Query psy2726
Match_columns 543
No_of_seqs 659 out of 3718
Neff 10.6
Searched_HMMs 46136
Date Fri Aug 16 23:38:52 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2726.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2726hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 1.1E-31 2.5E-36 262.9 7.9 58 434-491 880-937 (958)
2 KOG2462|consensus 100.0 4.6E-31 1E-35 228.4 5.7 136 347-484 128-266 (279)
3 KOG1074|consensus 100.0 2.4E-30 5.2E-35 253.7 7.3 215 172-462 605-936 (958)
4 KOG2462|consensus 100.0 9.2E-29 2E-33 214.1 8.1 137 278-455 126-265 (279)
5 KOG3608|consensus 99.9 2.4E-27 5.2E-32 209.9 9.1 234 126-488 135-379 (467)
6 KOG3608|consensus 99.9 1.7E-25 3.7E-30 198.3 8.1 234 97-473 134-398 (467)
7 KOG3623|consensus 99.9 9.6E-26 2.1E-30 217.5 6.3 119 98-222 211-331 (1007)
8 KOG3623|consensus 99.9 1.1E-23 2.5E-28 203.4 8.8 112 24-151 210-335 (1007)
9 KOG3576|consensus 99.7 4.8E-19 1E-23 145.3 2.7 123 347-486 115-237 (267)
10 KOG3576|consensus 99.7 5.1E-19 1.1E-23 145.1 2.1 114 329-459 125-238 (267)
11 PLN03086 PRLI-interacting fact 99.4 1.9E-13 4.1E-18 135.0 8.3 133 336-486 421-565 (567)
12 PLN03086 PRLI-interacting fact 99.3 7.6E-12 1.6E-16 123.8 9.1 98 350-454 454-561 (567)
13 PHA00733 hypothetical protein 99.3 2.5E-12 5.5E-17 103.3 4.1 100 363-487 26-125 (128)
14 PHA00733 hypothetical protein 99.2 1.3E-11 2.8E-16 99.2 4.4 83 345-429 36-123 (128)
15 PHA02768 hypothetical protein; 99.0 1.4E-10 2.9E-15 75.5 1.7 42 434-477 6-47 (55)
16 KOG3993|consensus 98.9 2.7E-10 5.9E-15 105.0 1.7 138 349-486 267-483 (500)
17 PHA02768 hypothetical protein; 98.9 4.2E-10 9E-15 73.3 1.9 43 406-450 6-48 (55)
18 PF13465 zf-H2C2_2: Zinc-finge 98.7 5.2E-09 1.1E-13 58.2 1.9 24 449-472 2-25 (26)
19 KOG3993|consensus 98.7 5.5E-09 1.2E-13 96.6 3.0 83 125-226 267-382 (500)
20 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.2E-08 2.5E-13 56.8 1.7 24 421-444 2-25 (26)
21 PHA00616 hypothetical protein 98.5 4.3E-08 9.4E-13 60.6 1.2 32 434-465 2-33 (44)
22 PHA00616 hypothetical protein 98.5 7.2E-08 1.6E-12 59.7 1.5 34 405-438 1-34 (44)
23 PHA00732 hypothetical protein 98.4 2.6E-07 5.6E-12 67.0 2.9 46 405-456 1-47 (79)
24 PHA00732 hypothetical protein 98.3 3.3E-07 7E-12 66.4 2.1 46 433-484 1-47 (79)
25 PF05605 zf-Di19: Drought indu 98.1 4.7E-06 1E-10 56.1 3.7 50 434-486 3-54 (54)
26 PF05605 zf-Di19: Drought indu 97.9 1.6E-05 3.5E-10 53.5 3.7 6 448-453 44-49 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.9 7E-06 1.5E-10 44.3 1.3 19 435-453 2-20 (23)
28 PF00096 zf-C2H2: Zinc finger, 97.8 1.2E-05 2.6E-10 43.4 1.2 22 406-427 1-22 (23)
29 KOG1146|consensus 97.8 4.9E-05 1.1E-09 81.4 6.7 56 434-489 995-1051(1406)
30 PF13894 zf-C2H2_4: C2H2-type 97.6 4.5E-05 9.8E-10 41.6 1.7 24 462-485 1-24 (24)
31 PF12756 zf-C2H2_2: C2H2 type 97.5 4E-05 8.8E-10 59.8 1.9 74 407-485 1-74 (100)
32 PF13894 zf-C2H2_4: C2H2-type 97.5 6E-05 1.3E-09 41.1 1.6 23 434-456 1-23 (24)
33 PF12756 zf-C2H2_2: C2H2 type 97.5 5.8E-05 1.3E-09 58.9 1.9 71 380-455 2-72 (100)
34 PF13912 zf-C2H2_6: C2H2-type 97.4 9.4E-05 2E-09 41.7 1.6 22 406-427 2-23 (27)
35 PF13912 zf-C2H2_6: C2H2-type 97.4 8.9E-05 1.9E-09 41.8 1.5 23 434-456 2-24 (27)
36 COG5189 SFP1 Putative transcri 97.4 7E-05 1.5E-09 67.2 1.5 71 94-193 346-419 (423)
37 COG5189 SFP1 Putative transcri 97.2 0.00011 2.3E-09 66.1 1.2 69 403-481 347-418 (423)
38 KOG1146|consensus 97.0 0.0011 2.3E-08 71.7 6.3 56 167-222 460-540 (1406)
39 KOG2231|consensus 97.0 0.00097 2.1E-08 67.9 5.1 51 351-409 184-240 (669)
40 KOG2231|consensus 96.9 0.0019 4.2E-08 65.8 6.3 100 351-457 117-236 (669)
41 PF09237 GAGA: GAGA factor; I 96.8 0.00094 2E-08 42.4 2.3 32 458-489 21-52 (54)
42 PF09237 GAGA: GAGA factor; I 96.8 0.00081 1.8E-08 42.7 1.8 32 430-461 21-52 (54)
43 COG5048 FOG: Zn-finger [Genera 96.7 0.0054 1.2E-07 62.6 8.7 141 349-489 289-446 (467)
44 smart00355 ZnF_C2H2 zinc finge 96.7 0.0011 2.4E-08 36.7 1.8 19 436-454 3-21 (26)
45 PF13909 zf-H2C2_5: C2H2-type 96.7 0.0011 2.3E-08 36.1 1.5 23 462-485 1-23 (24)
46 PRK04860 hypothetical protein; 96.6 0.0011 2.4E-08 55.6 1.8 38 433-474 119-156 (160)
47 smart00355 ZnF_C2H2 zinc finge 96.5 0.0019 4.1E-08 35.7 1.9 22 407-428 2-23 (26)
48 KOG2785|consensus 96.5 0.009 1.9E-07 56.0 7.2 52 172-223 3-91 (390)
49 PF13909 zf-H2C2_5: C2H2-type 96.3 0.0034 7.4E-08 34.0 2.0 23 201-224 1-23 (24)
50 PF12874 zf-met: Zinc-finger o 96.3 0.0023 4.9E-08 35.1 1.3 20 435-454 2-21 (25)
51 PF12874 zf-met: Zinc-finger o 96.2 0.0027 5.9E-08 34.8 1.3 22 406-427 1-22 (25)
52 PRK04860 hypothetical protein; 96.1 0.0022 4.7E-08 53.8 1.0 37 405-445 119-155 (160)
53 COG5048 FOG: Zn-finger [Genera 95.7 0.0075 1.6E-07 61.5 3.3 135 336-470 304-455 (467)
54 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.0067 1.4E-07 34.0 1.4 21 406-426 2-22 (27)
55 PF12171 zf-C2H2_jaz: Zinc-fin 95.6 0.0058 1.3E-07 34.2 1.1 22 434-455 2-23 (27)
56 KOG2785|consensus 95.1 0.042 9.1E-07 51.6 5.5 135 350-484 4-243 (390)
57 COG5236 Uncharacterized conser 95.1 0.018 4E-07 52.8 3.0 129 350-488 152-308 (493)
58 KOG2482|consensus 94.6 0.049 1.1E-06 50.1 4.4 154 336-489 130-364 (423)
59 COG5236 Uncharacterized conser 94.5 0.049 1.1E-06 50.1 4.3 107 97-222 151-273 (493)
60 KOG2893|consensus 93.3 0.029 6.3E-07 48.6 0.5 41 408-452 13-53 (341)
61 PF13913 zf-C2HC_2: zinc-finge 93.1 0.07 1.5E-06 29.1 1.7 21 98-119 3-23 (25)
62 PF13913 zf-C2HC_2: zinc-finge 92.9 0.067 1.5E-06 29.2 1.4 18 435-453 4-21 (25)
63 TIGR00622 ssl1 transcription f 91.7 0.3 6.4E-06 37.8 4.1 48 408-457 58-105 (112)
64 smart00451 ZnF_U1 U1-like zinc 91.5 0.13 2.7E-06 30.8 1.6 22 377-398 3-24 (35)
65 smart00451 ZnF_U1 U1-like zinc 91.1 0.13 2.9E-06 30.7 1.4 22 461-482 3-24 (35)
66 cd00350 rubredoxin_like Rubred 90.7 0.12 2.5E-06 30.5 0.9 9 404-412 16-24 (33)
67 KOG2482|consensus 90.5 0.24 5.1E-06 45.8 3.0 103 350-455 196-356 (423)
68 KOG2893|consensus 89.4 0.12 2.6E-06 44.9 0.2 51 432-487 10-60 (341)
69 KOG4173|consensus 89.2 0.18 4E-06 42.8 1.2 76 348-426 78-167 (253)
70 KOG4173|consensus 88.6 0.21 4.5E-06 42.5 1.1 79 376-457 78-171 (253)
71 PF12013 DUF3505: Protein of u 88.6 0.51 1.1E-05 37.2 3.3 25 462-486 81-109 (109)
72 PF12013 DUF3505: Protein of u 88.4 0.49 1.1E-05 37.2 3.1 25 434-458 81-109 (109)
73 COG4049 Uncharacterized protei 88.2 0.25 5.5E-06 32.1 1.1 33 455-487 11-43 (65)
74 TIGR00622 ssl1 transcription f 84.0 1.1 2.5E-05 34.7 2.9 85 348-440 14-110 (112)
75 KOG2186|consensus 82.6 0.74 1.6E-05 40.9 1.6 46 350-398 4-49 (276)
76 cd00729 rubredoxin_SM Rubredox 82.3 0.62 1.3E-05 27.6 0.8 6 407-412 4-9 (34)
77 PF10571 UPF0547: Uncharacteri 81.5 0.92 2E-05 25.0 1.2 11 350-360 15-25 (26)
78 COG4049 Uncharacterized protei 80.8 0.78 1.7E-05 29.9 0.8 20 350-369 18-37 (65)
79 PF09986 DUF2225: Uncharacteri 79.8 0.61 1.3E-05 41.8 0.2 43 432-474 4-61 (214)
80 PF09986 DUF2225: Uncharacteri 78.2 0.73 1.6E-05 41.3 0.2 43 348-390 4-61 (214)
81 PF13719 zinc_ribbon_5: zinc-r 75.4 1.4 3E-05 26.7 0.8 34 126-183 3-36 (37)
82 PF13717 zinc_ribbon_4: zinc-r 75.1 1.7 3.7E-05 26.1 1.1 34 126-183 3-36 (36)
83 KOG2186|consensus 75.1 1.9 4.2E-05 38.4 1.9 45 406-453 4-48 (276)
84 PF09538 FYDLN_acid: Protein o 74.6 1.8 3.9E-05 33.7 1.5 30 350-390 10-39 (108)
85 PF03604 DNA_RNApol_7kD: DNA d 72.1 2.9 6.3E-05 24.3 1.6 11 126-136 1-11 (32)
86 TIGR02098 MJ0042_CXXC MJ0042 f 72.0 1.7 3.7E-05 26.4 0.6 34 126-183 3-36 (38)
87 PRK00464 nrdR transcriptional 71.6 1.2 2.6E-05 37.2 -0.1 15 462-476 29-43 (154)
88 PF09538 FYDLN_acid: Protein o 71.5 2.5 5.5E-05 32.9 1.6 30 126-185 10-39 (108)
89 smart00659 RPOLCX RNA polymera 70.9 2.9 6.3E-05 26.5 1.5 11 434-444 3-13 (44)
90 COG1592 Rubrerythrin [Energy p 69.4 2.6 5.5E-05 35.6 1.3 10 403-412 147-156 (166)
91 PRK00398 rpoP DNA-directed RNA 69.2 3.4 7.3E-05 26.5 1.6 14 282-295 3-16 (46)
92 COG2888 Predicted Zn-ribbon RN 69.0 3.1 6.7E-05 27.8 1.4 10 376-385 49-58 (61)
93 PF02892 zf-BED: BED zinc fing 66.9 4.5 9.8E-05 25.6 1.8 24 460-483 15-42 (45)
94 PRK00464 nrdR transcriptional 66.7 1.8 3.8E-05 36.2 -0.1 15 378-392 29-43 (154)
95 COG1592 Rubrerythrin [Energy p 66.0 3.2 7E-05 35.0 1.3 13 428-440 144-156 (166)
96 PRK09678 DNA-binding transcrip 66.0 1.5 3.3E-05 31.1 -0.5 42 434-477 2-45 (72)
97 PF09723 Zn-ribbon_8: Zinc rib 65.8 3.3 7.2E-05 25.9 1.0 14 125-138 5-18 (42)
98 TIGR02605 CxxC_CxxC_SSSS putat 65.1 2.4 5.1E-05 28.0 0.2 12 350-361 6-17 (52)
99 TIGR00373 conserved hypothetic 63.9 6.1 0.00013 33.4 2.6 16 378-393 110-125 (158)
100 smart00834 CxxC_CXXC_SSSS Puta 63.5 2.5 5.3E-05 26.2 0.1 29 350-385 6-34 (41)
101 TIGR00373 conserved hypothetic 62.9 5.4 0.00012 33.8 2.1 31 347-386 107-137 (158)
102 KOG1701|consensus 62.7 1.8 3.8E-05 41.8 -0.9 44 351-394 276-319 (468)
103 smart00531 TFIIE Transcription 61.9 8 0.00017 32.3 2.9 12 406-417 100-111 (147)
104 smart00531 TFIIE Transcription 61.8 7.5 0.00016 32.5 2.7 39 429-471 95-133 (147)
105 PRK14890 putative Zn-ribbon RN 61.5 5.8 0.00012 26.7 1.5 7 462-468 49-55 (59)
106 smart00734 ZnF_Rad18 Rad18-lik 59.7 6.3 0.00014 21.7 1.3 18 435-453 3-20 (26)
107 PF06524 NOA36: NOA36 protein; 59.4 3.6 7.8E-05 36.8 0.4 24 196-220 138-161 (314)
108 PRK09678 DNA-binding transcrip 58.8 2.8 6.1E-05 29.8 -0.3 40 406-447 2-43 (72)
109 PF15269 zf-C2H2_7: Zinc-finge 58.7 5.7 0.00012 24.6 1.1 22 98-119 21-42 (54)
110 PF02176 zf-TRAF: TRAF-type zi 57.5 5.3 0.00012 27.2 1.0 46 171-218 8-59 (60)
111 COG1996 RPC10 DNA-directed RNA 56.9 5.9 0.00013 25.6 1.0 10 434-443 7-16 (49)
112 PRK06266 transcription initiat 56.5 8.5 0.00019 33.3 2.2 14 378-391 118-131 (178)
113 TIGR02300 FYDLN_acid conserved 56.3 7.1 0.00015 31.0 1.5 30 350-390 10-39 (129)
114 PF02176 zf-TRAF: TRAF-type zi 56.1 5.9 0.00013 26.9 1.0 21 446-466 23-43 (60)
115 cd00730 rubredoxin Rubredoxin; 56.0 11 0.00024 24.6 2.2 13 126-138 2-14 (50)
116 PRK06266 transcription initiat 54.5 7.3 0.00016 33.7 1.5 35 345-388 113-147 (178)
117 COG1997 RPL43A Ribosomal prote 54.5 5.8 0.00013 29.0 0.7 6 464-469 56-61 (89)
118 smart00614 ZnF_BED BED zinc fi 53.7 11 0.00023 24.6 1.9 21 463-483 20-45 (50)
119 COG1198 PriA Primosomal protei 53.7 8 0.00017 41.4 1.9 40 406-470 445-484 (730)
120 PF00301 Rubredoxin: Rubredoxi 53.3 10 0.00022 24.4 1.6 14 126-139 2-15 (47)
121 PF05191 ADK_lid: Adenylate ki 53.3 6.9 0.00015 23.5 0.8 31 350-388 2-32 (36)
122 PF06524 NOA36: NOA36 protein; 53.2 5.5 0.00012 35.7 0.5 25 460-484 208-232 (314)
123 PF15269 zf-C2H2_7: Zinc-finge 53.0 7.4 0.00016 24.2 0.9 21 462-482 21-41 (54)
124 KOG2593|consensus 52.8 7.3 0.00016 38.0 1.4 39 121-181 124-162 (436)
125 TIGR02300 FYDLN_acid conserved 50.7 11 0.00023 30.0 1.7 15 171-185 25-39 (129)
126 KOG2071|consensus 50.5 11 0.00024 38.4 2.3 27 375-401 416-442 (579)
127 PHA00626 hypothetical protein 49.8 7.2 0.00016 25.7 0.5 22 22-43 21-42 (59)
128 KOG2807|consensus 49.6 27 0.00058 32.7 4.3 82 349-457 276-369 (378)
129 PF14353 CpXC: CpXC protein 48.8 8 0.00017 31.4 0.9 13 126-138 2-14 (128)
130 PRK04023 DNA polymerase II lar 48.3 13 0.00028 40.6 2.4 9 462-470 664-672 (1121)
131 PF08274 PhnA_Zn_Ribbon: PhnA 47.8 7 0.00015 22.4 0.2 25 174-209 4-28 (30)
132 PF05443 ROS_MUCR: ROS/MUCR tr 43.6 12 0.00026 30.3 1.1 24 434-460 73-96 (132)
133 PRK04023 DNA polymerase II lar 42.9 19 0.0004 39.5 2.6 50 348-444 625-674 (1121)
134 KOG4124|consensus 42.2 13 0.00029 34.9 1.2 69 123-191 347-417 (442)
135 KOG4377|consensus 40.9 16 0.00035 35.2 1.6 25 462-486 402-428 (480)
136 KOG2071|consensus 40.6 23 0.00051 36.2 2.8 27 94-120 415-441 (579)
137 TIGR01384 TFS_arch transcripti 40.6 12 0.00026 29.1 0.6 36 172-211 62-101 (104)
138 TIGR00595 priA primosomal prot 40.1 15 0.00033 37.9 1.5 11 403-413 238-248 (505)
139 KOG4377|consensus 39.6 11 0.00023 36.4 0.3 109 347-458 269-428 (480)
140 KOG2593|consensus 39.5 26 0.00056 34.4 2.8 37 403-442 126-162 (436)
141 TIGR01206 lysW lysine biosynth 39.1 19 0.00042 24.0 1.3 13 126-138 3-15 (54)
142 COG4530 Uncharacterized protei 39.0 16 0.00034 27.9 1.0 27 351-388 11-37 (129)
143 PF12907 zf-met2: Zinc-binding 38.8 14 0.0003 22.8 0.6 26 462-487 2-30 (40)
144 PF05443 ROS_MUCR: ROS/MUCR tr 38.4 15 0.00033 29.8 0.9 24 378-404 73-96 (132)
145 PF12760 Zn_Tnp_IS1595: Transp 38.1 31 0.00067 22.0 2.1 11 459-469 35-45 (46)
146 PF04959 ARS2: Arsenite-resist 38.0 18 0.0004 32.1 1.4 28 433-460 77-104 (214)
147 PF05290 Baculo_IE-1: Baculovi 37.5 26 0.00057 28.1 2.1 59 372-447 75-135 (140)
148 PF11331 DUF3133: Protein of u 37.0 29 0.00062 22.2 1.8 34 508-542 5-38 (46)
149 KOG4167|consensus 36.9 8.5 0.00018 40.0 -0.9 26 433-458 792-817 (907)
150 COG5151 SSL1 RNA polymerase II 36.1 23 0.00049 32.8 1.7 80 376-457 321-412 (421)
151 PF14446 Prok-RING_1: Prokaryo 35.8 22 0.00047 23.6 1.1 15 126-140 6-20 (54)
152 PRK14873 primosome assembly pr 35.6 19 0.00041 38.5 1.3 9 433-441 410-418 (665)
153 PRK00432 30S ribosomal protein 34.7 21 0.00046 23.3 1.0 11 461-471 37-47 (50)
154 PF09845 DUF2072: Zn-ribbon co 33.9 24 0.00052 28.3 1.3 29 97-136 1-31 (131)
155 PF07754 DUF1610: Domain of un 33.2 21 0.00045 19.2 0.6 7 462-468 17-23 (24)
156 COG5151 SSL1 RNA polymerase II 32.1 48 0.001 30.8 3.1 24 200-223 388-411 (421)
157 COG3357 Predicted transcriptio 31.9 19 0.00042 26.5 0.5 14 404-417 57-70 (97)
158 PF01363 FYVE: FYVE zinc finge 31.8 24 0.00053 24.7 1.0 8 408-415 12-19 (69)
159 PTZ00255 60S ribosomal protein 31.7 22 0.00047 26.5 0.7 12 461-472 54-65 (90)
160 PF05495 zf-CHY: CHY zinc fing 31.5 12 0.00026 26.6 -0.6 30 433-470 41-70 (71)
161 PF03107 C1_2: C1 domain; Int 30.6 40 0.00086 19.2 1.6 7 350-356 16-22 (30)
162 COG3091 SprT Zn-dependent meta 30.3 23 0.0005 29.2 0.8 34 124-181 116-149 (156)
163 PF07975 C1_4: TFIIH C1-like d 30.0 22 0.00047 23.4 0.5 24 433-456 21-44 (51)
164 KOG4167|consensus 29.4 16 0.00036 38.1 -0.3 25 461-485 792-816 (907)
165 COG4888 Uncharacterized Zn rib 29.2 20 0.00044 27.1 0.2 37 432-472 21-57 (104)
166 TIGR00280 L37a ribosomal prote 28.8 23 0.0005 26.4 0.5 12 461-472 53-64 (91)
167 PRK14714 DNA polymerase II lar 27.7 52 0.0011 37.3 3.0 11 405-415 692-702 (1337)
168 PF04959 ARS2: Arsenite-resist 27.5 36 0.00077 30.4 1.5 24 201-224 78-101 (214)
169 PF13240 zinc_ribbon_2: zinc-r 26.6 37 0.00081 18.0 0.9 8 351-358 15-22 (23)
170 PF13451 zf-trcl: Probable zin 26.4 26 0.00056 22.8 0.3 16 22-37 2-17 (49)
171 COG4957 Predicted transcriptio 26.3 35 0.00076 27.4 1.1 24 434-460 77-100 (148)
172 KOG3408|consensus 26.1 42 0.00091 26.4 1.5 26 197-222 54-79 (129)
173 PRK03824 hypA hydrogenase nick 25.5 29 0.00062 28.5 0.5 12 406-417 71-82 (135)
174 PF01286 XPA_N: XPA protein N- 25.4 42 0.00091 19.9 1.1 13 127-139 5-17 (34)
175 COG1655 Uncharacterized protei 25.4 24 0.00052 31.3 0.1 40 347-386 17-71 (267)
176 PF08271 TF_Zn_Ribbon: TFIIB z 25.0 40 0.00086 21.1 1.0 12 171-182 18-29 (43)
177 KOG3408|consensus 24.8 46 0.001 26.2 1.5 24 375-398 55-78 (129)
178 KOG2807|consensus 24.7 81 0.0018 29.7 3.3 35 434-482 277-311 (378)
179 PRK14714 DNA polymerase II lar 24.4 64 0.0014 36.6 3.0 28 377-415 692-719 (1337)
180 PRK12380 hydrogenase nickel in 23.7 32 0.00069 27.2 0.5 24 349-384 70-93 (113)
181 cd00065 FYVE FYVE domain; Zinc 23.7 48 0.001 22.1 1.3 8 436-443 5-12 (57)
182 smart00154 ZnF_AN1 AN1-like Zi 23.6 39 0.00085 20.7 0.7 13 461-473 12-24 (39)
183 KOG1280|consensus 23.6 59 0.0013 30.9 2.2 36 349-384 79-116 (381)
184 KOG4124|consensus 23.3 20 0.00044 33.7 -0.8 52 169-221 175-233 (442)
185 PRK03976 rpl37ae 50S ribosomal 23.3 31 0.00068 25.7 0.3 12 461-472 54-65 (90)
186 PF04810 zf-Sec23_Sec24: Sec23 23.0 53 0.0012 20.2 1.3 14 168-181 20-33 (40)
187 COG3364 Zn-ribbon containing p 22.9 50 0.0011 25.1 1.3 12 434-445 3-14 (112)
188 PF13878 zf-C2H2_3: zinc-finge 22.8 73 0.0016 19.8 1.9 24 98-121 14-39 (41)
189 PF07649 C1_3: C1-like domain; 22.7 47 0.001 18.8 0.9 11 349-359 15-25 (30)
190 PF13453 zf-TFIIB: Transcripti 22.1 45 0.00097 20.6 0.8 16 434-449 20-35 (41)
191 PF01780 Ribosomal_L37ae: Ribo 21.4 36 0.00079 25.4 0.3 13 349-361 53-65 (90)
192 PRK10220 hypothetical protein; 21.0 61 0.0013 25.1 1.4 15 172-186 20-34 (111)
193 TIGR00686 phnA alkylphosphonat 20.4 59 0.0013 25.1 1.2 14 172-185 19-32 (109)
194 TIGR00100 hypA hydrogenase nic 20.1 46 0.00099 26.4 0.7 11 406-416 71-81 (115)
No 1
>KOG1074|consensus
Probab=99.97 E-value=1.1e-31 Score=262.86 Aligned_cols=58 Identities=36% Similarity=0.658 Sum_probs=55.4
Q ss_pred ccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhhcCCCCCC
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSAHGIGKPG 491 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 491 (543)
..|.+|++.|.+.+.|..||++|+++|||.|.+|++.|..+.+|+.||.+|+...++.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~s 937 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPS 937 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCc
Confidence 6799999999999999999999999999999999999999999999999999887764
No 2
>KOG2462|consensus
Probab=99.97 E-value=4.6e-31 Score=228.35 Aligned_cols=136 Identities=38% Similarity=0.745 Sum_probs=129.3
Q ss_pred CCCeecccCccccCCchhHHhhhhhcCC---CCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHh
Q psy2726 347 ERPFRCEVCMKTFTQQPNLWKHMKTHTG---EKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVK 423 (543)
Q Consensus 347 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~---~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~ 423 (543)
...|+|+.||+.+.+.++|.+|.++|-. .+.+.|++|||.|.+...|..|+++|+ -+++|.+|||.|....-|+-
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 3459999999999999999999999853 677999999999999999999999997 67999999999999999999
Q ss_pred hhhhccCCCcccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhh
Q psy2726 424 HNRLHSGERPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSA 484 (543)
Q Consensus 424 H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 484 (543)
|+|+|+|||||.|+.|+++|.++++|+.||++|++.|+|+|..|+++|..++.|.+|...-
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~ 266 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESA 266 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhc
Confidence 9999999999999999999999999999999999999999999999999999999998753
No 3
>KOG1074|consensus
Probab=99.96 E-value=2.4e-30 Score=253.68 Aligned_cols=215 Identities=27% Similarity=0.556 Sum_probs=144.3
Q ss_pred ccccCccccccCCchhHHHHHhhhcCCCCcccccchhhccChHHHHHHHHHHhcccccccccccccceecccccCccccc
Q psy2726 172 PFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTENLKLYTRRKEEVEVEVDVCAGIYPLH 251 (543)
Q Consensus 172 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (543)
|-.|-+|.+...-++.|+.|.++|+||+||+|.+|++.|.++.+|+.|+-+|... .+
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~-p~---------------------- 661 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAK-PP---------------------- 661 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccC-cc----------------------
Confidence 3679999999999999999999999999999999999999999999999888542 11
Q ss_pred cCCCcccCCCCCCCCCCCcccccCCCCCCCCcccc---cccccccCCcccCcCCCcchhhhhccCCccccccccCccccc
Q psy2726 252 QEGGVGLMGLPSHCCPGPIRKRKKKPRRDGTFVCK---VCNKTFTQSSWGHKGLTKSRDIQNLTGKISWAHSERNISGWL 328 (543)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~---~C~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 (543)
-...+.|+ +|-+.|.+.-.+..++..+.--....+.... ...
T Consensus 662 ---------------------------~R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~s~g~~a~--e~~------ 706 (958)
T KOG1074|consen 662 ---------------------------ARVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQISNGGTAA--EGI------ 706 (958)
T ss_pred ---------------------------ccccccCCchhhhcccccccccccceEEeecCCCCCCCcccc--ccc------
Confidence 22467899 9999999887554444432211110010000 000
Q ss_pred cccccccchhhhhhhcCCCCCeecccCccccCCchhHHhhhhhcC----------------CCC----CccCccchhccC
Q psy2726 329 EELPLLVNLGTHERIHTGERPFRCEVCMKTFTQQPNLWKHMKTHT----------------GEK----PYNCGMCDKAFT 388 (543)
Q Consensus 329 ~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~----------------~~k----~~~C~~C~~~f~ 388 (543)
--.-+|..|.+.|.....+..++..|. ++. +..+..|+..+.
T Consensus 707 ------------------~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~~~~ 768 (958)
T KOG1074|consen 707 ------------------LAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGRELE 768 (958)
T ss_pred ------------------chhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccccccccC
Confidence 000234444444444444444433321 111 233444444444
Q ss_pred ChHHHHHHHhhh-----------------------CC-------------------------------------------
Q psy2726 389 QRANLLKHIRVH-----------------------TG------------------------------------------- 402 (543)
Q Consensus 389 ~~~~L~~H~~~H-----------------------~~------------------------------------------- 402 (543)
....+..+-..+ ++
T Consensus 769 ~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~n~~ 848 (958)
T KOG1074|consen 769 GEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKTNEI 848 (958)
T ss_pred cccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccccccccc
Confidence 333333221100 00
Q ss_pred ----------------------------CCCcccccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhhh
Q psy2726 403 ----------------------------ERPYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHER 454 (543)
Q Consensus 403 ----------------------------~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~ 454 (543)
.....|.+||+.|...++|..|+++|+++|||.|.+|++.|..+.+|+.||.
T Consensus 849 t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMg 928 (958)
T KOG1074|consen 849 TPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMG 928 (958)
T ss_pred cCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhc
Confidence 0126899999999999999999999999999999999999999999999999
Q ss_pred hhCCCCce
Q psy2726 455 VHTGVKPY 462 (543)
Q Consensus 455 ~H~~~~~~ 462 (543)
+|....|+
T Consensus 929 tH~w~q~~ 936 (958)
T KOG1074|consen 929 THMWVQPP 936 (958)
T ss_pred cccccCCC
Confidence 99988765
No 4
>KOG2462|consensus
Probab=99.95 E-value=9.2e-29 Score=214.13 Aligned_cols=137 Identities=39% Similarity=0.806 Sum_probs=128.3
Q ss_pred CCCCCcccccccccccCCcccCcCCCcchhhhhccCCccccccccCccccccccccccchhhhhhhcCC---CCCeeccc
Q psy2726 278 RRDGTFVCKVCNKTFTQSSWGHKGLTKSRDIQNLTGKISWAHSERNISGWLEELPLLVNLGTHERIHTG---ERPFRCEV 354 (543)
Q Consensus 278 ~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~h~~~h~~---~~~~~C~~ 354 (543)
.....|+|+.|++.+.+.+ +|.+|.+.|-. .+.+.|++
T Consensus 126 ~~~~r~~c~eCgk~ysT~s---------------------------------------nLsrHkQ~H~~~~s~ka~~C~~ 166 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSS---------------------------------------NLSRHKQTHRSLDSKKAFSCKY 166 (279)
T ss_pred ccCCceecccccccccccc---------------------------------------ccchhhcccccccccccccCCC
Confidence 3556799999999999998 88899888753 56799999
Q ss_pred CccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHhhhhhccCCCcc
Q psy2726 355 CMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVKHNRLHSGERPY 434 (543)
Q Consensus 355 C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~ 434 (543)
|++.|.+...|..|+++|+ -+++|.+|||.|.....|+-|+|+|+|||||.|+.|++.|.++++|+.||++|.+.|+|
T Consensus 167 C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~ 244 (279)
T KOG2462|consen 167 CGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKH 244 (279)
T ss_pred CCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccc
Confidence 9999999999999999997 67999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccccCCchhHHhhhhh
Q psy2726 435 HCRYCTKTFIQQSNLDRHERV 455 (543)
Q Consensus 435 ~C~~C~~~f~~~~~L~~H~~~ 455 (543)
+|..|+|+|..++.|.+|...
T Consensus 245 qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 245 QCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999753
No 5
>KOG3608|consensus
Probab=99.94 E-value=2.4e-27 Score=209.93 Aligned_cols=234 Identities=28% Similarity=0.617 Sum_probs=163.2
Q ss_pred ccCC--cCCcccccccccCCcccccCCCccchhhcccccccccccCCCc-cccC--ccccccCCchhHHHHHhhhcCCCC
Q psy2726 126 YNCG--MCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERP-FRCE--VCMKTFTQQPNLWKHMKTHTGEKP 200 (543)
Q Consensus 126 ~~C~--~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~-~~C~--~C~~~f~~~~~L~~H~~~h~~~~~ 200 (543)
|.|. .|+..|.+...+..|...|.-.... . -..+-..++| +.|. .|.+.|.++..|+.|+++|++++.
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~cey------d-~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKv 207 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEY------D-IQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKV 207 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhh------h-hhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeE
Confidence 4553 4777777666655555444322110 0 0111112222 5564 599999999999999999999999
Q ss_pred cccccchhhccChHHHHHHHHHHhcccccccccccccceecccccCccccccCCCcccCCCCCCCCCCCcccccCCCCCC
Q psy2726 201 YNCGMCDKAFTQRANLLKHIRVHTENLKLYTRRKEEVEVEVDVCAGIYPLHQEGGVGLMGLPSHCCPGPIRKRKKKPRRD 280 (543)
Q Consensus 201 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 280 (543)
..|+.|+.-|.++..|..|++..+.. .
T Consensus 208 vACp~Cg~~F~~~tkl~DH~rRqt~l----------------------------------------------------~- 234 (467)
T KOG3608|consen 208 VACPHCGELFRTKTKLFDHLRRQTEL----------------------------------------------------N- 234 (467)
T ss_pred EecchHHHHhccccHHHHHHHhhhhh----------------------------------------------------c-
Confidence 99999999999999999998764321 1
Q ss_pred CCcccccccccccCCcccCcCCCcchhhhhccCCccccccccCccccccccccccchhhhhhhcCCCCCeecccCccccC
Q psy2726 281 GTFVCKVCNKTFTQSSWGHKGLTKSRDIQNLTGKISWAHSERNISGWLEELPLLVNLGTHERIHTGERPFRCEVCMKTFT 360 (543)
Q Consensus 281 ~~~~C~~C~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 360 (543)
..+|.|..|.|.|.
T Consensus 235 ------------------------------------------------------------------~n~fqC~~C~KrFa 248 (467)
T KOG3608|consen 235 ------------------------------------------------------------------TNSFQCAQCFKRFA 248 (467)
T ss_pred ------------------------------------------------------------------CCchHHHHHHHHHh
Confidence 12467777777777
Q ss_pred CchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHh-hhCCCCCcccccccccccChHHHHhhhhhccCCCcccccc-
Q psy2726 361 QQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIR-VHTGERPYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRY- 438 (543)
Q Consensus 361 ~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~-~H~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~- 438 (543)
+...|..|+..|-+ -|+|+.|+.+....+.|..|++ .|..++||+|+.|++.|.+.++|.+|..+|+ +-.|.|..
T Consensus 249 TeklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~ 325 (467)
T KOG3608|consen 249 TEKLLKSHVVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHP 325 (467)
T ss_pred HHHHHHHHHHHhhh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCC
Confidence 77777777777643 4777777777777777777776 4666777777777777777777777777776 45577776
Q ss_pred -cccccCCchhHHhhhhhhC-CC--CceeccccchhccCcchHHHHHHhhcCCC
Q psy2726 439 -CTKTFIQQSNLDRHERVHT-GV--KPYSCKICWKAFAQTGNLTKHELSAHGIG 488 (543)
Q Consensus 439 -C~~~f~~~~~L~~H~~~H~-~~--~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 488 (543)
|.++|.+...|.+|++.++ |. .+|.|..|++.|++-.+|..|++..|+-+
T Consensus 326 ~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 326 DCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred CCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhccc
Confidence 7777777777777776443 43 35777777777777777777777777654
No 6
>KOG3608|consensus
Probab=99.92 E-value=1.7e-25 Score=198.31 Aligned_cols=234 Identities=26% Similarity=0.585 Sum_probs=196.8
Q ss_pred ccccc--ccccccCCchhHHHHHhhhcC------------CC-cccCC--cCCcccccccccCCcccccCCCccchhhcc
Q psy2726 97 PFRCE--VCMKTFTQQPNLWKHMKTHTG------------EK-PYNCG--MCDKAFTQRANLWGSWVCHPTAVRDLFLVN 159 (543)
Q Consensus 97 ~~~C~--~C~~~f~~~~~L~~H~~~h~~------------~~-~~~C~--~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~ 159 (543)
.|.|. .|+..|.+...|..|+..|.. ++ .+.|. .|-+.|.+++.
T Consensus 134 ~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~------------------- 194 (467)
T KOG3608|consen 134 NFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYR------------------- 194 (467)
T ss_pred hhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHH-------------------
Confidence 36775 599999999999999987742 11 24564 47777877777
Q ss_pred cccccccccCCCccccCccccccCCchhHHHHHhhhc--CCCCcccccchhhccChHHHHHHHHHHhccccccccccccc
Q psy2726 160 LGTHERIHTGERPFRCEVCMKTFTQQPNLWKHMKTHT--GEKPYNCGMCDKAFTQRANLLKHIRVHTENLKLYTRRKEEV 237 (543)
Q Consensus 160 l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~--~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~ 237 (543)
|+.|.+.|++++...|+.||.-|.++..|-.|++.-+ ...+|+|..|.+.|.++..|..|+..|-.
T Consensus 195 LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn------------ 262 (467)
T KOG3608|consen 195 LREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN------------ 262 (467)
T ss_pred HHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh------------
Confidence 7899999999999999999999999999999987643 45689999999999999999999987742
Q ss_pred ceecccccCccccccCCCcccCCCCCCCCCCCcccccCCCCCCCCcccccccccccCCcccCcCCCcchhhhhccCCccc
Q psy2726 238 EVEVDVCAGIYPLHQEGGVGLMGLPSHCCPGPIRKRKKKPRRDGTFVCKVCNKTFTQSSWGHKGLTKSRDIQNLTGKISW 317 (543)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~~~~~~~~~~ 317 (543)
T Consensus 263 -------------------------------------------------------------------------------- 262 (467)
T KOG3608|consen 263 -------------------------------------------------------------------------------- 262 (467)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccCccccccccccccchhhhhhhcCCCCCeecccCccccCCchhHHhhhhh-cCCCCCccCccchhccCChHHHHHH
Q psy2726 318 AHSERNISGWLEELPLLVNLGTHERIHTGERPFRCEVCMKTFTQQPNLWKHMKT-HTGEKPYNCGMCDKAFTQRANLLKH 396 (543)
Q Consensus 318 ~~~~~~~~~~~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~-h~~~k~~~C~~C~~~f~~~~~L~~H 396 (543)
.|+|+.|+.+....++|..|++. |...+||+|+.|++.|.+.++|.+|
T Consensus 263 -------------------------------~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH 311 (467)
T KOG3608|consen 263 -------------------------------CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKH 311 (467)
T ss_pred -------------------------------cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHH
Confidence 17888888889999999999886 7788999999999999999999999
Q ss_pred HhhhCCCCCccccc--ccccccChHHHHhhhhhcc-C--CCcccccccccccCCchhHHhhhh-hh-----CCCCceecc
Q psy2726 397 IRVHTGERPYSCKL--CGKRFTQQANLVKHNRLHS-G--ERPYHCRYCTKTFIQQSNLDRHER-VH-----TGVKPYSCK 465 (543)
Q Consensus 397 ~~~H~~~~~~~C~~--C~k~F~~~~~L~~H~~~H~-~--~~~~~C~~C~~~f~~~~~L~~H~~-~H-----~~~~~~~C~ 465 (543)
+.+|+ +..|+|.. |..+|.+...|++|++.++ | +-+|.|..|++.|.+-.+|.+|++ .| .|-+.|.=.
T Consensus 312 ~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~RFtYk 390 (467)
T KOG3608|consen 312 VQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHKRFTYK 390 (467)
T ss_pred HHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCCCceeee
Confidence 99988 66799988 9999999999999998765 4 456999999999999999999975 44 244557777
Q ss_pred ccchhccC
Q psy2726 466 ICWKAFAQ 473 (543)
Q Consensus 466 ~C~~~f~~ 473 (543)
.|.-+|-+
T Consensus 391 ~~edG~mR 398 (467)
T KOG3608|consen 391 VDEDGFMR 398 (467)
T ss_pred eccCceee
Confidence 77766654
No 7
>KOG3623|consensus
Probab=99.92 E-value=9.6e-26 Score=217.54 Aligned_cols=119 Identities=25% Similarity=0.539 Sum_probs=99.2
Q ss_pred ccccccccccCCchhHHHHHhhhc--CCCcccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCcccc
Q psy2726 98 FRCEVCMKTFTQQPNLWKHMKTHT--GEKPYNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRC 175 (543)
Q Consensus 98 ~~C~~C~~~f~~~~~L~~H~~~h~--~~~~~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C 175 (543)
..|++|++.+.....|+.|++.-+ .+..|.|.+|.++|..+..|.+||..|....... .+.......+.|+|
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa------~sltqsa~lRKFKC 284 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA------ISLTQSALLRKFKC 284 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc------ccccchhhhccccc
Confidence 679999999999999999987533 4567999999999999999888877665433211 12222234567999
Q ss_pred CccccccCCchhHHHHHhhhcCCCCcccccchhhccChHHHHHHHHH
Q psy2726 176 EVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRV 222 (543)
Q Consensus 176 ~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 222 (543)
..|||.|..+..|+.|+|+|.|++||.|+.|++.|....++..||..
T Consensus 285 tECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 285 TECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred cccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 99999999999999999999999999999999999999999999854
No 8
>KOG3623|consensus
Probab=99.89 E-value=1.1e-23 Score=203.36 Aligned_cols=112 Identities=21% Similarity=0.482 Sum_probs=96.3
Q ss_pred CcccccccccccCCCCCCCCCccccccccccCccccccccccccccccccCCccccc-ccccccchhhhcC---------
Q psy2726 24 TFVCKVCNKTFTQSSWGHKGLTKSRDIQNLTGKISWAHSERNISGWLEELPLVNLPL-ERSRRSTHERIHT--------- 93 (543)
Q Consensus 24 ~~~C~~C~~~f~~~~~~~~~l~~h~~~~~~~~~~~~~c~~~~~c~~~~~~~~~~~~~-~~~~l~~H~~~h~--------- 93 (543)
...|++|+..+.... .|..|++-.....+..|.|.. |. +.| .+..|.+||.+|.
T Consensus 210 lltcpycdrgykrlt----slkeHikyrhekne~nfsC~l---Cs---------ytFAyRtQLErhm~~hkpg~dqa~sl 273 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLT----SLKEHIKYRHEKNEPNFSCML---CS---------YTFAYRTQLERHMQLHKPGGDQAISL 273 (1007)
T ss_pred hhcchhHHHHHHHHH----HHHHHHHHHHhhCCCCCcchh---hh---------hhhhhHHHHHHHHHhhcCCCcccccc
Confidence 468999999998877 888888765445667788999 98 899 8888999998874
Q ss_pred ----CCccccccccccccCCchhHHHHHhhhcCCCcccCCcCCcccccccccCCcccccCCC
Q psy2726 94 ----GERPFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLWGSWVCHPTA 151 (543)
Q Consensus 94 ----~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~h~~~~~~~ 151 (543)
+.+.|+|..|+|.|+.+..|+.|+|+|+|+|||.|+.|++.|+.....-.||....|-
T Consensus 274 tqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSKKCI 335 (1007)
T KOG3623|consen 274 TQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSKKCI 335 (1007)
T ss_pred cchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccccchh
Confidence 2367999999999999999999999999999999999999999999888888766543
No 9
>KOG3576|consensus
Probab=99.74 E-value=4.8e-19 Score=145.27 Aligned_cols=123 Identities=34% Similarity=0.564 Sum_probs=75.4
Q ss_pred CCCeecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHhhhh
Q psy2726 347 ERPFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVKHNR 426 (543)
Q Consensus 347 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~H~~ 426 (543)
...|.|.+|++.|.-...|.+|++-|...+.|.|..||+.|....+|++|+++|+|.+||+|..|++.|..+-.|..|++
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 34467777777777777777777777666667777777777777777777777777777777777777777666766665
Q ss_pred hccCCCcccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhhcC
Q psy2726 427 LHSGERPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSAHG 486 (543)
Q Consensus 427 ~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 486 (543)
.-+|... ...+ .-..++.|.|+.||++-.....+..|+..+|.
T Consensus 195 kvhgv~~------------~yay-----kerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 195 KVHGVQH------------QYAY-----KERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HHcCchH------------HHHH-----HHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 4443210 0000 00123456666666666666666666666654
No 10
>KOG3576|consensus
Probab=99.74 E-value=5.1e-19 Score=145.10 Aligned_cols=114 Identities=30% Similarity=0.529 Sum_probs=72.4
Q ss_pred cccccccchhhhhhhcCCCCCeecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCccc
Q psy2726 329 EELPLLVNLGTHERIHTGERPFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSC 408 (543)
Q Consensus 329 ~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C 408 (543)
..+.+...|.+|++-|...+.|.|..||+.|.+...|++|+++|+|.+||+|..|+++|+.+-.|..|++.-+|...
T Consensus 125 K~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~--- 201 (267)
T KOG3576|consen 125 KKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQH--- 201 (267)
T ss_pred hhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchH---
Confidence 44445556777777777777777888888888777888888888888888888888888888788887765444210
Q ss_pred ccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhhhhhCCC
Q psy2726 409 KLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHERVHTGV 459 (543)
Q Consensus 409 ~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~ 459 (543)
....+ ....+.|.|..||.+-.....+..|++.|+..
T Consensus 202 ---------~yayk-----err~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 202 ---------QYAYK-----ERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ---------HHHHH-----HhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 00000 01234455666665555555555565555443
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.44 E-value=1.9e-13 Score=134.98 Aligned_cols=133 Identities=22% Similarity=0.536 Sum_probs=106.8
Q ss_pred chhhhhhhcCCCCCeeccc--CccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccc
Q psy2726 336 NLGTHERIHTGERPFRCEV--CMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGK 413 (543)
Q Consensus 336 ~l~~h~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k 413 (543)
++..|...- .-....|+. |+..|. +..+..| +.|+.|++.|. ...|..|+.+++ +++.|+ ||+
T Consensus 421 ~l~lHe~~C-~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~ 485 (567)
T PLN03086 421 SIALHEAYC-SRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGV 485 (567)
T ss_pred HHHHHHhhC-CCcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCC
Confidence 455665432 223357884 999884 3344444 58999999996 688999999986 789999 997
Q ss_pred cccChHHHHhhhhhccCCCcccccccccccCC----------chhHHhhhhhhCCCCceeccccchhccCcchHHHHHHh
Q psy2726 414 RFTQQANLVKHNRLHSGERPYHCRYCTKTFIQ----------QSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELS 483 (543)
Q Consensus 414 ~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~----------~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 483 (543)
.+ .+..|..|+.+|.+.+++.|++|++.|.. .+.|..|+.+. |.+++.|..||+.|..+ .|..|+..
T Consensus 486 ~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~ 562 (567)
T PLN03086 486 VL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIA 562 (567)
T ss_pred Cc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHH
Confidence 55 67999999999999999999999999952 45899999885 99999999999988765 59999988
Q ss_pred hcC
Q psy2726 484 AHG 486 (543)
Q Consensus 484 ~h~ 486 (543)
.|.
T Consensus 563 ~h~ 565 (567)
T PLN03086 563 VHQ 565 (567)
T ss_pred hhc
Confidence 875
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.29 E-value=7.6e-12 Score=123.78 Aligned_cols=98 Identities=24% Similarity=0.617 Sum_probs=85.5
Q ss_pred eecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCccccccccccc----------ChH
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFT----------QQA 419 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~----------~~~ 419 (543)
+.|+.|++.|. ...|..|+++++ +++.|+ ||+.+ .+..|..|+.+|.+.+++.|+.|++.|. ..+
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 68999999996 688999999986 789999 99755 6799999999999999999999999995 245
Q ss_pred HHHhhhhhccCCCcccccccccccCCchhHHhhhh
Q psy2726 420 NLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHER 454 (543)
Q Consensus 420 ~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~ 454 (543)
.|..|+.+. |.+++.|..||+.|..+ .|..|+.
T Consensus 529 ~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~ 561 (567)
T PLN03086 529 GMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQI 561 (567)
T ss_pred hHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHH
Confidence 899999986 89999999999988654 6788864
No 13
>PHA00733 hypothetical protein
Probab=99.28 E-value=2.5e-12 Score=103.34 Aligned_cols=100 Identities=21% Similarity=0.276 Sum_probs=60.5
Q ss_pred hhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHhhhhhccCCCcccccccccc
Q psy2726 363 PNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKT 442 (543)
Q Consensus 363 ~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~ 442 (543)
..|..+-..-...+++.|.+|++.|.....|..|. .|..|+.. ++++||.|+.|++.
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~----------------------~l~~~~~~-~~~kPy~C~~Cgk~ 82 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESS----------------------YLYKLLTS-KAVSPYVCPLCLMP 82 (128)
T ss_pred HHhhhhhcCChhhhhHHHHHHhhhccChhhhcchH----------------------HHHhhccc-CCCCCccCCCCCCc
Confidence 33333333333345566666666665555544431 13333333 33667777777777
Q ss_pred cCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhhcCC
Q psy2726 443 FIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSAHGI 487 (543)
Q Consensus 443 f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 487 (543)
|.+...|..|++.| +.+|.|..|++.|.....|..|+...|++
T Consensus 83 Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 83 FSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 77777777777765 34677777777777777777777777765
No 14
>PHA00733 hypothetical protein
Probab=99.20 E-value=1.3e-11 Score=99.25 Aligned_cols=83 Identities=23% Similarity=0.396 Sum_probs=50.9
Q ss_pred CCCCCeecccCccccCCchhHHhhhh-----hcCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccccChH
Q psy2726 345 TGERPFRCEVCMKTFTQQPNLWKHMK-----THTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQA 419 (543)
Q Consensus 345 ~~~~~~~C~~C~~~f~~~~~L~~H~~-----~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~ 419 (543)
...+++.|.+|.+.|.+...|..+.. .+++.+||.|+.||+.|.+...|..|++.| +.+|.|++|++.|....
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~ 113 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTD 113 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHH
Confidence 34567999999999998877766521 123355666666666666666666666554 23455555555555555
Q ss_pred HHHhhhhhcc
Q psy2726 420 NLVKHNRLHS 429 (543)
Q Consensus 420 ~L~~H~~~H~ 429 (543)
.|..|+...+
T Consensus 114 sL~~H~~~~h 123 (128)
T PHA00733 114 STLDHVCKKH 123 (128)
T ss_pred HHHHHHHHhc
Confidence 5555555433
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.00 E-value=1.4e-10 Score=75.54 Aligned_cols=42 Identities=24% Similarity=0.526 Sum_probs=25.9
Q ss_pred ccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchH
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNL 477 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l 477 (543)
|.|+.||+.|...+.|..|+++|+ +||+|..|++.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 566666666666666666666666 456666666666655544
No 16
>KOG3993|consensus
Probab=98.93 E-value=2.7e-10 Score=104.99 Aligned_cols=138 Identities=28% Similarity=0.450 Sum_probs=108.9
Q ss_pred CeecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCC--------------------------
Q psy2726 349 PFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTG-------------------------- 402 (543)
Q Consensus 349 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~-------------------------- 402 (543)
.|.|..|...|.+...|.+|.-.---.-.|+|+.|+|.|.-..+|..|.|.|..
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 389999999999999999997432222349999999999999999999998841
Q ss_pred -------CCCcccccccccccChHHHHhhhhhccCC--------------------------------------------
Q psy2726 403 -------ERPYSCKLCGKRFTQQANLVKHNRLHSGE-------------------------------------------- 431 (543)
Q Consensus 403 -------~~~~~C~~C~k~F~~~~~L~~H~~~H~~~-------------------------------------------- 431 (543)
+.-|.|.+|++.|.++..|+.|+.+|+..
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~ 426 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAG 426 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeec
Confidence 11389999999999999999998887521
Q ss_pred --CcccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhhcC
Q psy2726 432 --RPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSAHG 486 (543)
Q Consensus 432 --~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 486 (543)
..-.|++|+-.+.++..--.+.+.-..+..|.|.+|.-+|.+...|.+|+...|-
T Consensus 427 sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 427 SAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred cccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcCh
Confidence 0134677777776666655565555556679999999999999999999988774
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.93 E-value=4.2e-10 Score=73.29 Aligned_cols=43 Identities=19% Similarity=0.576 Sum_probs=27.6
Q ss_pred cccccccccccChHHHHhhhhhccCCCcccccccccccCCchhHH
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLD 450 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~ 450 (543)
|.|+.||+.|...++|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 566666666666666666666666 4666666666666555543
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.74 E-value=5.2e-09 Score=58.19 Aligned_cols=24 Identities=58% Similarity=1.097 Sum_probs=15.5
Q ss_pred HHhhhhhhCCCCceeccccchhcc
Q psy2726 449 LDRHERVHTGVKPYSCKICWKAFA 472 (543)
Q Consensus 449 L~~H~~~H~~~~~~~C~~C~~~f~ 472 (543)
|.+||++|++++||.|++|++.|.
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 566666666666666666666664
No 19
>KOG3993|consensus
Probab=98.73 E-value=5.5e-09 Score=96.57 Aligned_cols=83 Identities=28% Similarity=0.535 Sum_probs=66.3
Q ss_pred cccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccccCCchhHHHHHhhhcC-------
Q psy2726 125 PYNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKTFTQQPNLWKHMKTHTG------- 197 (543)
Q Consensus 125 ~~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~------- 197 (543)
.|.|.+|...|.+.-. |.+|.-.-.-.-.|+|+.|+|.|+-...|..|.|.|..
T Consensus 267 dyiCqLCK~kYeD~F~-------------------LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a 327 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFA-------------------LAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKA 327 (500)
T ss_pred HHHHHHHHHhhhhHHH-------------------HhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhc
Confidence 3889999999888777 45554221112359999999999999999999998832
Q ss_pred --------------------------CCCcccccchhhccChHHHHHHHHHHhcc
Q psy2726 198 --------------------------EKPYNCGMCDKAFTQRANLLKHIRVHTEN 226 (543)
Q Consensus 198 --------------------------~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 226 (543)
+..|.|..|++.|.+...|++|+.+|+..
T Consensus 328 ~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 328 GSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred CCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 12489999999999999999999998764
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=98.66 E-value=1.2e-08 Score=56.81 Aligned_cols=24 Identities=54% Similarity=1.207 Sum_probs=14.1
Q ss_pred HHhhhhhccCCCcccccccccccC
Q psy2726 421 LVKHNRLHSGERPYHCRYCTKTFI 444 (543)
Q Consensus 421 L~~H~~~H~~~~~~~C~~C~~~f~ 444 (543)
|..|+++|+|++||.|++|+++|.
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 555556666666666666665554
No 21
>PHA00616 hypothetical protein
Probab=98.49 E-value=4.3e-08 Score=60.61 Aligned_cols=32 Identities=16% Similarity=0.300 Sum_probs=16.6
Q ss_pred ccccccccccCCchhHHhhhhhhCCCCceecc
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVKPYSCK 465 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~ 465 (543)
|+|+.||+.|..++.|.+|++.|+|++++.|+
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 45555555555555555555555555555443
No 22
>PHA00616 hypothetical protein
Probab=98.45 E-value=7.2e-08 Score=59.65 Aligned_cols=34 Identities=21% Similarity=0.462 Sum_probs=18.9
Q ss_pred CcccccccccccChHHHHhhhhhccCCCcccccc
Q psy2726 405 PYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRY 438 (543)
Q Consensus 405 ~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~ 438 (543)
||+|+.||+.|..+++|..|++.|+|++++.|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 3555555555555555555555555555555543
No 23
>PHA00732 hypothetical protein
Probab=98.37 E-value=2.6e-07 Score=66.95 Aligned_cols=46 Identities=26% Similarity=0.566 Sum_probs=22.6
Q ss_pred CcccccccccccChHHHHhhhhh-ccCCCcccccccccccCCchhHHhhhhhh
Q psy2726 405 PYSCKLCGKRFTQQANLVKHNRL-HSGERPYHCRYCTKTFIQQSNLDRHERVH 456 (543)
Q Consensus 405 ~~~C~~C~k~F~~~~~L~~H~~~-H~~~~~~~C~~C~~~f~~~~~L~~H~~~H 456 (543)
||.|+.|++.|.+...|+.|++. |. ++.|+.|+++|. .|..|++++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 34555555555555555555542 32 234555555554 344554433
No 24
>PHA00732 hypothetical protein
Probab=98.30 E-value=3.3e-07 Score=66.44 Aligned_cols=46 Identities=30% Similarity=0.559 Sum_probs=40.0
Q ss_pred cccccccccccCCchhHHhhhhh-hCCCCceeccccchhccCcchHHHHHHhh
Q psy2726 433 PYHCRYCTKTFIQQSNLDRHERV-HTGVKPYSCKICWKAFAQTGNLTKHELSA 484 (543)
Q Consensus 433 ~~~C~~C~~~f~~~~~L~~H~~~-H~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 484 (543)
||.|+.|++.|.+...|..|++. |++ +.|+.||+.|. .|..|+++.
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 68999999999999999999984 654 68999999998 588998554
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=98.06 E-value=4.7e-06 Score=56.07 Aligned_cols=50 Identities=34% Similarity=0.571 Sum_probs=28.7
Q ss_pred ccccccccccCCchhHHhhhh-hhCCC-CceeccccchhccCcchHHHHHHhhcC
Q psy2726 434 YHCRYCTKTFIQQSNLDRHER-VHTGV-KPYSCKICWKAFAQTGNLTKHELSAHG 486 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~-~H~~~-~~~~C~~C~~~f~~~~~l~~H~~~~h~ 486 (543)
|.||+|++ ..+...|..|.. .|..+ +.+.|++|...+. .+|..|+...|+
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 56666666 334456666644 34433 3466666666544 367777766653
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=97.88 E-value=1.6e-05 Score=53.47 Aligned_cols=6 Identities=67% Similarity=0.662 Sum_probs=2.3
Q ss_pred hHHhhh
Q psy2726 448 NLDRHE 453 (543)
Q Consensus 448 ~L~~H~ 453 (543)
+|..|+
T Consensus 44 ~l~~Hl 49 (54)
T PF05605_consen 44 NLIRHL 49 (54)
T ss_pred HHHHHH
Confidence 333333
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=97.85 E-value=7e-06 Score=44.34 Aligned_cols=19 Identities=47% Similarity=0.906 Sum_probs=7.6
Q ss_pred cccccccccCCchhHHhhh
Q psy2726 435 HCRYCTKTFIQQSNLDRHE 453 (543)
Q Consensus 435 ~C~~C~~~f~~~~~L~~H~ 453 (543)
.|++|++.|.++..|.+|+
T Consensus 2 ~C~~C~~~f~~~~~l~~H~ 20 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHM 20 (23)
T ss_dssp EETTTTEEESSHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHH
Confidence 3334444444444444443
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=97.75 E-value=1.2e-05 Score=43.40 Aligned_cols=22 Identities=45% Similarity=1.046 Sum_probs=11.8
Q ss_pred cccccccccccChHHHHhhhhh
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRL 427 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~ 427 (543)
|.|++|++.|.++..|..|++.
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 4455555555555555555544
No 29
>KOG1146|consensus
Probab=97.75 E-value=4.9e-05 Score=81.37 Aligned_cols=56 Identities=18% Similarity=0.197 Sum_probs=44.8
Q ss_pred ccccccccccCCchhHHhhhh-hhCCCCceeccccchhccCcchHHHHHHhhcCCCC
Q psy2726 434 YHCRYCTKTFIQQSNLDRHER-VHTGVKPYSCKICWKAFAQTGNLTKHELSAHGIGK 489 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~-~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 489 (543)
|.|..|++.|.+...++.|-. .+..+--++|..|...-..+..|..|..+-|...|
T Consensus 995 ~~~~~~~k~~s~~~l~~l~~~~~~v~~s~~kc~~~q~~~q~k~~l~a~~~~l~s~~p 1051 (1406)
T KOG1146|consen 995 FYVSCCGKLFSRQHLAKLKEAVRAVLKSESKCYLCQPAPQAKPALKAHPATLPSSAP 1051 (1406)
T ss_pred hhhhhccchhhHHHHHHHHHhhhccccchhhhhhhhhhhhCchhhhcCcccccccCc
Confidence 567788888888877777754 44555568999999999999999999988887665
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=97.56 E-value=4.5e-05 Score=41.62 Aligned_cols=24 Identities=33% Similarity=0.747 Sum_probs=11.5
Q ss_pred eeccccchhccCcchHHHHHHhhc
Q psy2726 462 YSCKICWKAFAQTGNLTKHELSAH 485 (543)
Q Consensus 462 ~~C~~C~~~f~~~~~l~~H~~~~h 485 (543)
|.|++|++.|.+...|..|++++|
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 445555555555555555555443
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.54 E-value=4e-05 Score=59.81 Aligned_cols=74 Identities=23% Similarity=0.436 Sum_probs=18.9
Q ss_pred ccccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhhc
Q psy2726 407 SCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSAH 485 (543)
Q Consensus 407 ~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 485 (543)
+|.+|+..|.+...|..|+...++.. -+ ....+.....+..+++.-. ...+.|..|++.|.+...|..||+.++
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~---~~-~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD---IP-DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Cccccccccccccccccccccccccc---cc-ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 46677777777777777766544321 11 1112223334444433211 125788888888888888888887653
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=97.49 E-value=6e-05 Score=41.11 Aligned_cols=23 Identities=39% Similarity=0.878 Sum_probs=11.1
Q ss_pred ccccccccccCCchhHHhhhhhh
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVH 456 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H 456 (543)
|.|++|++.|.+...|..|+++|
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 34555555555555555555443
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.46 E-value=5.8e-05 Score=58.90 Aligned_cols=71 Identities=28% Similarity=0.557 Sum_probs=14.0
Q ss_pred CccchhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhhhh
Q psy2726 380 CGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHERV 455 (543)
Q Consensus 380 C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~ 455 (543)
|..|+..|.+...|..|+...++... + ....+.....+..+++.-.. ..+.|.+|++.|.+...|..||+.
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~~-~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKVK-ESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp ----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred cccccccccccccccccccccccccc---c-cccccccccccccccccccC-CCCCCCccCCCCcCHHHHHHHHcC
Confidence 55555555555555555544333210 0 11111222333333322111 136666666666666666666654
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.38 E-value=9.4e-05 Score=41.66 Aligned_cols=22 Identities=36% Similarity=0.850 Sum_probs=8.8
Q ss_pred cccccccccccChHHHHhhhhh
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRL 427 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~ 427 (543)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRS 23 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCT
T ss_pred CCCCccCCccCChhHHHHHhHH
Confidence 3344444444444444444333
No 35
>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=97.38 E-value=8.9e-05 Score=41.76 Aligned_cols=23 Identities=43% Similarity=0.823 Sum_probs=12.3
Q ss_pred ccccccccccCCchhHHhhhhhh
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVH 456 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H 456 (543)
|.|..|++.|.+...|..|++.|
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCccCCccCChhHHHHHhHHh
Confidence 45555555555555555555444
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.38 E-value=7e-05 Score=67.20 Aligned_cols=71 Identities=30% Similarity=0.585 Sum_probs=46.9
Q ss_pred CCccccccc--cccccCCchhHHHHHhh-hcCCCcccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCC
Q psy2726 94 GERPFRCEV--CMKTFTQQPNLWKHMKT-HTGEKPYNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGE 170 (543)
Q Consensus 94 ~~~~~~C~~--C~~~f~~~~~L~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~ 170 (543)
++|||+|++ |+|.|++...|+.|+.. |...+... +.+ -..+...-...
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~---------~p~--------------------p~~~~~F~~~~ 396 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHE---------NPS--------------------PEKMNIFSAKD 396 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCC---------CCC--------------------ccccccccccC
Confidence 358888887 88888888888888763 21111110 000 11222223467
Q ss_pred CccccCccccccCCchhHHHHHh
Q psy2726 171 RPFRCEVCMKTFTQQPNLWKHMK 193 (543)
Q Consensus 171 ~~~~C~~C~~~f~~~~~L~~H~~ 193 (543)
+||+|++|+|.|.....|+.|..
T Consensus 397 KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 397 KPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceeccccchhhccCccceeccc
Confidence 89999999999999999998864
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.25 E-value=0.00011 Score=66.07 Aligned_cols=69 Identities=25% Similarity=0.555 Sum_probs=35.2
Q ss_pred CCCccccc--ccccccChHHHHhhhhh-ccCCCcccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHH
Q psy2726 403 ERPYSCKL--CGKRFTQQANLVKHNRL-HSGERPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTK 479 (543)
Q Consensus 403 ~~~~~C~~--C~k~F~~~~~L~~H~~~-H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~ 479 (543)
++||+|++ |+|.+.....|+.|+.- |...+...=+ .-..|.---..+|||.|++|++.|.....|+-
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 46677766 66777666666666542 2111100000 00000000123467777777777777777776
Q ss_pred HH
Q psy2726 480 HE 481 (543)
Q Consensus 480 H~ 481 (543)
|.
T Consensus 417 Hr 418 (423)
T COG5189 417 HR 418 (423)
T ss_pred cc
Confidence 64
No 38
>KOG1146|consensus
Probab=97.05 E-value=0.0011 Score=71.66 Aligned_cols=56 Identities=27% Similarity=0.532 Sum_probs=48.2
Q ss_pred ccCCCccccCccccccCCchhHHHHHhhhc-------------------------CCCCcccccchhhccChHHHHHHHH
Q psy2726 167 HTGERPFRCEVCMKTFTQQPNLWKHMKTHT-------------------------GEKPYNCGMCDKAFTQRANLLKHIR 221 (543)
Q Consensus 167 h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-------------------------~~~~~~C~~C~~~f~~~~~L~~H~~ 221 (543)
+...+.|+|+.|+..|.....|..|||.-+ +.++|.|..|+..+.++.+|..|++
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 444578999999999999999999999822 1257999999999999999999997
Q ss_pred H
Q psy2726 222 V 222 (543)
Q Consensus 222 ~ 222 (543)
.
T Consensus 540 S 540 (1406)
T KOG1146|consen 540 S 540 (1406)
T ss_pred H
Confidence 5
No 39
>KOG2231|consensus
Probab=96.97 E-value=0.00097 Score=67.92 Aligned_cols=51 Identities=24% Similarity=0.679 Sum_probs=34.3
Q ss_pred ecccCccccCCchhHHhhhhhcCCCCCccCccch------hccCChHHHHHHHhhhCCCCCcccc
Q psy2726 351 RCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCD------KAFTQRANLLKHIRVHTGERPYSCK 409 (543)
Q Consensus 351 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~------~~f~~~~~L~~H~~~H~~~~~~~C~ 409 (543)
.|..|...|-....|.+|++.++ |.|..|+ ..|..-..|..|.+.+| |.|.
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 57777777777777777777665 5666663 44556667777766655 5555
No 40
>KOG2231|consensus
Probab=96.88 E-value=0.0019 Score=65.82 Aligned_cols=100 Identities=26% Similarity=0.555 Sum_probs=53.5
Q ss_pred ecccCccccCCchhHHhhhhhcCCCCCccCccch---------hccCChHHHHHHHhhhC-CCCC----ccccccccccc
Q psy2726 351 RCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCD---------KAFTQRANLLKHIRVHT-GERP----YSCKLCGKRFT 416 (543)
Q Consensus 351 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~---------~~f~~~~~L~~H~~~H~-~~~~----~~C~~C~k~F~ 416 (543)
.|..| ..|.+...|+.|+..-|+ .+.|.+|- ....++..|..|+..-- +++. -.|..|...|.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 46666 566666677777643221 23444331 12223455666654311 1111 35777777777
Q ss_pred ChHHHHhhhhhccCCCcccccccc------cccCCchhHHhhhhhhC
Q psy2726 417 QQANLVKHNRLHSGERPYHCRYCT------KTFIQQSNLDRHERVHT 457 (543)
Q Consensus 417 ~~~~L~~H~~~H~~~~~~~C~~C~------~~f~~~~~L~~H~~~H~ 457 (543)
....|..|++.++ |.|.+|. .-|..-..|..|.+.++
T Consensus 194 d~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 194 DDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 7777777776554 5565553 34555666666666544
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.83 E-value=0.00094 Score=42.38 Aligned_cols=32 Identities=28% Similarity=0.396 Sum_probs=17.1
Q ss_pred CCCceeccccchhccCcchHHHHHHhhcCCCC
Q psy2726 458 GVKPYSCKICWKAFAQTGNLTKHELSAHGIGK 489 (543)
Q Consensus 458 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 489 (543)
.+.|-.|++|+..+++..+|++|+...|+.+|
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 44566666666666666666666666666554
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.80 E-value=0.00081 Score=42.66 Aligned_cols=32 Identities=34% Similarity=0.572 Sum_probs=17.4
Q ss_pred CCCcccccccccccCCchhHHhhhhhhCCCCc
Q psy2726 430 GERPYHCRYCTKTFIQQSNLDRHERVHTGVKP 461 (543)
Q Consensus 430 ~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~ 461 (543)
.+.|-.|++|+..+.+..+|++|+.++++.+|
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 34566677777777777777777766666554
No 43
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.74 E-value=0.0054 Score=62.58 Aligned_cols=141 Identities=26% Similarity=0.496 Sum_probs=95.6
Q ss_pred CeecccCccccCCchhHHhhhh--hcCCC--CCccCc--cchhccCChHHHHHHHhhhCCCCCccccc--ccccccChHH
Q psy2726 349 PFRCEVCMKTFTQQPNLWKHMK--THTGE--KPYNCG--MCDKAFTQRANLLKHIRVHTGERPYSCKL--CGKRFTQQAN 420 (543)
Q Consensus 349 ~~~C~~C~~~f~~~~~L~~H~~--~h~~~--k~~~C~--~C~~~f~~~~~L~~H~~~H~~~~~~~C~~--C~k~F~~~~~ 420 (543)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.. +...+.....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccC
Confidence 5778888888888888888888 78888 888888 68888888888888888888777766654 3333333222
Q ss_pred H-----HhhhhhccCCCcccccc--cccccCCchhHHhhhhhhCCCC--ceeccccchhccCcchHHHHHHhhcCCCC
Q psy2726 421 L-----VKHNRLHSGERPYHCRY--CTKTFIQQSNLDRHERVHTGVK--PYSCKICWKAFAQTGNLTKHELSAHGIGK 489 (543)
Q Consensus 421 L-----~~H~~~H~~~~~~~C~~--C~~~f~~~~~L~~H~~~H~~~~--~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 489 (543)
- ......-.....+.+.. |...+.....+..|...|.... .+.+..|.+.|.....+..|++.+....+
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAP 446 (467)
T ss_pred CCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCc
Confidence 1 11111112233455543 6677777777777777776655 46777788888888888888877665443
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.71 E-value=0.0011 Score=36.71 Aligned_cols=19 Identities=42% Similarity=0.765 Sum_probs=7.4
Q ss_pred ccccccccCCchhHHhhhh
Q psy2726 436 CRYCTKTFIQQSNLDRHER 454 (543)
Q Consensus 436 C~~C~~~f~~~~~L~~H~~ 454 (543)
|+.|++.|.....|..|++
T Consensus 3 C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 3 CPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCcchhCCHHHHHHHHH
Confidence 3333333333333333333
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.66 E-value=0.0011 Score=36.05 Aligned_cols=23 Identities=30% Similarity=0.579 Sum_probs=12.2
Q ss_pred eeccccchhccCcchHHHHHHhhc
Q psy2726 462 YSCKICWKAFAQTGNLTKHELSAH 485 (543)
Q Consensus 462 ~~C~~C~~~f~~~~~l~~H~~~~h 485 (543)
|+|+.|++... ...|.+|++.+|
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 46
>PRK04860 hypothetical protein; Provisional
Probab=96.58 E-value=0.0011 Score=55.59 Aligned_cols=38 Identities=34% Similarity=0.833 Sum_probs=26.3
Q ss_pred cccccccccccCCchhHHhhhhhhCCCCceeccccchhccCc
Q psy2726 433 PYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQT 474 (543)
Q Consensus 433 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~ 474 (543)
+|.|. |+. ....+.+|.++|+++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 57776 766 556677777777777777777777766543
No 47
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.51 E-value=0.0019 Score=35.71 Aligned_cols=22 Identities=41% Similarity=0.810 Sum_probs=11.0
Q ss_pred ccccccccccChHHHHhhhhhc
Q psy2726 407 SCKLCGKRFTQQANLVKHNRLH 428 (543)
Q Consensus 407 ~C~~C~k~F~~~~~L~~H~~~H 428 (543)
.|+.|++.|.+...|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4555555555555555554433
No 48
>KOG2785|consensus
Probab=96.49 E-value=0.009 Score=55.97 Aligned_cols=52 Identities=25% Similarity=0.558 Sum_probs=43.3
Q ss_pred ccccCccccccCCchhHHHHHhh--hc-----------------------------------CCCCcccccchhhccChH
Q psy2726 172 PFRCEVCMKTFTQQPNLWKHMKT--HT-----------------------------------GEKPYNCGMCDKAFTQRA 214 (543)
Q Consensus 172 ~~~C~~C~~~f~~~~~L~~H~~~--h~-----------------------------------~~~~~~C~~C~~~f~~~~ 214 (543)
.|.|.-|...|.+...-+.|+++ |. .+.++.|..|.+.|.+..
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 48899999999999999999875 31 123588999999999999
Q ss_pred HHHHHHHHH
Q psy2726 215 NLLKHIRVH 223 (543)
Q Consensus 215 ~L~~H~~~h 223 (543)
....|+..-
T Consensus 83 a~~~hl~Sk 91 (390)
T KOG2785|consen 83 AHENHLKSK 91 (390)
T ss_pred hHHHHHHHh
Confidence 999998653
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.28 E-value=0.0034 Score=34.00 Aligned_cols=23 Identities=30% Similarity=0.795 Sum_probs=13.1
Q ss_pred cccccchhhccChHHHHHHHHHHh
Q psy2726 201 YNCGMCDKAFTQRANLLKHIRVHT 224 (543)
Q Consensus 201 ~~C~~C~~~f~~~~~L~~H~~~h~ 224 (543)
|+|+.|++... +..|.+|++.++
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 45666666665 666666666654
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.26 E-value=0.0023 Score=35.12 Aligned_cols=20 Identities=35% Similarity=0.783 Sum_probs=9.0
Q ss_pred cccccccccCCchhHHhhhh
Q psy2726 435 HCRYCTKTFIQQSNLDRHER 454 (543)
Q Consensus 435 ~C~~C~~~f~~~~~L~~H~~ 454 (543)
.|.+|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHC
Confidence 34444444444444444443
No 51
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.16 E-value=0.0027 Score=34.80 Aligned_cols=22 Identities=32% Similarity=0.803 Sum_probs=13.5
Q ss_pred cccccccccccChHHHHhhhhh
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRL 427 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~ 427 (543)
|.|.+|++.|.+...|..|++.
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 4566666666666666666554
No 52
>PRK04860 hypothetical protein; Provisional
Probab=96.10 E-value=0.0022 Score=53.83 Aligned_cols=37 Identities=43% Similarity=0.978 Sum_probs=21.2
Q ss_pred CcccccccccccChHHHHhhhhhccCCCcccccccccccCC
Q psy2726 405 PYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQ 445 (543)
Q Consensus 405 ~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~ 445 (543)
+|.|. |+. ....+++|.++|.++++|.|..|+..|..
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 45565 554 44555566666666666666666655543
No 53
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.72 E-value=0.0075 Score=61.51 Aligned_cols=135 Identities=27% Similarity=0.441 Sum_probs=101.5
Q ss_pred chhhhhh--hcCCC--CCeecc--cCccccCCchhHHhhhhhcCCCCCccCcc--chhccCChHHHH-----HHHhhhCC
Q psy2726 336 NLGTHER--IHTGE--RPFRCE--VCMKTFTQQPNLWKHMKTHTGEKPYNCGM--CDKAFTQRANLL-----KHIRVHTG 402 (543)
Q Consensus 336 ~l~~h~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~k~~~C~~--C~~~f~~~~~L~-----~H~~~H~~ 402 (543)
.+..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.. +...+.....-. .....-..
T Consensus 304 ~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 383 (467)
T COG5048 304 PLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKN 383 (467)
T ss_pred cccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccCCCCccchhhccCccC
Confidence 7778888 78999 999999 89999999999999999999988888765 444444333311 11111222
Q ss_pred CCCccccc--ccccccChHHHHhhhhhccCCC--cccccccccccCCchhHHhhhhhhCCCCceeccccchh
Q psy2726 403 ERPYSCKL--CGKRFTQQANLVKHNRLHSGER--PYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKA 470 (543)
Q Consensus 403 ~~~~~C~~--C~k~F~~~~~L~~H~~~H~~~~--~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~ 470 (543)
...+.+.. |...+.....+..|...|.... .+.+..|.+.|.....+..|++.|....++.|..++..
T Consensus 384 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 455 (467)
T COG5048 384 DKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILKSF 455 (467)
T ss_pred CccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCceeecccccc
Confidence 33455533 7778888888888888887665 46778899999999999999999998888877655543
No 54
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.66 E-value=0.0067 Score=33.95 Aligned_cols=21 Identities=29% Similarity=0.763 Sum_probs=11.7
Q ss_pred cccccccccccChHHHHhhhh
Q psy2726 406 YSCKLCGKRFTQQANLVKHNR 426 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~ 426 (543)
|.|..|++.|.+...|..|++
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 445555555555555555554
No 55
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.62 E-value=0.0058 Score=34.20 Aligned_cols=22 Identities=27% Similarity=0.683 Sum_probs=18.3
Q ss_pred ccccccccccCCchhHHhhhhh
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERV 455 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~ 455 (543)
|.|..|++.|.+...|..|+++
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 6788888888888888888864
No 56
>KOG2785|consensus
Probab=95.08 E-value=0.042 Score=51.64 Aligned_cols=135 Identities=19% Similarity=0.336 Sum_probs=94.6
Q ss_pred eecccCccccCCchhHHhhhhh--cC-----------------------------------CCCCccCccchhccCChHH
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKT--HT-----------------------------------GEKPYNCGMCDKAFTQRAN 392 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~--h~-----------------------------------~~k~~~C~~C~~~f~~~~~ 392 (543)
|+|..|...|.+...-+.|+++ |. +.-++.|..|.+.|.+...
T Consensus 4 ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~a 83 (390)
T KOG2785|consen 4 FTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPKA 83 (390)
T ss_pred ceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChhh
Confidence 8999999999999999999875 20 1235889999999999999
Q ss_pred HHHHHhh--hC---------CC------CCcc-------------cccccccccChHHHHhhhhhc------------cC
Q psy2726 393 LLKHIRV--HT---------GE------RPYS-------------CKLCGKRFTQQANLVKHNRLH------------SG 430 (543)
Q Consensus 393 L~~H~~~--H~---------~~------~~~~-------------C~~C~k~F~~~~~L~~H~~~H------------~~ 430 (543)
...|+.. |- ++ .... +..+...+........+...- ..
T Consensus 84 ~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e~e 163 (390)
T KOG2785|consen 84 HENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDEDE 163 (390)
T ss_pred HHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchhcc
Confidence 9999863 21 00 1122 333444444433333332210 11
Q ss_pred CCcccccccccccCCchhHHhhhhhhCCC-----------------------Cceeccccc---hhccCcchHHHHHHhh
Q psy2726 431 ERPYHCRYCTKTFIQQSNLDRHERVHTGV-----------------------KPYSCKICW---KAFAQTGNLTKHELSA 484 (543)
Q Consensus 431 ~~~~~C~~C~~~f~~~~~L~~H~~~H~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~~ 484 (543)
.-|-.|-+|++.|.+-..-..||..++|- .-|.|-.|+ +.|.+-...+.||...
T Consensus 164 ~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 164 LIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred cCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 23467999999999999999999877763 237899998 9999999999999754
No 57
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.05 E-value=0.018 Score=52.75 Aligned_cols=129 Identities=27% Similarity=0.499 Sum_probs=93.0
Q ss_pred eeccc--CccccCCchhHHhhhhhcCCCCCccCccch---hccC------ChHHHHHHHhhhCCCCCc----cccccccc
Q psy2726 350 FRCEV--CMKTFTQQPNLWKHMKTHTGEKPYNCGMCD---KAFT------QRANLLKHIRVHTGERPY----SCKLCGKR 414 (543)
Q Consensus 350 ~~C~~--C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~---~~f~------~~~~L~~H~~~H~~~~~~----~C~~C~k~ 414 (543)
|.||. |.........|..|.+.-++. +.|.+|- +.|. +...|..|...-..+.-| .|..|...
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~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 78865 778877888999999986643 6787773 3343 345666666543222223 69999999
Q ss_pred ccChHHHHhhhhhccCCCccccccccc-------ccCCchhHHhhhhhhCCCCceeccc--cc----hhccCcchHHHHH
Q psy2726 415 FTQQANLVKHNRLHSGERPYHCRYCTK-------TFIQQSNLDRHERVHTGVKPYSCKI--CW----KAFAQTGNLTKHE 481 (543)
Q Consensus 415 F~~~~~L~~H~~~H~~~~~~~C~~C~~-------~f~~~~~L~~H~~~H~~~~~~~C~~--C~----~~f~~~~~l~~H~ 481 (543)
|.+-..|..|+|.-+ -.|-+|++ -|.+-..|.+|.+.- -|.|.+ |- ..|.....|..|+
T Consensus 230 FYdDDEL~~HcR~~H----E~ChICD~v~p~~~QYFK~Y~~Le~HF~~~----hy~ct~qtc~~~k~~vf~~~~el~~h~ 301 (493)
T COG5236 230 FYDDDELRRHCRLRH----EACHICDMVGPIRYQYFKSYEDLEAHFRNA----HYCCTFQTCRVGKCYVFPYHTELLEHL 301 (493)
T ss_pred ecChHHHHHHHHhhh----hhhhhhhccCccchhhhhCHHHHHHHhhcC----ceEEEEEEEecCcEEEeccHHHHHHHH
Confidence 999999999999654 35777776 377788899987632 255654 42 4688999999999
Q ss_pred HhhcCCC
Q psy2726 482 LSAHGIG 488 (543)
Q Consensus 482 ~~~h~~~ 488 (543)
..-|+..
T Consensus 302 ~~~h~~~ 308 (493)
T COG5236 302 TRFHKVN 308 (493)
T ss_pred HHHhhcc
Confidence 9998764
No 58
>KOG2482|consensus
Probab=94.57 E-value=0.049 Score=50.09 Aligned_cols=154 Identities=21% Similarity=0.344 Sum_probs=88.8
Q ss_pred chhhhhhhcCC-CCCeecccCcccc-CCchhHHhhhhhcCCC----------------------CCccCccchhccCChH
Q psy2726 336 NLGTHERIHTG-ERPFRCEVCMKTF-TQQPNLWKHMKTHTGE----------------------KPYNCGMCDKAFTQRA 391 (543)
Q Consensus 336 ~l~~h~~~h~~-~~~~~C~~C~~~f-~~~~~L~~H~~~h~~~----------------------k~~~C~~C~~~f~~~~ 391 (543)
.|.++++--.+ .....|-.|...+ .+++....|+-.-++- ..+.|-.|.+.|+.+.
T Consensus 130 aLeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkn 209 (423)
T KOG2482|consen 130 ALEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKN 209 (423)
T ss_pred HHHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcH
Confidence 44555543322 2345799998765 4566677776432221 1378999999999999
Q ss_pred HHHHHHhh--hCCCCC--------cccc--ccccccc-ChHHHH-----hhhhh--------ccCCCc--cccccccccc
Q psy2726 392 NLLKHIRV--HTGERP--------YSCK--LCGKRFT-QQANLV-----KHNRL--------HSGERP--YHCRYCTKTF 443 (543)
Q Consensus 392 ~L~~H~~~--H~~~~~--------~~C~--~C~k~F~-~~~~L~-----~H~~~--------H~~~~~--~~C~~C~~~f 443 (543)
.|+.||+. |....| |.=. .=|++.. ..+.+. .+... -.+..+ ..|-+|....
T Consensus 210 tLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~ 289 (423)
T KOG2482|consen 210 TLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFY 289 (423)
T ss_pred HHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccch
Confidence 99999874 433222 1000 0111110 001110 00000 001122 4899999888
Q ss_pred CCchhHHhhhhh-hCC--------------------------CCceeccccchhccCcchHHHHHHh--hcCCCC
Q psy2726 444 IQQSNLDRHERV-HTG--------------------------VKPYSCKICWKAFAQTGNLTKHELS--AHGIGK 489 (543)
Q Consensus 444 ~~~~~L~~H~~~-H~~--------------------------~~~~~C~~C~~~f~~~~~l~~H~~~--~h~~~~ 489 (543)
.+...|..||.+ |-- .+.-.|..|+..|.....|..||.. |++..|
T Consensus 290 en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k~l~i~p 364 (423)
T KOG2482|consen 290 ENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDKHLSILP 364 (423)
T ss_pred hhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccccccccccC
Confidence 888899999874 421 1124688999999999999999973 455543
No 59
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.52 E-value=0.049 Score=50.08 Aligned_cols=107 Identities=27% Similarity=0.488 Sum_probs=71.1
Q ss_pred cccccc--cccccCCchhHHHHHhhhcCCCcccCCcCC---cccccccccCCcccccCCCccchhhcccccccccccCCC
Q psy2726 97 PFRCEV--CMKTFTQQPNLWKHMKTHTGEKPYNCGMCD---KAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGER 171 (543)
Q Consensus 97 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~---~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~ 171 (543)
.|.|+. |..+......|..|.+..++ .+.|.+|- +.|...-.|.. ...|..|...-..+.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~-------------~~~Lr~H~~~G~~e~ 215 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFR-------------SSTLRDHKNGGLEEE 215 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeee-------------cccccccccCCcccc
Confidence 388976 88888888999999987665 36788883 45655444321 122555655433332
Q ss_pred cc----ccCccccccCCchhHHHHHhhhcCCCCcccccchh-------hccChHHHHHHHHH
Q psy2726 172 PF----RCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDK-------AFTQRANLLKHIRV 222 (543)
Q Consensus 172 ~~----~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~-------~f~~~~~L~~H~~~ 222 (543)
.| .|.+|...|.+-..|..|++.-+. .|-+|++ -|.+..+|..|.+.
T Consensus 216 GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 216 GFKGHPLCIFCKIYFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRN 273 (493)
T ss_pred CcCCCchhhhccceecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhc
Confidence 33 599999999999999999987542 3555543 36666667777653
No 60
>KOG2893|consensus
Probab=93.26 E-value=0.029 Score=48.59 Aligned_cols=41 Identities=24% Similarity=0.726 Sum_probs=24.2
Q ss_pred cccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhh
Q psy2726 408 CKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRH 452 (543)
Q Consensus 408 C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H 452 (543)
|-+|++.|.....|.+|++.-+ |+|.+|-+...+--.|..|
T Consensus 13 cwycnrefddekiliqhqkakh----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceee
Confidence 5666666666666666655422 6666666655555555555
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.11 E-value=0.07 Score=29.10 Aligned_cols=21 Identities=33% Similarity=0.646 Sum_probs=17.9
Q ss_pred ccccccccccCCchhHHHHHhh
Q psy2726 98 FRCEVCMKTFTQQPNLWKHMKT 119 (543)
Q Consensus 98 ~~C~~C~~~f~~~~~L~~H~~~ 119 (543)
..|+.|++.| ....|.+|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 78889999864
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.91 E-value=0.067 Score=29.16 Aligned_cols=18 Identities=33% Similarity=0.912 Sum_probs=9.2
Q ss_pred cccccccccCCchhHHhhh
Q psy2726 435 HCRYCTKTFIQQSNLDRHE 453 (543)
Q Consensus 435 ~C~~C~~~f~~~~~L~~H~ 453 (543)
.|+.||+.| ....|.+|+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~ 21 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHE 21 (25)
T ss_pred cCCCCCCEE-CHHHHHHHH
Confidence 455555555 444455554
No 63
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.72 E-value=0.3 Score=37.84 Aligned_cols=48 Identities=21% Similarity=0.383 Sum_probs=24.7
Q ss_pred cccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhhhhhC
Q psy2726 408 CKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHERVHT 457 (543)
Q Consensus 408 C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 457 (543)
|--|...|........= .-.....|+|+.|...|-..-++..|...|.
T Consensus 58 C~~C~~~f~~~~~~~~~--~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 58 CFGCQGPFPKPPVSPFD--ELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ccCcCCCCCCccccccc--ccccccceeCCCCCCccccccchhhhhhccC
Confidence 66666666544211100 0111234667777776666666666665554
No 64
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.55 E-value=0.13 Score=30.79 Aligned_cols=22 Identities=23% Similarity=0.741 Sum_probs=14.1
Q ss_pred CccCccchhccCChHHHHHHHh
Q psy2726 377 PYNCGMCDKAFTQRANLLKHIR 398 (543)
Q Consensus 377 ~~~C~~C~~~f~~~~~L~~H~~ 398 (543)
+|.|++|++.|.+...+..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4566666666666666666654
No 65
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.07 E-value=0.13 Score=30.67 Aligned_cols=22 Identities=23% Similarity=0.502 Sum_probs=14.7
Q ss_pred ceeccccchhccCcchHHHHHH
Q psy2726 461 PYSCKICWKAFAQTGNLTKHEL 482 (543)
Q Consensus 461 ~~~C~~C~~~f~~~~~l~~H~~ 482 (543)
+|.|.+|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4667777777776666666665
No 66
>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=90.71 E-value=0.12 Score=30.47 Aligned_cols=9 Identities=44% Similarity=1.512 Sum_probs=4.7
Q ss_pred CCccccccc
Q psy2726 404 RPYSCKLCG 412 (543)
Q Consensus 404 ~~~~C~~C~ 412 (543)
.++.|++|+
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 345555554
No 67
>KOG2482|consensus
Probab=90.53 E-value=0.24 Score=45.79 Aligned_cols=103 Identities=20% Similarity=0.412 Sum_probs=64.8
Q ss_pred eecccCccccCCchhHHhhhhh--cCCCCC--------ccCc--cchhccCChHHHHHHH--hhh---------------
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKT--HTGEKP--------YNCG--MCDKAFTQRANLLKHI--RVH--------------- 400 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~--h~~~k~--------~~C~--~C~~~f~~~~~L~~H~--~~H--------------- 400 (543)
+.|-.|.+.|.++..|+.||+. |....| |.=. .=|++. .....+. .+-
T Consensus 196 ~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~---t~~~~e~dret~~d~~E~D~~wsDw~e 272 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSW---TIVHSEDDRETNEDINETDDTWSDWNE 272 (423)
T ss_pred heeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCcc---chhhhhhhhhhhccccccccchhhhhc
Confidence 7899999999999999999975 432222 1100 011111 1111111 010
Q ss_pred CCCCC--cccccccccccChHHHHhhhhhccC---------------------------CCcccccccccccCCchhHHh
Q psy2726 401 TGERP--YSCKLCGKRFTQQANLVKHNRLHSG---------------------------ERPYHCRYCTKTFIQQSNLDR 451 (543)
Q Consensus 401 ~~~~~--~~C~~C~k~F~~~~~L~~H~~~H~~---------------------------~~~~~C~~C~~~f~~~~~L~~ 451 (543)
.+..+ ..|-.|.....+...|..||+.-+. .+.-.|..|.-.|-....|..
T Consensus 273 d~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~ 352 (423)
T KOG2482|consen 273 DDAEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLI 352 (423)
T ss_pred CCCCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhh
Confidence 01112 4788888888888888888875431 112468899999999999999
Q ss_pred hhhh
Q psy2726 452 HERV 455 (543)
Q Consensus 452 H~~~ 455 (543)
||..
T Consensus 353 hm~e 356 (423)
T KOG2482|consen 353 HMVE 356 (423)
T ss_pred hccc
Confidence 9864
No 68
>KOG2893|consensus
Probab=89.35 E-value=0.12 Score=44.95 Aligned_cols=51 Identities=29% Similarity=0.707 Sum_probs=43.1
Q ss_pred CcccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHHhhcCC
Q psy2726 432 RPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHELSAHGI 487 (543)
Q Consensus 432 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 487 (543)
++| |-+|++.|.....|..|++. |-|+|.+|-+..-+--.|..|-...|.+
T Consensus 10 kpw-cwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhhhh
Confidence 444 99999999999999999864 5699999999988888899997777754
No 69
>KOG4173|consensus
Probab=89.20 E-value=0.18 Score=42.85 Aligned_cols=76 Identities=28% Similarity=0.586 Sum_probs=53.6
Q ss_pred CCeeccc--CccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhC----------CCCCccccc--ccc
Q psy2726 348 RPFRCEV--CMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHT----------GERPYSCKL--CGK 413 (543)
Q Consensus 348 ~~~~C~~--C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~----------~~~~~~C~~--C~k 413 (543)
..+.|++ |...|.+......|..+-++ -.|..|.+.|.+...|..|+..-+ |...|+|-+ |+.
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 3477875 88889888888888766544 379999999999999999986432 333466633 666
Q ss_pred cccChHHHHhhhh
Q psy2726 414 RFTQQANLVKHNR 426 (543)
Q Consensus 414 ~F~~~~~L~~H~~ 426 (543)
.|.+...-+.|+.
T Consensus 155 KFkT~r~RkdH~I 167 (253)
T KOG4173|consen 155 KFKTSRDRKDHMI 167 (253)
T ss_pred hhhhhhhhhhHHH
Confidence 6666666666644
No 70
>KOG4173|consensus
Probab=88.57 E-value=0.21 Score=42.53 Aligned_cols=79 Identities=25% Similarity=0.550 Sum_probs=59.1
Q ss_pred CCccCcc--chhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHhhhhhc----------cCCCcccccc--ccc
Q psy2726 376 KPYNCGM--CDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVKHNRLH----------SGERPYHCRY--CTK 441 (543)
Q Consensus 376 k~~~C~~--C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~H~~~H----------~~~~~~~C~~--C~~ 441 (543)
..|.|++ |-..|.....+..|..+-++. .|.+|.+.|.+..-|..|+... .|.-.|+|-+ |+.
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 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4578886 788888888888887655443 6999999999998888887532 3455688854 888
Q ss_pred ccCCchhHHhhh-hhhC
Q psy2726 442 TFIQQSNLDRHE-RVHT 457 (543)
Q Consensus 442 ~f~~~~~L~~H~-~~H~ 457 (543)
.|.+...-..|+ ++|.
T Consensus 155 KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhhhhhhhhhHHHHhcc
Confidence 888888888886 4554
No 71
>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=88.55 E-value=0.51 Score=37.16 Aligned_cols=25 Identities=28% Similarity=0.478 Sum_probs=23.4
Q ss_pred eec----cccchhccCcchHHHHHHhhcC
Q psy2726 462 YSC----KICWKAFAQTGNLTKHELSAHG 486 (543)
Q Consensus 462 ~~C----~~C~~~f~~~~~l~~H~~~~h~ 486 (543)
|.| ..|++.+.+...+.+|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999999886
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=88.37 E-value=0.49 Score=37.23 Aligned_cols=25 Identities=24% Similarity=0.518 Sum_probs=22.5
Q ss_pred ccc----cccccccCCchhHHhhhhhhCC
Q psy2726 434 YHC----RYCTKTFIQQSNLDRHERVHTG 458 (543)
Q Consensus 434 ~~C----~~C~~~f~~~~~L~~H~~~H~~ 458 (543)
|.| ..|++.+.+...|.+|++.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999987764
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.23 E-value=0.25 Score=32.05 Aligned_cols=33 Identities=24% Similarity=0.401 Sum_probs=26.6
Q ss_pred hhCCCCceeccccchhccCcchHHHHHHhhcCC
Q psy2726 455 VHTGVKPYSCKICWKAFAQTGNLTKHELSAHGI 487 (543)
Q Consensus 455 ~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 487 (543)
+-.||..+.|+.||..|....+..+|+...|+-
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 345677788999999999888899998887764
No 74
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.01 E-value=1.1 Score=34.72 Aligned_cols=85 Identities=20% Similarity=0.395 Sum_probs=57.0
Q ss_pred CCeecccCccccCCchhHHhhhhhcC------------CCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccc
Q psy2726 348 RPFRCEVCMKTFTQQPNLWKHMKTHT------------GEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRF 415 (543)
Q Consensus 348 ~~~~C~~C~~~f~~~~~L~~H~~~h~------------~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F 415 (543)
-|..|++||-+..+...|.+-..-=- ....-.|--|+..|........ ..-.....|+|+.|...|
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~F 91 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNVF 91 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCCCcc
Confidence 46789999999988887776421100 0111249999999986531110 001234579999999999
Q ss_pred cChHHHHhhhhhccCCCcccccccc
Q psy2726 416 TQQANLVKHNRLHSGERPYHCRYCT 440 (543)
Q Consensus 416 ~~~~~L~~H~~~H~~~~~~~C~~C~ 440 (543)
-..-++-.|...|. |+-|.
T Consensus 92 C~dCD~fiHe~Lh~------CPGC~ 110 (112)
T TIGR00622 92 CVDCDVFVHESLHC------CPGCI 110 (112)
T ss_pred ccccchhhhhhccC------CcCCC
Confidence 99999999987764 77775
No 75
>KOG2186|consensus
Probab=82.64 E-value=0.74 Score=40.87 Aligned_cols=46 Identities=28% Similarity=0.661 Sum_probs=38.6
Q ss_pred eecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHh
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIR 398 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~ 398 (543)
|.|..||.... +..+.+|+..-++ .-|.|-.|++.|.. .++..|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 78999999887 4567889988877 56999999999987 78888875
No 76
>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=82.34 E-value=0.62 Score=27.59 Aligned_cols=6 Identities=50% Similarity=1.652 Sum_probs=2.3
Q ss_pred cccccc
Q psy2726 407 SCKLCG 412 (543)
Q Consensus 407 ~C~~C~ 412 (543)
.|.+||
T Consensus 4 ~C~~CG 9 (34)
T cd00729 4 VCPVCG 9 (34)
T ss_pred ECCCCC
Confidence 333333
No 77
>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=81.48 E-value=0.92 Score=24.95 Aligned_cols=11 Identities=27% Similarity=0.464 Sum_probs=8.9
Q ss_pred eecccCccccC
Q psy2726 350 FRCEVCMKTFT 360 (543)
Q Consensus 350 ~~C~~C~~~f~ 360 (543)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 46999998885
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=80.81 E-value=0.78 Score=29.89 Aligned_cols=20 Identities=25% Similarity=0.703 Sum_probs=8.3
Q ss_pred eecccCccccCCchhHHhhh
Q psy2726 350 FRCEVCMKTFTQQPNLWKHM 369 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~ 369 (543)
+.||-|+..|....+..+|+
T Consensus 18 lrCPRC~~~FR~~K~Y~RHV 37 (65)
T COG4049 18 LRCPRCGMVFRRRKDYIRHV 37 (65)
T ss_pred eeCCchhHHHHHhHHHHHHh
Confidence 34444444444444444443
No 79
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=79.81 E-value=0.61 Score=41.76 Aligned_cols=43 Identities=28% Similarity=0.522 Sum_probs=25.2
Q ss_pred CcccccccccccCCchhHHhhhhh---h-------CCCCc-----eeccccchhccCc
Q psy2726 432 RPYHCRYCTKTFIQQSNLDRHERV---H-------TGVKP-----YSCKICWKAFAQT 474 (543)
Q Consensus 432 ~~~~C~~C~~~f~~~~~L~~H~~~---H-------~~~~~-----~~C~~C~~~f~~~ 474 (543)
+.+.||+|+..|.++..+....+. . .+..| ..|+.||++|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 346677777777666555444432 1 12233 4799999887654
No 80
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.23 E-value=0.73 Score=41.27 Aligned_cols=43 Identities=23% Similarity=0.500 Sum_probs=27.3
Q ss_pred CCeecccCccccCCchhHHhhhhhc----------CCCCC-----ccCccchhccCCh
Q psy2726 348 RPFRCEVCMKTFTQQPNLWKHMKTH----------TGEKP-----YNCGMCDKAFTQR 390 (543)
Q Consensus 348 ~~~~C~~C~~~f~~~~~L~~H~~~h----------~~~k~-----~~C~~C~~~f~~~ 390 (543)
+.++||+|++.|.+........+.- .+..| ..|+.||++|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4578999999998876655555431 12222 3577787776644
No 81
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=75.37 E-value=1.4 Score=26.69 Aligned_cols=34 Identities=26% Similarity=0.687 Sum_probs=23.4
Q ss_pred ccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccccC
Q psy2726 126 YNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKTFT 183 (543)
Q Consensus 126 ~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 183 (543)
..|+.|+..|.-... ++-.+....+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~------------------------~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDD------------------------KLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHH------------------------HcccCCcEEECCCCCcEee
Confidence 469999999875443 1223345689999998874
No 82
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=75.06 E-value=1.7 Score=26.14 Aligned_cols=34 Identities=24% Similarity=0.528 Sum_probs=23.2
Q ss_pred ccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccccC
Q psy2726 126 YNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKTFT 183 (543)
Q Consensus 126 ~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 183 (543)
..|+.|+..|.-.+.. +-......+|+.|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~~------------------------ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK------------------------IPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHH------------------------CCCCCcEEECCCCCCEeC
Confidence 4699999998765541 222334688999998873
No 83
>KOG2186|consensus
Probab=75.05 E-value=1.9 Score=38.38 Aligned_cols=45 Identities=24% Similarity=0.607 Sum_probs=20.2
Q ss_pred cccccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhh
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHE 453 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~ 453 (543)
|.|.+||.... +..|.+|+-.-++ .-|.|-.|++.|.. ..+..|.
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 44555554433 2234445444444 22555555555544 4444443
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=74.61 E-value=1.8 Score=33.69 Aligned_cols=30 Identities=23% Similarity=0.589 Sum_probs=19.4
Q ss_pred eecccCccccCCchhHHhhhhhcCCCCCccCccchhccCCh
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQR 390 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~ 390 (543)
..|+.||+.|... +..|..|+.||..|.-.
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 4677777777542 34566777777776654
No 85
>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=72.12 E-value=2.9 Score=24.32 Aligned_cols=11 Identities=36% Similarity=0.978 Sum_probs=8.3
Q ss_pred ccCCcCCcccc
Q psy2726 126 YNCGMCDKAFT 136 (543)
Q Consensus 126 ~~C~~C~~~f~ 136 (543)
|.|..|+..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 67888988876
No 86
>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=71.97 E-value=1.7 Score=26.44 Aligned_cols=34 Identities=18% Similarity=0.465 Sum_probs=22.3
Q ss_pred ccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccccC
Q psy2726 126 YNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKTFT 183 (543)
Q Consensus 126 ~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 183 (543)
+.|+.|+..|.-.... .........|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~------------------------~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQ------------------------LGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHH------------------------cCCCCCEEECCCCCCEEE
Confidence 5799999988654431 111223578999998774
No 87
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=71.58 E-value=1.2 Score=37.20 Aligned_cols=15 Identities=27% Similarity=0.490 Sum_probs=9.0
Q ss_pred eeccccchhccCcch
Q psy2726 462 YSCKICWKAFAQTGN 476 (543)
Q Consensus 462 ~~C~~C~~~f~~~~~ 476 (543)
++|+.||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 566666666665443
No 88
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=71.47 E-value=2.5 Score=32.89 Aligned_cols=30 Identities=27% Similarity=0.687 Sum_probs=23.1
Q ss_pred ccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccccCCc
Q psy2726 126 YNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKTFTQQ 185 (543)
Q Consensus 126 ~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 185 (543)
..|+.||+.|.. | +..|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYD----------------------L--------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD----------------------L--------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc----------------------C--------CCCCccCCCCCCccCcc
Confidence 469999999965 2 23578899999998765
No 89
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=70.85 E-value=2.9 Score=26.46 Aligned_cols=11 Identities=27% Similarity=0.625 Sum_probs=5.5
Q ss_pred ccccccccccC
Q psy2726 434 YHCRYCTKTFI 444 (543)
Q Consensus 434 ~~C~~C~~~f~ 444 (543)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 45555555444
No 90
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=69.39 E-value=2.6 Score=35.60 Aligned_cols=10 Identities=50% Similarity=1.288 Sum_probs=4.4
Q ss_pred CCCccccccc
Q psy2726 403 ERPYSCKLCG 412 (543)
Q Consensus 403 ~~~~~C~~C~ 412 (543)
+-|-+||+||
T Consensus 147 e~P~~CPiCg 156 (166)
T COG1592 147 EAPEVCPICG 156 (166)
T ss_pred CCCCcCCCCC
Confidence 3344444444
No 91
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=69.18 E-value=3.4 Score=26.46 Aligned_cols=14 Identities=14% Similarity=0.615 Sum_probs=10.8
Q ss_pred CcccccccccccCC
Q psy2726 282 TFVCKVCNKTFTQS 295 (543)
Q Consensus 282 ~~~C~~C~~~f~~~ 295 (543)
.|.|+.||..|...
T Consensus 3 ~y~C~~CG~~~~~~ 16 (46)
T PRK00398 3 EYKCARCGREVELD 16 (46)
T ss_pred EEECCCCCCEEEEC
Confidence 58899999887543
No 92
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=68.99 E-value=3.1 Score=27.82 Aligned_cols=10 Identities=40% Similarity=1.109 Sum_probs=5.7
Q ss_pred CCccCccchh
Q psy2726 376 KPYNCGMCDK 385 (543)
Q Consensus 376 k~~~C~~C~~ 385 (543)
.+|.|+.||.
T Consensus 49 ~~Y~Cp~CGF 58 (61)
T COG2888 49 NPYRCPKCGF 58 (61)
T ss_pred CceECCCcCc
Confidence 3566666654
No 93
>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=66.94 E-value=4.5 Score=25.62 Aligned_cols=24 Identities=38% Similarity=0.541 Sum_probs=10.8
Q ss_pred CceeccccchhccC----cchHHHHHHh
Q psy2726 460 KPYSCKICWKAFAQ----TGNLTKHELS 483 (543)
Q Consensus 460 ~~~~C~~C~~~f~~----~~~l~~H~~~ 483 (543)
....|..|++.+.. .+.|.+|++.
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 34455555555543 2456666643
No 94
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.74 E-value=1.8 Score=36.22 Aligned_cols=15 Identities=33% Similarity=0.585 Sum_probs=8.6
Q ss_pred ccCccchhccCChHH
Q psy2726 378 YNCGMCDKAFTQRAN 392 (543)
Q Consensus 378 ~~C~~C~~~f~~~~~ 392 (543)
++|+.||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 566666666655443
No 95
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=66.02 E-value=3.2 Score=35.01 Aligned_cols=13 Identities=46% Similarity=0.999 Sum_probs=6.3
Q ss_pred ccCCCcccccccc
Q psy2726 428 HSGERPYHCRYCT 440 (543)
Q Consensus 428 H~~~~~~~C~~C~ 440 (543)
+-|+-|-+||+||
T Consensus 144 ~~ge~P~~CPiCg 156 (166)
T COG1592 144 HEGEAPEVCPICG 156 (166)
T ss_pred ccCCCCCcCCCCC
Confidence 3344455555554
No 96
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=66.01 E-value=1.5 Score=31.07 Aligned_cols=42 Identities=17% Similarity=0.399 Sum_probs=25.8
Q ss_pred ccccccccccCCchhHHhhhhhhCCCCceecc--ccchhccCcchH
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVKPYSCK--ICWKAFAQTGNL 477 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~--~C~~~f~~~~~l 477 (543)
+.|+.||........-.... -..+.-+.|. .||.+|.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~--~~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITD--TTKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcCh--hhheeeeecCCCCCCCEEEEEEEE
Confidence 56888887653333222221 1455668888 899998876644
No 97
>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=65.78 E-value=3.3 Score=25.91 Aligned_cols=14 Identities=29% Similarity=0.755 Sum_probs=11.3
Q ss_pred cccCCcCCcccccc
Q psy2726 125 PYNCGMCDKAFTQR 138 (543)
Q Consensus 125 ~~~C~~C~~~f~~~ 138 (543)
.|+|..||..|...
T Consensus 5 ey~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 5 EYRCEECGHEFEVL 18 (42)
T ss_pred EEEeCCCCCEEEEE
Confidence 38899999999753
No 98
>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=65.06 E-value=2.4 Score=28.02 Aligned_cols=12 Identities=33% Similarity=0.974 Sum_probs=7.8
Q ss_pred eecccCccccCC
Q psy2726 350 FRCEVCMKTFTQ 361 (543)
Q Consensus 350 ~~C~~C~~~f~~ 361 (543)
|+|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 667777766653
No 99
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=63.87 E-value=6.1 Score=33.42 Aligned_cols=16 Identities=19% Similarity=0.279 Sum_probs=7.3
Q ss_pred ccCccchhccCChHHH
Q psy2726 378 YNCGMCDKAFTQRANL 393 (543)
Q Consensus 378 ~~C~~C~~~f~~~~~L 393 (543)
|.|+.|+..|+....+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 4444444444444443
No 100
>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=63.46 E-value=2.5 Score=26.16 Aligned_cols=29 Identities=28% Similarity=0.616 Sum_probs=15.3
Q ss_pred eecccCccccCCchhHHhhhhhcCCCCCccCccchh
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDK 385 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~ 385 (543)
|+|+.||..|.-..... ....-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~-------~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKIS-------DDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecC-------CCCCCCCCCCCC
Confidence 66777777665332221 123455666665
No 101
>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=62.89 E-value=5.4 Score=33.77 Aligned_cols=31 Identities=19% Similarity=0.342 Sum_probs=17.2
Q ss_pred CCCeecccCccccCCchhHHhhhhhcCCCCCccCccchhc
Q psy2726 347 ERPFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKA 386 (543)
Q Consensus 347 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~ 386 (543)
..-|.|+.|+..|+....+. ..|.|+.||..
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 34466666666665555553 13666666644
No 102
>KOG1701|consensus
Probab=62.65 E-value=1.8 Score=41.76 Aligned_cols=44 Identities=18% Similarity=0.341 Sum_probs=27.3
Q ss_pred ecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHH
Q psy2726 351 RCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLL 394 (543)
Q Consensus 351 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~ 394 (543)
.|..|+|...-...-..=|..---..-|.|..|++...-.+.+.
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~ 319 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQ 319 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccc
Confidence 78889888665544444443311234588999988776655543
No 103
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=61.91 E-value=8 Score=32.29 Aligned_cols=12 Identities=33% Similarity=0.946 Sum_probs=5.5
Q ss_pred cccccccccccC
Q psy2726 406 YSCKLCGKRFTQ 417 (543)
Q Consensus 406 ~~C~~C~k~F~~ 417 (543)
|.|+.|+..|..
T Consensus 100 Y~Cp~C~~~y~~ 111 (147)
T smart00531 100 YKCPNCQSKYTF 111 (147)
T ss_pred EECcCCCCEeeH
Confidence 444444444443
No 104
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=61.80 E-value=7.5 Score=32.45 Aligned_cols=39 Identities=13% Similarity=0.370 Sum_probs=27.1
Q ss_pred cCCCcccccccccccCCchhHHhhhhhhCCCCceeccccchhc
Q psy2726 429 SGERPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAF 471 (543)
Q Consensus 429 ~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f 471 (543)
.+..-|.|+.|+..|.....+.. . .. +..|.|+.||...
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~-~--d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQL-L--DM-DGTFTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHh-c--CC-CCcEECCCCCCEE
Confidence 34456999999999986554433 1 11 3349999999865
No 105
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=61.48 E-value=5.8 Score=26.69 Aligned_cols=7 Identities=43% Similarity=1.217 Sum_probs=2.9
Q ss_pred eeccccc
Q psy2726 462 YSCKICW 468 (543)
Q Consensus 462 ~~C~~C~ 468 (543)
|.|+.||
T Consensus 49 Y~CP~CG 55 (59)
T PRK14890 49 YTCPKCG 55 (59)
T ss_pred eECCCCC
Confidence 4444443
No 106
>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=59.75 E-value=6.3 Score=21.67 Aligned_cols=18 Identities=17% Similarity=0.558 Sum_probs=9.6
Q ss_pred cccccccccCCchhHHhhh
Q psy2726 435 HCRYCTKTFIQQSNLDRHE 453 (543)
Q Consensus 435 ~C~~C~~~f~~~~~L~~H~ 453 (543)
.||+|++.+ ....+..|+
T Consensus 3 ~CPiC~~~v-~~~~in~HL 20 (26)
T smart00734 3 QCPVCFREV-PENLINSHL 20 (26)
T ss_pred cCCCCcCcc-cHHHHHHHH
Confidence 456666555 344555554
No 107
>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=59.41 E-value=3.6 Score=36.80 Aligned_cols=24 Identities=25% Similarity=0.740 Sum_probs=12.2
Q ss_pred cCCCCcccccchhhccChHHHHHHH
Q psy2726 196 TGEKPYNCGMCDKAFTQRANLLKHI 220 (543)
Q Consensus 196 ~~~~~~~C~~C~~~f~~~~~L~~H~ 220 (543)
+|.+.|+|.+|+. |--...--.|+
T Consensus 138 hGGrif~CsfC~~-flCEDDQFEHQ 161 (314)
T PF06524_consen 138 HGGRIFKCSFCDN-FLCEDDQFEHQ 161 (314)
T ss_pred CCCeEEEeecCCC-eeeccchhhhh
Confidence 4556677777754 33333333444
No 108
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=58.80 E-value=2.8 Score=29.79 Aligned_cols=40 Identities=25% Similarity=0.564 Sum_probs=21.4
Q ss_pred cccccccccccChHHHHhhhhhccCCCccccc--ccccccCCch
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRLHSGERPYHCR--YCTKTFIQQS 447 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~--~C~~~f~~~~ 447 (543)
+.|+.||..-....+-..... ..++-++|. .||.+|....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYE 43 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEE
Confidence 457777665433333222221 334557776 7777776544
No 109
>PF15269 zf-C2H2_7: Zinc-finger
Probab=58.71 E-value=5.7 Score=24.63 Aligned_cols=22 Identities=32% Similarity=0.708 Sum_probs=20.0
Q ss_pred ccccccccccCCchhHHHHHhh
Q psy2726 98 FRCEVCMKTFTQQPNLWKHMKT 119 (543)
Q Consensus 98 ~~C~~C~~~f~~~~~L~~H~~~ 119 (543)
|+|-+|..+...++.|..||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 7899999999999999999974
No 110
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=57.54 E-value=5.3 Score=27.17 Aligned_cols=46 Identities=24% Similarity=0.598 Sum_probs=29.1
Q ss_pred CccccCc--cccccCCchhHHHHHhhhcCCCCccccc----chhhccChHHHHH
Q psy2726 171 RPFRCEV--CMKTFTQQPNLWKHMKTHTGEKPYNCGM----CDKAFTQRANLLK 218 (543)
Q Consensus 171 ~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~----C~~~f~~~~~L~~ 218 (543)
.+..|+. |...+. +..|..|+...-..++..|++ |+..+. +..|..
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~-~~~l~~ 59 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP-REDLEE 59 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE-HHHHHH
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc-hhHHhC
Confidence 4567888 555555 678999999777778889999 988776 333443
No 111
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=56.95 E-value=5.9 Score=25.60 Aligned_cols=10 Identities=30% Similarity=1.019 Sum_probs=5.4
Q ss_pred cccccccccc
Q psy2726 434 YHCRYCTKTF 443 (543)
Q Consensus 434 ~~C~~C~~~f 443 (543)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 5555555555
No 112
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=56.49 E-value=8.5 Score=33.27 Aligned_cols=14 Identities=29% Similarity=0.608 Sum_probs=6.0
Q ss_pred ccCccchhccCChH
Q psy2726 378 YNCGMCDKAFTQRA 391 (543)
Q Consensus 378 ~~C~~C~~~f~~~~ 391 (543)
|.|+.|+..|+...
T Consensus 118 Y~Cp~C~~rytf~e 131 (178)
T PRK06266 118 FFCPNCHIRFTFDE 131 (178)
T ss_pred EECCCCCcEEeHHH
Confidence 44444444444333
No 113
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=56.25 E-value=7.1 Score=30.99 Aligned_cols=30 Identities=13% Similarity=0.187 Sum_probs=17.1
Q ss_pred eecccCccccCCchhHHhhhhhcCCCCCccCccchhccCCh
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQR 390 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~ 390 (543)
..|+.||+.|... +..|..|+.||..|.-.
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 4566666666432 33456666666665544
No 114
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=56.06 E-value=5.9 Score=26.94 Aligned_cols=21 Identities=24% Similarity=0.456 Sum_probs=9.7
Q ss_pred chhHHhhhhhhCCCCceeccc
Q psy2726 446 QSNLDRHERVHTGVKPYSCKI 466 (543)
Q Consensus 446 ~~~L~~H~~~H~~~~~~~C~~ 466 (543)
+..|..|+..--..++..|+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHHHccCCCCcEECCC
Confidence 344555555444444555555
No 115
>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=56.02 E-value=11 Score=24.63 Aligned_cols=13 Identities=23% Similarity=0.889 Sum_probs=10.5
Q ss_pred ccCCcCCcccccc
Q psy2726 126 YNCGMCDKAFTQR 138 (543)
Q Consensus 126 ~~C~~C~~~f~~~ 138 (543)
|+|..||..+...
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 7899999888754
No 116
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=54.55 E-value=7.3 Score=33.70 Aligned_cols=35 Identities=20% Similarity=0.442 Sum_probs=26.7
Q ss_pred CCCCCeecccCccccCCchhHHhhhhhcCCCCCccCccchhccC
Q psy2726 345 TGERPFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFT 388 (543)
Q Consensus 345 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~ 388 (543)
....-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 113 ~~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 113 ENNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred cCCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 3445699999999998777663 2599999997644
No 117
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=54.55 E-value=5.8 Score=29.01 Aligned_cols=6 Identities=33% Similarity=1.065 Sum_probs=2.2
Q ss_pred ccccch
Q psy2726 464 CKICWK 469 (543)
Q Consensus 464 C~~C~~ 469 (543)
|..||.
T Consensus 56 C~kCg~ 61 (89)
T COG1997 56 CRKCGA 61 (89)
T ss_pred cCCCCC
Confidence 333333
No 118
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=53.72 E-value=11 Score=24.64 Aligned_cols=21 Identities=33% Similarity=0.667 Sum_probs=10.7
Q ss_pred eccccchhccCc-----chHHHHHHh
Q psy2726 463 SCKICWKAFAQT-----GNLTKHELS 483 (543)
Q Consensus 463 ~C~~C~~~f~~~-----~~l~~H~~~ 483 (543)
.|..|++.+... +.|.+|+..
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 455555544333 456666653
No 119
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=53.70 E-value=8 Score=41.36 Aligned_cols=40 Identities=28% Similarity=0.600 Sum_probs=23.1
Q ss_pred cccccccccccChHHHHhhhhhccCCCcccccccccccCCchhHHhhhhhhCCCCceeccccchh
Q psy2726 406 YSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKA 470 (543)
Q Consensus 406 ~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~ 470 (543)
++|+.|+-. |..| ...+...|.+||.. ...|..|+.||-.
T Consensus 445 ~~Cp~Cd~~------lt~H----~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 445 AECPNCDSP------LTLH----KATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred ccCCCCCcc------eEEe----cCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 356666644 2333 33345677777753 2356778888754
No 120
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=53.29 E-value=10 Score=24.42 Aligned_cols=14 Identities=21% Similarity=0.821 Sum_probs=10.8
Q ss_pred ccCCcCCccccccc
Q psy2726 126 YNCGMCDKAFTQRA 139 (543)
Q Consensus 126 ~~C~~C~~~f~~~~ 139 (543)
|+|.+|+..+....
T Consensus 2 y~C~~CgyvYd~~~ 15 (47)
T PF00301_consen 2 YQCPVCGYVYDPEK 15 (47)
T ss_dssp EEETTTSBEEETTT
T ss_pred cCCCCCCEEEcCCc
Confidence 78999998886544
No 121
>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=53.27 E-value=6.9 Score=23.52 Aligned_cols=31 Identities=13% Similarity=0.372 Sum_probs=15.5
Q ss_pred eecccCccccCCchhHHhhhhhcCCCCCccCccchhccC
Q psy2726 350 FRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFT 388 (543)
Q Consensus 350 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~ 388 (543)
..|+.||+.|. +..-....+-.|+.||-.+.
T Consensus 2 r~C~~Cg~~Yh--------~~~~pP~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 2 RICPKCGRIYH--------IEFNPPKVEGVCDNCGGELV 32 (36)
T ss_dssp EEETTTTEEEE--------TTTB--SSTTBCTTTTEBEB
T ss_pred cCcCCCCCccc--------cccCCCCCCCccCCCCCeeE
Confidence 35667776663 22233334456666665443
No 122
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=53.21 E-value=5.5 Score=35.69 Aligned_cols=25 Identities=28% Similarity=0.409 Sum_probs=15.5
Q ss_pred CceeccccchhccCcchHHHHHHhh
Q psy2726 460 KPYSCKICWKAFAQTGNLTKHELSA 484 (543)
Q Consensus 460 ~~~~C~~C~~~f~~~~~l~~H~~~~ 484 (543)
+++.|+.||+.......|.--.++|
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCcccccccceeeeecc
Confidence 6677777777666655555444444
No 123
>PF15269 zf-C2H2_7: Zinc-finger
Probab=53.00 E-value=7.4 Score=24.17 Aligned_cols=21 Identities=24% Similarity=0.395 Sum_probs=16.3
Q ss_pred eeccccchhccCcchHHHHHH
Q psy2726 462 YSCKICWKAFAQTGNLTKHEL 482 (543)
Q Consensus 462 ~~C~~C~~~f~~~~~l~~H~~ 482 (543)
|+|-+|..+...++.|-.||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 677778877777888888875
No 124
>KOG2593|consensus
Probab=52.76 E-value=7.3 Score=37.96 Aligned_cols=39 Identities=28% Similarity=0.555 Sum_probs=25.7
Q ss_pred cCCCcccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccc
Q psy2726 121 TGEKPYNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKT 181 (543)
Q Consensus 121 ~~~~~~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~ 181 (543)
+....|.|+.|.+.|+....+ +.+-.....|.|..|+-.
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~----------------------~L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEAL----------------------QLLDNETGEFHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHH----------------------HhhcccCceEEEecCCCc
Confidence 344679999999999874432 223333456899999754
No 125
>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=50.67 E-value=11 Score=30.00 Aligned_cols=15 Identities=20% Similarity=0.275 Sum_probs=9.5
Q ss_pred CccccCccccccCCc
Q psy2726 171 RPFRCEVCMKTFTQQ 185 (543)
Q Consensus 171 ~~~~C~~C~~~f~~~ 185 (543)
.|..|+.||..|.-.
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 466677777766544
No 126
>KOG2071|consensus
Probab=50.51 E-value=11 Score=38.43 Aligned_cols=27 Identities=26% Similarity=0.647 Sum_probs=20.6
Q ss_pred CCCccCccchhccCChHHHHHHHhhhC
Q psy2726 375 EKPYNCGMCDKAFTQRANLLKHIRVHT 401 (543)
Q Consensus 375 ~k~~~C~~C~~~f~~~~~L~~H~~~H~ 401 (543)
..|-.|..||..|........||..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 456788888888888888777776663
No 127
>PHA00626 hypothetical protein
Probab=49.84 E-value=7.2 Score=25.74 Aligned_cols=22 Identities=23% Similarity=0.685 Sum_probs=16.9
Q ss_pred CCCcccccccccccCCCCCCCC
Q psy2726 22 DGTFVCKVCNKTFTQSSWGHKG 43 (543)
Q Consensus 22 ~~~~~C~~C~~~f~~~~~~~~~ 43 (543)
...|+|+.||..|+...+..+.
T Consensus 21 snrYkCkdCGY~ft~~~~~~~~ 42 (59)
T PHA00626 21 SDDYVCCDCGYNDSKDAFGERG 42 (59)
T ss_pred CcceEcCCCCCeechhhhhhcc
Confidence 3589999999999877654443
No 128
>KOG2807|consensus
Probab=49.64 E-value=27 Score=32.71 Aligned_cols=82 Identities=20% Similarity=0.465 Sum_probs=47.1
Q ss_pred CeecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCC------------ccccccccccc
Q psy2726 349 PFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERP------------YSCKLCGKRFT 416 (543)
Q Consensus 349 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~------------~~C~~C~k~F~ 416 (543)
-|.|+.|....- .-|..|++|+-+......|.+=.+-=-.-++ -.|-.|+-.
T Consensus 276 Gy~CP~CkakvC--------------sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~-- 339 (378)
T KOG2807|consen 276 GYFCPQCKAKVC--------------SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE-- 339 (378)
T ss_pred ceeCCcccCeee--------------cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc--
Confidence 388888865432 2467888888887777766553221001111 125555111
Q ss_pred ChHHHHhhhhhccCCCcccccccccccCCchhHHhhhhhhC
Q psy2726 417 QQANLVKHNRLHSGERPYHCRYCTKTFIQQSNLDRHERVHT 457 (543)
Q Consensus 417 ~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 457 (543)
-.+...|.|..|...|-.--+...|...|.
T Consensus 340 -----------~~~~~~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 340 -----------LLSSGRYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred -----------cCCCCcEEchhccceeeccchHHHHhhhhc
Confidence 112234888888888877777777766554
No 129
>PF14353 CpXC: CpXC protein
Probab=48.82 E-value=8 Score=31.38 Aligned_cols=13 Identities=23% Similarity=0.649 Sum_probs=9.0
Q ss_pred ccCCcCCcccccc
Q psy2726 126 YNCGMCDKAFTQR 138 (543)
Q Consensus 126 ~~C~~C~~~f~~~ 138 (543)
..|+.|+..|...
T Consensus 2 itCP~C~~~~~~~ 14 (128)
T PF14353_consen 2 ITCPHCGHEFEFE 14 (128)
T ss_pred cCCCCCCCeeEEE
Confidence 3588888877643
No 130
>PRK04023 DNA polymerase II large subunit; Validated
Probab=48.34 E-value=13 Score=40.61 Aligned_cols=9 Identities=22% Similarity=0.674 Sum_probs=4.9
Q ss_pred eeccccchh
Q psy2726 462 YSCKICWKA 470 (543)
Q Consensus 462 ~~C~~C~~~ 470 (543)
+.|+.||..
T Consensus 664 y~CPKCG~E 672 (1121)
T PRK04023 664 DECEKCGRE 672 (1121)
T ss_pred CcCCCCCCC
Confidence 446666543
No 131
>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=47.81 E-value=7 Score=22.36 Aligned_cols=25 Identities=20% Similarity=0.606 Sum_probs=11.6
Q ss_pred ccCccccccCCchhHHHHHhhhcCCCCcccccchhh
Q psy2726 174 RCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKA 209 (543)
Q Consensus 174 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 209 (543)
+|+.|+..+.. .....|.|+.|+..
T Consensus 4 ~Cp~C~se~~y-----------~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----E-----------E-SSSEEETTTTEE
T ss_pred CCCCCCCccee-----------ccCCEEeCCccccc
Confidence 57788777664 34456888888754
No 132
>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=43.61 E-value=12 Score=30.32 Aligned_cols=24 Identities=42% Similarity=0.744 Sum_probs=10.6
Q ss_pred ccccccccccCCchhHHhhhhhhCCCC
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVK 460 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~ 460 (543)
-.|-+||+.|.. |.+|++.|+|..
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 456666666543 356666665543
No 133
>PRK04023 DNA polymerase II large subunit; Validated
Probab=42.88 E-value=19 Score=39.48 Aligned_cols=50 Identities=24% Similarity=0.531 Sum_probs=35.3
Q ss_pred CCeecccCccccCCchhHHhhhhhcCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccccChHHHHhhhhh
Q psy2726 348 RPFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRFTQQANLVKHNRL 427 (543)
Q Consensus 348 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F~~~~~L~~H~~~ 427 (543)
....|+.||... -.+.|+.||.. .+..+.|+.|+...
T Consensus 625 g~RfCpsCG~~t----------------~~frCP~CG~~---------------Te~i~fCP~CG~~~------------ 661 (1121)
T PRK04023 625 GRRKCPSCGKET----------------FYRRCPFCGTH---------------TEPVYRCPRCGIEV------------ 661 (1121)
T ss_pred cCccCCCCCCcC----------------CcccCCCCCCC---------------CCcceeCccccCcC------------
Confidence 346899999873 23789999976 23458899996532
Q ss_pred ccCCCcccccccccccC
Q psy2726 428 HSGERPYHCRYCTKTFI 444 (543)
Q Consensus 428 H~~~~~~~C~~C~~~f~ 444 (543)
.++.|+.||..-.
T Consensus 662 ----~~y~CPKCG~El~ 674 (1121)
T PRK04023 662 ----EEDECEKCGREPT 674 (1121)
T ss_pred ----CCCcCCCCCCCCC
Confidence 2477999997544
No 134
>KOG4124|consensus
Probab=42.17 E-value=13 Score=34.92 Aligned_cols=69 Identities=28% Similarity=0.487 Sum_probs=31.4
Q ss_pred CCcccCCc--CCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccccCCchhHHHH
Q psy2726 123 EKPYNCGM--CDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKTFTQQPNLWKH 191 (543)
Q Consensus 123 ~~~~~C~~--C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H 191 (543)
.++|+|++ |++.+.....|.-|-..-.+.........-.-|...-...++|+|++|.+.++....|..|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 35677754 7777776666543322111111110000112222222334566777776666655554444
No 135
>KOG4377|consensus
Probab=40.90 E-value=16 Score=35.22 Aligned_cols=25 Identities=12% Similarity=0.404 Sum_probs=19.3
Q ss_pred eeccc--cchhccCcchHHHHHHhhcC
Q psy2726 462 YSCKI--CWKAFAQTGNLTKHELSAHG 486 (543)
Q Consensus 462 ~~C~~--C~~~f~~~~~l~~H~~~~h~ 486 (543)
|.|.. |+..|.+.+.+..|.+.|-.
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheR 428 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHER 428 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhh
Confidence 44544 88999999999999887653
No 136
>KOG2071|consensus
Probab=40.62 E-value=23 Score=36.23 Aligned_cols=27 Identities=30% Similarity=0.583 Sum_probs=22.3
Q ss_pred CCccccccccccccCCchhHHHHHhhh
Q psy2726 94 GERPFRCEVCMKTFTQQPNLWKHMKTH 120 (543)
Q Consensus 94 ~~~~~~C~~C~~~f~~~~~L~~H~~~h 120 (543)
...+-+|..||.+|.+......||..|
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhh
Confidence 356688999999999998888887766
No 137
>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=40.60 E-value=12 Score=29.05 Aligned_cols=36 Identities=17% Similarity=0.360 Sum_probs=20.9
Q ss_pred ccccCccccccCCchhHHHHHhhhcCC----CCcccccchhhcc
Q psy2726 172 PFRCEVCMKTFTQQPNLWKHMKTHTGE----KPYNCGMCDKAFT 211 (543)
Q Consensus 172 ~~~C~~C~~~f~~~~~L~~H~~~h~~~----~~~~C~~C~~~f~ 211 (543)
...|+.||..-.....++ ++ ..+ .-|.|..|+..+.
T Consensus 62 ~~~Cp~Cg~~~a~f~~~Q--~R--sadE~~T~fy~C~~C~~~w~ 101 (104)
T TIGR01384 62 RVECPKCGHKEAYYWLLQ--TR--RADEPETRFYKCTKCGYVWR 101 (104)
T ss_pred cCCCCCCCCCeeEEEEec--cC--CCCCCcEEEEEeCCCCCeeE
Confidence 368999986543323222 11 122 2389999998765
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=40.06 E-value=15 Score=37.90 Aligned_cols=11 Identities=36% Similarity=0.905 Sum_probs=5.5
Q ss_pred CCCcccccccc
Q psy2726 403 ERPYSCKLCGK 413 (543)
Q Consensus 403 ~~~~~C~~C~k 413 (543)
.....|..||.
T Consensus 238 ~~~l~Ch~Cg~ 248 (505)
T TIGR00595 238 EGKLRCHYCGY 248 (505)
T ss_pred CCeEEcCCCcC
Confidence 33455555553
No 139
>KOG4377|consensus
Probab=39.64 E-value=11 Score=36.40 Aligned_cols=109 Identities=26% Similarity=0.603 Sum_probs=68.3
Q ss_pred CCCeec--ccCccccCCchhHHhhhhhcCCC------------CCccCc--cchhccCChHHHHHHHhhhCCC-------
Q psy2726 347 ERPFRC--EVCMKTFTQQPNLWKHMKTHTGE------------KPYNCG--MCDKAFTQRANLLKHIRVHTGE------- 403 (543)
Q Consensus 347 ~~~~~C--~~C~~~f~~~~~L~~H~~~h~~~------------k~~~C~--~C~~~f~~~~~L~~H~~~H~~~------- 403 (543)
..-|.| +.|+..+-++..+.+|..+|... ..|.|. .|.+ +.+++..|-..|+..
T Consensus 269 rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfrr 345 (480)
T KOG4377|consen 269 REHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRR 345 (480)
T ss_pred chhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceec
Confidence 344777 57988888899999999887532 225674 5887 456677777666432
Q ss_pred CCccccccc--ccccChHHHHhhhhhccCCC------------------------cccccc--cccccCCchhHHhhhhh
Q psy2726 404 RPYSCKLCG--KRFTQQANLVKHNRLHSGER------------------------PYHCRY--CTKTFIQQSNLDRHERV 455 (543)
Q Consensus 404 ~~~~C~~C~--k~F~~~~~L~~H~~~H~~~~------------------------~~~C~~--C~~~f~~~~~L~~H~~~ 455 (543)
.-|.|.-|+ ..|.....-..|.+-+.++. -|.|.. |+.++.+-+.+..|-+.
T Consensus 346 thfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrk 425 (480)
T KOG4377|consen 346 THFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRK 425 (480)
T ss_pred ceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhhh
Confidence 136788877 44442222222333222211 145654 88899999999999877
Q ss_pred hCC
Q psy2726 456 HTG 458 (543)
Q Consensus 456 H~~ 458 (543)
|-.
T Consensus 426 heR 428 (480)
T KOG4377|consen 426 HER 428 (480)
T ss_pred hhh
Confidence 753
No 140
>KOG2593|consensus
Probab=39.50 E-value=26 Score=34.36 Aligned_cols=37 Identities=27% Similarity=0.604 Sum_probs=21.4
Q ss_pred CCCcccccccccccChHHHHhhhhhccCCCcccccccccc
Q psy2726 403 ERPYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKT 442 (543)
Q Consensus 403 ~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~ 442 (543)
...|.|+.|.+.|.....++. .-.....|.|..|+-.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHHh---hcccCceEEEecCCCc
Confidence 345777777777776665542 1111234777777654
No 141
>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=39.11 E-value=19 Score=23.96 Aligned_cols=13 Identities=15% Similarity=0.611 Sum_probs=9.8
Q ss_pred ccCCcCCcccccc
Q psy2726 126 YNCGMCDKAFTQR 138 (543)
Q Consensus 126 ~~C~~C~~~f~~~ 138 (543)
+.|+.|+..+.-.
T Consensus 3 ~~CP~CG~~iev~ 15 (54)
T TIGR01206 3 FECPDCGAEIELE 15 (54)
T ss_pred cCCCCCCCEEecC
Confidence 6899999877543
No 142
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.04 E-value=16 Score=27.93 Aligned_cols=27 Identities=15% Similarity=0.114 Sum_probs=18.1
Q ss_pred ecccCccccCCchhHHhhhhhcCCCCCccCccchhccC
Q psy2726 351 RCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCDKAFT 388 (543)
Q Consensus 351 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~ 388 (543)
.|+.||+.|... +..|..|++||++|+
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccch
Confidence 577777777532 456777777777774
No 143
>PF12907 zf-met2: Zinc-binding
Probab=38.78 E-value=14 Score=22.81 Aligned_cols=26 Identities=31% Similarity=0.584 Sum_probs=15.0
Q ss_pred eeccccchhcc---CcchHHHHHHhhcCC
Q psy2726 462 YSCKICWKAFA---QTGNLTKHELSAHGI 487 (543)
Q Consensus 462 ~~C~~C~~~f~---~~~~l~~H~~~~h~~ 487 (543)
+.|.+|-.+|. +...|..|....|..
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 45666665553 334577777666644
No 144
>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=38.41 E-value=15 Score=29.78 Aligned_cols=24 Identities=38% Similarity=0.701 Sum_probs=12.7
Q ss_pred ccCccchhccCChHHHHHHHhhhCCCC
Q psy2726 378 YNCGMCDKAFTQRANLLKHIRVHTGER 404 (543)
Q Consensus 378 ~~C~~C~~~f~~~~~L~~H~~~H~~~~ 404 (543)
..|-+||+.|.. |++|++.|+|..
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 567777777764 477777776643
No 145
>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=38.08 E-value=31 Score=22.00 Aligned_cols=11 Identities=45% Similarity=0.927 Sum_probs=6.0
Q ss_pred CCceeccccch
Q psy2726 459 VKPYSCKICWK 469 (543)
Q Consensus 459 ~~~~~C~~C~~ 469 (543)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 34566666653
No 146
>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=38.02 E-value=18 Score=32.14 Aligned_cols=28 Identities=21% Similarity=0.357 Sum_probs=16.8
Q ss_pred cccccccccccCCchhHHhhhhhhCCCC
Q psy2726 433 PYHCRYCTKTFIQQSNLDRHERVHTGVK 460 (543)
Q Consensus 433 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~ 460 (543)
.|.|+.|+|.|.-......|+..-+.++
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred EECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 4677777777777777777776666653
No 147
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=37.53 E-value=26 Score=28.10 Aligned_cols=59 Identities=31% Similarity=0.600 Sum_probs=31.5
Q ss_pred cCCCCCccCccchhccCChHHHHHHHhhhCCCCCcccccccccc--cChHHHHhhhhhccCCCcccccccccccCCch
Q psy2726 372 HTGEKPYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRF--TQQANLVKHNRLHSGERPYHCRYCTKTFIQQS 447 (543)
Q Consensus 372 h~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F--~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~ 447 (543)
-.+.+.|.|.+|..+...+..| +|-.| ||+.. .-...|..|-.+| =.||.|.-+|.+.+
T Consensus 75 F~d~~lYeCnIC~etS~ee~FL----------KPneC--CgY~iCn~Cya~LWK~~~~y-----pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 75 FLDPKLYECNICKETSAEERFL----------KPNEC--CGYSICNACYANLWKFCNLY-----PVCPVCKTSFKSSS 135 (140)
T ss_pred ecCCCceeccCcccccchhhcC----------Ccccc--cchHHHHHHHHHHHHHcccC-----CCCCcccccccccc
Confidence 3445677788887665544333 33333 22221 1234566655544 25777777776654
No 148
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=36.98 E-value=29 Score=22.22 Aligned_cols=34 Identities=26% Similarity=0.602 Sum_probs=21.4
Q ss_pred CccccccccccccCCCCccccccCCeeEEccccCC
Q psy2726 508 PVLLCSKTGKILKKLPMKYHHHSGESVEIGMDACN 542 (543)
Q Consensus 508 ~~~~c~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 542 (543)
|-..|+.|+..+. ||.....-......+.|++|+
T Consensus 5 PFv~C~~C~~lLq-lP~~~~~~~k~~~klrCGaCs 38 (46)
T PF11331_consen 5 PFVVCSSCFELLQ-LPAKFSLSKKNQQKLRCGACS 38 (46)
T ss_pred CEeECccHHHHHc-CCCccCCCccceeEEeCCCCc
Confidence 4456777877665 344444433334678899996
No 149
>KOG4167|consensus
Probab=36.86 E-value=8.5 Score=40.03 Aligned_cols=26 Identities=27% Similarity=0.616 Sum_probs=23.6
Q ss_pred cccccccccccCCchhHHhhhhhhCC
Q psy2726 433 PYHCRYCTKTFIQQSNLDRHERVHTG 458 (543)
Q Consensus 433 ~~~C~~C~~~f~~~~~L~~H~~~H~~ 458 (543)
-|.|.+|++.|.....+..||++|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 39999999999999999999999863
No 150
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=36.11 E-value=23 Score=32.78 Aligned_cols=80 Identities=20% Similarity=0.466 Sum_probs=39.4
Q ss_pred CCccCccchhccCChHHHHHHHhh----------hCC--CCCcccccccccccChHHHHhhhhhccCCCccccccccccc
Q psy2726 376 KPYNCGMCDKAFTQRANLLKHIRV----------HTG--ERPYSCKLCGKRFTQQANLVKHNRLHSGERPYHCRYCTKTF 443 (543)
Q Consensus 376 k~~~C~~C~~~f~~~~~L~~H~~~----------H~~--~~~~~C~~C~k~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f 443 (543)
-|..|+.|+-.......|.+-..- -.+ .+.-.|-.|.-.|+....-..-. -+....|+|+.|...|
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~--~~ss~rY~Ce~CK~~F 398 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDE--STSSGRYQCELCKSTF 398 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCcccc--cccccceechhhhhhh
Confidence 366788887655444333322110 001 11223666766665432111000 0112347777777777
Q ss_pred CCchhHHhhhhhhC
Q psy2726 444 IQQSNLDRHERVHT 457 (543)
Q Consensus 444 ~~~~~L~~H~~~H~ 457 (543)
-.--+...|...|.
T Consensus 399 C~dCdvfiHe~Lh~ 412 (421)
T COG5151 399 CSDCDVFIHETLHF 412 (421)
T ss_pred hhhhHHHHHHHHhh
Confidence 77777777765553
No 151
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=35.78 E-value=22 Score=23.63 Aligned_cols=15 Identities=27% Similarity=0.780 Sum_probs=11.2
Q ss_pred ccCCcCCcccccccc
Q psy2726 126 YNCGMCDKAFTQRAN 140 (543)
Q Consensus 126 ~~C~~C~~~f~~~~~ 140 (543)
.+|+.|++.|.....
T Consensus 6 ~~C~~Cg~~~~~~dD 20 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDD 20 (54)
T ss_pred ccChhhCCcccCCCC
Confidence 479999999875443
No 152
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.56 E-value=19 Score=38.51 Aligned_cols=9 Identities=33% Similarity=1.147 Sum_probs=4.6
Q ss_pred ccccccccc
Q psy2726 433 PYHCRYCTK 441 (543)
Q Consensus 433 ~~~C~~C~~ 441 (543)
...|.+||+
T Consensus 410 ~l~Ch~CG~ 418 (665)
T PRK14873 410 TPRCRWCGR 418 (665)
T ss_pred eeECCCCcC
Confidence 345555553
No 153
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=34.75 E-value=21 Score=23.31 Aligned_cols=11 Identities=18% Similarity=0.407 Sum_probs=5.9
Q ss_pred ceeccccchhc
Q psy2726 461 PYSCKICWKAF 471 (543)
Q Consensus 461 ~~~C~~C~~~f 471 (543)
.+.|..||+++
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 45566665543
No 154
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=33.87 E-value=24 Score=28.35 Aligned_cols=29 Identities=24% Similarity=0.725 Sum_probs=20.2
Q ss_pred cccccccccccCCch-hHHHHHhhhcCCCcccCCcCCc-ccc
Q psy2726 97 PFRCEVCMKTFTQQP-NLWKHMKTHTGEKPYNCGMCDK-AFT 136 (543)
Q Consensus 97 ~~~C~~C~~~f~~~~-~L~~H~~~h~~~~~~~C~~C~~-~f~ 136 (543)
|++|..|++.|...+ .|. --|+.||- .|.
T Consensus 1 PH~Ct~Cg~~f~dgs~eil-----------~GCP~CGg~kF~ 31 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKEIL-----------SGCPECGGNKFQ 31 (131)
T ss_pred CcccCcCCCCcCCCcHHHH-----------ccCcccCCcceE
Confidence 578999999998765 222 25999974 443
No 155
>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=33.24 E-value=21 Score=19.23 Aligned_cols=7 Identities=29% Similarity=1.004 Sum_probs=3.2
Q ss_pred eeccccc
Q psy2726 462 YSCKICW 468 (543)
Q Consensus 462 ~~C~~C~ 468 (543)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4444444
No 156
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=32.10 E-value=48 Score=30.77 Aligned_cols=24 Identities=25% Similarity=0.771 Sum_probs=13.7
Q ss_pred CcccccchhhccChHHHHHHHHHH
Q psy2726 200 PYNCGMCDKAFTQRANLLKHIRVH 223 (543)
Q Consensus 200 ~~~C~~C~~~f~~~~~L~~H~~~h 223 (543)
.|+|+.|...|-..-+.-.|...|
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHHHh
Confidence 356666666665555555555544
No 157
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=31.93 E-value=19 Score=26.51 Aligned_cols=14 Identities=50% Similarity=1.080 Sum_probs=7.5
Q ss_pred CCcccccccccccC
Q psy2726 404 RPYSCKLCGKRFTQ 417 (543)
Q Consensus 404 ~~~~C~~C~k~F~~ 417 (543)
+|-.|..||+.|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34555555555544
No 158
>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=31.84 E-value=24 Score=24.74 Aligned_cols=8 Identities=63% Similarity=1.825 Sum_probs=1.9
Q ss_pred cccccccc
Q psy2726 408 CKLCGKRF 415 (543)
Q Consensus 408 C~~C~k~F 415 (543)
|.+|++.|
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 159
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=31.72 E-value=22 Score=26.54 Aligned_cols=12 Identities=42% Similarity=0.717 Sum_probs=7.7
Q ss_pred ceeccccchhcc
Q psy2726 461 PYSCKICWKAFA 472 (543)
Q Consensus 461 ~~~C~~C~~~f~ 472 (543)
.+.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PTZ00255 54 IWRCKGCKKTVA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 466777766664
No 160
>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=31.45 E-value=12 Score=26.65 Aligned_cols=30 Identities=23% Similarity=0.401 Sum_probs=12.8
Q ss_pred cccccccccccCCchhHHhhhhhhCCCCceeccccchh
Q psy2726 433 PYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKA 470 (543)
Q Consensus 433 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~ 470 (543)
...|..|+..++-... ..+ ..|.|+.|+..
T Consensus 41 ~v~Cg~C~~~~~~~~~-------~c~-~~~~C~~C~~~ 70 (71)
T PF05495_consen 41 RVICGKCRTEQPIDEY-------SCG-ADYFCPICGLY 70 (71)
T ss_dssp EEEETTT--EEES-SB-------TT---SEEETTTTEE
T ss_pred CeECCCCCCccChhhh-------hcC-CCccCcCcCCC
Confidence 4556666665544333 011 34666666543
No 161
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=30.58 E-value=40 Score=19.16 Aligned_cols=7 Identities=29% Similarity=1.241 Sum_probs=5.4
Q ss_pred eecccCc
Q psy2726 350 FRCEVCM 356 (543)
Q Consensus 350 ~~C~~C~ 356 (543)
|.|..|+
T Consensus 16 Y~C~~c~ 22 (30)
T PF03107_consen 16 YHCSECC 22 (30)
T ss_pred EEeCCCC
Confidence 7787777
No 162
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=30.33 E-value=23 Score=29.18 Aligned_cols=34 Identities=29% Similarity=0.867 Sum_probs=24.9
Q ss_pred CcccCCcCCcccccccccCCcccccCCCccchhhcccccccccccCCCccccCccccc
Q psy2726 124 KPYNCGMCDKAFTQRANLWGSWVCHPTAVRDLFLVNLGTHERIHTGERPFRCEVCMKT 181 (543)
Q Consensus 124 ~~~~C~~C~~~f~~~~~L~~h~~~~~~~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~ 181 (543)
-+|.|. |+..|.+ .++|-.+-.|+ .|.|..|+-.
T Consensus 116 ~~Y~C~-C~q~~l~----------------------~RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLR----------------------IRRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccch----------------------hhhcccccccc-eEEeccCCce
Confidence 469999 9988766 34555555566 8999999754
No 163
>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=30.01 E-value=22 Score=23.36 Aligned_cols=24 Identities=29% Similarity=0.659 Sum_probs=9.0
Q ss_pred cccccccccccCCchhHHhhhhhh
Q psy2726 433 PYHCRYCTKTFIQQSNLDRHERVH 456 (543)
Q Consensus 433 ~~~C~~C~~~f~~~~~L~~H~~~H 456 (543)
.|+|+.|+..|=-.=++..|...|
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTTS-
T ss_pred eEECCCCCCccccCcChhhhcccc
Confidence 355555555555444444554443
No 164
>KOG4167|consensus
Probab=29.36 E-value=16 Score=38.05 Aligned_cols=25 Identities=20% Similarity=0.424 Sum_probs=22.9
Q ss_pred ceeccccchhccCcchHHHHHHhhc
Q psy2726 461 PYSCKICWKAFAQTGNLTKHELSAH 485 (543)
Q Consensus 461 ~~~C~~C~~~f~~~~~l~~H~~~~h 485 (543)
-|.|..|++.|..-.++..||++|-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3999999999999999999999875
No 165
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=29.24 E-value=20 Score=27.06 Aligned_cols=37 Identities=14% Similarity=0.441 Sum_probs=19.3
Q ss_pred CcccccccccccCCchhHHhhhhhhCCCCceeccccchhcc
Q psy2726 432 RPYHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFA 472 (543)
Q Consensus 432 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~ 472 (543)
+.|.|+.||..-...-.+. .-.+.-.-.|..||..|.
T Consensus 21 k~FtCp~Cghe~vs~ctvk----k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 21 KTFTCPRCGHEKVSSCTVK----KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred ceEecCccCCeeeeEEEEE----ecCceeEEEcccCcceEE
Confidence 4477777776544332221 111222356778877764
No 166
>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=28.79 E-value=23 Score=26.43 Aligned_cols=12 Identities=33% Similarity=0.866 Sum_probs=7.7
Q ss_pred ceeccccchhcc
Q psy2726 461 PYSCKICWKAFA 472 (543)
Q Consensus 461 ~~~C~~C~~~f~ 472 (543)
.+.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 466777776664
No 167
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=27.75 E-value=52 Score=37.33 Aligned_cols=11 Identities=36% Similarity=0.911 Sum_probs=6.5
Q ss_pred Ccccccccccc
Q psy2726 405 PYSCKLCGKRF 415 (543)
Q Consensus 405 ~~~C~~C~k~F 415 (543)
+|.|+.||...
T Consensus 692 vy~CPsCGaev 702 (1337)
T PRK14714 692 VYVCPDCGAEV 702 (1337)
T ss_pred ceeCccCCCcc
Confidence 45666666543
No 168
>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=27.55 E-value=36 Score=30.37 Aligned_cols=24 Identities=29% Similarity=0.563 Sum_probs=10.7
Q ss_pred cccccchhhccChHHHHHHHHHHh
Q psy2726 201 YNCGMCDKAFTQRANLLKHIRVHT 224 (543)
Q Consensus 201 ~~C~~C~~~f~~~~~L~~H~~~h~ 224 (543)
|.|.+|+|.|.-..-..+|+...|
T Consensus 78 ~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 78 WRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EEE-SSS-EESSHHHHHHHHHHH-
T ss_pred ECCCCCCcccCChHHHHHHHhhcC
Confidence 455555555555555555554433
No 169
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.61 E-value=37 Score=17.98 Aligned_cols=8 Identities=25% Similarity=0.575 Sum_probs=5.4
Q ss_pred ecccCccc
Q psy2726 351 RCEVCMKT 358 (543)
Q Consensus 351 ~C~~C~~~ 358 (543)
-|+.||..
T Consensus 15 fC~~CG~~ 22 (23)
T PF13240_consen 15 FCPNCGTP 22 (23)
T ss_pred chhhhCCc
Confidence 37777764
No 170
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=26.41 E-value=26 Score=22.78 Aligned_cols=16 Identities=38% Similarity=0.775 Sum_probs=13.1
Q ss_pred CCCcccccccccccCC
Q psy2726 22 DGTFVCKVCNKTFTQS 37 (543)
Q Consensus 22 ~~~~~C~~C~~~f~~~ 37 (543)
|+++.|..||..|.-.
T Consensus 2 Dk~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFT 17 (49)
T ss_pred CeeEEcccCCCeEEEe
Confidence 6789999999999643
No 171
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=26.33 E-value=35 Score=27.38 Aligned_cols=24 Identities=33% Similarity=0.463 Sum_probs=14.3
Q ss_pred ccccccccccCCchhHHhhhhhhCCCC
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVK 460 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~ 460 (543)
..|-++|+.|. .|++|+.+|.+-.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmT 100 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLT 100 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCC
Confidence 34666666664 4666666666543
No 172
>KOG3408|consensus
Probab=26.13 E-value=42 Score=26.40 Aligned_cols=26 Identities=23% Similarity=0.547 Sum_probs=20.4
Q ss_pred CCCCcccccchhhccChHHHHHHHHH
Q psy2726 197 GEKPYNCGMCDKAFTQRANLLKHIRV 222 (543)
Q Consensus 197 ~~~~~~C~~C~~~f~~~~~L~~H~~~ 222 (543)
|...|.|-.|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 33458888888888888888888764
No 173
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.52 E-value=29 Score=28.46 Aligned_cols=12 Identities=25% Similarity=0.946 Sum_probs=6.2
Q ss_pred cccccccccccC
Q psy2726 406 YSCKLCGKRFTQ 417 (543)
Q Consensus 406 ~~C~~C~k~F~~ 417 (543)
+.|..||..|..
T Consensus 71 ~~C~~CG~~~~~ 82 (135)
T PRK03824 71 LKCRNCGNEWSL 82 (135)
T ss_pred EECCCCCCEEec
Confidence 555555555443
No 174
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=25.44 E-value=42 Score=19.89 Aligned_cols=13 Identities=31% Similarity=0.779 Sum_probs=7.1
Q ss_pred cCCcCCccccccc
Q psy2726 127 NCGMCDKAFTQRA 139 (543)
Q Consensus 127 ~C~~C~~~f~~~~ 139 (543)
.|..|++.|....
T Consensus 5 ~C~eC~~~f~dSy 17 (34)
T PF01286_consen 5 KCDECGKPFMDSY 17 (34)
T ss_dssp E-TTT--EES-SS
T ss_pred hHhHhCCHHHHHH
Confidence 6899999997654
No 175
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.43 E-value=24 Score=31.25 Aligned_cols=40 Identities=23% Similarity=0.574 Sum_probs=26.0
Q ss_pred CCCeecccCccccCCchhHHhhhhhcCCC----------CC-----ccCccchhc
Q psy2726 347 ERPFRCEVCMKTFTQQPNLWKHMKTHTGE----------KP-----YNCGMCDKA 386 (543)
Q Consensus 347 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~----------k~-----~~C~~C~~~ 386 (543)
++.+.||+|+..|.....+..-.++-.++ .| ..|+.|+++
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred hceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 34578999999998776555555543332 12 358888764
No 176
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=25.04 E-value=40 Score=21.09 Aligned_cols=12 Identities=17% Similarity=0.423 Sum_probs=7.8
Q ss_pred CccccCcccccc
Q psy2726 171 RPFRCEVCMKTF 182 (543)
Q Consensus 171 ~~~~C~~C~~~f 182 (543)
..+.|..||...
T Consensus 18 g~~vC~~CG~Vl 29 (43)
T PF08271_consen 18 GELVCPNCGLVL 29 (43)
T ss_dssp TEEEETTT-BBE
T ss_pred CeEECCCCCCEe
Confidence 457899998654
No 177
>KOG3408|consensus
Probab=24.83 E-value=46 Score=26.19 Aligned_cols=24 Identities=21% Similarity=0.501 Sum_probs=15.6
Q ss_pred CCCccCccchhccCChHHHHHHHh
Q psy2726 375 EKPYNCGMCDKAFTQRANLLKHIR 398 (543)
Q Consensus 375 ~k~~~C~~C~~~f~~~~~L~~H~~ 398 (543)
-..|.|-.|.+-|.+...|..|.+
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHh
Confidence 344666677777777777776665
No 178
>KOG2807|consensus
Probab=24.75 E-value=81 Score=29.71 Aligned_cols=35 Identities=23% Similarity=0.557 Sum_probs=25.2
Q ss_pred ccccccccccCCchhHHhhhhhhCCCCceeccccchhccCcchHHHHHH
Q psy2726 434 YHCRYCTKTFIQQSNLDRHERVHTGVKPYSCKICWKAFAQTGNLTKHEL 482 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~ 482 (543)
|.|+.|+...- .-|-.|++|+.+......|.+=.+
T Consensus 277 y~CP~CkakvC--------------sLP~eCpiC~ltLVss~hLARSyh 311 (378)
T KOG2807|consen 277 YFCPQCKAKVC--------------SLPIECPICSLTLVSSPHLARSYH 311 (378)
T ss_pred eeCCcccCeee--------------cCCccCCccceeEecchHHHHHHH
Confidence 88888865432 357788888888888888876443
No 179
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=24.44 E-value=64 Score=36.65 Aligned_cols=28 Identities=21% Similarity=0.583 Sum_probs=16.3
Q ss_pred CccCccchhccCChHHHHHHHhhhCCCCCcccccccccc
Q psy2726 377 PYNCGMCDKAFTQRANLLKHIRVHTGERPYSCKLCGKRF 415 (543)
Q Consensus 377 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~k~F 415 (543)
+|.|+.||....... ++ ...|+.|+...
T Consensus 692 vy~CPsCGaev~~de---------s~--a~~CP~CGtpl 719 (1337)
T PRK14714 692 VYVCPDCGAEVPPDE---------SG--RVECPRCDVEL 719 (1337)
T ss_pred ceeCccCCCccCCCc---------cc--cccCCCCCCcc
Confidence 477888887644311 11 34688888543
No 180
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.70 E-value=32 Score=27.17 Aligned_cols=24 Identities=17% Similarity=0.415 Sum_probs=14.8
Q ss_pred CeecccCccccCCchhHHhhhhhcCCCCCccCccch
Q psy2726 349 PFRCEVCMKTFTQQPNLWKHMKTHTGEKPYNCGMCD 384 (543)
Q Consensus 349 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~ 384 (543)
...|..||..|.... ..+.|+.||
T Consensus 70 ~~~C~~Cg~~~~~~~------------~~~~CP~Cg 93 (113)
T PRK12380 70 QAWCWDCSQVVEIHQ------------HDAQCPHCH 93 (113)
T ss_pred EEEcccCCCEEecCC------------cCccCcCCC
Confidence 367888877665322 235577777
No 181
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=23.65 E-value=48 Score=22.07 Aligned_cols=8 Identities=50% Similarity=1.103 Sum_probs=3.1
Q ss_pred cccccccc
Q psy2726 436 CRYCTKTF 443 (543)
Q Consensus 436 C~~C~~~f 443 (543)
|..|++.|
T Consensus 5 C~~C~~~F 12 (57)
T cd00065 5 CMGCGKPF 12 (57)
T ss_pred CcccCccc
Confidence 33344333
No 182
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=23.57 E-value=39 Score=20.70 Aligned_cols=13 Identities=23% Similarity=0.749 Sum_probs=10.5
Q ss_pred ceeccccchhccC
Q psy2726 461 PYSCKICWKAFAQ 473 (543)
Q Consensus 461 ~~~C~~C~~~f~~ 473 (543)
||+|..|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7889889888854
No 183
>KOG1280|consensus
Probab=23.56 E-value=59 Score=30.85 Aligned_cols=36 Identities=19% Similarity=0.413 Sum_probs=19.4
Q ss_pred CeecccCccccCCchhHHhhhhhcCCCCC--ccCccch
Q psy2726 349 PFRCEVCMKTFTQQPNLWKHMKTHTGEKP--YNCGMCD 384 (543)
Q Consensus 349 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~--~~C~~C~ 384 (543)
.|.|++|++.-.+...|..|+..-+.+-+ ..|++|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 46666666666666666666554333322 2355553
No 184
>KOG4124|consensus
Probab=23.29 E-value=20 Score=33.75 Aligned_cols=52 Identities=12% Similarity=-0.019 Sum_probs=32.7
Q ss_pred CCCccccCc--cccccCCchhHHHH-----HhhhcCCCCcccccchhhccChHHHHHHHH
Q psy2726 169 GERPFRCEV--CMKTFTQQPNLWKH-----MKTHTGEKPYNCGMCDKAFTQRANLLKHIR 221 (543)
Q Consensus 169 ~~~~~~C~~--C~~~f~~~~~L~~H-----~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 221 (543)
.|.++.|.+ |.+.+.-......| +-.-+..+||+|+ |++...++..|+.|-.
T Consensus 175 EE~~~S~~vp~~~~~~~~~Ns~~~~S~~~~~T~~t~~~p~k~~-~~~~~~T~~~l~~HS~ 233 (442)
T KOG4124|consen 175 EEYRVSVVVPAAAAAAAAANSSDMSSDEASSTAETTGTPKKMP-ESLVMDTSSPLSDHSM 233 (442)
T ss_pred ccccccccCchhhhhhhccccccccccccccccccccCCccCc-ccccccccchhhhccc
Confidence 456677755 66655544443333 2223345688886 7888888888888853
No 185
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=23.27 E-value=31 Score=25.72 Aligned_cols=12 Identities=33% Similarity=0.830 Sum_probs=7.8
Q ss_pred ceeccccchhcc
Q psy2726 461 PYSCKICWKAFA 472 (543)
Q Consensus 461 ~~~C~~C~~~f~ 472 (543)
.+.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PRK03976 54 IWECRKCGAKFA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 466777776664
No 186
>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=23.04 E-value=53 Score=20.19 Aligned_cols=14 Identities=21% Similarity=0.726 Sum_probs=7.8
Q ss_pred cCCCccccCccccc
Q psy2726 168 TGERPFRCEVCMKT 181 (543)
Q Consensus 168 ~~~~~~~C~~C~~~ 181 (543)
.+.+.+.|.+|+..
T Consensus 20 ~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 20 DGGKTWICNFCGTK 33 (40)
T ss_dssp TTTTEEEETTT--E
T ss_pred CCCCEEECcCCCCc
Confidence 34456778888754
No 187
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=22.94 E-value=50 Score=25.06 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=6.4
Q ss_pred ccccccccccCC
Q psy2726 434 YHCRYCTKTFIQ 445 (543)
Q Consensus 434 ~~C~~C~~~f~~ 445 (543)
++|.-||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 445555555554
No 188
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=22.81 E-value=73 Score=19.76 Aligned_cols=24 Identities=21% Similarity=0.353 Sum_probs=17.2
Q ss_pred ccccccccccCC--chhHHHHHhhhc
Q psy2726 98 FRCEVCMKTFTQ--QPNLWKHMKTHT 121 (543)
Q Consensus 98 ~~C~~C~~~f~~--~~~L~~H~~~h~ 121 (543)
-.|+.|+..|.. ...-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 579999988854 456667777663
No 189
>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=22.71 E-value=47 Score=18.76 Aligned_cols=11 Identities=27% Similarity=0.697 Sum_probs=4.3
Q ss_pred CeecccCcccc
Q psy2726 349 PFRCEVCMKTF 359 (543)
Q Consensus 349 ~~~C~~C~~~f 359 (543)
.|.|.+|+..+
T Consensus 15 ~Y~C~~Cdf~l 25 (30)
T PF07649_consen 15 FYRCSECDFDL 25 (30)
T ss_dssp EEE-TTT----
T ss_pred eEECccCCCcc
Confidence 47777776543
No 190
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=22.10 E-value=45 Score=20.59 Aligned_cols=16 Identities=19% Similarity=0.484 Sum_probs=7.0
Q ss_pred ccccccccccCCchhH
Q psy2726 434 YHCRYCTKTFIQQSNL 449 (543)
Q Consensus 434 ~~C~~C~~~f~~~~~L 449 (543)
+.|+.|+-.+.....|
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 191
>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=21.40 E-value=36 Score=25.40 Aligned_cols=13 Identities=31% Similarity=0.835 Sum_probs=9.8
Q ss_pred CeecccCccccCC
Q psy2726 349 PFRCEVCMKTFTQ 361 (543)
Q Consensus 349 ~~~C~~C~~~f~~ 361 (543)
.+.|..|++.|..
T Consensus 53 IW~C~~C~~~~AG 65 (90)
T PF01780_consen 53 IWKCKKCGKKFAG 65 (90)
T ss_dssp EEEETTTTEEEE-
T ss_pred EeecCCCCCEEeC
Confidence 4889999988853
No 192
>PRK10220 hypothetical protein; Provisional
Probab=20.97 E-value=61 Score=25.06 Aligned_cols=15 Identities=13% Similarity=0.556 Sum_probs=11.1
Q ss_pred ccccCccccccCCch
Q psy2726 172 PFRCEVCMKTFTQQP 186 (543)
Q Consensus 172 ~~~C~~C~~~f~~~~ 186 (543)
.|.|+.|+..+....
T Consensus 20 ~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 20 MYICPECAHEWNDAE 34 (111)
T ss_pred eEECCcccCcCCccc
Confidence 488999988776543
No 193
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=20.36 E-value=59 Score=25.13 Aligned_cols=14 Identities=14% Similarity=0.667 Sum_probs=10.4
Q ss_pred ccccCccccccCCc
Q psy2726 172 PFRCEVCMKTFTQQ 185 (543)
Q Consensus 172 ~~~C~~C~~~f~~~ 185 (543)
.|.|+.|+..+...
T Consensus 19 ~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 19 QLICPSCLYEWNEN 32 (109)
T ss_pred eeECcccccccccc
Confidence 48888888877644
No 194
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=20.06 E-value=46 Score=26.40 Aligned_cols=11 Identities=18% Similarity=0.712 Sum_probs=5.6
Q ss_pred ccccccccccc
Q psy2726 406 YSCKLCGKRFT 416 (543)
Q Consensus 406 ~~C~~C~k~F~ 416 (543)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 45555555444
Done!