Query psy16828
Match_columns 372
No_of_seqs 213 out of 2670
Neff 11.2
Searched_HMMs 46136
Date Fri Aug 16 23:04:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16828.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16828hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 1E-29 2.2E-34 226.6 2.0 164 208-372 606-931 (958)
2 KOG1074|consensus 100.0 5.3E-29 1.2E-33 222.1 5.3 109 149-259 604-732 (958)
3 KOG2462|consensus 99.9 1.1E-27 2.4E-32 188.6 5.3 135 177-314 128-265 (279)
4 KOG2462|consensus 99.9 5.3E-28 1.2E-32 190.3 2.9 133 205-340 128-263 (279)
5 KOG3608|consensus 99.9 4.7E-26 1E-30 184.0 13.2 274 82-360 69-398 (467)
6 KOG3608|consensus 99.9 2.5E-25 5.4E-30 179.8 11.2 224 81-319 133-379 (467)
7 KOG3623|consensus 99.9 3.1E-24 6.8E-29 188.8 4.9 119 82-201 210-331 (1007)
8 KOG3623|consensus 99.8 6.5E-21 1.4E-25 168.1 5.4 77 264-341 894-971 (1007)
9 KOG3576|consensus 99.7 1.3E-18 2.8E-23 130.3 2.4 124 232-372 113-236 (267)
10 KOG3576|consensus 99.6 1.1E-16 2.4E-21 120.0 2.1 127 176-320 114-240 (267)
11 PLN03086 PRLI-interacting fact 99.3 1.6E-12 3.4E-17 116.5 6.8 142 207-369 407-561 (567)
12 PLN03086 PRLI-interacting fact 99.3 1.7E-12 3.7E-17 116.2 7.0 146 178-343 406-563 (567)
13 PHA00733 hypothetical protein 99.1 5.4E-11 1.2E-15 86.8 4.4 82 234-317 38-124 (128)
14 KOG3993|consensus 99.0 1.7E-10 3.7E-15 96.9 2.8 162 208-370 268-480 (500)
15 PHA00733 hypothetical protein 99.0 6.1E-10 1.3E-14 81.3 4.3 83 205-289 38-124 (128)
16 PHA02768 hypothetical protein; 98.9 8.1E-10 1.8E-14 65.6 2.0 38 293-333 6-43 (55)
17 KOG3993|consensus 98.8 8.1E-10 1.7E-14 92.9 1.3 197 81-286 266-480 (500)
18 PHA02768 hypothetical protein; 98.8 4.8E-09 1E-13 62.4 2.6 44 264-309 5-48 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.1E-08 2.4E-13 51.9 1.9 25 279-303 1-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 1E-08 2.2E-13 52.0 -0.8 24 336-359 2-25 (26)
21 PHA00616 hypothetical protein 98.4 1.5E-07 3.3E-12 53.1 1.6 29 292-320 1-29 (44)
22 PHA00616 hypothetical protein 98.4 1.9E-07 4.2E-12 52.7 1.6 34 264-297 1-34 (44)
23 PHA00732 hypothetical protein 98.3 6.7E-07 1.5E-11 58.9 3.1 50 264-319 1-51 (79)
24 PF05605 zf-Di19: Drought indu 98.2 1.6E-06 3.5E-11 53.0 3.7 52 21-106 2-53 (54)
25 PHA00732 hypothetical protein 98.2 1.2E-06 2.5E-11 57.8 3.0 48 292-344 1-48 (79)
26 KOG1146|consensus 98.1 4E-06 8.8E-11 81.3 5.5 125 6-138 449-617 (1406)
27 PF05605 zf-Di19: Drought indu 98.0 6.8E-06 1.5E-10 50.3 3.8 49 83-134 3-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 98.0 2.6E-06 5.5E-11 42.0 1.4 23 349-371 1-23 (23)
29 PF12756 zf-C2H2_2: C2H2 type 98.0 3.1E-06 6.6E-11 60.0 2.4 73 294-371 1-73 (100)
30 PF00096 zf-C2H2: Zinc finger, 98.0 4E-06 8.8E-11 41.2 1.5 22 293-314 1-22 (23)
31 PF13894 zf-C2H2_4: C2H2-type 97.8 1.4E-05 3.1E-10 39.7 2.0 24 349-372 1-24 (24)
32 PF12756 zf-C2H2_2: C2H2 type 97.8 1.9E-05 4.1E-10 55.9 2.7 73 23-105 1-73 (100)
33 PF13894 zf-C2H2_4: C2H2-type 97.7 2.1E-05 4.6E-10 39.1 1.7 24 293-316 1-24 (24)
34 PF13912 zf-C2H2_6: C2H2-type 97.6 2.8E-05 6.1E-10 39.9 1.5 26 292-317 1-26 (27)
35 PF13912 zf-C2H2_6: C2H2-type 97.6 3.6E-05 7.9E-10 39.5 1.4 25 348-372 1-25 (27)
36 COG5189 SFP1 Putative transcri 97.2 0.00014 3.1E-09 59.6 1.5 71 18-102 346-418 (423)
37 COG5236 Uncharacterized conser 97.1 0.00047 1E-08 57.4 3.8 29 21-49 151-181 (493)
38 PF09237 GAGA: GAGA factor; I 97.1 0.00029 6.4E-09 40.7 1.5 40 225-264 13-52 (54)
39 PF13909 zf-H2C2_5: C2H2-type 97.0 0.00051 1.1E-08 33.9 1.6 23 293-316 1-23 (24)
40 smart00355 ZnF_C2H2 zinc finge 97.0 0.00054 1.2E-08 34.5 1.8 23 349-371 1-23 (26)
41 KOG2231|consensus 97.0 0.0014 3.1E-08 60.7 5.5 14 33-46 126-139 (669)
42 PF09237 GAGA: GAGA factor; I 97.0 0.00097 2.1E-08 38.7 2.8 41 167-207 12-52 (54)
43 COG5189 SFP1 Putative transcri 96.9 0.00033 7E-09 57.6 1.2 26 145-170 393-418 (423)
44 smart00355 ZnF_C2H2 zinc finge 96.9 0.00089 1.9E-08 33.6 2.1 23 293-315 1-23 (26)
45 PF13909 zf-H2C2_5: C2H2-type 96.8 0.00062 1.3E-08 33.6 1.2 22 349-371 1-22 (24)
46 KOG2482|consensus 96.8 0.0034 7.4E-08 52.4 5.7 53 81-133 143-218 (423)
47 PF12874 zf-met: Zinc-finger o 96.7 0.00087 1.9E-08 33.5 1.3 23 349-371 1-23 (25)
48 PF12171 zf-C2H2_jaz: Zinc-fin 96.6 0.0013 2.8E-08 33.6 1.7 22 22-43 2-23 (27)
49 PF12874 zf-met: Zinc-finger o 96.6 0.00098 2.1E-08 33.3 1.2 22 22-43 1-22 (25)
50 KOG2785|consensus 96.3 0.0059 1.3E-07 52.1 4.5 80 21-104 3-90 (390)
51 PF12171 zf-C2H2_jaz: Zinc-fin 96.3 0.0011 2.5E-08 33.7 0.1 22 349-370 2-23 (27)
52 COG5236 Uncharacterized conser 96.2 0.0052 1.1E-07 51.4 3.7 133 82-233 151-307 (493)
53 PRK04860 hypothetical protein; 96.1 0.0026 5.7E-08 48.4 1.4 37 264-304 119-155 (160)
54 KOG2893|consensus 96.1 0.0018 3.8E-08 51.1 0.5 53 19-108 8-60 (341)
55 PF13913 zf-C2HC_2: zinc-finge 95.8 0.0077 1.7E-07 29.9 1.8 21 349-370 3-23 (25)
56 KOG1146|consensus 95.8 0.0051 1.1E-07 60.8 2.0 76 210-285 439-539 (1406)
57 KOG2482|consensus 95.7 0.025 5.3E-07 47.5 5.5 51 265-315 280-357 (423)
58 KOG2785|consensus 95.6 0.037 8E-07 47.4 6.2 52 82-133 3-91 (390)
59 PF13913 zf-C2HC_2: zinc-finge 95.5 0.011 2.3E-07 29.4 1.7 21 293-314 3-23 (25)
60 PRK04860 hypothetical protein; 95.1 0.015 3.3E-07 44.3 2.2 35 292-331 119-153 (160)
61 KOG2231|consensus 94.9 0.038 8.2E-07 51.7 4.6 100 181-288 117-236 (669)
62 TIGR00622 ssl1 transcription f 94.7 0.14 3E-06 36.1 5.9 24 348-371 81-104 (112)
63 smart00451 ZnF_U1 U1-like zinc 94.3 0.027 5.9E-07 30.6 1.5 24 20-43 2-25 (35)
64 smart00451 ZnF_U1 U1-like zinc 94.1 0.044 9.6E-07 29.8 2.0 24 347-370 2-25 (35)
65 PF10571 UPF0547: Uncharacteri 94.0 0.045 9.7E-07 27.4 1.7 24 323-359 2-25 (26)
66 COG5048 FOG: Zn-finger [Genera 93.4 0.05 1.1E-06 49.9 2.3 152 206-357 288-455 (467)
67 COG5048 FOG: Zn-finger [Genera 92.3 0.054 1.2E-06 49.7 1.0 107 264-371 289-441 (467)
68 cd00350 rubredoxin_like Rubred 92.2 0.11 2.3E-06 27.9 1.6 10 347-356 16-25 (33)
69 PF12013 DUF3505: Protein of u 91.8 0.21 4.5E-06 35.7 3.2 89 17-107 7-109 (109)
70 COG4049 Uncharacterized protei 90.9 0.14 3E-06 30.4 1.2 31 78-108 13-43 (65)
71 PRK14890 putative Zn-ribbon RN 90.7 0.15 3.3E-06 31.0 1.3 31 322-357 26-57 (59)
72 KOG4173|consensus 89.7 0.23 5E-06 38.6 2.0 73 156-232 87-171 (253)
73 KOG2893|consensus 89.2 0.16 3.6E-06 40.4 0.9 41 153-198 13-53 (341)
74 KOG4173|consensus 89.1 0.25 5.3E-06 38.5 1.7 88 208-317 80-171 (253)
75 cd00729 rubredoxin_SM Rubredox 88.7 0.29 6.2E-06 26.4 1.3 24 322-356 3-26 (34)
76 COG4049 Uncharacterized protei 88.2 0.24 5.2E-06 29.4 0.9 30 341-370 10-39 (65)
77 PF12013 DUF3505: Protein of u 86.9 1.3 2.7E-05 31.7 4.2 26 81-107 10-35 (109)
78 TIGR00622 ssl1 transcription f 86.6 1.3 2.9E-05 31.3 4.0 48 152-202 57-104 (112)
79 PF06524 NOA36: NOA36 protein; 86.4 0.24 5.3E-06 40.1 0.3 92 202-316 137-233 (314)
80 PF09538 FYDLN_acid: Protein o 85.3 0.55 1.2E-05 33.2 1.6 13 291-303 25-37 (108)
81 PHA00626 hypothetical protein 84.9 0.31 6.7E-06 29.1 0.2 11 292-302 23-33 (59)
82 COG2888 Predicted Zn-ribbon RN 84.5 0.8 1.7E-05 27.8 1.8 10 291-300 49-58 (61)
83 PRK00398 rpoP DNA-directed RNA 84.1 0.64 1.4E-05 27.1 1.3 11 322-332 4-14 (46)
84 PF02176 zf-TRAF: TRAF-type zi 83.9 0.26 5.6E-06 30.7 -0.5 33 292-326 9-43 (60)
85 TIGR02098 MJ0042_CXXC MJ0042 f 83.4 0.58 1.2E-05 25.9 0.9 11 348-358 25-35 (38)
86 PF09538 FYDLN_acid: Protein o 83.2 0.85 1.8E-05 32.3 1.8 29 294-334 11-39 (108)
87 KOG2186|consensus 82.8 1 2.2E-05 36.6 2.3 47 82-131 3-49 (276)
88 COG1592 Rubrerythrin [Energy p 82.6 1.2 2.7E-05 34.1 2.6 23 264-299 134-156 (166)
89 PF09986 DUF2225: Uncharacteri 82.4 0.66 1.4E-05 37.7 1.2 25 19-43 3-27 (214)
90 PF06524 NOA36: NOA36 protein; 82.3 0.55 1.2E-05 38.2 0.7 17 347-363 208-224 (314)
91 smart00659 RPOLCX RNA polymera 82.3 0.89 1.9E-05 26.2 1.4 11 293-303 3-13 (44)
92 TIGR00373 conserved hypothetic 81.7 1.3 2.9E-05 33.9 2.6 37 285-331 102-138 (158)
93 PF13719 zinc_ribbon_5: zinc-r 81.4 0.87 1.9E-05 25.1 1.1 6 294-299 27-32 (37)
94 PF04959 ARS2: Arsenite-resist 81.1 0.33 7.2E-06 39.0 -0.9 32 16-47 72-103 (214)
95 PF07754 DUF1610: Domain of un 80.9 1.9 4.1E-05 21.1 2.0 10 347-356 15-24 (24)
96 COG1592 Rubrerythrin [Energy p 79.6 1.2 2.5E-05 34.2 1.6 24 321-356 134-157 (166)
97 PRK00464 nrdR transcriptional 79.4 0.39 8.4E-06 36.4 -1.0 12 293-304 29-40 (154)
98 PF13717 zinc_ribbon_4: zinc-r 79.3 2.2 4.8E-05 23.3 2.2 32 152-189 4-35 (36)
99 PRK06266 transcription initiat 79.0 1.6 3.6E-05 34.2 2.3 34 288-331 113-146 (178)
100 PF09986 DUF2225: Uncharacteri 78.9 0.61 1.3E-05 37.9 -0.1 13 237-249 49-61 (214)
101 PF02176 zf-TRAF: TRAF-type zi 77.7 1.8 3.8E-05 26.8 1.8 40 81-121 8-53 (60)
102 PF13453 zf-TFIIB: Transcripti 77.6 1.9 4.1E-05 24.3 1.7 37 323-366 1-37 (41)
103 KOG2272|consensus 77.0 1.2 2.6E-05 36.0 1.1 15 348-362 221-235 (332)
104 PF15269 zf-C2H2_7: Zinc-finge 76.9 2.2 4.7E-05 24.1 1.7 28 16-43 15-42 (54)
105 TIGR02300 FYDLN_acid conserved 75.8 1.9 4.1E-05 31.1 1.6 17 289-305 23-39 (129)
106 PF15269 zf-C2H2_7: Zinc-finge 75.5 2.1 4.5E-05 24.2 1.4 22 349-370 21-42 (54)
107 smart00531 TFIIE Transcription 75.5 3.2 6.9E-05 31.5 3.0 39 288-331 95-133 (147)
108 smart00834 CxxC_CXXC_SSSS Puta 75.1 1.1 2.3E-05 25.3 0.2 10 322-331 6-15 (41)
109 smart00734 ZnF_Rad18 Rad18-lik 75.1 2 4.4E-05 21.5 1.2 21 22-43 2-22 (26)
110 PF03604 DNA_RNApol_7kD: DNA d 74.7 2 4.3E-05 22.7 1.2 10 348-357 17-26 (32)
111 COG1996 RPC10 DNA-directed RNA 74.7 1.8 3.9E-05 25.4 1.1 10 293-302 7-16 (49)
112 COG5151 SSL1 RNA polymerase II 73.9 5.9 0.00013 33.3 4.2 80 291-371 321-411 (421)
113 PF02892 zf-BED: BED zinc fing 73.7 1.9 4.1E-05 24.9 1.1 29 17-45 12-44 (45)
114 cd00730 rubredoxin Rubredoxin; 73.5 4.1 8.9E-05 24.2 2.4 9 348-356 34-42 (50)
115 smart00531 TFIIE Transcription 73.2 2.7 5.9E-05 31.8 2.1 23 15-37 93-115 (147)
116 PF12907 zf-met2: Zinc-binding 72.2 1.8 4E-05 24.2 0.7 32 22-53 2-36 (40)
117 KOG2807|consensus 72.2 10 0.00022 32.3 5.2 23 207-229 345-367 (378)
118 TIGR02605 CxxC_CxxC_SSSS putat 72.1 1.3 2.9E-05 26.5 0.2 11 293-303 6-16 (52)
119 COG5151 SSL1 RNA polymerase II 71.7 3.5 7.6E-05 34.6 2.5 90 110-202 322-411 (421)
120 PF13240 zinc_ribbon_2: zinc-r 71.3 3.5 7.5E-05 19.9 1.5 7 351-357 16-22 (23)
121 TIGR02300 FYDLN_acid conserved 71.2 3.1 6.7E-05 30.0 1.8 29 294-334 11-39 (129)
122 PF09723 Zn-ribbon_8: Zinc rib 70.6 2.2 4.7E-05 24.3 0.8 11 322-332 6-16 (42)
123 PF00301 Rubredoxin: Rubredoxi 68.0 3.4 7.3E-05 24.2 1.2 10 348-357 34-43 (47)
124 PF14353 CpXC: CpXC protein 67.3 1.9 4.1E-05 31.8 0.1 10 349-358 39-48 (128)
125 smart00614 ZnF_BED BED zinc fi 66.3 4.4 9.6E-05 24.0 1.6 24 348-371 18-47 (50)
126 KOG2186|consensus 64.4 2.4 5.2E-05 34.5 0.2 45 265-312 4-48 (276)
127 TIGR01206 lysW lysine biosynth 63.1 6.6 0.00014 23.8 1.9 30 322-358 3-32 (54)
128 COG4530 Uncharacterized protei 63.0 6 0.00013 27.5 1.9 27 266-303 11-37 (129)
129 TIGR00373 conserved hypothetic 62.8 7 0.00015 30.0 2.5 17 264-280 109-125 (158)
130 PRK04023 DNA polymerase II lar 60.9 8.8 0.00019 38.3 3.2 12 348-359 663-674 (1121)
131 PF13248 zf-ribbon_3: zinc-rib 60.9 7.6 0.00016 19.3 1.6 9 322-330 3-11 (26)
132 COG5188 PRP9 Splicing factor 3 60.4 16 0.00034 31.6 4.2 21 82-102 238-258 (470)
133 KOG2593|consensus 59.4 7.7 0.00017 34.6 2.4 43 285-331 121-163 (436)
134 COG1997 RPL43A Ribosomal prote 59.1 5.9 0.00013 26.4 1.3 7 208-214 36-42 (89)
135 PF05443 ROS_MUCR: ROS/MUCR tr 58.7 5 0.00011 29.6 1.0 26 291-319 71-96 (132)
136 PF12760 Zn_Tnp_IS1595: Transp 58.4 24 0.00053 20.4 3.7 11 346-356 35-45 (46)
137 COG1198 PriA Primosomal protei 58.1 6.5 0.00014 38.3 1.9 19 339-357 466-484 (730)
138 PF01286 XPA_N: XPA protein N- 57.8 5.3 0.00012 21.5 0.7 17 322-338 4-20 (34)
139 PRK06266 transcription initiat 57.6 7.9 0.00017 30.4 2.0 15 236-250 117-131 (178)
140 COG1198 PriA Primosomal protei 57.3 7.4 0.00016 37.9 2.1 28 287-330 457-484 (730)
141 PF04959 ARS2: Arsenite-resist 57.1 7 0.00015 31.6 1.7 26 345-370 74-99 (214)
142 PRK09678 DNA-binding transcrip 56.3 2.5 5.5E-05 27.3 -0.7 7 297-303 34-40 (72)
143 PF08274 PhnA_Zn_Ribbon: PhnA 56.3 4.3 9.4E-05 21.1 0.2 6 322-327 20-25 (30)
144 COG4896 Uncharacterized protei 55.1 5.8 0.00013 24.2 0.7 37 294-331 4-41 (68)
145 KOG1280|consensus 54.8 12 0.00027 32.1 2.8 35 15-49 73-107 (381)
146 smart00661 RPOL9 RNA polymeras 53.7 14 0.0003 21.9 2.3 10 322-331 21-30 (52)
147 PF08790 zf-LYAR: LYAR-type C2 52.8 5.1 0.00011 20.4 0.2 20 22-42 1-20 (28)
148 KOG0717|consensus 52.3 5.6 0.00012 35.7 0.5 20 83-102 293-312 (508)
149 TIGR00595 priA primosomal prot 51.2 11 0.00023 35.5 2.1 13 290-302 238-250 (505)
150 TIGR01562 FdhE formate dehydro 51.0 16 0.00034 31.5 2.9 15 288-302 206-220 (305)
151 KOG2272|consensus 50.9 10 0.00023 30.9 1.7 19 20-38 98-116 (332)
152 PRK04023 DNA polymerase II lar 50.3 15 0.00033 36.7 3.0 9 237-245 627-635 (1121)
153 KOG1701|consensus 50.1 6.2 0.00013 35.0 0.4 40 181-220 276-315 (468)
154 COG3357 Predicted transcriptio 48.7 12 0.00027 25.1 1.5 14 291-304 57-70 (97)
155 PRK00432 30S ribosomal protein 48.7 14 0.0003 22.0 1.6 12 347-358 36-47 (50)
156 PF15135 UPF0515: Uncharacteri 48.2 30 0.00066 28.4 3.9 13 348-360 155-167 (278)
157 PRK14714 DNA polymerase II lar 48.2 23 0.0005 36.6 3.9 53 265-359 668-720 (1337)
158 PRK03564 formate dehydrogenase 48.1 14 0.00029 31.9 2.1 15 288-302 208-222 (309)
159 KOG3408|consensus 47.6 11 0.00023 27.0 1.1 25 290-314 55-79 (129)
160 KOG3408|consensus 47.2 9.8 0.00021 27.2 0.9 26 18-43 54-79 (129)
161 smart00249 PHD PHD zinc finger 46.4 28 0.0006 19.6 2.8 13 322-334 15-27 (47)
162 PF14446 Prok-RING_1: Prokaryo 45.1 14 0.0003 22.3 1.2 9 294-302 7-15 (54)
163 PF09963 DUF2197: Uncharacteri 44.7 8.9 0.00019 23.3 0.4 7 322-328 32-38 (56)
164 PF05290 Baculo_IE-1: Baculovi 44.0 12 0.00026 27.3 1.0 12 235-246 79-90 (140)
165 PRK14714 DNA polymerase II lar 43.4 24 0.00051 36.5 3.2 12 292-303 692-703 (1337)
166 PF05191 ADK_lid: Adenylate ki 43.2 11 0.00025 20.5 0.6 8 210-217 4-11 (36)
167 PF13824 zf-Mss51: Zinc-finger 43.2 21 0.00046 21.6 1.8 14 347-360 13-26 (55)
168 PF13451 zf-trcl: Probable zin 42.9 11 0.00024 22.3 0.5 10 180-189 5-14 (49)
169 PF13878 zf-C2H2_3: zinc-finge 42.8 22 0.00047 20.1 1.8 11 83-93 14-24 (41)
170 PF03811 Zn_Tnp_IS1: InsA N-te 42.6 26 0.00056 19.2 1.9 30 322-354 6-35 (36)
171 PF08209 Sgf11: Sgf11 (transcr 42.3 26 0.00056 18.7 1.8 24 293-317 5-28 (33)
172 KOG2807|consensus 42.1 29 0.00062 29.8 3.0 23 292-314 345-367 (378)
173 PF06220 zf-U1: U1 zinc finger 41.6 19 0.00041 19.9 1.3 23 20-42 2-26 (38)
174 PF05443 ROS_MUCR: ROS/MUCR tr 41.6 25 0.00053 26.0 2.3 26 80-108 70-95 (132)
175 smart00132 LIM Zinc-binding do 41.5 25 0.00053 18.9 1.9 11 349-359 28-38 (39)
176 PF08271 TF_Zn_Ribbon: TFIIB z 41.0 20 0.00044 20.3 1.5 12 347-358 18-29 (43)
177 PRK14873 primosome assembly pr 41.0 18 0.00038 35.2 1.9 12 289-300 407-418 (665)
178 COG3364 Zn-ribbon containing p 40.5 19 0.00041 24.8 1.5 17 292-308 2-18 (112)
179 KOG1280|consensus 40.2 27 0.00059 30.2 2.6 36 82-117 79-116 (381)
180 PF01363 FYVE: FYVE zinc finge 40.1 18 0.00039 23.0 1.3 29 293-334 10-38 (69)
181 PF07282 OrfB_Zn_ribbon: Putat 39.6 24 0.00052 22.5 1.9 13 347-359 45-57 (69)
182 COG3024 Uncharacterized protei 39.4 22 0.00048 22.2 1.5 31 319-356 5-35 (65)
183 smart00154 ZnF_AN1 AN1-like Zi 39.3 17 0.00037 20.3 0.9 15 348-362 12-26 (39)
184 KOG2593|consensus 38.4 16 0.00034 32.7 1.0 37 147-187 125-161 (436)
185 PF09845 DUF2072: Zn-ribbon co 38.2 23 0.0005 26.0 1.7 15 292-306 1-15 (131)
186 PF10013 DUF2256: Uncharacteri 38.1 21 0.00044 20.2 1.1 13 350-362 10-22 (42)
187 COG4888 Uncharacterized Zn rib 37.9 7.9 0.00017 26.6 -0.6 18 18-35 19-36 (104)
188 KOG2071|consensus 37.9 25 0.00055 32.9 2.3 24 264-287 418-441 (579)
189 COG0068 HypF Hydrogenase matur 37.7 5.4 0.00012 38.0 -1.9 81 208-302 102-183 (750)
190 PF07649 C1_3: C1-like domain; 37.7 22 0.00047 18.3 1.2 12 347-358 14-25 (30)
191 PF14445 Prok-RING_2: Prokaryo 37.5 5 0.00011 23.4 -1.4 12 292-303 7-18 (57)
192 smart00440 ZnF_C2C2 C2C2 Zinc 37.4 27 0.00059 19.5 1.6 11 349-359 29-39 (40)
193 PF01780 Ribosomal_L37ae: Ribo 37.4 13 0.00027 25.3 0.3 7 208-214 36-42 (90)
194 PF11789 zf-Nse: Zinc-finger o 37.1 30 0.00064 21.2 1.8 21 291-312 23-43 (57)
195 PF07975 C1_4: TFIIH C1-like d 37.0 8.7 0.00019 22.9 -0.5 10 322-331 22-31 (51)
196 KOG0801|consensus 36.8 11 0.00023 28.4 -0.1 32 305-340 126-157 (205)
197 PF10083 DUF2321: Uncharacteri 35.7 27 0.00059 26.4 1.8 41 322-362 40-82 (158)
198 COG4306 Uncharacterized protei 35.6 38 0.00082 24.3 2.4 41 322-362 40-82 (160)
199 PF12230 PRP21_like_P: Pre-mRN 35.2 13 0.00027 30.7 0.0 25 322-346 169-193 (229)
200 PF09416 UPF1_Zn_bind: RNA hel 35.0 34 0.00073 25.9 2.2 38 292-329 14-68 (152)
201 COG4957 Predicted transcriptio 34.3 26 0.00057 25.6 1.4 21 349-372 77-97 (148)
202 KOG4167|consensus 34.2 8.8 0.00019 36.6 -1.1 24 348-371 792-815 (907)
203 TIGR00100 hypA hydrogenase nic 34.1 19 0.00042 25.9 0.8 24 293-329 71-94 (115)
204 PRK12380 hydrogenase nickel in 33.9 19 0.00042 25.8 0.8 12 293-304 71-82 (113)
205 PRK05580 primosome assembly pr 33.8 28 0.0006 34.2 2.0 13 290-302 406-418 (679)
206 PF10276 zf-CHCC: Zinc-finger 33.7 19 0.00042 20.2 0.6 12 347-358 28-39 (40)
207 PF04780 DUF629: Protein of un 33.6 23 0.00049 32.5 1.3 30 20-49 56-85 (466)
208 KOG1994|consensus 33.6 23 0.00049 28.6 1.1 21 347-367 238-258 (268)
209 PRK03824 hypA hydrogenase nick 33.5 16 0.00035 27.2 0.3 10 180-189 71-80 (135)
210 PF04423 Rad50_zn_hook: Rad50 33.3 16 0.00034 22.1 0.2 13 350-362 22-34 (54)
211 PRK14559 putative protein seri 33.2 51 0.0011 32.0 3.6 9 294-302 17-25 (645)
212 KOG4167|consensus 32.8 17 0.00036 34.9 0.4 27 80-106 790-816 (907)
213 TIGR00686 phnA alkylphosphonat 32.8 23 0.00051 24.8 1.0 13 235-247 18-30 (109)
214 PRK00564 hypA hydrogenase nick 32.6 23 0.00049 25.6 1.0 11 293-303 72-82 (117)
215 KOG2636|consensus 31.6 30 0.00064 31.1 1.7 29 341-369 394-423 (497)
216 PTZ00255 60S ribosomal protein 31.6 21 0.00046 24.2 0.6 7 208-214 37-43 (90)
217 TIGR00244 transcriptional regu 31.6 10 0.00022 28.4 -1.0 12 294-305 30-41 (147)
218 COG5216 Uncharacterized conser 31.3 21 0.00045 21.7 0.5 12 345-356 41-52 (67)
219 PRK00420 hypothetical protein; 31.1 43 0.00092 24.0 2.1 28 322-359 24-51 (112)
220 KOG1842|consensus 31.0 24 0.00052 31.7 1.0 32 19-50 13-44 (505)
221 COG1773 Rubredoxin [Energy pro 30.8 21 0.00045 21.7 0.4 12 348-359 3-14 (55)
222 PF04810 zf-Sec23_Sec24: Sec23 30.8 45 0.00098 18.6 1.8 32 322-358 3-34 (40)
223 COG1998 RPS31 Ribosomal protei 30.6 36 0.00077 20.0 1.3 10 348-357 37-46 (51)
224 PF01428 zf-AN1: AN1-like Zinc 30.4 21 0.00045 20.3 0.4 16 347-362 12-27 (43)
225 COG1655 Uncharacterized protei 29.9 11 0.00025 30.3 -1.0 40 262-301 17-71 (267)
226 COG1594 RPB9 DNA-directed RNA 29.9 17 0.00037 26.0 -0.0 40 82-121 72-111 (113)
227 COG1571 Predicted DNA-binding 29.6 31 0.00068 31.0 1.5 16 289-304 364-379 (421)
228 PTZ00448 hypothetical protein; 29.6 35 0.00075 30.0 1.7 23 348-370 314-336 (373)
229 KOG0717|consensus 29.3 28 0.0006 31.6 1.1 22 349-370 461-482 (508)
230 PRK10220 hypothetical protein; 29.2 32 0.00069 24.2 1.1 12 236-247 20-31 (111)
231 PRK03681 hypA hydrogenase nick 29.1 26 0.00057 25.2 0.8 11 293-303 71-81 (114)
232 PRK14892 putative transcriptio 29.0 41 0.00089 23.4 1.7 11 349-359 43-53 (99)
233 PF04780 DUF629: Protein of un 29.0 40 0.00088 30.9 2.1 31 79-109 54-84 (466)
234 PF07503 zf-HYPF: HypF finger; 28.8 22 0.00048 19.3 0.3 13 210-222 2-14 (35)
235 PF14205 Cys_rich_KTR: Cystein 28.7 27 0.00058 21.1 0.6 36 81-120 3-38 (55)
236 TIGR00280 L37a ribosomal prote 28.7 23 0.0005 24.1 0.4 7 208-214 36-42 (91)
237 cd00065 FYVE FYVE domain; Zinc 28.3 44 0.00096 20.1 1.6 28 294-334 4-31 (57)
238 KOG2071|consensus 28.0 34 0.00074 32.1 1.5 26 346-371 416-441 (579)
239 PF14803 Nudix_N_2: Nudix N-te 27.6 33 0.00073 18.4 0.8 10 348-357 22-31 (34)
240 COG3677 Transposase and inacti 27.6 41 0.00088 24.8 1.6 14 321-334 53-66 (129)
241 CHL00174 accD acetyl-CoA carbo 27.2 19 0.0004 30.9 -0.3 11 322-332 58-68 (296)
242 COG1571 Predicted DNA-binding 27.2 39 0.00086 30.4 1.7 29 294-334 352-380 (421)
243 COG1327 Predicted transcriptio 27.0 15 0.00032 27.6 -0.8 11 294-304 30-40 (156)
244 TIGR03831 YgiT_finger YgiT-typ 26.9 47 0.001 18.8 1.5 15 346-360 30-44 (46)
245 smart00064 FYVE Protein presen 26.9 45 0.00097 21.1 1.5 29 293-334 11-39 (68)
246 COG1326 Uncharacterized archae 26.7 41 0.00088 26.5 1.5 17 317-333 26-42 (201)
247 smart00504 Ubox Modified RING 26.3 1.1E+02 0.0024 18.7 3.3 30 298-334 19-48 (63)
248 PF11781 RRN7: RNA polymerase 25.9 43 0.00093 18.3 1.1 25 322-356 9-33 (36)
249 cd00924 Cyt_c_Oxidase_Vb Cytoc 25.7 36 0.00079 23.6 1.0 19 341-360 73-91 (97)
250 KOG4124|consensus 25.7 21 0.00046 30.8 -0.2 71 18-102 346-418 (442)
251 COG5112 UFD2 U1-like Zn-finger 25.4 29 0.00062 24.1 0.4 26 18-43 52-77 (126)
252 TIGR00515 accD acetyl-CoA carb 25.2 22 0.00048 30.4 -0.2 31 293-333 27-57 (285)
253 PF13821 DUF4187: Domain of un 24.8 39 0.00085 20.5 0.9 20 347-366 26-45 (55)
254 KOG1842|consensus 24.5 41 0.00088 30.3 1.3 29 81-109 14-42 (505)
255 COG1779 C4-type Zn-finger prot 24.5 46 0.001 26.4 1.4 15 348-362 43-57 (201)
256 PF10263 SprT-like: SprT-like 24.5 39 0.00085 25.7 1.1 10 349-358 144-153 (157)
257 PRK03976 rpl37ae 50S ribosomal 24.5 30 0.00065 23.5 0.4 6 208-213 37-42 (90)
258 COG2331 Uncharacterized protei 24.1 32 0.00069 22.3 0.4 30 293-330 13-42 (82)
259 PTZ00448 hypothetical protein; 24.0 45 0.00098 29.4 1.4 23 21-43 314-336 (373)
260 PRK05978 hypothetical protein; 23.8 31 0.00066 26.1 0.4 10 322-331 53-62 (148)
261 KOG4727|consensus 23.7 46 0.001 25.6 1.2 23 80-102 73-95 (193)
262 COG3091 SprT Zn-dependent meta 23.7 45 0.00097 25.2 1.2 10 348-357 140-149 (156)
263 COG5188 PRP9 Splicing factor 3 23.3 48 0.001 28.8 1.4 29 341-369 367-396 (470)
264 KOG3214|consensus 22.7 32 0.00069 23.7 0.2 16 81-96 46-61 (109)
265 KOG1994|consensus 22.2 44 0.00095 27.0 0.9 21 109-129 238-258 (268)
266 TIGR01384 TFS_arch transcripti 21.9 75 0.0016 22.2 2.0 11 322-332 17-27 (104)
267 PF11931 DUF3449: Domain of un 21.9 30 0.00065 27.5 0.0 28 342-369 95-123 (196)
268 PF07800 DUF1644: Protein of u 21.8 85 0.0018 24.0 2.3 51 265-317 81-133 (162)
269 KOG0782|consensus 21.8 14 0.00031 34.1 -2.0 26 279-304 240-265 (1004)
270 PF01155 HypA: Hydrogenase exp 21.3 38 0.00081 24.3 0.4 11 293-303 71-81 (113)
271 TIGR03830 CxxCG_CxxCG_HTH puta 21.1 87 0.0019 22.7 2.3 20 346-365 29-48 (127)
272 PF05129 Elf1: Transcription e 21.1 29 0.00062 23.2 -0.2 15 347-361 45-59 (81)
273 PF15227 zf-C3HC4_4: zinc fing 21.0 44 0.00095 18.9 0.6 11 324-334 1-11 (42)
274 PF14311 DUF4379: Domain of un 20.9 66 0.0014 19.4 1.4 17 81-97 27-43 (55)
275 COG1675 TFA1 Transcription ini 20.9 1.2E+02 0.0027 23.7 3.1 17 288-304 109-125 (176)
276 PRK05654 acetyl-CoA carboxylas 20.6 30 0.00065 29.7 -0.2 11 322-332 47-57 (292)
277 KOG4377|consensus 20.6 38 0.00081 30.1 0.3 76 111-190 272-360 (480)
278 PF06827 zf-FPG_IleRS: Zinc fi 20.3 35 0.00075 17.5 0.0 26 323-355 3-28 (30)
279 PF09332 Mcm10: Mcm10 replicat 20.3 28 0.0006 30.6 -0.6 56 264-330 252-312 (344)
No 1
>KOG1074|consensus
Probab=99.95 E-value=1e-29 Score=226.65 Aligned_cols=164 Identities=24% Similarity=0.561 Sum_probs=131.3
Q ss_pred cccccchhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhHHhhhhcc----Cccccc---ccccccCChHHH
Q psy16828 208 YHCKYCDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVHLA----QRFECK---LCHKTIVSEKTF 280 (372)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~----~~~~C~---~C~~~f~~~~~l 280 (372)
..|-+|.+...-++.|+.|++. |+||+||+|.+|++.|.++.+|+.|+..|-.. -++.|+ +|-+.|...-.|
T Consensus 606 NqCiiC~rVlSC~saLqmHyrt-HtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRT-HTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred cceeeeeecccchhhhhhhhhc-ccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 6788888888888888888888 88888888888888888888888888776543 347788 888888888888
Q ss_pred HHHHhhhcCC-C------------CcccCcccccccchhhHHHHHhhhcCCCC---------------------------
Q psy16828 281 KKHMALHSDA-K------------PFVCNICGKDFKLKYYVNLHMRTHTRIRP--------------------------- 320 (372)
Q Consensus 281 ~~H~~~h~~~-~------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~--------------------------- 320 (372)
..|++.|.+. . .-+|..|.+.|.....+..++..+.+...
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 8888887632 1 13578888888777777777655511100
Q ss_pred --------------------------------------------------------------------------------
Q psy16828 321 -------------------------------------------------------------------------------- 320 (372)
Q Consensus 321 -------------------------------------------------------------------------------- 320 (372)
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 ----------------------------------CccCCCCCCcCCCC-ccccccccccCCCceeCcccCCcccChhhHH
Q psy16828 321 ----------------------------------TFECDVCHQIFPTD-FRTKHMLVHDVEKSHLCFVCGAGFVNDAGLK 365 (372)
Q Consensus 321 ----------------------------------~~~C~~C~~~f~~~-~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~ 365 (372)
...|.+|++.|... .|..|+|+|+|+|||.|.+|++.|..+.+|+
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 26799999999877 9999999999999999999999999999999
Q ss_pred HHHhhcC
Q psy16828 366 VHMRKHQ 372 (372)
Q Consensus 366 ~H~~~h~ 372 (372)
.||.+|.
T Consensus 925 vHMgtH~ 931 (958)
T KOG1074|consen 925 VHMGTHM 931 (958)
T ss_pred hhhcccc
Confidence 9999884
No 2
>KOG1074|consensus
Probab=99.95 E-value=5.3e-29 Score=222.06 Aligned_cols=109 Identities=23% Similarity=0.444 Sum_probs=84.8
Q ss_pred CcccCCCCccccCChhhHHHHHhhhcCCCceeecCCCCCcccChHHHHHHHHHhcCC----CCcccc---cchhhhcChh
Q psy16828 149 KKFKCDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGCYTNRELEEHQILTHGA----EPYHCK---YCDKTFTKRM 221 (372)
Q Consensus 149 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~----~~~~C~---~C~~~f~~~~ 221 (372)
.+..|-+|-++...+++|+-|. +.|+++++|+|.+|++.|.++.+|+.|+..|... ..+.|+ +|.+.|....
T Consensus 604 dPNqCiiC~rVlSC~saLqmHy-rtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHY-RTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred Cccceeeeeecccchhhhhhhh-hcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccc
Confidence 3567888888888888888886 7888888888888888888888888888877644 347788 8888888888
Q ss_pred hhHhhhhhhcc-CCCC------------cccccccccccccchHHhHHhhh
Q psy16828 222 NVKTHERMKHE-NHKP------------YECYICNKILVSRGRLNEHLNQV 259 (372)
Q Consensus 222 ~l~~H~~~~h~-~~~~------------~~C~~C~~~f~~~~~l~~H~~~~ 259 (372)
.|..|+++ |. +..+ -.|+.|.+.|.....+..++..+
T Consensus 683 ~lpQhIri-H~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~ 732 (958)
T KOG1074|consen 683 TLPQHIRI-HLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQ 732 (958)
T ss_pred cccceEEe-ecCCCCCCCcccccccchhcccchhhhcccccccchhhhhcc
Confidence 88888888 44 2222 45888888887777776666544
No 3
>KOG2462|consensus
Probab=99.94 E-value=1.1e-27 Score=188.55 Aligned_cols=135 Identities=32% Similarity=0.618 Sum_probs=107.5
Q ss_pred CceeecCCCCCcccChHHHHHHHHHhcC---CCCcccccchhhhcChhhhHhhhhhhccCCCCcccccccccccccchHH
Q psy16828 177 EYSVLCTQCGFGCYTNRELEEHQILTHG---AEPYHCKYCDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLN 253 (372)
Q Consensus 177 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~---~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~ 253 (372)
...|+|+.|++.+.+..+|.+|...|-. .+.+.|++|++.|.+...|..|+++ |. .+..|.+||+.|..+..|+
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirT-H~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRT-HT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhc-cC--CCcccccccccccchHHhh
Confidence 3456777777777777777777665543 4567888888888888888888887 54 5678888888888888888
Q ss_pred hHHhhhhccCcccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHHHHHhh
Q psy16828 254 EHLNQVHLAQRFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVNLHMRT 314 (372)
Q Consensus 254 ~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 314 (372)
.|+++|+|++||.|+.|+++|.++++|+.|+++|.+.++|+|..|+++|...+.|.+|...
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 8888888888888888888888888888888888888888888888888888888888654
No 4
>KOG2462|consensus
Probab=99.94 E-value=5.3e-28 Score=190.30 Aligned_cols=133 Identities=28% Similarity=0.631 Sum_probs=116.6
Q ss_pred CCCcccccchhhhcChhhhHhhhhhhcc--CCCCcccccccccccccchHHhHHhhhhccCcccccccccccCChHHHHH
Q psy16828 205 AEPYHCKYCDKTFTKRMNVKTHERMKHE--NHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTFKK 282 (372)
Q Consensus 205 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~ 282 (372)
...|+|+.|++.+.+.++|.+|.+.|.. ..+.+.|.+|++.+.+...|+.|+++|. -+.+|.+||+.|...+-|+.
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 3459999999999999999999998433 2466889999999999999999999887 67899999999999999999
Q ss_pred HHhhhcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC-cccccc
Q psy16828 283 HMALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD-FRTKHM 340 (372)
Q Consensus 283 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~-~l~~h~ 340 (372)
|+|+|+||+||.|+.|++.|.+++.|+.|+.+|.+.++ |.|+.|++.|... .|++|.
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~-~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKK-HQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCcc-ccCcchhhHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999887 8888877777665 555554
No 5
>KOG3608|consensus
Probab=99.94 E-value=4.7e-26 Score=183.96 Aligned_cols=274 Identities=23% Similarity=0.445 Sum_probs=217.3
Q ss_pred Ceeccc--ccccccC-hhHHHHHHHhhccC----------------------------------ceeecc--cccccccC
Q psy16828 82 PVECSY--CGKVLSR-KDKLTRHIAAVHSG----------------------------------KEYPCE--QCDRKFTN 122 (372)
Q Consensus 82 ~~~C~~--C~~~~~~-~~~l~~H~~~~h~~----------------------------------~~~~C~--~C~~~f~~ 122 (372)
.++|.+ |++...+ ...|.+|...|--. ..|.|. .|+..|.+
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s 148 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVS 148 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccC
Confidence 466766 7777666 47888997544310 126675 59999999
Q ss_pred chhHHHHHHhhcccCCCCccccccccCc-ccC--CCCccccCChhhHHHHHhhhcCCCceeecCCCCCcccChHHHHHHH
Q psy16828 123 GYKLKQHMLTHMQKDTSISIDVISEIKK-FKC--DQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGCYTNRELEEHQ 199 (372)
Q Consensus 123 ~~~l~~H~~~~~~~~~~~~~~~~~~~~~-~~C--~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 199 (372)
..++.+|+..|.-.-.+....+..+.++ +.| ..|...+.++..|+.|+ +.|.+++...|+.|+.-|.++..|..|.
T Consensus 149 ~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~-r~Hs~eKvvACp~Cg~~F~~~tkl~DH~ 227 (467)
T KOG3608|consen 149 IVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHI-RTHSNEKVVACPHCGELFRTKTKLFDHL 227 (467)
T ss_pred HHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHH-HhcCCCeEEecchHHHHhccccHHHHHH
Confidence 9999999988764422211122222222 344 56899999999999998 7899999999999999999999999998
Q ss_pred HHhc--CCCCcccccchhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhHHhhhh-ccCcccccccccccCC
Q psy16828 200 ILTH--GAEPYHCKYCDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVH-LAQRFECKLCHKTIVS 276 (372)
Q Consensus 200 ~~~~--~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~-~~~~~~C~~C~~~f~~ 276 (372)
+... ...+|.|..|.+.|.+...|..|+.. |.. .|+|+.|.......++|..|++.-| ..+||+|..|++.|.+
T Consensus 228 rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~r-Hvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~ 304 (467)
T KOG3608|consen 228 RRQTELNTNSFQCAQCFKRFATEKLLKSHVVR-HVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVR 304 (467)
T ss_pred HhhhhhcCCchHHHHHHHHHhHHHHHHHHHHH-hhh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhcc
Confidence 7665 35689999999999999999999988 654 4899999999999999999998644 5789999999999999
Q ss_pred hHHHHHHHhhhcCCCCcccCc--ccccccchhhHHHHHhhhc-C-CCCCccCCCCCCcCCCC-cccccccc------ccC
Q psy16828 277 EKTFKKHMALHSDAKPFVCNI--CGKDFKLKYYVNLHMRTHT-R-IRPTFECDVCHQIFPTD-FRTKHMLV------HDV 345 (372)
Q Consensus 277 ~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~-~~~~~~C~~C~~~f~~~-~l~~h~~~------h~~ 345 (372)
.++|..|+.+|+ +-.|+|.. |.++|++...|++|.+.++ + ..++|+|-.|.+.|.+. .|.+|++. ..|
T Consensus 305 esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsG 383 (467)
T KOG3608|consen 305 ESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSG 383 (467)
T ss_pred HHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCC
Confidence 999999999998 66799988 9999999999999998887 3 33469999999999877 77666643 345
Q ss_pred CCceeCcccCCcccC
Q psy16828 346 EKSHLCFVCGAGFVN 360 (372)
Q Consensus 346 ~~~~~C~~C~~~f~~ 360 (372)
-+.|.=.+|.-+|.+
T Consensus 384 h~RFtYk~~edG~mR 398 (467)
T KOG3608|consen 384 HKRFTYKVDEDGFMR 398 (467)
T ss_pred CCceeeeeccCceee
Confidence 555665666655544
No 6
>KOG3608|consensus
Probab=99.93 E-value=2.5e-25 Score=179.80 Aligned_cols=224 Identities=22% Similarity=0.487 Sum_probs=196.7
Q ss_pred CCeeccc--ccccccChhHHHHHHHhhccC-----------c--eeecc--cccccccCchhHHHHHHhhcccCCCCccc
Q psy16828 81 APVECSY--CGKVLSRKDKLTRHIAAVHSG-----------K--EYPCE--QCDRKFTNGYKLKQHMLTHMQKDTSISID 143 (372)
Q Consensus 81 ~~~~C~~--C~~~~~~~~~l~~H~~~~h~~-----------~--~~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~~~~ 143 (372)
..|.|.+ |+..|.+..++..|+..|... + .+.|. .|...|.++..|+.|++.|.++
T Consensus 133 ~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~e------- 205 (467)
T KOG3608|consen 133 QNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNE------- 205 (467)
T ss_pred hhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCC-------
Confidence 4577877 999999999999998555321 1 35665 4999999999999999999755
Q ss_pred cccccCcccCCCCccccCChhhHHHHHhhh-cCCCceeecCCCCCcccChHHHHHHHHHhcCCCCcccccchhhhcChhh
Q psy16828 144 VISEIKKFKCDQCDYATKDKYNLGTHIKRR-HTKEYSVLCTQCGFGCYTNRELEEHQILTHGAEPYHCKYCDKTFTKRMN 222 (372)
Q Consensus 144 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~ 222 (372)
+...|+.|+..|.+...|-.|+++. -....+|+|..|.+-|.++..|..|+..|- .-|+|+.|+......++
T Consensus 206 -----KvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ss 278 (467)
T KOG3608|consen 206 -----KVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASS 278 (467)
T ss_pred -----eEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHH
Confidence 6678999999999999999998543 445679999999999999999999999884 46999999999999999
Q ss_pred hHhhhhhhccCCCCcccccccccccccchHHhHHhhhhccCcccccc--cccccCChHHHHHHHhhhc-CC--CCcccCc
Q psy16828 223 VKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKL--CHKTIVSEKTFKKHMALHS-DA--KPFVCNI 297 (372)
Q Consensus 223 l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~--~~~~C~~ 297 (372)
|..|++..|...+|++|..|...|.+.+.|.+|+..|. +--|+|.. |.++|.+..+|..|++.++ |. .+|.|-.
T Consensus 279 L~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~ 357 (467)
T KOG3608|consen 279 LTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHC 357 (467)
T ss_pred HHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeec
Confidence 99999999999999999999999999999999999655 77899999 9999999999999998765 44 4699999
Q ss_pred ccccccchhhHHHHHhhhcCCC
Q psy16828 298 CGKDFKLKYYVNLHMRTHTRIR 319 (372)
Q Consensus 298 C~~~f~~~~~l~~H~~~h~~~~ 319 (372)
|++.|++..+|-.|+..-|+.+
T Consensus 358 Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 358 CDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred chhhhccchhHHHHHHHhhccc
Confidence 9999999999999998877655
No 7
>KOG3623|consensus
Probab=99.89 E-value=3.1e-24 Score=188.77 Aligned_cols=119 Identities=28% Similarity=0.502 Sum_probs=104.3
Q ss_pred CeecccccccccChhHHHHHHHhhccCc--eeecccccccccCchhHHHHHHhhcccCCC-CccccccccCcccCCCCcc
Q psy16828 82 PVECSYCGKVLSRKDKLTRHIAAVHSGK--EYPCEQCDRKFTNGYKLKQHMLTHMQKDTS-ISIDVISEIKKFKCDQCDY 158 (372)
Q Consensus 82 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~--~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~-~~~~~~~~~~~~~C~~C~~ 158 (372)
...|++|++.+.....|..|++..|... .|.|.+|.+.|..+..|.+|+..|...... .........+.|+|..|++
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 4679999999999999999987766543 799999999999999999999998765444 4455566678899999999
Q ss_pred ccCChhhHHHHHhhhcCCCceeecCCCCCcccChHHHHHHHHH
Q psy16828 159 ATKDKYNLGTHIKRRHTKEYSVLCTQCGFGCYTNRELEEHQIL 201 (372)
Q Consensus 159 ~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 201 (372)
.|...-.|+.|+ ++|.++++|.|+.|.+.|....++..||..
T Consensus 290 AFKfKHHLKEHl-RIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 290 AFKFKHHLKEHL-RIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred hhhhHHHHHhhh-eeecCCCCcCCcccccccccCCcccccccc
Confidence 999999999998 799999999999999999999999999843
No 8
>KOG3623|consensus
Probab=99.82 E-value=6.5e-21 Score=168.13 Aligned_cols=77 Identities=32% Similarity=0.685 Sum_probs=71.9
Q ss_pred cccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC-ccccccc
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD-FRTKHML 341 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~-~l~~h~~ 341 (372)
.|.|..|++.|...+.|.+|...|+|.+||+|.+|.+.|..+-.|..|+|.|.+++| |.|+.|++.|.-. ....||.
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKP-fQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKP-FQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCc-chhhhhhhhcccccchHhhhc
Confidence 499999999999999999999999999999999999999999999999999999999 9999999999655 6666664
No 9
>KOG3576|consensus
Probab=99.72 E-value=1.3e-18 Score=130.29 Aligned_cols=124 Identities=21% Similarity=0.472 Sum_probs=103.1
Q ss_pred cCCCCcccccccccccccchHHhHHhhhhccCcccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHHHH
Q psy16828 232 ENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVNLH 311 (372)
Q Consensus 232 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 311 (372)
.+...+.|.+|++.|.-...|.+|++-|...+++-|..||+.|.+.-+|++|+++|+|.+||+|..|++.|+++-.|..|
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHH
Confidence 44566889999999988888999999888889999999999999999999999999999999999999999999999999
Q ss_pred HhhhcCCCCCccCCCCCCcCCCCccccccccccCCCceeCcccCCcccChhhHHHHHhhcC
Q psy16828 312 MRTHTRIRPTFECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGFVNDAGLKVHMRKHQ 372 (372)
Q Consensus 312 ~~~h~~~~~~~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 372 (372)
++..|+....|.= ..-.+|.|.|..||+....+..+..|++.|+
T Consensus 193 l~kvhgv~~~yay-----------------kerr~kl~vcedcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 193 LKKVHGVQHQYAY-----------------KERRAKLYVCEDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred HHHHcCchHHHHH-----------------HHhhhheeeecccCCCCCChhHHHHHHHhcC
Confidence 9888876542210 1113578899999999888888888888764
No 10
>KOG3576|consensus
Probab=99.62 E-value=1.1e-16 Score=120.01 Aligned_cols=127 Identities=29% Similarity=0.552 Sum_probs=92.6
Q ss_pred CCceeecCCCCCcccChHHHHHHHHHhcCCCCcccccchhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhH
Q psy16828 176 KEYSVLCTQCGFGCYTNRELEEHQILTHGAEPYHCKYCDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEH 255 (372)
Q Consensus 176 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H 255 (372)
+...+.|..|++.|.-...|.+|++-|...+.+.|..||+.|.+.-+|.+|+++ |+|.+||+|..|++.|..+-+|..|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rt-htgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRT-HTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhcc-ccCccccchhhhhHHHHhhccHHHH
Confidence 455677888888887777788888777777777788888888777778888777 7777778777777777777777777
Q ss_pred HhhhhccCcccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHHHHHhhhcCCCC
Q psy16828 256 LNQVHLAQRFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRP 320 (372)
Q Consensus 256 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 320 (372)
++..|+... ... ......+.|.|..||++-.....+..|++.|+...+
T Consensus 193 l~kvhgv~~------------~ya-----ykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 193 LKKVHGVQH------------QYA-----YKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHHcCchH------------HHH-----HHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 776665421 000 001234668888888888888888888888887654
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.34 E-value=1.6e-12 Score=116.50 Aligned_cols=142 Identities=19% Similarity=0.439 Sum_probs=94.8
Q ss_pred CcccccchhhhcChhhhHhhhhhhccCCCCccccc--ccccccccchHHhHHhhhhccCcccccccccccCChHHHHHHH
Q psy16828 207 PYHCKYCDKTFTKRMNVKTHERMKHENHKPYECYI--CNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTFKKHM 284 (372)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 284 (372)
...|+.|..... ..+|..|... ..- ....|+. |+..|. +..+..| +.|+.|++.|. ...|..|+
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 TVECRNCKHYIP-SRSIALHEAY-CSR-HNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred eEECCCCCCccc-hhHHHHHHhh-CCC-cceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHH
Confidence 356777775543 4445566543 222 3345764 777773 3334444 47888888875 57788888
Q ss_pred hhhcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC-----------ccccccccccCCCceeCcc
Q psy16828 285 ALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD-----------FRTKHMLVHDVEKSHLCFV 353 (372)
Q Consensus 285 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~-----------~l~~h~~~h~~~~~~~C~~ 353 (372)
..++ .++.|+ ||+.+ .+..|..|+.+|.+.++ +.|..|++.|... .|..|.... |.+++.|..
T Consensus 473 ~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp-i~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~ 546 (567)
T PLN03086 473 KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRL-ITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDS 546 (567)
T ss_pred HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCc-eeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccc
Confidence 8775 778888 88654 56788888888888777 8888888877522 466677764 888888888
Q ss_pred cCCcccChhhHHHHHh
Q psy16828 354 CGAGFVNDAGLKVHMR 369 (372)
Q Consensus 354 C~~~f~~~~~l~~H~~ 369 (372)
||+.+. ..++..|+-
T Consensus 547 Cgk~Vr-lrdm~~H~~ 561 (567)
T PLN03086 547 CGRSVM-LKEMDIHQI 561 (567)
T ss_pred cCCeee-ehhHHHHHH
Confidence 887764 445666654
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.34 E-value=1.7e-12 Score=116.25 Aligned_cols=146 Identities=18% Similarity=0.378 Sum_probs=111.1
Q ss_pred ceeecCCCCCcccChHHHHHHHHHhcCCCCccccc--chhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhH
Q psy16828 178 YSVLCTQCGFGCYTNRELEEHQILTHGAEPYHCKY--CDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEH 255 (372)
Q Consensus 178 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H 255 (372)
....|+.|.+.... ..|..|...- ......|+. |+..|. ...+. ..+.|+.|++.|. ...|..|
T Consensus 406 ~~V~C~NC~~~i~l-~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~-r~el~----------~H~~C~~Cgk~f~-~s~LekH 471 (567)
T PLN03086 406 DTVECRNCKHYIPS-RSIALHEAYC-SRHNVVCPHDGCGIVLR-VEEAK----------NHVHCEKCGQAFQ-QGEMEKH 471 (567)
T ss_pred CeEECCCCCCccch-hHHHHHHhhC-CCcceeCCcccccceee-ccccc----------cCccCCCCCCccc-hHHHHHH
Confidence 34579999887553 4566776332 234456874 888773 23333 3358999999995 6789999
Q ss_pred HhhhhccCcccccccccccCChHHHHHHHhhhcCCCCcccCccccccc----------chhhHHHHHhhhcCCCCCccCC
Q psy16828 256 LNQVHLAQRFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFK----------LKYYVNLHMRTHTRIRPTFECD 325 (372)
Q Consensus 256 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~~~C~ 325 (372)
+..+| .++.|+ |++.+ .+..|..|+.+|.+.+++.|+.|++.|. ..+.|..|.... +.++ +.|.
T Consensus 472 ~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt-~~C~ 545 (567)
T PLN03086 472 MKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRT-APCD 545 (567)
T ss_pred HHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcc-eEcc
Confidence 99876 789999 99755 6789999999999999999999999985 245899998885 7777 9999
Q ss_pred CCCCcCCCCccccccccc
Q psy16828 326 VCHQIFPTDFRTKHMLVH 343 (372)
Q Consensus 326 ~C~~~f~~~~l~~h~~~h 343 (372)
.|++.|....|..|+...
T Consensus 546 ~Cgk~Vrlrdm~~H~~~~ 563 (567)
T PLN03086 546 SCGRSVMLKEMDIHQIAV 563 (567)
T ss_pred ccCCeeeehhHHHHHHHh
Confidence 999999888887777543
No 13
>PHA00733 hypothetical protein
Probab=99.13 E-value=5.4e-11 Score=86.83 Aligned_cols=82 Identities=21% Similarity=0.379 Sum_probs=54.0
Q ss_pred CCCcccccccccccccchHHhH--H---hhhhccCcccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhH
Q psy16828 234 HKPYECYICNKILVSRGRLNEH--L---NQVHLAQRFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYV 308 (372)
Q Consensus 234 ~~~~~C~~C~~~f~~~~~l~~H--~---~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 308 (372)
.+++.|.+|...|.....|..+ + ..+++.++|.|+.|++.|.+...|..|++.+ ..+|.|+.|++.|.....|
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 3445555555555444443333 1 1234466778888888888888888887765 3467888888888888888
Q ss_pred HHHHhhhcC
Q psy16828 309 NLHMRTHTR 317 (372)
Q Consensus 309 ~~H~~~h~~ 317 (372)
..|+...|+
T Consensus 116 ~~H~~~~h~ 124 (128)
T PHA00733 116 LDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC
Confidence 888777665
No 14
>KOG3993|consensus
Probab=99.00 E-value=1.7e-10 Score=96.91 Aligned_cols=162 Identities=20% Similarity=0.311 Sum_probs=90.6
Q ss_pred cccccchhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhHHhhhhccCccc--ccccc-cccCChHHHHHHH
Q psy16828 208 YHCKYCDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFE--CKLCH-KTIVSEKTFKKHM 284 (372)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~--C~~C~-~~f~~~~~l~~H~ 284 (372)
|.|..|...|.+.-.|.+|... ......|+|+.|++.|.-..+|..|.+.|-...--. =.-=. +...+....+.--
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~-RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCP-RIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCC-eeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 7777777777777777777654 444445777777777777777777766554211000 00000 0000000000000
Q ss_pred hh--hcCCCCcccCcccccccchhhHHHHHhhhcCC--------------------------------------------
Q psy16828 285 AL--HSDAKPFVCNICGKDFKLKYYVNLHMRTHTRI-------------------------------------------- 318 (372)
Q Consensus 285 ~~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-------------------------------------------- 318 (372)
+. -..+..|.|.+|++.|+....|++|+.+|+..
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~ 426 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAG 426 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeec
Confidence 00 00111356666666666666666665555421
Q ss_pred -CCCccCCCCCCcCCCC-ccccccccccCCCceeCcccCCcccChhhHHHHHhh
Q psy16828 319 -RPTFECDVCHQIFPTD-FRTKHMLVHDVEKSHLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 319 -~~~~~C~~C~~~f~~~-~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
.....|+.|+..+.+. .-..+.+....+..|.|.+|.-.|...-.|.+|+..
T Consensus 427 sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 427 SAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred cccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhh
Confidence 1124567777666554 334466666677789999999999999999999864
No 15
>PHA00733 hypothetical protein
Probab=98.97 E-value=6.1e-10 Score=81.30 Aligned_cols=83 Identities=13% Similarity=0.237 Sum_probs=57.5
Q ss_pred CCCcccccchhhhcChhhhHhh--hh--hhccCCCCcccccccccccccchHHhHHhhhhccCcccccccccccCChHHH
Q psy16828 205 AEPYHCKYCDKTFTKRMNVKTH--ER--MKHENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTF 280 (372)
Q Consensus 205 ~~~~~C~~C~~~f~~~~~l~~H--~~--~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l 280 (372)
.+++.|.+|.+.|..+..|..+ +. ..+.+++||.|+.|++.|.+...|..|++.+ ..++.|+.|+++|.....|
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 3456666666666555555444 11 1234467888888888888888888888764 3468888888888888888
Q ss_pred HHHHhhhcC
Q psy16828 281 KKHMALHSD 289 (372)
Q Consensus 281 ~~H~~~h~~ 289 (372)
..|+...++
T Consensus 116 ~~H~~~~h~ 124 (128)
T PHA00733 116 LDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC
Confidence 888877654
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.89 E-value=8.1e-10 Score=65.63 Aligned_cols=38 Identities=24% Similarity=0.542 Sum_probs=20.3
Q ss_pred cccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCC
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPT 333 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 333 (372)
|.|+.||+.|...++|..|+++|. ++ |+|..|++.|..
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~-~kc~~C~k~f~~ 43 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TN-LKLSNCKRISLR 43 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--Cc-ccCCcccceecc
Confidence 455555555555555555555555 23 555555555543
No 17
>KOG3993|consensus
Probab=98.84 E-value=8.1e-10 Score=92.94 Aligned_cols=197 Identities=16% Similarity=0.158 Sum_probs=109.6
Q ss_pred CCeecccccccccChhHHHHHHHhhccCceeecccccccccCchhHHHHHHhhcccCCCCccccccccCcccCCCCcccc
Q psy16828 81 APVECSYCGKVLSRKDKLTRHIAAVHSGKEYPCEQCDRKFTNGYKLKQHMLTHMQKDTSISIDVISEIKKFKCDQCDYAT 160 (372)
Q Consensus 81 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~ 160 (372)
+.|.|..|...|.+...|.+|.-...-...|+|+.|++.|.-..+|..|.++|........ .+..+-+ ...
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~----a~~~P~k-----~~~ 336 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAK----AGSPPPK-----QAV 336 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhh----cCCCChh-----hhh
Confidence 4589999999999999999996444444589999999999999999999999865422110 0000000 000
Q ss_pred CChhhHHHHHh-hhcCCCceeecCCCCCcccChHHHHHHHHHhcCCCC-----------------cccccchhhhcChhh
Q psy16828 161 KDKYNLGTHIK-RRHTKEYSVLCTQCGFGCYTNRELEEHQILTHGAEP-----------------YHCKYCDKTFTKRMN 222 (372)
Q Consensus 161 ~~~~~l~~H~~-~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~-----------------~~C~~C~~~f~~~~~ 222 (372)
.+....+.--+ -.-..+..|.|.+|++.|.....|+.|+..|+.... +.+..+...+.....
T Consensus 337 ~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~ 416 (500)
T KOG3993|consen 337 ETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDS 416 (500)
T ss_pred hhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccc
Confidence 01110100000 000223468888888888888888888777663211 223333333322221
Q ss_pred hHhhhhhhccCCCCcccccccccccccchHHhHHhhhhccCcccccccccccCChHHHHHHHhh
Q psy16828 223 VKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTFKKHMAL 286 (372)
Q Consensus 223 l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 286 (372)
-..+....-....-..|+.|+..+.++..--.+.+.-+..+.|.|.+|..+|.+...|.+|++.
T Consensus 417 ~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 417 HGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred cccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhh
Confidence 1111111011112234666666666555544444444555566666666666666666666543
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.77 E-value=4.8e-09 Score=62.36 Aligned_cols=44 Identities=16% Similarity=0.305 Sum_probs=38.9
Q ss_pred cccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHH
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVN 309 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 309 (372)
.|.|+.|++.|...+.|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4789999999999999999999998 7899999999998877664
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=98.68 E-value=1.1e-08 Score=51.90 Aligned_cols=25 Identities=40% Similarity=1.024 Sum_probs=19.8
Q ss_pred HHHHHHhhhcCCCCcccCccccccc
Q psy16828 279 TFKKHMALHSDAKPFVCNICGKDFK 303 (372)
Q Consensus 279 ~l~~H~~~h~~~~~~~C~~C~~~f~ 303 (372)
+|..|+++|+|++||.|+.|+++|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4677888888888888888888775
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=98.53 E-value=1e-08 Score=52.00 Aligned_cols=24 Identities=38% Similarity=0.621 Sum_probs=15.5
Q ss_pred cccccccccCCCceeCcccCCccc
Q psy16828 336 RTKHMLVHDVEKSHLCFVCGAGFV 359 (372)
Q Consensus 336 l~~h~~~h~~~~~~~C~~C~~~f~ 359 (372)
|..|++.|+|++||.|++|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 445666666666666766766664
No 21
>PHA00616 hypothetical protein
Probab=98.38 E-value=1.5e-07 Score=53.10 Aligned_cols=29 Identities=24% Similarity=0.353 Sum_probs=14.6
Q ss_pred CcccCcccccccchhhHHHHHhhhcCCCC
Q psy16828 292 PFVCNICGKDFKLKYYVNLHMRTHTRIRP 320 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 320 (372)
||+|+.||+.|...+.|.+|++.|++.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~ 29 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK 29 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc
Confidence 34455555555555555555555554444
No 22
>PHA00616 hypothetical protein
Probab=98.36 E-value=1.9e-07 Score=52.70 Aligned_cols=34 Identities=12% Similarity=0.274 Sum_probs=25.9
Q ss_pred cccccccccccCChHHHHHHHhhhcCCCCcccCc
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNI 297 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 297 (372)
||+|+.||+.|...++|..|++.|+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4677888888888888888888888887777653
No 23
>PHA00732 hypothetical protein
Probab=98.28 E-value=6.7e-07 Score=58.93 Aligned_cols=50 Identities=28% Similarity=0.592 Sum_probs=33.8
Q ss_pred cccccccccccCChHHHHHHHhh-hcCCCCcccCcccccccchhhHHHHHhhhcCCC
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMAL-HSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIR 319 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 319 (372)
||.|+.|++.|.+.+.|..|++. |. ++.|+.||+.|. .|..|..+..+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~~~ 51 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYDIE 51 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCCcc
Confidence 46677777777777777777764 44 246777777776 4777776655543
No 24
>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=98.23 E-value=1.6e-06 Score=53.02 Aligned_cols=52 Identities=37% Similarity=0.682 Sum_probs=38.0
Q ss_pred ccccCcccccccchhHHhhhhhccCcCCCCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCeecccccccccChhHHHH
Q psy16828 21 KVECPVCGKVLSRKSKLVSHMRSFHTSVTPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVECSYCGKVLSRKDKLTR 100 (372)
Q Consensus 21 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~ 100 (372)
.|.||.|++. .+...|..|+...|..+. +.+.|++|...+. ..|..
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~-------------------------------~~v~CPiC~~~~~--~~l~~ 47 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSES-------------------------------KNVVCPICSSRVT--DNLIR 47 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCC-------------------------------CCccCCCchhhhh--hHHHH
Confidence 5889999984 467788899888776421 4578999887644 37888
Q ss_pred HHHhhc
Q psy16828 101 HIAAVH 106 (372)
Q Consensus 101 H~~~~h 106 (372)
|+...|
T Consensus 48 Hl~~~H 53 (54)
T PF05605_consen 48 HLNSQH 53 (54)
T ss_pred HHHHhc
Confidence 886665
No 25
>PHA00732 hypothetical protein
Probab=98.21 E-value=1.2e-06 Score=57.81 Aligned_cols=48 Identities=23% Similarity=0.476 Sum_probs=38.2
Q ss_pred CcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCCcccccccccc
Q psy16828 292 PFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTDFRTKHMLVHD 344 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~l~~h~~~h~ 344 (372)
||.|..|++.|.+.+.|..|++.++. + +.|+.|++.|. .+..|.+...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~--~-~~C~~CgKsF~--~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT--L-TKCPVCNKSYR--RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC--C-CccCCCCCEeC--ChhhhhcccC
Confidence 68999999999999999999985333 2 68999999998 4566665443
No 26
>KOG1146|consensus
Probab=98.10 E-value=4e-06 Score=81.33 Aligned_cols=125 Identities=19% Similarity=0.254 Sum_probs=86.2
Q ss_pred cCcccccC-CCCCCCCccccCcccccccchhHHhhhhhccCcCCCCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCee
Q psy16828 6 LSDTEAIE-PKPSKYIKVECPVCGKVLSRKSKLVSHMRSFHTSVTPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVE 84 (372)
Q Consensus 6 ~~~~~~~~-~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (372)
+..+..+. ..++..+.|.|+.|++.|.....|..||+.+|..-....|. +...............+.++|.
T Consensus 449 ~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~--------~gq~~~~~arg~~~~~~~~p~~ 520 (1406)
T KOG1146|consen 449 KRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCK--------AGQNHPRLARGEVYRCPGKPYP 520 (1406)
T ss_pred hcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhH--------hccccccccccccccCCCCccc
Confidence 33444433 46677799999999999999999999999988765442220 0000000011122334558899
Q ss_pred cccccccccChhHHHHHHHhhccC-------------------------------------------ceeeccccccccc
Q psy16828 85 CSYCGKVLSRKDKLTRHIAAVHSG-------------------------------------------KEYPCEQCDRKFT 121 (372)
Q Consensus 85 C~~C~~~~~~~~~l~~H~~~~h~~-------------------------------------------~~~~C~~C~~~f~ 121 (372)
|..|.+.+.+...|.+|+...-.. -.+.|.+|++...
T Consensus 521 C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetn 600 (1406)
T KOG1146|consen 521 CRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETN 600 (1406)
T ss_pred ceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhh
Confidence 999999999999999998543200 1388999999998
Q ss_pred CchhHHHHHHhhcccCC
Q psy16828 122 NGYKLKQHMLTHMQKDT 138 (372)
Q Consensus 122 ~~~~l~~H~~~~~~~~~ 138 (372)
....|+.|+...+...+
T Consensus 601 iarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 601 IARNLRIHMTASPSSSP 617 (1406)
T ss_pred hhhccccccccCCCCCC
Confidence 88999999876544443
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.04 E-value=6.8e-06 Score=50.27 Aligned_cols=49 Identities=27% Similarity=0.563 Sum_probs=31.9
Q ss_pred eecccccccccChhHHHHHHHhhccCc--eeecccccccccCchhHHHHHHhhc
Q psy16828 83 VECSYCGKVLSRKDKLTRHIAAVHSGK--EYPCEQCDRKFTNGYKLKQHMLTHM 134 (372)
Q Consensus 83 ~~C~~C~~~~~~~~~l~~H~~~~h~~~--~~~C~~C~~~f~~~~~l~~H~~~~~ 134 (372)
|.|++|++ .-+...|..|....|... .+.|++|...+. .+|..|+...|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 66777777 345667777776666643 577777776543 37777776554
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=98.02 E-value=2.6e-06 Score=41.96 Aligned_cols=23 Identities=43% Similarity=0.904 Sum_probs=21.6
Q ss_pred eeCcccCCcccChhhHHHHHhhc
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
|.|+.|++.|..+..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999975
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.02 E-value=3.1e-06 Score=59.97 Aligned_cols=73 Identities=19% Similarity=0.292 Sum_probs=21.6
Q ss_pred ccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCCccccccccccCCCceeCcccCCcccChhhHHHHHhhc
Q psy16828 294 VCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 294 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
+|..|+..|.+...|..|+...|+... +..........+..+.+.- ....+.|.+|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~----~~~~~l~~~~~~~~~~~~~-~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDI----PDQKYLVDPNRLLNYLRKK-VKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Ccccccccccccccccccccccccccc----ccccccccccccccccccc-cCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 588999999999999999988776542 1111111112333333221 223699999999999999999999964
No 30
>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=97.97 E-value=4e-06 Score=41.23 Aligned_cols=22 Identities=45% Similarity=0.907 Sum_probs=14.3
Q ss_pred cccCcccccccchhhHHHHHhh
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRT 314 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~ 314 (372)
|.|+.|++.|.+++.|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666655
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=97.81 E-value=1.4e-05 Score=39.68 Aligned_cols=24 Identities=38% Similarity=0.852 Sum_probs=20.4
Q ss_pred eeCcccCCcccChhhHHHHHhhcC
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRKHQ 372 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~h~ 372 (372)
|.|++|++.|.+...|..|+++|+
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 689999999999999999999875
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.76 E-value=1.9e-05 Score=55.86 Aligned_cols=73 Identities=21% Similarity=0.440 Sum_probs=15.4
Q ss_pred ccCcccccccchhHHhhhhhccCcCCCCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCeecccccccccChhHHHHHH
Q psy16828 23 ECPVCGKVLSRKSKLVSHMRSFHTSVTPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVECSYCGKVLSRKDKLTRHI 102 (372)
Q Consensus 23 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~H~ 102 (372)
+|..|+..|.+...|..||...|....+....-. ....+. ... .......+.|.+|++.|.+...|..|+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~--~~~~~~------~~~--~~~~~~~~~C~~C~~~f~s~~~l~~Hm 70 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLV--DPNRLL------NYL--RKKVKESFRCPYCNKTFRSREALQEHM 70 (100)
T ss_dssp ----------------------------------------------------------SSEEBSSSS-EESSHHHHHHHH
T ss_pred Cccccccccccccccccccccccccccccccccc--cccccc------ccc--ccccCCCCCCCccCCCCcCHHHHHHHH
Confidence 5999999999999999999988875443111000 000000 000 000012466777777777777777776
Q ss_pred Hhh
Q psy16828 103 AAV 105 (372)
Q Consensus 103 ~~~ 105 (372)
...
T Consensus 71 ~~~ 73 (100)
T PF12756_consen 71 RSK 73 (100)
T ss_dssp HHT
T ss_pred cCc
Confidence 543
No 33
>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=97.72 E-value=2.1e-05 Score=39.06 Aligned_cols=24 Identities=54% Similarity=0.996 Sum_probs=14.2
Q ss_pred cccCcccccccchhhHHHHHhhhc
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHT 316 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~ 316 (372)
|.|++|++.|.+...|..|+.+++
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 456666666666666666666553
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.64 E-value=2.8e-05 Score=39.90 Aligned_cols=26 Identities=38% Similarity=0.759 Sum_probs=18.5
Q ss_pred CcccCcccccccchhhHHHHHhhhcC
Q psy16828 292 PFVCNICGKDFKLKYYVNLHMRTHTR 317 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 317 (372)
||.|..|++.|.+...|..|++.|+.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 46777777777777777777776653
No 35
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.58 E-value=3.6e-05 Score=39.46 Aligned_cols=25 Identities=32% Similarity=0.554 Sum_probs=22.9
Q ss_pred ceeCcccCCcccChhhHHHHHhhcC
Q psy16828 348 SHLCFVCGAGFVNDAGLKVHMRKHQ 372 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~~l~~H~~~h~ 372 (372)
||.|..|++.|.....|..|++.|.
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 6899999999999999999999873
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.21 E-value=0.00014 Score=59.60 Aligned_cols=71 Identities=21% Similarity=0.325 Sum_probs=49.0
Q ss_pred CCCccccCc--ccccccchhHHhhhhhccCcCCCCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCeecccccccccCh
Q psy16828 18 KYIKVECPV--CGKVLSRKSKLVSHMRSFHTSVTPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVECSYCGKVLSRK 95 (372)
Q Consensus 18 ~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~ 95 (372)
+++||+|++ |++.+.+...|+-|+..=|............ .. . .=..++|||.|.+|++.+.+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~-------~~----~---~F~~~~KPYrCevC~KRYKNl 411 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPE-------KM----N---IFSAKDKPYRCEVCDKRYKNL 411 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCcc-------cc----c---cccccCCceeccccchhhccC
Confidence 359999996 9999999999999998545332211111000 00 0 002344899999999999999
Q ss_pred hHHHHHH
Q psy16828 96 DKLTRHI 102 (372)
Q Consensus 96 ~~l~~H~ 102 (372)
..|..|.
T Consensus 412 NGLKYHr 418 (423)
T COG5189 412 NGLKYHR 418 (423)
T ss_pred ccceecc
Confidence 9998886
No 37
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.14 E-value=0.00047 Score=57.37 Aligned_cols=29 Identities=24% Similarity=0.473 Sum_probs=21.3
Q ss_pred ccccCc--ccccccchhHHhhhhhccCcCCC
Q psy16828 21 KVECPV--CGKVLSRKSKLVSHMRSFHTSVT 49 (372)
Q Consensus 21 ~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~ 49 (372)
.|.||. |......+..|..|.+..|....
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~~~ 181 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGFVL 181 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCcEE
Confidence 467775 77777778888899888775543
No 38
>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=97.09 E-value=0.00029 Score=40.74 Aligned_cols=40 Identities=23% Similarity=0.512 Sum_probs=19.2
Q ss_pred hhhhhhccCCCCcccccccccccccchHHhHHhhhhccCc
Q psy16828 225 THERMKHENHKPYECYICNKILVSRGRLNEHLNQVHLAQR 264 (372)
Q Consensus 225 ~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 264 (372)
.+.+.+...+.|-.||+|+..+....+|+.|+...|+.+|
T Consensus 13 ~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 13 KKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ---CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3334445556666666666666666666666666665543
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.97 E-value=0.00051 Score=33.95 Aligned_cols=23 Identities=22% Similarity=0.541 Sum_probs=12.8
Q ss_pred cccCcccccccchhhHHHHHhhhc
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHT 316 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~ 316 (372)
|+|+.|++... ...|.+|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45666666665 666666666654
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.97 E-value=0.00054 Score=34.49 Aligned_cols=23 Identities=43% Similarity=0.732 Sum_probs=21.1
Q ss_pred eeCcccCCcccChhhHHHHHhhc
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57999999999999999999876
No 41
>KOG2231|consensus
Probab=96.96 E-value=0.0014 Score=60.68 Aligned_cols=14 Identities=36% Similarity=0.508 Sum_probs=7.7
Q ss_pred chhHHhhhhhccCc
Q psy16828 33 RKSKLVSHMRSFHT 46 (372)
Q Consensus 33 ~~~~l~~H~~~~H~ 46 (372)
+...|+.|+...|.
T Consensus 126 s~~~Lk~H~~~~H~ 139 (669)
T KOG2231|consen 126 SVENLKNHMRDQHK 139 (669)
T ss_pred HHHHHHHHHHHhhh
Confidence 45556666655453
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.95 E-value=0.00097 Score=38.66 Aligned_cols=41 Identities=24% Similarity=0.390 Sum_probs=24.2
Q ss_pred HHHHhhhcCCCceeecCCCCCcccChHHHHHHHHHhcCCCC
Q psy16828 167 GTHIKRRHTKEYSVLCTQCGFGCYTNRELEEHQILTHGAEP 207 (372)
Q Consensus 167 ~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 207 (372)
..+.+.....+.+-.||+|+..+.+..+|++|+...|+.+|
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 34444445566778888998888888888888888887665
No 43
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.94 E-value=0.00033 Score=57.61 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=17.6
Q ss_pred ccccCcccCCCCccccCChhhHHHHH
Q psy16828 145 ISEIKKFKCDQCDYATKDKYNLGTHI 170 (372)
Q Consensus 145 ~~~~~~~~C~~C~~~~~~~~~l~~H~ 170 (372)
....+||+|+.|++.+.+...|+-|.
T Consensus 393 ~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 393 SAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cccCCceeccccchhhccCccceecc
Confidence 34556777777777777777776665
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.86 E-value=0.00089 Score=33.63 Aligned_cols=23 Identities=52% Similarity=0.868 Sum_probs=12.9
Q ss_pred cccCcccccccchhhHHHHHhhh
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTH 315 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h 315 (372)
|.|..|++.|...+.|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 34555666666666666665543
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.82 E-value=0.00062 Score=33.63 Aligned_cols=22 Identities=27% Similarity=0.542 Sum_probs=18.2
Q ss_pred eeCcccCCcccChhhHHHHHhhc
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
|+|+.|++... +..|.+|++.|
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 78999999998 99999999985
No 46
>KOG2482|consensus
Probab=96.77 E-value=0.0034 Score=52.38 Aligned_cols=53 Identities=23% Similarity=0.535 Sum_probs=42.9
Q ss_pred CCeeccccccccc-ChhHHHHHHHhhccC----------------------ceeecccccccccCchhHHHHHHhh
Q psy16828 81 APVECSYCGKVLS-RKDKLTRHIAAVHSG----------------------KEYPCEQCDRKFTNGYKLKQHMLTH 133 (372)
Q Consensus 81 ~~~~C~~C~~~~~-~~~~l~~H~~~~h~~----------------------~~~~C~~C~~~f~~~~~l~~H~~~~ 133 (372)
...+|-.|...+. ++.....|+...|+- ..+.|-.|.+.|+++..|+.||+..
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhc
Confidence 4568999988865 677788888777743 1489999999999999999999753
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.71 E-value=0.00087 Score=33.47 Aligned_cols=23 Identities=26% Similarity=0.739 Sum_probs=21.1
Q ss_pred eeCcccCCcccChhhHHHHHhhc
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
|.|.+|++.|.++..|+.|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999864
No 48
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.64 E-value=0.0013 Score=33.55 Aligned_cols=22 Identities=36% Similarity=0.717 Sum_probs=20.7
Q ss_pred cccCcccccccchhHHhhhhhc
Q psy16828 22 VECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 22 ~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
|.|..|++.|.+...|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999985
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.64 E-value=0.00098 Score=33.28 Aligned_cols=22 Identities=36% Similarity=0.750 Sum_probs=20.7
Q ss_pred cccCcccccccchhHHhhhhhc
Q psy16828 22 VECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 22 ~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
|.|.+|+..|.+...|+.|++.
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 6899999999999999999985
No 50
>KOG2785|consensus
Probab=96.31 E-value=0.0059 Score=52.06 Aligned_cols=80 Identities=14% Similarity=0.287 Sum_probs=47.8
Q ss_pred ccccCcccccccchhHHhhhhhc-cCcCC-------CCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCeecccccccc
Q psy16828 21 KVECPVCGKVLSRKSKLVSHMRS-FHTSV-------TPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVECSYCGKVL 92 (372)
Q Consensus 21 ~~~C~~C~~~f~~~~~l~~H~~~-~H~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~ 92 (372)
.|+|.-|...|.+...-+.|+++ .|.-. .|....+.+......... ...........++.|.+|.+.|
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~----~~~~~~e~~~~~~~c~~c~k~~ 78 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDS----EKEENLEEAESVVYCEACNKSF 78 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhh----hhhhhhhhcccceehHHhhccc
Confidence 58999999999999999999974 34321 121111111100000000 0011111223578999999999
Q ss_pred cChhHHHHHHHh
Q psy16828 93 SRKDKLTRHIAA 104 (372)
Q Consensus 93 ~~~~~l~~H~~~ 104 (372)
.+......|+..
T Consensus 79 ~s~~a~~~hl~S 90 (390)
T KOG2785|consen 79 ASPKAHENHLKS 90 (390)
T ss_pred cChhhHHHHHHH
Confidence 999999999854
No 51
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.28 E-value=0.0011 Score=33.74 Aligned_cols=22 Identities=32% Similarity=0.626 Sum_probs=19.1
Q ss_pred eeCcccCCcccChhhHHHHHhh
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
|.|..|++.|.+...+..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6799999999999999988875
No 52
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.22 E-value=0.0052 Score=51.40 Aligned_cols=133 Identities=23% Similarity=0.405 Sum_probs=87.7
Q ss_pred Ceeccc--ccccccChhHHHHHHHhhccCceeecccccc---cc------cCchhHHHHHHhhcccCCCCccccccccCc
Q psy16828 82 PVECSY--CGKVLSRKDKLTRHIAAVHSGKEYPCEQCDR---KF------TNGYKLKQHMLTHMQKDTSISIDVISEIKK 150 (372)
Q Consensus 82 ~~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~C~~C~~---~f------~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~ 150 (372)
.|.|+. |..+......|..|+...|+. +.|.+|-. .| .+...|..|...-.+.. +-...
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~--------GFKGH 220 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEE--------GFKGH 220 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCcccc--------CcCCC
Confidence 478887 888888888999998776653 66776642 22 34455666644322110 11122
Q ss_pred ccCCCCccccCChhhHHHHHhhhcCCCceeecCCCCC-------cccChHHHHHHHHHhcCCCCccccc--ch----hhh
Q psy16828 151 FKCDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGF-------GCYTNRELEEHQILTHGAEPYHCKY--CD----KTF 217 (372)
Q Consensus 151 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~~~~~~~~~C~~--C~----~~f 217 (372)
-.|..|...|-+.+.|..|++..|. .|-+|+. .|.+...|..|.+..| |.|.. |. ..|
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~vf 291 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYVF 291 (493)
T ss_pred chhhhccceecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEEe
Confidence 3589999999999999999977765 4666664 4666777777776554 66654 32 467
Q ss_pred cChhhhHhhhhhhccC
Q psy16828 218 TKRMNVKTHERMKHEN 233 (372)
Q Consensus 218 ~~~~~l~~H~~~~h~~ 233 (372)
...-.|+.|+...|..
T Consensus 292 ~~~~el~~h~~~~h~~ 307 (493)
T COG5236 292 PYHTELLEHLTRFHKV 307 (493)
T ss_pred ccHHHHHHHHHHHhhc
Confidence 7778888888776643
No 53
>PRK04860 hypothetical protein; Provisional
Probab=96.11 E-value=0.0026 Score=48.44 Aligned_cols=37 Identities=22% Similarity=0.679 Sum_probs=24.2
Q ss_pred cccccccccccCChHHHHHHHhhhcCCCCcccCcccccccc
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKL 304 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 304 (372)
+|.|. |+. ....+..|.++|.++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 46666 665 55556667777777777777777766654
No 54
>KOG2893|consensus
Probab=96.11 E-value=0.0018 Score=51.07 Aligned_cols=53 Identities=25% Similarity=0.402 Sum_probs=44.0
Q ss_pred CCccccCcccccccchhHHhhhhhccCcCCCCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCeecccccccccChhHH
Q psy16828 19 YIKVECPVCGKVLSRKSKLVSHMRSFHTSVTPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVECSYCGKVLSRKDKL 98 (372)
Q Consensus 19 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l 98 (372)
..+-+|=.||+.|.....|..|++. +-|+|.+|.+..-+.-.|
T Consensus 8 ~~kpwcwycnrefddekiliqhqka-------------------------------------khfkchichkkl~sgpgl 50 (341)
T KOG2893|consen 8 VDKPWCWYCNREFDDEKILIQHQKA-------------------------------------KHFKCHICHKKLFSGPGL 50 (341)
T ss_pred cCCceeeecccccchhhhhhhhhhh-------------------------------------ccceeeeehhhhccCCCc
Confidence 3445699999999999999999887 558999999998888888
Q ss_pred HHHHHhhccC
Q psy16828 99 TRHIAAVHSG 108 (372)
Q Consensus 99 ~~H~~~~h~~ 108 (372)
..|....|.+
T Consensus 51 sihcmqvhke 60 (341)
T KOG2893|consen 51 SIHCMQVHKE 60 (341)
T ss_pred eeehhhhhhh
Confidence 8888777765
No 55
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.78 E-value=0.0077 Score=29.91 Aligned_cols=21 Identities=33% Similarity=0.632 Sum_probs=16.5
Q ss_pred eeCcccCCcccChhhHHHHHhh
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
..|+.||+.| ....|..|++.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4588888888 77888888764
No 56
>KOG1146|consensus
Probab=95.75 E-value=0.0051 Score=60.79 Aligned_cols=76 Identities=14% Similarity=0.328 Sum_probs=48.6
Q ss_pred cccchhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhHHhhhhc-------------------------cCc
Q psy16828 210 CKYCDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVHL-------------------------AQR 264 (372)
Q Consensus 210 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~-------------------------~~~ 264 (372)
|..|+..+.+...+..|+...+.-.+.++|+.|++.+.....|..|++..|. .++
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 3344455555555555555555556777777777777777777777776432 235
Q ss_pred ccccccccccCChHHHHHHHh
Q psy16828 265 FECKLCHKTIVSEKTFKKHMA 285 (372)
Q Consensus 265 ~~C~~C~~~f~~~~~l~~H~~ 285 (372)
|.|..|..++....+|.+|+.
T Consensus 519 ~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ccceeeeeeeecchHHHHHHH
Confidence 667777777777666666654
No 57
>KOG2482|consensus
Probab=95.72 E-value=0.025 Score=47.50 Aligned_cols=51 Identities=20% Similarity=0.315 Sum_probs=34.9
Q ss_pred ccccccccccCChHHHHHHHhhhcC---------------------------CCCcccCcccccccchhhHHHHHhhh
Q psy16828 265 FECKLCHKTIVSEKTFKKHMALHSD---------------------------AKPFVCNICGKDFKLKYYVNLHMRTH 315 (372)
Q Consensus 265 ~~C~~C~~~f~~~~~l~~H~~~h~~---------------------------~~~~~C~~C~~~f~~~~~l~~H~~~h 315 (372)
..|-.|.....+...|..|+..-+. ...-.|-.|+-.|.....|..|+.-+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 4677777766667777777654321 01235888999999999999998654
No 58
>KOG2785|consensus
Probab=95.62 E-value=0.037 Score=47.43 Aligned_cols=52 Identities=19% Similarity=0.453 Sum_probs=42.2
Q ss_pred CeecccccccccChhHHHHHHHhh-c------------------------------------cCceeecccccccccCch
Q psy16828 82 PVECSYCGKVLSRKDKLTRHIAAV-H------------------------------------SGKEYPCEQCDRKFTNGY 124 (372)
Q Consensus 82 ~~~C~~C~~~~~~~~~l~~H~~~~-h------------------------------------~~~~~~C~~C~~~f~~~~ 124 (372)
.|.|..|...|.+...-+.|++.. | ...++.|..|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 488999999999998888898532 2 012589999999999999
Q ss_pred hHHHHHHhh
Q psy16828 125 KLKQHMLTH 133 (372)
Q Consensus 125 ~l~~H~~~~ 133 (372)
....|+..-
T Consensus 83 a~~~hl~Sk 91 (390)
T KOG2785|consen 83 AHENHLKSK 91 (390)
T ss_pred hHHHHHHHh
Confidence 999998754
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.48 E-value=0.011 Score=29.38 Aligned_cols=21 Identities=29% Similarity=0.630 Sum_probs=15.4
Q ss_pred cccCcccccccchhhHHHHHhh
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRT 314 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~ 314 (372)
..|+.||+.| ..+.|..|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4688888888 67777877654
No 60
>PRK04860 hypothetical protein; Provisional
Probab=95.08 E-value=0.015 Score=44.34 Aligned_cols=35 Identities=23% Similarity=0.591 Sum_probs=20.0
Q ss_pred CcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcC
Q psy16828 292 PFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIF 331 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 331 (372)
+|.|. |+. ....+..|.+++.+.++ |.|..|+..|
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~-YrC~~C~~~l 153 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAV-YRCRRCGETL 153 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCcc-EECCCCCcee
Confidence 46665 665 44555666666665555 5555555544
No 61
>KOG2231|consensus
Probab=94.90 E-value=0.038 Score=51.67 Aligned_cols=100 Identities=19% Similarity=0.373 Sum_probs=53.7
Q ss_pred ecCCCCCcccChHHHHHHHHHhcCCCCcccccch----------hhhcChhhhHhhhhhhccCCCC----cccccccccc
Q psy16828 181 LCTQCGFGCYTNRELEEHQILTHGAEPYHCKYCD----------KTFTKRMNVKTHERMKHENHKP----YECYICNKIL 246 (372)
Q Consensus 181 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~----------~~f~~~~~l~~H~~~~h~~~~~----~~C~~C~~~f 246 (372)
.|..| ..|.+...|..|+...|. .+.|..|- +.| +...|..|+...-.+++. -.|..|...|
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Y-t~~el~~h~~~gd~d~~s~rGhp~C~~C~~~f 192 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLY-TRAELNLHLMFGDPDDESCRGHPLCKFCHERF 192 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehe-hHHHHHHHHhcCCCccccccCCccchhhhhhh
Confidence 46667 666777777777755543 24444442 222 344566665542222211 3466666666
Q ss_pred cccchHHhHHhhhhccCcccccccc------cccCChHHHHHHHhhhc
Q psy16828 247 VSRGRLNEHLNQVHLAQRFECKLCH------KTIVSEKTFKKHMALHS 288 (372)
Q Consensus 247 ~~~~~l~~H~~~~~~~~~~~C~~C~------~~f~~~~~l~~H~~~h~ 288 (372)
.....|..|++..| |.|..|. .-|....+|..|.+.++
T Consensus 193 ld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 193 LDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred ccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 66666666666544 3344442 33445556666665544
No 62
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.67 E-value=0.14 Score=36.07 Aligned_cols=24 Identities=33% Similarity=0.535 Sum_probs=13.0
Q ss_pred ceeCcccCCcccChhhHHHHHhhc
Q psy16828 348 SHLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
.|.|+.|...|-..-+...|..+|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 455555555555555555555444
No 63
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.34 E-value=0.027 Score=30.64 Aligned_cols=24 Identities=13% Similarity=0.422 Sum_probs=21.6
Q ss_pred CccccCcccccccchhHHhhhhhc
Q psy16828 20 IKVECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 20 ~~~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
.+|.|.+|+..|.+...+..|+..
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHCh
Confidence 368999999999999999999875
No 64
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.05 E-value=0.044 Score=29.76 Aligned_cols=24 Identities=17% Similarity=0.627 Sum_probs=21.1
Q ss_pred CceeCcccCCcccChhhHHHHHhh
Q psy16828 347 KSHLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 347 ~~~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
.+|.|.+|+..|.+...+..|++.
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHCh
Confidence 368999999999999999999874
No 65
>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=93.98 E-value=0.045 Score=27.39 Aligned_cols=24 Identities=29% Similarity=0.758 Sum_probs=16.0
Q ss_pred cCCCCCCcCCCCccccccccccCCCceeCcccCCccc
Q psy16828 323 ECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGFV 359 (372)
Q Consensus 323 ~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 359 (372)
.||.|++..+.. .-.|+.||+.|.
T Consensus 2 ~CP~C~~~V~~~-------------~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPES-------------AKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhh-------------cCcCCCCCCCCc
Confidence 477787766433 234888888885
No 66
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.37 E-value=0.05 Score=49.90 Aligned_cols=152 Identities=21% Similarity=0.336 Sum_probs=98.3
Q ss_pred CCcccccchhhhcChhhhHhhhhh-hccCC--CCcccc--cccccccccchHHhHHhhhhccCcccccccc--cccCChH
Q psy16828 206 EPYHCKYCDKTFTKRMNVKTHERM-KHENH--KPYECY--ICNKILVSRGRLNEHLNQVHLAQRFECKLCH--KTIVSEK 278 (372)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~~-~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~--~~f~~~~ 278 (372)
.++.|..|...|.....+..|.+. .|.++ +++.|+ .|++.|.....+..|...+.+..++.+..-. ..+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 367888888888888888888883 48888 888888 7888888888888888888877766665533 2222221
Q ss_pred HH-----HHHHhhhcCCCCcccC--cccccccchhhHHHHHhhhcCCCC-CccCCCCCCcCCCC-ccccccccccCCCce
Q psy16828 279 TF-----KKHMALHSDAKPFVCN--ICGKDFKLKYYVNLHMRTHTRIRP-TFECDVCHQIFPTD-FRTKHMLVHDVEKSH 349 (372)
Q Consensus 279 ~l-----~~H~~~h~~~~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~-~~~C~~C~~~f~~~-~l~~h~~~h~~~~~~ 349 (372)
.- ......-.....+.+. .|...+.....+..|...+-..++ .+.+..|.+.+... .+..|++.+....++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 11 1111111112222222 266666777777777777665442 26777788888666 667777887777776
Q ss_pred eCcccCCc
Q psy16828 350 LCFVCGAG 357 (372)
Q Consensus 350 ~C~~C~~~ 357 (372)
.|..++..
T Consensus 448 ~~~~~~~~ 455 (467)
T COG5048 448 LCSILKSF 455 (467)
T ss_pred eecccccc
Confidence 66555433
No 67
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.33 E-value=0.054 Score=49.68 Aligned_cols=107 Identities=26% Similarity=0.456 Sum_probs=60.8
Q ss_pred cccccccccccCChHHHHHHHh--hhcCC--CCcccC--cccccccchhhHHHHHhhhcCCCCCccCCC-----------
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMA--LHSDA--KPFVCN--ICGKDFKLKYYVNLHMRTHTRIRPTFECDV----------- 326 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~----------- 326 (372)
++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+..+ +.+..
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP-AKEKLLNSSSKFSPLL 367 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCc-cccccccCcccccccc
Confidence 4556666666666666666666 56665 566666 566666666666666666555443 22222
Q ss_pred --------------------------CCCcCCCC-ccccccccccCCC--ceeCcccCCcccChhhHHHHHhhc
Q psy16828 327 --------------------------CHQIFPTD-FRTKHMLVHDVEK--SHLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 327 --------------------------C~~~f~~~-~l~~h~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
|...+.+. .+..|...+.... .+.+..|...|.....+..|++.|
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 441 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIH 441 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccccccc
Confidence 11122111 2222333333333 467888999998888888888765
No 68
>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=92.17 E-value=0.11 Score=27.86 Aligned_cols=10 Identities=50% Similarity=1.086 Sum_probs=5.5
Q ss_pred CceeCcccCC
Q psy16828 347 KSHLCFVCGA 356 (372)
Q Consensus 347 ~~~~C~~C~~ 356 (372)
.++.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4455666654
No 69
>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=91.75 E-value=0.21 Score=35.69 Aligned_cols=89 Identities=18% Similarity=0.272 Sum_probs=47.8
Q ss_pred CCCCccccCcccccccchhHHhhhhhccCcCCCCccC----------CCCCCCCcchhhHHHhhhhccCCCCCCCCeec-
Q psy16828 17 SKYIKVECPVCGKVLSRKSKLVSHMRSFHTSVTPEAG----------GDNNDTSGHMSQIQTMLMLDHKKPKSRAPVEC- 85 (372)
Q Consensus 17 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C- 85 (372)
.......|..|...... ..+..|++..|........ .........+. ................-|.|
T Consensus 7 ~~~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~-~p~~~~~Pi~gLp~~~G~~C~ 84 (109)
T PF12013_consen 7 PEYRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQ-IPPDPSPPIPGLPVYDGYRCQ 84 (109)
T ss_pred CcCCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccC-CCCCCCCcCCCCCCCCCeeee
Confidence 34567889999988766 8899999976654322100 00000000000 00000000111111134788
Q ss_pred ---ccccccccChhHHHHHHHhhcc
Q psy16828 86 ---SYCGKVLSRKDKLTRHIAAVHS 107 (372)
Q Consensus 86 ---~~C~~~~~~~~~l~~H~~~~h~ 107 (372)
..|++.+.+...|..|+...|+
T Consensus 85 ~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 85 CDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred cCCCCCCcEeccHHHHHHHHHHhcC
Confidence 8888888888888888877664
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.89 E-value=0.14 Score=30.39 Aligned_cols=31 Identities=26% Similarity=0.593 Sum_probs=23.7
Q ss_pred CCCCCeecccccccccChhHHHHHHHhhccC
Q psy16828 78 KSRAPVECSYCGKVLSRKDKLTRHIAAVHSG 108 (372)
Q Consensus 78 ~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~ 108 (372)
+++..+.|+-|+..|..+.++.+|+...|+.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 3446778888888888888888888776654
No 71
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=90.67 E-value=0.15 Score=31.00 Aligned_cols=31 Identities=19% Similarity=0.443 Sum_probs=17.5
Q ss_pred ccCCCCCCc-CCCCccccccccccCCCceeCcccCCc
Q psy16828 322 FECDVCHQI-FPTDFRTKHMLVHDVEKSHLCFVCGAG 357 (372)
Q Consensus 322 ~~C~~C~~~-f~~~~l~~h~~~h~~~~~~~C~~C~~~ 357 (372)
|.|+.||+. ..+-.--+ .-..+|.|+.||+.
T Consensus 26 F~CPnCG~~~I~RC~~CR-----k~~~~Y~CP~CGF~ 57 (59)
T PRK14890 26 FLCPNCGEVIIYRCEKCR-----KQSNPYTCPKCGFE 57 (59)
T ss_pred eeCCCCCCeeEeechhHH-----hcCCceECCCCCCc
Confidence 777777765 33221000 01257999999863
No 72
>KOG4173|consensus
Probab=89.70 E-value=0.23 Score=38.63 Aligned_cols=73 Identities=23% Similarity=0.387 Sum_probs=34.3
Q ss_pred CccccCChhhHHHHHhhhcCCCceeecCCCCCcccChHHHHHHHHHhc----------CCCCccccc--chhhhcChhhh
Q psy16828 156 CDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGCYTNRELEEHQILTH----------GAEPYHCKY--CDKTFTKRMNV 223 (372)
Q Consensus 156 C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~----------~~~~~~C~~--C~~~f~~~~~l 223 (372)
|...|.+.+....|....|. ..|..|.+.|++.--|..|+..-| |..-|.|-. |+..|.+...-
T Consensus 87 c~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~R 162 (253)
T KOG4173|consen 87 CCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDR 162 (253)
T ss_pred hHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhh
Confidence 44445444444444322222 135555555555554554543332 233455533 66666665555
Q ss_pred Hhhhhhhcc
Q psy16828 224 KTHERMKHE 232 (372)
Q Consensus 224 ~~H~~~~h~ 232 (372)
..|+...|.
T Consensus 163 kdH~I~~Hk 171 (253)
T KOG4173|consen 163 KDHMIRMHK 171 (253)
T ss_pred hhHHHHhcc
Confidence 555554443
No 73
>KOG2893|consensus
Probab=89.25 E-value=0.16 Score=40.36 Aligned_cols=41 Identities=24% Similarity=0.359 Sum_probs=18.6
Q ss_pred CCCCccccCChhhHHHHHhhhcCCCceeecCCCCCcccChHHHHHH
Q psy16828 153 CDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGCYTNRELEEH 198 (372)
Q Consensus 153 C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H 198 (372)
|=.|++.|.++..|..|.+. +-|+|-+|.+.+.+-..|..|
T Consensus 13 cwycnrefddekiliqhqka-----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCceee
Confidence 44455555554444444322 224455555444444444444
No 74
>KOG4173|consensus
Probab=89.12 E-value=0.25 Score=38.50 Aligned_cols=88 Identities=19% Similarity=0.399 Sum_probs=48.3
Q ss_pred ccccc--chhhhcChhhhHhhhhhhccCCCCcccccccccccccchHHhHHhhhhccCcccccccccccCChHHHHHHHh
Q psy16828 208 YHCKY--CDKTFTKRMNVKTHERMKHENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTFKKHMA 285 (372)
Q Consensus 208 ~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 285 (372)
+.|+. |...|.+......|....|.+ .|..|.+.|.+...|..|+..-|.. .-...
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs------------------~Fqa~ 137 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDS------------------LFQAL 137 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHH------------------HHHHH
Confidence 45654 556666666555665443333 5666666666666666665422210 00012
Q ss_pred hhcCCCCcccCc--ccccccchhhHHHHHhhhcC
Q psy16828 286 LHSDAKPFVCNI--CGKDFKLKYYVNLHMRTHTR 317 (372)
Q Consensus 286 ~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~ 317 (372)
+..|...|+|.. |+..|.+...-..|+-.-|.
T Consensus 138 veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 138 VERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 223556677743 77777777777777655444
No 75
>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=88.65 E-value=0.29 Score=26.39 Aligned_cols=24 Identities=38% Similarity=0.868 Sum_probs=13.3
Q ss_pred ccCCCCCCcCCCCccccccccccCCCceeCcccCC
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGA 356 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~ 356 (372)
|.|.+||.++... +.|..|++||.
T Consensus 3 ~~C~~CG~i~~g~-----------~~p~~CP~Cg~ 26 (34)
T cd00729 3 WVCPVCGYIHEGE-----------EAPEKCPICGA 26 (34)
T ss_pred EECCCCCCEeECC-----------cCCCcCcCCCC
Confidence 5666666654322 13456777765
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.21 E-value=0.24 Score=29.39 Aligned_cols=30 Identities=27% Similarity=0.294 Sum_probs=25.5
Q ss_pred ccccCCCceeCcccCCcccChhhHHHHHhh
Q psy16828 341 LVHDVEKSHLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 341 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
..-.||--+.||.||..|..+....+|+..
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 345678889999999999999999999864
No 77
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=86.95 E-value=1.3 Score=31.65 Aligned_cols=26 Identities=15% Similarity=0.395 Sum_probs=18.6
Q ss_pred CCeecccccccccChhHHHHHHHhhcc
Q psy16828 81 APVECSYCGKVLSRKDKLTRHIAAVHS 107 (372)
Q Consensus 81 ~~~~C~~C~~~~~~~~~l~~H~~~~h~ 107 (372)
+.+.|..|...... .++..|++..|.
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~ 35 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHH 35 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcc
Confidence 55778888887655 778888875543
No 78
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.64 E-value=1.3 Score=31.27 Aligned_cols=48 Identities=13% Similarity=0.115 Sum_probs=24.9
Q ss_pred cCCCCccccCChhhHHHHHhhhcCCCceeecCCCCCcccChHHHHHHHHHh
Q psy16828 152 KCDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGCYTNRELEEHQILT 202 (372)
Q Consensus 152 ~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 202 (372)
.|-.|...|........ ..-.....|.|+.|...|-..-++-.|...|
T Consensus 57 ~C~~C~~~f~~~~~~~~---~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPF---DELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCcccccc---cccccccceeCCCCCCccccccchhhhhhcc
Confidence 47777777765421110 0012233566777766666665555665444
No 79
>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=86.42 E-value=0.24 Score=40.07 Aligned_cols=92 Identities=21% Similarity=0.569 Sum_probs=49.1
Q ss_pred hcCCCCcccccchhhhcChhhhHhhhhhh-ccCCCCcccccccccccccchHHhHHhhhhccCcccccccccccCChHHH
Q psy16828 202 THGAEPYHCKYCDKTFTKRMNVKTHERMK-HENHKPYECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTF 280 (372)
Q Consensus 202 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l 280 (372)
.|+.+.|.|.+|....-....+ .|+..- -.....|+|.-|++.- .|.|--|.-.|-.
T Consensus 137 ~hGGrif~CsfC~~flCEDDQF-EHQAsCQvLe~E~~KC~SCNrlG-----------------q~sCLRCK~cfCd---- 194 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCEDDQF-EHQASCQVLESETFKCQSCNRLG-----------------QYSCLRCKICFCD---- 194 (314)
T ss_pred cCCCeEEEeecCCCeeeccchh-hhhhhhhhhhccccccccccccc-----------------chhhhheeeeehh----
Confidence 3567778888887443322222 233221 2233557777776532 2445555444443
Q ss_pred HHHHhhh----cCCCCcccCcccccccchhhHHHHHhhhc
Q psy16828 281 KKHMALH----SDAKPFVCNICGKDFKLKYYVNLHMRTHT 316 (372)
Q Consensus 281 ~~H~~~h----~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 316 (372)
.|++.- ...+++.||.|++....-..|..-.++|.
T Consensus 195 -dHvrrKg~ky~k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 195 -DHVRRKGFKYEKGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred -hhhhhcccccccCCCCCCCCCCCcccccccceeeeecch
Confidence 333321 23367788888887766666655555553
No 80
>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=85.31 E-value=0.55 Score=33.19 Aligned_cols=13 Identities=46% Similarity=1.237 Sum_probs=6.4
Q ss_pred CCcccCccccccc
Q psy16828 291 KPFVCNICGKDFK 303 (372)
Q Consensus 291 ~~~~C~~C~~~f~ 303 (372)
.|..||.||..|.
T Consensus 25 ~PivCP~CG~~~~ 37 (108)
T PF09538_consen 25 DPIVCPKCGTEFP 37 (108)
T ss_pred CCccCCCCCCccC
Confidence 4444555555443
No 81
>PHA00626 hypothetical protein
Probab=84.94 E-value=0.31 Score=29.07 Aligned_cols=11 Identities=36% Similarity=0.830 Sum_probs=5.8
Q ss_pred CcccCcccccc
Q psy16828 292 PFVCNICGKDF 302 (372)
Q Consensus 292 ~~~C~~C~~~f 302 (372)
.|.|+.||+.|
T Consensus 23 rYkCkdCGY~f 33 (59)
T PHA00626 23 DYVCCDCGYND 33 (59)
T ss_pred ceEcCCCCCee
Confidence 35555555555
No 82
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=84.50 E-value=0.8 Score=27.84 Aligned_cols=10 Identities=40% Similarity=1.158 Sum_probs=6.5
Q ss_pred CCcccCcccc
Q psy16828 291 KPFVCNICGK 300 (372)
Q Consensus 291 ~~~~C~~C~~ 300 (372)
.+|.|+.||+
T Consensus 49 ~~Y~Cp~CGF 58 (61)
T COG2888 49 NPYRCPKCGF 58 (61)
T ss_pred CceECCCcCc
Confidence 4667776665
No 83
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=84.10 E-value=0.64 Score=27.07 Aligned_cols=11 Identities=18% Similarity=0.727 Sum_probs=6.4
Q ss_pred ccCCCCCCcCC
Q psy16828 322 FECDVCHQIFP 332 (372)
Q Consensus 322 ~~C~~C~~~f~ 332 (372)
|+|+.|+..|.
T Consensus 4 y~C~~CG~~~~ 14 (46)
T PRK00398 4 YKCARCGREVE 14 (46)
T ss_pred EECCCCCCEEE
Confidence 56666665543
No 84
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=83.89 E-value=0.26 Score=30.67 Aligned_cols=33 Identities=21% Similarity=0.492 Sum_probs=15.0
Q ss_pred CcccCc--ccccccchhhHHHHHhhhcCCCCCccCCC
Q psy16828 292 PFVCNI--CGKDFKLKYYVNLHMRTHTRIRPTFECDV 326 (372)
Q Consensus 292 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~C~~ 326 (372)
+..|+. |...+ .+..|..|+...-..++ ..|+.
T Consensus 9 ~v~C~~~cc~~~i-~r~~l~~H~~~~C~~~~-v~C~~ 43 (60)
T PF02176_consen 9 PVPCPNGCCNEMI-PRKELDDHLENECPKRP-VPCPY 43 (60)
T ss_dssp EEE-TT--S-BEE-ECCCHHHHHHTTSTTSE-EE-SS
T ss_pred EeeCCCCCcccce-eHHHHHHHHHccCCCCc-EECCC
Confidence 345555 33333 35566666664444444 55555
No 85
>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=83.37 E-value=0.58 Score=25.91 Aligned_cols=11 Identities=27% Similarity=0.549 Sum_probs=6.5
Q ss_pred ceeCcccCCcc
Q psy16828 348 SHLCFVCGAGF 358 (372)
Q Consensus 348 ~~~C~~C~~~f 358 (372)
...|+.|+..|
T Consensus 25 ~v~C~~C~~~~ 35 (38)
T TIGR02098 25 KVRCGKCGHVW 35 (38)
T ss_pred EEECCCCCCEE
Confidence 35566666655
No 86
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.19 E-value=0.85 Score=32.27 Aligned_cols=29 Identities=31% Similarity=0.739 Sum_probs=15.4
Q ss_pred ccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC
Q psy16828 294 VCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD 334 (372)
Q Consensus 294 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 334 (372)
.|+.||..|... +..| ..||.||..|.-.
T Consensus 11 ~Cp~CG~kFYDL-----------nk~P-ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDL-----------NKDP-IVCPKCGTEFPPE 39 (108)
T ss_pred cCCCCcchhccC-----------CCCC-ccCCCCCCccCcc
Confidence 466666666532 1123 5566666666443
No 87
>KOG2186|consensus
Probab=82.76 E-value=1 Score=36.60 Aligned_cols=47 Identities=19% Similarity=0.610 Sum_probs=39.0
Q ss_pred CeecccccccccChhHHHHHHHhhccCceeecccccccccCchhHHHHHH
Q psy16828 82 PVECSYCGKVLSRKDKLTRHIAAVHSGKEYPCEQCDRKFTNGYKLKQHML 131 (372)
Q Consensus 82 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~C~~C~~~f~~~~~l~~H~~ 131 (372)
.|.|..|+....- ..+.+|+.+.++ .-|.|-.|+..|.. .++..|..
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 5889999998754 467789988887 67999999999975 88888864
No 88
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=82.58 E-value=1.2 Score=34.07 Aligned_cols=23 Identities=43% Similarity=0.993 Sum_probs=16.0
Q ss_pred cccccccccccCChHHHHHHHhhhcCCCCcccCccc
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICG 299 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 299 (372)
.|.|++||+. +.|+.|-+||+||
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 5777777754 3456777787777
No 89
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.38 E-value=0.66 Score=37.69 Aligned_cols=25 Identities=36% Similarity=0.676 Sum_probs=20.0
Q ss_pred CCccccCcccccccchhHHhhhhhc
Q psy16828 19 YIKVECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 19 ~~~~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
.+.+.||+|+..|.++.......+.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 3678999999999998876666654
No 90
>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=82.33 E-value=0.55 Score=38.15 Aligned_cols=17 Identities=24% Similarity=0.337 Sum_probs=8.4
Q ss_pred CceeCcccCCcccChhh
Q psy16828 347 KSHLCFVCGAGFVNDAG 363 (372)
Q Consensus 347 ~~~~C~~C~~~f~~~~~ 363 (372)
+++.||.||+....-..
T Consensus 208 k~~PCPKCg~et~eTkd 224 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKD 224 (314)
T ss_pred CCCCCCCCCCccccccc
Confidence 45555555555444333
No 91
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=82.31 E-value=0.89 Score=26.17 Aligned_cols=11 Identities=27% Similarity=1.180 Sum_probs=5.3
Q ss_pred cccCccccccc
Q psy16828 293 FVCNICGKDFK 303 (372)
Q Consensus 293 ~~C~~C~~~f~ 303 (372)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44555554443
No 92
>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=81.74 E-value=1.3 Score=33.93 Aligned_cols=37 Identities=19% Similarity=0.490 Sum_probs=26.0
Q ss_pred hhhcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcC
Q psy16828 285 ALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIF 331 (372)
Q Consensus 285 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 331 (372)
....+..-|.|+.|+..|+.-.++.. . |.||.||...
T Consensus 102 ~~e~~~~~Y~Cp~c~~r~tf~eA~~~---------~-F~Cp~Cg~~L 138 (158)
T TIGR00373 102 EFETNNMFFICPNMCVRFTFNEAMEL---------N-FTCPRCGAML 138 (158)
T ss_pred hhccCCCeEECCCCCcEeeHHHHHHc---------C-CcCCCCCCEe
Confidence 33445566888888888887777752 2 8888888653
No 93
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.44 E-value=0.87 Score=25.08 Aligned_cols=6 Identities=50% Similarity=1.364 Sum_probs=2.3
Q ss_pred ccCccc
Q psy16828 294 VCNICG 299 (372)
Q Consensus 294 ~C~~C~ 299 (372)
+|+.|+
T Consensus 27 rC~~C~ 32 (37)
T PF13719_consen 27 RCPKCG 32 (37)
T ss_pred ECCCCC
Confidence 333333
No 94
>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=81.06 E-value=0.33 Score=39.00 Aligned_cols=32 Identities=25% Similarity=0.472 Sum_probs=25.7
Q ss_pred CCCCCccccCcccccccchhHHhhhhhccCcC
Q psy16828 16 PSKYIKVECPVCGKVLSRKSKLVSHMRSFHTS 47 (372)
Q Consensus 16 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 47 (372)
-....+|.|++|++.|.-..-+++|+...|.+
T Consensus 72 e~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 72 EEDEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSSSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred HHcCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 34667899999999999999999999998975
No 95
>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=80.86 E-value=1.9 Score=21.05 Aligned_cols=10 Identities=30% Similarity=0.587 Sum_probs=7.1
Q ss_pred CceeCcccCC
Q psy16828 347 KSHLCFVCGA 356 (372)
Q Consensus 347 ~~~~C~~C~~ 356 (372)
.+|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4678888874
No 96
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=79.59 E-value=1.2 Score=34.25 Aligned_cols=24 Identities=33% Similarity=0.790 Sum_probs=17.4
Q ss_pred CccCCCCCCcCCCCccccccccccCCCceeCcccCC
Q psy16828 321 TFECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGA 356 (372)
Q Consensus 321 ~~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~ 356 (372)
.|.|++||.++. |+.|-.||+||-
T Consensus 134 ~~vC~vCGy~~~------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc------------CCCCCcCCCCCC
Confidence 388888877543 457888888884
No 97
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=79.36 E-value=0.39 Score=36.45 Aligned_cols=12 Identities=42% Similarity=0.816 Sum_probs=6.3
Q ss_pred cccCcccccccc
Q psy16828 293 FVCNICGKDFKL 304 (372)
Q Consensus 293 ~~C~~C~~~f~~ 304 (372)
++|+.||++|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 455555555544
No 98
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=79.26 E-value=2.2 Score=23.28 Aligned_cols=32 Identities=22% Similarity=0.421 Sum_probs=14.4
Q ss_pred cCCCCccccCChhhHHHHHhhhcCCCceeecCCCCCcc
Q psy16828 152 KCDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGC 189 (372)
Q Consensus 152 ~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f 189 (372)
.|+.|+..|.-.++. .-......+|+.|+..|
T Consensus 4 ~Cp~C~~~y~i~d~~------ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEK------IPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHH------CCCCCcEEECCCCCCEe
Confidence 455555555433211 12333345555555544
No 99
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=79.02 E-value=1.6 Score=34.18 Aligned_cols=34 Identities=21% Similarity=0.570 Sum_probs=24.0
Q ss_pred cCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcC
Q psy16828 288 SDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIF 331 (372)
Q Consensus 288 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 331 (372)
.+..-|.|+.|+..|+.-.++.. . |.|+.||...
T Consensus 113 ~~~~~Y~Cp~C~~rytf~eA~~~---------~-F~Cp~Cg~~L 146 (178)
T PRK06266 113 ENNMFFFCPNCHIRFTFDEAMEY---------G-FRCPQCGEML 146 (178)
T ss_pred cCCCEEECCCCCcEEeHHHHhhc---------C-CcCCCCCCCC
Confidence 34456888888888887766531 2 8888888654
No 100
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.90 E-value=0.61 Score=37.87 Aligned_cols=13 Identities=15% Similarity=0.434 Sum_probs=7.8
Q ss_pred ccccccccccccc
Q psy16828 237 YECYICNKILVSR 249 (372)
Q Consensus 237 ~~C~~C~~~f~~~ 249 (372)
..||.||.++...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 4577777666543
No 101
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=77.70 E-value=1.8 Score=26.82 Aligned_cols=40 Identities=23% Similarity=0.692 Sum_probs=21.6
Q ss_pred CCeeccc--ccccccChhHHHHHHHhhccCceeeccc----cccccc
Q psy16828 81 APVECSY--CGKVLSRKDKLTRHIAAVHSGKEYPCEQ----CDRKFT 121 (372)
Q Consensus 81 ~~~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~C~~----C~~~f~ 121 (372)
.+..|+. |...+ .+..|..|+...-...+..|+. |...+.
T Consensus 8 ~~v~C~~~cc~~~i-~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMI-PRKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEE-ECCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCcccce-eHHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 4566776 44434 3557777776555666777777 777664
No 102
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=77.64 E-value=1.9 Score=24.35 Aligned_cols=37 Identities=16% Similarity=0.337 Sum_probs=24.3
Q ss_pred cCCCCCCcCCCCccccccccccCCCceeCcccCCcccChhhHHH
Q psy16828 323 ECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGFVNDAGLKV 366 (372)
Q Consensus 323 ~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~ 366 (372)
+||.|+.......+ .+.....|+.|+-.+.+..+|.+
T Consensus 1 ~CP~C~~~l~~~~~-------~~~~id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 1 KCPRCGTELEPVRL-------GDVEIDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred CcCCCCcccceEEE-------CCEEEEECCCCCeEEccHHHHHH
Confidence 47777664332222 33456889999988888887764
No 103
>KOG2272|consensus
Probab=77.01 E-value=1.2 Score=36.00 Aligned_cols=15 Identities=20% Similarity=0.594 Sum_probs=8.8
Q ss_pred ceeCcccCCcccChh
Q psy16828 348 SHLCFVCGAGFVNDA 362 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~ 362 (372)
.|.|..|.+.|....
T Consensus 221 HFvCa~CekPFlGHr 235 (332)
T KOG2272|consen 221 HFVCAKCEKPFLGHR 235 (332)
T ss_pred heeehhcCCcccchh
Confidence 366666666665543
No 104
>PF15269 zf-C2H2_7: Zinc-finger
Probab=76.89 E-value=2.2 Score=24.13 Aligned_cols=28 Identities=36% Similarity=0.561 Sum_probs=23.9
Q ss_pred CCCCCccccCcccccccchhHHhhhhhc
Q psy16828 16 PSKYIKVECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 16 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
+-+.-.|+|.+|..+...++.|-.||+-
T Consensus 15 ~gkp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 15 PGKPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCCCccceeecCCcccchHHHHHHHHHH
Confidence 3455679999999999999999999974
No 105
>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=75.76 E-value=1.9 Score=31.11 Aligned_cols=17 Identities=24% Similarity=0.491 Sum_probs=9.6
Q ss_pred CCCCcccCcccccccch
Q psy16828 289 DAKPFVCNICGKDFKLK 305 (372)
Q Consensus 289 ~~~~~~C~~C~~~f~~~ 305 (372)
+..|..|+.||..|...
T Consensus 23 nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 23 NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred CCCCccCCCcCCccCcc
Confidence 34556666666665443
No 106
>PF15269 zf-C2H2_7: Zinc-finger
Probab=75.52 E-value=2.1 Score=24.19 Aligned_cols=22 Identities=27% Similarity=0.406 Sum_probs=20.1
Q ss_pred eeCcccCCcccChhhHHHHHhh
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
|+|-.|.+....++.|..||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 7899999999999999999974
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=75.48 E-value=3.2 Score=31.48 Aligned_cols=39 Identities=15% Similarity=0.410 Sum_probs=20.5
Q ss_pred cCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcC
Q psy16828 288 SDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIF 331 (372)
Q Consensus 288 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 331 (372)
.+..-|.|+.|+..|+...++.. .. .... |.||.|+...
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~-~d---~~~~-f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQL-LD---MDGT-FTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHh-cC---CCCc-EECCCCCCEE
Confidence 34455777777777764333322 01 1122 6777776543
No 108
>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=75.10 E-value=1.1 Score=25.26 Aligned_cols=10 Identities=30% Similarity=1.148 Sum_probs=5.3
Q ss_pred ccCCCCCCcC
Q psy16828 322 FECDVCHQIF 331 (372)
Q Consensus 322 ~~C~~C~~~f 331 (372)
|+|+.|+..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 4555555544
No 109
>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=75.09 E-value=2 Score=21.45 Aligned_cols=21 Identities=38% Similarity=0.779 Sum_probs=17.1
Q ss_pred cccCcccccccchhHHhhhhhc
Q psy16828 22 VECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 22 ~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
..||.|++.+ ....+..|+..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHHH
Confidence 4799999998 66788888763
No 110
>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=74.72 E-value=2 Score=22.73 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=5.1
Q ss_pred ceeCcccCCc
Q psy16828 348 SHLCFVCGAG 357 (372)
Q Consensus 348 ~~~C~~C~~~ 357 (372)
+-+|+.||..
T Consensus 17 ~irC~~CG~R 26 (32)
T PF03604_consen 17 PIRCPECGHR 26 (32)
T ss_dssp TSSBSSSS-S
T ss_pred cEECCcCCCe
Confidence 3456666653
No 111
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=74.72 E-value=1.8 Score=25.44 Aligned_cols=10 Identities=30% Similarity=1.192 Sum_probs=4.8
Q ss_pred cccCcccccc
Q psy16828 293 FVCNICGKDF 302 (372)
Q Consensus 293 ~~C~~C~~~f 302 (372)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4444444444
No 112
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=73.88 E-value=5.9 Score=33.34 Aligned_cols=80 Identities=21% Similarity=0.395 Sum_probs=43.7
Q ss_pred CCcccCcccccccchhhHHHHHhhhcCCCC-----C------ccCCCCCCcCCCCccccccccccCCCceeCcccCCccc
Q psy16828 291 KPFVCNICGKDFKLKYYVNLHMRTHTRIRP-----T------FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGFV 359 (372)
Q Consensus 291 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~-----~------~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 359 (372)
-|..|+.|+-.......|.+-..---..++ . -.|-.|--.|+.......-.. +....|.|+.|...|-
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~-~ss~rY~Ce~CK~~FC 399 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDES-TSSGRYQCELCKSTFC 399 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCccccc-ccccceechhhhhhhh
Confidence 466788887666555444443211111111 0 236666666765522111111 1234588999988888
Q ss_pred ChhhHHHHHhhc
Q psy16828 360 NDAGLKVHMRKH 371 (372)
Q Consensus 360 ~~~~l~~H~~~h 371 (372)
.--+...|..+|
T Consensus 400 ~dCdvfiHe~Lh 411 (421)
T COG5151 400 SDCDVFIHETLH 411 (421)
T ss_pred hhhHHHHHHHHh
Confidence 777777776665
No 113
>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=73.75 E-value=1.9 Score=24.85 Aligned_cols=29 Identities=34% Similarity=0.647 Sum_probs=19.5
Q ss_pred CCCCccccCcccccccch----hHHhhhhhccC
Q psy16828 17 SKYIKVECPVCGKVLSRK----SKLVSHMRSFH 45 (372)
Q Consensus 17 ~~~~~~~C~~C~~~f~~~----~~l~~H~~~~H 45 (372)
.+.....|..|++.+... ..|..|++..|
T Consensus 12 ~~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 12 GDKKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp GCSS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CCcCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 356778999999988764 78999996655
No 114
>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=73.54 E-value=4.1 Score=24.21 Aligned_cols=9 Identities=56% Similarity=1.224 Sum_probs=6.6
Q ss_pred ceeCcccCC
Q psy16828 348 SHLCFVCGA 356 (372)
Q Consensus 348 ~~~C~~C~~ 356 (372)
.+.|++|+.
T Consensus 34 ~w~CP~C~a 42 (50)
T cd00730 34 DWVCPVCGA 42 (50)
T ss_pred CCCCCCCCC
Confidence 477888874
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.19 E-value=2.7 Score=31.83 Aligned_cols=23 Identities=13% Similarity=0.247 Sum_probs=16.8
Q ss_pred CCCCCCccccCcccccccchhHH
Q psy16828 15 KPSKYIKVECPVCGKVLSRKSKL 37 (372)
Q Consensus 15 ~~~~~~~~~C~~C~~~f~~~~~l 37 (372)
.-.....|.|+.|+..|....++
T Consensus 93 ~e~~~~~Y~Cp~C~~~y~~~ea~ 115 (147)
T smart00531 93 DETNNAYYKCPNCQSKYTFLEAN 115 (147)
T ss_pred cccCCcEEECcCCCCEeeHHHHH
Confidence 34466789999999999854433
No 116
>PF12907 zf-met2: Zinc-binding
Probab=72.19 E-value=1.8 Score=24.19 Aligned_cols=32 Identities=22% Similarity=0.419 Sum_probs=24.0
Q ss_pred cccCccccc---ccchhHHhhhhhccCcCCCCccC
Q psy16828 22 VECPVCGKV---LSRKSKLVSHMRSFHTSVTPEAG 53 (372)
Q Consensus 22 ~~C~~C~~~---f~~~~~l~~H~~~~H~~~~~~~~ 53 (372)
+.|.+|-.+ ..+...|..|....|+...+..|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 679999954 45567899999998987544443
No 117
>KOG2807|consensus
Probab=72.19 E-value=10 Score=32.35 Aligned_cols=23 Identities=30% Similarity=0.699 Sum_probs=13.8
Q ss_pred CcccccchhhhcChhhhHhhhhh
Q psy16828 207 PYHCKYCDKTFTKRMNVKTHERM 229 (372)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~ 229 (372)
.|.|..|...|-..-+.-.|...
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesL 367 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESL 367 (378)
T ss_pred cEEchhccceeeccchHHHHhhh
Confidence 46666666666666555555544
No 118
>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=72.15 E-value=1.3 Score=26.51 Aligned_cols=11 Identities=36% Similarity=1.238 Sum_probs=6.4
Q ss_pred cccCccccccc
Q psy16828 293 FVCNICGKDFK 303 (372)
Q Consensus 293 ~~C~~C~~~f~ 303 (372)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 55666665554
No 119
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=71.71 E-value=3.5 Score=34.62 Aligned_cols=90 Identities=12% Similarity=0.119 Sum_probs=42.2
Q ss_pred eeecccccccccCchhHHHHHHhhcccCCCCccccccccCcccCCCCccccCChhhHHHHHhhhcCCCceeecCCCCCcc
Q psy16828 110 EYPCEQCDRKFTNGYKLKQHMLTHMQKDTSISIDVISEIKKFKCDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGFGC 189 (372)
Q Consensus 110 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f 189 (372)
|..|+.|+........|.+-...--+.++........+.+.-.|-.|.-.|.... .|.--.-.....|+|+.|...|
T Consensus 322 Pi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~---~~~~~~~~ss~rY~Ce~CK~~F 398 (421)
T COG5151 322 PISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPP---VSPFDESTSSGRYQCELCKSTF 398 (421)
T ss_pred CccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCC---CCcccccccccceechhhhhhh
Confidence 6777777766554444444322211222211111122233344666666665432 1111112223456777777666
Q ss_pred cChHHHHHHHHHh
Q psy16828 190 YTNRELEEHQILT 202 (372)
Q Consensus 190 ~~~~~l~~H~~~~ 202 (372)
-..-+.-.|...|
T Consensus 399 C~dCdvfiHe~Lh 411 (421)
T COG5151 399 CSDCDVFIHETLH 411 (421)
T ss_pred hhhhHHHHHHHHh
Confidence 6666655565444
No 120
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=71.29 E-value=3.5 Score=19.90 Aligned_cols=7 Identities=43% Similarity=1.075 Sum_probs=4.9
Q ss_pred CcccCCc
Q psy16828 351 CFVCGAG 357 (372)
Q Consensus 351 C~~C~~~ 357 (372)
|+.||..
T Consensus 16 C~~CG~~ 22 (23)
T PF13240_consen 16 CPNCGTP 22 (23)
T ss_pred hhhhCCc
Confidence 7777764
No 121
>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=71.23 E-value=3.1 Score=30.05 Aligned_cols=29 Identities=24% Similarity=0.415 Sum_probs=16.1
Q ss_pred ccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC
Q psy16828 294 VCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD 334 (372)
Q Consensus 294 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 334 (372)
.|+.||..|... +..| ..|+.||..|...
T Consensus 11 ~Cp~cg~kFYDL-----------nk~p-~vcP~cg~~~~~~ 39 (129)
T TIGR02300 11 ICPNTGSKFYDL-----------NRRP-AVSPYTGEQFPPE 39 (129)
T ss_pred cCCCcCcccccc-----------CCCC-ccCCCcCCccCcc
Confidence 567777666531 1123 6677776666443
No 122
>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=70.59 E-value=2.2 Score=24.27 Aligned_cols=11 Identities=27% Similarity=0.996 Sum_probs=6.0
Q ss_pred ccCCCCCCcCC
Q psy16828 322 FECDVCHQIFP 332 (372)
Q Consensus 322 ~~C~~C~~~f~ 332 (372)
|+|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 55555555543
No 123
>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=68.04 E-value=3.4 Score=24.18 Aligned_cols=10 Identities=50% Similarity=1.049 Sum_probs=5.4
Q ss_pred ceeCcccCCc
Q psy16828 348 SHLCFVCGAG 357 (372)
Q Consensus 348 ~~~C~~C~~~ 357 (372)
.+.|++|+..
T Consensus 34 ~w~CP~C~a~ 43 (47)
T PF00301_consen 34 DWVCPVCGAP 43 (47)
T ss_dssp T-B-TTTSSB
T ss_pred CCcCcCCCCc
Confidence 4778888753
No 124
>PF14353 CpXC: CpXC protein
Probab=67.26 E-value=1.9 Score=31.83 Aligned_cols=10 Identities=40% Similarity=0.949 Sum_probs=4.9
Q ss_pred eeCcccCCcc
Q psy16828 349 HLCFVCGAGF 358 (372)
Q Consensus 349 ~~C~~C~~~f 358 (372)
|.|+.||..|
T Consensus 39 ~~CP~Cg~~~ 48 (128)
T PF14353_consen 39 FTCPSCGHKF 48 (128)
T ss_pred EECCCCCCce
Confidence 4455555444
No 125
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=66.32 E-value=4.4 Score=24.01 Aligned_cols=24 Identities=33% Similarity=0.713 Sum_probs=17.7
Q ss_pred ceeCcccCCcccCh-----hhHHHHHh-hc
Q psy16828 348 SHLCFVCGAGFVND-----AGLKVHMR-KH 371 (372)
Q Consensus 348 ~~~C~~C~~~f~~~-----~~l~~H~~-~h 371 (372)
--.|.+|++.+... +.|.+|++ .|
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 35688888887665 47999988 44
No 126
>KOG2186|consensus
Probab=64.41 E-value=2.4 Score=34.50 Aligned_cols=45 Identities=29% Similarity=0.623 Sum_probs=22.0
Q ss_pred ccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHHHHH
Q psy16828 265 FECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVNLHM 312 (372)
Q Consensus 265 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 312 (372)
|.|..||.+.. ...+..|+..-.| .-|.|..|+..|.. ..+..|.
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 45555554443 2234445554444 34555555555544 4455553
No 127
>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=63.08 E-value=6.6 Score=23.78 Aligned_cols=30 Identities=30% Similarity=0.504 Sum_probs=16.1
Q ss_pred ccCCCCCCcCCCCccccccccccCCCceeCcccCCcc
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGF 358 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f 358 (372)
|+|+.|+..+.-.... .|+ ...|+.||..+
T Consensus 3 ~~CP~CG~~iev~~~~------~Ge-iV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPE------LGE-LVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCc------cCC-EEeCCCCCCEE
Confidence 6777777765332111 022 34677777654
No 128
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.98 E-value=6 Score=27.51 Aligned_cols=27 Identities=19% Similarity=0.215 Sum_probs=17.7
Q ss_pred cccccccccCChHHHHHHHhhhcCCCCcccCccccccc
Q psy16828 266 ECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFK 303 (372)
Q Consensus 266 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 303 (372)
.|+.|++.|.. .+..|..|++||++|+
T Consensus 11 idPetg~KFYD-----------LNrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYD-----------LNRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhc-----------cCCCccccCcccccch
Confidence 46666666643 4557777778887773
No 129
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=62.81 E-value=7 Score=30.05 Aligned_cols=17 Identities=12% Similarity=0.147 Sum_probs=7.6
Q ss_pred cccccccccccCChHHH
Q psy16828 264 RFECKLCHKTIVSEKTF 280 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l 280 (372)
-|.|+.|+..|+....+
T Consensus 109 ~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAM 125 (158)
T ss_pred eEECCCCCcEeeHHHHH
Confidence 34454444444443333
No 130
>PRK04023 DNA polymerase II large subunit; Validated
Probab=60.93 E-value=8.8 Score=38.31 Aligned_cols=12 Identities=25% Similarity=0.462 Sum_probs=7.5
Q ss_pred ceeCcccCCccc
Q psy16828 348 SHLCFVCGAGFV 359 (372)
Q Consensus 348 ~~~C~~C~~~f~ 359 (372)
++.|+.||..-.
T Consensus 663 ~y~CPKCG~El~ 674 (1121)
T PRK04023 663 EDECEKCGREPT 674 (1121)
T ss_pred CCcCCCCCCCCC
Confidence 366777776543
No 131
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=60.87 E-value=7.6 Score=19.29 Aligned_cols=9 Identities=22% Similarity=0.501 Sum_probs=6.0
Q ss_pred ccCCCCCCc
Q psy16828 322 FECDVCHQI 330 (372)
Q Consensus 322 ~~C~~C~~~ 330 (372)
..|+.|+..
T Consensus 3 ~~Cp~Cg~~ 11 (26)
T PF13248_consen 3 MFCPNCGAE 11 (26)
T ss_pred CCCcccCCc
Confidence 457777774
No 132
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=60.38 E-value=16 Score=31.56 Aligned_cols=21 Identities=33% Similarity=0.700 Sum_probs=13.7
Q ss_pred CeecccccccccChhHHHHHH
Q psy16828 82 PVECSYCGKVLSRKDKLTRHI 102 (372)
Q Consensus 82 ~~~C~~C~~~~~~~~~l~~H~ 102 (372)
.+.|..|++-|....-+..|+
T Consensus 238 ~~YC~~C~r~f~~~~VFe~Hl 258 (470)
T COG5188 238 KVYCVKCGREFSRSKVFEYHL 258 (470)
T ss_pred ceeeHhhhhHhhhhHHHHHHH
Confidence 456777777776666666665
No 133
>KOG2593|consensus
Probab=59.44 E-value=7.7 Score=34.56 Aligned_cols=43 Identities=19% Similarity=0.407 Sum_probs=28.6
Q ss_pred hhhcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcC
Q psy16828 285 ALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIF 331 (372)
Q Consensus 285 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 331 (372)
+.-++.+.|.|+.|++.|++..++.-= ......|.|..|+-..
T Consensus 121 ~d~t~~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 121 RDDTNVAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGGEL 163 (436)
T ss_pred hhccccccccCCccccchhhhHHHHhh----cccCceEEEecCCCch
Confidence 344566779999999999876665432 2222348899987543
No 134
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=59.13 E-value=5.9 Score=26.44 Aligned_cols=7 Identities=29% Similarity=1.113 Sum_probs=3.1
Q ss_pred cccccch
Q psy16828 208 YHCKYCD 214 (372)
Q Consensus 208 ~~C~~C~ 214 (372)
|.|+.|+
T Consensus 36 ~~Cp~C~ 42 (89)
T COG1997 36 HVCPFCG 42 (89)
T ss_pred CcCCCCC
Confidence 4444444
No 135
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=58.67 E-value=5 Score=29.60 Aligned_cols=26 Identities=38% Similarity=0.791 Sum_probs=15.1
Q ss_pred CCcccCcccccccchhhHHHHHhhhcCCC
Q psy16828 291 KPFVCNICGKDFKLKYYVNLHMRTHTRIR 319 (372)
Q Consensus 291 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 319 (372)
.-..|-.||+.|.. |.+|+..|++..
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred CeeEEccCCcccch---HHHHHHHccCCC
Confidence 33678888888765 588888887654
No 136
>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=58.38 E-value=24 Score=20.38 Aligned_cols=11 Identities=18% Similarity=0.398 Sum_probs=7.3
Q ss_pred CCceeCcccCC
Q psy16828 346 EKSHLCFVCGA 356 (372)
Q Consensus 346 ~~~~~C~~C~~ 356 (372)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 45677777764
No 137
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=58.12 E-value=6.5 Score=38.29 Aligned_cols=19 Identities=21% Similarity=0.333 Sum_probs=12.4
Q ss_pred ccccccCCCceeCcccCCc
Q psy16828 339 HMLVHDVEKSHLCFVCGAG 357 (372)
Q Consensus 339 h~~~h~~~~~~~C~~C~~~ 357 (372)
|.--+....|..|+.||-.
T Consensus 466 H~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 466 HYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCCCCCCC
Confidence 3334445578889999854
No 138
>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=57.80 E-value=5.3 Score=21.46 Aligned_cols=17 Identities=24% Similarity=0.553 Sum_probs=9.1
Q ss_pred ccCCCCCCcCCCCcccc
Q psy16828 322 FECDVCHQIFPTDFRTK 338 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~ 338 (372)
-.|..|++.|..+.|..
T Consensus 4 ~~C~eC~~~f~dSyL~~ 20 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLN 20 (34)
T ss_dssp EE-TTT--EES-SSCCC
T ss_pred chHhHhCCHHHHHHHHH
Confidence 46888888888876653
No 139
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=57.61 E-value=7.9 Score=30.42 Aligned_cols=15 Identities=13% Similarity=0.208 Sum_probs=7.3
Q ss_pred Ccccccccccccccc
Q psy16828 236 PYECYICNKILVSRG 250 (372)
Q Consensus 236 ~~~C~~C~~~f~~~~ 250 (372)
-|.|+.|+..|....
T Consensus 117 ~Y~Cp~C~~rytf~e 131 (178)
T PRK06266 117 FFFCPNCHIRFTFDE 131 (178)
T ss_pred EEECCCCCcEEeHHH
Confidence 355555555544433
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=57.25 E-value=7.4 Score=37.92 Aligned_cols=28 Identities=25% Similarity=0.581 Sum_probs=16.4
Q ss_pred hcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCc
Q psy16828 287 HSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQI 330 (372)
Q Consensus 287 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 330 (372)
|...+...|.+||+.-. .| ..|+.|+..
T Consensus 457 H~~~~~L~CH~Cg~~~~---------------~p-~~Cp~Cgs~ 484 (730)
T COG1198 457 HKATGQLRCHYCGYQEP---------------IP-QSCPECGSE 484 (730)
T ss_pred ecCCCeeEeCCCCCCCC---------------CC-CCCCCCCCC
Confidence 33445567777775422 23 778888643
No 141
>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=57.10 E-value=7 Score=31.61 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=20.8
Q ss_pred CCCceeCcccCCcccChhhHHHHHhh
Q psy16828 345 VEKSHLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 345 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
++..|.|+.|++.|....-.++|+..
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhh
Confidence 45569999999999999999999985
No 142
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=56.33 E-value=2.5 Score=27.29 Aligned_cols=7 Identities=29% Similarity=0.648 Sum_probs=3.0
Q ss_pred ccccccc
Q psy16828 297 ICGKDFK 303 (372)
Q Consensus 297 ~C~~~f~ 303 (372)
.||.+|.
T Consensus 34 eCg~tF~ 40 (72)
T PRK09678 34 NCSATFI 40 (72)
T ss_pred CCCCEEE
Confidence 4444443
No 143
>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=56.26 E-value=4.3 Score=21.10 Aligned_cols=6 Identities=33% Similarity=1.137 Sum_probs=2.4
Q ss_pred ccCCCC
Q psy16828 322 FECDVC 327 (372)
Q Consensus 322 ~~C~~C 327 (372)
|.|+.|
T Consensus 20 ~vCp~C 25 (30)
T PF08274_consen 20 LVCPEC 25 (30)
T ss_dssp EEETTT
T ss_pred EeCCcc
Confidence 334433
No 144
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.09 E-value=5.8 Score=24.25 Aligned_cols=37 Identities=22% Similarity=0.408 Sum_probs=19.8
Q ss_pred ccCcccc-cccchhhHHHHHhhhcCCCCCccCCCCCCcC
Q psy16828 294 VCNICGK-DFKLKYYVNLHMRTHTRIRPTFECDVCHQIF 331 (372)
Q Consensus 294 ~C~~C~~-~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 331 (372)
+|.+|++ .|-+...+..-+......+. |.|+.|.-..
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrt-ymC~eC~~Rv 41 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRT-YMCPECEHRV 41 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCcee-EechhhHhhh
Confidence 5666665 33344444444444445554 7777775444
No 145
>KOG1280|consensus
Probab=54.84 E-value=12 Score=32.14 Aligned_cols=35 Identities=20% Similarity=0.349 Sum_probs=29.2
Q ss_pred CCCCCCccccCcccccccchhHHhhhhhccCcCCC
Q psy16828 15 KPSKYIKVECPVCGKVLSRKSKLVSHMRSFHTSVT 49 (372)
Q Consensus 15 ~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 49 (372)
.+.....|.|+.|++.-.+...|..|+...|.+..
T Consensus 73 ~~y~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~ 107 (381)
T KOG1280|consen 73 SHYDPQSFTCPYCGIMGFTERQFGTHVLSQHPEAS 107 (381)
T ss_pred cccccccccCCcccccccchhHHHHHhhhcCcccC
Confidence 34455689999999999999999999999897643
No 146
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=53.71 E-value=14 Score=21.91 Aligned_cols=10 Identities=30% Similarity=0.547 Sum_probs=5.1
Q ss_pred ccCCCCCCcC
Q psy16828 322 FECDVCHQIF 331 (372)
Q Consensus 322 ~~C~~C~~~f 331 (372)
+.|+.|+..+
T Consensus 21 ~vC~~Cg~~~ 30 (52)
T smart00661 21 FVCRKCGYEE 30 (52)
T ss_pred EECCcCCCeE
Confidence 4555555444
No 147
>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=52.82 E-value=5.1 Score=20.39 Aligned_cols=20 Identities=25% Similarity=0.424 Sum_probs=13.9
Q ss_pred cccCcccccccchhHHhhhhh
Q psy16828 22 VECPVCGKVLSRKSKLVSHMR 42 (372)
Q Consensus 22 ~~C~~C~~~f~~~~~l~~H~~ 42 (372)
|.|-.|++.| ....++.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 5799999999 6666777765
No 148
>KOG0717|consensus
Probab=52.25 E-value=5.6 Score=35.69 Aligned_cols=20 Identities=25% Similarity=0.590 Sum_probs=17.3
Q ss_pred eecccccccccChhHHHHHH
Q psy16828 83 VECSYCGKVLSRKDKLTRHI 102 (372)
Q Consensus 83 ~~C~~C~~~~~~~~~l~~H~ 102 (372)
+.|.+|+++|.+...|.-|-
T Consensus 293 lyC~vCnKsFKseKq~kNHE 312 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHE 312 (508)
T ss_pred eEEeeccccccchHHHHhhH
Confidence 78999999999998888875
No 149
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.23 E-value=11 Score=35.45 Aligned_cols=13 Identities=23% Similarity=0.598 Sum_probs=6.3
Q ss_pred CCCcccCcccccc
Q psy16828 290 AKPFVCNICGKDF 302 (372)
Q Consensus 290 ~~~~~C~~C~~~f 302 (372)
.+...|.+||+..
T Consensus 238 ~~~l~Ch~Cg~~~ 250 (505)
T TIGR00595 238 EGKLRCHYCGYQE 250 (505)
T ss_pred CCeEEcCCCcCcC
Confidence 3444555555443
No 150
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=50.96 E-value=16 Score=31.55 Aligned_cols=15 Identities=13% Similarity=0.769 Sum_probs=8.7
Q ss_pred cCCCCcccCcccccc
Q psy16828 288 SDAKPFVCNICGKDF 302 (372)
Q Consensus 288 ~~~~~~~C~~C~~~f 302 (372)
.|.+-..|..|+-..
T Consensus 206 ~G~RyL~CslC~teW 220 (305)
T TIGR01562 206 TGLRYLSCSLCATEW 220 (305)
T ss_pred CCceEEEcCCCCCcc
Confidence 344555677777543
No 151
>KOG2272|consensus
Probab=50.94 E-value=10 Score=30.89 Aligned_cols=19 Identities=21% Similarity=0.422 Sum_probs=10.2
Q ss_pred CccccCcccccccchhHHh
Q psy16828 20 IKVECPVCGKVLSRKSKLV 38 (372)
Q Consensus 20 ~~~~C~~C~~~f~~~~~l~ 38 (372)
.=|.|++|++...+...++
T Consensus 98 ~CF~Cd~Cn~~Lad~gf~r 116 (332)
T KOG2272|consen 98 ACFRCDLCNKHLADQGFYR 116 (332)
T ss_pred ccchhHHHHHHHhhhhhHh
Confidence 3455666665555555444
No 152
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.35 E-value=15 Score=36.73 Aligned_cols=9 Identities=33% Similarity=0.682 Sum_probs=5.6
Q ss_pred ccccccccc
Q psy16828 237 YECYICNKI 245 (372)
Q Consensus 237 ~~C~~C~~~ 245 (372)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 456666655
No 153
>KOG1701|consensus
Probab=50.14 E-value=6.2 Score=34.96 Aligned_cols=40 Identities=13% Similarity=0.294 Sum_probs=23.7
Q ss_pred ecCCCCCcccChHHHHHHHHHhcCCCCcccccchhhhcCh
Q psy16828 181 LCTQCGFGCYTNRELEEHQILTHGAEPYHCKYCDKTFTKR 220 (372)
Q Consensus 181 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~ 220 (372)
.|..|++...-...--.-|..--...-|+|..|++...-.
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq 315 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQ 315 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccc
Confidence 6888887765554444444333334557788887765443
No 154
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=48.69 E-value=12 Score=25.10 Aligned_cols=14 Identities=36% Similarity=0.937 Sum_probs=10.3
Q ss_pred CCcccCcccccccc
Q psy16828 291 KPFVCNICGKDFKL 304 (372)
Q Consensus 291 ~~~~C~~C~~~f~~ 304 (372)
.|-.|..||+.|.+
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 45678888888864
No 155
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=48.68 E-value=14 Score=21.96 Aligned_cols=12 Identities=25% Similarity=0.365 Sum_probs=7.4
Q ss_pred CceeCcccCCcc
Q psy16828 347 KSHLCFVCGAGF 358 (372)
Q Consensus 347 ~~~~C~~C~~~f 358 (372)
..+.|+.||+.+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 456677777654
No 156
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=48.17 E-value=30 Score=28.38 Aligned_cols=13 Identities=23% Similarity=0.506 Sum_probs=6.8
Q ss_pred ceeCcccCCcccC
Q psy16828 348 SHLCFVCGAGFVN 360 (372)
Q Consensus 348 ~~~C~~C~~~f~~ 360 (372)
.|.|+.|+..|..
T Consensus 155 ef~C~~C~h~F~G 167 (278)
T PF15135_consen 155 EFHCPKCRHNFRG 167 (278)
T ss_pred eeecccccccchh
Confidence 3555555555543
No 157
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=48.17 E-value=23 Score=36.59 Aligned_cols=53 Identities=23% Similarity=0.489 Sum_probs=32.2
Q ss_pred ccccccccccCChHHHHHHHhhhcCCCCcccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCCcccccccccc
Q psy16828 265 FECKLCHKTIVSEKTFKKHMALHSDAKPFVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTDFRTKHMLVHD 344 (372)
Q Consensus 265 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~l~~h~~~h~ 344 (372)
++|+.|+.... ...|+.||... .+.|.|+.|+....... +
T Consensus 668 rkCPkCG~~t~----------------~~fCP~CGs~t----------------e~vy~CPsCGaev~~de--------s 707 (1337)
T PRK14714 668 RRCPSCGTETY----------------ENRCPDCGTHT----------------EPVYVCPDCGAEVPPDE--------S 707 (1337)
T ss_pred EECCCCCCccc----------------cccCcccCCcC----------------CCceeCccCCCccCCCc--------c
Confidence 67888885321 12688888654 22388999987654321 1
Q ss_pred CCCceeCcccCCccc
Q psy16828 345 VEKSHLCFVCGAGFV 359 (372)
Q Consensus 345 ~~~~~~C~~C~~~f~ 359 (372)
+ ...|+.||....
T Consensus 708 ~--a~~CP~CGtplv 720 (1337)
T PRK14714 708 G--RVECPRCDVELT 720 (1337)
T ss_pred c--cccCCCCCCccc
Confidence 1 345999986544
No 158
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=48.13 E-value=14 Score=31.93 Aligned_cols=15 Identities=20% Similarity=0.753 Sum_probs=8.2
Q ss_pred cCCCCcccCcccccc
Q psy16828 288 SDAKPFVCNICGKDF 302 (372)
Q Consensus 288 ~~~~~~~C~~C~~~f 302 (372)
.|.+-..|..|+-..
T Consensus 208 ~G~RyL~CslC~teW 222 (309)
T PRK03564 208 QGLRYLHCNLCESEW 222 (309)
T ss_pred CCceEEEcCCCCCcc
Confidence 344445666666443
No 159
>KOG3408|consensus
Probab=47.57 E-value=11 Score=27.00 Aligned_cols=25 Identities=24% Similarity=0.445 Sum_probs=20.5
Q ss_pred CCCcccCcccccccchhhHHHHHhh
Q psy16828 290 AKPFVCNICGKDFKLKYYVNLHMRT 314 (372)
Q Consensus 290 ~~~~~C~~C~~~f~~~~~l~~H~~~ 314 (372)
...|.|..|.+-|.+...|..|.++
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 3447899999999999999999766
No 160
>KOG3408|consensus
Probab=47.21 E-value=9.8 Score=27.18 Aligned_cols=26 Identities=15% Similarity=0.318 Sum_probs=24.0
Q ss_pred CCCccccCcccccccchhHHhhhhhc
Q psy16828 18 KYIKVECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 18 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
|...|.|-.|.+.|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 67789999999999999999999985
No 161
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=45.08 E-value=14 Score=22.32 Aligned_cols=9 Identities=56% Similarity=1.508 Sum_probs=4.3
Q ss_pred ccCcccccc
Q psy16828 294 VCNICGKDF 302 (372)
Q Consensus 294 ~C~~C~~~f 302 (372)
.|..|+..|
T Consensus 7 ~C~~Cg~~~ 15 (54)
T PF14446_consen 7 KCPVCGKKF 15 (54)
T ss_pred cChhhCCcc
Confidence 344455444
No 163
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=44.67 E-value=8.9 Score=23.30 Aligned_cols=7 Identities=43% Similarity=1.402 Sum_probs=3.7
Q ss_pred ccCCCCC
Q psy16828 322 FECDVCH 328 (372)
Q Consensus 322 ~~C~~C~ 328 (372)
|.|+.|.
T Consensus 32 YmC~eC~ 38 (56)
T PF09963_consen 32 YMCDECK 38 (56)
T ss_pred eeChhHH
Confidence 5555554
No 164
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=43.98 E-value=12 Score=27.32 Aligned_cols=12 Identities=50% Similarity=1.032 Sum_probs=5.6
Q ss_pred CCcccccccccc
Q psy16828 235 KPYECYICNKIL 246 (372)
Q Consensus 235 ~~~~C~~C~~~f 246 (372)
+-|.|.+|..+.
T Consensus 79 ~lYeCnIC~etS 90 (140)
T PF05290_consen 79 KLYECNICKETS 90 (140)
T ss_pred CceeccCccccc
Confidence 445555554443
No 165
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=43.40 E-value=24 Score=36.49 Aligned_cols=12 Identities=33% Similarity=0.927 Sum_probs=8.0
Q ss_pred CcccCccccccc
Q psy16828 292 PFVCNICGKDFK 303 (372)
Q Consensus 292 ~~~C~~C~~~f~ 303 (372)
+|.|+.||....
T Consensus 692 vy~CPsCGaev~ 703 (1337)
T PRK14714 692 VYVCPDCGAEVP 703 (1337)
T ss_pred ceeCccCCCccC
Confidence 467777777543
No 166
>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=43.23 E-value=11 Score=20.50 Aligned_cols=8 Identities=25% Similarity=1.148 Sum_probs=4.0
Q ss_pred cccchhhh
Q psy16828 210 CKYCDKTF 217 (372)
Q Consensus 210 C~~C~~~f 217 (372)
|+.||..|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 45555544
No 167
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=43.16 E-value=21 Score=21.64 Aligned_cols=14 Identities=21% Similarity=0.259 Sum_probs=9.0
Q ss_pred CceeCcccCCcccC
Q psy16828 347 KSHLCFVCGAGFVN 360 (372)
Q Consensus 347 ~~~~C~~C~~~f~~ 360 (372)
..|.|+.||..+.-
T Consensus 13 v~~~Cp~cGipthc 26 (55)
T PF13824_consen 13 VNFECPDCGIPTHC 26 (55)
T ss_pred cCCcCCCCCCcCcc
Confidence 45777777776543
No 168
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=42.86 E-value=11 Score=22.25 Aligned_cols=10 Identities=30% Similarity=0.906 Sum_probs=4.4
Q ss_pred eecCCCCCcc
Q psy16828 180 VLCTQCGFGC 189 (372)
Q Consensus 180 ~~C~~C~~~f 189 (372)
+.|..|+..|
T Consensus 5 l~C~dCg~~F 14 (49)
T PF13451_consen 5 LTCKDCGAEF 14 (49)
T ss_pred EEcccCCCeE
Confidence 4444444443
No 169
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=42.85 E-value=22 Score=20.07 Aligned_cols=11 Identities=36% Similarity=0.927 Sum_probs=6.3
Q ss_pred eeccccccccc
Q psy16828 83 VECSYCGKVLS 93 (372)
Q Consensus 83 ~~C~~C~~~~~ 93 (372)
..|+.|+..|.
T Consensus 14 ~~C~~CgM~Y~ 24 (41)
T PF13878_consen 14 TTCPTCGMLYS 24 (41)
T ss_pred cCCCCCCCEEC
Confidence 45666666554
No 170
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=42.63 E-value=26 Score=19.16 Aligned_cols=30 Identities=17% Similarity=0.281 Sum_probs=19.4
Q ss_pred ccCCCCCCcCCCCccccccccccCCCceeCccc
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVC 354 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C 354 (372)
..||.|... ..+.+|-+...|...|.|..|
T Consensus 6 v~CP~C~s~---~~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQST---EGVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCC---CcceeCCCCCCCCEeEecCcC
Confidence 567777532 124566666677777888877
No 171
>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=42.30 E-value=26 Score=18.74 Aligned_cols=24 Identities=17% Similarity=0.346 Sum_probs=16.0
Q ss_pred cccCcccccccchhhHHHHHhhhcC
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHTR 317 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~~ 317 (372)
+.|+.|++.+ ..+.+..|+....+
T Consensus 5 ~~C~nC~R~v-~a~RfA~HLekCmg 28 (33)
T PF08209_consen 5 VECPNCGRPV-AASRFAPHLEKCMG 28 (33)
T ss_dssp EE-TTTSSEE-EGGGHHHHHHHHTC
T ss_pred EECCCCcCCc-chhhhHHHHHHHHc
Confidence 5788888876 46677788766543
No 172
>KOG2807|consensus
Probab=42.11 E-value=29 Score=29.79 Aligned_cols=23 Identities=26% Similarity=0.466 Sum_probs=11.7
Q ss_pred CcccCcccccccchhhHHHHHhh
Q psy16828 292 PFVCNICGKDFKLKYYVNLHMRT 314 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~~l~~H~~~ 314 (372)
.|.|+.|.-.|-.--....|...
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesL 367 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESL 367 (378)
T ss_pred cEEchhccceeeccchHHHHhhh
Confidence 35556565555544444445333
No 173
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=41.60 E-value=19 Score=19.93 Aligned_cols=23 Identities=30% Similarity=0.395 Sum_probs=10.0
Q ss_pred CccccCcccccc-cch-hHHhhhhh
Q psy16828 20 IKVECPVCGKVL-SRK-SKLVSHMR 42 (372)
Q Consensus 20 ~~~~C~~C~~~f-~~~-~~l~~H~~ 42 (372)
+.|.|+.|+..| ... ..-+.|..
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT-
T ss_pred cCeecccccceecCCChHHHHHhhc
Confidence 468999999999 333 44467765
No 174
>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=41.57 E-value=25 Score=26.04 Aligned_cols=26 Identities=27% Similarity=0.460 Sum_probs=14.5
Q ss_pred CCCeecccccccccChhHHHHHHHhhccC
Q psy16828 80 RAPVECSYCGKVLSRKDKLTRHIAAVHSG 108 (372)
Q Consensus 80 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~~ 108 (372)
.....|-+||+.|.+. .+|+..+|+.
T Consensus 70 ~d~i~clecGk~~k~L---krHL~~~~gl 95 (132)
T PF05443_consen 70 PDYIICLECGKKFKTL---KRHLRTHHGL 95 (132)
T ss_dssp SS-EE-TBT--EESBH---HHHHHHTT-S
T ss_pred cCeeEEccCCcccchH---HHHHHHccCC
Confidence 3457788888888554 7888777654
No 175
>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=41.51 E-value=25 Score=18.86 Aligned_cols=11 Identities=27% Similarity=0.594 Sum_probs=7.5
Q ss_pred eeCcccCCccc
Q psy16828 349 HLCFVCGAGFV 359 (372)
Q Consensus 349 ~~C~~C~~~f~ 359 (372)
|.|..|+..+.
T Consensus 28 f~C~~C~~~L~ 38 (39)
T smart00132 28 FKCSKCGKPLG 38 (39)
T ss_pred CCCcccCCcCc
Confidence 67777776653
No 176
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=40.97 E-value=20 Score=20.32 Aligned_cols=12 Identities=25% Similarity=0.559 Sum_probs=6.3
Q ss_pred CceeCcccCCcc
Q psy16828 347 KSHLCFVCGAGF 358 (372)
Q Consensus 347 ~~~~C~~C~~~f 358 (372)
.-+.|+.||...
T Consensus 18 g~~vC~~CG~Vl 29 (43)
T PF08271_consen 18 GELVCPNCGLVL 29 (43)
T ss_dssp TEEEETTT-BBE
T ss_pred CeEECCCCCCEe
Confidence 445677776543
No 177
>PRK14873 primosome assembly protein PriA; Provisional
Probab=40.97 E-value=18 Score=35.22 Aligned_cols=12 Identities=25% Similarity=0.673 Sum_probs=7.1
Q ss_pred CCCCcccCcccc
Q psy16828 289 DAKPFVCNICGK 300 (372)
Q Consensus 289 ~~~~~~C~~C~~ 300 (372)
+.+...|.+||+
T Consensus 407 ~~~~l~Ch~CG~ 418 (665)
T PRK14873 407 AGGTPRCRWCGR 418 (665)
T ss_pred CCCeeECCCCcC
Confidence 344566777764
No 178
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=40.51 E-value=19 Score=24.83 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=9.6
Q ss_pred CcccCcccccccchhhH
Q psy16828 292 PFVCNICGKDFKLKYYV 308 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~~l 308 (372)
|++|..||..|.+.+..
T Consensus 2 pH~CtrCG~vf~~g~~~ 18 (112)
T COG3364 2 PHQCTRCGEVFDDGSEE 18 (112)
T ss_pred CceecccccccccccHH
Confidence 45666666666654333
No 179
>KOG1280|consensus
Probab=40.23 E-value=27 Score=30.21 Aligned_cols=36 Identities=22% Similarity=0.586 Sum_probs=21.3
Q ss_pred CeecccccccccChhHHHHHHHhhccCc--eeeccccc
Q psy16828 82 PVECSYCGKVLSRKDKLTRHIAAVHSGK--EYPCEQCD 117 (372)
Q Consensus 82 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~--~~~C~~C~ 117 (372)
.|.|++|++.--+...|..|+...|.+. ...|++|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 4666666666666666666666666554 34455554
No 180
>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=40.11 E-value=18 Score=23.02 Aligned_cols=29 Identities=34% Similarity=0.741 Sum_probs=12.6
Q ss_pred cccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD 334 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 334 (372)
-.|..|++.|... +..+.|-.||.+|=+.
T Consensus 10 ~~C~~C~~~F~~~-------------~rrhhCr~CG~~vC~~ 38 (69)
T PF01363_consen 10 SNCMICGKKFSLF-------------RRRHHCRNCGRVVCSS 38 (69)
T ss_dssp SB-TTT--B-BSS-------------S-EEE-TTT--EEECC
T ss_pred CcCcCcCCcCCCc-------------eeeEccCCCCCEECCc
Confidence 3688888888531 2227788888777443
No 181
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=39.62 E-value=24 Score=22.46 Aligned_cols=13 Identities=23% Similarity=0.501 Sum_probs=8.6
Q ss_pred CceeCcccCCccc
Q psy16828 347 KSHLCFVCGAGFV 359 (372)
Q Consensus 347 ~~~~C~~C~~~f~ 359 (372)
+.|.|+.||..+.
T Consensus 45 r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 45 RVFTCPNCGFEMD 57 (69)
T ss_pred ceEEcCCCCCEEC
Confidence 4577777777643
No 182
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.38 E-value=22 Score=22.16 Aligned_cols=31 Identities=16% Similarity=0.194 Sum_probs=17.0
Q ss_pred CCCccCCCCCCcCCCCccccccccccCCCceeCcccCC
Q psy16828 319 RPTFECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGA 356 (372)
Q Consensus 319 ~~~~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~ 356 (372)
+.+.+|+.|++...-..... -+||.+..|..
T Consensus 5 ~~~v~CP~Cgkpv~w~~~s~-------frPFCSkRCkl 35 (65)
T COG3024 5 RITVPCPTCGKPVVWGEESP-------FRPFCSKRCKL 35 (65)
T ss_pred cccccCCCCCCcccccccCC-------cCcchhHhhhh
Confidence 34577888887664432221 25666655543
No 183
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=39.30 E-value=17 Score=20.26 Aligned_cols=15 Identities=27% Similarity=0.605 Sum_probs=12.0
Q ss_pred ceeCcccCCcccChh
Q psy16828 348 SHLCFVCGAGFVNDA 362 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~ 362 (372)
||.|..|+..|-...
T Consensus 12 ~f~C~~C~~~FC~~H 26 (39)
T smart00154 12 GFKCRHCGNLFCGEH 26 (39)
T ss_pred CeECCccCCcccccc
Confidence 788999999886544
No 184
>KOG2593|consensus
Probab=38.39 E-value=16 Score=32.72 Aligned_cols=37 Identities=16% Similarity=0.378 Sum_probs=23.0
Q ss_pred ccCcccCCCCccccCChhhHHHHHhhhcCCCceeecCCCCC
Q psy16828 147 EIKKFKCDQCDYATKDKYNLGTHIKRRHTKEYSVLCTQCGF 187 (372)
Q Consensus 147 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~ 187 (372)
....|.|+.|...|++..+++. .-.....|.|..|+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L----~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL----LDNETGEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHh----hcccCceEEEecCCC
Confidence 3455778888887776655533 223345677888774
No 185
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=38.18 E-value=23 Score=25.95 Aligned_cols=15 Identities=33% Similarity=0.778 Sum_probs=8.9
Q ss_pred CcccCcccccccchh
Q psy16828 292 PFVCNICGKDFKLKY 306 (372)
Q Consensus 292 ~~~C~~C~~~f~~~~ 306 (372)
|++|..||+.|.+.+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 456666666666544
No 186
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=38.09 E-value=21 Score=20.23 Aligned_cols=13 Identities=38% Similarity=0.833 Sum_probs=9.3
Q ss_pred eCcccCCcccChh
Q psy16828 350 LCFVCGAGFVNDA 362 (372)
Q Consensus 350 ~C~~C~~~f~~~~ 362 (372)
.|++||+.|+-+.
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 4888888887654
No 187
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=37.93 E-value=7.9 Score=26.59 Aligned_cols=18 Identities=22% Similarity=0.438 Sum_probs=13.0
Q ss_pred CCCccccCcccccccchh
Q psy16828 18 KYIKVECPVCGKVLSRKS 35 (372)
Q Consensus 18 ~~~~~~C~~C~~~f~~~~ 35 (372)
=.+.|.|+.||..-....
T Consensus 19 L~k~FtCp~Cghe~vs~c 36 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSC 36 (104)
T ss_pred CCceEecCccCCeeeeEE
Confidence 356799999997765544
No 188
>KOG2071|consensus
Probab=37.87 E-value=25 Score=32.92 Aligned_cols=24 Identities=29% Similarity=0.513 Sum_probs=14.6
Q ss_pred cccccccccccCChHHHHHHHhhh
Q psy16828 264 RFECKLCHKTIVSEKTFKKHMALH 287 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~~H~~~h 287 (372)
+-.|..||.+|.+......||..|
T Consensus 418 pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 418 PNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cchhcccccccccchhhhhHhhhh
Confidence 456666666666666555555444
No 189
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=37.74 E-value=5.4 Score=38.03 Aligned_cols=81 Identities=19% Similarity=0.364 Sum_probs=39.5
Q ss_pred cccccchhhhcChhhhHhhhhhhccCCCC-cccccccccccccchHHhHHhhhhccCcccccccccccCChHHHHHHHhh
Q psy16828 208 YHCKYCDKTFTKRMNVKTHERMKHENHKP-YECYICNKILVSRGRLNEHLNQVHLAQRFECKLCHKTIVSEKTFKKHMAL 286 (372)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 286 (372)
-.|+.|-+.+.++.+-.-+ -| ..|..||-.|.-...|-.......-..--.|+.|.+.+.+..+.+-|.
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~--------YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHA-- 171 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYL--------YPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHA-- 171 (750)
T ss_pred hhhHHHHHHhcCCCCccee--------ccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccccccc--
Confidence 4566666665544431111 11 247777777765544433322211122234666766666655543332
Q ss_pred hcCCCCcccCcccccc
Q psy16828 287 HSDAKPFVCNICGKDF 302 (372)
Q Consensus 287 h~~~~~~~C~~C~~~f 302 (372)
.|..|+.||-..
T Consensus 172 ----Qp~aCp~CGP~~ 183 (750)
T COG0068 172 ----QPIACPKCGPHL 183 (750)
T ss_pred ----ccccCcccCCCe
Confidence 345677776533
No 190
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=37.73 E-value=22 Score=18.27 Aligned_cols=12 Identities=17% Similarity=0.210 Sum_probs=4.6
Q ss_pred CceeCcccCCcc
Q psy16828 347 KSHLCFVCGAGF 358 (372)
Q Consensus 347 ~~~~C~~C~~~f 358 (372)
-.|.|..|.+.+
T Consensus 14 ~~Y~C~~Cdf~l 25 (30)
T PF07649_consen 14 WFYRCSECDFDL 25 (30)
T ss_dssp -EEE-TTT----
T ss_pred ceEECccCCCcc
Confidence 357788887654
No 191
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=37.48 E-value=5 Score=23.41 Aligned_cols=12 Identities=17% Similarity=0.874 Sum_probs=6.6
Q ss_pred CcccCccccccc
Q psy16828 292 PFVCNICGKDFK 303 (372)
Q Consensus 292 ~~~C~~C~~~f~ 303 (372)
.|.|..|+.+|+
T Consensus 7 ry~CDLCn~~~p 18 (57)
T PF14445_consen 7 RYSCDLCNSSHP 18 (57)
T ss_pred hHhHHhhcccCc
Confidence 355666665553
No 192
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=37.38 E-value=27 Score=19.54 Aligned_cols=11 Identities=27% Similarity=0.760 Sum_probs=8.3
Q ss_pred eeCcccCCccc
Q psy16828 349 HLCFVCGAGFV 359 (372)
Q Consensus 349 ~~C~~C~~~f~ 359 (372)
|.|..||..+.
T Consensus 29 y~C~~C~~~w~ 39 (40)
T smart00440 29 YVCTKCGHRWR 39 (40)
T ss_pred EEeCCCCCEeC
Confidence 77888887664
No 193
>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=37.36 E-value=13 Score=25.28 Aligned_cols=7 Identities=43% Similarity=1.668 Sum_probs=2.8
Q ss_pred cccccch
Q psy16828 208 YHCKYCD 214 (372)
Q Consensus 208 ~~C~~C~ 214 (372)
|.|+.|+
T Consensus 36 y~Cp~Cg 42 (90)
T PF01780_consen 36 YTCPFCG 42 (90)
T ss_dssp BEESSSS
T ss_pred CcCCCCC
Confidence 3344443
No 194
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=37.06 E-value=30 Score=21.24 Aligned_cols=21 Identities=24% Similarity=0.403 Sum_probs=9.2
Q ss_pred CCcccCcccccccchhhHHHHH
Q psy16828 291 KPFVCNICGKDFKLKYYVNLHM 312 (372)
Q Consensus 291 ~~~~C~~C~~~f~~~~~l~~H~ 312 (372)
.|+....|+-.| .+.++.+.+
T Consensus 23 ~PV~s~~C~H~f-ek~aI~~~i 43 (57)
T PF11789_consen 23 DPVKSKKCGHTF-EKEAILQYI 43 (57)
T ss_dssp SEEEESSS--EE-EHHHHHHHC
T ss_pred CCcCcCCCCCee-cHHHHHHHH
Confidence 344555555555 344444444
No 195
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=36.99 E-value=8.7 Score=22.91 Aligned_cols=10 Identities=30% Similarity=1.072 Sum_probs=3.2
Q ss_pred ccCCCCCCcC
Q psy16828 322 FECDVCHQIF 331 (372)
Q Consensus 322 ~~C~~C~~~f 331 (372)
|+|+.|...|
T Consensus 22 y~C~~C~~~F 31 (51)
T PF07975_consen 22 YRCPKCKNHF 31 (51)
T ss_dssp E--TTTT--B
T ss_pred EECCCCCCcc
Confidence 5555555544
No 196
>KOG0801|consensus
Probab=36.83 E-value=11 Score=28.43 Aligned_cols=32 Identities=28% Similarity=0.681 Sum_probs=20.3
Q ss_pred hhhHHHHHhhhcCCCCCccCCCCCCcCCCCcccccc
Q psy16828 305 KYYVNLHMRTHTRIRPTFECDVCHQIFPTDFRTKHM 340 (372)
Q Consensus 305 ~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~l~~h~ 340 (372)
..+|-.|+..|.+ ++|++|.|..+...+.-|.
T Consensus 126 a~slP~hi~~~~g----~KCPvC~K~V~sDd~e~Hl 157 (205)
T KOG0801|consen 126 ADSLPVHIMDHSG----MKCPVCHKVVPSDDAEIHL 157 (205)
T ss_pred hhccceeeeccCC----ccCCccccccCCCcceEEE
Confidence 3455566666665 7788888887666444443
No 197
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.74 E-value=27 Score=26.40 Aligned_cols=41 Identities=20% Similarity=0.402 Sum_probs=26.7
Q ss_pred ccCCCCCCcCCCCcccc--ccccccCCCceeCcccCCcccChh
Q psy16828 322 FECDVCHQIFPTDFRTK--HMLVHDVEKSHLCFVCGAGFVNDA 362 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~--h~~~h~~~~~~~C~~C~~~f~~~~ 362 (372)
-.|+.|+.......-.. .....+-+.|..|..||+.|-.-.
T Consensus 40 ~~Cp~C~~~IrG~y~v~gv~~~g~~~~~PsYC~~CGkpyPWt~ 82 (158)
T PF10083_consen 40 TSCPNCSTPIRGDYHVEGVFGLGGHYEAPSYCHNCGKPYPWTE 82 (158)
T ss_pred HHCcCCCCCCCCceecCCeeeeCCCCCCChhHHhCCCCCchHH
Confidence 56888887766552221 112244568999999999987644
No 198
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.57 E-value=38 Score=24.34 Aligned_cols=41 Identities=24% Similarity=0.510 Sum_probs=27.1
Q ss_pred ccCCCCCCcCCCCcccc--ccccccCCCceeCcccCCcccChh
Q psy16828 322 FECDVCHQIFPTDFRTK--HMLVHDVEKSHLCFVCGAGFVNDA 362 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~--h~~~h~~~~~~~C~~C~~~f~~~~ 362 (372)
..||.|+.........+ -..-+.-+.|-.|..||..|..-.
T Consensus 40 ~qcp~csasirgd~~vegvlglg~dye~psfchncgs~fpwte 82 (160)
T COG4306 40 TQCPICSASIRGDYYVEGVLGLGGDYEPPSFCHNCGSRFPWTE 82 (160)
T ss_pred hcCCccCCcccccceeeeeeccCCCCCCcchhhcCCCCCCcHH
Confidence 67888887776663333 123345567888999998886543
No 199
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=35.25 E-value=13 Score=30.75 Aligned_cols=25 Identities=20% Similarity=0.482 Sum_probs=0.0
Q ss_pred ccCCCCCCcCCCCccccccccccCC
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVE 346 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~ 346 (372)
..||.||+.++...+.+|+|+....
T Consensus 169 ~~cPitGe~IP~~e~~eHmRi~LlD 193 (229)
T PF12230_consen 169 IICPITGEMIPADEMDEHMRIELLD 193 (229)
T ss_dssp -------------------------
T ss_pred ccccccccccccccccccccccccc
Confidence 6677777777777777777765543
No 200
>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=34.98 E-value=34 Score=25.93 Aligned_cols=38 Identities=24% Similarity=0.413 Sum_probs=16.8
Q ss_pred CcccCcccccc------cchhhHHHHHhh-hcC------CC----CCccCCCCCC
Q psy16828 292 PFVCNICGKDF------KLKYYVNLHMRT-HTR------IR----PTFECDVCHQ 329 (372)
Q Consensus 292 ~~~C~~C~~~f------~~~~~l~~H~~~-h~~------~~----~~~~C~~C~~ 329 (372)
-.+|..|++.| ++.+.+..|+.. .|. +. .+..|..||.
T Consensus 14 vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 14 VVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp EEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred EeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 34566666655 356777888543 221 11 2478888874
No 201
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=34.31 E-value=26 Score=25.64 Aligned_cols=21 Identities=33% Similarity=0.624 Sum_probs=17.5
Q ss_pred eeCcccCCcccChhhHHHHHhhcC
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRKHQ 372 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~h~ 372 (372)
..|-.+|+.| ..|.+|+.+|+
T Consensus 77 IicLEDGkkf---KSLKRHL~t~~ 97 (148)
T COG4957 77 IICLEDGKKF---KSLKRHLTTHY 97 (148)
T ss_pred EEEeccCcch---HHHHHHHhccc
Confidence 4699999999 57889999874
No 202
>KOG4167|consensus
Probab=34.22 E-value=8.8 Score=36.61 Aligned_cols=24 Identities=29% Similarity=0.535 Sum_probs=22.5
Q ss_pred ceeCcccCCcccChhhHHHHHhhc
Q psy16828 348 SHLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
-|.|..|++.|..-..+-.||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 499999999999999999999987
No 203
>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=34.10 E-value=19 Score=25.92 Aligned_cols=24 Identities=21% Similarity=0.654 Sum_probs=15.2
Q ss_pred cccCcccccccchhhHHHHHhhhcCCCCCccCCCCCC
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQ 329 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 329 (372)
..|..|+..|..... .+.||.|+.
T Consensus 71 ~~C~~Cg~~~~~~~~-------------~~~CP~Cgs 94 (115)
T TIGR00100 71 CECEDCSEEVSPEID-------------LYRCPKCHG 94 (115)
T ss_pred EEcccCCCEEecCCc-------------CccCcCCcC
Confidence 568888877754321 266777774
No 204
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=33.86 E-value=19 Score=25.82 Aligned_cols=12 Identities=17% Similarity=0.385 Sum_probs=7.6
Q ss_pred cccCcccccccc
Q psy16828 293 FVCNICGKDFKL 304 (372)
Q Consensus 293 ~~C~~C~~~f~~ 304 (372)
..|+.|+..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PRK12380 71 AWCWDCSQVVEI 82 (113)
T ss_pred EEcccCCCEEec
Confidence 567777766653
No 205
>PRK05580 primosome assembly protein PriA; Validated
Probab=33.76 E-value=28 Score=34.18 Aligned_cols=13 Identities=23% Similarity=0.644 Sum_probs=6.7
Q ss_pred CCCcccCcccccc
Q psy16828 290 AKPFVCNICGKDF 302 (372)
Q Consensus 290 ~~~~~C~~C~~~f 302 (372)
.+...|.+||+..
T Consensus 406 ~~~l~Ch~Cg~~~ 418 (679)
T PRK05580 406 QRRLRCHHCGYQE 418 (679)
T ss_pred CCeEECCCCcCCC
Confidence 3445566666543
No 206
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=33.71 E-value=19 Score=20.21 Aligned_cols=12 Identities=25% Similarity=0.791 Sum_probs=9.8
Q ss_pred CceeCcccCCcc
Q psy16828 347 KSHLCFVCGAGF 358 (372)
Q Consensus 347 ~~~~C~~C~~~f 358 (372)
++-.|++||..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 568899999876
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=33.59 E-value=23 Score=32.49 Aligned_cols=30 Identities=30% Similarity=0.394 Sum_probs=26.5
Q ss_pred CccccCcccccccchhHHhhhhhccCcCCC
Q psy16828 20 IKVECPVCGKVLSRKSKLVSHMRSFHTSVT 49 (372)
Q Consensus 20 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 49 (372)
+-+.|+.|.+.|.....+..|+...|.+..
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~l 85 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAGL 85 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhhc
Confidence 347899999999999999999998897754
No 208
>KOG1994|consensus
Probab=33.59 E-value=23 Score=28.56 Aligned_cols=21 Identities=29% Similarity=0.762 Sum_probs=18.5
Q ss_pred CceeCcccCCcccChhhHHHH
Q psy16828 347 KSHLCFVCGAGFVNDAGLKVH 367 (372)
Q Consensus 347 ~~~~C~~C~~~f~~~~~l~~H 367 (372)
-.|.|-.||..|.+...|..|
T Consensus 238 eh~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred cceEEEEeccccCCHHHHHHh
Confidence 458999999999999999887
No 209
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.45 E-value=16 Score=27.18 Aligned_cols=10 Identities=30% Similarity=0.830 Sum_probs=4.4
Q ss_pred eecCCCCCcc
Q psy16828 180 VLCTQCGFGC 189 (372)
Q Consensus 180 ~~C~~C~~~f 189 (372)
+.|+.|+..|
T Consensus 71 ~~C~~CG~~~ 80 (135)
T PRK03824 71 LKCRNCGNEW 80 (135)
T ss_pred EECCCCCCEE
Confidence 4444444443
No 210
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=33.35 E-value=16 Score=22.07 Aligned_cols=13 Identities=23% Similarity=0.662 Sum_probs=7.1
Q ss_pred eCcccCCcccChh
Q psy16828 350 LCFVCGAGFVNDA 362 (372)
Q Consensus 350 ~C~~C~~~f~~~~ 362 (372)
.||+|++.|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999999987554
No 211
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=33.21 E-value=51 Score=31.97 Aligned_cols=9 Identities=33% Similarity=1.143 Sum_probs=6.1
Q ss_pred ccCcccccc
Q psy16828 294 VCNICGKDF 302 (372)
Q Consensus 294 ~C~~C~~~f 302 (372)
.|+.||..+
T Consensus 17 FC~~CG~~l 25 (645)
T PRK14559 17 FCQKCGTSL 25 (645)
T ss_pred cccccCCCC
Confidence 577777665
No 212
>KOG4167|consensus
Probab=32.84 E-value=17 Score=34.90 Aligned_cols=27 Identities=22% Similarity=0.445 Sum_probs=19.1
Q ss_pred CCCeecccccccccChhHHHHHHHhhc
Q psy16828 80 RAPVECSYCGKVLSRKDKLTRHIAAVH 106 (372)
Q Consensus 80 ~~~~~C~~C~~~~~~~~~l~~H~~~~h 106 (372)
+..|-|.+|++.|....++..||+.|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 456777777777777777777776654
No 213
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=32.79 E-value=23 Score=24.84 Aligned_cols=13 Identities=15% Similarity=0.120 Sum_probs=6.9
Q ss_pred CCccccccccccc
Q psy16828 235 KPYECYICNKILV 247 (372)
Q Consensus 235 ~~~~C~~C~~~f~ 247 (372)
..|.||.|+..+.
T Consensus 18 ~~~iCpeC~~EW~ 30 (109)
T TIGR00686 18 TQLICPSCLYEWN 30 (109)
T ss_pred CeeECcccccccc
Confidence 3455666655544
No 214
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=32.58 E-value=23 Score=25.64 Aligned_cols=11 Identities=36% Similarity=0.860 Sum_probs=6.6
Q ss_pred cccCccccccc
Q psy16828 293 FVCNICGKDFK 303 (372)
Q Consensus 293 ~~C~~C~~~f~ 303 (372)
..|..||..|.
T Consensus 72 ~~C~~Cg~~~~ 82 (117)
T PRK00564 72 LECKDCSHVFK 82 (117)
T ss_pred EEhhhCCCccc
Confidence 55666665554
No 215
>KOG2636|consensus
Probab=31.62 E-value=30 Score=31.14 Aligned_cols=29 Identities=17% Similarity=0.444 Sum_probs=24.8
Q ss_pred ccccCCCceeCcccC-CcccChhhHHHHHh
Q psy16828 341 LVHDVEKSHLCFVCG-AGFVNDAGLKVHMR 369 (372)
Q Consensus 341 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 369 (372)
++|.-...|.|.+|| +.+..+..+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 456667789999999 89999999999975
No 216
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=31.61 E-value=21 Score=24.24 Aligned_cols=7 Identities=43% Similarity=1.677 Sum_probs=3.2
Q ss_pred cccccch
Q psy16828 208 YHCKYCD 214 (372)
Q Consensus 208 ~~C~~C~ 214 (372)
|.|++|+
T Consensus 37 y~CpfCg 43 (90)
T PTZ00255 37 YFCPFCG 43 (90)
T ss_pred ccCCCCC
Confidence 4444444
No 217
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=31.56 E-value=10 Score=28.43 Aligned_cols=12 Identities=25% Similarity=0.484 Sum_probs=6.6
Q ss_pred ccCcccccccch
Q psy16828 294 VCNICGKDFKLK 305 (372)
Q Consensus 294 ~C~~C~~~f~~~ 305 (372)
.|..|++.|++.
T Consensus 30 eC~~C~~RFTTy 41 (147)
T TIGR00244 30 ECLECHERFTTF 41 (147)
T ss_pred cCCccCCcccee
Confidence 455555555553
No 218
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=31.26 E-value=21 Score=21.70 Aligned_cols=12 Identities=25% Similarity=0.335 Sum_probs=6.7
Q ss_pred CCCceeCcccCC
Q psy16828 345 VEKSHLCFVCGA 356 (372)
Q Consensus 345 ~~~~~~C~~C~~ 356 (372)
|++.-.|+.|+.
T Consensus 41 GE~VArCPSCSL 52 (67)
T COG5216 41 GEVVARCPSCSL 52 (67)
T ss_pred CceEEEcCCceE
Confidence 555555666653
No 219
>PRK00420 hypothetical protein; Validated
Probab=31.12 E-value=43 Score=23.97 Aligned_cols=28 Identities=21% Similarity=0.383 Sum_probs=14.8
Q ss_pred ccCCCCCCcCCCCccccccccccCCCceeCcccCCccc
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGFV 359 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 359 (372)
-.||.|+..+... ......|+.||....
T Consensus 24 ~~CP~Cg~pLf~l----------k~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 24 KHCPVCGLPLFEL----------KDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCCCCCCcceec----------CCCceECCCCCCeee
Confidence 4577776544321 013456777776443
No 220
>KOG1842|consensus
Probab=31.04 E-value=24 Score=31.69 Aligned_cols=32 Identities=25% Similarity=0.311 Sum_probs=28.1
Q ss_pred CCccccCcccccccchhHHhhhhhccCcCCCC
Q psy16828 19 YIKVECPVCGKVLSRKSKLVSHMRSFHTSVTP 50 (372)
Q Consensus 19 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~ 50 (372)
-..|.||+|...|.+.+.|..|+...|.++..
T Consensus 13 ~egflCPiC~~dl~~~~~L~~H~d~eH~~ed~ 44 (505)
T KOG1842|consen 13 LEGFLCPICLLDLPNLSALNDHLDVEHFEEDE 44 (505)
T ss_pred hhcccCchHhhhhhhHHHHHHHHhhhccccch
Confidence 34699999999999999999999988987654
No 221
>COG1773 Rubredoxin [Energy production and conversion]
Probab=30.82 E-value=21 Score=21.66 Aligned_cols=12 Identities=33% Similarity=0.659 Sum_probs=7.4
Q ss_pred ceeCcccCCccc
Q psy16828 348 SHLCFVCGAGFV 359 (372)
Q Consensus 348 ~~~C~~C~~~f~ 359 (372)
.|+|..||+.|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 466666666654
No 222
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=30.78 E-value=45 Score=18.60 Aligned_cols=32 Identities=22% Similarity=0.532 Sum_probs=15.7
Q ss_pred ccCCCCCCcCCCCccccccccccCCCceeCcccCCcc
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGAGF 358 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~~f 358 (372)
.+|..|+..+ .-+.....+.+.+.|++|+..-
T Consensus 3 ~rC~~C~ayl-----Np~~~~~~~~~~w~C~~C~~~N 34 (40)
T PF04810_consen 3 VRCRRCRAYL-----NPFCQFDDGGKTWICNFCGTKN 34 (40)
T ss_dssp -B-TTT--BS------TTSEEETTTTEEEETTT--EE
T ss_pred cccCCCCCEE-----CCcceEcCCCCEEECcCCCCcC
Confidence 5677775533 2333444466789999998753
No 223
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=30.61 E-value=36 Score=20.05 Aligned_cols=10 Identities=30% Similarity=0.574 Sum_probs=5.7
Q ss_pred ceeCcccCCc
Q psy16828 348 SHLCFVCGAG 357 (372)
Q Consensus 348 ~~~C~~C~~~ 357 (372)
.+.|..||+.
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 3556666653
No 224
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=30.42 E-value=21 Score=20.32 Aligned_cols=16 Identities=25% Similarity=0.503 Sum_probs=9.9
Q ss_pred CceeCcccCCcccChh
Q psy16828 347 KSHLCFVCGAGFVNDA 362 (372)
Q Consensus 347 ~~~~C~~C~~~f~~~~ 362 (372)
-|+.|..|+..|-...
T Consensus 12 ~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH 27 (43)
T ss_dssp SHEE-TTTS-EE-TTT
T ss_pred CCeECCCCCcccCccc
Confidence 4789999999886543
No 225
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.88 E-value=11 Score=30.31 Aligned_cols=40 Identities=23% Similarity=0.549 Sum_probs=21.9
Q ss_pred cCcccccccccccCChHHHHHHHhhhcCC----------CC-----cccCccccc
Q psy16828 262 AQRFECKLCHKTIVSEKTFKKHMALHSDA----------KP-----FVCNICGKD 301 (372)
Q Consensus 262 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----------~~-----~~C~~C~~~ 301 (372)
.+.+.||+|+-.|....-+..-.++-+|+ .| ..||.|.++
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred hceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 34566777777776554443333333322 23 358888874
No 226
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=29.86 E-value=17 Score=26.04 Aligned_cols=40 Identities=20% Similarity=0.434 Sum_probs=22.2
Q ss_pred CeecccccccccChhHHHHHHHhhccCceeeccccccccc
Q psy16828 82 PVECSYCGKVLSRKDKLTRHIAAVHSGKEYPCEQCDRKFT 121 (372)
Q Consensus 82 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~C~~C~~~f~ 121 (372)
.+.|+.|+..=.....++.=........-|.|..|+..|.
T Consensus 72 ~~~CpkCg~~ea~y~~~QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 72 KEKCPKCGNKEAYYWQLQTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred cccCCCCCCceeEEEeeehhccCCCceEEEEecccCCEee
Confidence 4678888765433333322221112222589999998764
No 227
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=29.64 E-value=31 Score=31.04 Aligned_cols=16 Identities=25% Similarity=0.613 Sum_probs=9.3
Q ss_pred CCCCcccCcccccccc
Q psy16828 289 DAKPFVCNICGKDFKL 304 (372)
Q Consensus 289 ~~~~~~C~~C~~~f~~ 304 (372)
|.+-|+|+.||+.++.
T Consensus 364 G~~g~rC~kCg~~~~~ 379 (421)
T COG1571 364 GRNGFRCKKCGTRARE 379 (421)
T ss_pred CCCCcccccccccCCc
Confidence 3335666666666554
No 228
>PTZ00448 hypothetical protein; Provisional
Probab=29.63 E-value=35 Score=30.04 Aligned_cols=23 Identities=26% Similarity=0.553 Sum_probs=21.3
Q ss_pred ceeCcccCCcccChhhHHHHHhh
Q psy16828 348 SHLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 68899999999999999999986
No 229
>KOG0717|consensus
Probab=29.31 E-value=28 Score=31.57 Aligned_cols=22 Identities=27% Similarity=0.526 Sum_probs=19.9
Q ss_pred eeCcccCCcccChhhHHHHHhh
Q psy16828 349 HLCFVCGAGFVNDAGLKVHMRK 370 (372)
Q Consensus 349 ~~C~~C~~~f~~~~~l~~H~~~ 370 (372)
-.|..|+..|..+.-|..|++.
T Consensus 461 ~~C~tCr~~FdSRnkLF~Hlk~ 482 (508)
T KOG0717|consen 461 ISCTTCRESFDSRNKLFAHLKK 482 (508)
T ss_pred HhhhhhhhhccchhHHHHHhhh
Confidence 6799999999999999999874
No 230
>PRK10220 hypothetical protein; Provisional
Probab=29.23 E-value=32 Score=24.23 Aligned_cols=12 Identities=25% Similarity=0.406 Sum_probs=6.4
Q ss_pred Cccccccccccc
Q psy16828 236 PYECYICNKILV 247 (372)
Q Consensus 236 ~~~C~~C~~~f~ 247 (372)
.|.||.|+..+.
T Consensus 20 ~~vCpeC~hEW~ 31 (111)
T PRK10220 20 MYICPECAHEWN 31 (111)
T ss_pred eEECCcccCcCC
Confidence 355555555444
No 231
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=29.13 E-value=26 Score=25.16 Aligned_cols=11 Identities=18% Similarity=0.540 Sum_probs=6.2
Q ss_pred cccCccccccc
Q psy16828 293 FVCNICGKDFK 303 (372)
Q Consensus 293 ~~C~~C~~~f~ 303 (372)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (114)
T PRK03681 71 CWCETCQQYVT 81 (114)
T ss_pred EEcccCCCeee
Confidence 45666665443
No 232
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=29.03 E-value=41 Score=23.44 Aligned_cols=11 Identities=27% Similarity=0.286 Sum_probs=5.2
Q ss_pred eeCcccCCccc
Q psy16828 349 HLCFVCGAGFV 359 (372)
Q Consensus 349 ~~C~~C~~~f~ 359 (372)
..|+.||..+.
T Consensus 43 ~~C~~CG~y~~ 53 (99)
T PRK14892 43 ITCGNCGLYTE 53 (99)
T ss_pred EECCCCCCccC
Confidence 34555555443
No 233
>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=28.98 E-value=40 Score=30.93 Aligned_cols=31 Identities=23% Similarity=0.323 Sum_probs=25.7
Q ss_pred CCCCeecccccccccChhHHHHHHHhhccCc
Q psy16828 79 SRAPVECSYCGKVLSRKDKLTRHIAAVHSGK 109 (372)
Q Consensus 79 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~ 109 (372)
..+.+.|+.|.+.|.+...+..|+...|...
T Consensus 54 sWrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 54 SWRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred ceeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 3467889999999999999999998777654
No 234
>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=28.78 E-value=22 Score=19.28 Aligned_cols=13 Identities=31% Similarity=0.634 Sum_probs=6.0
Q ss_pred cccchhhhcChhh
Q psy16828 210 CKYCDKTFTKRMN 222 (372)
Q Consensus 210 C~~C~~~f~~~~~ 222 (372)
|+.|.+.+.++.+
T Consensus 2 C~~C~~Ey~~p~~ 14 (35)
T PF07503_consen 2 CDDCLKEYFDPSN 14 (35)
T ss_dssp -HHHHHHHCSTTS
T ss_pred CHHHHHHHcCCCC
Confidence 4455555544443
No 235
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=28.72 E-value=27 Score=21.06 Aligned_cols=36 Identities=19% Similarity=0.405 Sum_probs=19.5
Q ss_pred CCeecccccccccChhHHHHHHHhhccCceeecccccccc
Q psy16828 81 APVECSYCGKVLSRKDKLTRHIAAVHSGKEYPCEQCDRKF 120 (372)
Q Consensus 81 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~C~~C~~~f 120 (372)
..+.|++|+.....+.. .. ..-..-|+.|+.|....
T Consensus 3 ~Wi~CP~CgnKTR~kir--~D--T~LkNfPlyCpKCK~Et 38 (55)
T PF14205_consen 3 EWILCPICGNKTRLKIR--ED--TVLKNFPLYCPKCKQET 38 (55)
T ss_pred eEEECCCCCCccceeee--cC--ceeccccccCCCCCceE
Confidence 45778888865543311 00 11112278888887653
No 236
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=28.70 E-value=23 Score=24.09 Aligned_cols=7 Identities=43% Similarity=1.587 Sum_probs=3.1
Q ss_pred cccccch
Q psy16828 208 YHCKYCD 214 (372)
Q Consensus 208 ~~C~~C~ 214 (372)
|.|++|+
T Consensus 36 y~CpfCg 42 (91)
T TIGR00280 36 YVCPFCG 42 (91)
T ss_pred ccCCCCC
Confidence 4444443
No 237
>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=28.26 E-value=44 Score=20.11 Aligned_cols=28 Identities=39% Similarity=0.807 Sum_probs=19.6
Q ss_pred ccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC
Q psy16828 294 VCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD 334 (372)
Q Consensus 294 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 334 (372)
.|..|++.|... .+. +.|..||.+|=..
T Consensus 4 ~C~~C~~~F~~~------------~rk-~~Cr~Cg~~~C~~ 31 (57)
T cd00065 4 SCMGCGKPFTLT------------RRR-HHCRNCGRIFCSK 31 (57)
T ss_pred cCcccCccccCC------------ccc-cccCcCcCCcChH
Confidence 588899888741 122 7788888887554
No 238
>KOG2071|consensus
Probab=27.99 E-value=34 Score=32.09 Aligned_cols=26 Identities=27% Similarity=0.539 Sum_probs=22.7
Q ss_pred CCceeCcccCCcccChhhHHHHHhhc
Q psy16828 346 EKSHLCFVCGAGFVNDAGLKVHMRKH 371 (372)
Q Consensus 346 ~~~~~C~~C~~~f~~~~~l~~H~~~h 371 (372)
..|..|..||..|.+.....+||-.|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhh
Confidence 35799999999999999988888776
No 239
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=27.56 E-value=33 Score=18.43 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=6.3
Q ss_pred ceeCcccCCc
Q psy16828 348 SHLCFVCGAG 357 (372)
Q Consensus 348 ~~~C~~C~~~ 357 (372)
.+.|+.||..
T Consensus 22 R~vC~~Cg~I 31 (34)
T PF14803_consen 22 RLVCPACGFI 31 (34)
T ss_dssp EEEETTTTEE
T ss_pred ceECCCCCCE
Confidence 3667777654
No 240
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=27.55 E-value=41 Score=24.84 Aligned_cols=14 Identities=21% Similarity=0.871 Sum_probs=9.4
Q ss_pred CccCCCCCCcCCCC
Q psy16828 321 TFECDVCHQIFPTD 334 (372)
Q Consensus 321 ~~~C~~C~~~f~~~ 334 (372)
.|+|+.|++.|...
T Consensus 53 RyrC~~C~~tf~~~ 66 (129)
T COG3677 53 RYKCKSCGSTFTVE 66 (129)
T ss_pred ccccCCcCcceeee
Confidence 37777777777554
No 241
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=27.24 E-value=19 Score=30.87 Aligned_cols=11 Identities=18% Similarity=0.440 Sum_probs=6.6
Q ss_pred ccCCCCCCcCC
Q psy16828 322 FECDVCHQIFP 332 (372)
Q Consensus 322 ~~C~~C~~~f~ 332 (372)
+.|+.|+.-|.
T Consensus 58 ~vcp~c~~h~r 68 (296)
T CHL00174 58 NICEQCGYHLK 68 (296)
T ss_pred CCCCCCCCCcC
Confidence 56666666554
No 242
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=27.17 E-value=39 Score=30.45 Aligned_cols=29 Identities=28% Similarity=0.552 Sum_probs=19.4
Q ss_pred ccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC
Q psy16828 294 VCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD 334 (372)
Q Consensus 294 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 334 (372)
.|+.||.+..+. +... |+|+.|+..++..
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g-~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNG-FRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc-----------CCCC-cccccccccCCcc
Confidence 688888765432 1113 8888888887665
No 243
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=27.05 E-value=15 Score=27.59 Aligned_cols=11 Identities=36% Similarity=0.869 Sum_probs=6.0
Q ss_pred ccCcccccccc
Q psy16828 294 VCNICGKDFKL 304 (372)
Q Consensus 294 ~C~~C~~~f~~ 304 (372)
.|+.|+..|++
T Consensus 30 eC~~C~~RFTT 40 (156)
T COG1327 30 ECLECGERFTT 40 (156)
T ss_pred cccccccccch
Confidence 45555555554
No 244
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=26.91 E-value=47 Score=18.79 Aligned_cols=15 Identities=20% Similarity=0.691 Sum_probs=10.4
Q ss_pred CCceeCcccCCcccC
Q psy16828 346 EKSHLCFVCGAGFVN 360 (372)
Q Consensus 346 ~~~~~C~~C~~~f~~ 360 (372)
...+.|+.||..+.+
T Consensus 30 vp~~~C~~CGE~~~~ 44 (46)
T TIGR03831 30 VPALVCPQCGEEYLD 44 (46)
T ss_pred CCccccccCCCEeeC
Confidence 345778888877654
No 245
>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 COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=26.65 E-value=41 Score=26.55 Aligned_cols=17 Identities=24% Similarity=0.733 Sum_probs=11.8
Q ss_pred CCCCCccCCCCCCcCCC
Q psy16828 317 RIRPTFECDVCHQIFPT 333 (372)
Q Consensus 317 ~~~~~~~C~~C~~~f~~ 333 (372)
+..+++.|..||..++.
T Consensus 26 g~~~lvrC~eCG~V~~~ 42 (201)
T COG1326 26 GREPLVRCEECGTVHPA 42 (201)
T ss_pred CCceEEEccCCCcEeec
Confidence 33456888888887754
No 247
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=26.32 E-value=1.1e+02 Score=18.71 Aligned_cols=30 Identities=10% Similarity=0.093 Sum_probs=14.6
Q ss_pred ccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCCC
Q psy16828 298 CGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPTD 334 (372)
Q Consensus 298 C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 334 (372)
||..| ....+..+++. . ..||.|++.+...
T Consensus 19 ~G~v~-~~~~i~~~~~~-----~-~~cP~~~~~~~~~ 48 (63)
T smart00504 19 SGQTY-ERRAIEKWLLS-----H-GTDPVTGQPLTHE 48 (63)
T ss_pred CCCEE-eHHHHHHHHHH-----C-CCCCCCcCCCChh
Confidence 45444 34444555443 1 3566666655433
No 248
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=25.94 E-value=43 Score=18.26 Aligned_cols=25 Identities=24% Similarity=0.429 Sum_probs=15.5
Q ss_pred ccCCCCCCcCCCCccccccccccCCCceeCcccCC
Q psy16828 322 FECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCGA 356 (372)
Q Consensus 322 ~~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~~ 356 (372)
+.|+.|+..+... .+.-|.|..||-
T Consensus 9 ~~C~~C~~~~~~~----------~dG~~yC~~cG~ 33 (36)
T PF11781_consen 9 EPCPVCGSRWFYS----------DDGFYYCDRCGH 33 (36)
T ss_pred CcCCCCCCeEeEc----------cCCEEEhhhCce
Confidence 5688887653222 345677877774
No 249
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=25.72 E-value=36 Score=23.61 Aligned_cols=19 Identities=26% Similarity=0.401 Sum_probs=14.0
Q ss_pred ccccCCCceeCcccCCcccC
Q psy16828 341 LVHDVEKSHLCFVCGAGFVN 360 (372)
Q Consensus 341 ~~h~~~~~~~C~~C~~~f~~ 360 (372)
.++.| +|++|+.||..|..
T Consensus 73 ~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 73 WLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEeCC-CceeCCCCCcEEEE
Confidence 34555 78999999988754
No 250
>KOG4124|consensus
Probab=25.70 E-value=21 Score=30.81 Aligned_cols=71 Identities=21% Similarity=0.242 Sum_probs=44.4
Q ss_pred CCCccccC--cccccccchhHHhhhhhccCcCCCCccCCCCCCCCcchhhHHHhhhhccCCCCCCCCeecccccccccCh
Q psy16828 18 KYIKVECP--VCGKVLSRKSKLVSHMRSFHTSVTPEAGGDNNDTSGHMSQIQTMLMLDHKKPKSRAPVECSYCGKVLSRK 95 (372)
Q Consensus 18 ~~~~~~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~ 95 (372)
..++|+|+ .|.+.+.+...|..|...-|............ .+.. .-...|+++|++|.+.+...
T Consensus 346 ~~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~-------ph~~-------~~~~nk~~r~~i~~~~~k~~ 411 (442)
T KOG4124|consen 346 VDKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPI-------PHQG-------FVVENKPYRCEVCSKRYKNL 411 (442)
T ss_pred ecCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCC-------Ccce-------eeeccCcccChhhhhhhccC
Confidence 45788897 49999999999998887656543221111000 0000 11233789999999988777
Q ss_pred hHHHHHH
Q psy16828 96 DKLTRHI 102 (372)
Q Consensus 96 ~~l~~H~ 102 (372)
..|..|.
T Consensus 412 ~~l~~~~ 418 (442)
T KOG4124|consen 412 NGLKYHR 418 (442)
T ss_pred CCCCcee
Confidence 6665554
No 251
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=25.40 E-value=29 Score=24.12 Aligned_cols=26 Identities=15% Similarity=0.337 Sum_probs=23.1
Q ss_pred CCCccccCcccccccchhHHhhhhhc
Q psy16828 18 KYIKVECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 18 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
|...+-|-.|.+.|.+...|..|.+.
T Consensus 52 GlGqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 52 GLGQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred CCceeeeehhHHHHHHHHHHHHHhcc
Confidence 56667899999999999999999875
No 252
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=25.16 E-value=22 Score=30.37 Aligned_cols=31 Identities=19% Similarity=0.300 Sum_probs=15.9
Q ss_pred cccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCcCCC
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQIFPT 333 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 333 (372)
.+|+.|+.....+..... . +.|+.|+.-|.-
T Consensus 27 ~~c~~c~~~~~~~~l~~~---------~-~vc~~c~~h~rl 57 (285)
T TIGR00515 27 TKCPKCGQVLYTKELERN---------L-EVCPKCDHHMRM 57 (285)
T ss_pred eECCCCcchhhHHHHHhh---------C-CCCCCCCCcCcC
Confidence 457777765543322111 1 567777665543
No 253
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=24.82 E-value=39 Score=20.55 Aligned_cols=20 Identities=25% Similarity=0.768 Sum_probs=13.8
Q ss_pred CceeCcccCCcccChhhHHH
Q psy16828 347 KSHLCFVCGAGFVNDAGLKV 366 (372)
Q Consensus 347 ~~~~C~~C~~~f~~~~~l~~ 366 (372)
+-+.|-.||..|.+...|..
T Consensus 26 ~~~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 26 EHNYCFWCGTKYDDEEDLER 45 (55)
T ss_pred hCceeeeeCCccCCHHHHHh
Confidence 34667777777777776654
No 254
>KOG1842|consensus
Probab=24.52 E-value=41 Score=30.32 Aligned_cols=29 Identities=21% Similarity=0.303 Sum_probs=26.1
Q ss_pred CCeecccccccccChhHHHHHHHhhccCc
Q psy16828 81 APVECSYCGKVLSRKDKLTRHIAAVHSGK 109 (372)
Q Consensus 81 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~ 109 (372)
..|.|++|...|.+...|..|+...|.+.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 46899999999999999999998888764
No 255
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=24.50 E-value=46 Score=26.41 Aligned_cols=15 Identities=20% Similarity=0.412 Sum_probs=10.9
Q ss_pred ceeCcccCCcccChh
Q psy16828 348 SHLCFVCGAGFVNDA 362 (372)
Q Consensus 348 ~~~C~~C~~~f~~~~ 362 (372)
...|..||+.+.+..
T Consensus 43 t~~C~~CgYR~~DV~ 57 (201)
T COG1779 43 TGVCERCGYRSTDVK 57 (201)
T ss_pred EEEccccCCccccee
Confidence 467888888877643
No 256
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=24.45 E-value=39 Score=25.73 Aligned_cols=10 Identities=30% Similarity=0.630 Sum_probs=5.4
Q ss_pred eeCcccCCcc
Q psy16828 349 HLCFVCGAGF 358 (372)
Q Consensus 349 ~~C~~C~~~f 358 (372)
|.|+.|+..|
T Consensus 144 ~~C~~C~~~l 153 (157)
T PF10263_consen 144 YRCGRCGGPL 153 (157)
T ss_pred EECCCCCCEE
Confidence 5566565443
No 257
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=24.45 E-value=30 Score=23.51 Aligned_cols=6 Identities=33% Similarity=0.949 Sum_probs=2.6
Q ss_pred cccccc
Q psy16828 208 YHCKYC 213 (372)
Q Consensus 208 ~~C~~C 213 (372)
|.|++|
T Consensus 37 y~CpfC 42 (90)
T PRK03976 37 HVCPVC 42 (90)
T ss_pred ccCCCC
Confidence 444444
No 258
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.10 E-value=32 Score=22.32 Aligned_cols=30 Identities=30% Similarity=0.680 Sum_probs=16.0
Q ss_pred cccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCc
Q psy16828 293 FVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQI 330 (372)
Q Consensus 293 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 330 (372)
|.|..|+..|. +.+++ .+.|.-.|+.|+..
T Consensus 13 Y~c~~cg~~~d----vvq~~----~ddplt~ce~c~a~ 42 (82)
T COG2331 13 YECTECGNRFD----VVQAM----TDDPLTTCEECGAR 42 (82)
T ss_pred EeecccchHHH----HHHhc----ccCccccChhhChH
Confidence 66777776553 33332 23343566777653
No 259
>PTZ00448 hypothetical protein; Provisional
Probab=23.96 E-value=45 Score=29.38 Aligned_cols=23 Identities=26% Similarity=0.456 Sum_probs=21.6
Q ss_pred ccccCcccccccchhHHhhhhhc
Q psy16828 21 KVECPVCGKVLSRKSKLVSHMRS 43 (372)
Q Consensus 21 ~~~C~~C~~~f~~~~~l~~H~~~ 43 (372)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 68999999999999999999986
No 260
>PRK05978 hypothetical protein; Provisional
Probab=23.84 E-value=31 Score=26.13 Aligned_cols=10 Identities=30% Similarity=0.740 Sum_probs=4.7
Q ss_pred ccCCCCCCcC
Q psy16828 322 FECDVCHQIF 331 (372)
Q Consensus 322 ~~C~~C~~~f 331 (372)
-.|+.|+..|
T Consensus 53 ~~C~~CG~~~ 62 (148)
T PRK05978 53 DHCAACGEDF 62 (148)
T ss_pred CCccccCCcc
Confidence 3455555443
No 261
>KOG4727|consensus
Probab=23.74 E-value=46 Score=25.56 Aligned_cols=23 Identities=22% Similarity=0.436 Sum_probs=18.1
Q ss_pred CCCeecccccccccChhHHHHHH
Q psy16828 80 RAPVECSYCGKVLSRKDKLTRHI 102 (372)
Q Consensus 80 ~~~~~C~~C~~~~~~~~~l~~H~ 102 (372)
..-|.|.+|+-++.....+..|+
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHi 95 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHI 95 (193)
T ss_pred cCceeeeecceeehhhHHHHHHh
Confidence 35688888888888888888886
No 262
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=23.66 E-value=45 Score=25.19 Aligned_cols=10 Identities=30% Similarity=0.557 Sum_probs=5.4
Q ss_pred ceeCcccCCc
Q psy16828 348 SHLCFVCGAG 357 (372)
Q Consensus 348 ~~~C~~C~~~ 357 (372)
.|.|..|+-.
T Consensus 140 ~YrC~~C~gk 149 (156)
T COG3091 140 VYRCGKCGGK 149 (156)
T ss_pred eEEeccCCce
Confidence 5556555543
No 263
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=23.29 E-value=48 Score=28.79 Aligned_cols=29 Identities=17% Similarity=0.462 Sum_probs=24.3
Q ss_pred ccccCCCceeCcccC-CcccChhhHHHHHh
Q psy16828 341 LVHDVEKSHLCFVCG-AGFVNDAGLKVHMR 369 (372)
Q Consensus 341 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 369 (372)
++|.-.+.|.|.+|| +.+..+..+.+|..
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhhh
Confidence 466777889999999 88888998988864
No 264
>KOG3214|consensus
Probab=22.66 E-value=32 Score=23.66 Aligned_cols=16 Identities=13% Similarity=0.418 Sum_probs=12.8
Q ss_pred CCeecccccccccChh
Q psy16828 81 APVECSYCGKVLSRKD 96 (372)
Q Consensus 81 ~~~~C~~C~~~~~~~~ 96 (372)
+...|.+|+..|.+..
T Consensus 46 G~~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 46 GKASCRICEESFQTTI 61 (109)
T ss_pred ceeeeeehhhhhccch
Confidence 5678999999997663
No 265
>KOG1994|consensus
Probab=22.25 E-value=44 Score=27.00 Aligned_cols=21 Identities=29% Similarity=0.599 Sum_probs=18.8
Q ss_pred ceeecccccccccCchhHHHH
Q psy16828 109 KEYPCEQCDRKFTNGYKLKQH 129 (372)
Q Consensus 109 ~~~~C~~C~~~f~~~~~l~~H 129 (372)
.-|.|-.||..|.+..+|..|
T Consensus 238 eh~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred cceEEEEeccccCCHHHHHHh
Confidence 359999999999999999988
No 266
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=21.93 E-value=75 Score=22.24 Aligned_cols=11 Identities=18% Similarity=0.452 Sum_probs=7.6
Q ss_pred ccCCCCCCcCC
Q psy16828 322 FECDVCHQIFP 332 (372)
Q Consensus 322 ~~C~~C~~~f~ 332 (372)
+.|+.|+..+.
T Consensus 17 ~~C~~C~~~~~ 27 (104)
T TIGR01384 17 YVCPSCGYEKE 27 (104)
T ss_pred EECcCCCCccc
Confidence 77777776654
No 267
>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=21.87 E-value=30 Score=27.54 Aligned_cols=28 Identities=18% Similarity=0.551 Sum_probs=0.0
Q ss_pred cccCCCceeCcccCC-cccChhhHHHHHh
Q psy16828 342 VHDVEKSHLCFVCGA-GFVNDAGLKVHMR 369 (372)
Q Consensus 342 ~h~~~~~~~C~~C~~-~f~~~~~l~~H~~ 369 (372)
+|.-.+.|.|.+||. +|..+..+.+|..
T Consensus 95 LhGL~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 95 LHGLGVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp -----------------------------
T ss_pred HhCCCCeeeeEeCCCcceecHHHHHHhcC
Confidence 444456788888865 6667888888864
No 268
>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=21.85 E-value=85 Score=23.98 Aligned_cols=51 Identities=18% Similarity=0.290 Sum_probs=28.8
Q ss_pred ccccccccccCChHHHHHHHhhhcCCCCcccCc--ccccccchhhHHHHHhhhcC
Q psy16828 265 FECKLCHKTIVSEKTFKKHMALHSDAKPFVCNI--CGKDFKLKYYVNLHMRTHTR 317 (372)
Q Consensus 265 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~ 317 (372)
..||+|.-........ .-.+.+.+.|+-.|.. |.+. .+...|.+|.+.-|.
T Consensus 81 L~CPLCRG~V~GWtvv-e~AR~~LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP 133 (162)
T PF07800_consen 81 LACPLCRGEVKGWTVV-EPARRFLNAKKRSCSQESCSFS-GTYSELRKHARSEHP 133 (162)
T ss_pred ccCccccCceeceEEc-hHHHHHhccCCccCcccccccc-cCHHHHHHHHHhhCC
Confidence 5566666544433322 2245556666666644 6655 356778888777553
No 269
>KOG0782|consensus
Probab=21.84 E-value=14 Score=34.09 Aligned_cols=26 Identities=35% Similarity=0.664 Sum_probs=11.6
Q ss_pred HHHHHHhhhcCCCCcccCcccccccc
Q psy16828 279 TFKKHMALHSDAKPFVCNICGKDFKL 304 (372)
Q Consensus 279 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 304 (372)
.|.+|-.+|....--+|..|+++|-+
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQ 265 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQ 265 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhh
Confidence 34444444433333345555555543
No 270
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=21.31 E-value=38 Score=24.32 Aligned_cols=11 Identities=36% Similarity=1.008 Sum_probs=5.7
Q ss_pred cccCccccccc
Q psy16828 293 FVCNICGKDFK 303 (372)
Q Consensus 293 ~~C~~C~~~f~ 303 (372)
..|..|++.|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PF01155_consen 71 ARCRDCGHEFE 81 (113)
T ss_dssp EEETTTS-EEE
T ss_pred EECCCCCCEEe
Confidence 45666666554
No 271
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=21.06 E-value=87 Score=22.70 Aligned_cols=20 Identities=20% Similarity=0.464 Sum_probs=14.3
Q ss_pred CCceeCcccCCcccChhhHH
Q psy16828 346 EKSHLCFVCGAGFVNDAGLK 365 (372)
Q Consensus 346 ~~~~~C~~C~~~f~~~~~l~ 365 (372)
..-+.|+.||..+.......
T Consensus 29 ~~~~~C~~CGe~~~~~e~~~ 48 (127)
T TIGR03830 29 VPGWYCPACGEELLDPEESK 48 (127)
T ss_pred eeeeECCCCCCEEEcHHHHH
Confidence 35578999988887776543
No 272
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=21.05 E-value=29 Score=23.18 Aligned_cols=15 Identities=33% Similarity=0.663 Sum_probs=8.3
Q ss_pred CceeCcccCCcccCh
Q psy16828 347 KSHLCFVCGAGFVND 361 (372)
Q Consensus 347 ~~~~C~~C~~~f~~~ 361 (372)
....|..||..|...
T Consensus 45 ~~~~C~~Cg~~~~~~ 59 (81)
T PF05129_consen 45 GILSCRVCGESFQTK 59 (81)
T ss_dssp EEEEESSS--EEEEE
T ss_pred EEEEecCCCCeEEEc
Confidence 346688888777543
No 273
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=21.00 E-value=44 Score=18.87 Aligned_cols=11 Identities=27% Similarity=0.996 Sum_probs=5.4
Q ss_pred CCCCCCcCCCC
Q psy16828 324 CDVCHQIFPTD 334 (372)
Q Consensus 324 C~~C~~~f~~~ 334 (372)
|++|...|.+.
T Consensus 1 CpiC~~~~~~P 11 (42)
T PF15227_consen 1 CPICLDLFKDP 11 (42)
T ss_dssp ETTTTSB-SSE
T ss_pred CCccchhhCCc
Confidence 45555555554
No 274
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=20.94 E-value=66 Score=19.37 Aligned_cols=17 Identities=18% Similarity=0.337 Sum_probs=11.7
Q ss_pred CCeecccccccccChhH
Q psy16828 81 APVECSYCGKVLSRKDK 97 (372)
Q Consensus 81 ~~~~C~~C~~~~~~~~~ 97 (372)
..++|+.|+..+.....
T Consensus 27 v~W~C~~Cgh~w~~~v~ 43 (55)
T PF14311_consen 27 VWWKCPKCGHEWKASVN 43 (55)
T ss_pred EEEECCCCCCeeEccHh
Confidence 35788888887766543
No 275
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=20.90 E-value=1.2e+02 Score=23.74 Aligned_cols=17 Identities=18% Similarity=0.667 Sum_probs=9.3
Q ss_pred cCCCCcccCcccccccc
Q psy16828 288 SDAKPFVCNICGKDFKL 304 (372)
Q Consensus 288 ~~~~~~~C~~C~~~f~~ 304 (372)
.+..-|.|+.|.-.|+.
T Consensus 109 ~~~~~y~C~~~~~r~sf 125 (176)
T COG1675 109 TENNYYVCPNCHVKYSF 125 (176)
T ss_pred ccCCceeCCCCCCcccH
Confidence 44445666666655543
No 276
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=20.65 E-value=30 Score=29.71 Aligned_cols=11 Identities=18% Similarity=0.422 Sum_probs=6.9
Q ss_pred ccCCCCCCcCC
Q psy16828 322 FECDVCHQIFP 332 (372)
Q Consensus 322 ~~C~~C~~~f~ 332 (372)
+.|+.|+.-|.
T Consensus 47 ~vc~~c~~h~r 57 (292)
T PRK05654 47 NVCPKCGHHMR 57 (292)
T ss_pred CCCCCCCCCee
Confidence 56777766553
No 277
>KOG4377|consensus
Probab=20.61 E-value=38 Score=30.14 Aligned_cols=76 Identities=20% Similarity=0.308 Sum_probs=43.3
Q ss_pred eecc--cccccccCchhHHHHHHhhcccCCCCccccccccCcccC--CCCccccCChhhHHHHHhhhcCCC-------ce
Q psy16828 111 YPCE--QCDRKFTNGYKLKQHMLTHMQKDTSISIDVISEIKKFKC--DQCDYATKDKYNLGTHIKRRHTKE-------YS 179 (372)
Q Consensus 111 ~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~C--~~C~~~~~~~~~l~~H~~~~h~~~-------~~ 179 (372)
|.|. .|...+-.+.++.+|...|...+.........-...|.| .+|++. .++.+.|- ..|... .-
T Consensus 272 yhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~ks---TsdV~~h~-nFht~~~n~Gfrrth 347 (480)
T KOG4377|consen 272 YHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEKS---TSDVLLHD-NFHTDKRNNGFRRTH 347 (480)
T ss_pred hcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCcc---cccccccC-ccccccccCceecce
Confidence 5563 698888779999999999876655443333222333556 357662 23344553 344321 13
Q ss_pred eecCCCC--Cccc
Q psy16828 180 VLCTQCG--FGCY 190 (372)
Q Consensus 180 ~~C~~C~--~~f~ 190 (372)
|-|..++ ..|.
T Consensus 348 fhC~r~gCTdtfK 360 (480)
T KOG4377|consen 348 FHCQRIGCTDTFK 360 (480)
T ss_pred eEEeccCCccccc
Confidence 5566555 4554
No 278
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=20.29 E-value=35 Score=17.47 Aligned_cols=26 Identities=19% Similarity=0.369 Sum_probs=12.0
Q ss_pred cCCCCCCcCCCCccccccccccCCCceeCcccC
Q psy16828 323 ECDVCHQIFPTDFRTKHMLVHDVEKSHLCFVCG 355 (372)
Q Consensus 323 ~C~~C~~~f~~~~l~~h~~~h~~~~~~~C~~C~ 355 (372)
+|+.|+..+....+ .+..+|.|+.|-
T Consensus 3 ~C~rC~~~~~~~~~-------~~r~~~~C~rCq 28 (30)
T PF06827_consen 3 KCPRCWNYIEDIGI-------NGRSTYLCPRCQ 28 (30)
T ss_dssp B-TTT--BBEEEEE-------TTEEEEE-TTTC
T ss_pred cCccCCCcceEeEe-------cCCCCeECcCCc
Confidence 57777665443321 234567788775
No 279
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=20.26 E-value=28 Score=30.60 Aligned_cols=56 Identities=25% Similarity=0.431 Sum_probs=23.3
Q ss_pred cccccccccccCChHHHH---HHH-hhhcCCCC-cccCcccccccchhhHHHHHhhhcCCCCCccCCCCCCc
Q psy16828 264 RFECKLCHKTIVSEKTFK---KHM-ALHSDAKP-FVCNICGKDFKLKYYVNLHMRTHTRIRPTFECDVCHQI 330 (372)
Q Consensus 264 ~~~C~~C~~~f~~~~~l~---~H~-~~h~~~~~-~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 330 (372)
.+.|..|.++....+..- .|. .++.+.+. |+|..|++.+.+...| |.-.|..|+..
T Consensus 252 av~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~sl~r~-----------P~~~C~~Cg~~ 312 (344)
T PF09332_consen 252 AVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTISLERL-----------PKKHCSNCGSS 312 (344)
T ss_dssp EEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEEESSSS-------------S--TTT-S-
T ss_pred EEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeeeecccC-----------CCCCCCcCCcC
Confidence 477888887766555443 232 23444443 6788888876543222 22568888753
Done!