Query psy8181
Match_columns 361
No_of_seqs 341 out of 2945
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 20:39:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8181.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8181hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 2.6E-28 5.6E-33 226.0 3.9 130 229-360 127-259 (279)
2 KOG2462|consensus 99.9 4.8E-24 1E-28 197.7 15.0 140 193-338 126-265 (279)
3 KOG3576|consensus 99.7 5.8E-17 1.2E-21 144.4 8.4 115 229-343 114-239 (267)
4 KOG1074|consensus 99.6 5.3E-17 1.1E-21 168.4 3.3 53 231-283 352-404 (958)
5 KOG1074|consensus 99.6 1.7E-16 3.6E-21 164.7 1.7 159 196-361 604-924 (958)
6 KOG3608|consensus 99.6 2E-16 4.4E-21 150.8 1.7 157 196-360 206-368 (467)
7 KOG3576|consensus 99.6 3.1E-16 6.7E-21 139.8 1.4 97 258-354 115-222 (267)
8 KOG3608|consensus 99.5 4.4E-15 9.5E-20 141.7 4.3 158 201-360 140-308 (467)
9 KOG3623|consensus 99.5 1.5E-14 3.1E-19 148.3 3.6 111 233-358 211-323 (1007)
10 KOG3623|consensus 99.4 9.3E-14 2E-18 142.5 1.8 126 193-338 206-331 (1007)
11 PLN03086 PRLI-interacting fact 99.1 1.1E-10 2.4E-15 120.2 6.5 109 233-357 434-554 (567)
12 PLN03086 PRLI-interacting fact 99.0 7.1E-10 1.5E-14 114.4 8.8 105 228-339 449-563 (567)
13 PHA00733 hypothetical protein 98.8 3.1E-09 6.6E-14 90.5 5.0 83 258-342 38-125 (128)
14 PHA02768 hypothetical protein; 98.8 2.5E-09 5.5E-14 77.0 2.9 42 317-360 6-47 (55)
15 PHA00733 hypothetical protein 98.7 1.8E-08 3.9E-13 85.8 3.9 83 229-313 37-124 (128)
16 PHA02768 hypothetical protein; 98.5 4.5E-08 9.7E-13 70.5 2.0 44 288-333 5-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.5 8.5E-08 1.9E-12 58.9 2.6 26 331-356 1-26 (26)
18 KOG3993|consensus 98.4 5.5E-08 1.2E-12 95.5 -1.0 81 232-312 267-380 (500)
19 KOG3993|consensus 98.3 1.1E-07 2.5E-12 93.3 -1.0 82 197-285 267-381 (500)
20 PF13465 zf-H2C2_2: Zinc-finge 98.2 1.4E-06 3E-11 53.5 2.4 26 303-328 1-26 (26)
21 PHA00616 hypothetical protein 98.0 2E-06 4.3E-11 59.2 1.7 34 316-349 1-34 (44)
22 PHA00732 hypothetical protein 97.8 1.5E-05 3.3E-10 62.1 3.1 48 288-341 1-49 (79)
23 PHA00732 hypothetical protein 97.7 2.7E-05 5.7E-10 60.8 2.9 47 260-312 1-48 (79)
24 PHA00616 hypothetical protein 97.7 2.2E-05 4.9E-10 54.0 1.7 33 288-320 1-33 (44)
25 COG5189 SFP1 Putative transcri 97.4 8.1E-05 1.8E-09 71.2 2.2 48 314-361 347-415 (423)
26 PF00096 zf-C2H2: Zinc finger, 97.3 0.00017 3.6E-09 42.4 2.4 23 317-339 1-23 (23)
27 PF05605 zf-Di19: Drought indu 97.3 0.00037 8E-09 50.2 4.4 49 289-340 3-53 (54)
28 PF12756 zf-C2H2_2: C2H2 type 97.1 0.00036 7.9E-09 55.4 3.3 23 316-338 50-72 (100)
29 PF13894 zf-C2H2_4: C2H2-type 97.0 0.00067 1.5E-08 39.6 2.6 24 317-340 1-24 (24)
30 PF12756 zf-C2H2_2: C2H2 type 97.0 0.00041 8.9E-09 55.1 2.0 73 234-311 1-73 (100)
31 PF05605 zf-Di19: Drought indu 96.9 0.0012 2.7E-08 47.5 3.8 21 233-254 3-23 (54)
32 PF00096 zf-C2H2: Zinc finger, 96.9 0.0007 1.5E-08 39.7 2.0 23 233-255 1-23 (23)
33 PF13912 zf-C2H2_6: C2H2-type 96.8 0.00087 1.9E-08 41.0 1.9 25 316-340 1-25 (27)
34 PRK04860 hypothetical protein; 96.7 0.0012 2.6E-08 58.4 2.8 42 315-360 118-159 (160)
35 PF13894 zf-C2H2_4: C2H2-type 96.6 0.0019 4.2E-08 37.6 2.3 24 233-256 1-24 (24)
36 KOG2231|consensus 96.5 0.0041 8.8E-08 65.8 5.7 99 240-348 122-240 (669)
37 COG5189 SFP1 Putative transcri 96.4 0.0009 2E-08 64.2 0.4 25 313-337 395-419 (423)
38 COG5048 FOG: Zn-finger [Genera 96.4 0.0019 4.1E-08 63.5 2.6 154 196-354 288-456 (467)
39 COG5236 Uncharacterized conser 96.3 0.0035 7.6E-08 60.9 3.5 101 232-338 151-273 (493)
40 PF13912 zf-C2H2_6: C2H2-type 96.2 0.0036 7.9E-08 38.1 2.0 25 232-256 1-25 (27)
41 smart00355 ZnF_C2H2 zinc finge 96.1 0.0058 1.3E-07 35.9 2.6 24 317-340 1-24 (26)
42 PF09237 GAGA: GAGA factor; I 95.9 0.0054 1.2E-07 43.5 2.2 33 312-344 20-52 (54)
43 KOG1146|consensus 95.9 0.0056 1.2E-07 68.4 3.0 130 228-360 461-634 (1406)
44 COG5048 FOG: Zn-finger [Genera 95.3 0.0073 1.6E-07 59.3 1.2 130 231-360 288-434 (467)
45 smart00355 ZnF_C2H2 zinc finge 94.9 0.023 4.9E-07 33.3 2.2 23 233-255 1-23 (26)
46 PF09237 GAGA: GAGA factor; I 94.7 0.046 1E-06 38.8 3.7 33 228-260 20-52 (54)
47 PF12874 zf-met: Zinc-finger o 94.7 0.021 4.5E-07 34.0 1.7 23 317-339 1-23 (25)
48 PRK04860 hypothetical protein; 94.6 0.022 4.8E-07 50.3 2.3 38 288-329 119-156 (160)
49 PF13909 zf-H2C2_5: C2H2-type 94.2 0.039 8.4E-07 32.6 2.1 23 317-340 1-23 (24)
50 PF12874 zf-met: Zinc-finger o 93.3 0.061 1.3E-06 31.9 1.8 22 233-254 1-22 (25)
51 PF13909 zf-H2C2_5: C2H2-type 93.2 0.07 1.5E-06 31.5 2.0 23 233-256 1-23 (24)
52 KOG2231|consensus 93.0 0.047 1E-06 58.0 1.6 98 243-348 160-275 (669)
53 PF12171 zf-C2H2_jaz: Zinc-fin 92.7 0.032 7E-07 34.1 -0.0 22 317-338 2-23 (27)
54 COG5236 Uncharacterized conser 92.0 0.077 1.7E-06 51.8 1.6 86 261-352 152-252 (493)
55 KOG2785|consensus 91.8 0.35 7.6E-06 47.9 5.9 51 288-338 166-242 (390)
56 KOG2482|consensus 91.2 0.28 6.1E-06 48.0 4.5 21 261-281 196-216 (423)
57 TIGR00622 ssl1 transcription f 90.9 0.42 9.1E-06 39.7 4.7 54 290-351 57-110 (112)
58 PF12171 zf-C2H2_jaz: Zinc-fin 90.6 0.12 2.5E-06 31.5 0.9 21 233-253 2-22 (27)
59 KOG2893|consensus 90.3 0.087 1.9E-06 49.0 0.1 41 263-307 13-53 (341)
60 KOG4173|consensus 89.7 0.14 3E-06 46.7 0.9 73 261-336 80-166 (253)
61 PF13913 zf-C2HC_2: zinc-finge 87.4 0.54 1.2E-05 28.3 2.2 20 317-337 3-22 (25)
62 KOG1146|consensus 86.4 0.18 3.9E-06 56.9 -0.5 20 319-338 1331-1350(1406)
63 smart00451 ZnF_U1 U1-like zinc 86.0 0.66 1.4E-05 29.6 2.2 23 316-338 3-25 (35)
64 PF12013 DUF3505: Protein of u 84.7 1.6 3.5E-05 35.7 4.5 25 317-341 81-109 (109)
65 KOG2893|consensus 83.9 0.37 8.1E-06 44.9 0.4 47 230-281 9-55 (341)
66 cd00350 rubredoxin_like Rubred 83.7 0.74 1.6E-05 29.6 1.6 10 343-352 16-25 (33)
67 KOG2186|consensus 83.6 0.52 1.1E-05 44.3 1.2 50 261-313 4-53 (276)
68 COG4049 Uncharacterized protei 83.6 0.56 1.2E-05 34.0 1.1 33 225-257 10-42 (65)
69 KOG2482|consensus 82.1 1.2 2.5E-05 43.8 3.0 108 232-339 195-357 (423)
70 smart00451 ZnF_U1 U1-like zinc 81.7 1.1 2.4E-05 28.5 1.9 23 232-254 3-25 (35)
71 PF09538 FYDLN_acid: Protein o 80.8 1.1 2.5E-05 37.0 2.1 14 315-328 25-38 (108)
72 KOG4173|consensus 76.3 1.1 2.5E-05 40.9 0.9 78 231-311 78-169 (253)
73 COG4049 Uncharacterized protei 76.0 1.4 3E-05 32.0 1.0 27 312-338 13-39 (65)
74 KOG2186|consensus 75.7 1.2 2.7E-05 41.9 1.0 50 232-284 3-52 (276)
75 COG1198 PriA Primosomal protei 74.9 2 4.4E-05 46.7 2.4 10 315-324 474-483 (730)
76 TIGR00373 conserved hypothetic 72.0 4.3 9.3E-05 35.7 3.5 34 312-354 105-138 (158)
77 PF12013 DUF3505: Protein of u 72.0 5.4 0.00012 32.5 3.9 83 230-313 9-109 (109)
78 cd00729 rubredoxin_SM Rubredox 71.1 2.7 5.9E-05 27.2 1.5 10 317-326 3-12 (34)
79 TIGR02300 FYDLN_acid conserved 70.5 3 6.5E-05 35.4 2.0 30 289-329 10-39 (129)
80 TIGR02098 MJ0042_CXXC MJ0042 f 69.8 2.9 6.2E-05 27.4 1.4 33 317-354 3-35 (38)
81 TIGR02605 CxxC_CxxC_SSSS putat 69.5 1.4 3.1E-05 31.0 -0.1 11 317-327 6-16 (52)
82 PF09538 FYDLN_acid: Protein o 69.4 3.7 8.1E-05 33.9 2.3 30 233-273 10-39 (108)
83 PRK06266 transcription initiat 68.8 4.6 9.9E-05 36.3 2.9 32 314-354 115-146 (178)
84 KOG2807|consensus 68.4 7.9 0.00017 37.9 4.6 88 231-351 275-374 (378)
85 PHA00626 hypothetical protein 68.2 1.8 3.9E-05 31.4 0.2 14 315-328 22-35 (59)
86 COG1198 PriA Primosomal protei 67.7 4 8.7E-05 44.5 2.7 40 289-353 445-484 (730)
87 smart00531 TFIIE Transcription 67.1 8.8 0.00019 33.2 4.3 38 313-354 96-133 (147)
88 PF09986 DUF2225: Uncharacteri 67.0 1.8 3.9E-05 40.0 -0.0 22 231-252 4-25 (214)
89 TIGR00622 ssl1 transcription f 66.5 8.1 0.00018 32.1 3.7 82 232-323 15-110 (112)
90 smart00659 RPOLCX RNA polymera 66.2 4.3 9.4E-05 28.0 1.7 11 289-299 3-13 (44)
91 smart00834 CxxC_CXXC_SSSS Puta 65.1 1.9 4.1E-05 28.5 -0.2 11 317-327 6-16 (41)
92 PF13719 zinc_ribbon_5: zinc-r 65.0 4.6 9.9E-05 26.6 1.6 9 345-353 26-34 (37)
93 PF10571 UPF0547: Uncharacteri 64.7 3.8 8.2E-05 25.0 1.1 9 346-354 16-24 (26)
94 PRK04023 DNA polymerase II lar 63.6 6.5 0.00014 44.0 3.3 36 231-297 625-660 (1121)
95 PF13717 zinc_ribbon_4: zinc-r 63.2 5.1 0.00011 26.3 1.6 9 345-353 26-34 (36)
96 PF09986 DUF2225: Uncharacteri 61.8 1.6 3.5E-05 40.4 -1.4 13 317-329 49-61 (214)
97 COG2888 Predicted Zn-ribbon RN 60.5 8.6 0.00019 28.3 2.5 9 343-351 49-57 (61)
98 PF15135 UPF0515: Uncharacteri 60.3 7.2 0.00016 36.8 2.6 57 231-300 111-167 (278)
99 PF05443 ROS_MUCR: ROS/MUCR tr 59.4 6.2 0.00013 33.8 1.9 22 317-341 73-94 (132)
100 PF09723 Zn-ribbon_8: Zinc rib 59.2 3.2 7E-05 28.1 0.1 29 317-352 6-34 (42)
101 KOG2785|consensus 59.0 9.3 0.0002 38.2 3.3 75 231-310 165-242 (390)
102 PF02892 zf-BED: BED zinc fing 58.7 10 0.00022 25.6 2.5 24 314-337 14-41 (45)
103 COG1996 RPC10 DNA-directed RNA 57.7 5.7 0.00012 28.1 1.1 10 317-326 7-16 (49)
104 PRK09678 DNA-binding transcrip 57.6 2.6 5.5E-05 32.3 -0.7 15 314-328 25-41 (72)
105 TIGR00373 conserved hypothetic 57.3 11 0.00025 33.0 3.3 32 258-298 107-138 (158)
106 PRK04023 DNA polymerase II lar 56.5 9.9 0.00021 42.6 3.3 9 233-241 639-647 (1121)
107 PRK14890 putative Zn-ribbon RN 56.0 9 0.00019 28.1 2.0 9 343-351 47-55 (59)
108 PRK14873 primosome assembly pr 56.0 7.7 0.00017 42.0 2.3 9 316-324 422-430 (665)
109 PF04959 ARS2: Arsenite-resist 56.0 4.1 8.9E-05 37.8 0.2 25 316-340 77-101 (214)
110 smart00614 ZnF_BED BED zinc fi 56.0 9.9 0.00021 26.5 2.2 21 317-337 19-44 (50)
111 KOG4124|consensus 55.1 3.9 8.4E-05 40.3 -0.1 48 314-361 347-415 (442)
112 PF05443 ROS_MUCR: ROS/MUCR tr 54.9 8.9 0.00019 32.9 2.1 28 230-260 70-97 (132)
113 COG1592 Rubrerythrin [Energy p 54.8 8.2 0.00018 34.4 1.9 24 315-351 133-156 (166)
114 PRK00464 nrdR transcriptional 54.8 3.1 6.6E-05 36.6 -0.8 12 289-300 29-40 (154)
115 KOG4377|consensus 54.6 7.3 0.00016 39.3 1.7 110 229-341 268-428 (480)
116 KOG1701|consensus 54.3 0.73 1.6E-05 46.4 -5.2 13 343-355 426-438 (468)
117 COG5188 PRP9 Splicing factor 3 54.1 15 0.00033 36.4 3.8 29 309-337 367-396 (470)
118 PRK00398 rpoP DNA-directed RNA 53.0 4.6 0.0001 27.7 0.1 10 317-326 4-13 (46)
119 PRK06266 transcription initiat 52.9 14 0.0003 33.2 3.2 33 258-299 115-147 (178)
120 COG5151 SSL1 RNA polymerase II 52.8 11 0.00024 36.7 2.6 48 290-339 364-411 (421)
121 KOG2593|consensus 51.2 10 0.00022 38.5 2.1 17 259-275 127-143 (436)
122 TIGR00595 priA primosomal prot 50.8 10 0.00023 39.5 2.3 8 234-241 215-222 (505)
123 TIGR02300 FYDLN_acid conserved 50.5 10 0.00022 32.2 1.7 30 233-273 10-39 (129)
124 KOG2593|consensus 49.3 15 0.00033 37.3 3.0 38 312-352 124-161 (436)
125 smart00531 TFIIE Transcription 49.0 18 0.00039 31.3 3.1 16 259-274 98-113 (147)
126 PF04959 ARS2: Arsenite-resist 47.6 8.3 0.00018 35.8 0.8 31 228-258 73-103 (214)
127 PRK00464 nrdR transcriptional 47.1 6.4 0.00014 34.6 0.0 18 232-249 28-45 (154)
128 TIGR01384 TFS_arch transcripti 45.2 4.1 8.9E-05 32.9 -1.4 11 232-242 16-26 (104)
129 KOG0782|consensus 45.0 4.7 0.0001 42.3 -1.3 52 300-357 237-289 (1004)
130 PF03604 DNA_RNApol_7kD: DNA d 44.6 18 0.0004 23.2 1.8 11 317-327 1-11 (32)
131 PF08274 PhnA_Zn_Ribbon: PhnA 44.1 9.7 0.00021 24.1 0.5 25 318-353 4-28 (30)
132 PF06524 NOA36: NOA36 protein; 43.3 17 0.00037 34.6 2.2 75 284-360 138-225 (314)
133 COG1592 Rubrerythrin [Energy p 42.2 14 0.0003 32.9 1.4 25 287-324 133-157 (166)
134 KOG1280|consensus 42.1 18 0.00038 35.8 2.2 83 228-323 4-116 (381)
135 PRK14873 primosome assembly pr 41.4 19 0.0004 39.1 2.4 39 289-353 393-431 (665)
136 PRK14714 DNA polymerase II lar 41.0 30 0.00066 39.9 4.0 11 288-298 692-702 (1337)
137 PRK05580 primosome assembly pr 40.4 18 0.00039 39.2 2.2 8 234-241 383-390 (679)
138 PF02176 zf-TRAF: TRAF-type zi 40.3 16 0.00036 25.9 1.3 20 302-321 24-43 (60)
139 PF05191 ADK_lid: Adenylate ki 39.8 7.6 0.00016 25.6 -0.5 9 318-326 3-11 (36)
140 COG4957 Predicted transcriptio 39.5 17 0.00038 31.2 1.5 24 317-343 77-100 (148)
141 PRK09678 DNA-binding transcrip 39.4 9.9 0.00022 29.1 0.0 11 289-299 28-40 (72)
142 KOG2071|consensus 39.0 19 0.00042 38.0 2.0 70 229-298 415-523 (579)
143 PF02176 zf-TRAF: TRAF-type zi 38.6 15 0.00033 26.1 0.9 19 275-293 25-43 (60)
144 PF08790 zf-LYAR: LYAR-type C2 37.3 8.6 0.00019 24.0 -0.5 19 317-336 1-19 (28)
145 COG4957 Predicted transcriptio 37.0 20 0.00043 30.8 1.4 25 232-259 76-100 (148)
146 KOG4167|consensus 36.9 8.3 0.00018 41.6 -1.0 25 316-340 792-816 (907)
147 PF04216 FdhE: Protein involve 36.4 4.6 0.0001 38.9 -2.8 14 229-242 194-207 (290)
148 PF12760 Zn_Tnp_IS1595: Transp 36.1 24 0.00052 24.2 1.5 11 342-352 35-45 (46)
149 TIGR01562 FdhE formate dehydro 35.0 17 0.00036 35.6 0.8 51 196-269 183-233 (305)
150 PF14353 CpXC: CpXC protein 35.0 38 0.00082 28.3 2.9 16 289-304 39-54 (128)
151 PF10263 SprT-like: SprT-like 34.4 12 0.00026 32.2 -0.3 34 315-356 122-155 (157)
152 smart00734 ZnF_Rad18 Rad18-lik 34.3 35 0.00076 20.6 1.9 20 317-337 2-21 (26)
153 COG4530 Uncharacterized protei 34.3 23 0.00049 29.4 1.3 26 290-326 11-36 (129)
154 COG1997 RPL43A Ribosomal prote 34.0 23 0.0005 28.1 1.3 10 289-298 54-63 (89)
155 PF13240 zinc_ribbon_2: zinc-r 34.0 17 0.00036 21.4 0.4 6 347-352 16-21 (23)
156 PRK14714 DNA polymerase II lar 33.9 41 0.0009 38.8 3.7 10 289-298 710-719 (1337)
157 PF09845 DUF2072: Zn-ribbon co 31.1 30 0.00066 29.5 1.6 28 232-269 1-28 (131)
158 PRK03824 hypA hydrogenase nick 30.8 20 0.00042 30.7 0.5 13 316-328 70-82 (135)
159 COG1571 Predicted DNA-binding 30.8 29 0.00063 35.4 1.7 17 82-98 102-118 (421)
160 PRK03564 formate dehydrogenase 30.7 22 0.00048 34.8 0.9 50 195-268 185-234 (309)
161 KOG0260|consensus 30.4 9.5E+02 0.021 28.3 13.1 15 77-91 1455-1469(1605)
162 PRK05580 primosome assembly pr 30.4 38 0.00082 36.8 2.7 11 315-325 420-430 (679)
163 KOG4167|consensus 30.2 15 0.00032 39.8 -0.5 27 230-256 790-816 (907)
164 PF05290 Baculo_IE-1: Baculovi 29.2 25 0.00055 30.1 0.9 58 284-358 76-135 (140)
165 PF13878 zf-C2H2_3: zinc-finge 29.1 56 0.0012 22.0 2.4 23 317-339 14-38 (41)
166 PF07975 C1_4: TFIIH C1-like d 28.9 20 0.00043 25.6 0.1 30 315-350 20-49 (51)
167 PF15135 UPF0515: Uncharacteri 28.9 28 0.00061 32.9 1.2 73 245-330 92-169 (278)
168 KOG0782|consensus 28.6 11 0.00024 39.6 -1.6 51 247-302 240-290 (1004)
169 TIGR01562 FdhE formate dehydro 28.6 34 0.00073 33.5 1.7 49 233-297 185-233 (305)
170 PF06524 NOA36: NOA36 protein; 28.5 29 0.00062 33.2 1.2 84 255-339 137-232 (314)
171 KOG1044|consensus 27.1 15 0.00032 38.7 -1.0 13 197-209 91-103 (670)
172 COG3091 SprT Zn-dependent meta 27.1 29 0.00062 30.5 0.8 36 314-354 115-150 (156)
173 PRK12380 hydrogenase nickel in 26.8 33 0.00071 28.4 1.1 10 317-326 71-80 (113)
174 PF01363 FYVE: FYVE zinc finge 26.5 33 0.00072 25.2 1.0 27 289-327 10-36 (69)
175 PRK00432 30S ribosomal protein 26.3 32 0.0007 24.3 0.9 10 316-325 37-46 (50)
176 COG0068 HypF Hydrogenase matur 26.1 20 0.00042 38.9 -0.4 57 262-325 125-182 (750)
177 COG3357 Predicted transcriptio 26.0 35 0.00075 27.4 1.0 11 289-299 59-69 (97)
178 PF14787 zf-CCHC_5: GAG-polypr 25.9 39 0.00085 22.3 1.1 14 346-359 4-17 (36)
179 PF03833 PolC_DP2: DNA polymer 25.8 23 0.00049 39.1 0.0 8 289-296 681-688 (900)
180 PF15269 zf-C2H2_7: Zinc-finge 25.8 44 0.00096 23.2 1.4 24 231-254 19-42 (54)
181 cd00065 FYVE FYVE domain; Zinc 25.5 48 0.001 23.2 1.7 27 290-328 4-30 (57)
182 TIGR00100 hypA hydrogenase nic 24.9 35 0.00075 28.3 0.9 10 317-326 71-80 (115)
183 PRK04351 hypothetical protein; 24.8 38 0.00082 29.6 1.2 35 316-358 112-146 (149)
184 COG2331 Uncharacterized protei 24.3 33 0.00073 26.5 0.7 33 231-270 11-43 (82)
185 KOG0696|consensus 23.8 53 0.0012 33.8 2.1 75 229-323 70-145 (683)
186 KOG2807|consensus 23.5 1E+02 0.0023 30.4 4.0 74 231-323 289-374 (378)
187 KOG2272|consensus 23.4 1.3E+02 0.0027 28.8 4.4 15 344-358 280-294 (332)
188 PTZ00255 60S ribosomal protein 23.4 35 0.00075 27.3 0.6 10 289-298 55-64 (90)
189 KOG1924|consensus 23.4 5.3E+02 0.011 28.9 9.4 15 125-139 558-572 (1102)
190 smart00440 ZnF_C2C2 C2C2 Zinc 23.3 13 0.00027 25.0 -1.6 9 345-353 29-37 (40)
191 PF07282 OrfB_Zn_ribbon: Putat 23.2 48 0.001 24.4 1.4 28 290-327 30-57 (69)
192 COG3364 Zn-ribbon containing p 22.9 53 0.0012 26.9 1.6 27 232-268 2-28 (112)
193 smart00064 FYVE Protein presen 22.7 48 0.001 24.3 1.2 28 289-328 11-38 (68)
194 PF13451 zf-trcl: Probable zin 22.2 34 0.00073 24.2 0.3 15 342-356 2-16 (49)
195 PF05495 zf-CHY: CHY zinc fing 22.1 27 0.00059 26.4 -0.2 11 232-242 10-20 (71)
196 PF07295 DUF1451: Protein of u 22.0 34 0.00074 29.8 0.3 28 316-353 112-139 (146)
197 TIGR00595 priA primosomal prot 21.9 81 0.0017 33.0 3.2 15 227-241 235-249 (505)
198 PF13453 zf-TFIIB: Transcripti 21.5 57 0.0012 21.7 1.3 10 263-272 22-31 (41)
199 COG1675 TFA1 Transcription ini 21.5 1.1E+02 0.0023 27.6 3.4 18 312-329 109-126 (176)
200 PF14311 DUF4379: Domain of un 21.2 71 0.0015 22.5 1.9 12 317-328 29-40 (55)
201 TIGR00280 L37a ribosomal prote 21.1 32 0.0007 27.5 0.0 10 289-298 54-63 (91)
202 KOG2461|consensus 21.1 40 0.00086 34.2 0.7 76 277-352 320-395 (396)
203 KOG3408|consensus 20.7 52 0.0011 27.8 1.1 26 285-310 54-79 (129)
204 COG5151 SSL1 RNA polymerase II 20.5 68 0.0015 31.5 2.0 32 286-323 386-417 (421)
205 PF01155 HypA: Hydrogenase exp 20.3 43 0.00093 27.6 0.6 11 317-327 71-81 (113)
206 PRK00564 hypA hydrogenase nick 20.2 47 0.001 27.6 0.8 10 317-326 72-81 (117)
No 1
>KOG2462|consensus
Probab=99.94 E-value=2.6e-28 Score=226.05 Aligned_cols=130 Identities=33% Similarity=0.660 Sum_probs=121.6
Q ss_pred CCcceecCCCcccccChhhHHHHHhhhcC---CCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHH
Q psy8181 229 GKMHYECNVCYKTFGQLSNLKVHLRTHNG---ERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLK 305 (361)
Q Consensus 229 ~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~---ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~ 305 (361)
....|+|..|||.+.+..+|.+|.++|-. .+.+.|.+|++.|.....|.+|+++|+ .+++|.+|||.|.+.+.|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhh
Confidence 34569999999999999999999999854 677999999999999999999999997 6799999999999999999
Q ss_pred HHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcccCCCCCC
Q psy8181 306 THMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRYISLSGL 360 (361)
Q Consensus 306 ~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~s~L 360 (361)
.|+|+|+|||||.|..|+|+|.++++|+.|+++|.+.|.|+|..|+|+|..++.|
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyL 259 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYL 259 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999988766
No 2
>KOG2462|consensus
Probab=99.91 E-value=4.8e-24 Score=197.72 Aligned_cols=140 Identities=35% Similarity=0.599 Sum_probs=126.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccc
Q psy8181 193 PRSLSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQ 272 (361)
Q Consensus 193 ~~s~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~ 272 (361)
.....+.|..||+.+++.++|++|... | +.-+..+.+.|..|+|.|.....|+.|+++|. -+++|.+||+.|.+
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLsrHkQ~---H-~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSR 199 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLSRHKQT---H-RSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSR 199 (279)
T ss_pred ccCCceeccccccccccccccchhhcc---c-ccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccc
Confidence 345678999999999999999888631 1 22234788999999999999999999999997 56899999999999
Q ss_pred hHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHH
Q psy8181 273 LAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 273 ~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~ 338 (361)
.+.|+-|+|+|+|||||.|..|+|.|.++++|+.|+++|.+.|.|.|..|+|.|...+-|.+|...
T Consensus 200 PWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 200 PWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred hHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999764
No 3
>KOG3576|consensus
Probab=99.69 E-value=5.8e-17 Score=144.41 Aligned_cols=115 Identities=31% Similarity=0.611 Sum_probs=106.4
Q ss_pred CCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHH
Q psy8181 229 GKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHM 308 (361)
Q Consensus 229 ~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~ 308 (361)
+...|.|.+|+|.|.-...|.+|++.|...+.+.|..||+.|.+..+|.+|+++|+|.++|+|..|+|.|..+-.|..|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHH
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcC-----------CCCeeCCCCCcccCChHHHHHHHHHhCCCC
Q psy8181 309 RLHSG-----------QKPYHCEVCPARFTQYVHLKLHKRLHTNER 343 (361)
Q Consensus 309 r~H~g-----------ekpy~C~~Cgk~F~~~s~L~~H~r~H~~eK 343 (361)
+.-+| +|.|.|..||..-.....+..|++.|+..-
T Consensus 194 ~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 194 KKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred HHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 87665 477999999999999999999999987643
No 4
>KOG1074|consensus
Probab=99.64 E-value=5.3e-17 Score=168.40 Aligned_cols=53 Identities=45% Similarity=0.945 Sum_probs=49.6
Q ss_pred cceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhc
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVH 283 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H 283 (361)
..++|.+|.|+|...+.|+.|++.|+|+++|+|.+||..|..+.+|+.|...|
T Consensus 352 ~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH 404 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRH 404 (958)
T ss_pred ccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeec
Confidence 35789999999999999999999999999999999999999999999998766
No 5
>KOG1074|consensus
Probab=99.60 E-value=1.7e-16 Score=164.73 Aligned_cols=159 Identities=28% Similarity=0.587 Sum_probs=124.9
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcCC----CceeCC---cccc
Q psy8181 196 LSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNGE----RPFQCN---ICTK 268 (361)
Q Consensus 196 ~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~e----k~~~C~---~Cgk 268 (361)
-.-.|-.|-+.++-.+.|.-|| ++|.|+++|+|.+||+.|.++.+|+.||-+|-.. ..|.|. +|-+
T Consensus 604 dPNqCiiC~rVlSC~saLqmHy-------rtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~ 676 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHY-------RTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQK 676 (958)
T ss_pred Cccceeeeeecccchhhhhhhh-------hcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcc
Confidence 3446777777777777655554 7889999999999999999999999998887543 447888 8989
Q ss_pred cccchHHHHhhhhhccCCC-------------CccccccccccCChhHHHHHHhhhcC----------------------
Q psy8181 269 SFTQLAHLQKHHLVHTGEK-------------PHECIYCQKRFSSTSNLKTHMRLHSG---------------------- 313 (361)
Q Consensus 269 ~F~~~~~L~~H~~~H~gek-------------pf~C~~Cgk~F~s~s~L~~H~r~H~g---------------------- 313 (361)
.|...-.|..|++.|.+.. .-+|..|.+.|.....|..++..|.+
T Consensus 677 kftn~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp 756 (958)
T KOG1074|consen 677 KFTNAVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTP 756 (958)
T ss_pred cccccccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCC
Confidence 9999988999998887321 13677787777666666666544411
Q ss_pred --------------------------------------------------------------------------------
Q psy8181 314 -------------------------------------------------------------------------------- 313 (361)
Q Consensus 314 -------------------------------------------------------------------------------- 313 (361)
T Consensus 757 ~~~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~ 836 (958)
T KOG1074|consen 757 PPPENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSM 836 (958)
T ss_pred CccccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccc
Confidence
Q ss_pred ----------------------------------------CCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcc
Q psy8181 314 ----------------------------------------QKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKR 353 (361)
Q Consensus 314 ----------------------------------------ekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~ 353 (361)
.....|.+||+.|...+.|..|+|+|+++|+|.|.+|++.
T Consensus 837 l~eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~a 916 (958)
T KOG1074|consen 837 LNEGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEA 916 (958)
T ss_pred cccccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhh
Confidence 0125699999999999999999999999999999999999
Q ss_pred cCCCCCCC
Q psy8181 354 YISLSGLR 361 (361)
Q Consensus 354 F~~~s~Lr 361 (361)
|..+.+||
T Consensus 917 FttrgnLK 924 (958)
T KOG1074|consen 917 FTTRGNLK 924 (958)
T ss_pred hhhhhhhh
Confidence 99999886
No 6
>KOG3608|consensus
Probab=99.60 E-value=2e-16 Score=150.78 Aligned_cols=157 Identities=24% Similarity=0.493 Sum_probs=119.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHH
Q psy8181 196 LSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAH 275 (361)
Q Consensus 196 ~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~ 275 (361)
+-..|..||..|.+...|..|.+. ++......|.|..|.|.|.+...|..|+..|- ..|+|+.|+......+.
T Consensus 206 KvvACp~Cg~~F~~~tkl~DH~rR-----qt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ss 278 (467)
T KOG3608|consen 206 KVVACPHCGELFRTKTKLFDHLRR-----QTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASS 278 (467)
T ss_pred eEEecchHHHHhccccHHHHHHHh-----hhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHH
Confidence 344566677766666655555431 22233446777777777777777777776664 34788888888888888
Q ss_pred HHhhhhh-ccCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCC--CCcccCChHHHHHHHHHhC-CC--CCcccCC
Q psy8181 276 LQKHHLV-HTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEV--CPARFTQYVHLKLHKRLHT-NE--RPYVCKG 349 (361)
Q Consensus 276 L~~H~~~-H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~--Cgk~F~~~s~L~~H~r~H~-~e--KpYkC~~ 349 (361)
|.+|++. |...++|+|..|++.|.+.++|.+|...|. +-.|.|.. |...|++...+++|++.++ |. -+|.|..
T Consensus 279 L~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~ 357 (467)
T KOG3608|consen 279 LTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHC 357 (467)
T ss_pred HHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeec
Confidence 8888864 666799999999999999999999999887 67799987 9999999999999987766 44 4599999
Q ss_pred CCcccCCCCCC
Q psy8181 350 CNKRYISLSGL 360 (361)
Q Consensus 350 CgK~F~~~s~L 360 (361)
|+|.|++-..|
T Consensus 358 Cdr~ft~G~~L 368 (467)
T KOG3608|consen 358 CDRFFTSGKSL 368 (467)
T ss_pred chhhhccchhH
Confidence 99999876654
No 7
>KOG3576|consensus
Probab=99.58 E-value=3.1e-16 Score=139.77 Aligned_cols=97 Identities=35% Similarity=0.744 Sum_probs=89.9
Q ss_pred CCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHH
Q psy8181 258 ERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKR 337 (361)
Q Consensus 258 ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r 337 (361)
...|.|.+|++.|.....|.+|++-|...+.+-|..|||.|.+..+|.+|+|+|+|.+||+|..|+|+|.+...|..|++
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 45689999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred HhCC-----------CCCcccCCCCccc
Q psy8181 338 LHTN-----------ERPYVCKGCNKRY 354 (361)
Q Consensus 338 ~H~~-----------eKpYkC~~CgK~F 354 (361)
.-++ +|.|.|++||.+-
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~ 222 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTS 222 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCC
Confidence 6554 4789999999653
No 8
>KOG3608|consensus
Probab=99.53 E-value=4.4e-15 Score=141.72 Aligned_cols=158 Identities=27% Similarity=0.516 Sum_probs=114.5
Q ss_pred CCCCCCCCCCCCCCCCCC----CCCCCccccC--CCcceecCC--CcccccChhhHHHHHhhhcCCCceeCCcccccccc
Q psy8181 201 GSCGSPLSPNSQGSRGYR----SLPYPLKKKD--GKMHYECNV--CYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQ 272 (361)
Q Consensus 201 ~~C~~~f~~~s~l~~h~~----sl~~h~k~~~--~~k~y~C~~--Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~ 272 (361)
..|+..|.+.-.+..|.. -..+.+..-. ....+.|.+ |-+.|.++..|+.|++.|+++|...|..||..|.+
T Consensus 140 edCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~ 219 (467)
T KOG3608|consen 140 EDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRT 219 (467)
T ss_pred hhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhcc
Confidence 677888876655544431 1112111111 122355655 88889999999999999999998899999999998
Q ss_pred hHHHHhhhhhcc--CCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHH-hCCCCCcccCC
Q psy8181 273 LAHLQKHHLVHT--GEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRL-HTNERPYVCKG 349 (361)
Q Consensus 273 ~~~L~~H~~~H~--gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~-H~~eKpYkC~~ 349 (361)
+..|..|++..+ ...+|+|..|.|.|.....|..|++.|-. -|+|+.|..+....+.|.+|++. |..+|+|+|+.
T Consensus 220 ~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~ 297 (467)
T KOG3608|consen 220 KTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDE 297 (467)
T ss_pred ccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccccCCCChHHHHHHHHhhhccCCCccccc
Confidence 888888887654 34678888888888888888888888743 47888888888888888888765 66677888888
Q ss_pred CCcccCCCCCC
Q psy8181 350 CNKRYISLSGL 360 (361)
Q Consensus 350 CgK~F~~~s~L 360 (361)
|++.|.+.++|
T Consensus 298 Cd~~c~~esdL 308 (467)
T KOG3608|consen 298 CDTRCVRESDL 308 (467)
T ss_pred hhhhhccHHHH
Confidence 88887776655
No 9
>KOG3623|consensus
Probab=99.48 E-value=1.5e-14 Score=148.32 Aligned_cols=111 Identities=26% Similarity=0.614 Sum_probs=60.5
Q ss_pred eecCCCcccccChhhHHHHHhhhcC--CCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhh
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTHNG--ERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRL 310 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H~~--ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~ 310 (361)
.+|+.|.+.+.....|+.|++..+. +..|.|..|...|..+..|.+|+.+|.....-. +++..
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa---------------~sltq 275 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA---------------ISLTQ 275 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc---------------ccccc
Confidence 5666777666666666666654332 334666666666666666666666654211000 00000
Q ss_pred hcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcccCCCC
Q psy8181 311 HSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRYISLS 358 (361)
Q Consensus 311 H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~s 358 (361)
-.+.+.|+|.+|||+|+.+-+|+.|+|||.|||||.|+.|+|+|..++
T Consensus 276 sa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSG 323 (1007)
T KOG3623|consen 276 SALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSG 323 (1007)
T ss_pred hhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCC
Confidence 011244566666666666666666666666666666666666665544
No 10
>KOG3623|consensus
Probab=99.38 E-value=9.3e-14 Score=142.49 Aligned_cols=126 Identities=21% Similarity=0.371 Sum_probs=90.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccc
Q psy8181 193 PRSLSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQ 272 (361)
Q Consensus 193 ~~s~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~ 272 (361)
+.+-...|..|...+.+..++..|+.- +....+..|.|..|..+|..+..|.+||.+|.....-.
T Consensus 206 AfsqlltcpycdrgykrltslkeHiky-----rhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa---------- 270 (1007)
T KOG3623|consen 206 AFSQLLTCPYCDRGYKRLTSLKEHIKY-----RHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA---------- 270 (1007)
T ss_pred hhhhhhcchhHHHHHHHHHHHHHHHHH-----HHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc----------
Confidence 334567899998877666655444321 23345567899999999999999999999985321100
Q ss_pred hHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHH
Q psy8181 273 LAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 273 ~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~ 338 (361)
++.-.-...+.|+|.+|||.|+.+..|+.|+|+|.|||||.|+.|+|+|.+...+..||..
T Consensus 271 -----~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 271 -----ISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred -----ccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 1111111235588888888888888888888888888888888888888888888888643
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.09 E-value=1.1e-10 Score=120.23 Aligned_cols=109 Identities=18% Similarity=0.441 Sum_probs=87.1
Q ss_pred eecCC--CcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhh
Q psy8181 233 YECNV--CYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRL 310 (361)
Q Consensus 233 y~C~~--Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~ 310 (361)
-.|+. ||..|. ...+..| +.|..|++.|. ...|..|++.|+ +++.|. |++.+ .+..|..|+++
T Consensus 434 V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~t 498 (567)
T PLN03086 434 VVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQAS 498 (567)
T ss_pred eeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhc
Confidence 45663 777773 2333333 57999999985 677999999885 789999 99765 56899999999
Q ss_pred hcCCCCeeCCCCCcccC----------ChHHHHHHHHHhCCCCCcccCCCCcccCCC
Q psy8181 311 HSGQKPYHCEVCPARFT----------QYVHLKLHKRLHTNERPYVCKGCNKRYISL 357 (361)
Q Consensus 311 H~gekpy~C~~Cgk~F~----------~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~ 357 (361)
|..++++.|..|++.|. ....|..|...+ +.+++.|..||+.|...
T Consensus 499 hCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr 554 (567)
T PLN03086 499 TCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK 554 (567)
T ss_pred cCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh
Confidence 99999999999999985 245899998885 89999999999988653
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.02 E-value=7.1e-10 Score=114.36 Aligned_cols=105 Identities=17% Similarity=0.476 Sum_probs=88.0
Q ss_pred CCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCC-------
Q psy8181 228 DGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSS------- 300 (361)
Q Consensus 228 ~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s------- 300 (361)
.-+..+.|..|++.|. ...|..|++.++ +++.|. ||..+ .+..|..|+.+|.+++++.|.+|++.|..
T Consensus 449 el~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~ 523 (567)
T PLN03086 449 EAKNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDV 523 (567)
T ss_pred ccccCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccch
Confidence 3445679999999996 678999999986 779999 99755 67899999999999999999999999852
Q ss_pred ---hhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHh
Q psy8181 301 ---TSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLH 339 (361)
Q Consensus 301 ---~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H 339 (361)
...|..|...+ |.+++.|..||+.|..+ .|..|+..-
T Consensus 524 ~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~ 563 (567)
T PLN03086 524 RDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAV 563 (567)
T ss_pred hhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHh
Confidence 35799998885 99999999999998655 778887543
No 13
>PHA00733 hypothetical protein
Probab=98.85 E-value=3.1e-09 Score=90.50 Aligned_cols=83 Identities=22% Similarity=0.309 Sum_probs=63.2
Q ss_pred CCceeCCcccccccchHHHHhh--h---hhccCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHH
Q psy8181 258 ERPFQCNICTKSFTQLAHLQKH--H---LVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHL 332 (361)
Q Consensus 258 ek~~~C~~Cgk~F~~~~~L~~H--~---~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L 332 (361)
.+.+.|.+|...|.....|..+ + ..++++++|.|..|++.|.....|..|++.| +.+|.|..|++.|.....|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 4557777777766665555443 1 2334578899999999999999999999876 4568999999999999999
Q ss_pred HHHHHHhCCC
Q psy8181 333 KLHKRLHTNE 342 (361)
Q Consensus 333 ~~H~r~H~~e 342 (361)
.+|++..++.
T Consensus 116 ~~H~~~~h~~ 125 (128)
T PHA00733 116 LDHVCKKHNI 125 (128)
T ss_pred HHHHHHhcCc
Confidence 9998877653
No 14
>PHA02768 hypothetical protein; Provisional
Probab=98.82 E-value=2.5e-09 Score=76.95 Aligned_cols=42 Identities=17% Similarity=0.416 Sum_probs=33.0
Q ss_pred eeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcccCCCCCC
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRYISLSGL 360 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~s~L 360 (361)
|.|+.||+.|...+.|..|+++|+ ++|+|..|+|.|.+.+.|
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 678888888888888888888877 677888888888776655
No 15
>PHA00733 hypothetical protein
Probab=98.66 E-value=1.8e-08 Score=85.78 Aligned_cols=83 Identities=20% Similarity=0.315 Sum_probs=69.9
Q ss_pred CCcceecCCCcccccChhhHHHH--H---hhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhH
Q psy8181 229 GKMHYECNVCYKTFGQLSNLKVH--L---RTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSN 303 (361)
Q Consensus 229 ~~k~y~C~~Cgk~F~s~s~L~~H--~---~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~ 303 (361)
.++.+.|.+|.+.|.....|..| + ..++++++|.|..|++.|.....|..|++.| +.+|.|..|++.|.....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 46778999999998887776655 2 2334578999999999999999999999976 356999999999999999
Q ss_pred HHHHHhhhcC
Q psy8181 304 LKTHMRLHSG 313 (361)
Q Consensus 304 L~~H~r~H~g 313 (361)
|..|+...++
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 9999998775
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.51 E-value=4.5e-08 Score=70.52 Aligned_cols=44 Identities=18% Similarity=0.287 Sum_probs=36.4
Q ss_pred CccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHH
Q psy8181 288 PHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLK 333 (361)
Q Consensus 288 pf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~ 333 (361)
.|+|..||+.|.+.+.|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 3788888888888888888888887 6788888888888776653
No 17
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.50 E-value=8.5e-08 Score=58.90 Aligned_cols=26 Identities=42% Similarity=0.879 Sum_probs=21.1
Q ss_pred HHHHHHHHhCCCCCcccCCCCcccCC
Q psy8181 331 HLKLHKRLHTNERPYVCKGCNKRYIS 356 (361)
Q Consensus 331 ~L~~H~r~H~~eKpYkC~~CgK~F~~ 356 (361)
+|.+|+++|+++|+|.|+.|+++|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47788888888888888888888864
No 18
>KOG3993|consensus
Probab=98.36 E-value=5.5e-08 Score=95.50 Aligned_cols=81 Identities=25% Similarity=0.472 Sum_probs=60.1
Q ss_pred ceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCC-------------------------
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGE------------------------- 286 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~ge------------------------- 286 (361)
-|.|..|-..|.+...|.+|.-.-.-..-|+|.+|++.|.-..+|..|++.|..+
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 3889999999999888888873322223488999999999999999998877421
Q ss_pred --------CCccccccccccCChhHHHHHHhhhc
Q psy8181 287 --------KPHECIYCQKRFSSTSNLKTHMRLHS 312 (361)
Q Consensus 287 --------kpf~C~~Cgk~F~s~s~L~~H~r~H~ 312 (361)
..|.|.+|+|.|.+...|+.|+-+|+
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 12677777777777777777766554
No 19
>KOG3993|consensus
Probab=98.27 E-value=1.1e-07 Score=93.33 Aligned_cols=82 Identities=27% Similarity=0.376 Sum_probs=65.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcC-------------------
Q psy8181 197 SPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNG------------------- 257 (361)
Q Consensus 197 s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~------------------- 257 (361)
.+.|..|...|.....|.+|......| ..|+|++|+|+|....+|..|.+.|--
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~-------vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~r 339 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVH-------VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETR 339 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEE-------eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhh
Confidence 456788888888888888887543322 249999999999999999999987731
Q ss_pred --------------CCceeCCcccccccchHHHHhhhhhccC
Q psy8181 258 --------------ERPFQCNICTKSFTQLAHLQKHHLVHTG 285 (361)
Q Consensus 258 --------------ek~~~C~~Cgk~F~~~~~L~~H~~~H~g 285 (361)
+..|.|.+|++.|.+...|+.|+.+|+.
T Consensus 340 ae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 340 AEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 1238999999999999999999888753
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=98.16 E-value=1.4e-06 Score=53.47 Aligned_cols=26 Identities=50% Similarity=1.119 Sum_probs=21.9
Q ss_pred HHHHHHhhhcCCCCeeCCCCCcccCC
Q psy8181 303 NLKTHMRLHSGQKPYHCEVCPARFTQ 328 (361)
Q Consensus 303 ~L~~H~r~H~gekpy~C~~Cgk~F~~ 328 (361)
+|.+|+++|+|+++|.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47888899999999999999988863
No 21
>PHA00616 hypothetical protein
Probab=98.05 E-value=2e-06 Score=59.20 Aligned_cols=34 Identities=15% Similarity=0.181 Sum_probs=27.5
Q ss_pred CeeCCCCCcccCChHHHHHHHHHhCCCCCcccCC
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKG 349 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~ 349 (361)
+|+|..||+.|...+.|.+|++.|++++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4778888888888888888888888888887753
No 22
>PHA00732 hypothetical protein
Probab=97.80 E-value=1.5e-05 Score=62.12 Aligned_cols=48 Identities=25% Similarity=0.404 Sum_probs=37.4
Q ss_pred CccccccccccCChhHHHHHHhh-hcCCCCeeCCCCCcccCChHHHHHHHHHhCC
Q psy8181 288 PHECIYCQKRFSSTSNLKTHMRL-HSGQKPYHCEVCPARFTQYVHLKLHKRLHTN 341 (361)
Q Consensus 288 pf~C~~Cgk~F~s~s~L~~H~r~-H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~ 341 (361)
+|.|..|++.|.+...|..|++. |.+ +.|..||+.|. .|..|.+.+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---ChhhhhcccCC
Confidence 47899999999999999999885 543 57999999987 47778765543
No 23
>PHA00732 hypothetical protein
Probab=97.70 E-value=2.7e-05 Score=60.80 Aligned_cols=47 Identities=30% Similarity=0.547 Sum_probs=36.7
Q ss_pred ceeCCcccccccchHHHHhhhhh-ccCCCCccccccccccCChhHHHHHHhhhc
Q psy8181 260 PFQCNICTKSFTQLAHLQKHHLV-HTGEKPHECIYCQKRFSSTSNLKTHMRLHS 312 (361)
Q Consensus 260 ~~~C~~Cgk~F~~~~~L~~H~~~-H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~ 312 (361)
+|.|..|++.|.....|..|++. |.+ +.|..|++.|. .+..|.+.+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---ChhhhhcccC
Confidence 47799999999999999999874 543 57999999987 4777876543
No 24
>PHA00616 hypothetical protein
Probab=97.65 E-value=2.2e-05 Score=54.02 Aligned_cols=33 Identities=18% Similarity=0.305 Sum_probs=22.0
Q ss_pred CccccccccccCChhHHHHHHhhhcCCCCeeCC
Q psy8181 288 PHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCE 320 (361)
Q Consensus 288 pf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~ 320 (361)
+|+|..||+.|...+.|..|++.|+|++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 356666666666666666666666666666654
No 25
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.39 E-value=8.1e-05 Score=71.23 Aligned_cols=48 Identities=40% Similarity=0.885 Sum_probs=38.6
Q ss_pred CCCeeCCC--CCcccCChHHHHHHHHHhC-------------------CCCCcccCCCCcccCCCCCCC
Q psy8181 314 QKPYHCEV--CPARFTQYVHLKLHKRLHT-------------------NERPYVCKGCNKRYISLSGLR 361 (361)
Q Consensus 314 ekpy~C~~--Cgk~F~~~s~L~~H~r~H~-------------------~eKpYkC~~CgK~F~~~s~Lr 361 (361)
+|+|+|++ |.|.|+....|+-|+..-| ++|||+|++|+|+|.+..+||
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLK 415 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLK 415 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccce
Confidence 47888875 8888888888888865422 358999999999999999886
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.33 E-value=0.00017 Score=42.44 Aligned_cols=23 Identities=39% Similarity=0.821 Sum_probs=18.1
Q ss_pred eeCCCCCcccCChHHHHHHHHHh
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLH 339 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H 339 (361)
|.|..|++.|.....|.+|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 57888888888888888887764
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.31 E-value=0.00037 Score=50.22 Aligned_cols=49 Identities=31% Similarity=0.444 Sum_probs=31.0
Q ss_pred ccccccccccCChhHHHHHHhhhcC--CCCeeCCCCCcccCChHHHHHHHHHhC
Q psy8181 289 HECIYCQKRFSSTSNLKTHMRLHSG--QKPYHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 289 f~C~~Cgk~F~s~s~L~~H~r~H~g--ekpy~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
|.|++|++ ..+...|..|....+. .+.+.|++|...+. .+|.+|+..++
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 67777777 3445667777665443 24577777776544 37777776655
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.15 E-value=0.00036 Score=55.39 Aligned_cols=23 Identities=26% Similarity=0.557 Sum_probs=12.4
Q ss_pred CeeCCCCCcccCChHHHHHHHHH
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~ 338 (361)
.+.|..|++.|.+...|..|++.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHHcC
Confidence 35555555555555555555554
No 29
>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=97.00 E-value=0.00067 Score=39.63 Aligned_cols=24 Identities=29% Similarity=0.733 Sum_probs=17.1
Q ss_pred eeCCCCCcccCChHHHHHHHHHhC
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
|.|..|++.|.+...|..|++.|+
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 578888888888888888887764
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.96 E-value=0.00041 Score=55.06 Aligned_cols=73 Identities=25% Similarity=0.452 Sum_probs=21.5
Q ss_pred ecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhh
Q psy8181 234 ECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLH 311 (361)
Q Consensus 234 ~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H 311 (361)
+|..|+..|.+...|..|+...|+...- ....+.....+..+.+.... ..+.|..|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~-~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVK-ESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc----cccccccccccccccccccC-CCCCCCccCCCCcCHHHHHHHHcCc
Confidence 5899999999999999999776653221 11122233334444433222 3589999999999999999999975
No 31
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.90 E-value=0.0012 Score=47.47 Aligned_cols=21 Identities=29% Similarity=0.393 Sum_probs=9.6
Q ss_pred eecCCCcccccChhhHHHHHhh
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRT 254 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~ 254 (361)
|.|+.|++. -+...|..|...
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~ 23 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCED 23 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHh
Confidence 445555552 233445555433
No 32
>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=96.88 E-value=0.0007 Score=39.74 Aligned_cols=23 Identities=52% Similarity=1.026 Sum_probs=16.4
Q ss_pred eecCCCcccccChhhHHHHHhhh
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTH 255 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H 255 (361)
|.|..|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56777777777777777777653
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.77 E-value=0.00087 Score=40.95 Aligned_cols=25 Identities=36% Similarity=0.837 Sum_probs=19.5
Q ss_pred CeeCCCCCcccCChHHHHHHHHHhC
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
+|.|..|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4778888888888888888887765
No 34
>PRK04860 hypothetical protein; Provisional
Probab=96.68 E-value=0.0012 Score=58.39 Aligned_cols=42 Identities=24% Similarity=0.642 Sum_probs=36.5
Q ss_pred CCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcccCCCCCC
Q psy8181 315 KPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRYISLSGL 360 (361)
Q Consensus 315 kpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~s~L 360 (361)
-+|.|. |++ ....+++|.++|+++++|+|..|++.|.....+
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~~~ 159 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKGEQ 159 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEeccc
Confidence 469998 987 777889999999999999999999999876554
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.55 E-value=0.0019 Score=37.61 Aligned_cols=24 Identities=42% Similarity=0.948 Sum_probs=15.6
Q ss_pred eecCCCcccccChhhHHHHHhhhc
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTHN 256 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H~ 256 (361)
|.|+.|++.|.+...|..|++.|+
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 567777777777777777776653
No 36
>KOG2231|consensus
Probab=96.48 E-value=0.0041 Score=65.79 Aligned_cols=99 Identities=25% Similarity=0.587 Sum_probs=63.8
Q ss_pred ccccChhhHHHHHhhhcCCCceeCCccc---------ccccchHHHHhhhhhccC-CC----CccccccccccCChhHHH
Q psy8181 240 KTFGQLSNLKVHLRTHNGERPFQCNICT---------KSFTQLAHLQKHHLVHTG-EK----PHECIYCQKRFSSTSNLK 305 (361)
Q Consensus 240 k~F~s~s~L~~H~~~H~~ek~~~C~~Cg---------k~F~~~~~L~~H~~~H~g-ek----pf~C~~Cgk~F~s~s~L~ 305 (361)
..|.....|+.|+...|.. +.|.+|- ...-....|..|+..-.. ++ .-.|.+|...|.....|.
T Consensus 122 ~~~~s~~~Lk~H~~~~H~~--~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~ 199 (669)
T KOG2231|consen 122 TEFKSVENLKNHMRDQHKL--HLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELY 199 (669)
T ss_pred cchhHHHHHHHHHHHhhhh--hccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHH
Confidence 3334677889998544432 4454442 223345667777754221 11 246899999999999999
Q ss_pred HHHhhhcCCCCeeCCCC------CcccCChHHHHHHHHHhCCCCCcccC
Q psy8181 306 THMRLHSGQKPYHCEVC------PARFTQYVHLKLHKRLHTNERPYVCK 348 (361)
Q Consensus 306 ~H~r~H~gekpy~C~~C------gk~F~~~s~L~~H~r~H~~eKpYkC~ 348 (361)
+|++.++ |.|..| +.-|.....|..|.|.+| |.|+
T Consensus 200 rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE 240 (669)
T KOG2231|consen 200 RHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCE 240 (669)
T ss_pred Hhhccce----eheeecCcccccchhcccchHHHHHhhhcC----cccc
Confidence 9988654 556666 344777888888887766 5555
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.42 E-value=0.0009 Score=64.22 Aligned_cols=25 Identities=44% Similarity=0.979 Sum_probs=22.1
Q ss_pred CCCCeeCCCCCcccCChHHHHHHHH
Q psy8181 313 GQKPYHCEVCPARFTQYVHLKLHKR 337 (361)
Q Consensus 313 gekpy~C~~Cgk~F~~~s~L~~H~r 337 (361)
.+|||+|++|+|.|+....|+-|..
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCCceeccccchhhccCccceeccc
Confidence 3689999999999999999998864
No 38
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.41 E-value=0.0019 Score=63.45 Aligned_cols=154 Identities=25% Similarity=0.404 Sum_probs=86.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCC--cceecC--CCcccccChhhHHHHHhhhcCCCceeCCc--cccc
Q psy8181 196 LSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGK--MHYECN--VCYKTFGQLSNLKVHLRTHNGERPFQCNI--CTKS 269 (361)
Q Consensus 196 ~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~--k~y~C~--~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~--Cgk~ 269 (361)
....|..|...|.....+.+|.+. ..|.++ +++.|. .|++.|.....+..|...|.+...+.|.. |...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~-----~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRS-----VNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSK 362 (467)
T ss_pred cCCCCccccCCccccccccccccc-----cccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccc
Confidence 345556666666666555555432 244555 566666 56666666666666666666555544433 2222
Q ss_pred ccchHHHHhh-----hhhccCCCCcccc--ccccccCChhHHHHHHhhhcCCC--CeeCCCCCcccCChHHHHHHHHHhC
Q psy8181 270 FTQLAHLQKH-----HLVHTGEKPHECI--YCQKRFSSTSNLKTHMRLHSGQK--PYHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 270 F~~~~~L~~H-----~~~H~gekpf~C~--~Cgk~F~s~s~L~~H~r~H~gek--py~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
+.....-..+ .........+.|. .|...+.+...+..|...|.... .+.|..|.+.|.....+..|++.|.
T Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 363 FSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442 (467)
T ss_pred cccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccc
Confidence 2222111000 0011111223332 25555556666666666555544 4667789999999999999999998
Q ss_pred CCCCcccCCCCccc
Q psy8181 341 NERPYVCKGCNKRY 354 (361)
Q Consensus 341 ~eKpYkC~~CgK~F 354 (361)
...++.|..++..+
T Consensus 443 ~~~~~~~~~~~~~~ 456 (467)
T COG5048 443 NHAPLLCSILKSFR 456 (467)
T ss_pred cCCceeeccccccc
Confidence 88888777665443
No 39
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.27 E-value=0.0035 Score=60.89 Aligned_cols=101 Identities=30% Similarity=0.620 Sum_probs=65.8
Q ss_pred ceecCC--CcccccChhhHHHHHhhhcCCCceeCCccc---cccc------chHHHHhhhhhccCCC----Ccccccccc
Q psy8181 232 HYECNV--CYKTFGQLSNLKVHLRTHNGERPFQCNICT---KSFT------QLAHLQKHHLVHTGEK----PHECIYCQK 296 (361)
Q Consensus 232 ~y~C~~--Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cg---k~F~------~~~~L~~H~~~H~gek----pf~C~~Cgk 296 (361)
.|.|+. |..+......|..|.+..|+. +.|.+|- +.|. +...|..|...-..+. .-.|.+|..
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccc
Confidence 378877 666666677899999877665 5677764 2232 3344556654322221 236999999
Q ss_pred ccCChhHHHHHHhhhcCCCCeeCCCCCcc-------cCChHHHHHHHHH
Q psy8181 297 RFSSTSNLKTHMRLHSGQKPYHCEVCPAR-------FTQYVHLKLHKRL 338 (361)
Q Consensus 297 ~F~s~s~L~~H~r~H~gekpy~C~~Cgk~-------F~~~s~L~~H~r~ 338 (361)
.|-+.+.|.+|+|..|. +|.+|.+. |....+|.+|.+.
T Consensus 229 ~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 229 YFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRN 273 (493)
T ss_pred eecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhc
Confidence 99999999999986553 45555433 6666667777554
No 40
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.16 E-value=0.0036 Score=38.12 Aligned_cols=25 Identities=48% Similarity=0.869 Sum_probs=17.5
Q ss_pred ceecCCCcccccChhhHHHHHhhhc
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHN 256 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~ 256 (361)
+|+|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 3667777777777777777776654
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.10 E-value=0.0058 Score=35.94 Aligned_cols=24 Identities=38% Similarity=0.600 Sum_probs=17.2
Q ss_pred eeCCCCCcccCChHHHHHHHHHhC
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 467777777777777777777654
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.95 E-value=0.0054 Score=43.46 Aligned_cols=33 Identities=24% Similarity=0.550 Sum_probs=21.5
Q ss_pred cCCCCeeCCCCCcccCChHHHHHHHHHhCCCCC
Q psy8181 312 SGQKPYHCEVCPARFTQYVHLKLHKRLHTNERP 344 (361)
Q Consensus 312 ~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKp 344 (361)
..+.+-.|++|+..+.+..+|++|+.++|+.|+
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 346778888888888888888888888777664
No 43
>KOG1146|consensus
Probab=95.85 E-value=0.0056 Score=68.38 Aligned_cols=130 Identities=21% Similarity=0.324 Sum_probs=79.0
Q ss_pred CCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHH
Q psy8181 228 DGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTH 307 (361)
Q Consensus 228 ~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H 307 (361)
...+.+.|+.|+..|.....|..||+..+-+-.- ..|.. +.....+.+-.-.-.+.++|.|..|...+.....|.+|
T Consensus 461 S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~-gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsih 537 (1406)
T KOG1146|consen 461 SFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKA-GQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIH 537 (1406)
T ss_pred cccccccCCccchhhhhHHHhhhcccccccccch--hHhHh-ccccccccccccccCCCCcccceeeeeeeecchHHHHH
Confidence 3447899999999999999999999874332111 22211 11111111111112234667788888888777777777
Q ss_pred Hhhhc------------C-------------------------------CCCeeCCCCCcccCChHHHHHHHHH-hCCCC
Q psy8181 308 MRLHS------------G-------------------------------QKPYHCEVCPARFTQYVHLKLHKRL-HTNER 343 (361)
Q Consensus 308 ~r~H~------------g-------------------------------ekpy~C~~Cgk~F~~~s~L~~H~r~-H~~eK 343 (361)
+.... | .-.|.|..|+..-.-...|+.|+.. ++-..
T Consensus 538 lqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 538 LQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSP 617 (1406)
T ss_pred HHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCC
Confidence 65310 0 1238899999888888888888765 33333
Q ss_pred CcccCCCCcccCCCCCC
Q psy8181 344 PYVCKGCNKRYISLSGL 360 (361)
Q Consensus 344 pYkC~~CgK~F~~~s~L 360 (361)
+.-|-.|+-.+.....|
T Consensus 618 p~~~Lq~~it~~l~~~~ 634 (1406)
T KOG1146|consen 618 PSLVLQQNITSSLASLL 634 (1406)
T ss_pred hHHHhhhcchhhccccc
Confidence 47777777666655443
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.26 E-value=0.0073 Score=59.29 Aligned_cols=130 Identities=28% Similarity=0.447 Sum_probs=95.1
Q ss_pred cceecCCCcccccChhhHHHHHh--hhcCC--CceeCC--cccccccchHHHHhhhhhccCCCCccccc--cccccCChh
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLR--THNGE--RPFQCN--ICTKSFTQLAHLQKHHLVHTGEKPHECIY--CQKRFSSTS 302 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~--~H~~e--k~~~C~--~Cgk~F~~~~~L~~H~~~H~gekpf~C~~--Cgk~F~s~s 302 (361)
..+.|..|...|.....|..|.+ .|.++ +++.|. .|++.|.+...+.+|...|.+...+.|.. |.+.+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 56899999999999999999999 89999 999999 79999999999999999999888777754 333332222
Q ss_pred H-----HHHHHhhhcCCCCeeCC--CCCcccCChHHHHHHHHHhCCCC--CcccCCCCcccCCCCCC
Q psy8181 303 N-----LKTHMRLHSGQKPYHCE--VCPARFTQYVHLKLHKRLHTNER--PYVCKGCNKRYISLSGL 360 (361)
Q Consensus 303 ~-----L~~H~r~H~gekpy~C~--~Cgk~F~~~s~L~~H~r~H~~eK--pYkC~~CgK~F~~~s~L 360 (361)
. .......-...+.+.|. .|-..+.....+..|...|...+ .+.|..|.+.|.....|
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 434 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNL 434 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccc
Confidence 1 11111112223344443 37777888888888888887666 46678899888776554
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.89 E-value=0.023 Score=33.27 Aligned_cols=23 Identities=52% Similarity=0.881 Sum_probs=16.2
Q ss_pred eecCCCcccccChhhHHHHHhhh
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTH 255 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H 255 (361)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45777777777777777777654
No 46
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=94.72 E-value=0.046 Score=38.82 Aligned_cols=33 Identities=24% Similarity=0.463 Sum_probs=20.5
Q ss_pred CCCcceecCCCcccccChhhHHHHHhhhcCCCc
Q psy8181 228 DGKMHYECNVCYKTFGQLSNLKVHLRTHNGERP 260 (361)
Q Consensus 228 ~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~ 260 (361)
..+.+..|++|+..+....+|++|+..+|+.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 345677888888888888888888877776554
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.71 E-value=0.021 Score=34.00 Aligned_cols=23 Identities=26% Similarity=0.667 Sum_probs=18.2
Q ss_pred eeCCCCCcccCChHHHHHHHHHh
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLH 339 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H 339 (361)
|.|..|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 57888888888888888887654
No 48
>PRK04860 hypothetical protein; Provisional
Probab=94.57 E-value=0.022 Score=50.34 Aligned_cols=38 Identities=26% Similarity=0.637 Sum_probs=33.2
Q ss_pred CccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCCh
Q psy8181 288 PHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQY 329 (361)
Q Consensus 288 pf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~ 329 (361)
+|.|. |++ ....+.+|.++|.++++|.|..|+..|...
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 58998 987 566789999999999999999999988654
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.23 E-value=0.039 Score=32.61 Aligned_cols=23 Identities=30% Similarity=0.571 Sum_probs=14.5
Q ss_pred eeCCCCCcccCChHHHHHHHHHhC
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
|+|..|..... ...|.+|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56777777776 667777776654
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=93.28 E-value=0.061 Score=31.92 Aligned_cols=22 Identities=36% Similarity=0.939 Sum_probs=14.8
Q ss_pred eecCCCcccccChhhHHHHHhh
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRT 254 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~ 254 (361)
|.|..|++.|.+...|..|++.
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 4577777777777777777654
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=93.19 E-value=0.07 Score=31.48 Aligned_cols=23 Identities=43% Similarity=0.777 Sum_probs=14.5
Q ss_pred eecCCCcccccChhhHHHHHhhhc
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTHN 256 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H~ 256 (361)
|+|..|+.... ...|.+|++.++
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 56777777766 667777776654
No 52
>KOG2231|consensus
Probab=93.01 E-value=0.047 Score=58.00 Aligned_cols=98 Identities=24% Similarity=0.565 Sum_probs=63.0
Q ss_pred cChhhHHHHHhhh-cCCCc----eeCCcccccccchHHHHhhhhhccCCCCccccccc------cccCChhHHHHHHhhh
Q psy8181 243 GQLSNLKVHLRTH-NGERP----FQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQ------KRFSSTSNLKTHMRLH 311 (361)
Q Consensus 243 ~s~s~L~~H~~~H-~~ek~----~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cg------k~F~s~s~L~~H~r~H 311 (361)
.+...|..|++.- .+++. -.|..|...|....+|.+|++.++ |.|.+|. ..|....+|..|-+.+
T Consensus 160 Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 160 YTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKG 235 (669)
T ss_pred ehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhc
Confidence 4456677777542 11221 468999999999999999998765 5666663 4577788899998876
Q ss_pred cCCCCeeCC--CCC-cccCC----hHHHHHHHHHhCCCCCcccC
Q psy8181 312 SGQKPYHCE--VCP-ARFTQ----YVHLKLHKRLHTNERPYVCK 348 (361)
Q Consensus 312 ~gekpy~C~--~Cg-k~F~~----~s~L~~H~r~H~~eKpYkC~ 348 (361)
| |.|. .|. +.|.. ...|++|-+.+.-++.|.|.
T Consensus 236 H----flCE~~~C~~~~f~~~~~~ei~lk~~~~~~~~e~~~~~~ 275 (669)
T KOG2231|consen 236 H----FLCEEEFCRTKKFYVAFELEIELKAHNRFIQHEKCYICR 275 (669)
T ss_pred C----ccccccccccceeeehhHHHHHHHhhccccchheeccCC
Confidence 5 5666 453 33333 34444444444446666663
No 53
>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=92.70 E-value=0.032 Score=34.08 Aligned_cols=22 Identities=27% Similarity=0.630 Sum_probs=16.1
Q ss_pred eeCCCCCcccCChHHHHHHHHH
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~ 338 (361)
|.|..|++.|.+...|..|++.
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 5677777777777777777654
No 54
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.04 E-value=0.077 Score=51.83 Aligned_cols=86 Identities=29% Similarity=0.496 Sum_probs=58.2
Q ss_pred eeCCc--ccccccchHHHHhhhhhccCCCCccccccc---ccc------CChhHHHHHHhhhcCCC----CeeCCCCCcc
Q psy8181 261 FQCNI--CTKSFTQLAHLQKHHLVHTGEKPHECIYCQ---KRF------SSTSNLKTHMRLHSGQK----PYHCEVCPAR 325 (361)
Q Consensus 261 ~~C~~--Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cg---k~F------~s~s~L~~H~r~H~gek----py~C~~Cgk~ 325 (361)
|.|+. |.........|..|.+..++. +.|..|- +.| .+...|..|...-..+. .-.|..|...
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 77865 666666677889999877653 5777763 233 34456666665443332 2359999999
Q ss_pred cCChHHHHHHHHHhCCCCCcccCCCCc
Q psy8181 326 FTQYVHLKLHKRLHTNERPYVCKGCNK 352 (361)
Q Consensus 326 F~~~s~L~~H~r~H~~eKpYkC~~CgK 352 (361)
|.....|.+|+|.-| | +|.+|++
T Consensus 230 FYdDDEL~~HcR~~H-E---~ChICD~ 252 (493)
T COG5236 230 FYDDDELRRHCRLRH-E---ACHICDM 252 (493)
T ss_pred ecChHHHHHHHHhhh-h---hhhhhhc
Confidence 999999999998754 3 4555554
No 55
>KOG2785|consensus
Probab=91.81 E-value=0.35 Score=47.95 Aligned_cols=51 Identities=25% Similarity=0.542 Sum_probs=42.5
Q ss_pred CccccccccccCChhHHHHHHhhhcCC-----------------------CCeeCCCCC---cccCChHHHHHHHHH
Q psy8181 288 PHECIYCQKRFSSTSNLKTHMRLHSGQ-----------------------KPYHCEVCP---ARFTQYVHLKLHKRL 338 (361)
Q Consensus 288 pf~C~~Cgk~F~s~s~L~~H~r~H~ge-----------------------kpy~C~~Cg---k~F~~~s~L~~H~r~ 338 (361)
|-.|.+|++.+.....-..||..+||- .-+.|..|. +.|.+....+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 357899999999999999999988872 347788888 889999999999865
No 56
>KOG2482|consensus
Probab=91.22 E-value=0.28 Score=47.96 Aligned_cols=21 Identities=29% Similarity=0.608 Sum_probs=13.9
Q ss_pred eeCCcccccccchHHHHhhhh
Q psy8181 261 FQCNICTKSFTQLAHLQKHHL 281 (361)
Q Consensus 261 ~~C~~Cgk~F~~~~~L~~H~~ 281 (361)
+.|-.|.+.|..+..|..||+
T Consensus 196 ~~CLyCekifrdkntLkeHMr 216 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMR 216 (423)
T ss_pred heeeeeccccCCcHHHHHHHH
Confidence 566666666666666666665
No 57
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.92 E-value=0.42 Score=39.69 Aligned_cols=54 Identities=28% Similarity=0.568 Sum_probs=35.1
Q ss_pred cccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCC
Q psy8181 290 ECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCN 351 (361)
Q Consensus 290 ~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~Cg 351 (361)
.|.-|.+.|....... ...-.....|+|..|...|-..-+...|...| .|+.|.
T Consensus 57 ~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh------~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNVFCVDCDVFVHESLH------CCPGCI 110 (112)
T ss_pred cccCcCCCCCCccccc--ccccccccceeCCCCCCccccccchhhhhhcc------CCcCCC
Confidence 4888888886542111 00012234688999999998888888886655 477775
No 58
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=90.62 E-value=0.12 Score=31.54 Aligned_cols=21 Identities=33% Similarity=0.790 Sum_probs=11.7
Q ss_pred eecCCCcccccChhhHHHHHh
Q psy8181 233 YECNVCYKTFGQLSNLKVHLR 253 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~ 253 (361)
|.|..|++.|.+...|..|++
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 59
>KOG2893|consensus
Probab=90.25 E-value=0.087 Score=49.03 Aligned_cols=41 Identities=29% Similarity=0.605 Sum_probs=19.9
Q ss_pred CCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHH
Q psy8181 263 CNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTH 307 (361)
Q Consensus 263 C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H 307 (361)
|-.|.+.|.++.-|.+|++. +.|+|.+|.|.+.+--.|..|
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 55555555555555555443 335555555444333333333
No 60
>KOG4173|consensus
Probab=89.66 E-value=0.14 Score=46.68 Aligned_cols=73 Identities=27% Similarity=0.629 Sum_probs=36.8
Q ss_pred eeCCc--ccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhhc----------CCCCeeCC--CCCccc
Q psy8181 261 FQCNI--CTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHS----------GQKPYHCE--VCPARF 326 (361)
Q Consensus 261 ~~C~~--Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~----------gekpy~C~--~Cgk~F 326 (361)
|.|.+ |...|.....+..|+.+.++. .|.+|.+.|.+...|..|+...| |...|.|- .|+..|
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 44544 444455555555555443332 45555555555555555544322 23345553 366666
Q ss_pred CChHHHHHHH
Q psy8181 327 TQYVHLKLHK 336 (361)
Q Consensus 327 ~~~s~L~~H~ 336 (361)
.+...-+.|+
T Consensus 157 kT~r~RkdH~ 166 (253)
T KOG4173|consen 157 KTSRDRKDHM 166 (253)
T ss_pred hhhhhhhhHH
Confidence 6666666664
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=87.41 E-value=0.54 Score=28.34 Aligned_cols=20 Identities=25% Similarity=0.654 Sum_probs=13.1
Q ss_pred eeCCCCCcccCChHHHHHHHH
Q psy8181 317 YHCEVCPARFTQYVHLKLHKR 337 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r 337 (361)
..|..||+.| ....|.+|++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3577777777 5566667754
No 62
>KOG1146|consensus
Probab=86.39 E-value=0.18 Score=56.87 Aligned_cols=20 Identities=25% Similarity=0.521 Sum_probs=12.7
Q ss_pred CCCCCcccCChHHHHHHHHH
Q psy8181 319 CEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 319 C~~Cgk~F~~~s~L~~H~r~ 338 (361)
|..|...|.....|..|+++
T Consensus 1331 c~~c~~~~~~~~alqihm~~ 1350 (1406)
T KOG1146|consen 1331 CLACEVLLSGREALQIHMRS 1350 (1406)
T ss_pred chHHHhhcchhHHHHHHHHH
Confidence 66666666666666666655
No 63
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=86.02 E-value=0.66 Score=29.57 Aligned_cols=23 Identities=22% Similarity=0.593 Sum_probs=19.0
Q ss_pred CeeCCCCCcccCChHHHHHHHHH
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~ 338 (361)
.|.|..|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47899999999988888888754
No 64
>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=84.67 E-value=1.6 Score=35.68 Aligned_cols=25 Identities=20% Similarity=0.340 Sum_probs=23.2
Q ss_pred eeC----CCCCcccCChHHHHHHHHHhCC
Q psy8181 317 YHC----EVCPARFTQYVHLKLHKRLHTN 341 (361)
Q Consensus 317 y~C----~~Cgk~F~~~s~L~~H~r~H~~ 341 (361)
|.| ..|+..+.+...+++|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999998875
No 65
>KOG2893|consensus
Probab=83.91 E-value=0.37 Score=44.93 Aligned_cols=47 Identities=26% Similarity=0.552 Sum_probs=36.6
Q ss_pred CcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhh
Q psy8181 230 KMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHL 281 (361)
Q Consensus 230 ~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~ 281 (361)
.+++ |=.|++.|.+...|.+|++..| |+|.+|.+...+--.|..|..
T Consensus 9 ~kpw-cwycnrefddekiliqhqkakh----fkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceeehh
Confidence 3444 6689999999999999987655 999999987766666666643
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=83.67 E-value=0.74 Score=29.59 Aligned_cols=10 Identities=40% Similarity=1.119 Sum_probs=5.4
Q ss_pred CCcccCCCCc
Q psy8181 343 RPYVCKGCNK 352 (361)
Q Consensus 343 KpYkC~~CgK 352 (361)
.+..|++||-
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4455666553
No 67
>KOG2186|consensus
Probab=83.63 E-value=0.52 Score=44.34 Aligned_cols=50 Identities=28% Similarity=0.581 Sum_probs=29.3
Q ss_pred eeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhhcC
Q psy8181 261 FQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSG 313 (361)
Q Consensus 261 ~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~g 313 (361)
|.|..||....- -.+.+|+...++ .-|.|..|++.|.+ ..+..|..--+.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcch
Confidence 667777765442 335556665555 34677777777766 455556554443
No 68
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=83.56 E-value=0.56 Score=33.97 Aligned_cols=33 Identities=21% Similarity=0.507 Sum_probs=26.9
Q ss_pred cccCCCcceecCCCcccccChhhHHHHHhhhcC
Q psy8181 225 KKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNG 257 (361)
Q Consensus 225 k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ 257 (361)
...+|+.-+.|+-||..|....++.+|....|+
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 456788889999999999999999999876544
No 69
>KOG2482|consensus
Probab=82.13 E-value=1.2 Score=43.77 Aligned_cols=108 Identities=23% Similarity=0.416 Sum_probs=69.2
Q ss_pred ceecCCCcccccChhhHHHHHhhhcCCC--c--------eeCC--cccccccch-HHHHhhhhhcc-------------C
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHNGER--P--------FQCN--ICTKSFTQL-AHLQKHHLVHT-------------G 285 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~~ek--~--------~~C~--~Cgk~F~~~-~~L~~H~~~H~-------------g 285 (361)
.++|-.|.+.|..+..|+.||+.....+ | |.-. .-|++.... ..+.+-...-. +
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~ 274 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDD 274 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCC
Confidence 4889999999999999999997543221 1 2211 122222111 11110001000 1
Q ss_pred CCC--ccccccccccCChhHHHHHHhhhcC---------------------------CCCeeCCCCCcccCChHHHHHHH
Q psy8181 286 EKP--HECIYCQKRFSSTSNLKTHMRLHSG---------------------------QKPYHCEVCPARFTQYVHLKLHK 336 (361)
Q Consensus 286 ekp--f~C~~Cgk~F~s~s~L~~H~r~H~g---------------------------ekpy~C~~Cgk~F~~~s~L~~H~ 336 (361)
..+ .+|.+|.........|..||+.-|. .+.-.|..|.-.|-....|..|+
T Consensus 275 a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm 354 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHM 354 (423)
T ss_pred CCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhc
Confidence 112 5899999999989999999986442 13356889999999999999998
Q ss_pred HHh
Q psy8181 337 RLH 339 (361)
Q Consensus 337 r~H 339 (361)
.-+
T Consensus 355 ~e~ 357 (423)
T KOG2482|consen 355 VED 357 (423)
T ss_pred ccc
Confidence 543
No 70
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=81.65 E-value=1.1 Score=28.47 Aligned_cols=23 Identities=26% Similarity=0.635 Sum_probs=17.6
Q ss_pred ceecCCCcccccChhhHHHHHhh
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRT 254 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~ 254 (361)
.|.|..|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46788888888888888777753
No 71
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=80.80 E-value=1.1 Score=36.95 Aligned_cols=14 Identities=29% Similarity=0.774 Sum_probs=6.9
Q ss_pred CCeeCCCCCcccCC
Q psy8181 315 KPYHCEVCPARFTQ 328 (361)
Q Consensus 315 kpy~C~~Cgk~F~~ 328 (361)
.|..|+.||..|.-
T Consensus 25 ~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 25 DPIVCPKCGTEFPP 38 (108)
T ss_pred CCccCCCCCCccCc
Confidence 44455555555443
No 72
>KOG4173|consensus
Probab=76.33 E-value=1.1 Score=40.89 Aligned_cols=78 Identities=27% Similarity=0.608 Sum_probs=59.7
Q ss_pred cceecCC--CcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhcc----------CCCCcccc--cccc
Q psy8181 231 MHYECNV--CYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHT----------GEKPHECI--YCQK 296 (361)
Q Consensus 231 k~y~C~~--Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~----------gekpf~C~--~Cgk 296 (361)
..+-|+. |...|....++..|-.+-|+ ..|.+|.+.|.....|..|+...+ |...|+|. .|+.
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 4467877 88888888888888765554 369999999999999999986433 44568885 4999
Q ss_pred ccCChhHHHHHHhhh
Q psy8181 297 RFSSTSNLKTHMRLH 311 (361)
Q Consensus 297 ~F~s~s~L~~H~r~H 311 (361)
.|.....-..|+-..
T Consensus 155 KFkT~r~RkdH~I~~ 169 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRM 169 (253)
T ss_pred hhhhhhhhhhHHHHh
Confidence 999988888887553
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=76.00 E-value=1.4 Score=31.99 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=15.0
Q ss_pred cCCCCeeCCCCCcccCChHHHHHHHHH
Q psy8181 312 SGQKPYHCEVCPARFTQYVHLKLHKRL 338 (361)
Q Consensus 312 ~gekpy~C~~Cgk~F~~~s~L~~H~r~ 338 (361)
.||..++|+-||..|....++.+|...
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 344555566666666665555555543
No 74
>KOG2186|consensus
Probab=75.67 E-value=1.2 Score=41.88 Aligned_cols=50 Identities=24% Similarity=0.533 Sum_probs=35.6
Q ss_pred ceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhcc
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHT 284 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~ 284 (361)
.|.|..||...... .+.+|+-..++ .-|.|-.|+..|.+ .....|..-.+
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcc
Confidence 47889999886644 56678866656 55888889998887 55666765433
No 75
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=74.87 E-value=2 Score=46.71 Aligned_cols=10 Identities=30% Similarity=0.790 Sum_probs=4.9
Q ss_pred CCeeCCCCCc
Q psy8181 315 KPYHCEVCPA 324 (361)
Q Consensus 315 kpy~C~~Cgk 324 (361)
.+..|+.||.
T Consensus 474 ~p~~Cp~Cgs 483 (730)
T COG1198 474 IPQSCPECGS 483 (730)
T ss_pred CCCCCCCCCC
Confidence 4445555553
No 76
>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=72.04 E-value=4.3 Score=35.71 Aligned_cols=34 Identities=18% Similarity=0.378 Sum_probs=22.2
Q ss_pred cCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCccc
Q psy8181 312 SGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRY 354 (361)
Q Consensus 312 ~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F 354 (361)
.+..-|.|+.|+..|.....+. .-|.|+.||...
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 3445577777777777766664 247777777553
No 77
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=72.04 E-value=5.4 Score=32.54 Aligned_cols=83 Identities=17% Similarity=0.201 Sum_probs=46.8
Q ss_pred CcceecCCCcccccChhhHHHHHhhhcCCC-ceeCCcccccccchHHHHhh---hhh-cc---------CCCCccc----
Q psy8181 230 KMHYECNVCYKTFGQLSNLKVHLRTHNGER-PFQCNICTKSFTQLAHLQKH---HLV-HT---------GEKPHEC---- 291 (361)
Q Consensus 230 ~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek-~~~C~~Cgk~F~~~~~L~~H---~~~-H~---------gekpf~C---- 291 (361)
-+...|..|+..... +.+..|++..+... ......-...+.....|... +.. .. ....|.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 356789999988765 78899998544321 11000000000000000000 000 00 0133899
Q ss_pred cccccccCChhHHHHHHhhhcC
Q psy8181 292 IYCQKRFSSTSNLKTHMRLHSG 313 (361)
Q Consensus 292 ~~Cgk~F~s~s~L~~H~r~H~g 313 (361)
..|+..+.+...+.+|++.+||
T Consensus 88 ~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999998875
No 78
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=71.10 E-value=2.7 Score=27.22 Aligned_cols=10 Identities=30% Similarity=0.723 Sum_probs=5.8
Q ss_pred eeCCCCCccc
Q psy8181 317 YHCEVCPARF 326 (361)
Q Consensus 317 y~C~~Cgk~F 326 (361)
|.|..||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 5566666544
No 79
>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=70.48 E-value=3 Score=35.38 Aligned_cols=30 Identities=13% Similarity=0.227 Sum_probs=17.7
Q ss_pred ccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCCh
Q psy8181 289 HECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQY 329 (361)
Q Consensus 289 f~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~ 329 (361)
..|..||+.|-. .+..|..|+.||..|.-.
T Consensus 10 r~Cp~cg~kFYD-----------Lnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYD-----------LNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccc-----------cCCCCccCCCcCCccCcc
Confidence 467777766643 123566677777666444
No 80
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=69.82 E-value=2.9 Score=27.38 Aligned_cols=33 Identities=18% Similarity=0.399 Sum_probs=15.6
Q ss_pred eeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCccc
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRY 354 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F 354 (361)
+.|+.|+..|.-..... .......+|..|+..|
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEECCCCCCEE
Confidence 45666666555443321 1111235566666555
No 81
>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=69.47 E-value=1.4 Score=30.95 Aligned_cols=11 Identities=45% Similarity=1.229 Sum_probs=5.5
Q ss_pred eeCCCCCcccC
Q psy8181 317 YHCEVCPARFT 327 (361)
Q Consensus 317 y~C~~Cgk~F~ 327 (361)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44555555444
No 82
>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=69.39 E-value=3.7 Score=33.92 Aligned_cols=30 Identities=27% Similarity=0.606 Sum_probs=19.4
Q ss_pred eecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccch
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQL 273 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~ 273 (361)
..|+.||+.|... ++.+..|+.||..|.-.
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 3577788777643 23556777777776554
No 83
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=68.75 E-value=4.6 Score=36.31 Aligned_cols=32 Identities=22% Similarity=0.521 Sum_probs=19.2
Q ss_pred CCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCccc
Q psy8181 314 QKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRY 354 (361)
Q Consensus 314 ekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F 354 (361)
..-|.|+.|+..|.....+. .-|.|+.||...
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 34566777776666655542 246777776543
No 84
>KOG2807|consensus
Probab=68.38 E-value=7.9 Score=37.93 Aligned_cols=88 Identities=28% Similarity=0.582 Sum_probs=53.6
Q ss_pred cceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCc------------ccccccccc
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPH------------ECIYCQKRF 298 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf------------~C~~Cgk~F 298 (361)
..|.|+.|....- .-+..|+.|+........|.+-.+---.-++| .|..|+..
T Consensus 275 ~Gy~CP~CkakvC--------------sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~- 339 (378)
T KOG2807|consen 275 GGYFCPQCKAKVC--------------SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE- 339 (378)
T ss_pred CceeCCcccCeee--------------cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc-
Confidence 4588888876532 23467888887777766666544321111111 26666211
Q ss_pred CChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCC
Q psy8181 299 SSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCN 351 (361)
Q Consensus 299 ~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~Cg 351 (361)
-.+...|.|..|...|--.-+...|...| .|+.|.
T Consensus 340 ------------~~~~~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 340 ------------LLSSGRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred ------------cCCCCcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 12234588999988888888877786665 576665
No 85
>PHA00626 hypothetical protein
Probab=68.23 E-value=1.8 Score=31.39 Aligned_cols=14 Identities=21% Similarity=0.422 Sum_probs=8.5
Q ss_pred CCeeCCCCCcccCC
Q psy8181 315 KPYHCEVCPARFTQ 328 (361)
Q Consensus 315 kpy~C~~Cgk~F~~ 328 (361)
..|+|..||..|..
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 44666666666643
No 86
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=67.71 E-value=4 Score=44.46 Aligned_cols=40 Identities=25% Similarity=0.673 Sum_probs=27.4
Q ss_pred ccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcc
Q psy8181 289 HECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKR 353 (361)
Q Consensus 289 f~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~ 353 (361)
++|..|+..+. .|...+..+|..||+. ...+..|+.||-.
T Consensus 445 ~~Cp~Cd~~lt----------~H~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 445 AECPNCDSPLT----------LHKATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred ccCCCCCcceE----------EecCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 46777765432 3444566889888853 4578999999954
No 87
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.14 E-value=8.8 Score=33.21 Aligned_cols=38 Identities=21% Similarity=0.590 Sum_probs=21.2
Q ss_pred CCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCccc
Q psy8181 313 GQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRY 354 (361)
Q Consensus 313 gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F 354 (361)
+..-|.|+.|+..|.....+.. .. ....|.|+.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEE
Confidence 3455777777777765433321 01 13337777777654
No 88
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=67.01 E-value=1.8 Score=40.00 Aligned_cols=22 Identities=23% Similarity=0.345 Sum_probs=14.6
Q ss_pred cceecCCCcccccChhhHHHHH
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHL 252 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~ 252 (361)
+.+.|++|++.|..........
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCc
Confidence 4567888888887765544433
No 89
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.50 E-value=8.1 Score=32.14 Aligned_cols=82 Identities=22% Similarity=0.333 Sum_probs=48.4
Q ss_pred ceecCCCcccccChhhHHHHHhhhc-------CC-------CceeCCcccccccchHHHHhhhhhccCCCCccccccccc
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHN-------GE-------RPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKR 297 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~-------~e-------k~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~ 297 (361)
+..|+.||-..-...+|.+- .|| .+ ..-.|--|...|........ ........|+|..|...
T Consensus 15 P~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 15 PVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCcCCcCCCEEeccchHHHh--hhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCCCc
Confidence 45677787776666565542 111 01 11237777777764421110 00222346899999999
Q ss_pred cCChhHHHHHHhhhcCCCCeeCCCCC
Q psy8181 298 FSSTSNLKTHMRLHSGQKPYHCEVCP 323 (361)
Q Consensus 298 F~s~s~L~~H~r~H~gekpy~C~~Cg 323 (361)
|-..-++..|...| .|+.|.
T Consensus 91 FC~dCD~fiHe~Lh------~CPGC~ 110 (112)
T TIGR00622 91 FCVDCDVFVHESLH------CCPGCI 110 (112)
T ss_pred cccccchhhhhhcc------CCcCCC
Confidence 99888888887766 477665
No 90
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=66.21 E-value=4.3 Score=27.96 Aligned_cols=11 Identities=18% Similarity=0.307 Sum_probs=5.1
Q ss_pred ccccccccccC
Q psy8181 289 HECIYCQKRFS 299 (361)
Q Consensus 289 f~C~~Cgk~F~ 299 (361)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44555554443
No 91
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=65.11 E-value=1.9 Score=28.50 Aligned_cols=11 Identities=45% Similarity=1.102 Sum_probs=6.5
Q ss_pred eeCCCCCcccC
Q psy8181 317 YHCEVCPARFT 327 (361)
Q Consensus 317 y~C~~Cgk~F~ 327 (361)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 55666666554
No 92
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=64.97 E-value=4.6 Score=26.62 Aligned_cols=9 Identities=22% Similarity=0.637 Sum_probs=3.5
Q ss_pred cccCCCCcc
Q psy8181 345 YVCKGCNKR 353 (361)
Q Consensus 345 YkC~~CgK~ 353 (361)
.+|..|+..
T Consensus 26 vrC~~C~~~ 34 (37)
T PF13719_consen 26 VRCPKCGHV 34 (37)
T ss_pred EECCCCCcE
Confidence 334444333
No 93
>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=64.66 E-value=3.8 Score=25.01 Aligned_cols=9 Identities=22% Similarity=0.896 Sum_probs=5.2
Q ss_pred ccCCCCccc
Q psy8181 346 VCKGCNKRY 354 (361)
Q Consensus 346 kC~~CgK~F 354 (361)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 455566555
No 94
>PRK04023 DNA polymerase II large subunit; Validated
Probab=63.65 E-value=6.5 Score=43.97 Aligned_cols=36 Identities=22% Similarity=0.395 Sum_probs=21.6
Q ss_pred cceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccc
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKR 297 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~ 297 (361)
....|+.||... ..+.|+.||.. .+..+.|..|+..
T Consensus 625 g~RfCpsCG~~t----------------~~frCP~CG~~---------------Te~i~fCP~CG~~ 660 (1121)
T PRK04023 625 GRRKCPSCGKET----------------FYRRCPFCGTH---------------TEPVYRCPRCGIE 660 (1121)
T ss_pred cCccCCCCCCcC----------------CcccCCCCCCC---------------CCcceeCccccCc
Confidence 345688888752 22678888754 2234677777543
No 95
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.19 E-value=5.1 Score=26.28 Aligned_cols=9 Identities=22% Similarity=0.663 Sum_probs=3.6
Q ss_pred cccCCCCcc
Q psy8181 345 YVCKGCNKR 353 (361)
Q Consensus 345 YkC~~CgK~ 353 (361)
.+|..|+..
T Consensus 26 v~C~~C~~~ 34 (36)
T PF13717_consen 26 VRCSKCGHV 34 (36)
T ss_pred EECCCCCCE
Confidence 334444433
No 96
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=61.76 E-value=1.6 Score=40.36 Aligned_cols=13 Identities=15% Similarity=0.327 Sum_probs=9.4
Q ss_pred eeCCCCCcccCCh
Q psy8181 317 YHCEVCPARFTQY 329 (361)
Q Consensus 317 y~C~~Cgk~F~~~ 329 (361)
..|+.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5688888876643
No 97
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=60.47 E-value=8.6 Score=28.27 Aligned_cols=9 Identities=44% Similarity=1.309 Sum_probs=5.4
Q ss_pred CCcccCCCC
Q psy8181 343 RPYVCKGCN 351 (361)
Q Consensus 343 KpYkC~~Cg 351 (361)
.+|+|+.||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 456666665
No 98
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=60.28 E-value=7.2 Score=36.78 Aligned_cols=57 Identities=18% Similarity=0.457 Sum_probs=26.4
Q ss_pred cceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCC
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSS 300 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s 300 (361)
+.|-|..|...+-. +.-..+..-.|..|.+.|.--- .....|..-|.|..|+..|..
T Consensus 111 rqFaC~~Cd~~WwR--------rvp~rKeVSRCr~C~~rYDPVP-----~dkmwG~aef~C~~C~h~F~G 167 (278)
T PF15135_consen 111 RQFACSSCDHMWWR--------RVPQRKEVSRCRKCRKRYDPVP-----CDKMWGIAEFHCPKCRHNFRG 167 (278)
T ss_pred eeeeccccchHHHh--------ccCcccccccccccccccCCCc-----cccccceeeeecccccccchh
Confidence 55666666554321 1112222345666655543211 111233344677777776653
No 99
>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=59.35 E-value=6.2 Score=33.82 Aligned_cols=22 Identities=32% Similarity=0.570 Sum_probs=9.0
Q ss_pred eeCCCCCcccCChHHHHHHHHHhCC
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHTN 341 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~~ 341 (361)
..|-+||+.|... ++|++.|+|
T Consensus 73 i~clecGk~~k~L---krHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT-
T ss_pred eEEccCCcccchH---HHHHHHccC
Confidence 4455555555432 555555544
No 100
>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=59.23 E-value=3.2 Score=28.10 Aligned_cols=29 Identities=28% Similarity=0.764 Sum_probs=14.2
Q ss_pred eeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCc
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNK 352 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK 352 (361)
|+|..||..|..... +.. ...-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~------~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQS------ISE-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEE------cCC-CCCCcCCCCCC
Confidence 556666655543221 111 34455666664
No 101
>KOG2785|consensus
Probab=58.96 E-value=9.3 Score=38.16 Aligned_cols=75 Identities=24% Similarity=0.307 Sum_probs=50.3
Q ss_pred cceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccc---cccCChhHHHHH
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQ---KRFSSTSNLKTH 307 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cg---k~F~s~s~L~~H 307 (361)
.+-.|-.|++.|.+...-..||..+|+-.. +.-.. ......|..-+....+ .-|.|.+|. +.|.+....+.|
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffI---PdreY-L~D~~GLl~YLgeKV~-~~~~CL~CN~~~~~f~sleavr~H 239 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFI---PDREY-LTDEKGLLKYLGEKVG-IGFICLFCNELGRPFSSLEAVRAH 239 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcC---CchHh-hhchhHHHHHHHHHhc-cCceEEEeccccCcccccHHHHHH
Confidence 456788999999999888999988877321 11110 1223334433333333 348899998 999999999999
Q ss_pred Hhh
Q psy8181 308 MRL 310 (361)
Q Consensus 308 ~r~ 310 (361)
|..
T Consensus 240 M~~ 242 (390)
T KOG2785|consen 240 MRD 242 (390)
T ss_pred Hhh
Confidence 974
No 102
>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=58.72 E-value=10 Score=25.55 Aligned_cols=24 Identities=25% Similarity=0.430 Sum_probs=11.4
Q ss_pred CCCeeCCCCCcccCCh----HHHHHHHH
Q psy8181 314 QKPYHCEVCPARFTQY----VHLKLHKR 337 (361)
Q Consensus 314 ekpy~C~~Cgk~F~~~----s~L~~H~r 337 (361)
+...+|..|++.+... +.|.+|++
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 3445666666665553 56666663
No 103
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=57.67 E-value=5.7 Score=28.10 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=5.0
Q ss_pred eeCCCCCccc
Q psy8181 317 YHCEVCPARF 326 (361)
Q Consensus 317 y~C~~Cgk~F 326 (361)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4555555544
No 104
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=57.65 E-value=2.6 Score=32.31 Aligned_cols=15 Identities=27% Similarity=0.707 Sum_probs=7.6
Q ss_pred CCCeeCC--CCCcccCC
Q psy8181 314 QKPYHCE--VCPARFTQ 328 (361)
Q Consensus 314 ekpy~C~--~Cgk~F~~ 328 (361)
+..+.|. .||..|..
T Consensus 25 ~~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 25 ERYHQCQNVNCSATFIT 41 (72)
T ss_pred eeeeecCCCCCCCEEEE
Confidence 3445555 55555544
No 105
>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=57.30 E-value=11 Score=33.04 Aligned_cols=32 Identities=19% Similarity=0.282 Sum_probs=19.0
Q ss_pred CCceeCCcccccccchHHHHhhhhhccCCCCcccccccccc
Q psy8181 258 ERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRF 298 (361)
Q Consensus 258 ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F 298 (361)
..-|.|+.|+..|.....+. .-|.|..||...
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 34466777776666665553 136666666543
No 106
>PRK04023 DNA polymerase II large subunit; Validated
Probab=56.55 E-value=9.9 Score=42.58 Aligned_cols=9 Identities=22% Similarity=0.615 Sum_probs=5.8
Q ss_pred eecCCCccc
Q psy8181 233 YECNVCYKT 241 (361)
Q Consensus 233 y~C~~Cgk~ 241 (361)
+.|+.||..
T Consensus 639 frCP~CG~~ 647 (1121)
T PRK04023 639 RRCPFCGTH 647 (1121)
T ss_pred ccCCCCCCC
Confidence 567777664
No 107
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=56.03 E-value=9 Score=28.15 Aligned_cols=9 Identities=44% Similarity=1.383 Sum_probs=5.8
Q ss_pred CCcccCCCC
Q psy8181 343 RPYVCKGCN 351 (361)
Q Consensus 343 KpYkC~~Cg 351 (361)
.+|+|+.||
T Consensus 47 ~~Y~CP~CG 55 (59)
T PRK14890 47 NPYTCPKCG 55 (59)
T ss_pred CceECCCCC
Confidence 456676666
No 108
>PRK14873 primosome assembly protein PriA; Provisional
Probab=56.02 E-value=7.7 Score=41.99 Aligned_cols=9 Identities=22% Similarity=0.888 Sum_probs=4.9
Q ss_pred CeeCCCCCc
Q psy8181 316 PYHCEVCPA 324 (361)
Q Consensus 316 py~C~~Cgk 324 (361)
++.|+.||.
T Consensus 422 p~~Cp~Cgs 430 (665)
T PRK14873 422 DWRCPRCGS 430 (665)
T ss_pred CccCCCCcC
Confidence 345666654
No 109
>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=56.02 E-value=4.1 Score=37.76 Aligned_cols=25 Identities=16% Similarity=0.342 Sum_probs=11.6
Q ss_pred CeeCCCCCcccCChHHHHHHHHHhC
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
.|.|..|+|.|.-..-+++|+...|
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred EECCCCCCcccCChHHHHHHHhhcC
Confidence 3555555555555555555554433
No 110
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=56.00 E-value=9.9 Score=26.53 Aligned_cols=21 Identities=24% Similarity=0.613 Sum_probs=12.2
Q ss_pred eeCCCCCcccCCh-----HHHHHHHH
Q psy8181 317 YHCEVCPARFTQY-----VHLKLHKR 337 (361)
Q Consensus 317 y~C~~Cgk~F~~~-----s~L~~H~r 337 (361)
-.|..|++.+... +.|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4566666655443 46666665
No 111
>KOG4124|consensus
Probab=55.14 E-value=3.9 Score=40.34 Aligned_cols=48 Identities=42% Similarity=0.888 Sum_probs=37.3
Q ss_pred CCCeeCCC--CCcccCChHHHHHHHHHhC-------------------CCCCcccCCCCcccCCCCCCC
Q psy8181 314 QKPYHCEV--CPARFTQYVHLKLHKRLHT-------------------NERPYVCKGCNKRYISLSGLR 361 (361)
Q Consensus 314 ekpy~C~~--Cgk~F~~~s~L~~H~r~H~-------------------~eKpYkC~~CgK~F~~~s~Lr 361 (361)
.++|+|.+ |.+.+.....|+.|...-| ..|+|+|++|.++++...+|+
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~ 415 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLK 415 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCC
Confidence 47788865 9999888888887764422 258999999999998877764
No 112
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=54.87 E-value=8.9 Score=32.86 Aligned_cols=28 Identities=46% Similarity=0.660 Sum_probs=17.3
Q ss_pred CcceecCCCcccccChhhHHHHHhhhcCCCc
Q psy8181 230 KMHYECNVCYKTFGQLSNLKVHLRTHNGERP 260 (361)
Q Consensus 230 ~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~ 260 (361)
.....|-+||+.|. .|++|++.|+|-.+
T Consensus 70 ~d~i~clecGk~~k---~LkrHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFK---TLKRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EES---BHHHHHHHTT-S-H
T ss_pred cCeeEEccCCcccc---hHHHHHHHccCCCH
Confidence 34568999999997 66999999977543
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=54.83 E-value=8.2 Score=34.36 Aligned_cols=24 Identities=42% Similarity=0.851 Sum_probs=18.9
Q ss_pred CCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCC
Q psy8181 315 KPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCN 351 (361)
Q Consensus 315 kpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~Cg 351 (361)
+.|.|.+||.. |.++-|-+|++||
T Consensus 133 ~~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 133 KVWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred CEEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 46999999874 4467788999998
No 114
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=54.79 E-value=3.1 Score=36.62 Aligned_cols=12 Identities=50% Similarity=1.240 Sum_probs=6.8
Q ss_pred ccccccccccCC
Q psy8181 289 HECIYCQKRFSS 300 (361)
Q Consensus 289 f~C~~Cgk~F~s 300 (361)
++|..||+.|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 556666665544
No 115
>KOG4377|consensus
Probab=54.63 E-value=7.3 Score=39.25 Aligned_cols=110 Identities=25% Similarity=0.571 Sum_probs=66.5
Q ss_pred CCcceecCC--CcccccChhhHHHHHhhhcCC------------CceeCC--cccccccchHHHHhhhhhccCC------
Q psy8181 229 GKMHYECNV--CYKTFGQLSNLKVHLRTHNGE------------RPFQCN--ICTKSFTQLAHLQKHHLVHTGE------ 286 (361)
Q Consensus 229 ~~k~y~C~~--Cgk~F~s~s~L~~H~~~H~~e------------k~~~C~--~Cgk~F~~~~~L~~H~~~H~ge------ 286 (361)
+..-|.|-. |+..+..+.++.+|.+.|-.. ..|-|. .|.+ +..++..|-..|+..
T Consensus 268 ~rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfr 344 (480)
T KOG4377|consen 268 GREHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFR 344 (480)
T ss_pred cchhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCcee
Confidence 445577744 998888888999998877432 124553 4766 445566676666432
Q ss_pred -CCccccccc--cccCChhHHHHHHhhhcCC------------------------CCeeCC--CCCcccCChHHHHHHHH
Q psy8181 287 -KPHECIYCQ--KRFSSTSNLKTHMRLHSGQ------------------------KPYHCE--VCPARFTQYVHLKLHKR 337 (361)
Q Consensus 287 -kpf~C~~Cg--k~F~s~s~L~~H~r~H~ge------------------------kpy~C~--~Cgk~F~~~s~L~~H~r 337 (361)
..|.|..|+ ..|.....-.-|.+.+.++ ..+.|. -|+..|...+.+..|.|
T Consensus 345 rthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkr 424 (480)
T KOG4377|consen 345 RTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKR 424 (480)
T ss_pred cceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhh
Confidence 247788776 5554322222222222221 113343 38999999999999988
Q ss_pred HhCC
Q psy8181 338 LHTN 341 (361)
Q Consensus 338 ~H~~ 341 (361)
.|..
T Consensus 425 kheR 428 (480)
T KOG4377|consen 425 KHER 428 (480)
T ss_pred hhhh
Confidence 8853
No 116
>KOG1701|consensus
Probab=54.30 E-value=0.73 Score=46.40 Aligned_cols=13 Identities=23% Similarity=0.562 Sum_probs=10.0
Q ss_pred CCcccCCCCcccC
Q psy8181 343 RPYVCKGCNKRYI 355 (361)
Q Consensus 343 KpYkC~~CgK~F~ 355 (361)
.-|+|++||...+
T Consensus 426 ~CY~CEDCg~~LS 438 (468)
T KOG1701|consen 426 NCYKCEDCGLLLS 438 (468)
T ss_pred cceehhhcCcccc
Confidence 4589999987665
No 117
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=54.12 E-value=15 Score=36.39 Aligned_cols=29 Identities=21% Similarity=0.437 Sum_probs=22.8
Q ss_pred hhhcCCCCeeCCCCC-cccCChHHHHHHHH
Q psy8181 309 RLHSGQKPYHCEVCP-ARFTQYVHLKLHKR 337 (361)
Q Consensus 309 r~H~gekpy~C~~Cg-k~F~~~s~L~~H~r 337 (361)
+.|.-++-|.|.+|| +++.-...+.+|..
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhhh
Confidence 345557789999999 88888888888854
No 118
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=53.03 E-value=4.6 Score=27.74 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=5.2
Q ss_pred eeCCCCCccc
Q psy8181 317 YHCEVCPARF 326 (361)
Q Consensus 317 y~C~~Cgk~F 326 (361)
|+|..||..|
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4555555544
No 119
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=52.89 E-value=14 Score=33.18 Aligned_cols=33 Identities=21% Similarity=0.396 Sum_probs=20.1
Q ss_pred CCceeCCcccccccchHHHHhhhhhccCCCCccccccccccC
Q psy8181 258 ERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFS 299 (361)
Q Consensus 258 ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~ 299 (361)
..-|.|+.|+..|.....+. ..|.|..||....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 34477777777776665542 2477777776543
No 120
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=52.83 E-value=11 Score=36.73 Aligned_cols=48 Identities=25% Similarity=0.570 Sum_probs=29.7
Q ss_pred cccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHh
Q psy8181 290 ECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLH 339 (361)
Q Consensus 290 ~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H 339 (361)
.|..|...|.....-.. -.-+....|.|+.|...|-...+.-.|...|
T Consensus 364 ~Cf~CQ~~fp~~~~~~~--~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 364 HCFVCQGPFPKPPVSPF--DESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceeccCCCCCCCCCcc--cccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 47777776654321000 0112234689999998888888888886666
No 121
>KOG2593|consensus
Probab=51.18 E-value=10 Score=38.53 Aligned_cols=17 Identities=29% Similarity=0.686 Sum_probs=8.9
Q ss_pred CceeCCcccccccchHH
Q psy8181 259 RPFQCNICTKSFTQLAH 275 (361)
Q Consensus 259 k~~~C~~Cgk~F~~~~~ 275 (361)
.-|.|+.|.+.|.....
T Consensus 127 ~~Y~Cp~C~kkyt~Lea 143 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEA 143 (436)
T ss_pred ccccCCccccchhhhHH
Confidence 34556666555554443
No 122
>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=50.77 E-value=10 Score=39.54 Aligned_cols=8 Identities=25% Similarity=0.534 Sum_probs=4.6
Q ss_pred ecCCCccc
Q psy8181 234 ECNVCYKT 241 (361)
Q Consensus 234 ~C~~Cgk~ 241 (361)
.|..||..
T Consensus 215 ~C~~Cg~~ 222 (505)
T TIGR00595 215 LCRSCGYI 222 (505)
T ss_pred EhhhCcCc
Confidence 56666654
No 123
>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=50.48 E-value=10 Score=32.19 Aligned_cols=30 Identities=20% Similarity=0.215 Sum_probs=18.8
Q ss_pred eecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccch
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQL 273 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~ 273 (361)
..|+.||+.|... ++.+..|+.||..|...
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 3577777777542 33456777777766544
No 124
>KOG2593|consensus
Probab=49.28 E-value=15 Score=37.31 Aligned_cols=38 Identities=24% Similarity=0.635 Sum_probs=23.1
Q ss_pred cCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCc
Q psy8181 312 SGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNK 352 (361)
Q Consensus 312 ~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK 352 (361)
+...-|.|+.|.+.|.....++- +-.....|.|..|+-
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 34455888888888776655432 222234578888874
No 125
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=49.04 E-value=18 Score=31.26 Aligned_cols=16 Identities=25% Similarity=0.654 Sum_probs=8.8
Q ss_pred CceeCCcccccccchH
Q psy8181 259 RPFQCNICTKSFTQLA 274 (361)
Q Consensus 259 k~~~C~~Cgk~F~~~~ 274 (361)
..|.|+.|+..|....
T Consensus 98 ~~Y~Cp~C~~~y~~~e 113 (147)
T smart00531 98 AYYKCPNCQSKYTFLE 113 (147)
T ss_pred cEEECcCCCCEeeHHH
Confidence 3466666666555433
No 126
>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=47.64 E-value=8.3 Score=35.77 Aligned_cols=31 Identities=19% Similarity=0.434 Sum_probs=21.3
Q ss_pred CCCcceecCCCcccccChhhHHHHHhhhcCC
Q psy8181 228 DGKMHYECNVCYKTFGQLSNLKVHLRTHNGE 258 (361)
Q Consensus 228 ~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~e 258 (361)
..+..|.|..|+|.|.-..-+.+|+...|.+
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 3445688888888888888888888766554
No 127
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=47.06 E-value=6.4 Score=34.59 Aligned_cols=18 Identities=28% Similarity=0.610 Sum_probs=13.8
Q ss_pred ceecCCCcccccChhhHH
Q psy8181 232 HYECNVCYKTFGQLSNLK 249 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~ 249 (361)
.++|+.||+.|.....+.
T Consensus 28 ~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 28 RRECLACGKRFTTFERVE 45 (154)
T ss_pred eeeccccCCcceEeEecc
Confidence 388999999998765543
No 128
>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=45.22 E-value=4.1 Score=32.93 Aligned_cols=11 Identities=27% Similarity=0.470 Sum_probs=5.7
Q ss_pred ceecCCCcccc
Q psy8181 232 HYECNVCYKTF 242 (361)
Q Consensus 232 ~y~C~~Cgk~F 242 (361)
.+.|..|+..+
T Consensus 16 ~~~C~~C~~~~ 26 (104)
T TIGR01384 16 VYVCPSCGYEK 26 (104)
T ss_pred eEECcCCCCcc
Confidence 35555555543
No 129
>KOG0782|consensus
Probab=44.96 E-value=4.7 Score=42.27 Aligned_cols=52 Identities=23% Similarity=0.462 Sum_probs=33.3
Q ss_pred ChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCC-CcccCCCCcccCCC
Q psy8181 300 STSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNER-PYVCKGCNKRYISL 357 (361)
Q Consensus 300 s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eK-pYkC~~CgK~F~~~ 357 (361)
+...|.+|.-+|....--+|..|||.|.++-.| |.+|- ...|..|..+|..+
T Consensus 237 rE~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~K 289 (1004)
T KOG0782|consen 237 RESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLK 289 (1004)
T ss_pred ccccchHHhHhhHhhhccccchhhhhhhhheee------ccccEEEEEehHHHHHhhcc
Confidence 444677776666655556788888888765443 33332 36788888777654
No 130
>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=44.59 E-value=18 Score=23.15 Aligned_cols=11 Identities=36% Similarity=0.821 Sum_probs=5.1
Q ss_pred eeCCCCCcccC
Q psy8181 317 YHCEVCPARFT 327 (361)
Q Consensus 317 y~C~~Cgk~F~ 327 (361)
|.|..||..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 44555555543
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=44.06 E-value=9.7 Score=24.09 Aligned_cols=25 Identities=24% Similarity=0.753 Sum_probs=9.5
Q ss_pred eCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcc
Q psy8181 318 HCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKR 353 (361)
Q Consensus 318 ~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~ 353 (361)
+|+.|+..+.. .....|.|+.|+..
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 46666655544 33445666666643
No 132
>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=43.34 E-value=17 Score=34.64 Aligned_cols=75 Identities=20% Similarity=0.422 Sum_probs=36.1
Q ss_pred cCCCCccccccccccCChhHHHHHHhhh--cCCCCeeCCCCCcccCChHHH-------HHHHHHh----CCCCCcccCCC
Q psy8181 284 TGEKPHECIYCQKRFSSTSNLKTHMRLH--SGQKPYHCEVCPARFTQYVHL-------KLHKRLH----TNERPYVCKGC 350 (361)
Q Consensus 284 ~gekpf~C~~Cgk~F~s~s~L~~H~r~H--~gekpy~C~~Cgk~F~~~s~L-------~~H~r~H----~~eKpYkC~~C 350 (361)
+|.+.|+|.+|....-- .+-..|+..- .....|+|.-|.+.- +.+-| ..|.|.. ...+++-|+.|
T Consensus 138 hGGrif~CsfC~~flCE-DDQFEHQAsCQvLe~E~~KC~SCNrlG-q~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKC 215 (314)
T PF06524_consen 138 HGGRIFKCSFCDNFLCE-DDQFEHQASCQVLESETFKCQSCNRLG-QYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKC 215 (314)
T ss_pred CCCeEEEeecCCCeeec-cchhhhhhhhhhhhccccccccccccc-chhhhheeeeehhhhhhhcccccccCCCCCCCCC
Confidence 45566777777644333 2333444321 122345555554321 22222 2344331 33467888888
Q ss_pred CcccCCCCCC
Q psy8181 351 NKRYISLSGL 360 (361)
Q Consensus 351 gK~F~~~s~L 360 (361)
|.......+|
T Consensus 216 g~et~eTkdL 225 (314)
T PF06524_consen 216 GYETQETKDL 225 (314)
T ss_pred CCcccccccc
Confidence 8665544433
No 133
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=42.17 E-value=14 Score=32.92 Aligned_cols=25 Identities=32% Similarity=0.693 Sum_probs=19.5
Q ss_pred CCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCc
Q psy8181 287 KPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPA 324 (361)
Q Consensus 287 kpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk 324 (361)
+.|.|.+||..+ -|+-|.+|++||-
T Consensus 133 ~~~vC~vCGy~~-------------~ge~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPVCGYTH-------------EGEAPEVCPICGA 157 (166)
T ss_pred CEEEcCCCCCcc-------------cCCCCCcCCCCCC
Confidence 369999998654 4577899999983
No 134
>KOG1280|consensus
Probab=42.10 E-value=18 Score=35.84 Aligned_cols=83 Identities=20% Similarity=0.400 Sum_probs=0.0
Q ss_pred CCCcceecCCCcccccChhhHHHHHhhhcCCCceeC------CcccccccchHHHHhhhhhc------------------
Q psy8181 228 DGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQC------NICTKSFTQLAHLQKHHLVH------------------ 283 (361)
Q Consensus 228 ~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C------~~Cgk~F~~~~~L~~H~~~H------------------ 283 (361)
.+-....|+-|+|. ....+.|+| ++|..-|.+......|-..|
T Consensus 4 ~rHe~v~CdgC~k~-------------~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~dfeL~f~Ge 70 (381)
T KOG1280|consen 4 SRHEGVSCDGCGKT-------------AFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSRVDFELYFGGE 70 (381)
T ss_pred CCcCCceecccccc-------------ceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeeccceeeEecCc
Q ss_pred ----cCCCCccccccccccCChhHHHHHHhhhcCCCC--eeCCCCC
Q psy8181 284 ----TGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKP--YHCEVCP 323 (361)
Q Consensus 284 ----~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekp--y~C~~Cg 323 (361)
.....|.|..|++.-.....|..|....|-+-. ..|..|+
T Consensus 71 ~i~~y~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 71 PISHYDPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccccccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
No 135
>PRK14873 primosome assembly protein PriA; Provisional
Probab=41.36 E-value=19 Score=39.09 Aligned_cols=39 Identities=21% Similarity=0.510 Sum_probs=26.0
Q ss_pred ccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcc
Q psy8181 289 HECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKR 353 (361)
Q Consensus 289 f~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~ 353 (361)
..|..|+-... .|...+...|..||.. ..+..|+.||-.
T Consensus 393 ~~C~~C~~~L~----------~h~~~~~l~Ch~CG~~----------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 393 ARCRHCTGPLG----------LPSAGGTPRCRWCGRA----------------APDWRCPRCGSD 431 (665)
T ss_pred eECCCCCCcee----------EecCCCeeECCCCcCC----------------CcCccCCCCcCC
Confidence 56777765432 2444567889999852 136799999864
No 136
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=41.04 E-value=30 Score=39.85 Aligned_cols=11 Identities=18% Similarity=0.329 Sum_probs=7.0
Q ss_pred Ccccccccccc
Q psy8181 288 PHECIYCQKRF 298 (361)
Q Consensus 288 pf~C~~Cgk~F 298 (361)
.|.|..||...
T Consensus 692 vy~CPsCGaev 702 (1337)
T PRK14714 692 VYVCPDCGAEV 702 (1337)
T ss_pred ceeCccCCCcc
Confidence 35777777654
No 137
>PRK05580 primosome assembly protein PriA; Validated
Probab=40.43 E-value=18 Score=39.24 Aligned_cols=8 Identities=25% Similarity=0.422 Sum_probs=3.8
Q ss_pred ecCCCccc
Q psy8181 234 ECNVCYKT 241 (361)
Q Consensus 234 ~C~~Cgk~ 241 (361)
.|..||..
T Consensus 383 ~C~~Cg~~ 390 (679)
T PRK05580 383 LCRDCGWV 390 (679)
T ss_pred EhhhCcCc
Confidence 35555544
No 138
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=40.28 E-value=16 Score=25.95 Aligned_cols=20 Identities=20% Similarity=0.502 Sum_probs=9.7
Q ss_pred hHHHHHHhhhcCCCCeeCCC
Q psy8181 302 SNLKTHMRLHSGQKPYHCEV 321 (361)
Q Consensus 302 s~L~~H~r~H~gekpy~C~~ 321 (361)
..|..|+...-..+...|..
T Consensus 24 ~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 24 KELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CCHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHHccCCCCcEECCC
Confidence 34555555444445555555
No 139
>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=39.81 E-value=7.6 Score=25.56 Aligned_cols=9 Identities=22% Similarity=0.707 Sum_probs=4.9
Q ss_pred eCCCCCccc
Q psy8181 318 HCEVCPARF 326 (361)
Q Consensus 318 ~C~~Cgk~F 326 (361)
.|..||+.|
T Consensus 3 ~C~~Cg~~Y 11 (36)
T PF05191_consen 3 ICPKCGRIY 11 (36)
T ss_dssp EETTTTEEE
T ss_pred CcCCCCCcc
Confidence 455555555
No 140
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=39.47 E-value=17 Score=31.16 Aligned_cols=24 Identities=25% Similarity=0.241 Sum_probs=17.9
Q ss_pred eeCCCCCcccCChHHHHHHHHHhCCCC
Q psy8181 317 YHCEVCPARFTQYVHLKLHKRLHTNER 343 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r~H~~eK 343 (361)
..|-+||+.|. .|++|+.+|.+--
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmT 100 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLT 100 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCC
Confidence 66888888775 5788888887643
No 141
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=39.35 E-value=9.9 Score=29.09 Aligned_cols=11 Identities=36% Similarity=0.975 Sum_probs=5.2
Q ss_pred cccc--ccccccC
Q psy8181 289 HECI--YCQKRFS 299 (361)
Q Consensus 289 f~C~--~Cgk~F~ 299 (361)
++|. .||..|.
T Consensus 28 ~qC~N~eCg~tF~ 40 (72)
T PRK09678 28 HQCQNVNCSATFI 40 (72)
T ss_pred eecCCCCCCCEEE
Confidence 4444 4555443
No 142
>KOG2071|consensus
Probab=38.97 E-value=19 Score=37.95 Aligned_cols=70 Identities=17% Similarity=0.361 Sum_probs=0.0
Q ss_pred CCcceecCCCcccccChhhHHHHHhhhcCCCc------------------------eeCCcccccccchHHHHh------
Q psy8181 229 GKMHYECNVCYKTFGQLSNLKVHLRTHNGERP------------------------FQCNICTKSFTQLAHLQK------ 278 (361)
Q Consensus 229 ~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~------------------------~~C~~Cgk~F~~~~~L~~------ 278 (361)
..++-+|..||..|.+......||..|-..+. |.|..-+...........
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n~~~r~s~~~~~sR~Wf~s~s~W~~~K~~e~t~e~~~~~~~~~~~~ 494 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKNTTIRGSSKWQKSRSWFPSKSGWLAAKAGEETDEKEKVEHEELQIK 494 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhhhhhhhhhhcccccccccccceeechhhhccccccccccccccccchhhcch
Q ss_pred --------hhhhccC-CCCcccccccccc
Q psy8181 279 --------HHLVHTG-EKPHECIYCQKRF 298 (361)
Q Consensus 279 --------H~~~H~g-ekpf~C~~Cgk~F 298 (361)
-..+-.. ++.+.|.+|+..|
T Consensus 495 ~~~s~~~k~~~Vp~d~e~~~~C~IC~EkF 523 (579)
T KOG2071|consen 495 KELSLRSKYELVPADSERQASCPICQEKF 523 (579)
T ss_pred hhhhhhccceecccCcccccCCccccccc
No 143
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=38.55 E-value=15 Score=26.10 Aligned_cols=19 Identities=26% Similarity=0.508 Sum_probs=7.8
Q ss_pred HHHhhhhhccCCCCccccc
Q psy8181 275 HLQKHHLVHTGEKPHECIY 293 (361)
Q Consensus 275 ~L~~H~~~H~gekpf~C~~ 293 (361)
.|..|+...-..+...|.+
T Consensus 25 ~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 25 ELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHccCCCCcEECCC
Confidence 4444544333333444444
No 144
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=37.31 E-value=8.6 Score=23.97 Aligned_cols=19 Identities=26% Similarity=0.527 Sum_probs=9.5
Q ss_pred eeCCCCCcccCChHHHHHHH
Q psy8181 317 YHCEVCPARFTQYVHLKLHK 336 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~ 336 (361)
|.|..|++.| .....+.|.
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEE-EGGGTTT--
T ss_pred CeeecCCCCc-CcCCcCCCC
Confidence 3566666666 444555553
No 145
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=36.96 E-value=20 Score=30.81 Aligned_cols=25 Identities=40% Similarity=0.396 Sum_probs=20.9
Q ss_pred ceecCCCcccccChhhHHHHHhhhcCCC
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHNGER 259 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~~ek 259 (361)
-..|-+||+.|. .|++|+.+|++--
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~gmT 100 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHYGLT 100 (148)
T ss_pred eEEEeccCcchH---HHHHHHhcccCCC
Confidence 357999999996 8999999998743
No 146
>KOG4167|consensus
Probab=36.87 E-value=8.3 Score=41.58 Aligned_cols=25 Identities=20% Similarity=0.425 Sum_probs=23.1
Q ss_pred CeeCCCCCcccCChHHHHHHHHHhC
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRLHT 340 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~H~ 340 (361)
.|.|.+|+|.|.....+..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4899999999999999999999985
No 147
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=36.41 E-value=4.6 Score=38.90 Aligned_cols=14 Identities=29% Similarity=0.752 Sum_probs=6.9
Q ss_pred CCcceecCCCcccc
Q psy8181 229 GKMHYECNVCYKTF 242 (361)
Q Consensus 229 ~~k~y~C~~Cgk~F 242 (361)
|.+-..|..|+..+
T Consensus 194 G~R~L~Cs~C~t~W 207 (290)
T PF04216_consen 194 GKRYLHCSLCGTEW 207 (290)
T ss_dssp -EEEEEETTT--EE
T ss_pred ccEEEEcCCCCCee
Confidence 45566666676655
No 148
>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=36.14 E-value=24 Score=24.17 Aligned_cols=11 Identities=45% Similarity=1.044 Sum_probs=5.5
Q ss_pred CCCcccCCCCc
Q psy8181 342 ERPYVCKGCNK 352 (361)
Q Consensus 342 eKpYkC~~CgK 352 (361)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 34455555553
No 149
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=35.04 E-value=17 Score=35.58 Aligned_cols=51 Identities=24% Similarity=0.427 Sum_probs=28.2
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCccccc
Q psy8181 196 LSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKS 269 (361)
Q Consensus 196 ~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~ 269 (361)
....|..||..- ..+..+. .....|.+-..|..|+..+... ..+|..||..
T Consensus 183 ~~~~CPvCGs~P--~~s~~~~-------~~~~~G~RyL~CslC~teW~~~--------------R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPP--VASMVRQ-------GGKETGLRYLSCSLCATEWHYV--------------RVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChh--hhhhhcc-------cCCCCCceEEEcCCCCCccccc--------------CccCCCCCCC
Confidence 455788887753 1110010 0124566777888888766321 2468888753
No 150
>PF14353 CpXC: CpXC protein
Probab=35.00 E-value=38 Score=28.28 Aligned_cols=16 Identities=25% Similarity=0.550 Sum_probs=9.3
Q ss_pred ccccccccccCChhHH
Q psy8181 289 HECIYCQKRFSSTSNL 304 (361)
Q Consensus 289 f~C~~Cgk~F~s~s~L 304 (361)
|.|..||..|.-...+
T Consensus 39 ~~CP~Cg~~~~~~~p~ 54 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPL 54 (128)
T ss_pred EECCCCCCceecCCCE
Confidence 5677777666544333
No 151
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=34.40 E-value=12 Score=32.21 Aligned_cols=34 Identities=24% Similarity=0.722 Sum_probs=21.6
Q ss_pred CCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcccCC
Q psy8181 315 KPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRYIS 356 (361)
Q Consensus 315 kpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~ 356 (361)
-.|.|..|+..+.. |.+. ..+.|.|..|+..|..
T Consensus 122 ~~~~C~~C~~~~~r------~~~~--~~~~~~C~~C~~~l~~ 155 (157)
T PF10263_consen 122 YVYRCPSCGREYKR------HRRS--KRKRYRCGRCGGPLVQ 155 (157)
T ss_pred eEEEcCCCCCEeee------eccc--chhhEECCCCCCEEEE
Confidence 35888888877633 3333 2334889989876643
No 152
>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=34.35 E-value=35 Score=20.63 Aligned_cols=20 Identities=20% Similarity=0.338 Sum_probs=14.5
Q ss_pred eeCCCCCcccCChHHHHHHHH
Q psy8181 317 YHCEVCPARFTQYVHLKLHKR 337 (361)
Q Consensus 317 y~C~~Cgk~F~~~s~L~~H~r 337 (361)
..|++|++.+ ....+..|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3588888887 5667777765
No 153
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.35 E-value=23 Score=29.38 Aligned_cols=26 Identities=12% Similarity=0.065 Sum_probs=18.3
Q ss_pred cccccccccCChhHHHHHHhhhcCCCCeeCCCCCccc
Q psy8181 290 ECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARF 326 (361)
Q Consensus 290 ~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F 326 (361)
.|..|++.|-. .+..|..|+.||++|
T Consensus 11 idPetg~KFYD-----------LNrdPiVsPytG~s~ 36 (129)
T COG4530 11 IDPETGKKFYD-----------LNRDPIVSPYTGKSY 36 (129)
T ss_pred cCccccchhhc-----------cCCCccccCcccccc
Confidence 57778777743 235677888888887
No 154
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=34.01 E-value=23 Score=28.11 Aligned_cols=10 Identities=30% Similarity=0.906 Sum_probs=4.3
Q ss_pred cccccccccc
Q psy8181 289 HECIYCQKRF 298 (361)
Q Consensus 289 f~C~~Cgk~F 298 (361)
|.|..|+..|
T Consensus 54 W~C~kCg~~f 63 (89)
T COG1997 54 WKCRKCGAKF 63 (89)
T ss_pred EEcCCCCCee
Confidence 4444444443
No 155
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=33.97 E-value=17 Score=21.41 Aligned_cols=6 Identities=33% Similarity=1.292 Sum_probs=2.7
Q ss_pred cCCCCc
Q psy8181 347 CKGCNK 352 (361)
Q Consensus 347 C~~CgK 352 (361)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444443
No 156
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=33.90 E-value=41 Score=38.83 Aligned_cols=10 Identities=30% Similarity=0.727 Sum_probs=6.4
Q ss_pred cccccccccc
Q psy8181 289 HECIYCQKRF 298 (361)
Q Consensus 289 f~C~~Cgk~F 298 (361)
..|..|+...
T Consensus 710 ~~CP~CGtpl 719 (1337)
T PRK14714 710 VECPRCDVEL 719 (1337)
T ss_pred ccCCCCCCcc
Confidence 3688887543
No 157
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=31.06 E-value=30 Score=29.53 Aligned_cols=28 Identities=21% Similarity=0.438 Sum_probs=18.2
Q ss_pred ceecCCCcccccChhhHHHHHhhhcCCCceeCCccccc
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKS 269 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~ 269 (361)
+++|..||+.|.+.+.- +. --|+.||..
T Consensus 1 PH~Ct~Cg~~f~dgs~e---il-------~GCP~CGg~ 28 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKE---IL-------SGCPECGGN 28 (131)
T ss_pred CcccCcCCCCcCCCcHH---HH-------ccCcccCCc
Confidence 46788899998866521 11 248888743
No 158
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.83 E-value=20 Score=30.73 Aligned_cols=13 Identities=15% Similarity=0.565 Sum_probs=7.2
Q ss_pred CeeCCCCCcccCC
Q psy8181 316 PYHCEVCPARFTQ 328 (361)
Q Consensus 316 py~C~~Cgk~F~~ 328 (361)
.+.|..||..|..
T Consensus 70 ~~~C~~CG~~~~~ 82 (135)
T PRK03824 70 VLKCRNCGNEWSL 82 (135)
T ss_pred EEECCCCCCEEec
Confidence 3566666655543
No 159
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.80 E-value=29 Score=35.38 Aligned_cols=17 Identities=24% Similarity=0.188 Sum_probs=13.2
Q ss_pred CCchhhhhhhhhhccCC
Q psy8181 82 SPTEMAYSYKKSARYGN 98 (361)
Q Consensus 82 ~~~~~~~~~~~~~~~~~ 98 (361)
...|.+++|++.+..|.
T Consensus 102 ~~~ev~~~~~~~aL~~~ 118 (421)
T COG1571 102 ELPEVLRSFYHAALAGV 118 (421)
T ss_pred CCcHHHHHHHHHHHhcc
Confidence 45688889999887775
No 160
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=30.67 E-value=22 Score=34.81 Aligned_cols=50 Identities=20% Similarity=0.373 Sum_probs=28.8
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccc
Q psy8181 195 SLSPDDGSCGSPLSPNSQGSRGYRSLPYPLKKKDGKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTK 268 (361)
Q Consensus 195 s~s~~c~~C~~~f~~~s~l~~h~~sl~~h~k~~~~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk 268 (361)
.....|..||..-. .++. +.....|.+-..|..|+..+... ..+|..||.
T Consensus 185 ~~~~~CPvCGs~P~--~s~v--------~~~~~~G~RyL~CslC~teW~~~--------------R~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPV--SSVV--------QIGTTQGLRYLHCNLCESEWHVV--------------RVKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcch--hhee--------eccCCCCceEEEcCCCCCccccc--------------CccCCCCCC
Confidence 35678888876531 1100 11224566778888888766321 246888875
No 161
>KOG0260|consensus
Probab=30.44 E-value=9.5e+02 Score=28.31 Aligned_cols=15 Identities=47% Similarity=0.571 Sum_probs=6.5
Q ss_pred CCCCCCCchhhhhhh
Q psy8181 77 NSPPSSPTEMAYSYK 91 (361)
Q Consensus 77 ~~~~~~~~~~~~~~~ 91 (361)
|.|-=|||-+.|++-
T Consensus 1455 tsp~ysptsp~ys~t 1469 (1605)
T KOG0260|consen 1455 TSPNYSPTSPSYSPT 1469 (1605)
T ss_pred CCCCCCCCCCccCCC
Confidence 333344444444443
No 162
>PRK05580 primosome assembly protein PriA; Validated
Probab=30.41 E-value=38 Score=36.80 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=6.4
Q ss_pred CCeeCCCCCcc
Q psy8181 315 KPYHCEVCPAR 325 (361)
Q Consensus 315 kpy~C~~Cgk~ 325 (361)
.+..|+.||..
T Consensus 420 ~~~~Cp~Cg~~ 430 (679)
T PRK05580 420 IPKACPECGST 430 (679)
T ss_pred CCCCCCCCcCC
Confidence 34567777644
No 163
>KOG4167|consensus
Probab=30.24 E-value=15 Score=39.82 Aligned_cols=27 Identities=26% Similarity=0.565 Sum_probs=23.5
Q ss_pred CcceecCCCcccccChhhHHHHHhhhc
Q psy8181 230 KMHYECNVCYKTFGQLSNLKVHLRTHN 256 (361)
Q Consensus 230 ~k~y~C~~Cgk~F~s~s~L~~H~~~H~ 256 (361)
..-|.|.+|+|.|.....+..||+.|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 345899999999999999999999885
No 164
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=29.19 E-value=25 Score=30.13 Aligned_cols=58 Identities=29% Similarity=0.471 Sum_probs=31.5
Q ss_pred cCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCccc--CChHHHHHHHHHhCCCCCcccCCCCcccCCCC
Q psy8181 284 TGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARF--TQYVHLKLHKRLHTNERPYVCKGCNKRYISLS 358 (361)
Q Consensus 284 ~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F--~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~s 358 (361)
...+.|+|.+|.........| ||-+| ||..- .--..|-+|-.+| -+|+.|.-+|...+
T Consensus 76 ~d~~lYeCnIC~etS~ee~FL----------KPneC--CgY~iCn~Cya~LWK~~~~y-----pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERFL----------KPNEC--CGYSICNACYANLWKFCNLY-----PVCPVCKTSFKSSS 135 (140)
T ss_pred cCCCceeccCcccccchhhcC----------Ccccc--cchHHHHHHHHHHHHHcccC-----CCCCcccccccccc
Confidence 344668888887665443221 34444 33321 1233455554444 26888888887654
No 165
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=29.12 E-value=56 Score=21.98 Aligned_cols=23 Identities=30% Similarity=0.579 Sum_probs=12.8
Q ss_pred eeCCCCCcccCC--hHHHHHHHHHh
Q psy8181 317 YHCEVCPARFTQ--YVHLKLHKRLH 339 (361)
Q Consensus 317 y~C~~Cgk~F~~--~s~L~~H~r~H 339 (361)
-.|..||..|.. ..+-..|.+.|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 356666655543 44555565555
No 166
>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=28.93 E-value=20 Score=25.60 Aligned_cols=30 Identities=30% Similarity=0.703 Sum_probs=13.4
Q ss_pred CCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCC
Q psy8181 315 KPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGC 350 (361)
Q Consensus 315 kpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~C 350 (361)
..|+|+.|+..|-..-++..| |..+.|+.|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiH------E~LH~CPGC 49 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIH------ETLHNCPGC 49 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTT------TTS-SSSTT
T ss_pred CeEECCCCCCccccCcChhhh------ccccCCcCC
Confidence 457777777666655555554 333455555
No 167
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=28.90 E-value=28 Score=32.95 Aligned_cols=73 Identities=22% Similarity=0.504 Sum_probs=44.5
Q ss_pred hhhHHHHHhhhcCC-----CceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChhHHHHHHhhhcCCCCeeC
Q psy8181 245 LSNLKVHLRTHNGE-----RPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHC 319 (361)
Q Consensus 245 ~s~L~~H~~~H~~e-----k~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C 319 (361)
..+|+.+.+.+.+. +.|.|..|+..+-. ++-..+..-.|..|.+.|.-.-. ....|---|.|
T Consensus 92 e~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~WwR--------rvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~aef~C 158 (278)
T PF15135_consen 92 EENLRMFDDAQENLIPSVDRQFACSSCDHMWWR--------RVPQRKEVSRCRKCRKRYDPVPC-----DKMWGIAEFHC 158 (278)
T ss_pred HHHHHHhhhhhhccccccceeeeccccchHHHh--------ccCcccccccccccccccCCCcc-----ccccceeeeec
Confidence 34555554444333 67999999754321 22233345689999988764321 12345556999
Q ss_pred CCCCcccCChH
Q psy8181 320 EVCPARFTQYV 330 (361)
Q Consensus 320 ~~Cgk~F~~~s 330 (361)
..|+..|.-..
T Consensus 159 ~~C~h~F~G~~ 169 (278)
T PF15135_consen 159 PKCRHNFRGFA 169 (278)
T ss_pred ccccccchhhh
Confidence 99999997543
No 168
>KOG0782|consensus
Probab=28.61 E-value=11 Score=39.58 Aligned_cols=51 Identities=20% Similarity=0.432 Sum_probs=28.2
Q ss_pred hHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccccCChh
Q psy8181 247 NLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRFSSTS 302 (361)
Q Consensus 247 ~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F~s~s 302 (361)
.|.+|.-+|....--+|..|++.|.++..+..-. .....|.+|...|-.+-
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQKf~FhsKE-----ivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQKFFFHSKE-----IVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhheeecccc-----EEEEEehHHHHHhhcch
Confidence 4566655555444456777777776554332111 12356777776665543
No 169
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=28.58 E-value=34 Score=33.52 Aligned_cols=49 Identities=18% Similarity=0.400 Sum_probs=28.7
Q ss_pred eecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhhhhccCCCCccccccccc
Q psy8181 233 YECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKR 297 (361)
Q Consensus 233 y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~ 297 (361)
-.|++||..= ..+.+ +.-....|.+-..|..|+..+. . ...+|..||..
T Consensus 185 ~~CPvCGs~P-~~s~~-~~~~~~~G~RyL~CslC~teW~------------~--~R~~C~~Cg~~ 233 (305)
T TIGR01562 185 TLCPACGSPP-VASMV-RQGGKETGLRYLSCSLCATEWH------------Y--VRVKCSHCEES 233 (305)
T ss_pred CcCCCCCChh-hhhhh-cccCCCCCceEEEcCCCCCccc------------c--cCccCCCCCCC
Confidence 3699999752 11111 1111245677789999985431 1 23589999864
No 170
>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=28.55 E-value=29 Score=33.15 Aligned_cols=84 Identities=21% Similarity=0.400 Sum_probs=42.1
Q ss_pred hcCCCceeCCcccccccchHHHHhhhhhc--cCCCCccccccccccCCh------hHHHHHHhh----hcCCCCeeCCCC
Q psy8181 255 HNGERPFQCNICTKSFTQLAHLQKHHLVH--TGEKPHECIYCQKRFSST------SNLKTHMRL----HSGQKPYHCEVC 322 (361)
Q Consensus 255 H~~ek~~~C~~Cgk~F~~~~~L~~H~~~H--~gekpf~C~~Cgk~F~s~------s~L~~H~r~----H~gekpy~C~~C 322 (361)
.||.+.|.|..|.. |.-...--.|+..- .....|+|..|.+.-... -.-..|.+. ....+++.|+.|
T Consensus 137 ~hGGrif~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKC 215 (314)
T PF06524_consen 137 DHGGRIFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKC 215 (314)
T ss_pred cCCCeEEEeecCCC-eeeccchhhhhhhhhhhhcccccccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCC
Confidence 35667788888764 33233333344321 111235555444321110 001234443 234578999999
Q ss_pred CcccCChHHHHHHHHHh
Q psy8181 323 PARFTQYVHLKLHKRLH 339 (361)
Q Consensus 323 gk~F~~~s~L~~H~r~H 339 (361)
|.....-..|..-.|+|
T Consensus 216 g~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 216 GYETQETKDLSMSTRSH 232 (314)
T ss_pred CCcccccccceeeeecc
Confidence 98877766665444444
No 171
>KOG1044|consensus
Probab=27.11 E-value=15 Score=38.72 Aligned_cols=13 Identities=23% Similarity=0.468 Sum_probs=6.3
Q ss_pred CCCCCCCCCCCCC
Q psy8181 197 SPDDGSCGSPLSP 209 (361)
Q Consensus 197 s~~c~~C~~~f~~ 209 (361)
.+.|..|..+|..
T Consensus 91 cf~cs~ck~pf~~ 103 (670)
T KOG1044|consen 91 CFSCSTCKSPFKS 103 (670)
T ss_pred cceecccCCCCCC
Confidence 3445555555543
No 172
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=27.07 E-value=29 Score=30.47 Aligned_cols=36 Identities=25% Similarity=0.773 Sum_probs=22.5
Q ss_pred CCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCccc
Q psy8181 314 QKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRY 354 (361)
Q Consensus 314 ekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F 354 (361)
...|.|. |+..|.+. ++|-..-.|+ .|.|..|+-..
T Consensus 115 ~~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gkL 150 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGKL 150 (156)
T ss_pred ceeEEee-cCCccchh---hhcccccccc-eEEeccCCceE
Confidence 4568888 88765543 3444444455 78888887543
No 173
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=26.76 E-value=33 Score=28.41 Aligned_cols=10 Identities=20% Similarity=0.372 Sum_probs=4.7
Q ss_pred eeCCCCCccc
Q psy8181 317 YHCEVCPARF 326 (361)
Q Consensus 317 y~C~~Cgk~F 326 (361)
++|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 4455555444
No 174
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=26.50 E-value=33 Score=25.22 Aligned_cols=27 Identities=30% Similarity=0.691 Sum_probs=10.2
Q ss_pred ccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccC
Q psy8181 289 HECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFT 327 (361)
Q Consensus 289 f~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~ 327 (361)
-.|..|++.|.. -.+.+.|..||..|-
T Consensus 10 ~~C~~C~~~F~~------------~~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 10 SNCMICGKKFSL------------FRRRHHCRNCGRVVC 36 (69)
T ss_dssp SB-TTT--B-BS------------SS-EEE-TTT--EEE
T ss_pred CcCcCcCCcCCC------------ceeeEccCCCCCEEC
Confidence 357777777742 134456666666543
No 175
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=26.34 E-value=32 Score=24.27 Aligned_cols=10 Identities=30% Similarity=0.856 Sum_probs=5.3
Q ss_pred CeeCCCCCcc
Q psy8181 316 PYHCEVCPAR 325 (361)
Q Consensus 316 py~C~~Cgk~ 325 (361)
.+.|..||..
T Consensus 37 r~~C~~Cgyt 46 (50)
T PRK00432 37 RWHCGKCGYT 46 (50)
T ss_pred cEECCCcCCE
Confidence 4555555544
No 176
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=26.09 E-value=20 Score=38.86 Aligned_cols=57 Identities=25% Similarity=0.558 Sum_probs=33.0
Q ss_pred eCCcccccccchHHHHhhhhhccCCCC-ccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcc
Q psy8181 262 QCNICTKSFTQLAHLQKHHLVHTGEKP-HECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPAR 325 (361)
Q Consensus 262 ~C~~Cgk~F~~~~~L~~H~~~H~gekp-f~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~ 325 (361)
.|..||-+|.-...|---+. ++.-+. --|..|.+.|.+.-+-+-| -.+.-|+.||-.
T Consensus 125 ~CT~CGPRfTIi~alPYDR~-nTsM~~F~lC~~C~~EY~dP~nRRfH------AQp~aCp~CGP~ 182 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRE-NTSMADFPLCPFCDKEYKDPLNRRFH------AQPIACPKCGPH 182 (750)
T ss_pred ccCCCCcceeeeccCCCCcc-cCccccCcCCHHHHHHhcCccccccc------cccccCcccCCC
Confidence 57778877776655543322 222222 2588888877766553222 235678888853
No 177
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=25.99 E-value=35 Score=27.36 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=5.0
Q ss_pred ccccccccccC
Q psy8181 289 HECIYCQKRFS 299 (361)
Q Consensus 289 f~C~~Cgk~F~ 299 (361)
-.|..||..|.
T Consensus 59 a~CkkCGfef~ 69 (97)
T COG3357 59 ARCKKCGFEFR 69 (97)
T ss_pred hhhcccCcccc
Confidence 34444444443
No 178
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=25.93 E-value=39 Score=22.30 Aligned_cols=14 Identities=29% Similarity=0.610 Sum_probs=8.2
Q ss_pred ccCCCCcccCCCCC
Q psy8181 346 VCKGCNKRYISLSG 359 (361)
Q Consensus 346 kC~~CgK~F~~~s~ 359 (361)
.|..|+|+|.+.++
T Consensus 4 ~CprC~kg~Hwa~~ 17 (36)
T PF14787_consen 4 LCPRCGKGFHWASE 17 (36)
T ss_dssp C-TTTSSSCS-TTT
T ss_pred cCcccCCCcchhhh
Confidence 47777777776654
No 179
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=25.85 E-value=23 Score=39.14 Aligned_cols=8 Identities=25% Similarity=0.434 Sum_probs=0.0
Q ss_pred cccccccc
Q psy8181 289 HECIYCQK 296 (361)
Q Consensus 289 f~C~~Cgk 296 (361)
|.|..|+.
T Consensus 681 ~~Cp~C~~ 688 (900)
T PF03833_consen 681 YVCPDCGI 688 (900)
T ss_dssp --------
T ss_pred eecccccc
Confidence 44555543
No 180
>PF15269 zf-C2H2_7: Zinc-finger
Probab=25.76 E-value=44 Score=23.25 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=20.4
Q ss_pred cceecCCCcccccChhhHHHHHhh
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRT 254 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~ 254 (361)
..|+|-+|..+...+++|-.||+.
T Consensus 19 ~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 19 FKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ccceeecCCcccchHHHHHHHHHH
Confidence 358899999999999999999864
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=25.54 E-value=48 Score=23.23 Aligned_cols=27 Identities=30% Similarity=0.725 Sum_probs=18.0
Q ss_pred cccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCC
Q psy8181 290 ECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQ 328 (361)
Q Consensus 290 ~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~ 328 (361)
.|..|++.|.. ..+.+.|..||+.|-.
T Consensus 4 ~C~~C~~~F~~------------~~rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 4 SCMGCGKPFTL------------TRRRHHCRNCGRIFCS 30 (57)
T ss_pred cCcccCccccC------------CccccccCcCcCCcCh
Confidence 57778887764 1344677778777654
No 182
>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=24.89 E-value=35 Score=28.34 Aligned_cols=10 Identities=30% Similarity=0.816 Sum_probs=4.7
Q ss_pred eeCCCCCccc
Q psy8181 317 YHCEVCPARF 326 (361)
Q Consensus 317 y~C~~Cgk~F 326 (361)
..|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (115)
T TIGR00100 71 CECEDCSEEV 80 (115)
T ss_pred EEcccCCCEE
Confidence 4455555444
No 183
>PRK04351 hypothetical protein; Provisional
Probab=24.83 E-value=38 Score=29.57 Aligned_cols=35 Identities=23% Similarity=0.632 Sum_probs=22.8
Q ss_pred CeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcccCCCC
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKRYISLS 358 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~F~~~s 358 (361)
.|.|..||..+... +.| +.+.|.|..|+-.+....
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~yrCg~C~g~L~~~~ 146 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKRYRCGKCRGKLKLIN 146 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCcEEeCCCCcEeeecc
Confidence 48898898766432 222 346699999987765443
No 184
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.27 E-value=33 Score=26.52 Aligned_cols=33 Identities=21% Similarity=0.582 Sum_probs=20.4
Q ss_pred cceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccc
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSF 270 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F 270 (361)
..|+|..|+..| .+.+||.. ...-.|+.|+..+
T Consensus 11 Y~Y~c~~cg~~~----dvvq~~~d---dplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRF----DVVQAMTD---DPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHH----HHHHhccc---CccccChhhChHH
Confidence 358888898876 44555432 2234688887543
No 185
>KOG0696|consensus
Probab=23.79 E-value=53 Score=33.82 Aligned_cols=75 Identities=31% Similarity=0.522 Sum_probs=0.0
Q ss_pred CCcceecCCCcccccChhhHHHHHhhhcCCCceeCCcccccccchHHHHhhh-hhccCCCCccccccccccCChhHHHHH
Q psy8181 229 GKMHYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTKSFTQLAHLQKHH-LVHTGEKPHECIYCQKRFSSTSNLKTH 307 (361)
Q Consensus 229 ~~k~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk~F~~~~~L~~H~-~~H~gekpf~C~~Cgk~F~s~s~L~~H 307 (361)
|+..|+|.+|..+ .|.+.| .-..|.|+--++.+..-..-..|. +.|+-..+--|..|| ...+
T Consensus 70 gKQGfQCqvC~fv--------vHkrCh-efVtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCG--------sLLy 132 (683)
T KOG0696|consen 70 GKQGFQCQVCCFV--------VHKRCH-EFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCG--------SLLY 132 (683)
T ss_pred ccCceeeeEEeeh--------hhhhhc-ceEEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHH--------HHHH
Q ss_pred HhhhcCCCCeeCCCCC
Q psy8181 308 MRLHSGQKPYHCEVCP 323 (361)
Q Consensus 308 ~r~H~gekpy~C~~Cg 323 (361)
--.|.| .+|..|.
T Consensus 133 Gl~HQG---mKC~~C~ 145 (683)
T KOG0696|consen 133 GLIHQG---MKCDTCD 145 (683)
T ss_pred HHHhcc---ccccccc
No 186
>KOG2807|consensus
Probab=23.52 E-value=1e+02 Score=30.40 Aligned_cols=74 Identities=22% Similarity=0.361 Sum_probs=46.4
Q ss_pred cceecCCCcccccChhhHHHHHhhh-----cCCC-------ceeCCcccccccchHHHHhhhhhccCCCCcccccccccc
Q psy8181 231 MHYECNVCYKTFGQLSNLKVHLRTH-----NGER-------PFQCNICTKSFTQLAHLQKHHLVHTGEKPHECIYCQKRF 298 (361)
Q Consensus 231 k~y~C~~Cgk~F~s~s~L~~H~~~H-----~~ek-------~~~C~~Cgk~F~~~~~L~~H~~~H~gekpf~C~~Cgk~F 298 (361)
.+..|+.|+-+.-..-+|.+-.+-- ..|. .-.|-.|+ ....+...|+|..|...|
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~-------------~~~~~~~~y~C~~Ck~~F 355 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQ-------------GELLSSGRYRCESCKNVF 355 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeec-------------cccCCCCcEEchhcccee
Confidence 4568999999887776665421100 0111 11244451 111233459999999999
Q ss_pred CChhHHHHHHhhhcCCCCeeCCCCC
Q psy8181 299 SSTSNLKTHMRLHSGQKPYHCEVCP 323 (361)
Q Consensus 299 ~s~s~L~~H~r~H~gekpy~C~~Cg 323 (361)
...-+...|...| .|+.|.
T Consensus 356 CldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 356 CLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred eccchHHHHhhhh------cCCCcC
Confidence 9998988888776 577775
No 187
>KOG2272|consensus
Probab=23.42 E-value=1.3e+02 Score=28.81 Aligned_cols=15 Identities=20% Similarity=0.656 Sum_probs=10.2
Q ss_pred CcccCCCCcccCCCC
Q psy8181 344 PYVCKGCNKRYISLS 358 (361)
Q Consensus 344 pYkC~~CgK~F~~~s 358 (361)
-|.|..|++...++.
T Consensus 280 cf~Cs~Cdkkl~~K~ 294 (332)
T KOG2272|consen 280 CFSCSTCDKKLTQKN 294 (332)
T ss_pred ccccccccccccccc
Confidence 477888887765543
No 188
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=23.36 E-value=35 Score=27.32 Aligned_cols=10 Identities=30% Similarity=0.703 Sum_probs=4.2
Q ss_pred cccccccccc
Q psy8181 289 HECIYCQKRF 298 (361)
Q Consensus 289 f~C~~Cgk~F 298 (361)
|.|..|++.|
T Consensus 55 W~C~~C~~~~ 64 (90)
T PTZ00255 55 WRCKGCKKTV 64 (90)
T ss_pred EEcCCCCCEE
Confidence 4444444433
No 189
>KOG1924|consensus
Probab=23.35 E-value=5.3e+02 Score=28.85 Aligned_cols=15 Identities=20% Similarity=0.295 Sum_probs=6.2
Q ss_pred CCCCCccCCCCCCCC
Q psy8181 125 PPSGHISLQSGYHSS 139 (361)
Q Consensus 125 ~~~~~~~~~~~~~~~ 139 (361)
+|+++++--+|.+|+
T Consensus 558 PPPpplPg~aG~PPp 572 (1102)
T KOG1924|consen 558 PPPPPLPGIAGGPPP 572 (1102)
T ss_pred ccCCCCCcccCCCCc
Confidence 333334444444443
No 190
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=23.28 E-value=13 Score=24.99 Aligned_cols=9 Identities=56% Similarity=1.438 Sum_probs=3.7
Q ss_pred cccCCCCcc
Q psy8181 345 YVCKGCNKR 353 (361)
Q Consensus 345 YkC~~CgK~ 353 (361)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 444444433
No 191
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.23 E-value=48 Score=24.37 Aligned_cols=28 Identities=18% Similarity=0.522 Sum_probs=16.2
Q ss_pred cccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccC
Q psy8181 290 ECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFT 327 (361)
Q Consensus 290 ~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~ 327 (361)
.|..||..... ....+.|.|..||..+.
T Consensus 30 ~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 30 TCPRCGHRNKK----------RRSGRVFTCPNCGFEMD 57 (69)
T ss_pred CccCccccccc----------ccccceEEcCCCCCEEC
Confidence 56777655433 12345577777776643
No 192
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=22.94 E-value=53 Score=26.88 Aligned_cols=27 Identities=22% Similarity=0.408 Sum_probs=17.8
Q ss_pred ceecCCCcccccChhhHHHHHhhhcCCCceeCCcccc
Q psy8181 232 HYECNVCYKTFGQLSNLKVHLRTHNGERPFQCNICTK 268 (361)
Q Consensus 232 ~y~C~~Cgk~F~s~s~L~~H~~~H~~ek~~~C~~Cgk 268 (361)
+++|..||..|.+.+.... --|..||.
T Consensus 2 pH~CtrCG~vf~~g~~~il----------~GCp~CG~ 28 (112)
T COG3364 2 PHQCTRCGEVFDDGSEEIL----------SGCPKCGC 28 (112)
T ss_pred CceecccccccccccHHHH----------ccCccccc
Confidence 5688889999887533211 24888874
No 193
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF13451 zf-trcl: Probable zinc-binding domain
Probab=22.24 E-value=34 Score=24.21 Aligned_cols=15 Identities=20% Similarity=0.835 Sum_probs=10.0
Q ss_pred CCCcccCCCCcccCC
Q psy8181 342 ERPYVCKGCNKRYIS 356 (361)
Q Consensus 342 eKpYkC~~CgK~F~~ 356 (361)
++.+.|..||..|..
T Consensus 2 Dk~l~C~dCg~~Fvf 16 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVF 16 (49)
T ss_pred CeeEEcccCCCeEEE
Confidence 356677777777654
No 195
>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=22.10 E-value=27 Score=26.37 Aligned_cols=11 Identities=18% Similarity=0.338 Sum_probs=5.8
Q ss_pred ceecCCCcccc
Q psy8181 232 HYECNVCYKTF 242 (361)
Q Consensus 232 ~y~C~~Cgk~F 242 (361)
.++|+.|++.|
T Consensus 10 ~~~~~cC~~~y 20 (71)
T PF05495_consen 10 AIRFPCCGKYY 20 (71)
T ss_dssp EEEETTTTEEE
T ss_pred EEECCcccCee
Confidence 34555555554
No 196
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=21.99 E-value=34 Score=29.79 Aligned_cols=28 Identities=25% Similarity=0.484 Sum_probs=15.6
Q ss_pred CeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCcc
Q psy8181 316 PYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNKR 353 (361)
Q Consensus 316 py~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK~ 353 (361)
.|.|..||....- .+....-.|+.||..
T Consensus 112 ~l~C~~Cg~~~~~----------~~~~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 112 TLVCENCGHEVEL----------THPERLPPCPKCGHT 139 (146)
T ss_pred eEecccCCCEEEe----------cCCCcCCCCCCCCCC
Confidence 3777777754311 112345567777754
No 197
>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=21.91 E-value=81 Score=32.98 Aligned_cols=15 Identities=13% Similarity=0.350 Sum_probs=9.1
Q ss_pred cCCCcceecCCCccc
Q psy8181 227 KDGKMHYECNVCYKT 241 (361)
Q Consensus 227 ~~~~k~y~C~~Cgk~ 241 (361)
|.......|..||..
T Consensus 235 h~~~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 235 HKKEGKLRCHYCGYQ 249 (505)
T ss_pred ecCCCeEEcCCCcCc
Confidence 334445677777765
No 198
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.52 E-value=57 Score=21.67 Aligned_cols=10 Identities=20% Similarity=0.620 Sum_probs=3.8
Q ss_pred CCcccccccc
Q psy8181 263 CNICTKSFTQ 272 (361)
Q Consensus 263 C~~Cgk~F~~ 272 (361)
|..|+-.+..
T Consensus 22 C~~C~G~W~d 31 (41)
T PF13453_consen 22 CPSCGGIWFD 31 (41)
T ss_pred CCCCCeEEcc
Confidence 3333333333
No 199
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=21.48 E-value=1.1e+02 Score=27.64 Aligned_cols=18 Identities=17% Similarity=0.521 Sum_probs=8.8
Q ss_pred cCCCCeeCCCCCcccCCh
Q psy8181 312 SGQKPYHCEVCPARFTQY 329 (361)
Q Consensus 312 ~gekpy~C~~Cgk~F~~~ 329 (361)
.+..-|.|+.|.-.|+..
T Consensus 109 ~~~~~y~C~~~~~r~sfd 126 (176)
T COG1675 109 TENNYYVCPNCHVKYSFD 126 (176)
T ss_pred ccCCceeCCCCCCcccHH
Confidence 334445565555444433
No 200
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=21.21 E-value=71 Score=22.55 Aligned_cols=12 Identities=17% Similarity=0.750 Sum_probs=6.0
Q ss_pred eeCCCCCcccCC
Q psy8181 317 YHCEVCPARFTQ 328 (361)
Q Consensus 317 y~C~~Cgk~F~~ 328 (361)
++|..||..|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 455555554443
No 201
>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=21.13 E-value=32 Score=27.54 Aligned_cols=10 Identities=30% Similarity=0.863 Sum_probs=4.5
Q ss_pred cccccccccc
Q psy8181 289 HECIYCQKRF 298 (361)
Q Consensus 289 f~C~~Cgk~F 298 (361)
|.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (91)
T TIGR00280 54 WTCRKCGAKF 63 (91)
T ss_pred EEcCCCCCEE
Confidence 4444444443
No 202
>KOG2461|consensus
Probab=21.09 E-value=40 Score=34.25 Aligned_cols=76 Identities=4% Similarity=-0.216 Sum_probs=40.3
Q ss_pred HhhhhhccCCCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCCcccCChHHHHHHHHHhCCCCCcccCCCCc
Q psy8181 277 QKHHLVHTGEKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCPARFTQYVHLKLHKRLHTNERPYVCKGCNK 352 (361)
Q Consensus 277 ~~H~~~H~gekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cgk~F~~~s~L~~H~r~H~~eKpYkC~~CgK 352 (361)
..|...+++.....+..+.+.+.....+..|...+.++..+.+..+...+.....+..++.+|+..+.+.+..|++
T Consensus 320 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 395 (396)
T KOG2461|consen 320 DQSEVPATVSVWTGETIPVRTPAGQLIYTQSHSMEVAEPTDMAPNQIWKIYHTGVLGFLIITTDESECNNMSFVCK 395 (396)
T ss_pred ccccccccccccCcCcccccccccccchhhhhhcccCCCCcccccccccceeccccceeeeeccccccccccccCC
Confidence 3334444444444444444444444445555555555555555554444445555556666677777777766654
No 203
>KOG3408|consensus
Probab=20.72 E-value=52 Score=27.80 Aligned_cols=26 Identities=35% Similarity=0.661 Sum_probs=0.0
Q ss_pred CCCCccccccccccCChhHHHHHHhh
Q psy8181 285 GEKPHECIYCQKRFSSTSNLKTHMRL 310 (361)
Q Consensus 285 gekpf~C~~Cgk~F~s~s~L~~H~r~ 310 (361)
|...|.|..|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
No 204
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=20.51 E-value=68 Score=31.46 Aligned_cols=32 Identities=28% Similarity=0.616 Sum_probs=26.0
Q ss_pred CCCccccccccccCChhHHHHHHhhhcCCCCeeCCCCC
Q psy8181 286 EKPHECIYCQKRFSSTSNLKTHMRLHSGQKPYHCEVCP 323 (361)
Q Consensus 286 ekpf~C~~Cgk~F~s~s~L~~H~r~H~gekpy~C~~Cg 323 (361)
...|+|..|...|...-+...|...| .|..|.
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh------~C~gCe 417 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLH------FCIGCE 417 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHh------hCCCCc
Confidence 34599999999999999999998877 466664
No 205
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=20.29 E-value=43 Score=27.62 Aligned_cols=11 Identities=27% Similarity=0.721 Sum_probs=5.3
Q ss_pred eeCCCCCcccC
Q psy8181 317 YHCEVCPARFT 327 (361)
Q Consensus 317 y~C~~Cgk~F~ 327 (361)
++|..||+.|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PF01155_consen 71 ARCRDCGHEFE 81 (113)
T ss_dssp EEETTTS-EEE
T ss_pred EECCCCCCEEe
Confidence 45555555554
No 206
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.21 E-value=47 Score=27.63 Aligned_cols=10 Identities=30% Similarity=0.876 Sum_probs=4.5
Q ss_pred eeCCCCCccc
Q psy8181 317 YHCEVCPARF 326 (361)
Q Consensus 317 y~C~~Cgk~F 326 (361)
+.|..||..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 4444444443
Done!