKAFTQQYNLKHH---------LLLHGDGNSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKG 330 (579)
Q Consensus 260 ~~C~~C~~~f~~~~~L~~H---------~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~ 330 (579)
|.|.+|.+...+...++.- .+.-..+...|.|..|...... .+..-...--..--|+|..|++...+.+
T Consensus 100 F~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~--~~l~fr~d~yH~yHFkCt~C~keL~sda 177 (332)
T KOG2272|consen 100 FRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE--QPLTFRGDPYHPYHFKCTTCGKELTSDA 177 (332)
T ss_pred chhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc--ccccccCCCCCccceecccccccccchh
Q ss_pred HHHhh----hcccCCCCccccCCCcccccChHHHHHHHhccCCCCCCCCccchhccCCHHHHHH
Q psy11693 331 HLNEH----LYTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNR 390 (579)
Q Consensus 331 ~l~~H----~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 390 (579)
.-..- ++-|..-+.-.|--|.+... .....-+..|--..-|.|..|.+-|..-..+.+
T Consensus 178 Revk~eLyClrChD~mgipiCgaC~rpIe--ervi~amgKhWHveHFvCa~CekPFlGHrHYEk 239 (332)
T KOG2272|consen 178 REVKGELYCLRCHDKMGIPICGACRRPIE--ERVIFAMGKHWHVEHFVCAKCEKPFLGHRHYEK 239 (332)
T ss_pred hhhccceeccccccccCCcccccccCchH--HHHHHHhccccchhheeehhcCCcccchhhhhh
No 199
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=27.29 E-value=16 Score=39.61 Aligned_cols=29 Identities=31% Similarity=0.651 Sum_probs=17.6
Q ss_pred CCccchhccCCHHHHHHHhhhhCCCcceeccccch
Q psy11693 374 TCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNK 408 (579)
Q Consensus 374 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~ 408 (579)
-|+.|.+.|.+..+-+-|. .|..|+.||-
T Consensus 153 lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP 181 (750)
T COG0068 153 LCPFCDKEYKDPLNRRFHA------QPIACPKCGP 181 (750)
T ss_pred CCHHHHHHhcCcccccccc------ccccCcccCC
Confidence 4666666666666555443 3456777765
No 200
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=27.22 E-value=28 Score=30.41 Aligned_cols=7 Identities=29% Similarity=0.956 Sum_probs=3.2
Q ss_pred ecccchh
Q psy11693 108 TCEVCQQ 114 (579)
Q Consensus 108 ~C~~C~~ 114 (579)
.|+.|+-
T Consensus 99 RCp~CN~ 105 (165)
T COG1656 99 RCPECNG 105 (165)
T ss_pred cCcccCC
Confidence 3555543
No 201
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=27.04 E-value=1.1e+02 Score=20.38 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=5.8
Q ss_pred CCccccCCCCC
Q psy11693 314 EKPFKCSYCPK 324 (579)
Q Consensus 314 ~~~~~C~~C~~ 324 (579)
...|.|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 34456665553
No 202
>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=26.89 E-value=32 Score=25.18 Aligned_cols=8 Identities=50% Similarity=1.231 Sum_probs=1.7
Q ss_pred cCCCcccc
Q psy11693 347 CKYCPKTF 354 (579)
Q Consensus 347 C~~C~~~f 354 (579)
|..|++.|
T Consensus 12 C~~C~~~F 19 (69)
T PF01363_consen 12 CMICGKKF 19 (69)
T ss_dssp -TTT--B-
T ss_pred CcCcCCcC
Confidence 44444444
No 203
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=26.87 E-value=32 Score=23.91 Aligned_cols=10 Identities=40% Similarity=0.893 Sum_probs=5.0
Q ss_pred CCccchhccC
Q psy11693 374 TCLECSKCFS 383 (579)
Q Consensus 374 ~C~~C~~~f~ 383 (579)
+|..||+.|.
T Consensus 7 ~C~~Cg~~~~ 16 (54)
T PF14446_consen 7 KCPVCGKKFK 16 (54)
T ss_pred cChhhCCccc
Confidence 4555555443
No 204
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=26.84 E-value=25 Score=24.09 Aligned_cols=8 Identities=25% Similarity=0.887 Sum_probs=3.5
Q ss_pred eeccccch
Q psy11693 401 FACTVCNK 408 (579)
Q Consensus 401 ~~C~~C~~ 408 (579)
|.|..||+
T Consensus 38 ~~C~~Cgy 45 (50)
T PRK00432 38 WHCGKCGY 45 (50)
T ss_pred EECCCcCC
Confidence 44444444
No 205
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=26.72 E-value=33 Score=35.06 Aligned_cols=12 Identities=25% Similarity=0.611 Sum_probs=5.7
Q ss_pred ceeccccchhcC
Q psy11693 400 PFACTVCNKSFL 411 (579)
Q Consensus 400 ~~~C~~C~~~f~ 411 (579)
-|+|+.||+.+.
T Consensus 367 g~rC~kCg~~~~ 378 (421)
T COG1571 367 GFRCKKCGTRAR 378 (421)
T ss_pred CcccccccccCC
Confidence 444555544443
No 206
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=26.41 E-value=33 Score=32.00 Aligned_cols=10 Identities=40% Similarity=1.075 Sum_probs=5.4
Q ss_pred CccccCCCCC
Q psy11693 315 KPFKCSYCPK 324 (579)
Q Consensus 315 ~~~~C~~C~~ 324 (579)
+.|.|..|+.
T Consensus 111 rqFaC~~Cd~ 120 (278)
T PF15135_consen 111 RQFACSSCDH 120 (278)
T ss_pred eeeeccccch
Confidence 4455666643
No 207
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=26.14 E-value=14 Score=23.83 Aligned_cols=16 Identities=25% Similarity=0.731 Sum_probs=7.6
Q ss_pred hhCCCcceeccccchh
Q psy11693 394 IHGGVKPFACTVCNKS 409 (579)
Q Consensus 394 ~h~~~k~~~C~~C~~~ 409 (579)
...+.+.|.|.+|+..
T Consensus 18 ~~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 18 FDDGGKTWICNFCGTK 33 (40)
T ss_dssp EETTTTEEEETTT--E
T ss_pred EcCCCCEEECcCCCCc
Confidence 3334455666666653
No 208
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=26.03 E-value=20 Score=28.38 Aligned_cols=9 Identities=22% Similarity=0.368 Sum_probs=3.4
Q ss_pred eeEecccee
Q psy11693 22 VLVLPVVSV 30 (579)
Q Consensus 22 ~~~~~~~~~ 30 (579)
+++..+|+.
T Consensus 17 LlisSevaa 25 (95)
T PF07172_consen 17 LLISSEVAA 25 (95)
T ss_pred HHHHhhhhh
Confidence 333334433
No 209
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=25.95 E-value=35 Score=32.79 Aligned_cols=88 Identities=15% Similarity=0.270 Sum_probs=50.5
Q ss_pred eeeecccchhhcCCHHHHHHHHHhccCCCcccccccccccCCHHHHHHHHHH--cC------------Cccccccccccc
Q psy11693 105 QVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKMV--HR------------QVFTCEVCMRSF 170 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~--h~------------~~~~C~~C~~~f 170 (579)
..|.|+.|.... -.-|..|+.|.-..-....|.+-... -- +.-.|-.|.-.|
T Consensus 307 gGy~CP~CktkV--------------CsLPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~f 372 (421)
T COG5151 307 GGYECPVCKTKV--------------CSLPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPF 372 (421)
T ss_pred CceeCCccccee--------------ecCCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCC
Confidence 468899885331 12467899998766544444432211 11 122488887777
Q ss_pred CChHHHHHHHHHhcCCCcccCCCCCCcCCCHHHHHHHH
Q psy11693 171 NDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHV 208 (579)
Q Consensus 171 ~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 208 (579)
.....-..- .-.....|.|+.|...|-..-+.-.|.
T Consensus 373 p~~~~~~~~--~~~ss~rY~Ce~CK~~FC~dCdvfiHe 408 (421)
T COG5151 373 PKPPVSPFD--ESTSSGRYQCELCKSTFCSDCDVFIHE 408 (421)
T ss_pred CCCCCCccc--ccccccceechhhhhhhhhhhHHHHHH
Confidence 543211000 011234588999999988888888885
No 210
>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=25.63 E-value=31 Score=19.56 Aligned_cols=8 Identities=50% Similarity=1.505 Sum_probs=4.2
Q ss_pred ceeccccc
Q psy11693 400 PFACTVCN 407 (579)
Q Consensus 400 ~~~C~~C~ 407 (579)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 35555554
No 211
>KOG3408|consensus
Probab=25.54 E-value=47 Score=27.24 Aligned_cols=26 Identities=31% Similarity=0.672 Sum_probs=19.8
Q ss_pred CCcceeccccchhcCCHHHHHHHHHH
Q psy11693 397 GVKPFACTVCNKSFLQKTQLQNHLYT 422 (579)
Q Consensus 397 ~~k~~~C~~C~~~f~~~~~l~~H~~~ 422 (579)
|...|-|-.|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 33457888888888888888888765
No 212
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=25.05 E-value=2e+02 Score=25.10 Aligned_cols=57 Identities=19% Similarity=0.249 Sum_probs=37.1
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCcccCCCCCCcCC-CHHHHHHHHHhhcCCCCc
Q psy11693 160 VFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFL-RKDLLEAHVNSVHKDVKK 217 (579)
Q Consensus 160 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~-~~~~l~~H~~~~H~~~~~ 217 (579)
...|+.|.-........ .-.|.+...|.-.|..=+-.|. +...|+.|.+..|...+|
T Consensus 80 ~L~CPLCRG~V~GWtvv-e~AR~~LN~K~RsC~~e~C~F~GtY~eLrKHar~~HP~~rP 137 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVV-EPARRFLNAKKRSCSQESCSFSGTYSELRKHARSEHPSARP 137 (162)
T ss_pred cccCccccCceeceEEc-hHHHHHhccCCccCcccccccccCHHHHHHHHHhhCCCCCC
Confidence 36788885332222222 2356666677777876555555 678899999999987765
No 213
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=24.78 E-value=47 Score=27.79 Aligned_cols=27 Identities=22% Similarity=0.198 Sum_probs=21.2
Q ss_pred eeeecccchhhcCCHHHHHHHHHhccCCCc
Q psy11693 105 QVFTCEVCQQAFTRNADLKVHSMVHKIAQL 134 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 134 (579)
....|-.+|+.|+ .|++|+.+|.+-.|
T Consensus 75 D~IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 75 DYIICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred CeEEEeccCcchH---HHHHHHhcccCCCH
Confidence 3467999999998 68999999876543
No 214
>PRK10350 hypothetical protein; Provisional
Probab=24.68 E-value=99 Score=25.56 Aligned_cols=10 Identities=40% Similarity=0.501 Sum_probs=4.4
Q ss_pred cchhhhhHHH
Q psy11693 513 SIQHIQQNLQ 522 (579)
Q Consensus 513 ~~q~~qq~~q 522 (579)
+++..+++.+
T Consensus 35 SQQRmQtqMQ 44 (145)
T PRK10350 35 SQQRMQTQMQ 44 (145)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 215
>KOG2636|consensus
Probab=24.49 E-value=48 Score=33.84 Aligned_cols=29 Identities=17% Similarity=0.487 Sum_probs=19.0
Q ss_pred HhccCCCcccccccc-cccCCHHHHHHHHH
Q psy11693 127 MVHKIAQLHKCELCY-KMFSDKLLYEKHKM 155 (579)
Q Consensus 127 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 155 (579)
+.|.-...|.|.+|| +++..+..+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 345555667777776 66777777777743
No 216
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.16 E-value=21 Score=32.85 Aligned_cols=9 Identities=22% Similarity=0.464 Sum_probs=6.6
Q ss_pred CCCccchhc
Q psy11693 373 HTCLECSKC 381 (579)
Q Consensus 373 ~~C~~C~~~ 381 (579)
..|+.|..+
T Consensus 63 vvCP~C~yA 71 (267)
T COG1655 63 VVCPICYYA 71 (267)
T ss_pred EEcchhhHH
Confidence 368888864
No 217
>PF10477 EIF4E-T: Nucleocytoplasmic shuttling protein for mRNA cap-binding EIF4E; InterPro: IPR018862 EIF4E-T is the transporter protein for shuttling the mRNA cap-binding protein EIF4E protein, targeting it for nuclear import. EIF4E-T contains several key binding domains including two functional leucine-rich NESs (nuclear export signals) between residues 438-447 and 613-638 in the human protein. The other two binding domains are an EIF4E-binding site, between residues 27-42 in Q9EST3 from SWISSPROT, and a bipartite NLS (nuclear localisation signals) between 194-211, and these lie in family EIF4E-T_N. EIF4E is the eukaryotic translation initiation factor 4E that is the rate-limiting factor for cap-dependent translation initiation [].
Probab=23.98 E-value=79 Score=34.40 Aligned_cols=11 Identities=36% Similarity=0.676 Sum_probs=5.4
Q ss_pred ccccchhhhHH
Q psy11693 58 SGVWSLEYVEQ 68 (579)
Q Consensus 58 ~~~~~~~~~~~ 68 (579)
..+|+.|.|-.
T Consensus 48 ~~~~~pe~~~~ 58 (578)
T PF10477_consen 48 KGVWDPERWHS 58 (578)
T ss_pred CCccCchhhcc
Confidence 34455555544
No 218
>KOG0717|consensus
Probab=23.21 E-value=47 Score=34.17 Aligned_cols=22 Identities=50% Similarity=0.865 Sum_probs=18.6
Q ss_pred eeccccchhcCCHHHHHHHHHH
Q psy11693 401 FACTVCNKSFLQKTQLQNHLYT 422 (579)
Q Consensus 401 ~~C~~C~~~f~~~~~l~~H~~~ 422 (579)
+-|.+|+++|.+...|.+|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6799999999999999888754
No 219
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=23.01 E-value=28 Score=38.73 Aligned_cols=15 Identities=27% Similarity=0.255 Sum_probs=0.0
Q ss_pred cccccchhhhHHHHH
Q psy11693 57 VSGVWSLEYVEQSKE 71 (579)
Q Consensus 57 ~~~~~~~~~~~~~~~ 71 (579)
+...|..|.|.+.-+
T Consensus 433 ~Ps~y~~EWW~qe~~ 447 (900)
T PF03833_consen 433 VPSSYCEEWWIQELE 447 (900)
T ss_dssp ---------------
T ss_pred CCccchHHHHHHHHH
Confidence 344566666665443
No 220
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=22.78 E-value=73 Score=35.11 Aligned_cols=8 Identities=38% Similarity=1.464 Sum_probs=4.1
Q ss_pred cccccccc
Q psy11693 291 CDQCGKAF 298 (579)
Q Consensus 291 C~~C~~~f 298 (579)
|+.||..+
T Consensus 18 C~~CG~~l 25 (645)
T PRK14559 18 CQKCGTSL 25 (645)
T ss_pred ccccCCCC
Confidence 55555443
No 221
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=22.78 E-value=44 Score=21.59 Aligned_cols=16 Identities=25% Similarity=0.492 Sum_probs=6.9
Q ss_pred cccCCCCCcCCChhHH
Q psy11693 317 FKCSYCPKAFSHKGHL 332 (579)
Q Consensus 317 ~~C~~C~~~f~~~~~l 332 (579)
+.|+.|+-.|-....|
T Consensus 20 d~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGEL 35 (41)
T ss_pred EECCCCCeEEccHHHH
Confidence 3444444444444333
No 222
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.77 E-value=46 Score=23.54 Aligned_cols=7 Identities=29% Similarity=1.099 Sum_probs=3.0
Q ss_pred ccccccc
Q psy11693 161 FTCEVCM 167 (579)
Q Consensus 161 ~~C~~C~ 167 (579)
|.|+.|.
T Consensus 32 ymC~eC~ 38 (68)
T COG4896 32 YMCPECE 38 (68)
T ss_pred EechhhH
Confidence 4444443
No 223
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=22.65 E-value=43 Score=28.79 Aligned_cols=12 Identities=25% Similarity=0.647 Sum_probs=6.2
Q ss_pred ccCCCCCcCCCh
Q psy11693 318 KCSYCPKAFSHK 329 (579)
Q Consensus 318 ~C~~C~~~f~~~ 329 (579)
.|..||..|++.
T Consensus 30 eC~~C~~RFTTf 41 (156)
T COG1327 30 ECLECGERFTTF 41 (156)
T ss_pred cccccccccchh
Confidence 455555555543
No 224
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=22.29 E-value=45 Score=28.62 Aligned_cols=13 Identities=23% Similarity=0.590 Sum_probs=6.5
Q ss_pred ccCCCCCcCCChh
Q psy11693 318 KCSYCPKAFSHKG 330 (579)
Q Consensus 318 ~C~~C~~~f~~~~ 330 (579)
.|..||+.|++..
T Consensus 30 eC~~C~~RFTTyE 42 (147)
T TIGR00244 30 ECLECHERFTTFE 42 (147)
T ss_pred cCCccCCccceee
Confidence 4555555555443
No 225
>PF10361 DUF2434: Protein of unknown function (DUF2434); InterPro: IPR018830 This entry represents a family of proteins conserved in fungi. Their function is not known.
Probab=21.97 E-value=58 Score=31.33 Aligned_cols=23 Identities=17% Similarity=0.596 Sum_probs=18.2
Q ss_pred ccchhhHHHHHHHHHHhhheeEe
Q psy11693 3 VLGRRFEIYLLILLLTLTIVLVL 25 (579)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~ 25 (579)
..|||-|.||.+++...+++...
T Consensus 84 ~iGRRwqWyW~~fv~a~~~iS~f 106 (296)
T PF10361_consen 84 PIGRRWQWYWMLFVCACGLISLF 106 (296)
T ss_pred ccchhHHHHHHHHHHHHHHHhhh
Confidence 46999999998888777776643
No 226
>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=21.96 E-value=17 Score=21.43 Aligned_cols=20 Identities=30% Similarity=0.715 Sum_probs=11.0
Q ss_pred eecccchhhcCCHHHHHHHHH
Q psy11693 107 FTCEVCQQAFTRNADLKVHSM 127 (579)
Q Consensus 107 ~~C~~C~~~f~~~~~L~~H~~ 127 (579)
|.|-.|++.| ....++.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 4677788888 4445555543
No 227
>KOG2636|consensus
Probab=21.80 E-value=61 Score=33.09 Aligned_cols=42 Identities=19% Similarity=0.270 Sum_probs=25.2
Q ss_pred cccCCCccccCCHHHHHHHHHhhCCCCcccccccccccccCchhhcccc
Q psy11693 260 YVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQHS 308 (579)
Q Consensus 260 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~L~~H~ 308 (579)
+.|..|++.+.....|..|. .| -.|..|++.|.+++....|+
T Consensus 250 l~~~g~erlk~al~alglk~----gG---t~~~ra~rlf~Tk~~~l~~L 291 (497)
T KOG2636|consen 250 LYCLGCERLKSALTALGLKC----GG---TLHERAQRLFSTKSKSLSHL 291 (497)
T ss_pred HHhhchhHHHHHHHHHHHhc----CC---eecHHHHhhhhhcCcchhhh
Confidence 45777777666655555443 22 34667777777776554444
No 228
>PF06474 MLTD_N: MltD lipid attachment motif; InterPro: IPR010511 This entry represents the MltD lipid attachment domain. It is a short N-terminal domain found in membrane-bound lytic murein transglycosylase D (Mltd).
Probab=21.78 E-value=75 Score=19.72 Aligned_cols=18 Identities=33% Similarity=0.244 Sum_probs=14.2
Q ss_pred ccchhhHHHHHHHHHHhh
Q psy11693 3 VLGRRFEIYLLILLLTLT 20 (579)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~ 20 (579)
.|-|+.+|.|.++...|+
T Consensus 13 altr~~q~~~l~l~a~l~ 30 (34)
T PF06474_consen 13 ALTRLAQISVLALGALLV 30 (34)
T ss_pred HHHHHHHHHHHHHHHHHc
Confidence 467999999988877664
No 229
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=21.34 E-value=37 Score=20.15 Aligned_cols=9 Identities=33% Similarity=0.792 Sum_probs=3.2
Q ss_pred ccccccccc
Q psy11693 428 PYNCGICAK 436 (579)
Q Consensus 428 ~~~C~~C~~ 436 (579)
.|.|..|+.
T Consensus 15 ~Y~C~~Cdf 23 (30)
T PF07649_consen 15 FYRCSECDF 23 (30)
T ss_dssp EEE-TTT--
T ss_pred eEECccCCC
Confidence 455555543
No 230
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.26 E-value=39 Score=29.08 Aligned_cols=9 Identities=44% Similarity=1.228 Sum_probs=4.6
Q ss_pred ccccccccc
Q psy11693 428 PYNCGICAK 436 (579)
Q Consensus 428 ~~~C~~C~~ 436 (579)
.|.|..|+-
T Consensus 140 ~YrC~~C~g 148 (156)
T COG3091 140 VYRCGKCGG 148 (156)
T ss_pred eEEeccCCc
Confidence 455555543
No 231
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=21.04 E-value=41 Score=33.06 Aligned_cols=13 Identities=31% Similarity=0.797 Sum_probs=6.4
Q ss_pred CCCccccCCCCCc
Q psy11693 313 GEKPFKCSYCPKA 325 (579)
Q Consensus 313 ~~~~~~C~~C~~~ 325 (579)
|.+-..|..|+..
T Consensus 207 G~RyL~CslC~te 219 (305)
T TIGR01562 207 GLRYLSCSLCATE 219 (305)
T ss_pred CceEEEcCCCCCc
Confidence 4444555555543
No 232
>KOG3408|consensus
Probab=20.92 E-value=84 Score=25.84 Aligned_cols=28 Identities=29% Similarity=0.445 Sum_probs=22.8
Q ss_pred CCCCceeeecccchhhcCCHHHHHHHHH
Q psy11693 100 KVPMVQVFTCEVCQQAFTRNADLKVHSM 127 (579)
Q Consensus 100 ~~~~~~~~~C~~C~~~f~~~~~L~~H~~ 127 (579)
..++..-|.|-.|.+-|.+...|..|.+
T Consensus 51 dlPG~GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 51 DLPGGGQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred CCCCCceeehhhhhhhhcchHHHHHHHh
Confidence 3456677889999999999999988865
No 233
>PF06752 E_Pc_C: Enhancer of Polycomb C-terminus; InterPro: IPR009607 This entry represents the C terminus of eukaryotic enhancer of polycomb proteins, which have roles in heterochromatin formation []. This family contains several conserved motifs.
Probab=20.65 E-value=79 Score=29.19 Aligned_cols=28 Identities=36% Similarity=0.191 Sum_probs=0.0
Q ss_pred cchhhhhHHHHHHHHHHHHHHHHHhHhh
Q psy11693 513 SIQHIQQNLQQNIQQNLQQNIQQNIQHL 540 (579)
Q Consensus 513 ~~q~~qq~~qq~~qqq~qq~~qq~~q~~ 540 (579)
+.|+.|+++..-+.||+-|.+|+|+++.
T Consensus 6 QyQqHQqQL~~MQkQQLaqiqqqQ~~~~ 33 (230)
T PF06752_consen 6 QYQQHQQQLVLMQKQQLAQIQQQQQQQN 33 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
No 234
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=20.57 E-value=45 Score=28.72 Aligned_cols=34 Identities=26% Similarity=0.603 Sum_probs=21.8
Q ss_pred eeeecccchhhcCCHHHHHHHHHhccCCCcccccccccc
Q psy11693 105 QVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKM 143 (579)
Q Consensus 105 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 143 (579)
-.|.|. |+..|.+. ++|-..-.++ .|.|..|+-.
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 468888 88776543 3454555555 6888888643
No 235
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.17 E-value=69 Score=23.37 Aligned_cols=9 Identities=33% Similarity=0.896 Sum_probs=4.0
Q ss_pred cccCCCCCc
Q psy11693 317 FKCSYCPKA 325 (579)
Q Consensus 317 ~~C~~C~~~ 325 (579)
|.|+.||..
T Consensus 47 ~~C~~Cg~~ 55 (69)
T PF07282_consen 47 FTCPNCGFE 55 (69)
T ss_pred EEcCCCCCE
Confidence 444444443
No 236
>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=20.06 E-value=49 Score=27.29 Aligned_cols=7 Identities=57% Similarity=1.156 Sum_probs=2.7
Q ss_pred ccCCCcc
Q psy11693 261 VCEICSK 267 (579)
Q Consensus 261 ~C~~C~~ 267 (579)
.|..|+.
T Consensus 72 ~C~~Cg~ 78 (115)
T TIGR00100 72 ECEDCSE 78 (115)
T ss_pred EcccCCC
Confidence 3333333
Done!