Query psy11675
Match_columns 431
No_of_seqs 561 out of 3423
Neff 10.2
Searched_HMMs 46136
Date Fri Aug 16 16:00:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11675.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11675hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 3.9E-32 8.5E-37 259.3 2.8 169 173-341 605-935 (958)
2 KOG1074|consensus 100.0 2.5E-31 5.4E-36 253.8 5.5 227 86-314 605-936 (958)
3 KOG2462|consensus 100.0 5.4E-31 1.2E-35 222.8 6.5 135 199-335 128-265 (279)
4 KOG3608|consensus 100.0 1.6E-28 3.4E-33 212.7 13.8 218 119-341 140-380 (467)
5 KOG2462|consensus 100.0 1.9E-29 4E-34 213.5 7.1 136 170-307 127-265 (279)
6 KOG3608|consensus 100.0 8.4E-28 1.8E-32 208.2 13.3 235 87-326 135-399 (467)
7 KOG3623|consensus 99.9 1.8E-26 4E-31 217.0 8.0 78 257-334 894-971 (1007)
8 KOG3623|consensus 99.9 3.4E-25 7.4E-30 208.5 6.2 104 4-107 210-330 (1007)
9 KOG3576|consensus 99.8 3.6E-20 7.7E-25 148.9 3.2 115 226-340 114-239 (267)
10 KOG3576|consensus 99.7 5.3E-19 1.1E-23 142.2 2.4 116 198-313 114-240 (267)
11 PLN03086 PRLI-interacting fact 99.4 2.7E-13 5.8E-18 130.2 8.3 147 174-339 408-566 (567)
12 PLN03086 PRLI-interacting fact 99.4 2.2E-12 4.7E-17 124.0 9.4 144 144-307 407-562 (567)
13 PHA00733 hypothetical protein 99.3 6.9E-12 1.5E-16 98.4 5.2 84 255-340 38-126 (128)
14 PHA00733 hypothetical protein 99.1 3.5E-11 7.5E-16 94.4 4.0 81 228-310 39-124 (128)
15 KOG3993|consensus 99.0 2.4E-10 5.2E-15 102.9 2.3 193 33-251 268-480 (500)
16 PHA02768 hypothetical protein; 98.9 3.6E-10 7.7E-15 72.3 1.7 42 286-329 6-47 (55)
17 PHA02768 hypothetical protein; 98.9 6.3E-10 1.4E-14 71.2 1.7 43 257-301 5-47 (55)
18 KOG3993|consensus 98.9 2.4E-10 5.3E-15 102.8 -0.6 166 174-339 268-484 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.7 1E-08 2.2E-13 56.1 1.7 23 301-323 2-24 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.4E-08 3.1E-13 55.5 2.2 26 272-297 1-26 (26)
21 PHA00616 hypothetical protein 98.4 1.2E-07 2.6E-12 57.7 2.0 34 285-318 1-34 (44)
22 PHA00616 hypothetical protein 98.4 1.5E-07 3.2E-12 57.3 1.8 34 257-290 1-34 (44)
23 PHA00732 hypothetical protein 98.3 4.7E-07 1E-11 64.2 2.6 47 257-309 1-48 (79)
24 PHA00732 hypothetical protein 98.2 7.5E-07 1.6E-11 63.2 2.5 48 285-338 1-49 (79)
25 PF05605 zf-Di19: Drought indu 98.1 4.3E-06 9.4E-11 55.0 4.1 50 286-338 3-54 (54)
26 PF05605 zf-Di19: Drought indu 97.9 1.5E-05 3.2E-10 52.5 4.4 48 116-166 3-51 (54)
27 KOG1146|consensus 97.9 4.9E-06 1.1E-10 86.2 1.8 74 7-80 439-540 (1406)
28 PF00096 zf-C2H2: Zinc finger, 97.8 1.2E-05 2.6E-10 42.6 1.3 20 315-334 2-21 (23)
29 PF00096 zf-C2H2: Zinc finger, 97.7 2E-05 4.4E-10 41.7 1.7 20 287-306 2-21 (23)
30 KOG2231|consensus 97.7 9.5E-05 2.1E-09 72.9 7.1 120 35-165 118-260 (669)
31 PF13894 zf-C2H2_4: C2H2-type 97.6 4.7E-05 1E-09 40.7 2.2 24 314-337 1-24 (24)
32 PF12756 zf-C2H2_2: C2H2 type 97.6 4.3E-05 9.2E-10 57.9 2.5 74 259-337 1-74 (100)
33 KOG2231|consensus 97.5 0.00025 5.3E-09 70.1 6.7 104 61-177 118-240 (669)
34 PF13894 zf-C2H2_4: C2H2-type 97.5 6.9E-05 1.5E-09 40.0 1.7 23 286-308 1-23 (24)
35 KOG1146|consensus 97.4 3E-05 6.5E-10 80.6 0.1 52 256-307 733-791 (1406)
36 PF12756 zf-C2H2_2: C2H2 type 97.4 8.8E-05 1.9E-09 56.1 2.4 70 7-80 2-72 (100)
37 PF13912 zf-C2H2_6: C2H2-type 97.4 8.4E-05 1.8E-09 41.0 1.7 25 313-337 1-25 (27)
38 COG5189 SFP1 Putative transcri 97.4 4.3E-05 9.4E-10 66.9 0.5 52 283-334 347-419 (423)
39 PF13912 zf-C2H2_6: C2H2-type 97.4 8.5E-05 1.8E-09 41.0 1.3 25 4-28 1-25 (27)
40 COG5189 SFP1 Putative transcri 97.3 5.8E-05 1.3E-09 66.2 0.6 24 254-277 395-418 (423)
41 COG5236 Uncharacterized conser 97.2 0.0032 7E-08 56.2 9.6 132 202-343 152-311 (493)
42 COG5236 Uncharacterized conser 96.9 0.00095 2.1E-08 59.4 4.0 123 33-165 152-302 (493)
43 PF13909 zf-H2C2_5: C2H2-type 96.8 0.0011 2.4E-08 35.3 2.1 24 314-338 1-24 (24)
44 PF09237 GAGA: GAGA factor; I 96.8 0.0005 1.1E-08 42.8 0.7 28 200-227 23-50 (54)
45 smart00355 ZnF_C2H2 zinc finge 96.7 0.0015 3.2E-08 35.3 2.3 18 288-305 3-20 (26)
46 smart00355 ZnF_C2H2 zinc finge 96.6 0.0019 4.1E-08 34.8 2.3 23 5-27 1-23 (26)
47 PF09237 GAGA: GAGA factor; I 96.5 0.0026 5.5E-08 39.8 2.4 26 313-338 24-49 (54)
48 PF12874 zf-met: Zinc-finger o 96.4 0.0017 3.6E-08 35.0 1.1 22 5-26 1-22 (25)
49 PF12874 zf-met: Zinc-finger o 96.3 0.0026 5.7E-08 34.2 1.7 22 314-335 1-22 (25)
50 COG5048 FOG: Zn-finger [Genera 96.2 0.0018 3.9E-08 63.4 1.4 148 173-320 289-453 (467)
51 PRK04860 hypothetical protein; 96.2 0.0018 4E-08 52.9 1.0 36 285-324 119-154 (160)
52 PRK04860 hypothetical protein; 96.2 0.0018 3.8E-08 53.0 0.8 38 257-298 119-156 (160)
53 PF13909 zf-H2C2_5: C2H2-type 96.2 0.0023 5E-08 34.0 1.0 22 286-308 1-22 (24)
54 KOG2785|consensus 96.1 0.01 2.2E-07 54.2 5.4 51 285-335 166-242 (390)
55 KOG2482|consensus 96.0 0.017 3.7E-07 51.7 6.0 139 58-196 144-357 (423)
56 KOG2785|consensus 95.7 0.023 4.9E-07 52.0 5.7 77 86-166 3-90 (390)
57 KOG2482|consensus 95.6 0.017 3.7E-07 51.7 4.5 135 33-167 145-357 (423)
58 PF12171 zf-C2H2_jaz: Zinc-fin 95.4 0.0051 1.1E-07 33.7 0.3 21 314-334 2-22 (27)
59 PF12171 zf-C2H2_jaz: Zinc-fin 95.3 0.0076 1.6E-07 33.0 0.9 21 258-278 2-22 (27)
60 COG5048 FOG: Zn-finger [Genera 95.3 0.0065 1.4E-07 59.4 1.1 152 143-295 288-456 (467)
61 KOG1883|consensus 95.0 0.037 8.1E-07 57.4 5.1 25 402-426 1432-1456(1517)
62 KOG4173|consensus 94.1 0.027 5.8E-07 46.7 1.6 50 58-110 79-130 (253)
63 PF13913 zf-C2HC_2: zinc-finge 94.0 0.049 1.1E-06 29.2 2.0 20 315-335 4-23 (25)
64 KOG4173|consensus 93.7 0.042 9.2E-07 45.5 2.0 78 85-166 78-168 (253)
65 PF13913 zf-C2HC_2: zinc-finge 93.6 0.056 1.2E-06 28.9 1.8 20 5-25 3-22 (25)
66 KOG3598|consensus 93.5 0.015 3.3E-07 61.4 -0.9 6 300-305 1991-1996(2220)
67 KOG4369|consensus 93.4 0.39 8.5E-06 50.5 8.6 32 397-428 1853-1884(2131)
68 TIGR00622 ssl1 transcription f 93.1 0.17 3.8E-06 38.2 4.3 24 285-308 81-104 (112)
69 smart00451 ZnF_U1 U1-like zinc 92.7 0.085 1.8E-06 30.8 1.8 23 313-335 3-25 (35)
70 smart00451 ZnF_U1 U1-like zinc 92.5 0.079 1.7E-06 30.9 1.5 22 4-25 3-24 (35)
71 KOG2893|consensus 92.0 0.3 6.6E-06 41.6 4.8 42 259-304 12-53 (341)
72 TIGR00622 ssl1 transcription f 91.8 0.29 6.3E-06 37.0 4.1 25 257-281 81-105 (112)
73 PF12013 DUF3505: Protein of u 91.5 0.25 5.3E-06 37.9 3.6 25 314-338 81-109 (109)
74 KOG1280|consensus 91.4 0.64 1.4E-05 42.2 6.5 25 229-253 79-103 (381)
75 cd00350 rubredoxin_like Rubred 91.4 0.085 1.9E-06 30.4 0.7 10 312-321 16-25 (33)
76 PRK10350 hypothetical protein; 90.5 0.34 7.4E-06 36.8 3.4 10 398-407 35-44 (145)
77 PRK10350 hypothetical protein; 90.3 0.66 1.4E-05 35.3 4.7 28 392-419 36-63 (145)
78 PF12013 DUF3505: Protein of u 90.3 0.44 9.5E-06 36.5 4.0 53 257-310 11-109 (109)
79 COG4049 Uncharacterized protei 89.7 0.17 3.7E-06 32.3 1.0 31 309-339 13-43 (65)
80 COG4049 Uncharacterized protei 88.9 0.24 5.1E-06 31.6 1.2 24 2-25 15-38 (65)
81 KOG2893|consensus 88.2 0.18 3.8E-06 43.0 0.5 42 146-192 12-53 (341)
82 KOG2186|consensus 87.1 0.34 7.3E-06 41.9 1.5 46 5-53 4-49 (276)
83 KOG2186|consensus 84.7 0.57 1.2E-05 40.5 1.8 48 286-336 4-51 (276)
84 cd00729 rubredoxin_SM Rubredox 84.7 0.41 8.9E-06 27.8 0.6 10 286-295 3-12 (34)
85 PF10956 DUF2756: Protein of u 84.5 1.9 4.1E-05 31.4 4.0 14 397-410 34-47 (104)
86 KOG4369|consensus 84.3 1.5 3.3E-05 46.4 4.8 35 394-428 1854-1888(2131)
87 PF09538 FYDLN_acid: Protein o 80.2 1.2 2.7E-05 33.7 1.9 10 175-184 11-20 (108)
88 KOG1280|consensus 79.8 1.7 3.6E-05 39.6 2.9 28 256-283 78-105 (381)
89 smart00659 RPOLCX RNA polymera 79.3 0.82 1.8E-05 28.3 0.6 26 5-41 3-28 (44)
90 PF09538 FYDLN_acid: Protein o 79.1 1.2 2.7E-05 33.7 1.6 30 145-186 10-39 (108)
91 PF02892 zf-BED: BED zinc fing 76.9 1.8 3.9E-05 26.8 1.7 25 313-337 16-44 (45)
92 PF10571 UPF0547: Uncharacteri 76.6 1.7 3.7E-05 23.4 1.3 8 260-267 17-24 (26)
93 PF09986 DUF2225: Uncharacteri 76.1 1.2 2.6E-05 38.7 0.9 21 173-193 5-25 (214)
94 COG1592 Rubrerythrin [Energy p 75.0 1.5 3.3E-05 35.9 1.2 23 285-320 134-156 (166)
95 PF02176 zf-TRAF: TRAF-type zi 73.1 2.1 4.6E-05 28.4 1.4 27 298-324 23-53 (60)
96 KOG2133|consensus 72.7 4.7 0.0001 42.0 4.1 24 408-431 1171-1194(1229)
97 PF09986 DUF2225: Uncharacteri 72.4 1 2.2E-05 39.1 -0.4 23 199-221 3-25 (214)
98 smart00734 ZnF_Rad18 Rad18-lik 71.8 3.7 7.9E-05 22.1 1.8 20 315-335 3-22 (26)
99 PF05443 ROS_MUCR: ROS/MUCR tr 71.6 2.3 5.1E-05 33.5 1.4 24 4-30 72-95 (132)
100 TIGR00373 conserved hypothetic 70.9 3.3 7.1E-05 34.0 2.3 30 284-322 108-137 (158)
101 TIGR02098 MJ0042_CXXC MJ0042 f 69.4 2.7 5.8E-05 24.9 1.1 9 145-153 26-34 (38)
102 smart00834 CxxC_CXXC_SSSS Puta 69.3 2.3 5E-05 25.6 0.8 11 174-184 6-16 (41)
103 TIGR02605 CxxC_CxxC_SSSS putat 69.1 2.3 5E-05 27.3 0.8 11 174-184 6-16 (52)
104 PF13719 zinc_ribbon_5: zinc-r 68.5 3.3 7.2E-05 24.5 1.3 9 145-153 26-34 (37)
105 PRK00398 rpoP DNA-directed RNA 68.4 2.3 5E-05 26.6 0.7 9 145-153 4-12 (46)
106 PF13717 zinc_ribbon_4: zinc-r 68.2 3.6 7.8E-05 24.2 1.4 10 145-154 26-35 (36)
107 smart00531 TFIIE Transcription 67.8 3.7 8E-05 33.3 1.9 36 57-96 98-133 (147)
108 PF06524 NOA36: NOA36 protein; 66.8 3.4 7.5E-05 36.0 1.6 40 112-152 139-179 (314)
109 PRK00464 nrdR transcriptional 66.7 1.7 3.7E-05 35.3 -0.2 12 202-213 29-40 (154)
110 TIGR02300 FYDLN_acid conserved 66.1 4 8.8E-05 31.5 1.7 13 172-184 25-37 (129)
111 TIGR02300 FYDLN_acid conserved 65.9 4.7 0.0001 31.2 2.0 8 176-183 12-19 (129)
112 PF02176 zf-TRAF: TRAF-type zi 65.2 3.3 7.2E-05 27.4 1.0 39 257-296 9-53 (60)
113 TIGR00373 conserved hypothetic 65.0 6.1 0.00013 32.5 2.7 16 59-74 110-125 (158)
114 PRK06266 transcription initiat 65.0 4.6 0.0001 33.9 2.0 30 284-322 116-145 (178)
115 smart00531 TFIIE Transcription 64.8 5.4 0.00012 32.3 2.4 14 285-298 99-112 (147)
116 KOG2272|consensus 64.7 2.6 5.6E-05 36.5 0.5 121 32-157 99-234 (332)
117 PF03604 DNA_RNApol_7kD: DNA d 64.3 4.4 9.6E-05 23.1 1.2 6 175-180 19-24 (32)
118 COG1592 Rubrerythrin [Energy p 63.7 3.7 8.1E-05 33.7 1.2 23 257-292 134-156 (166)
119 PRK00464 nrdR transcriptional 63.2 1.9 4.1E-05 35.1 -0.6 14 230-243 29-42 (154)
120 smart00614 ZnF_BED BED zinc fi 61.7 6.7 0.00015 25.0 1.9 23 315-337 20-47 (50)
121 PF09723 Zn-ribbon_8: Zinc rib 61.5 3.7 8.1E-05 25.1 0.6 11 174-184 6-16 (42)
122 KOG1044|consensus 61.4 0.49 1.1E-05 45.9 -4.8 133 86-245 91-234 (670)
123 PHA00626 hypothetical protein 61.4 4.4 9.5E-05 26.2 1.0 10 202-211 24-33 (59)
124 COG2888 Predicted Zn-ribbon RN 61.3 5.9 0.00013 26.0 1.5 7 87-93 28-34 (61)
125 COG1996 RPC10 DNA-directed RNA 60.9 3 6.5E-05 26.3 0.2 11 4-14 6-16 (49)
126 KOG4592|consensus 59.9 5.6 0.00012 39.3 1.8 9 401-409 149-157 (728)
127 KOG2807|consensus 59.4 13 0.00028 33.9 3.8 88 200-320 275-374 (378)
128 PRK06266 transcription initiat 59.3 8.2 0.00018 32.4 2.6 30 58-96 117-146 (178)
129 COG1198 PriA Primosomal protei 58.7 7.2 0.00016 40.4 2.5 10 284-293 474-483 (730)
130 PF04959 ARS2: Arsenite-resist 57.6 6.8 0.00015 33.8 1.8 26 313-338 77-102 (214)
131 KOG1701|consensus 57.3 2.1 4.5E-05 40.2 -1.4 35 34-68 276-312 (468)
132 PRK14890 putative Zn-ribbon RN 57.2 5.5 0.00012 26.2 0.9 51 3-67 6-57 (59)
133 PRK09678 DNA-binding transcrip 55.4 4.4 9.5E-05 28.1 0.2 8 178-185 34-41 (72)
134 COG1198 PriA Primosomal protei 54.9 7.8 0.00017 40.1 2.0 11 174-184 436-446 (730)
135 KOG4167|consensus 54.5 4.1 9E-05 41.0 0.0 25 4-28 792-816 (907)
136 PF14353 CpXC: CpXC protein 54.4 9.2 0.0002 30.1 2.0 22 171-192 36-57 (128)
137 PF06524 NOA36: NOA36 protein; 54.3 4.1 9E-05 35.5 -0.0 25 311-335 207-231 (314)
138 KOG2071|consensus 53.3 9.1 0.0002 37.9 2.1 28 254-281 415-442 (579)
139 PF12907 zf-met2: Zinc-binding 53.1 9.9 0.00021 22.9 1.5 9 131-139 20-28 (40)
140 PRK04023 DNA polymerase II lar 52.9 12 0.00027 39.6 3.0 9 230-238 627-635 (1121)
141 KOG2593|consensus 51.6 13 0.00029 35.3 2.8 36 57-95 127-162 (436)
142 COG4957 Predicted transcriptio 50.9 7.8 0.00017 30.2 1.0 24 5-31 77-100 (148)
143 PRK04023 DNA polymerase II lar 50.8 15 0.00033 38.9 3.3 49 201-296 626-674 (1121)
144 KOG4377|consensus 50.8 7 0.00015 36.6 0.9 26 314-339 402-429 (480)
145 KOG2675|consensus 50.7 34 0.00075 32.6 5.3 11 328-338 198-208 (480)
146 COG1997 RPL43A Ribosomal prote 50.7 5 0.00011 28.7 -0.1 14 85-98 52-65 (89)
147 COG4896 Uncharacterized protei 50.2 8.8 0.00019 25.2 1.0 38 6-43 4-42 (68)
148 COG5151 SSL1 RNA polymerase II 49.8 12 0.00027 33.6 2.1 47 260-308 365-411 (421)
149 PF05443 ROS_MUCR: ROS/MUCR tr 48.8 9.6 0.00021 30.1 1.2 23 314-339 73-95 (132)
150 PF04959 ARS2: Arsenite-resist 48.5 12 0.00025 32.4 1.8 29 83-111 74-102 (214)
151 KOG2807|consensus 47.5 17 0.00038 33.0 2.7 87 173-292 276-374 (378)
152 KOG2593|consensus 46.9 20 0.00044 34.1 3.2 38 83-124 125-162 (436)
153 PF13451 zf-trcl: Probable zin 46.7 13 0.00028 23.6 1.3 13 85-97 3-15 (49)
154 PF13878 zf-C2H2_3: zinc-finge 45.5 18 0.00039 22.0 1.8 25 32-56 13-39 (41)
155 PF08274 PhnA_Zn_Ribbon: PhnA 45.0 7.4 0.00016 21.8 0.1 10 312-321 18-27 (30)
156 PF05191 ADK_lid: Adenylate ki 44.6 16 0.00035 21.4 1.5 8 176-183 4-11 (36)
157 PF09845 DUF2072: Zn-ribbon co 44.1 11 0.00024 29.5 0.9 15 285-299 1-15 (131)
158 cd00730 rubredoxin Rubredoxin; 43.3 16 0.00034 23.4 1.3 11 174-184 2-12 (50)
159 COG4530 Uncharacterized protei 42.9 15 0.00033 27.4 1.4 11 229-239 26-36 (129)
160 PF05290 Baculo_IE-1: Baculovi 42.8 11 0.00024 29.4 0.7 17 226-242 77-93 (140)
161 KOG4167|consensus 42.7 7 0.00015 39.5 -0.4 26 57-82 791-816 (907)
162 KOG2071|consensus 42.7 22 0.00047 35.4 2.8 27 199-225 416-442 (579)
163 KOG4407|consensus 41.8 20 0.00044 39.1 2.6 14 412-425 361-374 (1973)
164 PF15269 zf-C2H2_7: Zinc-finge 41.4 17 0.00036 22.3 1.2 23 4-26 20-42 (54)
165 PF00301 Rubredoxin: Rubredoxi 41.0 22 0.00048 22.3 1.8 12 174-185 2-13 (47)
166 smart00440 ZnF_C2C2 C2C2 Zinc 39.9 9.5 0.00021 23.0 -0.0 10 202-211 29-38 (40)
167 KOG4377|consensus 39.8 27 0.00059 32.9 2.8 18 207-224 279-296 (480)
168 PF05495 zf-CHY: CHY zinc fing 39.4 6.1 0.00013 27.4 -1.1 34 282-323 38-71 (71)
169 TIGR00595 priA primosomal prot 39.1 21 0.00045 35.7 2.2 11 227-237 238-248 (505)
170 KOG0608|consensus 38.9 44 0.00096 34.0 4.3 8 424-431 435-442 (1034)
171 PF01096 TFIIS_C: Transcriptio 38.7 5.2 0.00011 24.0 -1.3 10 202-211 29-38 (39)
172 KOG2932|consensus 36.1 54 0.0012 29.7 4.0 28 311-338 142-172 (389)
173 COG5188 PRP9 Splicing factor 3 36.0 26 0.00055 32.3 2.0 61 228-288 237-406 (470)
174 KOG3408|consensus 35.8 21 0.00046 27.3 1.3 26 254-279 54-79 (129)
175 PRK14714 DNA polymerase II lar 35.5 31 0.00067 37.8 2.8 12 285-296 692-703 (1337)
176 PF09416 UPF1_Zn_bind: RNA hel 35.4 30 0.00064 28.0 2.1 39 284-322 13-69 (152)
177 PRK00432 30S ribosomal protein 34.3 19 0.00041 23.0 0.7 8 87-94 38-45 (50)
178 COG3357 Predicted transcriptio 34.3 27 0.00058 25.2 1.5 12 174-185 59-70 (97)
179 PF14446 Prok-RING_1: Prokaryo 33.8 29 0.00064 22.5 1.5 9 146-154 7-15 (54)
180 COG0068 HypF Hydrogenase matur 33.5 9 0.00019 38.9 -1.3 28 35-66 154-181 (750)
181 COG5151 SSL1 RNA polymerase II 33.5 23 0.00049 32.0 1.3 74 31-106 321-408 (421)
182 KOG4124|consensus 33.4 8.6 0.00019 35.2 -1.3 25 199-223 347-373 (442)
183 PRK03824 hypA hydrogenase nick 31.9 25 0.00054 28.0 1.2 10 174-183 71-80 (135)
184 PRK14714 DNA polymerase II lar 31.9 44 0.00096 36.7 3.3 8 174-181 668-675 (1337)
185 PF12760 Zn_Tnp_IS1595: Transp 31.8 62 0.0014 20.0 2.8 8 174-181 19-26 (46)
186 PRK14873 primosome assembly pr 31.4 29 0.00064 35.9 1.9 7 286-292 423-429 (665)
187 PF01363 FYVE: FYVE zinc finge 31.4 22 0.00047 24.3 0.7 9 259-267 11-19 (69)
188 PF07754 DUF1610: Domain of un 31.1 20 0.00044 18.9 0.4 7 286-292 17-23 (24)
189 KOG4124|consensus 30.9 8.4 0.00018 35.2 -1.8 52 284-335 348-420 (442)
190 PF01286 XPA_N: XPA protein N- 30.6 8.6 0.00019 22.2 -1.2 8 35-42 6-13 (34)
191 PF13453 zf-TFIIB: Transcripti 30.0 23 0.0005 21.3 0.6 21 311-331 17-37 (41)
192 PTZ00255 60S ribosomal protein 29.9 23 0.0005 25.8 0.6 10 286-295 55-64 (90)
193 COG4888 Uncharacterized Zn rib 29.6 19 0.00042 26.5 0.2 12 172-183 21-32 (104)
194 COG1571 Predicted DNA-binding 29.6 34 0.00074 32.8 1.8 13 229-241 367-379 (421)
195 PF07503 zf-HYPF: HypF finger; 29.1 13 0.00029 21.7 -0.6 12 55-66 18-29 (35)
196 PF08790 zf-LYAR: LYAR-type C2 28.9 14 0.0003 20.3 -0.5 9 259-267 2-10 (28)
197 COG1655 Uncharacterized protei 28.9 15 0.00033 31.6 -0.5 9 286-294 63-71 (267)
198 TIGR01206 lysW lysine biosynth 28.8 26 0.00057 22.8 0.7 8 146-153 4-11 (54)
199 COG0068 HypF Hydrogenase matur 28.7 4.3 9.3E-05 41.1 -4.3 12 60-71 125-136 (750)
200 PF09963 DUF2197: Uncharacteri 28.6 25 0.00055 23.0 0.6 10 143-152 30-39 (56)
201 KOG1819|consensus 28.5 55 0.0012 31.7 3.0 15 405-419 815-829 (990)
202 PRK05580 primosome assembly pr 28.4 38 0.00082 35.3 2.1 7 258-264 409-415 (679)
203 PF12773 DZR: Double zinc ribb 28.0 44 0.00096 21.0 1.7 7 176-182 15-21 (50)
204 KOG2675|consensus 26.7 1.2E+02 0.0027 29.1 4.8 9 301-309 199-207 (480)
205 TIGR00280 L37a ribosomal prote 26.6 24 0.00053 25.7 0.3 10 286-295 54-63 (91)
206 PF07282 OrfB_Zn_ribbon: Putat 26.5 37 0.00079 23.2 1.2 13 312-324 45-57 (69)
207 PF04780 DUF629: Protein of un 26.5 53 0.0012 32.1 2.6 28 85-112 56-83 (466)
208 COG1656 Uncharacterized conser 26.4 43 0.00092 27.5 1.6 16 86-101 130-145 (165)
209 PF01780 Ribosomal_L37ae: Ribo 26.4 7.5 0.00016 28.2 -2.4 12 86-97 53-64 (90)
210 PF08271 TF_Zn_Ribbon: TFIIB z 26.1 32 0.00069 21.0 0.7 8 174-181 20-27 (43)
211 COG1571 Predicted DNA-binding 25.9 43 0.00093 32.1 1.8 30 259-299 352-381 (421)
212 cd00065 FYVE FYVE domain; Zinc 25.7 40 0.00087 21.8 1.2 11 314-324 19-29 (57)
213 PF15289 RFXA_RFXANK_bdg: Regu 24.9 62 0.0014 24.9 2.1 24 405-428 98-121 (124)
214 TIGR00595 priA primosomal prot 24.6 53 0.0011 32.9 2.3 48 175-238 215-262 (505)
215 KOG2272|consensus 24.0 39 0.00084 29.6 1.0 92 4-100 137-235 (332)
216 PF08209 Sgf11: Sgf11 (transcr 23.9 69 0.0015 18.4 1.7 24 314-338 5-28 (33)
217 PF14445 Prok-RING_2: Prokaryo 23.9 27 0.00059 22.0 0.1 11 33-43 8-18 (57)
218 smart00661 RPOL9 RNA polymeras 23.8 40 0.00087 21.3 0.9 12 173-184 20-31 (52)
219 PF01213 CAP_N: Adenylate cycl 23.5 58 0.0012 30.2 2.1 13 326-338 192-204 (312)
220 KOG2636|consensus 23.3 52 0.0011 31.5 1.8 26 27-52 396-422 (497)
221 PRK03564 formate dehydrogenase 23.0 24 0.00053 32.4 -0.3 8 286-293 253-260 (309)
222 KOG3408|consensus 22.9 56 0.0012 25.1 1.6 24 284-307 56-79 (129)
223 COG3364 Zn-ribbon containing p 22.9 54 0.0012 24.3 1.4 12 286-297 3-14 (112)
224 PF04780 DUF629: Protein of un 22.7 59 0.0013 31.8 2.1 28 312-339 56-83 (466)
225 smart00154 ZnF_AN1 AN1-like Zi 22.6 39 0.00083 20.2 0.6 14 313-326 12-25 (39)
226 PF07800 DUF1644: Protein of u 22.4 2.6E+02 0.0057 22.9 5.3 17 127-143 120-136 (162)
227 PRK14873 primosome assembly pr 22.4 55 0.0012 34.0 1.9 44 175-238 385-431 (665)
228 smart00132 LIM Zinc-binding do 22.1 12 0.00026 21.8 -1.8 14 55-68 24-37 (39)
229 KOG4368|consensus 21.8 2.4E+02 0.0052 28.3 5.9 9 399-407 58-66 (757)
230 COG2331 Uncharacterized protei 21.7 35 0.00075 23.8 0.2 10 33-42 13-22 (82)
231 PRK03976 rpl37ae 50S ribosomal 21.6 33 0.00071 25.0 0.1 10 286-295 55-64 (90)
232 TIGR00100 hypA hydrogenase nic 21.6 44 0.00096 25.7 0.9 9 175-183 72-80 (115)
233 smart00064 FYVE Protein presen 21.5 45 0.00097 22.6 0.8 11 314-324 27-37 (68)
234 PF03107 C1_2: C1 domain; Int 21.4 61 0.0013 17.9 1.2 7 258-264 16-22 (30)
235 COG3677 Transposase and inacti 21.1 59 0.0013 25.6 1.5 15 84-98 51-65 (129)
236 PF15135 UPF0515: Uncharacteri 21.0 55 0.0012 28.7 1.3 58 200-270 111-168 (278)
237 PF11931 DUF3449: Domain of un 20.9 33 0.00071 29.2 0.0 23 30-52 99-122 (196)
238 PF13248 zf-ribbon_3: zinc-rib 20.7 44 0.00095 17.8 0.5 6 147-152 5-10 (26)
239 PRK12380 hydrogenase nickel in 20.6 50 0.0011 25.3 1.0 10 174-183 71-80 (113)
240 PRK14559 putative protein seri 20.1 87 0.0019 32.3 2.8 7 176-182 18-24 (645)
241 KOG1842|consensus 20.1 57 0.0012 31.3 1.4 27 116-142 16-42 (505)
No 1
>KOG1074|consensus
Probab=99.97 E-value=3.9e-32 Score=259.27 Aligned_cols=169 Identities=31% Similarity=0.590 Sum_probs=127.5
Q ss_pred ccccCcccccccCchhhhhhhccccCCCCccCCCcccccCChhHHHHHhhhhcCC----CCCCCC---CCCccccChHHH
Q psy11675 173 LFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSEN----KCFQCK---YCPKTFTLRKHL 245 (431)
Q Consensus 173 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----~~~~C~---~C~~~f~~~~~l 245 (431)
+..|-+|-++..-.+.|+.|.+.|+||+||+|.+||+.|.++.+|+.|+.+|... -.|.|+ +|-+.|...-.|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 3567777777777777777777777777777777777777777777777766543 346677 777777777777
Q ss_pred HHHHHhcCCC-C------------CccccccccccCChHHHHHHHhhhCCC-----------------------------
Q psy11675 246 KAHTNKHEGV-L------------PHTCLECSKCFSTKSELNRHAQIHGGV----------------------------- 283 (431)
Q Consensus 246 ~~H~~~h~~~-~------------~~~C~~C~~~f~~~~~l~~H~~~h~~~----------------------------- 283 (431)
..|+++|.+. . .-.|..|.+.|.+...+..++..|.+.
T Consensus 685 pQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~ 764 (958)
T KOG1074|consen 685 PQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCG 764 (958)
T ss_pred cceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccccc
Confidence 7777776621 1 135677777776666666665444110
Q ss_pred --------------------------------------------------------------------------------
Q psy11675 284 -------------------------------------------------------------------------------- 283 (431)
Q Consensus 284 -------------------------------------------------------------------------------- 283 (431)
T Consensus 765 ~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~ 844 (958)
T KOG1074|consen 765 RELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATK 844 (958)
T ss_pred cccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccccc
Confidence
Q ss_pred ---------------------------------CCcccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHHH
Q psy11675 284 ---------------------------------KPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYI 330 (431)
Q Consensus 284 ---------------------------------~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 330 (431)
....|.+||+.|...++|..|+++|+|+|||.|.+|++.|..+.+|+
T Consensus 845 ~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLK 924 (958)
T KOG1074|consen 845 TNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLK 924 (958)
T ss_pred cccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhh
Confidence 00679999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCccc
Q psy11675 331 KHLEIVHGVIT 341 (431)
Q Consensus 331 ~H~~~~h~~~~ 341 (431)
.||.+|+.+.+
T Consensus 925 vHMgtH~w~q~ 935 (958)
T KOG1074|consen 925 VHMGTHMWVQP 935 (958)
T ss_pred hhhccccccCC
Confidence 99998887544
No 2
>KOG1074|consensus
Probab=99.97 E-value=2.5e-31 Score=253.82 Aligned_cols=227 Identities=25% Similarity=0.477 Sum_probs=167.6
Q ss_pred ccccCCCCcccCCHHHHHHHHHhhccCCCCcccccccccccChhHHHHHHhhhcCCC----CCcccC---cchhhcCChh
Q psy11675 86 LFSCNFCLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGELDSHVQTSHRGI----KPYVCE---ICSKAFTQQY 158 (431)
Q Consensus 86 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~----~~~~C~---~C~~~f~~~~ 158 (431)
+-.|-+|.+...-.+.|..|. +.|++++||+|.+||+.|.++..|+.|+ ..|... ..+.|+ +|-+.|.+..
T Consensus 605 PNqCiiC~rVlSC~saLqmHy-rtHtGERPFkCKiCgRAFtTkGNLkaH~-~vHka~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHY-RTHTGERPFKCKICGRAFTTKGNLKAHM-SVHKAKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred ccceeeeeecccchhhhhhhh-hcccCcCccccccccchhccccchhhcc-cccccCccccccccCCchhhhcccccccc
Confidence 467999999999999999998 5799999999999999999999999998 456543 457899 9999999999
Q ss_pred HHHHHHHhhCCCCC------------ccccCcccccccCchhhhhhhcccc----------------CCC----CccCCC
Q psy11675 159 NLKHHLLLHGDGNS------------LFRCDQCGKAFSRKGHLVQHSFVHG----------------GEK----PFKCSY 206 (431)
Q Consensus 159 ~l~~H~~~h~~~~~------------~~~C~~C~~~f~~~~~l~~H~~~h~----------------~~~----~~~C~~ 206 (431)
.|..|+++|..+.. .-+|..|.+.|.....+..++..+. ++. +..+..
T Consensus 683 ~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~ 762 (958)
T KOG1074|consen 683 TLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENS 762 (958)
T ss_pred cccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccc
Confidence 99999998852221 1368899999988777777766552 222 466788
Q ss_pred cccccCChhHHHHHhh-----------------------hhcCCCCC-CCCCCCccccChHHHH-----HH-------H-
Q psy11675 207 CPKAFSHKGHLNEHLY-----------------------THSENKCF-QCKYCPKTFTLRKHLK-----AH-------T- 249 (431)
Q Consensus 207 C~~~f~~~~~l~~H~~-----------------------~h~~~~~~-~C~~C~~~f~~~~~l~-----~H-------~- 249 (431)
|+..+.....+..+-. ..+++++. .+..++......-... .- .
T Consensus 763 ~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~ 842 (958)
T KOG1074|consen 763 CGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLA 842 (958)
T ss_pred cccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccc
Confidence 8887766655443321 12344555 5555553332211000 00 0
Q ss_pred -----HhcC---------C---------------CCCccccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHH
Q psy11675 250 -----NKHE---------G---------------VLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQ 300 (431)
Q Consensus 250 -----~~h~---------~---------------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 300 (431)
.++. + .....|..|++.|.+.++|..|+|+|+|+|||.|.+|++.|..+.+
T Consensus 843 t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgn 922 (958)
T KOG1074|consen 843 TKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGN 922 (958)
T ss_pred cccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhh
Confidence 0000 0 0126899999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCc
Q psy11675 301 LQNHLYTHSKVKPY 314 (431)
Q Consensus 301 L~~H~~~h~~~~~~ 314 (431)
|+.||.+|....++
T Consensus 923 LKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 923 LKVHMGTHMWVQPP 936 (958)
T ss_pred hhhhhccccccCCC
Confidence 99999999987655
No 3
>KOG2462|consensus
Probab=99.97 E-value=5.4e-31 Score=222.80 Aligned_cols=135 Identities=39% Similarity=0.729 Sum_probs=123.4
Q ss_pred CCCccCCCcccccCChhHHHHHhhhhcC---CCCCCCCCCCccccChHHHHHHHHhcCCCCCccccccccccCChHHHHH
Q psy11675 199 EKPFKCSYCPKAFSHKGHLNEHLYTHSE---NKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNR 275 (431)
Q Consensus 199 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 275 (431)
...|+|+.||+.+.+.++|.+|..+|-. .+.+.|++|++.|.+-..|+.|+++|+ .+++|.+|||.|....-|.-
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhc
Confidence 3458888888888888888888888753 567899999999999999999999987 78999999999999999999
Q ss_pred HHhhhCCCCCcccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHHHHHHHH
Q psy11675 276 HAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 276 H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 335 (431)
|+|+|+|||||.|..|+++|.++++|+.||.+|.+.|+|.|..|+++|..++-|.+|...
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999875
No 4
>KOG3608|consensus
Probab=99.96 E-value=1.6e-28 Score=212.69 Aligned_cols=218 Identities=27% Similarity=0.578 Sum_probs=187.3
Q ss_pred ccccccccChhHHHHHHhhhcC------------CCC-Cccc--CcchhhcCChhHHHHHHHhhCCCCCccccCcccccc
Q psy11675 119 EECDKYYLSQGELDSHVQTSHR------------GIK-PYVC--EICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAF 183 (431)
Q Consensus 119 ~~C~~~f~~~~~l~~H~~~~h~------------~~~-~~~C--~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 183 (431)
+.|+..|.+..++.+|+. .|. +++ .+.| ..|.+.|.++..|+.|++.|. +++...|+.||..|
T Consensus 140 edCe~~F~s~~ef~dHV~-~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs-~eKvvACp~Cg~~F 217 (467)
T KOG3608|consen 140 EDCEREFVSIVEFQDHVV-KHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHS-NEKVVACPHCGELF 217 (467)
T ss_pred hhcCCcccCHHHHHHHHH-HhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcC-CCeEEecchHHHHh
Confidence 457777777777777763 232 121 2344 569999999999999999995 88889999999999
Q ss_pred cCchhhhhhhccc--cCCCCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHh-cCCCCCccc
Q psy11675 184 SRKGHLVQHSFVH--GGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNK-HEGVLPHTC 260 (431)
Q Consensus 184 ~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C 260 (431)
+++..|..|++.- ....+|.|..|.+.|.+...|..|+..|. ..|+|+.|+.+....+.|..|++. |..++||+|
T Consensus 218 ~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKC 295 (467)
T KOG3608|consen 218 RTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKC 295 (467)
T ss_pred ccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccc
Confidence 9999999998754 34568999999999999999999999885 459999999999999999999885 888999999
Q ss_pred cccccccCChHHHHHHHhhhCCCCCccccc--chhhccChHHHHHHHHhcC-CC--CCcccccccccccChHHHHHHHHH
Q psy11675 261 LECSKCFSTKSELNRHAQIHGGVKPFACTV--CNKSFLQKTQLQNHLYTHS-KV--KPYNCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 261 ~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~-~~--~~~~C~~C~~~f~~~~~l~~H~~~ 335 (431)
+.|++.|.+.++|.+|+.+|+ +..|.|.. |.++|.+...|.+|++.++ |. -+|.|..|++.|++-.+|..|+..
T Consensus 296 d~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 296 DECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMK 374 (467)
T ss_pred cchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHH
Confidence 999999999999999999998 67899988 9999999999999998765 43 569999999999999999999999
Q ss_pred hcCccc
Q psy11675 336 VHGVIT 341 (431)
Q Consensus 336 ~h~~~~ 341 (431)
.|+...
T Consensus 375 kH~f~~ 380 (467)
T KOG3608|consen 375 KHGFRL 380 (467)
T ss_pred hhcccC
Confidence 998643
No 5
>KOG2462|consensus
Probab=99.96 E-value=1.9e-29 Score=213.47 Aligned_cols=136 Identities=34% Similarity=0.688 Sum_probs=125.3
Q ss_pred CCCccccCcccccccCchhhhhhhccccC---CCCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHH
Q psy11675 170 GNSLFRCDQCGKAFSRKGHLVQHSFVHGG---EKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLK 246 (431)
Q Consensus 170 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 246 (431)
....|+|+.||+.+.+.++|.+|...|-. .+.+.|++||+.|.+...|..|+++|+ -+++|.+|||.|.....|.
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 34568999999999999999999988854 567999999999999999999999987 6789999999999999999
Q ss_pred HHHHhcCCCCCccccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHHHHHHh
Q psy11675 247 AHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYT 307 (431)
Q Consensus 247 ~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 307 (431)
-|+|+|+|||||.|..|+|+|.++++|+.||++|.+.|+|.|..|+|+|...+.|.+|...
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999999999999999999999999999764
No 6
>KOG3608|consensus
Probab=99.95 E-value=8.4e-28 Score=208.18 Aligned_cols=235 Identities=26% Similarity=0.466 Sum_probs=189.4
Q ss_pred cccC--CCCcccCCHHHHHHHHHhhcc------------CCCC-ccc--ccccccccChhHHHHHHhhhcCCCCCcccCc
Q psy11675 87 FSCN--FCLKPFLRKDLLEAHVNSVHK------------DVKK-YNC--EECDKYYLSQGELDSHVQTSHRGIKPYVCEI 149 (431)
Q Consensus 87 ~~C~--~C~~~f~~~~~l~~H~~~~h~------------~~~~-~~C--~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~ 149 (431)
|.|. .|+..|.+...+..|+. .|. ++++ +.| ..|...|.++..|++|++ .|++++...|+.
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~-~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r-~Hs~eKvvACp~ 212 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVV-KHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIR-THSNEKVVACPH 212 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHH-HhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHH-hcCCCeEEecch
Confidence 5554 37777777777777763 231 1212 344 458888999999999984 699999999999
Q ss_pred chhhcCChhHHHHHHHhhC-CCCCccccCcccccccCchhhhhhhccccCCCCccCCCcccccCChhHHHHHhh-hhcCC
Q psy11675 150 CSKAFTQQYNLKHHLLLHG-DGNSLFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLY-THSEN 227 (431)
Q Consensus 150 C~~~f~~~~~l~~H~~~h~-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~-~h~~~ 227 (431)
||..|.+...|-.|++... ....+|.|..|.|.|.+...|..|+..|.. -|+|+.|+.+....++|..|++ .|..+
T Consensus 213 Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~d 290 (467)
T KOG3608|consen 213 CGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKD 290 (467)
T ss_pred HHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccccCCCChHHHHHHHHhhhccC
Confidence 9999999999999987543 234579999999999999999999988864 5899999999999999999987 47778
Q ss_pred CCCCCCCCCccccChHHHHHHHHhcCCCCCccccc--cccccCChHHHHHHHhhhC-CC--CCcccccchhhccChHHHH
Q psy11675 228 KCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLE--CSKCFSTKSELNRHAQIHG-GV--KPFACTVCNKSFLQKTQLQ 302 (431)
Q Consensus 228 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~--~~~~C~~C~~~f~~~~~L~ 302 (431)
+||+|+.|++.|.+.+.|.+|...|. +..|.|.. |.++|.+...|++|++.++ |. -+|.|-.|++.|++..+|.
T Consensus 291 kpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~ 369 (467)
T KOG3608|consen 291 KPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLS 369 (467)
T ss_pred CCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHH
Confidence 99999999999999999999999887 66799988 9999999999999998655 43 4699999999999999999
Q ss_pred HHHHhcC------CCCCcccccccccccCh
Q psy11675 303 NHLYTHS------KVKPYNCGICAKSFVQR 326 (431)
Q Consensus 303 ~H~~~h~------~~~~~~C~~C~~~f~~~ 326 (431)
.|++.-+ |-+.|.-.+|.-.|.+.
T Consensus 370 ~HL~kkH~f~~PsGh~RFtYk~~edG~mRL 399 (467)
T KOG3608|consen 370 AHLMKKHGFRLPSGHKRFTYKVDEDGFMRL 399 (467)
T ss_pred HHHHHhhcccCCCCCCceeeeeccCceeee
Confidence 9986544 44567777777776553
No 7
>KOG3623|consensus
Probab=99.93 E-value=1.8e-26 Score=216.96 Aligned_cols=78 Identities=36% Similarity=0.793 Sum_probs=76.4
Q ss_pred CccccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHHHHHHH
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLE 334 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 334 (431)
.|.|+.|+|.|...++|.+|.--|+|.+||+|.+|.|+|..+-.|..|+|.|+|+|||.|+.|++.|+...++-.||.
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 499999999999999999999999999999999999999999999999999999999999999999999999999995
No 8
>KOG3623|consensus
Probab=99.91 E-value=3.4e-25 Score=208.51 Aligned_cols=104 Identities=28% Similarity=0.586 Sum_probs=95.0
Q ss_pred ccccccchhhccChHHHHHHHhhcC--CCCccccccchhhcCCHHHHHHHHHhCC---------------Cccccccccc
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSMVHK--IAQLHKCELCYKMFSDKLLYEKHKMVHR---------------QVFTCEVCMR 66 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~---------------~~~~C~~C~~ 66 (431)
...|++|++.+.....|+.|++..+ .+..|.|..|.++|..+..|.+||.+|. +.|+|..||+
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 4689999999999999999986543 4567999999999999999999999984 4699999999
Q ss_pred ccCCHHHHHHHHHHccCCCccccCCCCcccCCHHHHHHHHH
Q psy11675 67 SFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHVN 107 (431)
Q Consensus 67 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 107 (431)
.|..+..|++|+|+|.|+++|.|+-|+|.|.....+-.||.
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 99999999999999999999999999999999998888873
No 9
>KOG3576|consensus
Probab=99.79 E-value=3.6e-20 Score=148.87 Aligned_cols=115 Identities=33% Similarity=0.689 Sum_probs=90.8
Q ss_pred CCCCCCCCCCCccccChHHHHHHHHhcCCCCCccccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHHHHH
Q psy11675 226 ENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHL 305 (431)
Q Consensus 226 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 305 (431)
+...|.|.+|++.|.....|.+|++-|...+.|-|..|||.|.+..+|++|+|+|+|.+||+|..|+++|++.-.|..|+
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 34557777777777777777778777777777888888888888888888888888888888888888888888888887
Q ss_pred HhcCC-----------CCCcccccccccccChHHHHHHHHHhcCcc
Q psy11675 306 YTHSK-----------VKPYNCGICAKSFVQRNTYIKHLEIVHGVI 340 (431)
Q Consensus 306 ~~h~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 340 (431)
+.-+| +|.|.|..||.+-.....+..|++.+|+..
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 65444 356889889988888888888888888754
No 10
>KOG3576|consensus
Probab=99.74 E-value=5.3e-19 Score=142.17 Aligned_cols=116 Identities=33% Similarity=0.590 Sum_probs=100.8
Q ss_pred CCCCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHhcCCCCCccccccccccCChHHHHHHH
Q psy11675 198 GEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHA 277 (431)
Q Consensus 198 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 277 (431)
+...|.|.+|++.|.....|.+|++-|...+.|.|..||++|.....|++|+++|+|.+||+|..|+|+|..+-+|..|+
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 34568899999999888889999999988888999999999999999999999999999999999999999999999998
Q ss_pred hhhCC-----------CCCcccccchhhccChHHHHHHHHhcCCCCC
Q psy11675 278 QIHGG-----------VKPFACTVCNKSFLQKTQLQNHLYTHSKVKP 313 (431)
Q Consensus 278 ~~h~~-----------~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 313 (431)
+.-+| +|-|.|..||..-.....+..|++.|+...|
T Consensus 194 ~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 194 KKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 75544 3569999999999999999999999886544
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.43 E-value=2.7e-13 Score=130.16 Aligned_cols=147 Identities=16% Similarity=0.393 Sum_probs=113.2
Q ss_pred cccCcccccccCchhhhhhhccccCCCCccCCC--cccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHh
Q psy11675 174 FRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSY--CPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNK 251 (431)
Q Consensus 174 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 251 (431)
..|+.|.+.... ..|..|.... ......|+. |+..|. +..+.+| +.|+.|++.|. ...|..|+..
T Consensus 408 V~C~NC~~~i~l-~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 408 VECRNCKHYIPS-RSIALHEAYC-SRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred EECCCCCCccch-hHHHHHHhhC-CCcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHh
Confidence 468888876554 4455776432 224456874 888874 3333333 58999999996 6779999998
Q ss_pred cCCCCCccccccccccCChHHHHHHHhhhCCCCCcccccchhhcc----------ChHHHHHHHHhcCCCCCcccccccc
Q psy11675 252 HEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFL----------QKTQLQNHLYTHSKVKPYNCGICAK 321 (431)
Q Consensus 252 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~L~~H~~~h~~~~~~~C~~C~~ 321 (431)
++ +++.|+ ||+.+ .+..|..|+++|.+++++.|.+|++.|. ....|..|..+. |.+++.|..||+
T Consensus 475 ~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk 549 (567)
T PLN03086 475 FH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGR 549 (567)
T ss_pred cC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCC
Confidence 75 789999 99755 6789999999999999999999999985 245899999885 899999999999
Q ss_pred cccChHHHHHHHHHhcCc
Q psy11675 322 SFVQRNTYIKHLEIVHGV 339 (431)
Q Consensus 322 ~f~~~~~l~~H~~~~h~~ 339 (431)
.+..+ +|..|+..+|..
T Consensus 550 ~Vrlr-dm~~H~~~~h~~ 566 (567)
T PLN03086 550 SVMLK-EMDIHQIAVHQK 566 (567)
T ss_pred eeeeh-hHHHHHHHhhcC
Confidence 88765 688999888853
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.36 E-value=2.2e-12 Score=124.01 Aligned_cols=144 Identities=19% Similarity=0.449 Sum_probs=115.1
Q ss_pred CcccCcchhhcCChhHHHHHHHhhCCCCCccccCc--ccccccCchhhhhhhccccCCCCccCCCcccccCChhHHHHHh
Q psy11675 144 PYVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQ--CGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHL 221 (431)
Q Consensus 144 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 221 (431)
.-.|+.|...... ..|..|..... .....|+. ||..|. +..+..| +.|+.|++.|. ...|..|+
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~--r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~ 472 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCS--RHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCC--CcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHH
Confidence 3579999987665 45668876553 23457984 999884 3444555 58999999996 68899999
Q ss_pred hhhcCCCCCCCCCCCccccChHHHHHHHHhcCCCCCccccccccccC----------ChHHHHHHHhhhCCCCCcccccc
Q psy11675 222 YTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFS----------TKSELNRHAQIHGGVKPFACTVC 291 (431)
Q Consensus 222 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~~C~~C 291 (431)
.+++ +++.|+ ||+.+ .+..|..|+.+|.+.+++.|..|++.|. ..+.|..|..+. |.+++.|..|
T Consensus 473 ~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~C 547 (567)
T PLN03086 473 KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSC 547 (567)
T ss_pred HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEcccc
Confidence 9985 789999 99755 6789999999999999999999999995 245899999885 8999999999
Q ss_pred hhhccChHHHHHHHHh
Q psy11675 292 NKSFLQKTQLQNHLYT 307 (431)
Q Consensus 292 ~~~f~~~~~L~~H~~~ 307 (431)
|+.|..+ .|..|+..
T Consensus 548 gk~Vrlr-dm~~H~~~ 562 (567)
T PLN03086 548 GRSVMLK-EMDIHQIA 562 (567)
T ss_pred CCeeeeh-hHHHHHHH
Confidence 9998754 67788754
No 13
>PHA00733 hypothetical protein
Probab=99.26 E-value=6.9e-12 Score=98.36 Aligned_cols=84 Identities=17% Similarity=0.326 Sum_probs=65.5
Q ss_pred CCCccccccccccCChHHHHHH--H---hhhCCCCCcccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHH
Q psy11675 255 VLPHTCLECSKCFSTKSELNRH--A---QIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTY 329 (431)
Q Consensus 255 ~~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l 329 (431)
.+++.|.+|++.|.....|..+ + ..+.++++|.|+.||+.|.+...|..|++.| +.+|.|.+|++.|.....|
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 4557777777776666555554 1 1334578899999999999999999999876 3579999999999999999
Q ss_pred HHHHHHhcCcc
Q psy11675 330 IKHLEIVHGVI 340 (431)
Q Consensus 330 ~~H~~~~h~~~ 340 (431)
..|+...|++-
T Consensus 116 ~~H~~~~h~~~ 126 (128)
T PHA00733 116 LDHVCKKHNIC 126 (128)
T ss_pred HHHHHHhcCcc
Confidence 99999998763
No 14
>PHA00733 hypothetical protein
Probab=99.14 E-value=3.5e-11 Score=94.43 Aligned_cols=81 Identities=20% Similarity=0.297 Sum_probs=50.3
Q ss_pred CCCCCCCCCccccChHHHHHH--H---HhcCCCCCccccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHH
Q psy11675 228 KCFQCKYCPKTFTLRKHLKAH--T---NKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQ 302 (431)
Q Consensus 228 ~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 302 (431)
+++.|.+|+..|.....|..+ + ..+.+.+||.|+.|++.|.+...|..|++.| +.+|.|.+|++.|.....|.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~ 116 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTL 116 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHH
Confidence 444444454444444433333 1 1223466777777777777777777777765 34577777777777777777
Q ss_pred HHHHhcCC
Q psy11675 303 NHLYTHSK 310 (431)
Q Consensus 303 ~H~~~h~~ 310 (431)
.|+...++
T Consensus 117 ~H~~~~h~ 124 (128)
T PHA00733 117 DHVCKKHN 124 (128)
T ss_pred HHHHHhcC
Confidence 77776554
No 15
>KOG3993|consensus
Probab=98.96 E-value=2.4e-10 Score=102.86 Aligned_cols=193 Identities=20% Similarity=0.294 Sum_probs=100.7
Q ss_pred cccccchhhcCCHHHHHHHH--HhCCCcccccccccccCCHHHHHHHHHHccCCCccccCCCCcccCCHHHHHHHHHhhc
Q psy11675 33 HKCELCYKMFSDKLLYEKHK--MVHRQVFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHVNSVH 110 (431)
Q Consensus 33 ~~C~~C~~~f~~~~~l~~H~--~~h~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 110 (431)
|.|.+|...|.+...|..|. ++-.-.|+|++|+++|+...+|..|.|.|.....-. +
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa-----~---------------- 326 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAA-----K---------------- 326 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhh-----h----------------
Confidence 77888888887777777774 333456778888888877777777777764221100 0
Q ss_pred cCCCCcccccccccccChhHHHHHH-hhhcCCCCCcccCcchhhcCChhHHHHHHHhhCCCCC----------------c
Q psy11675 111 KDVKKYNCEECDKYYLSQGELDSHV-QTSHRGIKPYVCEICSKAFTQQYNLKHHLLLHGDGNS----------------L 173 (431)
Q Consensus 111 ~~~~~~~C~~C~~~f~~~~~l~~H~-~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~----------------~ 173 (431)
.+..+-+ ....+..+...-- -.....+..|.|.+|++.|.....|++|..+|..... .
T Consensus 327 a~~~P~k-----~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~ 401 (500)
T KOG3993|consen 327 AGSPPPK-----QAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLM 401 (500)
T ss_pred cCCCChh-----hhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccc
Confidence 0000000 0000000000000 0000122356677777777777777776655532111 1
Q ss_pred cccCcccccccCchhhhhhhccccC-CCCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHh
Q psy11675 174 FRCDQCGKAFSRKGHLVQHSFVHGG-EKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNK 251 (431)
Q Consensus 174 ~~C~~C~~~f~~~~~l~~H~~~h~~-~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 251 (431)
+-|..|+-.+...+.-..+...+.+ .....|++|+..+.++..-..+.+.-..+..|.|.+|..+|.+...|.+|+.+
T Consensus 402 ~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 402 HFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred ccccccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhh
Confidence 2355555544443333333333322 12345666776666665544554444455567777888888877777777765
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.93 E-value=3.6e-10 Score=72.34 Aligned_cols=42 Identities=17% Similarity=0.608 Sum_probs=25.2
Q ss_pred cccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHH
Q psy11675 286 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTY 329 (431)
Q Consensus 286 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l 329 (431)
|.|+.||+.|+...+|..|+++|+ ++|+|..|++.|.+.+.|
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 556666666666666666666665 456666666666555544
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.89 E-value=6.3e-10 Score=71.22 Aligned_cols=43 Identities=14% Similarity=0.362 Sum_probs=30.8
Q ss_pred CccccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHH
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQL 301 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L 301 (431)
.|.|+.||+.|...++|..|+++|+ ++|+|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 3677777777777777777777777 567777777777766554
No 18
>KOG3993|consensus
Probab=98.88 E-value=2.4e-10 Score=102.82 Aligned_cols=166 Identities=16% Similarity=0.229 Sum_probs=96.4
Q ss_pred cccCcccccccCchhhhhhhccccCCCCccCCCcccccCChhHHHHHhhhhcCCCCCC---CCCCCccccChHHHHHHHH
Q psy11675 174 FRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQ---CKYCPKTFTLRKHLKAHTN 250 (431)
Q Consensus 174 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~---C~~C~~~f~~~~~l~~H~~ 250 (431)
|.|..|...|.+.-.|.+|.-..--...|+|+.|+|.|+-..+|..|.+.|.....-. =.-=.+...+....+.-.+
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 7788888888888888888654333345888888888888888888888774221000 0000000000000000000
Q ss_pred h--cCCCCCccccccccccCChHHHHHHHhhhCCC---------------------------------------------
Q psy11675 251 K--HEGVLPHTCLECSKCFSTKSELNRHAQIHGGV--------------------------------------------- 283 (431)
Q Consensus 251 ~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~--------------------------------------------- 283 (431)
. ...+..|.|.+|+|.|.....|+.|..+|...
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~s 427 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGS 427 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeecc
Confidence 0 01122355666666666666666665444311
Q ss_pred -CCcccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHHHHHHHHhcCc
Q psy11675 284 -KPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVHGV 339 (431)
Q Consensus 284 -~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 339 (431)
....|++||..+.++..-..+.+.-..+..|.|.+|.-.|.+.-.|.+|+...|..
T Consensus 428 ael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 428 AELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred ccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 01346667766666554444444333445699999999999999999999998863
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.67 E-value=1e-08 Score=56.06 Aligned_cols=23 Identities=52% Similarity=1.054 Sum_probs=10.6
Q ss_pred HHHHHHhcCCCCCcccccccccc
Q psy11675 301 LQNHLYTHSKVKPYNCGICAKSF 323 (431)
Q Consensus 301 L~~H~~~h~~~~~~~C~~C~~~f 323 (431)
|..|+++|+|++||.|++|+++|
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F 24 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSF 24 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEE
T ss_pred HHHHhhhcCCCCCCCCCCCcCee
Confidence 34444444444444444444444
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.66 E-value=1.4e-08 Score=55.50 Aligned_cols=26 Identities=46% Similarity=0.956 Sum_probs=24.2
Q ss_pred HHHHHHhhhCCCCCcccccchhhccC
Q psy11675 272 ELNRHAQIHGGVKPFACTVCNKSFLQ 297 (431)
Q Consensus 272 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 297 (431)
+|.+|+++|+|++||.|++|+++|.+
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 58999999999999999999999964
No 21
>PHA00616 hypothetical protein
Probab=98.43 E-value=1.2e-07 Score=57.69 Aligned_cols=34 Identities=21% Similarity=0.398 Sum_probs=21.0
Q ss_pred CcccccchhhccChHHHHHHHHhcCCCCCccccc
Q psy11675 285 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGI 318 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~ 318 (431)
||.|+.||+.|..+..|..|+++|+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4566666666666666666666666666666554
No 22
>PHA00616 hypothetical protein
Probab=98.39 E-value=1.5e-07 Score=57.28 Aligned_cols=34 Identities=21% Similarity=0.293 Sum_probs=22.7
Q ss_pred CccccccccccCChHHHHHHHhhhCCCCCccccc
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTV 290 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 290 (431)
||.|+.||+.|..+++|.+|++.|+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4666667777766677777776666666666654
No 23
>PHA00732 hypothetical protein
Probab=98.28 E-value=4.7e-07 Score=64.16 Aligned_cols=47 Identities=34% Similarity=0.571 Sum_probs=26.3
Q ss_pred CccccccccccCChHHHHHHHhh-hCCCCCcccccchhhccChHHHHHHHHhcC
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQI-HGGVKPFACTVCNKSFLQKTQLQNHLYTHS 309 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 309 (431)
||.|..|++.|.+..+|..|++. |.+ +.|+.||++|. .|..|+++..
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 35566666666666666666653 332 35666666665 3555654443
No 24
>PHA00732 hypothetical protein
Probab=98.23 E-value=7.5e-07 Score=63.16 Aligned_cols=48 Identities=23% Similarity=0.475 Sum_probs=40.8
Q ss_pred CcccccchhhccChHHHHHHHHh-cCCCCCcccccccccccChHHHHHHHHHhcC
Q psy11675 285 PFACTVCNKSFLQKTQLQNHLYT-HSKVKPYNCGICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~~L~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
||.|+.||+.|.+...|..|++. |. ++.|+.|+++|. .|..|+++...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCC
Confidence 58999999999999999999985 65 368999999998 57889865543
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.10 E-value=4.3e-06 Score=55.00 Aligned_cols=50 Identities=30% Similarity=0.636 Sum_probs=29.4
Q ss_pred cccccchhhccChHHHHHHHHh-cCCC-CCcccccccccccChHHHHHHHHHhcC
Q psy11675 286 FACTVCNKSFLQKTQLQNHLYT-HSKV-KPYNCGICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 286 ~~C~~C~~~f~~~~~L~~H~~~-h~~~-~~~~C~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
|.|++|++. .+...|..|... |.++ +.+.|++|...+. .+|..|+...|+
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 566666663 345566666543 3332 4566777776544 367777776663
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.94 E-value=1.5e-05 Score=52.45 Aligned_cols=48 Identities=40% Similarity=0.643 Sum_probs=20.9
Q ss_pred cccccccccccChhHHHHHHhhhcCCC-CCcccCcchhhcCChhHHHHHHHh
Q psy11675 116 YNCEECDKYYLSQGELDSHVQTSHRGI-KPYVCEICSKAFTQQYNLKHHLLL 166 (431)
Q Consensus 116 ~~C~~C~~~f~~~~~l~~H~~~~h~~~-~~~~C~~C~~~f~~~~~l~~H~~~ 166 (431)
|.|++|++ ..+..+|..|+...|..+ +.+.|++|...+. .+|..|+..
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHH
Confidence 44444444 333444444444444432 2345555554332 244444443
No 27
>KOG1146|consensus
Probab=97.88 E-value=4.9e-06 Score=86.19 Aligned_cols=74 Identities=15% Similarity=0.289 Sum_probs=51.8
Q ss_pred cccchhhccChHHHHHHHh-hcCCCCccccccchhhcCCHHHHHHHHHh-C--------------------------CCc
Q psy11675 7 CEVCQQAFTRNADLKVHSM-VHKIAQLHKCELCYKMFSDKLLYEKHKMV-H--------------------------RQV 58 (431)
Q Consensus 7 C~~C~~~f~~~~~L~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h--------------------------~~~ 58 (431)
|.-|+..|.+...+..|+. .++..+.++|+.|+..|.....|..||+. | ..+
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 4445566666666666643 45556778888888888888888888876 1 135
Q ss_pred ccccccccccCCHHHHHHHHHH
Q psy11675 59 FTCEVCMRSFNDRKEFNEHIMK 80 (431)
Q Consensus 59 ~~C~~C~~~f~~~~~l~~H~~~ 80 (431)
|.|..|+..+.....|..|+..
T Consensus 519 ~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHH
Confidence 7777777777777777777753
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.76 E-value=1.2e-05 Score=42.56 Aligned_cols=20 Identities=35% Similarity=0.869 Sum_probs=8.4
Q ss_pred ccccccccccChHHHHHHHH
Q psy11675 315 NCGICAKSFVQRNTYIKHLE 334 (431)
Q Consensus 315 ~C~~C~~~f~~~~~l~~H~~ 334 (431)
.|++|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 34444444444444444443
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.71 E-value=2e-05 Score=41.69 Aligned_cols=20 Identities=40% Similarity=0.914 Sum_probs=8.6
Q ss_pred ccccchhhccChHHHHHHHH
Q psy11675 287 ACTVCNKSFLQKTQLQNHLY 306 (431)
Q Consensus 287 ~C~~C~~~f~~~~~L~~H~~ 306 (431)
.|+.|++.|.++..|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 34444444444444444443
No 30
>KOG2231|consensus
Probab=97.69 E-value=9.5e-05 Score=72.86 Aligned_cols=120 Identities=29% Similarity=0.635 Sum_probs=70.9
Q ss_pred cccchhhcCCHHHHHHHHHhCCCcccccccc---------cccCCHHHHHHHHHHccC-CC----ccccCCCCcccCCHH
Q psy11675 35 CELCYKMFSDKLLYEKHKMVHRQVFTCEVCM---------RSFNDRKEFNEHIMKHEK-EK----LFSCNFCLKPFLRKD 100 (431)
Q Consensus 35 C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~---------~~f~~~~~l~~H~~~h~~-~~----~~~C~~C~~~f~~~~ 100 (431)
|..| -.|.+...|+.|+..-.+.+.|.+|- ....++..|..|++.-.. +. --.|.+|...|....
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~ 196 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDD 196 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHH
Confidence 4444 44446777888876555555555552 122356677777765322 22 145888888888888
Q ss_pred HHHHHHHhhccCCCCcccccc------cccccChhHHHHHHhhhcCCCCCcccC--cch-hhcCChhHHHHHHH
Q psy11675 101 LLEAHVNSVHKDVKKYNCEEC------DKYYLSQGELDSHVQTSHRGIKPYVCE--ICS-KAFTQQYNLKHHLL 165 (431)
Q Consensus 101 ~l~~H~~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~~h~~~~~~~C~--~C~-~~f~~~~~l~~H~~ 165 (431)
.|..|++..| |.|..| +..|....+|..|.+..| |.|+ .|. +.|.....+..+++
T Consensus 197 el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H-----flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 197 ELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH-----FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred HHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC-----ccccccccccceeeehhHHHHHHH
Confidence 8888886544 445555 456777788888887655 6666 453 23333334444444
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.61 E-value=4.7e-05 Score=40.67 Aligned_cols=24 Identities=33% Similarity=0.798 Sum_probs=13.1
Q ss_pred cccccccccccChHHHHHHHHHhc
Q psy11675 314 YNCGICAKSFVQRNTYIKHLEIVH 337 (431)
Q Consensus 314 ~~C~~C~~~f~~~~~l~~H~~~~h 337 (431)
|.|++|++.|.+...|..|++++|
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 456666666666666666665554
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.58 E-value=4.3e-05 Score=57.89 Aligned_cols=74 Identities=26% Similarity=0.487 Sum_probs=19.1
Q ss_pred cccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHHHHHHHHhc
Q psy11675 259 TCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIVH 337 (431)
Q Consensus 259 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 337 (431)
.|..|+..|.+...|..|+...++...- ....+.....+..+++.-. ...+.|.+|++.|.+...|..||+..+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Cccccccccccccccccccccccccccc----ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 3677777777777777777654442211 1112223334444433211 125788888888888888888887653
No 33
>KOG2231|consensus
Probab=97.47 E-value=0.00025 Score=70.05 Aligned_cols=104 Identities=24% Similarity=0.568 Sum_probs=60.9
Q ss_pred ccccccccCCHHHHHHHHHHccCCCccccCCCCc---------ccCCHHHHHHHHHhhccCCC----CcccccccccccC
Q psy11675 61 CEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLK---------PFLRKDLLEAHVNSVHKDVK----KYNCEECDKYYLS 127 (431)
Q Consensus 61 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---------~f~~~~~l~~H~~~~h~~~~----~~~C~~C~~~f~~ 127 (431)
|..| -.|.+...|..|+..-|+ .+.|.+|-. ...+...|..|+..--.+++ --.|..|...|.+
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld 194 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLD 194 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhcc
Confidence 4444 445577777888754332 345555422 23345667777643322221 1357778888888
Q ss_pred hhHHHHHHhhhcCCCCCcccCcc------hhhcCChhHHHHHHHhhCCCCCccccC
Q psy11675 128 QGELDSHVQTSHRGIKPYVCEIC------SKAFTQQYNLKHHLLLHGDGNSLFRCD 177 (431)
Q Consensus 128 ~~~l~~H~~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~h~~~~~~~~C~ 177 (431)
..+|..|++..| |.|..| +.-|.....|..|.+..+ |.|.
T Consensus 195 ~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H-----flCE 240 (669)
T KOG2231|consen 195 DDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH-----FLCE 240 (669)
T ss_pred HHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC-----cccc
Confidence 888887776544 455555 345666777777777655 5565
No 34
>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=97.47 E-value=6.9e-05 Score=40.00 Aligned_cols=23 Identities=48% Similarity=1.041 Sum_probs=11.4
Q ss_pred cccccchhhccChHHHHHHHHhc
Q psy11675 286 FACTVCNKSFLQKTQLQNHLYTH 308 (431)
Q Consensus 286 ~~C~~C~~~f~~~~~L~~H~~~h 308 (431)
|.|++|++.|.+...|..|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 34555555555555555555544
No 35
>KOG1146|consensus
Probab=97.44 E-value=3e-05 Score=80.61 Aligned_cols=52 Identities=17% Similarity=0.128 Sum_probs=35.5
Q ss_pred CCcccccccccc-CChHHHHHHHhhhC------CCCCcccccchhhccChHHHHHHHHh
Q psy11675 256 LPHTCLECSKCF-STKSELNRHAQIHG------GVKPFACTVCNKSFLQKTQLQNHLYT 307 (431)
Q Consensus 256 ~~~~C~~C~~~f-~~~~~l~~H~~~h~------~~~~~~C~~C~~~f~~~~~L~~H~~~ 307 (431)
+.+.|.+|+..- .+...|+.|..+-. ....|.|.+|.+....+.++..|-++
T Consensus 733 k~~~civcd~~st~~l~~l~~h~~~~rs~ke~v~g~~~~c~l~~y~t~~kanfqlh~Kt 791 (1406)
T KOG1146|consen 733 KVFDCIVCDVFSTDRLDQLWFHNTRERSRKEQVPGDVPSCKLKPYATNTKANFQLHNKT 791 (1406)
T ss_pred HHHHHhhhhhhhhhhHHHHhhcchhhhhhhhcccCCCCcceecccccccchhhhhhccc
Confidence 447899998543 34455666653321 12358999999999999998888654
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.42 E-value=8.8e-05 Score=56.13 Aligned_cols=70 Identities=21% Similarity=0.373 Sum_probs=12.4
Q ss_pred cccchhhccChHHHHHHHhhcCCCCccccccchhhcCCHHHHHHHHHhCC-CcccccccccccCCHHHHHHHHHH
Q psy11675 7 CEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKMVHR-QVFTCEVCMRSFNDRKEFNEHIMK 80 (431)
Q Consensus 7 C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~-~~~~C~~C~~~f~~~~~l~~H~~~ 80 (431)
|..|+..|.+...|..|+...++...- ....+.....+..+...-. ..+.|..|++.|.+...|..||+.
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp ---------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred ccccccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcC
Confidence 667777777777777776544332110 1111112222222222111 235555555555555555555554
No 37
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.42 E-value=8.4e-05 Score=41.04 Aligned_cols=25 Identities=24% Similarity=0.570 Sum_probs=15.8
Q ss_pred CcccccccccccChHHHHHHHHHhc
Q psy11675 313 PYNCGICAKSFVQRNTYIKHLEIVH 337 (431)
Q Consensus 313 ~~~C~~C~~~f~~~~~l~~H~~~~h 337 (431)
||.|..|++.|.+...|..|++.++
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 4566666666666666666665554
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.40 E-value=4.3e-05 Score=66.93 Aligned_cols=52 Identities=37% Similarity=0.787 Sum_probs=36.8
Q ss_pred CCCccccc--chhhccChHHHHHHHHh-c------------------CCCCCcccccccccccChHHHHHHHH
Q psy11675 283 VKPFACTV--CNKSFLQKTQLQNHLYT-H------------------SKVKPYNCGICAKSFVQRNTYIKHLE 334 (431)
Q Consensus 283 ~~~~~C~~--C~~~f~~~~~L~~H~~~-h------------------~~~~~~~C~~C~~~f~~~~~l~~H~~ 334 (431)
+|||+|++ |+|.+.....|+-|+.- | ..+|||+|.+|++.|.....|+.|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 36666665 66666666666666542 1 13488999999999998888888875
No 39
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.38 E-value=8.5e-05 Score=41.01 Aligned_cols=25 Identities=28% Similarity=0.634 Sum_probs=17.5
Q ss_pred ccccccchhhccChHHHHHHHhhcC
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSMVHK 28 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~~h~ 28 (431)
||.|..|++.|.+...|..|++.|.
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 4677777777777777777776653
No 40
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.34 E-value=5.8e-05 Score=66.17 Aligned_cols=24 Identities=25% Similarity=0.432 Sum_probs=18.0
Q ss_pred CCCCccccccccccCChHHHHHHH
Q psy11675 254 GVLPHTCLECSKCFSTKSELNRHA 277 (431)
Q Consensus 254 ~~~~~~C~~C~~~f~~~~~l~~H~ 277 (431)
..+||+|++|+|.+.+...|+-|.
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cCCceeccccchhhccCccceecc
Confidence 347788888888888777777775
No 41
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.18 E-value=0.0032 Score=56.18 Aligned_cols=132 Identities=26% Similarity=0.489 Sum_probs=86.7
Q ss_pred ccCCC--cccccCChhHHHHHhhhhcCCCCCCCCCCC---cccc------ChHHHHHHHHhcCCCCC----ccccccccc
Q psy11675 202 FKCSY--CPKAFSHKGHLNEHLYTHSENKCFQCKYCP---KTFT------LRKHLKAHTNKHEGVLP----HTCLECSKC 266 (431)
Q Consensus 202 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~f~------~~~~l~~H~~~h~~~~~----~~C~~C~~~ 266 (431)
|.|+. |.........|..|.+.-++ .+.|.+|- +.|. +...|+.|...-..+.. -.|..|...
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 FKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 55654 55555556667777665443 24555552 2333 45566667554332222 269999999
Q ss_pred cCChHHHHHHHhhhCCCCCcccccchh-------hccChHHHHHHHHhcCCCCCccccc--cc----ccccChHHHHHHH
Q psy11675 267 FSTKSELNRHAQIHGGVKPFACTVCNK-------SFLQKTQLQNHLYTHSKVKPYNCGI--CA----KSFVQRNTYIKHL 333 (431)
Q Consensus 267 f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~L~~H~~~h~~~~~~~C~~--C~----~~f~~~~~l~~H~ 333 (431)
|.+-..|..|+|.-+. .|-+|++ .|.+-..|..|.+.- -|.|.+ |- ..|.....|..|+
T Consensus 230 FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~----hy~ct~qtc~~~k~~vf~~~~el~~h~ 301 (493)
T COG5236 230 FYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNA----HYCCTFQTCRVGKCYVFPYHTELLEHL 301 (493)
T ss_pred ecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcC----ceEEEEEEEecCcEEEeccHHHHHHHH
Confidence 9999999999986542 3666654 577788888887643 366654 32 4789999999999
Q ss_pred HHhcCccccC
Q psy11675 334 EIVHGVITSN 343 (431)
Q Consensus 334 ~~~h~~~~~~ 343 (431)
...|++....
T Consensus 302 ~~~h~~~~~~ 311 (493)
T COG5236 302 TRFHKVNARL 311 (493)
T ss_pred HHHhhccccc
Confidence 9999876543
No 42
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.93 E-value=0.00095 Score=59.43 Aligned_cols=123 Identities=28% Similarity=0.571 Sum_probs=62.3
Q ss_pred cccc--cchhhcCCHHHHHHHHHhCCCcccccccc---cccCC------HHHHHHHHHHccCCCcc----ccCCCCcccC
Q psy11675 33 HKCE--LCYKMFSDKLLYEKHKMVHRQVFTCEVCM---RSFND------RKEFNEHIMKHEKEKLF----SCNFCLKPFL 97 (431)
Q Consensus 33 ~~C~--~C~~~f~~~~~l~~H~~~h~~~~~C~~C~---~~f~~------~~~l~~H~~~h~~~~~~----~C~~C~~~f~ 97 (431)
|.|+ .|..+...+..|+.|.+.....+.|.+|- +.|.. ...|..|...-..+..| .|.+|...|.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FY 231 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFY 231 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccceec
Confidence 5553 45555555666666666655556666662 22322 23344443221111122 3666666666
Q ss_pred CHHHHHHHHHhhccCCCCcccccccc-------cccChhHHHHHHhhhcCCCCCcccCc--ch----hhcCChhHHHHHH
Q psy11675 98 RKDLLEAHVNSVHKDVKKYNCEECDK-------YYLSQGELDSHVQTSHRGIKPYVCEI--CS----KAFTQQYNLKHHL 164 (431)
Q Consensus 98 ~~~~l~~H~~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~~h~~~~~~~C~~--C~----~~f~~~~~l~~H~ 164 (431)
+.+.|..|++..|. .|.+|++ .|.+..+|..|.+..| |.|.. |- ..|.....|..|+
T Consensus 232 dDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h-----y~ct~qtc~~~k~~vf~~~~el~~h~ 301 (493)
T COG5236 232 DDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH-----YCCTFQTCRVGKCYVFPYHTELLEHL 301 (493)
T ss_pred ChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhcCc-----eEEEEEEEecCcEEEeccHHHHHHHH
Confidence 66666666655443 3444433 3556666666665443 44432 21 2455555666665
Q ss_pred H
Q psy11675 165 L 165 (431)
Q Consensus 165 ~ 165 (431)
.
T Consensus 302 ~ 302 (493)
T COG5236 302 T 302 (493)
T ss_pred H
Confidence 4
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.78 E-value=0.0011 Score=35.27 Aligned_cols=24 Identities=29% Similarity=0.580 Sum_probs=14.8
Q ss_pred cccccccccccChHHHHHHHHHhcC
Q psy11675 314 YNCGICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 314 ~~C~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
|.|+.|+.... +..|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 56777777666 6677777776664
No 44
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.76 E-value=0.0005 Score=42.84 Aligned_cols=28 Identities=21% Similarity=0.462 Sum_probs=10.9
Q ss_pred CCccCCCcccccCChhHHHHHhhhhcCC
Q psy11675 200 KPFKCSYCPKAFSHKGHLNEHLYTHSEN 227 (431)
Q Consensus 200 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 227 (431)
.|-.|++|+..++...+|++|+.+.++.
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 3444444444444444444444444443
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.69 E-value=0.0015 Score=35.30 Aligned_cols=18 Identities=39% Similarity=0.899 Sum_probs=6.6
Q ss_pred cccchhhccChHHHHHHH
Q psy11675 288 CTVCNKSFLQKTQLQNHL 305 (431)
Q Consensus 288 C~~C~~~f~~~~~L~~H~ 305 (431)
|..|++.|.....|..|+
T Consensus 3 C~~C~~~f~~~~~l~~H~ 20 (26)
T smart00355 3 CPECGKVFKSKSALKEHM 20 (26)
T ss_pred CCCCcchhCCHHHHHHHH
Confidence 333333333333333333
No 46
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.59 E-value=0.0019 Score=34.84 Aligned_cols=23 Identities=30% Similarity=0.707 Sum_probs=15.8
Q ss_pred cccccchhhccChHHHHHHHhhc
Q psy11675 5 FTCEVCQQAFTRNADLKVHSMVH 27 (431)
Q Consensus 5 ~~C~~C~~~f~~~~~L~~H~~~h 27 (431)
|.|..|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45777777777777777776655
No 47
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.46 E-value=0.0026 Score=39.78 Aligned_cols=26 Identities=38% Similarity=0.634 Sum_probs=9.5
Q ss_pred CcccccccccccChHHHHHHHHHhcC
Q psy11675 313 PYNCGICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 313 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
|-.|++|+..+.+..+|++|+...|+
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCCCcchhhccchhhHHHHHHHHhc
Confidence 34444444444444444444444443
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.36 E-value=0.0017 Score=34.95 Aligned_cols=22 Identities=27% Similarity=0.803 Sum_probs=14.1
Q ss_pred cccccchhhccChHHHHHHHhh
Q psy11675 5 FTCEVCQQAFTRNADLKVHSMV 26 (431)
Q Consensus 5 ~~C~~C~~~f~~~~~L~~H~~~ 26 (431)
|.|.+|++.|.+...|..|++.
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 4566666666666666666654
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.30 E-value=0.0026 Score=34.16 Aligned_cols=22 Identities=41% Similarity=0.840 Sum_probs=13.8
Q ss_pred cccccccccccChHHHHHHHHH
Q psy11675 314 YNCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 314 ~~C~~C~~~f~~~~~l~~H~~~ 335 (431)
|.|.+|++.|.+...|..|++.
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 4566666666666666666653
No 50
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.24 E-value=0.0018 Score=63.42 Aligned_cols=148 Identities=27% Similarity=0.424 Sum_probs=88.8
Q ss_pred ccccCcccccccCchhhhhhhc--cccCC--CCccCC--CcccccCChhHHHHHhhhhcCCCCCCCCC--CCccccChHH
Q psy11675 173 LFRCDQCGKAFSRKGHLVQHSF--VHGGE--KPFKCS--YCPKAFSHKGHLNEHLYTHSENKCFQCKY--CPKTFTLRKH 244 (431)
Q Consensus 173 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~ 244 (431)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.. +...+.....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccC
Confidence 5677777777777777777777 67777 777777 67777777777777777777776666644 2222222211
Q ss_pred -----HHHHHHhcCCCCCcccc--ccccccCChHHHHHHHhhhCCCC--CcccccchhhccChHHHHHHHHhcCCCCCcc
Q psy11675 245 -----LKAHTNKHEGVLPHTCL--ECSKCFSTKSELNRHAQIHGGVK--PFACTVCNKSFLQKTQLQNHLYTHSKVKPYN 315 (431)
Q Consensus 245 -----l~~H~~~h~~~~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~ 315 (431)
.......-.....+.+. .|...+.....+..|...|.... .+.+..|.+.|.....+..|++.|....++.
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 448 (467)
T COG5048 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLL 448 (467)
T ss_pred CCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCcee
Confidence 00111111122223332 25555666666666666555544 4555667777777777777777776666665
Q ss_pred ccccc
Q psy11675 316 CGICA 320 (431)
Q Consensus 316 C~~C~ 320 (431)
|..++
T Consensus 449 ~~~~~ 453 (467)
T COG5048 449 CSILK 453 (467)
T ss_pred ecccc
Confidence 54443
No 51
>PRK04860 hypothetical protein; Provisional
Probab=96.19 E-value=0.0018 Score=52.85 Aligned_cols=36 Identities=22% Similarity=0.669 Sum_probs=18.3
Q ss_pred CcccccchhhccChHHHHHHHHhcCCCCCccccccccccc
Q psy11675 285 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFV 324 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~ 324 (431)
+|.|. |+. ....+..|.++|+++++|.|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 35554 544 3344555555555555555555555544
No 52
>PRK04860 hypothetical protein; Provisional
Probab=96.19 E-value=0.0018 Score=52.96 Aligned_cols=38 Identities=24% Similarity=0.666 Sum_probs=28.0
Q ss_pred CccccccccccCChHHHHHHHhhhCCCCCcccccchhhccCh
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQK 298 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 298 (431)
+|.|. |+. ....+.+|.++|+|+++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 57776 776 566677888888888888888888777643
No 53
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.18 E-value=0.0023 Score=34.02 Aligned_cols=22 Identities=36% Similarity=0.718 Sum_probs=9.8
Q ss_pred cccccchhhccChHHHHHHHHhc
Q psy11675 286 FACTVCNKSFLQKTQLQNHLYTH 308 (431)
Q Consensus 286 ~~C~~C~~~f~~~~~L~~H~~~h 308 (431)
|+|+.|++... ...|..|++.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 34555555544 44555555443
No 54
>KOG2785|consensus
Probab=96.13 E-value=0.01 Score=54.21 Aligned_cols=51 Identities=18% Similarity=0.423 Sum_probs=40.5
Q ss_pred CcccccchhhccChHHHHHHHHhcCCC-----------------------CCccccccc---ccccChHHHHHHHHH
Q psy11675 285 PFACTVCNKSFLQKTQLQNHLYTHSKV-----------------------KPYNCGICA---KSFVQRNTYIKHLEI 335 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~~L~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 335 (431)
|-.|-+|++.|.+...-..||..++|- .-|.|-.|+ +.|.+....+.||..
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 456777888877777777787776653 248899999 999999999999975
No 55
>KOG2482|consensus
Probab=95.99 E-value=0.017 Score=51.69 Aligned_cols=139 Identities=22% Similarity=0.400 Sum_probs=82.6
Q ss_pred ccccccccccc-CCHHHHHHHHHHccCC----------------------CccccCCCCcccCCHHHHHHHHHhh-ccCC
Q psy11675 58 VFTCEVCMRSF-NDRKEFNEHIMKHEKE----------------------KLFSCNFCLKPFLRKDLLEAHVNSV-HKDV 113 (431)
Q Consensus 58 ~~~C~~C~~~f-~~~~~l~~H~~~h~~~----------------------~~~~C~~C~~~f~~~~~l~~H~~~~-h~~~ 113 (431)
...|-.|+..+ .++.....|+-.-++- ..+.|-.|.+.|..+..|+.||+.. |...
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrri 223 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRI 223 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCccc
Confidence 35688898766 4566667776543321 2478999999999999999999653 3222
Q ss_pred CC--------ccccc--cccccc-ChhHHH-----HHHhhh-------cCCCC--CcccCcchhhcCChhHHHHHHHhhC
Q psy11675 114 KK--------YNCEE--CDKYYL-SQGELD-----SHVQTS-------HRGIK--PYVCEICSKAFTQQYNLKHHLLLHG 168 (431)
Q Consensus 114 ~~--------~~C~~--C~~~f~-~~~~l~-----~H~~~~-------h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~ 168 (431)
.| |.-.+ =|++.. ....+. .+-... -.+.. ..+|-.|.....+...|..||+..+
T Consensus 224 nPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vH 303 (423)
T KOG2482|consen 224 NPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVH 303 (423)
T ss_pred CCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHH
Confidence 22 11100 111110 001110 000000 00111 2589999988888899999987543
Q ss_pred CC--------------------------CCccccCcccccccCchhhhhhhccc
Q psy11675 169 DG--------------------------NSLFRCDQCGKAFSRKGHLVQHSFVH 196 (431)
Q Consensus 169 ~~--------------------------~~~~~C~~C~~~f~~~~~l~~H~~~h 196 (431)
.- .....|..|...|.....|..||..+
T Consensus 304 e~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 304 EFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 10 11246899999999999999999754
No 56
>KOG2785|consensus
Probab=95.69 E-value=0.023 Score=52.01 Aligned_cols=77 Identities=22% Similarity=0.296 Sum_probs=41.5
Q ss_pred ccccCCCCcccCCHHHHHHHHHhhcc---------CCCCcccccccccccChhHHHHHHhh--hcCCCCCcccCcchhhc
Q psy11675 86 LFSCNFCLKPFLRKDLLEAHVNSVHK---------DVKKYNCEECDKYYLSQGELDSHVQT--SHRGIKPYVCEICSKAF 154 (431)
Q Consensus 86 ~~~C~~C~~~f~~~~~l~~H~~~~h~---------~~~~~~C~~C~~~f~~~~~l~~H~~~--~h~~~~~~~C~~C~~~f 154 (431)
.|.|.-|...|.+...-+.|+++.-. +..|.. -..|........-... .-....++.|..|.+.|
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPIt----aE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~ 78 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPIT----AEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSF 78 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcC----HHHHhHHHhhhhhhhhhhhhhcccceehHHhhccc
Confidence 48899999999999888888854221 001110 0111111000000000 01234567788888888
Q ss_pred CChhHHHHHHHh
Q psy11675 155 TQQYNLKHHLLL 166 (431)
Q Consensus 155 ~~~~~l~~H~~~ 166 (431)
.+..+...|+..
T Consensus 79 ~s~~a~~~hl~S 90 (390)
T KOG2785|consen 79 ASPKAHENHLKS 90 (390)
T ss_pred cChhhHHHHHHH
Confidence 887777777754
No 57
>KOG2482|consensus
Probab=95.60 E-value=0.017 Score=51.67 Aligned_cols=135 Identities=21% Similarity=0.351 Sum_probs=81.4
Q ss_pred cccccchhhc-CCHHHHHHHHH-hCC-----------------------CcccccccccccCCHHHHHHHHHHccCC--C
Q psy11675 33 HKCELCYKMF-SDKLLYEKHKM-VHR-----------------------QVFTCEVCMRSFNDRKEFNEHIMKHEKE--K 85 (431)
Q Consensus 33 ~~C~~C~~~f-~~~~~l~~H~~-~h~-----------------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~--~ 85 (431)
..|-.|...+ .+++.+..|+. +|. ..+.|-.|.+.|+++..|+.||++.... .
T Consensus 145 lqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrrin 224 (423)
T KOG2482|consen 145 LQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRIN 224 (423)
T ss_pred eEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcccC
Confidence 4588887766 45566666654 231 3578999999999999999999864211 1
Q ss_pred c--------cccCC--CCcccC-CHHHHHHHHHhhcc------------CC--CCcccccccccccChhHHHHHHhhhcC
Q psy11675 86 L--------FSCNF--CLKPFL-RKDLLEAHVNSVHK------------DV--KKYNCEECDKYYLSQGELDSHVQTSHR 140 (431)
Q Consensus 86 ~--------~~C~~--C~~~f~-~~~~l~~H~~~~h~------------~~--~~~~C~~C~~~f~~~~~l~~H~~~~h~ 140 (431)
| |.=++ =|++-. ....+.+-....+. +. ....|-.|.....+...|..||+.+|.
T Consensus 225 PknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe 304 (423)
T KOG2482|consen 225 PKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVHE 304 (423)
T ss_pred CCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHHH
Confidence 1 11000 011110 00111000000000 11 125788888888888889999888773
Q ss_pred C--------------------------CCCcccCcchhhcCChhHHHHHHHhh
Q psy11675 141 G--------------------------IKPYVCEICSKAFTQQYNLKHHLLLH 167 (431)
Q Consensus 141 ~--------------------------~~~~~C~~C~~~f~~~~~l~~H~~~h 167 (431)
- ...-.|..|...|.....|..||..+
T Consensus 305 ~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 305 FDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred hhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 1 12246889999999999999999754
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=95.39 E-value=0.0051 Score=33.74 Aligned_cols=21 Identities=29% Similarity=0.743 Sum_probs=13.2
Q ss_pred cccccccccccChHHHHHHHH
Q psy11675 314 YNCGICAKSFVQRNTYIKHLE 334 (431)
Q Consensus 314 ~~C~~C~~~f~~~~~l~~H~~ 334 (431)
|.|.+|++.|.+...|..|++
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 456666666666666666654
No 59
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.34 E-value=0.0076 Score=33.04 Aligned_cols=21 Identities=33% Similarity=0.759 Sum_probs=12.6
Q ss_pred ccccccccccCChHHHHHHHh
Q psy11675 258 HTCLECSKCFSTKSELNRHAQ 278 (431)
Q Consensus 258 ~~C~~C~~~f~~~~~l~~H~~ 278 (431)
|.|..|++.|.+...|..|++
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 456666666666666666654
No 60
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.31 E-value=0.0065 Score=59.42 Aligned_cols=152 Identities=26% Similarity=0.398 Sum_probs=111.5
Q ss_pred CCcccCcchhhcCChhHHHHHHH--hhCCCC--CccccC--cccccccCchhhhhhhccccCCCCccCCCc--ccccCCh
Q psy11675 143 KPYVCEICSKAFTQQYNLKHHLL--LHGDGN--SLFRCD--QCGKAFSRKGHLVQHSFVHGGEKPFKCSYC--PKAFSHK 214 (431)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C--~~~f~~~ 214 (431)
.++.|..|...|.....|..|.+ .| .++ .++.|+ .|++.|.....+..|...|.+..++.+..- ...+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h-~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNH-SGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCcccccccccccccccc-ccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccc
Confidence 46899999999999999999999 56 466 899999 899999999999999999999888877663 3333322
Q ss_pred hH-----HHHHhhhhcCCCCCCCC--CCCccccChHHHHHHHHhcCCCC--CccccccccccCChHHHHHHHhhhCCCCC
Q psy11675 215 GH-----LNEHLYTHSENKCFQCK--YCPKTFTLRKHLKAHTNKHEGVL--PHTCLECSKCFSTKSELNRHAQIHGGVKP 285 (431)
Q Consensus 215 ~~-----l~~H~~~h~~~~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 285 (431)
.. .......-.....+.+. .|...+.....+..|...+.... .+.+..|.+.|.....+..|++.|....+
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAP 446 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCc
Confidence 22 11111112223334443 36667777777777777776655 56778899999999999999999988777
Q ss_pred cccccchhhc
Q psy11675 286 FACTVCNKSF 295 (431)
Q Consensus 286 ~~C~~C~~~f 295 (431)
+.|..++...
T Consensus 447 ~~~~~~~~~~ 456 (467)
T COG5048 447 LLCSILKSFR 456 (467)
T ss_pred eeeccccccc
Confidence 6665555433
No 61
>KOG1883|consensus
Probab=94.97 E-value=0.037 Score=57.37 Aligned_cols=25 Identities=32% Similarity=0.400 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHH
Q psy11675 402 IQQNLQQNIQQNLQQNIQQNIQHLL 426 (431)
Q Consensus 402 ~q~~~qq~~Qqq~q~~~~~~~~~~~ 426 (431)
++.+++|++|||++++.|||.|||+
T Consensus 1432 q~t~q~q~~Qqq~~~~~qqqlqhq~ 1456 (1517)
T KOG1883|consen 1432 QDTSQHQTIQQQSNHPTQQQLQHQI 1456 (1517)
T ss_pred hhhhHHHHHHHHhcchHHHHHHHhc
Confidence 3333344444444455555555544
No 62
>KOG4173|consensus
Probab=94.11 E-value=0.027 Score=46.67 Aligned_cols=50 Identities=32% Similarity=0.738 Sum_probs=29.0
Q ss_pred cccccc--cccccCCHHHHHHHHHHccCCCccccCCCCcccCCHHHHHHHHHhhc
Q psy11675 58 VFTCEV--CMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRKDLLEAHVNSVH 110 (431)
Q Consensus 58 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 110 (431)
.|.|++ |-..|.+...+..|...-++ -.|.+|.+.|.+...|..|+...|
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~H 130 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWH 130 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHH
Confidence 355654 55566666656666544333 246666666666666666665544
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.03 E-value=0.049 Score=29.16 Aligned_cols=20 Identities=35% Similarity=0.758 Sum_probs=12.4
Q ss_pred ccccccccccChHHHHHHHHH
Q psy11675 315 NCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 315 ~C~~C~~~f~~~~~l~~H~~~ 335 (431)
.|++||++| ..+.|.+|+..
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHh
Confidence 566666666 45566666543
No 64
>KOG4173|consensus
Probab=93.69 E-value=0.042 Score=45.52 Aligned_cols=78 Identities=28% Similarity=0.601 Sum_probs=58.7
Q ss_pred CccccCC--CCcccCCHHHHHHHHHhhccCCCCcccccccccccChhHHHHHHhhhcC---------CCCCccc--Ccch
Q psy11675 85 KLFSCNF--CLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGELDSHVQTSHR---------GIKPYVC--EICS 151 (431)
Q Consensus 85 ~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~---------~~~~~~C--~~C~ 151 (431)
..|.|.+ |...|..-+..+.|....|.+ .|..|.+.|++...|..|+.+.|. +...|.| +.|+
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt 153 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCT 153 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhh
Confidence 3477875 777888888888887766654 699999999999999999877663 3455777 5588
Q ss_pred hhcCChhHHHHHHHh
Q psy11675 152 KAFTQQYNLKHHLLL 166 (431)
Q Consensus 152 ~~f~~~~~l~~H~~~ 166 (431)
..|.+...-+.|+-.
T Consensus 154 ~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 154 EKFKTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhhhhHHHH
Confidence 888877777777654
No 65
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.60 E-value=0.056 Score=28.91 Aligned_cols=20 Identities=25% Similarity=0.667 Sum_probs=10.3
Q ss_pred cccccchhhccChHHHHHHHh
Q psy11675 5 FTCEVCQQAFTRNADLKVHSM 25 (431)
Q Consensus 5 ~~C~~C~~~f~~~~~L~~H~~ 25 (431)
..|+.||+.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3455555555 3455555543
No 66
>KOG3598|consensus
Probab=93.53 E-value=0.015 Score=61.40 Aligned_cols=6 Identities=33% Similarity=0.468 Sum_probs=2.3
Q ss_pred HHHHHH
Q psy11675 300 QLQNHL 305 (431)
Q Consensus 300 ~L~~H~ 305 (431)
.|..|+
T Consensus 1991 glqqa~ 1996 (2220)
T KOG3598|consen 1991 GLQQAM 1996 (2220)
T ss_pred hhhhcc
Confidence 333433
No 67
>KOG4369|consensus
Probab=93.39 E-value=0.39 Score=50.47 Aligned_cols=32 Identities=34% Similarity=0.279 Sum_probs=14.1
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q psy11675 397 PSIQHIQQNLQQNIQQNLQQNIQQNIQHLLQQ 428 (431)
Q Consensus 397 ~~~~~~q~~~qq~~Qqq~q~~~~~~~~~~~~~ 428 (431)
..+|+.|+|..|.+||||.-|||||.+||.||
T Consensus 1853 ~~~q~~qqq~iq~lq~~q~lqqqqq~~qq~~~ 1884 (2131)
T KOG4369|consen 1853 TNIQQQQQQQIQHLQQQQALQQQQQRIQQFQQ 1884 (2131)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 34444444444444444444444444444443
No 68
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.11 E-value=0.17 Score=38.18 Aligned_cols=24 Identities=25% Similarity=0.553 Sum_probs=13.9
Q ss_pred CcccccchhhccChHHHHHHHHhc
Q psy11675 285 PFACTVCNKSFLQKTQLQNHLYTH 308 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~~L~~H~~~h 308 (431)
.|.|+.|...|-..-++-.|...|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 466666666666555555555443
No 69
>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=92.70 E-value=0.085 Score=30.81 Aligned_cols=23 Identities=22% Similarity=0.520 Sum_probs=16.9
Q ss_pred CcccccccccccChHHHHHHHHH
Q psy11675 313 PYNCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 313 ~~~C~~C~~~f~~~~~l~~H~~~ 335 (431)
+|.|.+|+..|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46777777777777777777753
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=92.49 E-value=0.079 Score=30.94 Aligned_cols=22 Identities=27% Similarity=0.652 Sum_probs=15.6
Q ss_pred ccccccchhhccChHHHHHHHh
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSM 25 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~ 25 (431)
+|.|++|++.|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4667777777777777777764
No 71
>KOG2893|consensus
Probab=91.99 E-value=0.3 Score=41.59 Aligned_cols=42 Identities=29% Similarity=0.640 Sum_probs=34.1
Q ss_pred cccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHHHH
Q psy11675 259 TCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNH 304 (431)
Q Consensus 259 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H 304 (431)
.|.+|++.|.+..-|..|.+. |-|+|-+|.+..-+--.|..|
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 489999999999999888764 458999998887777777666
No 72
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.76 E-value=0.29 Score=37.00 Aligned_cols=25 Identities=20% Similarity=0.505 Sum_probs=13.5
Q ss_pred CccccccccccCChHHHHHHHhhhC
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQIHG 281 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~h~ 281 (431)
.|.|+.|...|--.-++-.|...|.
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ceeCCCCCCccccccchhhhhhccC
Confidence 4555555555555555555554443
No 73
>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=91.50 E-value=0.25 Score=37.86 Aligned_cols=25 Identities=32% Similarity=0.545 Sum_probs=17.9
Q ss_pred ccc----ccccccccChHHHHHHHHHhcC
Q psy11675 314 YNC----GICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 314 ~~C----~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
|.| ..|+..+.+...|.+|++..||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 667 7777777777777777777664
No 74
>KOG1280|consensus
Probab=91.42 E-value=0.64 Score=42.16 Aligned_cols=25 Identities=20% Similarity=0.465 Sum_probs=16.0
Q ss_pred CCCCCCCCccccChHHHHHHHHhcC
Q psy11675 229 CFQCKYCPKTFTLRKHLKAHTNKHE 253 (431)
Q Consensus 229 ~~~C~~C~~~f~~~~~l~~H~~~h~ 253 (431)
.|.|++|++.=.+...|..|...-+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~H 103 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQH 103 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcC
Confidence 5777777766666666666655433
No 75
>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=91.39 E-value=0.085 Score=30.42 Aligned_cols=10 Identities=30% Similarity=1.122 Sum_probs=5.3
Q ss_pred CCcccccccc
Q psy11675 312 KPYNCGICAK 321 (431)
Q Consensus 312 ~~~~C~~C~~ 321 (431)
.++.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4555555553
No 76
>PRK10350 hypothetical protein; Provisional
Probab=90.52 E-value=0.34 Score=36.82 Aligned_cols=10 Identities=40% Similarity=0.501 Sum_probs=4.3
Q ss_pred chHHHHHHHH
Q psy11675 398 SIQHIQQNLQ 407 (431)
Q Consensus 398 ~~~~~q~~~q 407 (431)
|++.+|.+.|
T Consensus 35 SQQRmQtqMQ 44 (145)
T PRK10350 35 SQQRMQTQMQ 44 (145)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 77
>PRK10350 hypothetical protein; Provisional
Probab=90.27 E-value=0.66 Score=35.33 Aligned_cols=28 Identities=18% Similarity=0.248 Sum_probs=11.7
Q ss_pred CcCCCCchHHHHHHHHHHHHHHHHHHHH
Q psy11675 392 VQNIHPSIQHIQQNLQQNIQQNLQQNIQ 419 (431)
Q Consensus 392 ~~~~~~~~~~~q~~~qq~~Qqq~q~~~~ 419 (431)
.+-.....+.+|.+.+..++|+++.|.+
T Consensus 36 QQRmQtqMQ~QQ~qQq~~LnQqlq~Qtq 63 (145)
T PRK10350 36 QQRMQTQMQTQQIQQKGMLNQQLKTQTR 63 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444444444444333
No 78
>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=90.26 E-value=0.44 Score=36.46 Aligned_cols=53 Identities=19% Similarity=0.375 Sum_probs=42.3
Q ss_pred CccccccccccCChHHHHHHHhh-hCCC-----------------------------------------CCccc----cc
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQI-HGGV-----------------------------------------KPFAC----TV 290 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~-----------------------------------------~~~~C----~~ 290 (431)
-..|..|+.+..- +++..|++. |... .-|.| ..
T Consensus 11 vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~~ 89 (109)
T PF12013_consen 11 VLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPPH 89 (109)
T ss_pred EEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCCC
Confidence 3579999988776 889999983 3221 11899 99
Q ss_pred chhhccChHHHHHHHHhcCC
Q psy11675 291 CNKSFLQKTQLQNHLYTHSK 310 (431)
Q Consensus 291 C~~~f~~~~~L~~H~~~h~~ 310 (431)
|++.+.+...|.+|++.++|
T Consensus 90 C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 90 CGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCcEeccHHHHHHHHHHhcC
Confidence 99999999999999998775
No 79
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.71 E-value=0.17 Score=32.26 Aligned_cols=31 Identities=29% Similarity=0.597 Sum_probs=19.2
Q ss_pred CCCCCcccccccccccChHHHHHHHHHhcCc
Q psy11675 309 SKVKPYNCGICAKSFVQRNTYIKHLEIVHGV 339 (431)
Q Consensus 309 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 339 (431)
.|+.-+.|+-|+..|....++.+|+...|+.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 3455566666666666666666666666653
No 80
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.89 E-value=0.24 Score=31.64 Aligned_cols=24 Identities=25% Similarity=0.488 Sum_probs=14.8
Q ss_pred CcccccccchhhccChHHHHHHHh
Q psy11675 2 VQVFTCEVCQQAFTRNADLKVHSM 25 (431)
Q Consensus 2 ~~~~~C~~C~~~f~~~~~L~~H~~ 25 (431)
|-.++|+-||+.|....++.+|..
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhh
Confidence 334666666666666666666653
No 81
>KOG2893|consensus
Probab=88.21 E-value=0.18 Score=42.96 Aligned_cols=42 Identities=26% Similarity=0.491 Sum_probs=20.9
Q ss_pred ccCcchhhcCChhHHHHHHHhhCCCCCccccCcccccccCchhhhhh
Q psy11675 146 VCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRKGHLVQH 192 (431)
Q Consensus 146 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 192 (431)
.|.+|++.|.....|..|.+..+ |+|.+|.+..-+.-.|..|
T Consensus 12 wcwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceee
Confidence 35555555555555555544322 5555555544444444444
No 82
>KOG2186|consensus
Probab=87.11 E-value=0.34 Score=41.89 Aligned_cols=46 Identities=26% Similarity=0.564 Sum_probs=32.3
Q ss_pred cccccchhhccChHHHHHHHhhcCCCCccccccchhhcCCHHHHHHHHH
Q psy11675 5 FTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKHKM 53 (431)
Q Consensus 5 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 53 (431)
|.|.+||.+.. +..|.+|+-...+ .-|.|-.|++.|.. ..+..|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 67888887776 4457778777666 55778888888866 55666643
No 83
>KOG2186|consensus
Probab=84.70 E-value=0.57 Score=40.52 Aligned_cols=48 Identities=29% Similarity=0.662 Sum_probs=31.6
Q ss_pred cccccchhhccChHHHHHHHHhcCCCCCcccccccccccChHHHHHHHHHh
Q psy11675 286 FACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSFVQRNTYIKHLEIV 336 (431)
Q Consensus 286 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 336 (431)
|.|.+||.+.. +..+..|+.+-++ .-|.|--|+..|.+ .++..|..-.
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhc
Confidence 56777777654 3456667776666 45777777777776 5666776543
No 84
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=84.66 E-value=0.41 Score=27.77 Aligned_cols=10 Identities=30% Similarity=0.886 Sum_probs=5.3
Q ss_pred cccccchhhc
Q psy11675 286 FACTVCNKSF 295 (431)
Q Consensus 286 ~~C~~C~~~f 295 (431)
|.|.+||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4555555543
No 85
>PF10956 DUF2756: Protein of unknown function (DUF2756); InterPro: IPR020158 This entry contains proteins with no known function.
Probab=84.53 E-value=1.9 Score=31.44 Aligned_cols=14 Identities=43% Similarity=0.574 Sum_probs=6.7
Q ss_pred CchHHHHHHHHHHH
Q psy11675 397 PSIQHIQQNLQQNI 410 (431)
Q Consensus 397 ~~~~~~q~~~qq~~ 410 (431)
+|.+-++.+.|.++
T Consensus 34 PSQQRMQ~qMQ~qQ 47 (104)
T PF10956_consen 34 PSQQRMQQQMQTQQ 47 (104)
T ss_pred cHHHHHHHHHHHHH
Confidence 44555555444433
No 86
>KOG4369|consensus
Probab=84.27 E-value=1.5 Score=46.38 Aligned_cols=35 Identities=37% Similarity=0.292 Sum_probs=15.9
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHHHhHHHHHhh
Q psy11675 394 NIHPSIQHIQQNLQQNIQQNLQQNIQQNIQHLLQQ 428 (431)
Q Consensus 394 ~~~~~~~~~q~~~qq~~Qqq~q~~~~~~~~~~~~~ 428 (431)
.+.+.+||.-++||+++-=|||||-+||.|+++||
T Consensus 1854 ~~q~~qqq~iq~lq~~q~lqqqqq~~qq~~~~~~q 1888 (2131)
T KOG4369|consen 1854 NIQQQQQQQIQHLQQQQALQQQQQRIQQFQQQYQQ 1888 (2131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhc
Confidence 34445555555555544333333344444444443
No 87
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=80.21 E-value=1.2 Score=33.72 Aligned_cols=10 Identities=40% Similarity=1.105 Sum_probs=4.5
Q ss_pred ccCccccccc
Q psy11675 175 RCDQCGKAFS 184 (431)
Q Consensus 175 ~C~~C~~~f~ 184 (431)
.|+.||+.|.
T Consensus 11 ~Cp~CG~kFY 20 (108)
T PF09538_consen 11 TCPSCGAKFY 20 (108)
T ss_pred cCCCCcchhc
Confidence 3444444443
No 88
>KOG1280|consensus
Probab=79.85 E-value=1.7 Score=39.61 Aligned_cols=28 Identities=18% Similarity=0.180 Sum_probs=20.6
Q ss_pred CCccccccccccCChHHHHHHHhhhCCC
Q psy11675 256 LPHTCLECSKCFSTKSELNRHAQIHGGV 283 (431)
Q Consensus 256 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 283 (431)
..|.|++|++.=.+...|..|+..-+.+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcc
Confidence 3588888888877788888887655444
No 89
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=79.32 E-value=0.82 Score=28.32 Aligned_cols=26 Identities=15% Similarity=0.443 Sum_probs=16.4
Q ss_pred cccccchhhccChHHHHHHHhhcCCCCccccccchhh
Q psy11675 5 FTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKM 41 (431)
Q Consensus 5 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 41 (431)
|.|..||..|... ...+.+|+.||..
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----------CCCceECCCCCce
Confidence 6777777776532 2345677777643
No 90
>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=79.14 E-value=1.2 Score=33.70 Aligned_cols=30 Identities=23% Similarity=0.661 Sum_probs=20.5
Q ss_pred cccCcchhhcCChhHHHHHHHhhCCCCCccccCcccccccCc
Q psy11675 145 YVCEICSKAFTQQYNLKHHLLLHGDGNSLFRCDQCGKAFSRK 186 (431)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 186 (431)
..|+.||..|... ++.|..|+.||..|.-.
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 5678888777652 34567788888777655
No 91
>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=76.85 E-value=1.8 Score=26.81 Aligned_cols=25 Identities=24% Similarity=0.463 Sum_probs=11.1
Q ss_pred CcccccccccccC----hHHHHHHHHHhc
Q psy11675 313 PYNCGICAKSFVQ----RNTYIKHLEIVH 337 (431)
Q Consensus 313 ~~~C~~C~~~f~~----~~~l~~H~~~~h 337 (431)
...|.+|++.+.. .+.|.+|++..|
T Consensus 16 ~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 16 KAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp -EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred eEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 3455555555444 255666664433
No 92
>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=76.63 E-value=1.7 Score=23.42 Aligned_cols=8 Identities=38% Similarity=0.966 Sum_probs=3.3
Q ss_pred cccccccc
Q psy11675 260 CLECSKCF 267 (431)
Q Consensus 260 C~~C~~~f 267 (431)
|+.||..|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 44444433
No 93
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=76.08 E-value=1.2 Score=38.68 Aligned_cols=21 Identities=29% Similarity=0.491 Sum_probs=11.6
Q ss_pred ccccCcccccccCchhhhhhh
Q psy11675 173 LFRCDQCGKAFSRKGHLVQHS 193 (431)
Q Consensus 173 ~~~C~~C~~~f~~~~~l~~H~ 193 (431)
.+.|++|+..|.+........
T Consensus 5 ~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred ceECCCCCCeeeeeEEEcCCc
Confidence 356666666666654444433
No 94
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=75.01 E-value=1.5 Score=35.93 Aligned_cols=23 Identities=30% Similarity=0.775 Sum_probs=14.2
Q ss_pred CcccccchhhccChHHHHHHHHhcCCCCCccccccc
Q psy11675 285 PFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICA 320 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~ 320 (431)
.|.|++||+.+ -|+.|-.|++||
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 46677776643 345566777776
No 95
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=73.11 E-value=2.1 Score=28.43 Aligned_cols=27 Identities=22% Similarity=0.562 Sum_probs=13.0
Q ss_pred hHHHHHHHHhcCCCCCccccc----cccccc
Q psy11675 298 KTQLQNHLYTHSKVKPYNCGI----CAKSFV 324 (431)
Q Consensus 298 ~~~L~~H~~~h~~~~~~~C~~----C~~~f~ 324 (431)
+..|..|+...-..++..|.+ |+..+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 445566655444455555666 655554
No 96
>KOG2133|consensus
Probab=72.72 E-value=4.7 Score=41.99 Aligned_cols=24 Identities=21% Similarity=0.108 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHhHHHHHhhhcC
Q psy11675 408 QNIQQNLQQNIQQNIQHLLQQNMH 431 (431)
Q Consensus 408 q~~Qqq~q~~~~~~~~~~~~~~~~ 431 (431)
|++++++|-+..|+++++||+++|
T Consensus 1171 q~qam~~QsaeaQr~aqqqq~~l~ 1194 (1229)
T KOG2133|consen 1171 QLQAMHAQSAEAQRLAQQQQPWLH 1194 (1229)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhc
Confidence 333333333444444455554544
No 97
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=72.43 E-value=1 Score=39.10 Aligned_cols=23 Identities=26% Similarity=0.559 Sum_probs=14.8
Q ss_pred CCCccCCCcccccCChhHHHHHh
Q psy11675 199 EKPFKCSYCPKAFSHKGHLNEHL 221 (431)
Q Consensus 199 ~~~~~C~~C~~~f~~~~~l~~H~ 221 (431)
++.+.|++|+..|.+..-+....
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCc
Confidence 35577888888887765444443
No 98
>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=71.79 E-value=3.7 Score=22.13 Aligned_cols=20 Identities=25% Similarity=0.602 Sum_probs=14.0
Q ss_pred ccccccccccChHHHHHHHHH
Q psy11675 315 NCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 315 ~C~~C~~~f~~~~~l~~H~~~ 335 (431)
.|++|++.+ ....+..|+..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 3 QCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHHH
Confidence 577887777 55677777763
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=71.55 E-value=2.3 Score=33.49 Aligned_cols=24 Identities=29% Similarity=0.458 Sum_probs=11.5
Q ss_pred ccccccchhhccChHHHHHHHhhcCCC
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSMVHKIA 30 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~~h~~~ 30 (431)
...|-+||+.|.. |++|++.|++-
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eeEEccCCcccch---HHHHHHHccCC
Confidence 3456666666654 46666666553
No 100
>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=70.93 E-value=3.3 Score=34.04 Aligned_cols=30 Identities=17% Similarity=0.381 Sum_probs=16.3
Q ss_pred CCcccccchhhccChHHHHHHHHhcCCCCCccccccccc
Q psy11675 284 KPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKS 322 (431)
Q Consensus 284 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 322 (431)
.-|.|+.|+..|+...++. .-|.|+.||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 3455666666555555553 13666666653
No 101
>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=69.36 E-value=2.7 Score=24.93 Aligned_cols=9 Identities=22% Similarity=0.671 Sum_probs=3.7
Q ss_pred cccCcchhh
Q psy11675 145 YVCEICSKA 153 (431)
Q Consensus 145 ~~C~~C~~~ 153 (431)
..|+.|+..
T Consensus 26 v~C~~C~~~ 34 (38)
T TIGR02098 26 VRCGKCGHV 34 (38)
T ss_pred EECCCCCCE
Confidence 344444433
No 102
>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=69.29 E-value=2.3 Score=25.65 Aligned_cols=11 Identities=45% Similarity=1.555 Sum_probs=5.1
Q ss_pred cccCccccccc
Q psy11675 174 FRCDQCGKAFS 184 (431)
Q Consensus 174 ~~C~~C~~~f~ 184 (431)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44444444443
No 103
>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=69.07 E-value=2.3 Score=27.35 Aligned_cols=11 Identities=45% Similarity=1.404 Sum_probs=5.3
Q ss_pred cccCccccccc
Q psy11675 174 FRCDQCGKAFS 184 (431)
Q Consensus 174 ~~C~~C~~~f~ 184 (431)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44555554444
No 104
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=68.51 E-value=3.3 Score=24.50 Aligned_cols=9 Identities=22% Similarity=0.682 Sum_probs=3.6
Q ss_pred cccCcchhh
Q psy11675 145 YVCEICSKA 153 (431)
Q Consensus 145 ~~C~~C~~~ 153 (431)
.+|+.|+..
T Consensus 26 vrC~~C~~~ 34 (37)
T PF13719_consen 26 VRCPKCGHV 34 (37)
T ss_pred EECCCCCcE
Confidence 334444433
No 105
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=68.41 E-value=2.3 Score=26.56 Aligned_cols=9 Identities=33% Similarity=1.102 Sum_probs=3.6
Q ss_pred cccCcchhh
Q psy11675 145 YVCEICSKA 153 (431)
Q Consensus 145 ~~C~~C~~~ 153 (431)
|.|+.||..
T Consensus 4 y~C~~CG~~ 12 (46)
T PRK00398 4 YKCARCGRE 12 (46)
T ss_pred EECCCCCCE
Confidence 344444443
No 106
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=68.17 E-value=3.6 Score=24.17 Aligned_cols=10 Identities=30% Similarity=0.869 Sum_probs=4.4
Q ss_pred cccCcchhhc
Q psy11675 145 YVCEICSKAF 154 (431)
Q Consensus 145 ~~C~~C~~~f 154 (431)
.+|+.|+..|
T Consensus 26 v~C~~C~~~f 35 (36)
T PF13717_consen 26 VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEe
Confidence 4444444433
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.78 E-value=3.7 Score=33.30 Aligned_cols=36 Identities=14% Similarity=0.425 Sum_probs=18.3
Q ss_pred CcccccccccccCCHHHHHHHHHHccCCCccccCCCCccc
Q psy11675 57 QVFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPF 96 (431)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 96 (431)
..|.|+.|+..|.....+.. . . .+..|.|+.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 45667667666654332211 0 1 13337777776654
No 108
>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=66.83 E-value=3.4 Score=36.01 Aligned_cols=40 Identities=15% Similarity=0.546 Sum_probs=17.5
Q ss_pred CCCCcccccccccccChhHHHHHHhhhc-CCCCCcccCcchh
Q psy11675 112 DVKKYNCEECDKYYLSQGELDSHVQTSH-RGIKPYVCEICSK 152 (431)
Q Consensus 112 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h-~~~~~~~C~~C~~ 152 (431)
+.+.|.|.+|+... -..+--.|....- .....|+|..|++
T Consensus 139 GGrif~CsfC~~fl-CEDDQFEHQAsCQvLe~E~~KC~SCNr 179 (314)
T PF06524_consen 139 GGRIFKCSFCDNFL-CEDDQFEHQASCQVLESETFKCQSCNR 179 (314)
T ss_pred CCeEEEeecCCCee-eccchhhhhhhhhhhhccccccccccc
Confidence 44566666665433 2233333322111 1223466666654
No 109
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.74 E-value=1.7 Score=35.34 Aligned_cols=12 Identities=33% Similarity=0.719 Sum_probs=5.1
Q ss_pred ccCCCcccccCC
Q psy11675 202 FKCSYCPKAFSH 213 (431)
Q Consensus 202 ~~C~~C~~~f~~ 213 (431)
+.|+.||++|.+
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 334444444443
No 110
>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=66.13 E-value=4 Score=31.53 Aligned_cols=13 Identities=15% Similarity=0.140 Sum_probs=5.9
Q ss_pred CccccCccccccc
Q psy11675 172 SLFRCDQCGKAFS 184 (431)
Q Consensus 172 ~~~~C~~C~~~f~ 184 (431)
.|..|+.||..|.
T Consensus 25 ~p~vcP~cg~~~~ 37 (129)
T TIGR02300 25 RPAVSPYTGEQFP 37 (129)
T ss_pred CCccCCCcCCccC
Confidence 3444444444443
No 111
>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=65.88 E-value=4.7 Score=31.20 Aligned_cols=8 Identities=38% Similarity=1.012 Sum_probs=3.0
Q ss_pred cCcccccc
Q psy11675 176 CDQCGKAF 183 (431)
Q Consensus 176 C~~C~~~f 183 (431)
|+.||+.|
T Consensus 12 Cp~cg~kF 19 (129)
T TIGR02300 12 CPNTGSKF 19 (129)
T ss_pred CCCcCccc
Confidence 33333333
No 112
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=65.23 E-value=3.3 Score=27.44 Aligned_cols=39 Identities=23% Similarity=0.627 Sum_probs=18.5
Q ss_pred Cccccc--cccccCChHHHHHHHhhhCCCCCccccc----chhhcc
Q psy11675 257 PHTCLE--CSKCFSTKSELNRHAQIHGGVKPFACTV----CNKSFL 296 (431)
Q Consensus 257 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 296 (431)
+..|+. |...+. +..|..|+...-..++..|.+ |+..+.
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 345555 333333 455666666555555666666 666554
No 113
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=65.03 E-value=6.1 Score=32.45 Aligned_cols=16 Identities=19% Similarity=0.361 Sum_probs=7.4
Q ss_pred ccccccccccCCHHHH
Q psy11675 59 FTCEVCMRSFNDRKEF 74 (431)
Q Consensus 59 ~~C~~C~~~f~~~~~l 74 (431)
|.|+.|+..|.....+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 4455555444443333
No 114
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=65.01 E-value=4.6 Score=33.91 Aligned_cols=30 Identities=20% Similarity=0.541 Sum_probs=17.0
Q ss_pred CCcccccchhhccChHHHHHHHHhcCCCCCccccccccc
Q psy11675 284 KPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKS 322 (431)
Q Consensus 284 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 322 (431)
.-|.|+.|+..|+....+. .-|.|+.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 3466666666666555542 24666666654
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=64.78 E-value=5.4 Score=32.33 Aligned_cols=14 Identities=14% Similarity=0.536 Sum_probs=7.5
Q ss_pred CcccccchhhccCh
Q psy11675 285 PFACTVCNKSFLQK 298 (431)
Q Consensus 285 ~~~C~~C~~~f~~~ 298 (431)
-|.|+.|+..|...
T Consensus 99 ~Y~Cp~C~~~y~~~ 112 (147)
T smart00531 99 YYKCPNCQSKYTFL 112 (147)
T ss_pred EEECcCCCCEeeHH
Confidence 45555555555543
No 116
>KOG2272|consensus
Probab=64.72 E-value=2.6 Score=36.50 Aligned_cols=121 Identities=19% Similarity=0.362 Sum_probs=56.9
Q ss_pred ccccccchhhcCCHHHHHHHHHh------------CCCcccccccccccCCHHHHHHHHHHccCCCccccCCCCcccCCH
Q psy11675 32 LHKCELCYKMFSDKLLYEKHKMV------------HRQVFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPFLRK 99 (431)
Q Consensus 32 ~~~C~~C~~~f~~~~~l~~H~~~------------h~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 99 (431)
=|.|++|++...+...++.--+. -...|.|..|...-.. ..|.---..- ..--|+|..|++...+.
T Consensus 99 CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~-~~l~fr~d~y-H~yHFkCt~C~keL~sd 176 (332)
T KOG2272|consen 99 CFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE-QPLTFRGDPY-HPYHFKCTTCGKELTSD 176 (332)
T ss_pred cchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-ccccccCCCC-Cccceecccccccccch
Confidence 47788888777665554432111 1246888888655433 1111000000 01237899998887655
Q ss_pred HHHHHH-H--HhhccCCCCcccccccccccChhHHHHHHhhhcCCCCCcccCcchhhcCCh
Q psy11675 100 DLLEAH-V--NSVHKDVKKYNCEECDKYYLSQGELDSHVQTSHRGIKPYVCEICSKAFTQQ 157 (431)
Q Consensus 100 ~~l~~H-~--~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~ 157 (431)
+.-..- + .+-| ..+.+++|+.--.-..+-..-.-..|-...-|+|..|.+.|..-
T Consensus 177 aRevk~eLyClrCh---D~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPFlGH 234 (332)
T KOG2272|consen 177 AREVKGELYCLRCH---DKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFLGH 234 (332)
T ss_pred hhhhccceeccccc---cccCCcccccccCchHHHHHHHhccccchhheeehhcCCcccch
Confidence 421100 0 0011 12445555543222111111001123334458999999998764
No 117
>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=64.34 E-value=4.4 Score=23.10 Aligned_cols=6 Identities=67% Similarity=1.957 Sum_probs=2.5
Q ss_pred ccCccc
Q psy11675 175 RCDQCG 180 (431)
Q Consensus 175 ~C~~C~ 180 (431)
+|+.||
T Consensus 19 rC~~CG 24 (32)
T PF03604_consen 19 RCPECG 24 (32)
T ss_dssp SBSSSS
T ss_pred ECCcCC
Confidence 444444
No 118
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=63.71 E-value=3.7 Score=33.73 Aligned_cols=23 Identities=26% Similarity=0.693 Sum_probs=15.7
Q ss_pred CccccccccccCChHHHHHHHhhhCCCCCcccccch
Q psy11675 257 PHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCN 292 (431)
Q Consensus 257 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 292 (431)
-|.|.+||+.+ -|+.|-+|++||
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 57777777653 346777777777
No 119
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=63.24 E-value=1.9 Score=35.09 Aligned_cols=14 Identities=36% Similarity=0.591 Sum_probs=8.7
Q ss_pred CCCCCCCccccChH
Q psy11675 230 FQCKYCPKTFTLRK 243 (431)
Q Consensus 230 ~~C~~C~~~f~~~~ 243 (431)
+.|+.||++|.+..
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 56666666666543
No 120
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=61.66 E-value=6.7 Score=24.97 Aligned_cols=23 Identities=26% Similarity=0.611 Sum_probs=11.4
Q ss_pred ccccccccccCh-----HHHHHHHHHhc
Q psy11675 315 NCGICAKSFVQR-----NTYIKHLEIVH 337 (431)
Q Consensus 315 ~C~~C~~~f~~~-----~~l~~H~~~~h 337 (431)
.|.+|++.+... +.|.+|++..|
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 355555544332 46666665433
No 121
>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=61.45 E-value=3.7 Score=25.08 Aligned_cols=11 Identities=45% Similarity=1.561 Sum_probs=5.5
Q ss_pred cccCccccccc
Q psy11675 174 FRCDQCGKAFS 184 (431)
Q Consensus 174 ~~C~~C~~~f~ 184 (431)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 45555555443
No 122
>KOG1044|consensus
Probab=61.45 E-value=0.49 Score=45.92 Aligned_cols=133 Identities=23% Similarity=0.424 Sum_probs=59.9
Q ss_pred ccccCCCCcccCCHHHHHHHHHhhccCCCCcccccccccccChhHHHHHHhhhcCCCCCcccCcchhhcCChhHHHHH-H
Q psy11675 86 LFSCNFCLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKYYLSQGELDSHVQTSHRGIKPYVCEICSKAFTQQYNLKHH-L 164 (431)
Q Consensus 86 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H-~ 164 (431)
-|.|..|...|...+ +++...+...|..|....... .+....+-.|..|+.....-..|..- .
T Consensus 91 cf~cs~ck~pf~~g~-------~vt~~gk~~~c~~c~~~~~~~---------p~~~~~ps~cagc~~~lk~gq~llald~ 154 (670)
T KOG1044|consen 91 CFSCSTCKSPFKSGD-------KVTFSGKECLCQTCSQPMPVS---------PAESYGPSTCAGCGEELKNGQALLALDK 154 (670)
T ss_pred cceecccCCCCCCCC-------eeeecchhhhhhhhcCcccCC---------cccccCCccccchhhhhhccceeeeecc
Confidence 366667776666543 233333444455554433322 01112345677777665544433221 1
Q ss_pred HhhCCCCCccccCcccccccCchhhhhh-----hccccCCCCccCCCcccccCChhHHHHHhhhhcCCCCC-----CCCC
Q psy11675 165 LLHGDGNSLFRCDQCGKAFSRKGHLVQH-----SFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCF-----QCKY 234 (431)
Q Consensus 165 ~~h~~~~~~~~C~~C~~~f~~~~~l~~H-----~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~-----~C~~ 234 (431)
..|. .-|+|..|+.+...... ..+ .+.....--.+|..|.+-+..+-. -.|.+-| +|..
T Consensus 155 qwhv---~cfkc~~c~~vL~gey~-skdg~pyce~dy~~~fgvkc~~c~~fisgkvL-------qag~kh~HPtCARCsR 223 (670)
T KOG1044|consen 155 QWHV---SCFKCKSCSAVLNGEYM-SKDGVPYCEKDYQAKFGVKCEECEKFISGKVL-------QAGDKHFHPTCARCSR 223 (670)
T ss_pred ceee---eeeehhhhcccccceee-ccCCCcchhhhhhhhcCeehHHhhhhhhhhhh-------hccCcccCcchhhhhh
Confidence 2221 23677777766443221 000 000011112456777665544321 1223332 4777
Q ss_pred CCccccChHHH
Q psy11675 235 CPKTFTLRKHL 245 (431)
Q Consensus 235 C~~~f~~~~~l 245 (431)
|+..|..-..+
T Consensus 224 CgqmF~eGEEM 234 (670)
T KOG1044|consen 224 CGQMFGEGEEM 234 (670)
T ss_pred hccccccchhe
Confidence 77777765443
No 123
>PHA00626 hypothetical protein
Probab=61.42 E-value=4.4 Score=26.16 Aligned_cols=10 Identities=20% Similarity=0.507 Sum_probs=4.2
Q ss_pred ccCCCccccc
Q psy11675 202 FKCSYCPKAF 211 (431)
Q Consensus 202 ~~C~~C~~~f 211 (431)
|+|+.||..|
T Consensus 24 YkCkdCGY~f 33 (59)
T PHA00626 24 YVCCDCGYND 33 (59)
T ss_pred eEcCCCCCee
Confidence 4444444433
No 124
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=61.30 E-value=5.9 Score=26.01 Aligned_cols=7 Identities=43% Similarity=1.046 Sum_probs=3.1
Q ss_pred cccCCCC
Q psy11675 87 FSCNFCL 93 (431)
Q Consensus 87 ~~C~~C~ 93 (431)
|.|+.||
T Consensus 28 F~CPnCG 34 (61)
T COG2888 28 FPCPNCG 34 (61)
T ss_pred eeCCCCC
Confidence 4444444
No 125
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=60.93 E-value=3 Score=26.35 Aligned_cols=11 Identities=18% Similarity=0.754 Sum_probs=7.4
Q ss_pred ccccccchhhc
Q psy11675 4 VFTCEVCQQAF 14 (431)
Q Consensus 4 ~~~C~~C~~~f 14 (431)
.|+|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 46677777666
No 126
>KOG4592|consensus
Probab=59.93 E-value=5.6 Score=39.29 Aligned_cols=9 Identities=44% Similarity=0.328 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q psy11675 401 HIQQNLQQN 409 (431)
Q Consensus 401 ~~q~~~qq~ 409 (431)
-+|+++|||
T Consensus 149 ~qqqq~qqQ 157 (728)
T KOG4592|consen 149 KQQQQSQQQ 157 (728)
T ss_pred HHHHHHHHH
Confidence 334444443
No 127
>KOG2807|consensus
Probab=59.37 E-value=13 Score=33.85 Aligned_cols=88 Identities=20% Similarity=0.430 Sum_probs=50.3
Q ss_pred CCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHh----------cCCC--CCcccccccccc
Q psy11675 200 KPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNK----------HEGV--LPHTCLECSKCF 267 (431)
Q Consensus 200 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~----------h~~~--~~~~C~~C~~~f 267 (431)
.-|.|+.|....- .-|..|+.|+.+.....+|.+-..- -.++ +.-.|-.|+-.-
T Consensus 275 ~Gy~CP~CkakvC--------------sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~ 340 (378)
T KOG2807|consen 275 GGYFCPQCKAKVC--------------SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGEL 340 (378)
T ss_pred CceeCCcccCeee--------------cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeecccc
Confidence 3477888765432 2456788888877777766542211 1111 111255552111
Q ss_pred CChHHHHHHHhhhCCCCCcccccchhhccChHHHHHHHHhcCCCCCccccccc
Q psy11675 268 STKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICA 320 (431)
Q Consensus 268 ~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~ 320 (431)
.+...|.|..|...|-..-+.-.|...| .|+.|.
T Consensus 341 -------------~~~~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 341 -------------LSSGRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred -------------CCCCcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 2234588888888888777777776554 466665
No 128
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=59.34 E-value=8.2 Score=32.40 Aligned_cols=30 Identities=23% Similarity=0.488 Sum_probs=15.5
Q ss_pred cccccccccccCCHHHHHHHHHHccCCCccccCCCCccc
Q psy11675 58 VFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPF 96 (431)
Q Consensus 58 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 96 (431)
-|.|+.|+..|.....+. ..|.|+.||...
T Consensus 117 ~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred EEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 455666655554444331 246666666554
No 129
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=58.72 E-value=7.2 Score=40.41 Aligned_cols=10 Identities=30% Similarity=0.856 Sum_probs=5.3
Q ss_pred CCcccccchh
Q psy11675 284 KPFACTVCNK 293 (431)
Q Consensus 284 ~~~~C~~C~~ 293 (431)
.|..|+.||.
T Consensus 474 ~p~~Cp~Cgs 483 (730)
T COG1198 474 IPQSCPECGS 483 (730)
T ss_pred CCCCCCCCCC
Confidence 4455555554
No 130
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=57.60 E-value=6.8 Score=33.83 Aligned_cols=26 Identities=27% Similarity=0.465 Sum_probs=15.3
Q ss_pred CcccccccccccChHHHHHHHHHhcC
Q psy11675 313 PYNCGICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 313 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
.|.|+.|++.|.-..-..+|+...|+
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 46666666666666666666666664
No 131
>KOG1701|consensus
Probab=57.34 E-value=2.1 Score=40.23 Aligned_cols=35 Identities=34% Similarity=0.661 Sum_probs=16.6
Q ss_pred ccccchhhcCCHHHHHHHH--HhCCCccccccccccc
Q psy11675 34 KCELCYKMFSDKLLYEKHK--MVHRQVFTCEVCMRSF 68 (431)
Q Consensus 34 ~C~~C~~~f~~~~~l~~H~--~~h~~~~~C~~C~~~f 68 (431)
.|..|++.......--.-| ..|...|+|..|++..
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L 312 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQL 312 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhh
Confidence 4666666554332222222 2355556666665443
No 132
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=57.18 E-value=5.5 Score=26.20 Aligned_cols=51 Identities=16% Similarity=0.253 Sum_probs=30.4
Q ss_pred cccccccchhhccChHHHHHHHhhcCCCCccccccchhh-cCCHHHHHHHHHhCCCcccccccccc
Q psy11675 3 QVFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKM-FSDKLLYEKHKMVHRQVFTCEVCMRS 67 (431)
Q Consensus 3 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~-f~~~~~l~~H~~~h~~~~~C~~C~~~ 67 (431)
.+..|..|+....-.. ....|.|+.||+. ...-. .-+....+|.|+.||..
T Consensus 6 ~~~~CtSCg~~i~~~~----------~~~~F~CPnCG~~~I~RC~----~CRk~~~~Y~CP~CGF~ 57 (59)
T PRK14890 6 EPPKCTSCGIEIAPRE----------KAVKFLCPNCGEVIIYRCE----KCRKQSNPYTCPKCGFE 57 (59)
T ss_pred cCccccCCCCcccCCC----------ccCEeeCCCCCCeeEeech----hHHhcCCceECCCCCCc
Confidence 3456777776543211 1345889999887 32211 12345578999999864
No 133
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=55.37 E-value=4.4 Score=28.13 Aligned_cols=8 Identities=25% Similarity=0.742 Sum_probs=3.4
Q ss_pred cccccccC
Q psy11675 178 QCGKAFSR 185 (431)
Q Consensus 178 ~C~~~f~~ 185 (431)
.||.+|..
T Consensus 34 eCg~tF~t 41 (72)
T PRK09678 34 NCSATFIT 41 (72)
T ss_pred CCCCEEEE
Confidence 44444433
No 134
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=54.85 E-value=7.8 Score=40.14 Aligned_cols=11 Identities=27% Similarity=0.757 Sum_probs=7.0
Q ss_pred cccCccccccc
Q psy11675 174 FRCDQCGKAFS 184 (431)
Q Consensus 174 ~~C~~C~~~f~ 184 (431)
..|..||..+.
T Consensus 436 l~C~~Cg~v~~ 446 (730)
T COG1198 436 LLCRDCGYIAE 446 (730)
T ss_pred eecccCCCccc
Confidence 35777777643
No 135
>KOG4167|consensus
Probab=54.47 E-value=4.1 Score=41.03 Aligned_cols=25 Identities=24% Similarity=0.636 Sum_probs=17.8
Q ss_pred ccccccchhhccChHHHHHHHhhcC
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSMVHK 28 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~~h~ 28 (431)
.|.|.+|++.|....++..||+.|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4677777777777777777777664
No 136
>PF14353 CpXC: CpXC protein
Probab=54.37 E-value=9.2 Score=30.09 Aligned_cols=22 Identities=32% Similarity=0.591 Sum_probs=13.8
Q ss_pred CCccccCcccccccCchhhhhh
Q psy11675 171 NSLFRCDQCGKAFSRKGHLVQH 192 (431)
Q Consensus 171 ~~~~~C~~C~~~f~~~~~l~~H 192 (431)
-..|.|+.||..|.-...+.-|
T Consensus 36 l~~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 36 LFSFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred cCEEECCCCCCceecCCCEEEE
Confidence 3457778887777655555444
No 137
>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=54.34 E-value=4.1 Score=35.53 Aligned_cols=25 Identities=16% Similarity=0.219 Sum_probs=14.8
Q ss_pred CCCcccccccccccChHHHHHHHHH
Q psy11675 311 VKPYNCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 311 ~~~~~C~~C~~~f~~~~~l~~H~~~ 335 (431)
.+++.|+.||.......+|..-.|+
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRS 231 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeec
Confidence 3667777777666655555443333
No 138
>KOG2071|consensus
Probab=53.32 E-value=9.1 Score=37.92 Aligned_cols=28 Identities=29% Similarity=0.584 Sum_probs=22.4
Q ss_pred CCCCccccccccccCChHHHHHHHhhhC
Q psy11675 254 GVLPHTCLECSKCFSTKSELNRHAQIHG 281 (431)
Q Consensus 254 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 281 (431)
..++-.|..||.+|.+......||..|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3456789999999999888888887663
No 139
>PF12907 zf-met2: Zinc-binding
Probab=53.14 E-value=9.9 Score=22.94 Aligned_cols=9 Identities=33% Similarity=0.708 Sum_probs=3.5
Q ss_pred HHHHHhhhc
Q psy11675 131 LDSHVQTSH 139 (431)
Q Consensus 131 l~~H~~~~h 139 (431)
|..|....|
T Consensus 20 L~eH~enKH 28 (40)
T PF12907_consen 20 LKEHAENKH 28 (40)
T ss_pred HHHHHHccC
Confidence 444433333
No 140
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.86 E-value=12 Score=39.60 Aligned_cols=9 Identities=33% Similarity=0.752 Sum_probs=4.5
Q ss_pred CCCCCCCcc
Q psy11675 230 FQCKYCPKT 238 (431)
Q Consensus 230 ~~C~~C~~~ 238 (431)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 345555544
No 141
>KOG2593|consensus
Probab=51.64 E-value=13 Score=35.28 Aligned_cols=36 Identities=14% Similarity=0.433 Sum_probs=18.4
Q ss_pred CcccccccccccCCHHHHHHHHHHccCCCccccCCCCcc
Q psy11675 57 QVFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKP 95 (431)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 95 (431)
..|.|+.|.+.|.....+.. .-.....|.|..|+-.
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGE 162 (436)
T ss_pred ccccCCccccchhhhHHHHh---hcccCceEEEecCCCc
Confidence 34666666666655444322 1122334666666554
No 142
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=50.95 E-value=7.8 Score=30.18 Aligned_cols=24 Identities=25% Similarity=0.247 Sum_probs=15.4
Q ss_pred cccccchhhccChHHHHHHHhhcCCCC
Q psy11675 5 FTCEVCQQAFTRNADLKVHSMVHKIAQ 31 (431)
Q Consensus 5 ~~C~~C~~~f~~~~~L~~H~~~h~~~~ 31 (431)
..|-++|+.|.+ |++|+..|.+-.
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmT 100 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLT 100 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCC
Confidence 457777777643 667777766544
No 143
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.80 E-value=15 Score=38.95 Aligned_cols=49 Identities=20% Similarity=0.428 Sum_probs=30.3
Q ss_pred CccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHhcCCCCCccccccccccCChHHHHHHHhhh
Q psy11675 201 PFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIH 280 (431)
Q Consensus 201 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 280 (431)
...|+.||... -.+.|+.||.. ....+.|+.|+...
T Consensus 626 ~RfCpsCG~~t----------------~~frCP~CG~~---------------Te~i~fCP~CG~~~------------- 661 (1121)
T PRK04023 626 RRKCPSCGKET----------------FYRRCPFCGTH---------------TEPVYRCPRCGIEV------------- 661 (1121)
T ss_pred CccCCCCCCcC----------------CcccCCCCCCC---------------CCcceeCccccCcC-------------
Confidence 45788888762 23678888866 13346788885332
Q ss_pred CCCCCcccccchhhcc
Q psy11675 281 GGVKPFACTVCNKSFL 296 (431)
Q Consensus 281 ~~~~~~~C~~C~~~f~ 296 (431)
.++.|+.||..-.
T Consensus 662 ---~~y~CPKCG~El~ 674 (1121)
T PRK04023 662 ---EEDECEKCGREPT 674 (1121)
T ss_pred ---CCCcCCCCCCCCC
Confidence 2366888876543
No 144
>KOG4377|consensus
Probab=50.79 E-value=7 Score=36.59 Aligned_cols=26 Identities=12% Similarity=0.326 Sum_probs=19.3
Q ss_pred ccccc--ccccccChHHHHHHHHHhcCc
Q psy11675 314 YNCGI--CAKSFVQRNTYIKHLEIVHGV 339 (431)
Q Consensus 314 ~~C~~--C~~~f~~~~~l~~H~~~~h~~ 339 (431)
|-|.. |+..+.+.+.+..|.+.+-..
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhhhh
Confidence 44543 888888888888888877654
No 145
>KOG2675|consensus
Probab=50.75 E-value=34 Score=32.60 Aligned_cols=11 Identities=9% Similarity=-0.040 Sum_probs=7.0
Q ss_pred HHHHHHHHhcC
Q psy11675 328 TYIKHLEIVHG 338 (431)
Q Consensus 328 ~l~~H~~~~h~ 338 (431)
.|..=++.||.
T Consensus 198 eL~~YVk~hht 208 (480)
T KOG2675|consen 198 ELQAYVKEHHT 208 (480)
T ss_pred HHHHHHHHhcc
Confidence 46666677774
No 146
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=50.73 E-value=5 Score=28.68 Aligned_cols=14 Identities=21% Similarity=0.591 Sum_probs=7.8
Q ss_pred CccccCCCCcccCC
Q psy11675 85 KLFSCNFCLKPFLR 98 (431)
Q Consensus 85 ~~~~C~~C~~~f~~ 98 (431)
..|.|..|+..|..
T Consensus 52 GIW~C~kCg~~fAG 65 (89)
T COG1997 52 GIWKCRKCGAKFAG 65 (89)
T ss_pred CeEEcCCCCCeecc
Confidence 34666666665543
No 147
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.16 E-value=8.8 Score=25.23 Aligned_cols=38 Identities=18% Similarity=0.400 Sum_probs=20.9
Q ss_pred ccccchhh-ccChHHHHHHHhhcCCCCccccccchhhcC
Q psy11675 6 TCEVCQQA-FTRNADLKVHSMVHKIAQLHKCELCYKMFS 43 (431)
Q Consensus 6 ~C~~C~~~-f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~ 43 (431)
+|-+|++. |-+...+..-.........|.|++|.-+..
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~Rva 42 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRVA 42 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHhhhc
Confidence 46666643 444455555544555556666776655443
No 148
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=49.77 E-value=12 Score=33.59 Aligned_cols=47 Identities=17% Similarity=0.397 Sum_probs=25.5
Q ss_pred ccccccccCChHHHHHHHhhhCCCCCcccccchhhccChHHHHHHHHhc
Q psy11675 260 CLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKTQLQNHLYTH 308 (431)
Q Consensus 260 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 308 (431)
|-.|.-.|+....-..-. -+....|.|+.|...|-..-+.-.|...|
T Consensus 365 Cf~CQ~~fp~~~~~~~~~--~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 365 CFVCQGPFPKPPVSPFDE--STSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceeccCCCCCCCCCcccc--cccccceechhhhhhhhhhhHHHHHHHHh
Confidence 666666665432211111 11223577888877777776666666554
No 149
>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=48.83 E-value=9.6 Score=30.10 Aligned_cols=23 Identities=35% Similarity=0.642 Sum_probs=11.5
Q ss_pred cccccccccccChHHHHHHHHHhcCc
Q psy11675 314 YNCGICAKSFVQRNTYIKHLEIVHGV 339 (431)
Q Consensus 314 ~~C~~C~~~f~~~~~l~~H~~~~h~~ 339 (431)
..|-+||+.|.. |.+|++.+||.
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eEEccCCcccch---HHHHHHHccCC
Confidence 456666666653 36677766664
No 150
>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=48.46 E-value=12 Score=32.41 Aligned_cols=29 Identities=24% Similarity=0.540 Sum_probs=19.5
Q ss_pred CCCccccCCCCcccCCHHHHHHHHHhhcc
Q psy11675 83 KEKLFSCNFCLKPFLRKDLLEAHVNSVHK 111 (431)
Q Consensus 83 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 111 (431)
.+..|.|..|+|.|....-+..|+...|.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 34457888888888888888888877775
No 151
>KOG2807|consensus
Probab=47.52 E-value=17 Score=33.03 Aligned_cols=87 Identities=22% Similarity=0.458 Sum_probs=52.6
Q ss_pred ccccCcccccccCchhhhhhhccccCCCCccCCCcccccCChhHHHHHhhhhcCCCCC------------CCCCCCcccc
Q psy11675 173 LFRCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCF------------QCKYCPKTFT 240 (431)
Q Consensus 173 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~------------~C~~C~~~f~ 240 (431)
-|.|+.|+...- +-|..|++|+....+...|.+-..---.-++| .|-.|+..
T Consensus 276 Gy~CP~CkakvC--------------sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~-- 339 (378)
T KOG2807|consen 276 GYFCPQCKAKVC--------------SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE-- 339 (378)
T ss_pred ceeCCcccCeee--------------cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc--
Confidence 488888876432 34778999998888777766532211111111 14444111
Q ss_pred ChHHHHHHHHhcCCCCCccccccccccCChHHHHHHHhhhCCCCCcccccch
Q psy11675 241 LRKHLKAHTNKHEGVLPHTCLECSKCFSTKSELNRHAQIHGGVKPFACTVCN 292 (431)
Q Consensus 241 ~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 292 (431)
-.+...|.|..|...|-.--+.-.|...|. |+.|.
T Consensus 340 -----------~~~~~~y~C~~Ck~~FCldCDv~iHesLh~------CpgCe 374 (378)
T KOG2807|consen 340 -----------LLSSGRYRCESCKNVFCLDCDVFIHESLHN------CPGCE 374 (378)
T ss_pred -----------cCCCCcEEchhccceeeccchHHHHhhhhc------CCCcC
Confidence 123345888888888887777777776654 66665
No 152
>KOG2593|consensus
Probab=46.87 E-value=20 Score=34.09 Aligned_cols=38 Identities=18% Similarity=0.509 Sum_probs=21.1
Q ss_pred CCCccccCCCCcccCCHHHHHHHHHhhccCCCCccccccccc
Q psy11675 83 KEKLFSCNFCLKPFLRKDLLEAHVNSVHKDVKKYNCEECDKY 124 (431)
Q Consensus 83 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 124 (431)
....|.|+.|.+.|..-..+..- -.....|.|..|+-.
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGGE 162 (436)
T ss_pred ccccccCCccccchhhhHHHHhh----cccCceEEEecCCCc
Confidence 34457777777777655544321 223345677777644
No 153
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=46.72 E-value=13 Score=23.57 Aligned_cols=13 Identities=31% Similarity=0.723 Sum_probs=6.9
Q ss_pred CccccCCCCcccC
Q psy11675 85 KLFSCNFCLKPFL 97 (431)
Q Consensus 85 ~~~~C~~C~~~f~ 97 (431)
+.+.|..||..|.
T Consensus 3 k~l~C~dCg~~Fv 15 (49)
T PF13451_consen 3 KTLTCKDCGAEFV 15 (49)
T ss_pred eeEEcccCCCeEE
Confidence 3455555555554
No 154
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=45.49 E-value=18 Score=21.96 Aligned_cols=25 Identities=24% Similarity=0.353 Sum_probs=16.7
Q ss_pred ccccccchhhcC--CHHHHHHHHHhCC
Q psy11675 32 LHKCELCYKMFS--DKLLYEKHKMVHR 56 (431)
Q Consensus 32 ~~~C~~C~~~f~--~~~~l~~H~~~h~ 56 (431)
..+|+.||..|. ....-..|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 357888888874 4556667766653
No 155
>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=45.04 E-value=7.4 Score=21.79 Aligned_cols=10 Identities=20% Similarity=0.551 Sum_probs=5.4
Q ss_pred CCcccccccc
Q psy11675 312 KPYNCGICAK 321 (431)
Q Consensus 312 ~~~~C~~C~~ 321 (431)
..|.|+.|+.
T Consensus 18 ~~~vCp~C~~ 27 (30)
T PF08274_consen 18 ELLVCPECGH 27 (30)
T ss_dssp SSEEETTTTE
T ss_pred CEEeCCcccc
Confidence 3455655554
No 156
>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=44.55 E-value=16 Score=21.44 Aligned_cols=8 Identities=38% Similarity=1.555 Sum_probs=3.4
Q ss_pred cCcccccc
Q psy11675 176 CDQCGKAF 183 (431)
Q Consensus 176 C~~C~~~f 183 (431)
|+.||..|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 44444433
No 157
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=44.13 E-value=11 Score=29.47 Aligned_cols=15 Identities=33% Similarity=0.860 Sum_probs=10.2
Q ss_pred CcccccchhhccChH
Q psy11675 285 PFACTVCNKSFLQKT 299 (431)
Q Consensus 285 ~~~C~~C~~~f~~~~ 299 (431)
|++|..||+.|.+.+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 466777777777544
No 158
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=43.28 E-value=16 Score=23.39 Aligned_cols=11 Identities=27% Similarity=1.078 Sum_probs=5.0
Q ss_pred cccCccccccc
Q psy11675 174 FRCDQCGKAFS 184 (431)
Q Consensus 174 ~~C~~C~~~f~ 184 (431)
|.|..||+.+.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 34444444443
No 159
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.94 E-value=15 Score=27.38 Aligned_cols=11 Identities=18% Similarity=0.347 Sum_probs=4.6
Q ss_pred CCCCCCCCccc
Q psy11675 229 CFQCKYCPKTF 239 (431)
Q Consensus 229 ~~~C~~C~~~f 239 (431)
|..|++||++|
T Consensus 26 PiVsPytG~s~ 36 (129)
T COG4530 26 PIVSPYTGKSY 36 (129)
T ss_pred ccccCcccccc
Confidence 33444444444
No 160
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=42.80 E-value=11 Score=29.39 Aligned_cols=17 Identities=24% Similarity=0.626 Sum_probs=9.1
Q ss_pred CCCCCCCCCCCccccCh
Q psy11675 226 ENKCFQCKYCPKTFTLR 242 (431)
Q Consensus 226 ~~~~~~C~~C~~~f~~~ 242 (431)
+.+.|.|.+|..+...+
T Consensus 77 d~~lYeCnIC~etS~ee 93 (140)
T PF05290_consen 77 DPKLYECNICKETSAEE 93 (140)
T ss_pred CCCceeccCcccccchh
Confidence 33555666665555544
No 161
>KOG4167|consensus
Probab=42.73 E-value=7 Score=39.50 Aligned_cols=26 Identities=31% Similarity=0.622 Sum_probs=23.5
Q ss_pred CcccccccccccCCHHHHHHHHHHcc
Q psy11675 57 QVFTCEVCMRSFNDRKEFNEHIMKHE 82 (431)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 82 (431)
..|.|.+|++.|.....++.||+.|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 46899999999999999999999985
No 162
>KOG2071|consensus
Probab=42.69 E-value=22 Score=35.42 Aligned_cols=27 Identities=22% Similarity=0.557 Sum_probs=18.3
Q ss_pred CCCccCCCcccccCChhHHHHHhhhhc
Q psy11675 199 EKPFKCSYCPKAFSHKGHLNEHLYTHS 225 (431)
Q Consensus 199 ~~~~~C~~C~~~f~~~~~l~~H~~~h~ 225 (431)
..+-.|..||..|........||..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 345678888888877777666665553
No 163
>KOG4407|consensus
Probab=41.84 E-value=20 Score=39.07 Aligned_cols=14 Identities=43% Similarity=0.311 Sum_probs=6.2
Q ss_pred HHHHHHHHHhHHHH
Q psy11675 412 QNLQQNIQQNIQHL 425 (431)
Q Consensus 412 qq~q~~~~~~~~~~ 425 (431)
||||+--||++||-
T Consensus 361 ~qq~H~~~qq~QH~ 374 (1973)
T KOG4407|consen 361 QQQQHLYQQQQQHH 374 (1973)
T ss_pred HhccccchhHHHHH
Confidence 33334445555543
No 164
>PF15269 zf-C2H2_7: Zinc-finger
Probab=41.42 E-value=17 Score=22.26 Aligned_cols=23 Identities=17% Similarity=0.319 Sum_probs=18.1
Q ss_pred ccccccchhhccChHHHHHHHhh
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSMV 26 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~~ 26 (431)
.|+|..|..+...++.|-.||+.
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 36788888888888888888764
No 165
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=41.01 E-value=22 Score=22.33 Aligned_cols=12 Identities=25% Similarity=1.018 Sum_probs=6.5
Q ss_pred cccCcccccccC
Q psy11675 174 FRCDQCGKAFSR 185 (431)
Q Consensus 174 ~~C~~C~~~f~~ 185 (431)
|.|..|+..+..
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 455566655543
No 166
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=39.87 E-value=9.5 Score=23.01 Aligned_cols=10 Identities=20% Similarity=0.926 Sum_probs=5.0
Q ss_pred ccCCCccccc
Q psy11675 202 FKCSYCPKAF 211 (431)
Q Consensus 202 ~~C~~C~~~f 211 (431)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 4555555443
No 167
>KOG4377|consensus
Probab=39.83 E-value=27 Score=32.90 Aligned_cols=18 Identities=22% Similarity=0.325 Sum_probs=8.1
Q ss_pred cccccCChhHHHHHhhhh
Q psy11675 207 CPKAFSHKGHLNEHLYTH 224 (431)
Q Consensus 207 C~~~f~~~~~l~~H~~~h 224 (431)
|+..+-.+..+.+|...|
T Consensus 279 C~ykr~~k~DvirH~~~h 296 (480)
T KOG4377|consen 279 CFYKRGQKNDVIRHVEIH 296 (480)
T ss_pred ccccccchhhhHHHHHHH
Confidence 444444444444444443
No 168
>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=39.39 E-value=6.1 Score=27.44 Aligned_cols=34 Identities=26% Similarity=0.466 Sum_probs=15.7
Q ss_pred CCCCcccccchhhccChHHHHHHHHhcCCCCCcccccccccc
Q psy11675 282 GVKPFACTVCNKSFLQKTQLQNHLYTHSKVKPYNCGICAKSF 323 (431)
Q Consensus 282 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 323 (431)
..+...|..|+..++.... ..+ ..|.|++|+..|
T Consensus 38 ~~~~v~Cg~C~~~~~~~~~-------~c~-~~~~C~~C~~~~ 71 (71)
T PF05495_consen 38 PVKRVICGKCRTEQPIDEY-------SCG-ADYFCPICGLYF 71 (71)
T ss_dssp T--EEEETTT--EEES-SB-------TT---SEEETTTTEEE
T ss_pred cccCeECCCCCCccChhhh-------hcC-CCccCcCcCCCC
Confidence 3345667777776654433 111 456777776543
No 169
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.07 E-value=21 Score=35.72 Aligned_cols=11 Identities=27% Similarity=0.854 Sum_probs=5.3
Q ss_pred CCCCCCCCCCc
Q psy11675 227 NKCFQCKYCPK 237 (431)
Q Consensus 227 ~~~~~C~~C~~ 237 (431)
.....|.+||.
T Consensus 238 ~~~l~Ch~Cg~ 248 (505)
T TIGR00595 238 EGKLRCHYCGY 248 (505)
T ss_pred CCeEEcCCCcC
Confidence 33445555553
No 170
>KOG0608|consensus
Probab=38.89 E-value=44 Score=33.98 Aligned_cols=8 Identities=38% Similarity=0.501 Sum_probs=3.2
Q ss_pred HHHhhhcC
Q psy11675 424 HLLQQNMH 431 (431)
Q Consensus 424 ~~~~~~~~ 431 (431)
|++||++|
T Consensus 435 Qta~~p~h 442 (1034)
T KOG0608|consen 435 QTAQQPLH 442 (1034)
T ss_pred hhhccccC
Confidence 33344443
No 171
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=38.73 E-value=5.2 Score=23.98 Aligned_cols=10 Identities=20% Similarity=0.903 Sum_probs=5.6
Q ss_pred ccCCCccccc
Q psy11675 202 FKCSYCPKAF 211 (431)
Q Consensus 202 ~~C~~C~~~f 211 (431)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 5566665544
No 172
>KOG2932|consensus
Probab=36.07 E-value=54 Score=29.72 Aligned_cols=28 Identities=18% Similarity=0.552 Sum_probs=18.4
Q ss_pred CCCccccc---ccccccChHHHHHHHHHhcC
Q psy11675 311 VKPYNCGI---CAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 311 ~~~~~C~~---C~~~f~~~~~l~~H~~~~h~ 338 (431)
+..|.|.. |.++|.+..+|..|+.-.|+
T Consensus 142 g~iFmC~~~~GC~RTyLsqrDlqAHInhrH~ 172 (389)
T KOG2932|consen 142 GGIFMCAAPHGCLRTYLSQRDLQAHINHRHG 172 (389)
T ss_pred cceEEeecchhHHHHHhhHHHHHHHhhhhhc
Confidence 34566654 77777777777777766665
No 173
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=36.01 E-value=26 Score=32.27 Aligned_cols=61 Identities=18% Similarity=0.389 Sum_probs=0.0
Q ss_pred CCCCCCCCCccccChHHHHHHH----------------------------------------------------------
Q psy11675 228 KCFQCKYCPKTFTLRKHLKAHT---------------------------------------------------------- 249 (431)
Q Consensus 228 ~~~~C~~C~~~f~~~~~l~~H~---------------------------------------------------------- 249 (431)
..+-|..|++.|....-+..|.
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~~v~~Ey~l~r~~kyl~d~~s~trs~V~r~la~ta~ER~aei~~l 316 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEEFVYSEYVLHRYLKYLGDPVSETRSLVLRSLAITAKERKAEISLL 316 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHHhCChhHHHHHHHHHHHHHHHHHHHHHhHHH
Q ss_pred --------------------------------------------------HhcCCCCCccccccc-cccCChHHHHHHHh
Q psy11675 250 --------------------------------------------------NKHEGVLPHTCLECS-KCFSTKSELNRHAQ 278 (431)
Q Consensus 250 --------------------------------------------------~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 278 (431)
+.|.-.+.|.|.+|| +.+..+..+.+|..
T Consensus 317 ~r~~~~~at~S~e~EGaeq~d~eQ~DE~~~~k~fdmPLG~DG~PmP~WL~klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 317 SRRKKQPATKSSEKEGAEQVDGEQRDEHVSGKSFDMPLGPDGLPMPRWLCKLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HHHhhccCCCchhhcccccccccccchhhccCcccCCCCCCCCCCchHHHHhcCCCcceeeeecccccccchHHHHhhhh
Q ss_pred hhCCCCCccc
Q psy11675 279 IHGGVKPFAC 288 (431)
Q Consensus 279 ~h~~~~~~~C 288 (431)
--....-.+|
T Consensus 397 E~rHiygl~c 406 (470)
T COG5188 397 EDRHIYGLEC 406 (470)
T ss_pred hhhhhhheee
No 174
>KOG3408|consensus
Probab=35.77 E-value=21 Score=27.30 Aligned_cols=26 Identities=27% Similarity=0.558 Sum_probs=18.9
Q ss_pred CCCCccccccccccCChHHHHHHHhh
Q psy11675 254 GVLPHTCLECSKCFSTKSELNRHAQI 279 (431)
Q Consensus 254 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 279 (431)
|...|.|-.|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 34457788888888888888877653
No 175
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=35.51 E-value=31 Score=37.82 Aligned_cols=12 Identities=17% Similarity=0.600 Sum_probs=6.8
Q ss_pred Ccccccchhhcc
Q psy11675 285 PFACTVCNKSFL 296 (431)
Q Consensus 285 ~~~C~~C~~~f~ 296 (431)
.|.|+.||....
T Consensus 692 vy~CPsCGaev~ 703 (1337)
T PRK14714 692 VYVCPDCGAEVP 703 (1337)
T ss_pred ceeCccCCCccC
Confidence 356666666543
No 176
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=35.44 E-value=30 Score=28.02 Aligned_cols=39 Identities=28% Similarity=0.506 Sum_probs=16.8
Q ss_pred CCcccccchhhcc------ChHHHHHHHHh--c----------CCCCCccccccccc
Q psy11675 284 KPFACTVCNKSFL------QKTQLQNHLYT--H----------SKVKPYNCGICAKS 322 (431)
Q Consensus 284 ~~~~C~~C~~~f~------~~~~L~~H~~~--h----------~~~~~~~C~~C~~~ 322 (431)
-..+|..|++.|- ..+.+..|+.. | -|+..+.|..||.+
T Consensus 13 ~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 13 CVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp CEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred cEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 3456666666663 34556666532 1 13456788888753
No 177
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=34.31 E-value=19 Score=23.02 Aligned_cols=8 Identities=25% Similarity=0.708 Sum_probs=3.4
Q ss_pred cccCCCCc
Q psy11675 87 FSCNFCLK 94 (431)
Q Consensus 87 ~~C~~C~~ 94 (431)
+.|..|+.
T Consensus 38 ~~C~~Cgy 45 (50)
T PRK00432 38 WHCGKCGY 45 (50)
T ss_pred EECCCcCC
Confidence 44444443
No 178
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=34.29 E-value=27 Score=25.23 Aligned_cols=12 Identities=42% Similarity=1.032 Sum_probs=6.1
Q ss_pred cccCcccccccC
Q psy11675 174 FRCDQCGKAFSR 185 (431)
Q Consensus 174 ~~C~~C~~~f~~ 185 (431)
-.|..||+.|.+
T Consensus 59 a~CkkCGfef~~ 70 (97)
T COG3357 59 ARCKKCGFEFRD 70 (97)
T ss_pred hhhcccCccccc
Confidence 345555555543
No 179
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=33.81 E-value=29 Score=22.50 Aligned_cols=9 Identities=44% Similarity=1.261 Sum_probs=4.0
Q ss_pred ccCcchhhc
Q psy11675 146 VCEICSKAF 154 (431)
Q Consensus 146 ~C~~C~~~f 154 (431)
+|+.|++.|
T Consensus 7 ~C~~Cg~~~ 15 (54)
T PF14446_consen 7 KCPVCGKKF 15 (54)
T ss_pred cChhhCCcc
Confidence 344444443
No 180
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=33.50 E-value=9 Score=38.92 Aligned_cols=28 Identities=32% Similarity=0.698 Sum_probs=13.7
Q ss_pred cccchhhcCCHHHHHHHHHhCCCccccccccc
Q psy11675 35 CELCYKMFSDKLLYEKHKMVHRQVFTCEVCMR 66 (431)
Q Consensus 35 C~~C~~~f~~~~~l~~H~~~h~~~~~C~~C~~ 66 (431)
|+.|.+.|.+... ++.|..+..|+.||-
T Consensus 154 C~~C~~EY~dP~n----RRfHAQp~aCp~CGP 181 (750)
T COG0068 154 CPFCDKEYKDPLN----RRFHAQPIACPKCGP 181 (750)
T ss_pred CHHHHHHhcCccc----cccccccccCcccCC
Confidence 5555555544322 234445555666653
No 181
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=33.47 E-value=23 Score=31.96 Aligned_cols=74 Identities=14% Similarity=0.185 Sum_probs=39.3
Q ss_pred CccccccchhhcCCHHHHHHHHH--hCC------------CcccccccccccCCHHHHHHHHHHccCCCccccCCCCccc
Q psy11675 31 QLHKCELCYKMFSDKLLYEKHKM--VHR------------QVFTCEVCMRSFNDRKEFNEHIMKHEKEKLFSCNFCLKPF 96 (431)
Q Consensus 31 ~~~~C~~C~~~f~~~~~l~~H~~--~h~------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 96 (431)
-|..|+.|.........|.+-.. .-- +.-.|-.|.-.|.....-.. ..-.....|.|+.|...|
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~--~~~~ss~rY~Ce~CK~~F 398 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPF--DESTSSGRYQCELCKSTF 398 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCcc--cccccccceechhhhhhh
Confidence 36678888776654444433211 000 12247777666643211000 011123458888888888
Q ss_pred CCHHHHHHHH
Q psy11675 97 LRKDLLEAHV 106 (431)
Q Consensus 97 ~~~~~l~~H~ 106 (431)
-..-..-.|.
T Consensus 399 C~dCdvfiHe 408 (421)
T COG5151 399 CSDCDVFIHE 408 (421)
T ss_pred hhhhHHHHHH
Confidence 8777777775
No 182
>KOG4124|consensus
Probab=33.36 E-value=8.6 Score=35.18 Aligned_cols=25 Identities=36% Similarity=0.821 Sum_probs=17.7
Q ss_pred CCCccCCC--cccccCChhHHHHHhhh
Q psy11675 199 EKPFKCSY--CPKAFSHKGHLNEHLYT 223 (431)
Q Consensus 199 ~~~~~C~~--C~~~f~~~~~l~~H~~~ 223 (431)
+++|+|.+ |++.++....|..|...
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~ 373 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLH 373 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeecccc
Confidence 36788865 88888877777776543
No 183
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.94 E-value=25 Score=28.02 Aligned_cols=10 Identities=30% Similarity=1.301 Sum_probs=4.4
Q ss_pred cccCcccccc
Q psy11675 174 FRCDQCGKAF 183 (431)
Q Consensus 174 ~~C~~C~~~f 183 (431)
+.|..||..|
T Consensus 71 ~~C~~CG~~~ 80 (135)
T PRK03824 71 LKCRNCGNEW 80 (135)
T ss_pred EECCCCCCEE
Confidence 4444444443
No 184
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=31.88 E-value=44 Score=36.72 Aligned_cols=8 Identities=50% Similarity=1.277 Sum_probs=4.8
Q ss_pred cccCcccc
Q psy11675 174 FRCDQCGK 181 (431)
Q Consensus 174 ~~C~~C~~ 181 (431)
++|+.||.
T Consensus 668 rkCPkCG~ 675 (1337)
T PRK14714 668 RRCPSCGT 675 (1337)
T ss_pred EECCCCCC
Confidence 55666664
No 185
>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=31.80 E-value=62 Score=20.04 Aligned_cols=8 Identities=50% Similarity=1.464 Sum_probs=3.7
Q ss_pred cccCcccc
Q psy11675 174 FRCDQCGK 181 (431)
Q Consensus 174 ~~C~~C~~ 181 (431)
+.|+.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 34555543
No 186
>PRK14873 primosome assembly protein PriA; Provisional
Probab=31.44 E-value=29 Score=35.88 Aligned_cols=7 Identities=29% Similarity=1.165 Sum_probs=3.0
Q ss_pred cccccch
Q psy11675 286 FACTVCN 292 (431)
Q Consensus 286 ~~C~~C~ 292 (431)
+.|+.||
T Consensus 423 ~~Cp~Cg 429 (665)
T PRK14873 423 WRCPRCG 429 (665)
T ss_pred ccCCCCc
Confidence 3444443
No 187
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=31.43 E-value=22 Score=24.27 Aligned_cols=9 Identities=44% Similarity=1.161 Sum_probs=2.6
Q ss_pred ccccccccc
Q psy11675 259 TCLECSKCF 267 (431)
Q Consensus 259 ~C~~C~~~f 267 (431)
.|..|++.|
T Consensus 11 ~C~~C~~~F 19 (69)
T PF01363_consen 11 NCMICGKKF 19 (69)
T ss_dssp B-TTT--B-
T ss_pred cCcCcCCcC
Confidence 455555555
No 188
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=31.11 E-value=20 Score=18.89 Aligned_cols=7 Identities=43% Similarity=1.360 Sum_probs=3.2
Q ss_pred cccccch
Q psy11675 286 FACTVCN 292 (431)
Q Consensus 286 ~~C~~C~ 292 (431)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4444444
No 189
>KOG4124|consensus
Probab=30.90 E-value=8.4 Score=35.24 Aligned_cols=52 Identities=33% Similarity=0.745 Sum_probs=34.6
Q ss_pred CCccccc--chhhccChHHHHHHHHh---------------cC----CCCCcccccccccccChHHHHHHHHH
Q psy11675 284 KPFACTV--CNKSFLQKTQLQNHLYT---------------HS----KVKPYNCGICAKSFVQRNTYIKHLEI 335 (431)
Q Consensus 284 ~~~~C~~--C~~~f~~~~~L~~H~~~---------------h~----~~~~~~C~~C~~~f~~~~~l~~H~~~ 335 (431)
++|+|.+ |++.+.....|.-|... |. ..|+|+|++|.+++.....|.-|+..
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 5677754 77777766666666432 11 24789999999988877766655543
No 190
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=30.57 E-value=8.6 Score=22.25 Aligned_cols=8 Identities=50% Similarity=1.111 Sum_probs=2.0
Q ss_pred cccchhhc
Q psy11675 35 CELCYKMF 42 (431)
Q Consensus 35 C~~C~~~f 42 (431)
|.+|++.|
T Consensus 6 C~eC~~~f 13 (34)
T PF01286_consen 6 CDECGKPF 13 (34)
T ss_dssp -TTT--EE
T ss_pred HhHhCCHH
Confidence 33344433
No 191
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=30.01 E-value=23 Score=21.35 Aligned_cols=21 Identities=19% Similarity=0.303 Sum_probs=12.3
Q ss_pred CCCcccccccccccChHHHHH
Q psy11675 311 VKPYNCGICAKSFVQRNTYIK 331 (431)
Q Consensus 311 ~~~~~C~~C~~~f~~~~~l~~ 331 (431)
...+.|+.|+-.|-....|.+
T Consensus 17 ~~id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 17 VEIDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EEEEECCCCCeEEccHHHHHH
Confidence 344566666666666655543
No 192
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=29.94 E-value=23 Score=25.78 Aligned_cols=10 Identities=30% Similarity=0.946 Sum_probs=3.9
Q ss_pred cccccchhhc
Q psy11675 286 FACTVCNKSF 295 (431)
Q Consensus 286 ~~C~~C~~~f 295 (431)
+.|..|++.|
T Consensus 55 W~C~~C~~~~ 64 (90)
T PTZ00255 55 WRCKGCKKTV 64 (90)
T ss_pred EEcCCCCCEE
Confidence 3333333333
No 193
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=29.58 E-value=19 Score=26.53 Aligned_cols=12 Identities=33% Similarity=0.924 Sum_probs=6.4
Q ss_pred CccccCcccccc
Q psy11675 172 SLFRCDQCGKAF 183 (431)
Q Consensus 172 ~~~~C~~C~~~f 183 (431)
+.|.|+.||..-
T Consensus 21 k~FtCp~Cghe~ 32 (104)
T COG4888 21 KTFTCPRCGHEK 32 (104)
T ss_pred ceEecCccCCee
Confidence 345666666543
No 194
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=29.58 E-value=34 Score=32.79 Aligned_cols=13 Identities=31% Similarity=0.606 Sum_probs=5.9
Q ss_pred CCCCCCCCccccC
Q psy11675 229 CFQCKYCPKTFTL 241 (431)
Q Consensus 229 ~~~C~~C~~~f~~ 241 (431)
-|+|+.||..+..
T Consensus 367 g~rC~kCg~~~~~ 379 (421)
T COG1571 367 GFRCKKCGTRARE 379 (421)
T ss_pred CcccccccccCCc
Confidence 4444444444443
No 195
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=29.12 E-value=13 Score=21.66 Aligned_cols=12 Identities=33% Similarity=0.717 Sum_probs=3.7
Q ss_pred CCCccccccccc
Q psy11675 55 HRQVFTCEVCMR 66 (431)
Q Consensus 55 h~~~~~C~~C~~ 66 (431)
|.....|..||-
T Consensus 18 ~~~~isC~~CGP 29 (35)
T PF07503_consen 18 HYQFISCTNCGP 29 (35)
T ss_dssp T-TT--BTTCC-
T ss_pred cCcCccCCCCCC
Confidence 334444555543
No 196
>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=28.95 E-value=14 Score=20.34 Aligned_cols=9 Identities=56% Similarity=1.449 Sum_probs=4.8
Q ss_pred ccccccccc
Q psy11675 259 TCLECSKCF 267 (431)
Q Consensus 259 ~C~~C~~~f 267 (431)
.|-.|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 455555555
No 197
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.89 E-value=15 Score=31.61 Aligned_cols=9 Identities=22% Similarity=0.888 Sum_probs=6.0
Q ss_pred cccccchhh
Q psy11675 286 FACTVCNKS 294 (431)
Q Consensus 286 ~~C~~C~~~ 294 (431)
..|+.|+++
T Consensus 63 vvCP~C~yA 71 (267)
T COG1655 63 VVCPICYYA 71 (267)
T ss_pred EEcchhhHH
Confidence 467777764
No 198
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=28.75 E-value=26 Score=22.78 Aligned_cols=8 Identities=25% Similarity=0.700 Sum_probs=3.3
Q ss_pred ccCcchhh
Q psy11675 146 VCEICSKA 153 (431)
Q Consensus 146 ~C~~C~~~ 153 (431)
.|+.||..
T Consensus 4 ~CP~CG~~ 11 (54)
T TIGR01206 4 ECPDCGAE 11 (54)
T ss_pred CCCCCCCE
Confidence 34444443
No 199
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=28.69 E-value=4.3 Score=41.08 Aligned_cols=12 Identities=25% Similarity=0.498 Sum_probs=5.8
Q ss_pred cccccccccCCH
Q psy11675 60 TCEVCMRSFNDR 71 (431)
Q Consensus 60 ~C~~C~~~f~~~ 71 (431)
.|..||-.|.-.
T Consensus 125 ~CT~CGPRfTIi 136 (750)
T COG0068 125 NCTNCGPRFTII 136 (750)
T ss_pred ccCCCCcceeee
Confidence 355555555433
No 200
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=28.58 E-value=25 Score=22.97 Aligned_cols=10 Identities=30% Similarity=1.145 Sum_probs=4.8
Q ss_pred CCcccCcchh
Q psy11675 143 KPYVCEICSK 152 (431)
Q Consensus 143 ~~~~C~~C~~ 152 (431)
..|.|+.|..
T Consensus 30 ~tYmC~eC~~ 39 (56)
T PF09963_consen 30 HTYMCDECKE 39 (56)
T ss_pred cceeChhHHH
Confidence 3455555544
No 201
>KOG1819|consensus
Probab=28.52 E-value=55 Score=31.68 Aligned_cols=15 Identities=47% Similarity=0.430 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHH
Q psy11675 405 NLQQNIQQNLQQNIQ 419 (431)
Q Consensus 405 ~~qq~~Qqq~q~~~~ 419 (431)
||.|.-|||||||.|
T Consensus 815 qlrqleqqqqqqqlq 829 (990)
T KOG1819|consen 815 QLRQLEQQQQQQQLQ 829 (990)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444433444433333
No 202
>PRK05580 primosome assembly protein PriA; Validated
Probab=28.45 E-value=38 Score=35.35 Aligned_cols=7 Identities=29% Similarity=0.942 Sum_probs=3.1
Q ss_pred ccccccc
Q psy11675 258 HTCLECS 264 (431)
Q Consensus 258 ~~C~~C~ 264 (431)
..|..||
T Consensus 409 l~Ch~Cg 415 (679)
T PRK05580 409 LRCHHCG 415 (679)
T ss_pred EECCCCc
Confidence 3444444
No 203
>PF12773 DZR: Double zinc ribbon
Probab=28.03 E-value=44 Score=20.99 Aligned_cols=7 Identities=43% Similarity=1.450 Sum_probs=3.0
Q ss_pred cCccccc
Q psy11675 176 CDQCGKA 182 (431)
Q Consensus 176 C~~C~~~ 182 (431)
|+.||..
T Consensus 15 C~~CG~~ 21 (50)
T PF12773_consen 15 CPHCGTP 21 (50)
T ss_pred ChhhcCC
Confidence 4444443
No 204
>KOG2675|consensus
Probab=26.66 E-value=1.2e+02 Score=29.10 Aligned_cols=9 Identities=33% Similarity=0.357 Sum_probs=3.9
Q ss_pred HHHHHHhcC
Q psy11675 301 LQNHLYTHS 309 (431)
Q Consensus 301 L~~H~~~h~ 309 (431)
|..=++.|+
T Consensus 199 L~~YVk~hh 207 (480)
T KOG2675|consen 199 LQAYVKEHH 207 (480)
T ss_pred HHHHHHHhc
Confidence 444444443
No 205
>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=26.63 E-value=24 Score=25.67 Aligned_cols=10 Identities=30% Similarity=1.079 Sum_probs=3.9
Q ss_pred cccccchhhc
Q psy11675 286 FACTVCNKSF 295 (431)
Q Consensus 286 ~~C~~C~~~f 295 (431)
+.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (91)
T TIGR00280 54 WTCRKCGAKF 63 (91)
T ss_pred EEcCCCCCEE
Confidence 3344444333
No 206
>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=26.50 E-value=37 Score=23.16 Aligned_cols=13 Identities=15% Similarity=0.544 Sum_probs=6.6
Q ss_pred CCccccccccccc
Q psy11675 312 KPYNCGICAKSFV 324 (431)
Q Consensus 312 ~~~~C~~C~~~f~ 324 (431)
+.|.|+.||..+.
T Consensus 45 r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 45 RVFTCPNCGFEMD 57 (69)
T ss_pred ceEEcCCCCCEEC
Confidence 3455555555443
No 207
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=26.47 E-value=53 Score=32.09 Aligned_cols=28 Identities=21% Similarity=0.470 Sum_probs=17.1
Q ss_pred CccccCCCCcccCCHHHHHHHHHhhccC
Q psy11675 85 KLFSCNFCLKPFLRKDLLEAHVNSVHKD 112 (431)
Q Consensus 85 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 112 (431)
+.+.|+.|.+.|.+...+..|+...|.+
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 4456666666666666666666655543
No 208
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=26.40 E-value=43 Score=27.48 Aligned_cols=16 Identities=19% Similarity=0.553 Sum_probs=8.5
Q ss_pred ccccCCCCcccCCHHH
Q psy11675 86 LFSCNFCLKPFLRKDL 101 (431)
Q Consensus 86 ~~~C~~C~~~f~~~~~ 101 (431)
.+.|+.||+.|..-+.
T Consensus 130 f~~C~~CgkiYW~GsH 145 (165)
T COG1656 130 FYRCPKCGKIYWKGSH 145 (165)
T ss_pred eeECCCCcccccCchH
Confidence 3456666666554443
No 209
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=26.38 E-value=7.5 Score=28.23 Aligned_cols=12 Identities=33% Similarity=0.861 Sum_probs=6.6
Q ss_pred ccccCCCCcccC
Q psy11675 86 LFSCNFCLKPFL 97 (431)
Q Consensus 86 ~~~C~~C~~~f~ 97 (431)
.|.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (90)
T PF01780_consen 53 IWKCKKCGKKFA 64 (90)
T ss_dssp EEEETTTTEEEE
T ss_pred EeecCCCCCEEe
Confidence 355666655543
No 210
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=26.13 E-value=32 Score=20.97 Aligned_cols=8 Identities=38% Similarity=1.144 Sum_probs=3.0
Q ss_pred cccCcccc
Q psy11675 174 FRCDQCGK 181 (431)
Q Consensus 174 ~~C~~C~~ 181 (431)
+.|..||.
T Consensus 20 ~vC~~CG~ 27 (43)
T PF08271_consen 20 LVCPNCGL 27 (43)
T ss_dssp EEETTT-B
T ss_pred EECCCCCC
Confidence 34444443
No 211
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=25.93 E-value=43 Score=32.14 Aligned_cols=30 Identities=20% Similarity=0.544 Sum_probs=18.0
Q ss_pred cccccccccCChHHHHHHHhhhCCCCCcccccchhhccChH
Q psy11675 259 TCLECSKCFSTKSELNRHAQIHGGVKPFACTVCNKSFLQKT 299 (431)
Q Consensus 259 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 299 (431)
.|+.||.+..++ |.+-|+|+.||+.+....
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCccc
Confidence 577777665543 333577777777666543
No 212
>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=25.75 E-value=40 Score=21.79 Aligned_cols=11 Identities=27% Similarity=0.806 Sum_probs=5.1
Q ss_pred ccccccccccc
Q psy11675 314 YNCGICAKSFV 324 (431)
Q Consensus 314 ~~C~~C~~~f~ 324 (431)
+.|..||+.|-
T Consensus 19 ~~Cr~Cg~~~C 29 (57)
T cd00065 19 HHCRNCGRIFC 29 (57)
T ss_pred cccCcCcCCcC
Confidence 44444554443
No 213
>PF15289 RFXA_RFXANK_bdg: Regulatory factor X-associated C-terminal binding domain; PDB: 2KW3_C.
Probab=24.85 E-value=62 Score=24.88 Aligned_cols=24 Identities=33% Similarity=0.173 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHhh
Q psy11675 405 NLQQNIQQNLQQNIQQNIQHLLQQ 428 (431)
Q Consensus 405 ~~qq~~Qqq~q~~~~~~~~~~~~~ 428 (431)
.+++-+|+|||...++..+|.+||
T Consensus 98 eVi~Flq~qQq~L~~~~~~q~~~~ 121 (124)
T PF15289_consen 98 EVIQFLQQQQQLLSEQKRQQRQQQ 121 (124)
T ss_dssp HHHHHHHHHHHHHHHHSS------
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Confidence 456666666666655555554443
No 214
>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=24.58 E-value=53 Score=32.88 Aligned_cols=48 Identities=21% Similarity=0.386 Sum_probs=25.8
Q ss_pred ccCcccccccCchhhhhhhccccCCCCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCcc
Q psy11675 175 RCDQCGKAFSRKGHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKT 238 (431)
Q Consensus 175 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 238 (431)
.|..||....-.. -...+..|.......|.+||... .-+..|+.|+..
T Consensus 215 ~C~~Cg~~~~C~~-C~~~l~~h~~~~~l~Ch~Cg~~~---------------~~~~~Cp~C~s~ 262 (505)
T TIGR00595 215 LCRSCGYILCCPN-CDVSLTYHKKEGKLRCHYCGYQE---------------PIPKTCPQCGSE 262 (505)
T ss_pred EhhhCcCccCCCC-CCCceEEecCCCeEEcCCCcCcC---------------CCCCCCCCCCCC
Confidence 4666665544321 11123334445567788887543 345678888753
No 215
>KOG2272|consensus
Probab=23.98 E-value=39 Score=29.57 Aligned_cols=92 Identities=22% Similarity=0.372 Sum_probs=46.0
Q ss_pred ccccccchhhccChHHHHHHHhhcCCCCccccccchhhcCCHHHHHHH----HHhCCCcccccccc---cccCCHHHHHH
Q psy11675 4 VFTCEVCQQAFTRNADLKVHSMVHKIAQLHKCELCYKMFSDKLLYEKH----KMVHRQVFTCEVCM---RSFNDRKEFNE 76 (431)
Q Consensus 4 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H----~~~h~~~~~C~~C~---~~f~~~~~l~~ 76 (431)
.|.|..|-..... .-|.---..-+ .--|+|..|++...+.+.-.+- ++-| ..+.+++|+ +.-.. ....
T Consensus 137 ~YvC~KCh~~iD~-~~l~fr~d~yH-~yHFkCt~C~keL~sdaRevk~eLyClrCh-D~mgipiCgaC~rpIee--rvi~ 211 (332)
T KOG2272|consen 137 RYVCQKCHAHIDE-QPLTFRGDPYH-PYHFKCTTCGKELTSDAREVKGELYCLRCH-DKMGIPICGACRRPIEE--RVIF 211 (332)
T ss_pred eeehhhhhhhccc-ccccccCCCCC-ccceecccccccccchhhhhccceeccccc-cccCCcccccccCchHH--HHHH
Confidence 5778888766544 22211100000 1137899999988665432221 1222 224455554 33321 1122
Q ss_pred HHHHccCCCccccCCCCcccCCHH
Q psy11675 77 HIMKHEKEKLFSCNFCLKPFLRKD 100 (431)
Q Consensus 77 H~~~h~~~~~~~C~~C~~~f~~~~ 100 (431)
-|..|=...-|.|..|.+.|....
T Consensus 212 amgKhWHveHFvCa~CekPFlGHr 235 (332)
T KOG2272|consen 212 AMGKHWHVEHFVCAKCEKPFLGHR 235 (332)
T ss_pred HhccccchhheeehhcCCcccchh
Confidence 222332334599999999997653
No 216
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=23.86 E-value=69 Score=18.43 Aligned_cols=24 Identities=25% Similarity=0.595 Sum_probs=14.1
Q ss_pred cccccccccccChHHHHHHHHHhcC
Q psy11675 314 YNCGICAKSFVQRNTYIKHLEIVHG 338 (431)
Q Consensus 314 ~~C~~C~~~f~~~~~l~~H~~~~h~ 338 (431)
+.|+.|++... .+.+..|+...-|
T Consensus 5 ~~C~nC~R~v~-a~RfA~HLekCmg 28 (33)
T PF08209_consen 5 VECPNCGRPVA-ASRFAPHLEKCMG 28 (33)
T ss_dssp EE-TTTSSEEE-GGGHHHHHHHHTC
T ss_pred EECCCCcCCcc-hhhhHHHHHHHHc
Confidence 56777777554 4456677766544
No 217
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=23.86 E-value=27 Score=22.01 Aligned_cols=11 Identities=27% Similarity=0.764 Sum_probs=5.6
Q ss_pred cccccchhhcC
Q psy11675 33 HKCELCYKMFS 43 (431)
Q Consensus 33 ~~C~~C~~~f~ 43 (431)
|.|+.|+..|+
T Consensus 8 y~CDLCn~~~p 18 (57)
T PF14445_consen 8 YSCDLCNSSHP 18 (57)
T ss_pred HhHHhhcccCc
Confidence 44555555554
No 218
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=23.84 E-value=40 Score=21.33 Aligned_cols=12 Identities=33% Similarity=0.778 Sum_probs=6.4
Q ss_pred ccccCccccccc
Q psy11675 173 LFRCDQCGKAFS 184 (431)
Q Consensus 173 ~~~C~~C~~~f~ 184 (431)
.+.|+.||..+.
T Consensus 20 ~~vC~~Cg~~~~ 31 (52)
T smart00661 20 RFVCRKCGYEEP 31 (52)
T ss_pred EEECCcCCCeEE
Confidence 455555555443
No 219
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=23.46 E-value=58 Score=30.15 Aligned_cols=13 Identities=8% Similarity=-0.069 Sum_probs=8.6
Q ss_pred hHHHHHHHHHhcC
Q psy11675 326 RNTYIKHLEIVHG 338 (431)
Q Consensus 326 ~~~l~~H~~~~h~ 338 (431)
...|..-++.+|.
T Consensus 192 ~~~L~~YVke~ht 204 (312)
T PF01213_consen 192 LKELQAYVKEHHT 204 (312)
T ss_dssp HHHHHHHHHHHST
T ss_pred HHHHHHHHHHhCc
Confidence 3566777777774
No 220
>KOG2636|consensus
Probab=23.35 E-value=52 Score=31.54 Aligned_cols=26 Identities=19% Similarity=0.566 Sum_probs=14.7
Q ss_pred cCCCCccccccch-hhcCCHHHHHHHH
Q psy11675 27 HKIAQLHKCELCY-KMFSDKLLYEKHK 52 (431)
Q Consensus 27 h~~~~~~~C~~C~-~~f~~~~~l~~H~ 52 (431)
|.....|.|.+|| +++..+.++.+|.
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHh
Confidence 4344456666665 5566666666664
No 221
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.04 E-value=24 Score=32.40 Aligned_cols=8 Identities=25% Similarity=0.696 Sum_probs=3.3
Q ss_pred cccccchh
Q psy11675 286 FACTVCNK 293 (431)
Q Consensus 286 ~~C~~C~~ 293 (431)
..|..|+.
T Consensus 253 e~C~~C~~ 260 (309)
T PRK03564 253 ESCGDCGT 260 (309)
T ss_pred eecccccc
Confidence 34444443
No 222
>KOG3408|consensus
Probab=22.95 E-value=56 Score=25.12 Aligned_cols=24 Identities=29% Similarity=0.682 Sum_probs=20.7
Q ss_pred CCcccccchhhccChHHHHHHHHh
Q psy11675 284 KPFACTVCNKSFLQKTQLQNHLYT 307 (431)
Q Consensus 284 ~~~~C~~C~~~f~~~~~L~~H~~~ 307 (431)
..|-|-.|.+-|.+...|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 448899999999999999999865
No 223
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=22.92 E-value=54 Score=24.30 Aligned_cols=12 Identities=33% Similarity=0.769 Sum_probs=6.4
Q ss_pred cccccchhhccC
Q psy11675 286 FACTVCNKSFLQ 297 (431)
Q Consensus 286 ~~C~~C~~~f~~ 297 (431)
+.|..||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 445555555554
No 224
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=22.67 E-value=59 Score=31.77 Aligned_cols=28 Identities=25% Similarity=0.570 Sum_probs=21.5
Q ss_pred CCcccccccccccChHHHHHHHHHhcCc
Q psy11675 312 KPYNCGICAKSFVQRNTYIKHLEIVHGV 339 (431)
Q Consensus 312 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 339 (431)
+-+.|+.|.+.|.....+..|+...|..
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 3466888888888888888888877754
No 225
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=22.65 E-value=39 Score=20.24 Aligned_cols=14 Identities=21% Similarity=0.707 Sum_probs=11.0
Q ss_pred CcccccccccccCh
Q psy11675 313 PYNCGICAKSFVQR 326 (431)
Q Consensus 313 ~~~C~~C~~~f~~~ 326 (431)
||.|..|+..|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78888888888654
No 226
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=22.44 E-value=2.6e+02 Score=22.85 Aligned_cols=17 Identities=24% Similarity=0.477 Sum_probs=8.3
Q ss_pred ChhHHHHHHhhhcCCCC
Q psy11675 127 SQGELDSHVQTSHRGIK 143 (431)
Q Consensus 127 ~~~~l~~H~~~~h~~~~ 143 (431)
+..+|..|.+..|+..+
T Consensus 120 tY~eLrKHar~~HP~~r 136 (162)
T PF07800_consen 120 TYSELRKHARSEHPSAR 136 (162)
T ss_pred CHHHHHHHHHhhCCCCC
Confidence 34455555555554443
No 227
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.37 E-value=55 Score=33.97 Aligned_cols=44 Identities=20% Similarity=0.554 Sum_probs=24.6
Q ss_pred ccCcccccccCc---hhhhhhhccccCCCCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCcc
Q psy11675 175 RCDQCGKAFSRK---GHLVQHSFVHGGEKPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKT 238 (431)
Q Consensus 175 ~C~~C~~~f~~~---~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 238 (431)
.|..||..+.-. ..|.. |.+.....|.+||.. ..++.|+.||..
T Consensus 385 ~C~~Cg~~~~C~~C~~~L~~----h~~~~~l~Ch~CG~~----------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 385 ACARCRTPARCRHCTGPLGL----PSAGGTPRCRWCGRA----------------APDWRCPRCGSD 431 (665)
T ss_pred EhhhCcCeeECCCCCCceeE----ecCCCeeECCCCcCC----------------CcCccCCCCcCC
Confidence 577777655432 12332 334456677777742 135678888754
No 228
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=22.07 E-value=12 Score=21.75 Aligned_cols=14 Identities=29% Similarity=0.880 Sum_probs=6.5
Q ss_pred CCCccccccccccc
Q psy11675 55 HRQVFTCEVCMRSF 68 (431)
Q Consensus 55 h~~~~~C~~C~~~f 68 (431)
|..-|.|..|+..+
T Consensus 24 H~~Cf~C~~C~~~L 37 (39)
T smart00132 24 HPECFKCSKCGKPL 37 (39)
T ss_pred cccCCCCcccCCcC
Confidence 33445555554443
No 229
>KOG4368|consensus
Probab=21.78 E-value=2.4e+02 Score=28.28 Aligned_cols=9 Identities=67% Similarity=0.615 Sum_probs=3.5
Q ss_pred hHHHHHHHH
Q psy11675 399 IQHIQQNLQ 407 (431)
Q Consensus 399 ~~~~q~~~q 407 (431)
|++-+.+||
T Consensus 58 i~~s~~nl~ 66 (757)
T KOG4368|consen 58 IQQSQWNLQ 66 (757)
T ss_pred HHHHHHHHH
Confidence 333333433
No 230
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.66 E-value=35 Score=23.75 Aligned_cols=10 Identities=30% Similarity=0.707 Sum_probs=5.1
Q ss_pred cccccchhhc
Q psy11675 33 HKCELCYKMF 42 (431)
Q Consensus 33 ~~C~~C~~~f 42 (431)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 4455555444
No 231
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=21.63 E-value=33 Score=24.99 Aligned_cols=10 Identities=30% Similarity=1.059 Sum_probs=3.9
Q ss_pred cccccchhhc
Q psy11675 286 FACTVCNKSF 295 (431)
Q Consensus 286 ~~C~~C~~~f 295 (431)
+.|..|++.|
T Consensus 55 W~C~~C~~~~ 64 (90)
T PRK03976 55 WECRKCGAKF 64 (90)
T ss_pred EEcCCCCCEE
Confidence 3333343333
No 232
>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=21.61 E-value=44 Score=25.72 Aligned_cols=9 Identities=22% Similarity=1.062 Sum_probs=3.8
Q ss_pred ccCcccccc
Q psy11675 175 RCDQCGKAF 183 (431)
Q Consensus 175 ~C~~C~~~f 183 (431)
.|..||..|
T Consensus 72 ~C~~Cg~~~ 80 (115)
T TIGR00100 72 ECEDCSEEV 80 (115)
T ss_pred EcccCCCEE
Confidence 344444333
No 233
>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 PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=21.35 E-value=61 Score=17.94 Aligned_cols=7 Identities=43% Similarity=1.051 Sum_probs=3.1
Q ss_pred ccccccc
Q psy11675 258 HTCLECS 264 (431)
Q Consensus 258 ~~C~~C~ 264 (431)
|.|..|+
T Consensus 16 Y~C~~c~ 22 (30)
T PF03107_consen 16 YHCSECC 22 (30)
T ss_pred EEeCCCC
Confidence 4444444
No 235
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.05 E-value=59 Score=25.64 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=9.2
Q ss_pred CCccccCCCCcccCC
Q psy11675 84 EKLFSCNFCLKPFLR 98 (431)
Q Consensus 84 ~~~~~C~~C~~~f~~ 98 (431)
...|+|..|++.|..
T Consensus 51 ~qRyrC~~C~~tf~~ 65 (129)
T COG3677 51 HQRYKCKSCGSTFTV 65 (129)
T ss_pred ccccccCCcCcceee
Confidence 345666666666654
No 236
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=20.97 E-value=55 Score=28.72 Aligned_cols=58 Identities=21% Similarity=0.478 Sum_probs=27.7
Q ss_pred CCccCCCcccccCChhHHHHHhhhhcCCCCCCCCCCCccccChHHHHHHHHhcCCCCCccccccccccCCh
Q psy11675 200 KPFKCSYCPKAFSHKGHLNEHLYTHSENKCFQCKYCPKTFTLRKHLKAHTNKHEGVLPHTCLECSKCFSTK 270 (431)
Q Consensus 200 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 270 (431)
+.|.|..|+...- .+.-.....-+|..|.+.|.---. ..--|...|.|+.|+..|...
T Consensus 111 rqFaC~~Cd~~Ww--------Rrvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 111 RQFACSSCDHMWW--------RRVPQRKEVSRCRKCRKRYDPVPC-----DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred eeeeccccchHHH--------hccCcccccccccccccccCCCcc-----ccccceeeeecccccccchhh
Confidence 5577777754321 011122233456666666543210 011244456676676666543
No 237
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=20.85 E-value=33 Score=29.19 Aligned_cols=23 Identities=30% Similarity=0.609 Sum_probs=0.0
Q ss_pred CCccccccch-hhcCCHHHHHHHH
Q psy11675 30 AQLHKCELCY-KMFSDKLLYEKHK 52 (431)
Q Consensus 30 ~~~~~C~~C~-~~f~~~~~l~~H~ 52 (431)
...|.|.+|| .+|..+.++.+|.
T Consensus 99 ~~ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 99 GVEYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp ------------------------
T ss_pred CCeeeeEeCCCcceecHHHHHHhc
Confidence 3446666665 3455666666664
No 238
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=20.68 E-value=44 Score=17.81 Aligned_cols=6 Identities=33% Similarity=1.093 Sum_probs=2.4
Q ss_pred cCcchh
Q psy11675 147 CEICSK 152 (431)
Q Consensus 147 C~~C~~ 152 (431)
|+.||.
T Consensus 5 Cp~Cg~ 10 (26)
T PF13248_consen 5 CPNCGA 10 (26)
T ss_pred CcccCC
Confidence 344443
No 239
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=20.63 E-value=50 Score=25.35 Aligned_cols=10 Identities=20% Similarity=0.564 Sum_probs=4.3
Q ss_pred cccCcccccc
Q psy11675 174 FRCDQCGKAF 183 (431)
Q Consensus 174 ~~C~~C~~~f 183 (431)
+.|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 3444444433
No 240
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.10 E-value=87 Score=32.32 Aligned_cols=7 Identities=43% Similarity=1.578 Sum_probs=3.2
Q ss_pred cCccccc
Q psy11675 176 CDQCGKA 182 (431)
Q Consensus 176 C~~C~~~ 182 (431)
|+.||..
T Consensus 18 C~~CG~~ 24 (645)
T PRK14559 18 CQKCGTS 24 (645)
T ss_pred ccccCCC
Confidence 4444443
No 241
>KOG1842|consensus
Probab=20.09 E-value=57 Score=31.26 Aligned_cols=27 Identities=19% Similarity=0.314 Sum_probs=0.0
Q ss_pred cccccccccccChhHHHHHHhhhcCCC
Q psy11675 116 YNCEECDKYYLSQGELDSHVQTSHRGI 142 (431)
Q Consensus 116 ~~C~~C~~~f~~~~~l~~H~~~~h~~~ 142 (431)
|.|++|...|.+...|..|+...|.++
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhcccc
Done!