Query psy4573
Match_columns 306
No_of_seqs 177 out of 1560
Neff 10.3
Searched_HMMs 46136
Date Fri Aug 16 20:28:04 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4573.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4573hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 99.9 8.5E-29 1.8E-33 221.6 5.9 191 100-290 606-936 (958)
2 KOG2462|consensus 99.9 1.4E-28 3E-33 195.4 6.4 137 126-283 129-265 (279)
3 KOG2462|consensus 99.9 2.9E-27 6.4E-32 187.9 5.8 124 177-302 130-256 (279)
4 KOG3608|consensus 99.9 4.4E-26 9.6E-31 185.8 11.4 223 40-287 131-378 (467)
5 KOG3608|consensus 99.9 1.4E-25 3E-30 182.9 9.7 236 43-301 69-364 (467)
6 KOG1074|consensus 99.9 1.6E-24 3.5E-29 194.4 3.6 81 177-257 605-692 (958)
7 KOG3623|consensus 99.9 9.2E-24 2E-28 186.6 6.6 109 43-151 210-333 (1007)
8 KOG3623|consensus 99.8 6.4E-21 1.4E-25 168.9 6.5 119 100-227 211-331 (1007)
9 KOG3576|consensus 99.7 3.9E-19 8.5E-24 134.7 2.2 115 175-289 115-240 (267)
10 KOG3576|consensus 99.7 9E-18 2E-22 127.4 3.0 119 38-156 112-241 (267)
11 PLN03086 PRLI-interacting fact 99.3 1.3E-11 2.8E-16 110.8 9.5 147 128-287 408-566 (567)
12 PLN03086 PRLI-interacting fact 99.2 1.6E-11 3.4E-16 110.3 5.0 93 204-302 452-554 (567)
13 PHA00733 hypothetical protein 99.2 2.7E-11 5.9E-16 89.0 4.5 95 191-287 26-125 (128)
14 PHA00733 hypothetical protein 99.1 2.9E-10 6.3E-15 83.6 5.5 80 177-259 40-125 (128)
15 KOG3993|consensus 99.0 6.2E-11 1.3E-15 100.1 1.1 199 71-289 267-486 (500)
16 PHA02768 hypothetical protein; 98.8 1.4E-09 2.9E-14 65.8 1.4 41 234-276 6-46 (55)
17 PHA02768 hypothetical protein; 98.8 3E-09 6.5E-14 64.3 1.3 42 206-249 6-47 (55)
18 KOG3993|consensus 98.5 2.8E-08 6.1E-13 84.4 1.8 188 42-229 266-482 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.5 9.1E-08 2E-12 49.4 1.9 20 223-242 4-23 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 5.9E-08 1.3E-12 50.1 1.0 25 248-272 1-25 (26)
21 PHA00616 hypothetical protein 98.4 6.8E-08 1.5E-12 55.5 1.2 32 234-265 2-33 (44)
22 PHA00732 hypothetical protein 98.3 4.7E-07 1E-11 60.3 2.3 46 205-256 1-47 (79)
23 PHA00616 hypothetical protein 98.3 6E-07 1.3E-11 51.7 2.3 33 261-293 1-33 (44)
24 PF05605 zf-Di19: Drought indu 98.2 2.5E-06 5.3E-11 52.8 4.2 51 233-286 2-54 (54)
25 PHA00732 hypothetical protein 98.1 2.1E-06 4.6E-11 57.2 3.1 46 177-228 1-47 (79)
26 PF05605 zf-Di19: Drought indu 97.9 1.7E-05 3.7E-10 49.0 4.3 49 206-257 3-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.8 1.2E-05 2.6E-10 40.1 1.2 20 235-254 2-21 (23)
28 PF00096 zf-C2H2: Zinc finger, 97.7 3.6E-05 7.8E-10 38.4 2.1 22 178-199 1-22 (23)
29 PF13894 zf-C2H2_4: C2H2-type 97.6 2.7E-05 5.8E-10 39.2 1.4 24 262-285 1-24 (24)
30 PF13912 zf-C2H2_6: C2H2-type 97.6 3.9E-05 8.5E-10 39.9 1.5 24 234-257 2-25 (27)
31 PF13894 zf-C2H2_4: C2H2-type 97.5 5.1E-05 1.1E-09 38.1 1.6 24 234-257 1-24 (24)
32 PF12756 zf-C2H2_2: C2H2 type 97.5 5E-05 1.1E-09 53.6 1.8 20 180-199 2-21 (100)
33 PF12756 zf-C2H2_2: C2H2 type 97.4 8.1E-05 1.8E-09 52.5 2.0 73 45-122 1-73 (100)
34 PF13912 zf-C2H2_6: C2H2-type 97.4 7.7E-05 1.7E-09 38.8 1.0 26 261-286 1-26 (27)
35 COG5189 SFP1 Putative transcri 97.2 0.00014 3E-09 60.1 0.9 53 230-282 346-419 (423)
36 PF13909 zf-H2C2_5: C2H2-type 96.9 0.0003 6.6E-09 35.3 0.7 24 262-286 1-24 (24)
37 PF09237 GAGA: GAGA factor; I 96.7 0.0013 2.7E-08 38.9 1.9 24 234-257 25-48 (54)
38 smart00355 ZnF_C2H2 zinc finge 96.7 0.0017 3.6E-08 32.9 2.2 19 236-254 3-21 (26)
39 smart00355 ZnF_C2H2 zinc finge 96.5 0.0021 4.6E-08 32.5 2.1 24 262-285 1-24 (26)
40 PF09237 GAGA: GAGA factor; I 96.5 0.0021 4.6E-08 37.9 2.1 34 256-289 19-52 (54)
41 COG5236 Uncharacterized conser 96.4 0.0072 1.6E-07 50.8 5.6 128 43-200 151-304 (493)
42 PF13909 zf-H2C2_5: C2H2-type 96.4 0.0018 3.9E-08 32.4 1.3 23 234-257 1-23 (24)
43 COG5189 SFP1 Putative transcri 96.2 0.0014 3E-08 54.4 0.4 51 97-147 347-418 (423)
44 KOG1146|consensus 96.1 0.003 6.5E-08 62.1 1.9 111 41-154 463-616 (1406)
45 PF12874 zf-met: Zinc-finger o 96.0 0.0042 9.1E-08 31.4 1.6 22 44-65 1-22 (25)
46 PF12874 zf-met: Zinc-finger o 96.0 0.0054 1.2E-07 31.0 1.9 22 178-199 1-22 (25)
47 PRK04860 hypothetical protein; 95.9 0.0042 9.1E-08 47.5 1.7 34 206-243 120-153 (160)
48 PRK04860 hypothetical protein; 95.9 0.0042 9.1E-08 47.5 1.6 37 177-217 119-155 (160)
49 KOG2785|consensus 95.6 0.036 7.7E-07 47.6 6.1 51 233-283 166-242 (390)
50 PF12171 zf-C2H2_jaz: Zinc-fin 95.6 0.0035 7.7E-08 32.4 0.1 21 262-282 2-22 (27)
51 PF12171 zf-C2H2_jaz: Zinc-fin 95.5 0.005 1.1E-07 31.8 0.6 22 234-255 2-23 (27)
52 KOG2231|consensus 95.3 0.04 8.6E-07 51.4 6.0 107 179-289 117-240 (669)
53 KOG2482|consensus 94.6 0.098 2.1E-06 44.2 6.0 153 126-284 143-357 (423)
54 KOG2231|consensus 94.6 0.092 2E-06 49.1 6.4 22 101-122 184-205 (669)
55 TIGR00622 ssl1 transcription f 94.3 0.079 1.7E-06 37.6 4.0 76 177-256 15-104 (112)
56 KOG2785|consensus 94.1 0.094 2E-06 45.1 4.9 51 205-255 166-242 (390)
57 PF13913 zf-C2HC_2: zinc-finge 94.0 0.038 8.2E-07 27.9 1.5 20 262-282 3-22 (25)
58 KOG2482|consensus 93.9 0.087 1.9E-06 44.5 4.3 50 44-93 145-217 (423)
59 PF12013 DUF3505: Protein of u 93.5 0.096 2.1E-06 37.5 3.5 25 262-286 81-109 (109)
60 COG5236 Uncharacterized conser 93.4 0.12 2.6E-06 43.8 4.2 135 127-287 151-307 (493)
61 KOG1146|consensus 92.5 0.041 8.8E-07 54.6 0.4 56 228-283 460-540 (1406)
62 cd00350 rubredoxin_like Rubred 92.3 0.092 2E-06 28.5 1.4 10 206-215 2-11 (33)
63 smart00451 ZnF_U1 U1-like zinc 92.0 0.13 2.8E-06 28.1 1.9 23 43-65 3-25 (35)
64 smart00451 ZnF_U1 U1-like zinc 92.0 0.15 3.3E-06 27.8 2.2 23 177-199 3-25 (35)
65 TIGR00622 ssl1 transcription f 91.8 0.46 1E-05 33.8 4.8 21 126-146 14-34 (112)
66 KOG2893|consensus 91.6 0.058 1.3E-06 43.1 0.2 42 179-224 12-53 (341)
67 COG4049 Uncharacterized protei 91.2 0.13 2.8E-06 31.0 1.3 31 256-286 12-42 (65)
68 COG5048 FOG: Zn-finger [Genera 90.5 0.054 1.2E-06 48.8 -1.1 121 176-296 288-453 (467)
69 PF12013 DUF3505: Protein of u 90.1 0.53 1.1E-05 33.6 4.1 71 177-258 11-109 (109)
70 KOG4173|consensus 88.9 0.25 5.5E-06 38.7 1.7 78 71-151 79-170 (253)
71 COG4049 Uncharacterized protei 87.4 0.28 6.1E-06 29.6 0.9 26 176-201 16-41 (65)
72 KOG2893|consensus 86.1 0.2 4.2E-06 40.2 -0.3 38 208-249 13-50 (341)
73 PF09538 FYDLN_acid: Protein o 85.8 0.63 1.4E-05 33.1 2.1 31 177-218 9-39 (108)
74 COG5048 FOG: Zn-finger [Genera 85.8 0.25 5.3E-06 44.5 0.1 59 38-96 28-88 (467)
75 KOG4173|consensus 85.5 0.39 8.5E-06 37.7 1.0 76 177-255 79-168 (253)
76 cd00729 rubredoxin_SM Rubredox 85.3 0.49 1.1E-05 25.8 1.1 10 206-215 3-12 (34)
77 PHA00626 hypothetical protein 83.9 0.83 1.8E-05 27.7 1.7 14 177-190 23-36 (59)
78 PF13717 zinc_ribbon_4: zinc-r 83.3 0.78 1.7E-05 25.4 1.4 11 177-187 25-35 (36)
79 PF10571 UPF0547: Uncharacteri 83.3 0.78 1.7E-05 23.3 1.2 8 208-215 17-24 (26)
80 PF09723 Zn-ribbon_8: Zinc rib 82.9 0.7 1.5E-05 26.6 1.1 29 156-185 6-34 (42)
81 PF13719 zinc_ribbon_5: zinc-r 82.2 0.8 1.7E-05 25.5 1.1 11 177-187 25-35 (37)
82 PRK14890 putative Zn-ribbon RN 81.5 0.85 1.8E-05 28.2 1.2 10 204-213 47-56 (59)
83 TIGR02098 MJ0042_CXXC MJ0042 f 80.5 0.97 2.1E-05 25.2 1.1 9 178-186 26-34 (38)
84 smart00834 CxxC_CXXC_SSSS Puta 80.3 0.99 2.1E-05 25.6 1.1 9 177-185 26-34 (41)
85 COG2888 Predicted Zn-ribbon RN 78.4 1.1 2.5E-05 27.5 1.0 32 177-213 27-58 (61)
86 PF09986 DUF2225: Uncharacteri 78.2 0.45 9.8E-06 38.6 -1.0 43 204-246 4-61 (214)
87 PF02892 zf-BED: BED zinc fing 76.1 1.2 2.6E-05 25.8 0.7 24 261-284 16-43 (45)
88 PRK00398 rpoP DNA-directed RNA 75.8 1.8 3.8E-05 25.4 1.3 7 178-184 22-28 (46)
89 PF02176 zf-TRAF: TRAF-type zi 75.7 1.5 3.3E-05 27.2 1.1 39 233-271 9-52 (60)
90 COG1592 Rubrerythrin [Energy p 75.5 1.7 3.6E-05 33.5 1.4 23 233-268 134-156 (166)
91 smart00734 ZnF_Rad18 Rad18-lik 74.9 3 6.4E-05 21.2 1.8 20 178-198 2-21 (26)
92 KOG2186|consensus 74.9 1.8 3.9E-05 35.3 1.5 46 44-92 4-49 (276)
93 PRK00464 nrdR transcriptional 74.1 0.75 1.6E-05 35.0 -0.7 14 234-247 29-42 (154)
94 TIGR02300 FYDLN_acid conserved 74.1 2.8 6E-05 30.5 2.2 31 177-218 9-39 (129)
95 PF03604 DNA_RNApol_7kD: DNA d 72.6 2.6 5.6E-05 22.6 1.3 9 177-185 17-25 (32)
96 KOG2807|consensus 71.5 4 8.6E-05 34.7 2.8 36 40-89 273-308 (378)
97 PF09986 DUF2225: Uncharacteri 71.2 0.97 2.1E-05 36.7 -0.8 22 41-62 3-24 (214)
98 TIGR00373 conserved hypothetic 70.7 4.1 8.9E-05 31.3 2.6 31 203-242 107-137 (158)
99 smart00531 TFIIE Transcription 70.3 5.9 0.00013 30.0 3.4 14 204-217 98-111 (147)
100 TIGR01206 lysW lysine biosynth 70.3 3.2 6.8E-05 25.4 1.5 12 176-187 21-32 (54)
101 TIGR02605 CxxC_CxxC_SSSS putat 68.5 2.9 6.2E-05 25.2 1.1 9 129-137 7-15 (52)
102 TIGR00373 conserved hypothetic 67.9 4.8 0.0001 30.9 2.5 34 229-271 105-138 (158)
103 KOG2807|consensus 67.4 7 0.00015 33.3 3.4 25 260-284 344-368 (378)
104 smart00531 TFIIE Transcription 66.2 4.6 9.9E-05 30.6 2.0 38 230-271 96-133 (147)
105 PRK06266 transcription initiat 65.0 5.2 0.00011 31.4 2.2 30 204-242 116-145 (178)
106 KOG2186|consensus 64.2 3.3 7.3E-05 33.8 1.0 47 206-255 4-50 (276)
107 PF02176 zf-TRAF: TRAF-type zi 63.9 3.7 8.1E-05 25.4 1.0 38 43-81 9-52 (60)
108 COG1996 RPC10 DNA-directed RNA 63.3 4 8.7E-05 24.3 1.0 11 177-187 6-16 (49)
109 PRK06266 transcription initiat 61.5 7.2 0.00016 30.6 2.4 33 230-271 114-146 (178)
110 PF12907 zf-met2: Zinc-binding 61.2 8.3 0.00018 21.9 1.9 28 262-289 2-32 (40)
111 PF06524 NOA36: NOA36 protein; 60.9 2.9 6.4E-05 34.3 0.1 23 231-253 207-229 (314)
112 COG1997 RPL43A Ribosomal prote 59.2 4.6 9.9E-05 27.2 0.8 31 177-217 35-65 (89)
113 KOG4377|consensus 57.9 4.9 0.00011 35.3 1.0 102 177-285 271-427 (480)
114 COG0068 HypF Hydrogenase matur 57.9 2.9 6.3E-05 39.6 -0.4 57 129-185 125-181 (750)
115 smart00614 ZnF_BED BED zinc fi 57.8 6.3 0.00014 23.5 1.2 10 235-244 20-29 (50)
116 PF12760 Zn_Tnp_IS1595: Transp 55.3 8.7 0.00019 22.4 1.5 8 234-241 19-26 (46)
117 PF13878 zf-C2H2_3: zinc-finge 55.1 12 0.00026 21.3 2.0 23 44-66 14-38 (41)
118 COG1198 PriA Primosomal protei 54.9 8.6 0.00019 37.2 2.2 8 233-240 475-482 (730)
119 PF06524 NOA36: NOA36 protein; 54.5 4.3 9.4E-05 33.3 0.1 24 259-282 207-230 (314)
120 COG1198 PriA Primosomal protei 54.3 8.7 0.00019 37.2 2.1 12 258-269 472-483 (730)
121 KOG1280|consensus 54.2 9.8 0.00021 32.7 2.1 29 261-289 79-107 (381)
122 PF08274 PhnA_Zn_Ribbon: PhnA 52.7 5.8 0.00013 20.9 0.4 10 71-80 19-28 (30)
123 PF04959 ARS2: Arsenite-resist 52.4 14 0.0003 29.9 2.7 28 174-201 74-101 (214)
124 PF13240 zinc_ribbon_2: zinc-r 52.2 5.1 0.00011 19.6 0.1 6 236-241 2-7 (23)
125 PF04810 zf-Sec23_Sec24: Sec23 51.9 11 0.00024 21.3 1.5 30 156-185 3-32 (40)
126 PF07975 C1_4: TFIIH C1-like d 51.8 3.5 7.7E-05 24.8 -0.6 26 175-200 19-44 (51)
127 PF05443 ROS_MUCR: ROS/MUCR tr 51.7 7.7 0.00017 28.7 1.0 27 232-261 71-97 (132)
128 PF14353 CpXC: CpXC protein 51.3 7.7 0.00017 28.5 1.0 20 71-90 38-57 (128)
129 PF04959 ARS2: Arsenite-resist 49.9 4.9 0.00011 32.5 -0.2 26 262-287 78-103 (214)
130 PF14803 Nudix_N_2: Nudix N-te 49.0 11 0.00024 20.5 1.1 10 177-186 22-31 (34)
131 KOG2593|consensus 47.7 17 0.00036 32.5 2.6 34 42-78 127-160 (436)
132 PRK04023 DNA polymerase II lar 47.7 23 0.00049 35.4 3.7 10 205-214 626-635 (1121)
133 COG5151 SSL1 RNA polymerase II 47.7 28 0.00061 29.6 3.8 74 127-200 322-411 (421)
134 PF00301 Rubredoxin: Rubredoxi 47.5 16 0.00034 21.6 1.7 8 178-185 35-42 (47)
135 PF05443 ROS_MUCR: ROS/MUCR tr 47.1 11 0.00024 27.9 1.3 28 40-70 69-96 (132)
136 KOG2071|consensus 46.7 20 0.00042 33.4 3.0 24 177-200 418-441 (579)
137 PRK04023 DNA polymerase II lar 46.4 19 0.00042 35.9 3.0 7 235-241 665-671 (1121)
138 PF05191 ADK_lid: Adenylate ki 46.0 4.2 9.1E-05 22.5 -0.8 8 234-241 22-29 (36)
139 KOG3408|consensus 45.7 11 0.00025 27.0 1.1 26 231-256 55-80 (129)
140 PF07754 DUF1610: Domain of un 45.3 11 0.00023 18.7 0.7 10 176-185 15-24 (24)
141 PRK09678 DNA-binding transcrip 45.3 5.2 0.00011 26.1 -0.6 6 238-243 34-39 (72)
142 PF15269 zf-C2H2_7: Zinc-finge 44.5 15 0.00033 21.2 1.3 23 43-65 20-42 (54)
143 KOG4167|consensus 43.9 8.3 0.00018 36.6 0.2 25 262-286 793-817 (907)
144 PRK00432 30S ribosomal protein 43.8 8.6 0.00019 23.1 0.2 8 262-269 38-45 (50)
145 cd00730 rubredoxin Rubredoxin; 40.3 13 0.00028 22.3 0.6 7 100-106 35-41 (50)
146 PF14446 Prok-RING_1: Prokaryo 40.1 7.9 0.00017 23.6 -0.3 9 235-243 7-15 (54)
147 KOG2272|consensus 39.6 28 0.00061 28.6 2.6 117 99-217 99-233 (332)
148 PF03811 Zn_Tnp_IS1: InsA N-te 39.6 5.1 0.00011 22.2 -1.1 18 250-267 18-35 (36)
149 COG1998 RPS31 Ribosomal protei 39.4 11 0.00024 22.3 0.2 10 261-270 37-46 (51)
150 COG1594 RPB9 DNA-directed RNA 38.7 20 0.00044 25.7 1.5 40 43-82 72-111 (113)
151 PF09845 DUF2072: Zn-ribbon co 38.1 15 0.00033 26.9 0.8 11 128-138 2-12 (131)
152 KOG2593|consensus 37.9 42 0.00091 30.1 3.6 39 201-242 124-162 (436)
153 PF13453 zf-TFIIB: Transcripti 37.9 31 0.00068 19.4 2.0 19 177-195 19-37 (41)
154 KOG1280|consensus 36.7 32 0.0007 29.8 2.6 39 40-78 76-116 (381)
155 COG4888 Uncharacterized Zn rib 36.6 10 0.00022 26.3 -0.3 39 40-82 19-57 (104)
156 KOG2071|consensus 36.1 31 0.00066 32.2 2.5 16 231-246 511-526 (579)
157 PF05290 Baculo_IE-1: Baculovi 35.6 32 0.0007 25.3 2.1 17 202-218 77-93 (140)
158 COG4530 Uncharacterized protei 35.0 22 0.00047 25.1 1.1 28 178-216 10-37 (129)
159 KOG1701|consensus 34.6 16 0.00035 32.4 0.6 42 45-86 276-317 (468)
160 KOG4167|consensus 34.3 10 0.00022 36.1 -0.8 30 39-68 788-817 (907)
161 PF15135 UPF0515: Uncharacteri 34.2 53 0.0012 27.0 3.3 56 126-190 111-168 (278)
162 COG3357 Predicted transcriptio 32.7 25 0.00054 23.9 1.1 14 204-217 57-70 (97)
163 COG5151 SSL1 RNA polymerase II 32.1 45 0.00097 28.4 2.7 22 126-147 387-408 (421)
164 PF07800 DUF1644: Protein of u 31.4 1.5E+02 0.0033 22.7 5.1 54 233-288 80-135 (162)
165 KOG3408|consensus 30.8 37 0.0008 24.5 1.7 26 258-283 54-79 (129)
166 PF12773 DZR: Double zinc ribb 30.2 41 0.00089 19.8 1.7 8 234-241 30-37 (50)
167 PRK03824 hypA hydrogenase nick 30.1 20 0.00043 26.7 0.3 14 177-190 70-83 (135)
168 KOG4124|consensus 29.3 10 0.00022 32.6 -1.4 54 232-285 348-422 (442)
169 smart00440 ZnF_C2C2 C2C2 Zinc 28.5 46 0.001 18.8 1.6 14 175-188 26-39 (40)
170 COG1571 Predicted DNA-binding 28.1 37 0.00081 30.4 1.7 31 179-220 352-382 (421)
171 KOG1842|consensus 28.0 39 0.00084 30.4 1.8 25 233-257 15-39 (505)
172 PF01363 FYVE: FYVE zinc finge 27.6 35 0.00075 21.7 1.1 8 178-185 26-33 (69)
173 PF10058 DUF2296: Predicted in 27.5 38 0.00082 20.7 1.2 9 177-185 44-52 (54)
174 PTZ00255 60S ribosomal protein 27.3 32 0.00069 23.5 0.9 11 71-81 54-64 (90)
175 smart00661 RPOL9 RNA polymeras 27.2 42 0.0009 19.9 1.4 8 178-185 21-28 (52)
176 PRK14714 DNA polymerase II lar 27.2 72 0.0016 33.0 3.6 8 178-185 668-675 (1337)
177 PF02150 RNA_POL_M_15KD: RNA p 27.2 27 0.00059 19.0 0.5 10 179-188 22-31 (35)
178 COG4896 Uncharacterized protei 26.8 35 0.00075 21.3 0.9 7 262-268 32-38 (68)
179 PF04438 zf-HIT: HIT zinc fing 26.7 64 0.0014 16.9 1.8 14 177-190 13-26 (30)
180 KOG3507|consensus 26.5 37 0.0008 21.0 1.0 10 205-214 37-46 (62)
181 PF05495 zf-CHY: CHY zinc fing 26.1 21 0.00047 23.1 -0.1 31 154-186 40-70 (71)
182 TIGR00595 priA primosomal prot 25.9 38 0.00083 31.5 1.5 6 207-212 215-220 (505)
183 COG2879 Uncharacterized small 25.6 63 0.0014 20.3 1.9 18 272-289 23-40 (65)
184 PF01096 TFIIS_C: Transcriptio 25.3 35 0.00076 19.1 0.7 12 176-187 27-38 (39)
185 PF07295 DUF1451: Protein of u 25.3 33 0.00072 25.9 0.8 10 233-242 112-121 (146)
186 TIGR00686 phnA alkylphosphonat 25.3 43 0.00093 23.7 1.3 11 234-244 20-30 (109)
187 PF08209 Sgf11: Sgf11 (transcr 25.1 54 0.0012 17.7 1.4 22 177-199 4-25 (33)
188 PF13451 zf-trcl: Probable zin 24.8 31 0.00067 20.6 0.4 14 41-54 2-15 (49)
189 COG2331 Uncharacterized protei 24.8 22 0.00048 23.2 -0.2 12 42-53 11-22 (82)
190 TIGR00280 L37a ribosomal prote 24.0 33 0.00071 23.5 0.5 11 71-81 53-63 (91)
191 PF01780 Ribosomal_L37ae: Ribo 23.8 19 0.00041 24.6 -0.7 10 100-109 54-63 (90)
192 PRK12380 hydrogenase nickel in 23.7 29 0.00063 24.9 0.2 10 234-243 71-80 (113)
193 COG5152 Uncharacterized conser 23.4 41 0.00088 26.6 0.9 15 176-190 195-209 (259)
194 COG4957 Predicted transcriptio 23.4 48 0.001 24.5 1.2 25 178-205 77-101 (148)
195 KOG4377|consensus 23.3 73 0.0016 28.4 2.5 28 2-29 203-230 (480)
196 PF04780 DUF629: Protein of un 22.9 46 0.001 30.4 1.4 26 262-287 58-83 (466)
197 PRK00564 hypA hydrogenase nick 22.8 36 0.00077 24.6 0.5 10 206-215 72-81 (117)
198 PF14311 DUF4379: Domain of un 22.8 59 0.0013 19.7 1.5 10 206-215 29-38 (55)
199 TIGR00100 hypA hydrogenase nic 22.7 28 0.00061 25.0 -0.0 11 234-244 71-81 (115)
200 PF08271 TF_Zn_Ribbon: TFIIB z 22.6 63 0.0014 18.4 1.5 9 178-186 20-28 (43)
201 cd00924 Cyt_c_Oxidase_Vb Cytoc 22.3 34 0.00073 23.8 0.3 22 33-55 70-91 (97)
202 PF07282 OrfB_Zn_ribbon: Putat 22.3 98 0.0021 19.6 2.5 14 70-83 45-58 (69)
203 PF09963 DUF2197: Uncharacteri 22.3 53 0.0012 20.2 1.1 12 96-107 28-39 (56)
204 PF07503 zf-HYPF: HypF finger; 22.1 33 0.00071 18.8 0.2 6 179-184 23-28 (35)
205 PF02891 zf-MIZ: MIZ/SP-RING z 21.6 51 0.0011 19.7 0.9 18 34-51 32-49 (50)
206 smart00154 ZnF_AN1 AN1-like Zi 21.6 46 0.001 18.7 0.7 13 233-245 12-24 (39)
207 PF08790 zf-LYAR: LYAR-type C2 21.5 20 0.00043 18.6 -0.7 17 45-62 2-18 (28)
208 PLN02294 cytochrome c oxidase 21.3 38 0.00083 26.1 0.4 24 32-56 131-154 (174)
209 PF13824 zf-Mss51: Zinc-finger 21.2 1.3E+02 0.0028 18.5 2.6 9 234-242 15-23 (55)
210 KOG3214|consensus 20.6 21 0.00045 24.7 -1.0 39 232-274 22-60 (109)
211 PF04216 FdhE: Protein involve 20.6 24 0.00052 30.1 -0.9 72 157-243 174-248 (290)
212 PF01155 HypA: Hydrogenase exp 20.4 61 0.0013 23.2 1.3 15 177-191 70-84 (113)
213 COG1655 Uncharacterized protei 20.3 30 0.00065 28.1 -0.3 27 40-66 16-42 (267)
214 TIGR01562 FdhE formate dehydro 20.3 72 0.0016 27.5 1.9 46 206-270 185-233 (305)
215 COG3091 SprT Zn-dependent meta 20.2 20 0.00044 27.0 -1.2 32 71-107 117-148 (156)
216 KOG3362|consensus 20.1 32 0.00069 25.7 -0.2 22 177-198 129-150 (156)
217 COG3677 Transposase and inacti 20.0 51 0.0011 24.3 0.9 15 287-301 51-65 (129)
218 PF07649 C1_3: C1-like domain; 20.0 56 0.0012 16.9 0.8 10 177-186 15-24 (30)
No 1
>KOG1074|consensus
Probab=99.95 E-value=8.5e-29 Score=221.55 Aligned_cols=191 Identities=27% Similarity=0.528 Sum_probs=149.0
Q ss_pred ccCCCChhhhccHHHHHHHHHhcccCCccccCcchhhccchHHHHHHhhhcCC----CCCcccc---ccccccccccc--
Q psy4573 100 YKCNQCDHVAKKLAYLQAHMKKHRNEYTAYCDLCQEGFFRKAKYETHNIQKHN----APPFECE---SCKKIFTYHKN-- 170 (306)
Q Consensus 100 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~----~~~~~c~---~c~~~f~~~~~-- 170 (306)
.+|-+|.+..+-.+.|+.|+++|++++||+|.+|+++|.++.+|+.|+..|.. ..++.|+ +|-+-|...-.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lp 685 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLP 685 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccccc
Confidence 67999999999999999999999999999999999999999999999766653 3457888 88887764322
Q ss_pred ---cccc--------------CcceeccccccccCChHHHHHHHhhccC----------------CC----CcccCcCCC
Q psy4573 171 ---TTHL--------------GIKFECEVCHRKLSTKNHLRLHMRTHTN----------------ER----PAVCSYCGK 213 (306)
Q Consensus 171 ---~~~~--------------~~~~~C~~C~~~f~~~~~l~~H~~~h~~----------------~~----~~~C~~C~~ 213 (306)
.+|. ...-.|..|.+.|.+...+..++..|.+ +. +..+..|+.
T Consensus 686 QhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~ 765 (958)
T KOG1074|consen 686 QHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGR 765 (958)
T ss_pred ceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccccc
Confidence 1111 1135699999999999999998877621 11 344556666
Q ss_pred ccCCcHHHHHHHHHc-----------------------cC----------------------------------------
Q psy4573 214 GFRRGDALTEHIRIH-----------------------TG---------------------------------------- 230 (306)
Q Consensus 214 ~f~~~~~l~~H~~~h-----------------------~~---------------------------------------- 230 (306)
.+.....+..+-..+ +.
T Consensus 766 ~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~ 845 (958)
T KOG1074|consen 766 ELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKT 845 (958)
T ss_pred ccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccccccc
Confidence 655444333331111 00
Q ss_pred -------------------------------CCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhhcChHHHHH
Q psy4573 231 -------------------------------QRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERFSTKALVRH 279 (306)
Q Consensus 231 -------------------------------~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 279 (306)
.....|..||+.|...+.|..|+++|.++++|.|.+|++.|+.+.+|..
T Consensus 846 n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKv 925 (958)
T KOG1074|consen 846 NEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKV 925 (958)
T ss_pred ccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhh
Confidence 0116899999999999999999999999999999999999999999999
Q ss_pred HhhhcCCCCCC
Q psy4573 280 HVRSHHSSARL 290 (306)
Q Consensus 280 H~~~~h~~~~~ 290 (306)
||.+|++..+.
T Consensus 926 HMgtH~w~q~~ 936 (958)
T KOG1074|consen 926 HMGTHMWVQPP 936 (958)
T ss_pred hhccccccCCC
Confidence 99999998763
No 2
>KOG2462|consensus
Probab=99.95 E-value=1.4e-28 Score=195.38 Aligned_cols=137 Identities=30% Similarity=0.637 Sum_probs=121.0
Q ss_pred CccccCcchhhccchHHHHHHhhhcCCCCCcccccccccccccccccccCcceeccccccccCChHHHHHHHhhccCCCC
Q psy4573 126 YTAYCDLCQEGFFRKAKYETHNIQKHNAPPFECESCKKIFTYHKNTTHLGIKFECEVCHRKLSTKNHLRLHMRTHTNERP 205 (306)
Q Consensus 126 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 205 (306)
..|+|+.|++.+.+..+|.+|...|-.-. ....+.|+.|++.|.+...|..|+++|+ -+
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~-------------------s~ka~~C~~C~K~YvSmpALkMHirTH~--l~ 187 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLD-------------------SKKAFSCKYCGKVYVSMPALKMHIRTHT--LP 187 (279)
T ss_pred Cceeccccccccccccccchhhccccccc-------------------ccccccCCCCCceeeehHHHhhHhhccC--CC
Confidence 35778888888888888888844444210 1235789999999999999999999998 57
Q ss_pred cccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhhcChHHHHHHhhh
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERFSTKALVRHHVRS 283 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 283 (306)
.+|.+||+.|...+.|+.|+++|+||+||.|++|++.|.++++|+.||++|.+.+.|+|..|+++|+.++.|.+|...
T Consensus 188 c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 188 CECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999765
No 3
>KOG2462|consensus
Probab=99.94 E-value=2.9e-27 Score=187.88 Aligned_cols=124 Identities=33% Similarity=0.688 Sum_probs=118.6
Q ss_pred ceeccccccccCChHHHHHHHhhccC---CCCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHHHHHH
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTN---ERPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALNTHK 253 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 253 (306)
.|+|+.||+.+.+..+|.+|..+|.. .+.+.|.+|++.|.+-..|..|+++|+ -+.+|.+||+.|+....|.-|+
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHi 207 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHI 207 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhccc
Confidence 69999999999999999999999864 577999999999999999999999997 6789999999999999999999
Q ss_pred hhccCCCcccCCcchHhhcChHHHHHHhhhcCCCCCCCcccccccchhh
Q psy4573 254 RGHTGEIPYHCEFCSERFSTKALVRHHVRSHHSSARLGLNLLDHELSMI 302 (306)
Q Consensus 254 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~~c~~~~~~~ 302 (306)
++|+|||||.|+.|+++|.++++|+.||++|.+.+.|+|..|+++|...
T Consensus 208 RTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~ 256 (279)
T KOG2462|consen 208 RTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALK 256 (279)
T ss_pred ccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHH
Confidence 9999999999999999999999999999999999999999999999754
No 4
>KOG3608|consensus
Probab=99.93 E-value=4.4e-26 Score=185.79 Aligned_cols=223 Identities=21% Similarity=0.465 Sum_probs=156.5
Q ss_pred cCCccccc--ccccccCChHHHHHHhhhcCCC------------C-ceecc--cchhccCChHHHhhhhhhcccCCcccC
Q psy4573 40 QDGSLACN--VCSKRCGSKSGLKIHMKSHTLS------------K-RYACS--ICLAEFHTLTEKDRHTLSHVVEGEYKC 102 (306)
Q Consensus 40 ~~~~~~C~--~C~~~f~~~~~l~~H~~~h~~~------------~-~~~C~--~C~~~~~~~~~l~~H~~~~~~~~~~~C 102 (306)
....|.|. .|+..|.+...|..|+..|..- + .+.|. .|...+.++..|++|++.|.+++..-|
T Consensus 131 ~g~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvAC 210 (467)
T KOG3608|consen 131 LGQNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVAC 210 (467)
T ss_pred chhhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEec
Confidence 34446674 6888888888888887655321 0 12222 244444455555555555555555555
Q ss_pred CCChhhhccHHHHHHHHHhcc--cCCccccCcchhhccchHHHHHHhhhcCCCCCcccccccccccccccccccCcceec
Q psy4573 103 NQCDHVAKKLAYLQAHMKKHR--NEYTAYCDLCQEGFFRKAKYETHNIQKHNAPPFECESCKKIFTYHKNTTHLGIKFEC 180 (306)
Q Consensus 103 ~~C~~~f~~~~~l~~H~~~~~--~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~~~~~~~~~~~~C 180 (306)
+.|+..|.++..|.-|++.-+ ...+|+|..|.+.|.+...|..|+..+.. -|+|
T Consensus 211 p~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn------------------------~ykC 266 (467)
T KOG3608|consen 211 PHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN------------------------CYKC 266 (467)
T ss_pred chHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh------------------------cccc
Confidence 555555555555554543221 23345555555555555555555333332 5899
Q ss_pred cccccccCChHHHHHHHhh-ccCCCCcccCcCCCccCCcHHHHHHHHHccCCCCcccCc--ccCcCCChhHHHHHHhhcc
Q psy4573 181 EVCHRKLSTKNHLRLHMRT-HTNERPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEI--CGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 181 ~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~ 257 (306)
++|..+....++|.+|++. |..++||+|..|++.|...+.|..|+..|. +..|.|.. |.++|.....|++|++.++
T Consensus 267 plCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 267 PLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred cccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhc
Confidence 9999999999999999997 888999999999999999999999999888 67799987 9999999999999998776
Q ss_pred ---CCCcccCCcchHhhcChHHHHHHhhhcCCC
Q psy4573 258 ---GEIPYHCEFCSERFSTKALVRHHVRSHHSS 287 (306)
Q Consensus 258 ---~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 287 (306)
++.+|.|-.|++.|++-.+|.+|+.+.|+=
T Consensus 346 Eg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f 378 (467)
T KOG3608|consen 346 EGNNPILYACHCCDRFFTSGKSLSAHLMKKHGF 378 (467)
T ss_pred cCCCCCceeeecchhhhccchhHHHHHHHhhcc
Confidence 355699999999999999999999888864
No 5
>KOG3608|consensus
Probab=99.93 E-value=1.4e-25 Score=182.90 Aligned_cols=236 Identities=24% Similarity=0.467 Sum_probs=197.5
Q ss_pred ccccc--ccccccCC-hHHHHHHhhhc-----------------CCC-----------------Cceecc--cchhccCC
Q psy4573 43 SLACN--VCSKRCGS-KSGLKIHMKSH-----------------TLS-----------------KRYACS--ICLAEFHT 83 (306)
Q Consensus 43 ~~~C~--~C~~~f~~-~~~l~~H~~~h-----------------~~~-----------------~~~~C~--~C~~~~~~ 83 (306)
.+.|. .|++...+ ..+|.+|.-.| ... ..|.|. .|++.|.+
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 57774 78877765 58899987433 000 125554 48999999
Q ss_pred hHHHhhhhhhcccC------------Cc-ccC--CCChhhhccHHHHHHHHHhcccCCccccCcchhhccchHHHHHHhh
Q psy4573 84 LTEKDRHTLSHVVE------------GE-YKC--NQCDHVAKKLAYLQAHMKKHRNEYTAYCDLCQEGFFRKAKYETHNI 148 (306)
Q Consensus 84 ~~~l~~H~~~~~~~------------~~-~~C--~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~ 148 (306)
...+..|+..|.-. +| +.| ..|.+.+.+++.|++|++.|.+++...|+.||.-|.++..|-.|.+
T Consensus 149 ~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~r 228 (467)
T KOG3608|consen 149 IVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLR 228 (467)
T ss_pred HHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHH
Confidence 99999998766321 11 344 4589999999999999999999999999999999999999999977
Q ss_pred hcCCCCCcccccccccccccccccccCcceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHHH-
Q psy4573 149 QKHNAPPFECESCKKIFTYHKNTTHLGIKFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRI- 227 (306)
Q Consensus 149 ~~h~~~~~~c~~c~~~f~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~- 227 (306)
....-. ..+|.|..|.+.|+....|..|+..|. +-|+|+.|+......+.|..|++.
T Consensus 229 Rqt~l~--------------------~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~r 286 (467)
T KOG3608|consen 229 RQTELN--------------------TNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYR 286 (467)
T ss_pred hhhhhc--------------------CCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhh
Confidence 766321 126889999999999999999999987 569999999999999999999985
Q ss_pred ccCCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCc--chHhhcChHHHHHHhhhcC-CCCC--CCcccccccchh
Q psy4573 228 HTGQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEF--CSERFSTKALVRHHVRSHH-SSAR--LGLNLLDHELSM 301 (306)
Q Consensus 228 h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h-~~~~--~~C~~c~~~~~~ 301 (306)
|...+||+|+.|++.|.+.++|.+|+..|. +..|+|.. |.++|.+..+|.+|++.+| ++.+ |.|..|++.|+.
T Consensus 287 Hs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~ 364 (467)
T KOG3608|consen 287 HSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTS 364 (467)
T ss_pred hccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhcc
Confidence 888999999999999999999999999777 77799988 9999999999999999999 4433 999999999875
No 6
>KOG1074|consensus
Probab=99.89 E-value=1.6e-24 Score=194.39 Aligned_cols=81 Identities=38% Similarity=0.746 Sum_probs=73.7
Q ss_pred ceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHHHccCC----CCcccC---cccCcCCChhHH
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRIHTGQ----RPYVCE---ICGKGFTQKQAL 249 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----~~~~C~---~C~~~f~~~~~L 249 (306)
+..|-+|.++..-.+.|+.|.++|+|++||+|.+||+.|.++.+|+.|+.+|... .++.|+ +|-+.|.+.-.|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 4669999999999999999999999999999999999999999999999998654 347798 899999999999
Q ss_pred HHHHhhcc
Q psy4573 250 NTHKRGHT 257 (306)
Q Consensus 250 ~~H~~~h~ 257 (306)
..|+++|.
T Consensus 685 pQhIriH~ 692 (958)
T KOG1074|consen 685 PQHIRIHL 692 (958)
T ss_pred cceEEeec
Confidence 99999887
No 7
>KOG3623|consensus
Probab=99.89 E-value=9.2e-24 Score=186.65 Aligned_cols=109 Identities=27% Similarity=0.519 Sum_probs=96.6
Q ss_pred cccccccccccCChHHHHHHhhh-cCC-CCceecccchhccCChHHHhhhhhhcccC-------------CcccCCCChh
Q psy4573 43 SLACNVCSKRCGSKSGLKIHMKS-HTL-SKRYACSICLAEFHTLTEKDRHTLSHVVE-------------GEYKCNQCDH 107 (306)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~-h~~-~~~~~C~~C~~~~~~~~~l~~H~~~~~~~-------------~~~~C~~C~~ 107 (306)
..+|+.|++.+.+...|+.|++. |.. +..|.|.+|..+|..+..|.+|+..|... +.|+|.+|++
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 37899999999999999999875 433 55799999999999999999999988543 3499999999
Q ss_pred hhccHHHHHHHHHhcccCCccccCcchhhccchHHHHHHhhhcC
Q psy4573 108 VAKKLAYLQAHMKKHRNEYTAYCDLCQEGFFRKAKYETHNIQKH 151 (306)
Q Consensus 108 ~f~~~~~l~~H~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h 151 (306)
.|..+-.|+.|+++|.|++||.|+.|++.|....++..|+.+.-
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSKK 333 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSKK 333 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccccc
Confidence 99999999999999999999999999999999999999976543
No 8
>KOG3623|consensus
Probab=99.83 E-value=6.4e-21 Score=168.86 Aligned_cols=119 Identities=29% Similarity=0.531 Sum_probs=96.1
Q ss_pred ccCCCChhhhccHHHHHHHHHhc--ccCCccccCcchhhccchHHHHHHhhhcCCCCCcccccccccccccccccccCcc
Q psy4573 100 YKCNQCDHVAKKLAYLQAHMKKH--RNEYTAYCDLCQEGFFRKAKYETHNIQKHNAPPFECESCKKIFTYHKNTTHLGIK 177 (306)
Q Consensus 100 ~~C~~C~~~f~~~~~l~~H~~~~--~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~~~~~~~~~~ 177 (306)
..|+.|.+.+.....|+.|++.- ..+..|.|..|.++|.+...|.+|+..+....+-. ..-......+.
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa---------~sltqsa~lRK 281 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA---------ISLTQSALLRK 281 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc---------ccccchhhhcc
Confidence 78999999999999999998643 45668999999999999999999988887332100 00001122347
Q ss_pred eeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHHH
Q psy4573 178 FECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRI 227 (306)
Q Consensus 178 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 227 (306)
|+|..|++.|..+..|+.|+++|.|++||.|+.|++.|..+..+..|+..
T Consensus 282 FKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 282 FKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred ccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 99999999999999999999999999999999999999998888888753
No 9
>KOG3576|consensus
Probab=99.74 E-value=3.9e-19 Score=134.71 Aligned_cols=115 Identities=34% Similarity=0.706 Sum_probs=108.3
Q ss_pred CcceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHHHHHHh
Q psy4573 175 GIKFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALNTHKR 254 (306)
Q Consensus 175 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 254 (306)
...|.|.+|++.|.....|++|++.|...+.|.|..||+.|.+.-.|.+|+++|+|.+||+|..|++.|+.+..|..|++
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 44799999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hccC-----------CCcccCCcchHhhcChHHHHHHhhhcCCCCC
Q psy4573 255 GHTG-----------EIPYHCEFCSERFSTKALVRHHVRSHHSSAR 289 (306)
Q Consensus 255 ~h~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 289 (306)
..++ .+.|.|..|+++-...+.+..|++.+|+..+
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 7776 3468999999999999999999999998765
No 10
>KOG3576|consensus
Probab=99.69 E-value=9e-18 Score=127.35 Aligned_cols=119 Identities=29% Similarity=0.480 Sum_probs=109.0
Q ss_pred hhcCCcccccccccccCChHHHHHHhhhcCCCCceecccchhccCChHHHhhhhhhcccCCcccCCCChhhhccHHHHHH
Q psy4573 38 VEQDGSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTEKDRHTLSHVVEGEYKCNQCDHVAKKLAYLQA 117 (306)
Q Consensus 38 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~ 117 (306)
..+...|.|..|++.|..+..|.+|++-|...+.+.|..||+.|+..-+|.+|+++|.+..||+|..|++.|..+-.|..
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsles 191 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLES 191 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHH
Confidence 44567799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccc-----------CCccccCcchhhccchHHHHHHhhhcCCCCCc
Q psy4573 118 HMKKHRN-----------EYTAYCDLCQEGFFRKAKYETHNIQKHNAPPF 156 (306)
Q Consensus 118 H~~~~~~-----------~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~ 156 (306)
|++.-++ .+.|.|+.||.+......+..|+..+|+..|+
T Consensus 192 hl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 192 HLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred HHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 9876554 46789999999999999999999999976654
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.29 E-value=1.3e-11 Score=110.81 Aligned_cols=147 Identities=17% Similarity=0.395 Sum_probs=105.0
Q ss_pred cccCcchhhccchHHHHHHhhhcCCCCCcccc--cccccccccccccccCcceeccccccccCChHHHHHHHhhccCCCC
Q psy4573 128 AYCDLCQEGFFRKAKYETHNIQKHNAPPFECE--SCKKIFTYHKNTTHLGIKFECEVCHRKLSTKNHLRLHMRTHTNERP 205 (306)
Q Consensus 128 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~c~--~c~~~f~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 205 (306)
..|+.|...... ..|..|. ..-......|+ .|+..|...... ..+.|+.|+..|. ...|..|+..++ .+
T Consensus 408 V~C~NC~~~i~l-~~l~lHe-~~C~r~~V~Cp~~~Cg~v~~r~el~----~H~~C~~Cgk~f~-~s~LekH~~~~H--kp 478 (567)
T PLN03086 408 VECRNCKHYIPS-RSIALHE-AYCSRHNVVCPHDGCGIVLRVEEAK----NHVHCEKCGQAFQ-QGEMEKHMKVFH--EP 478 (567)
T ss_pred EECCCCCCccch-hHHHHHH-hhCCCcceeCCcccccceeeccccc----cCccCCCCCCccc-hHHHHHHHHhcC--CC
Confidence 356666554433 3344553 22233344555 366666433332 2358999999886 677999999975 78
Q ss_pred cccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCC----------ChhHHHHHHhhccCCCcccCCcchHhhcChH
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFT----------QKQALNTHKRGHTGEIPYHCEFCSERFSTKA 275 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~ 275 (306)
+.|+ |+..+ ....|..|+.+|.+.+++.|..|++.|. ....|..|... .+.+++.|..|++.+.. .
T Consensus 479 v~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG~rt~~C~~Cgk~Vrl-r 554 (567)
T PLN03086 479 LQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI-CGSRTAPCDSCGRSVML-K 554 (567)
T ss_pred ccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh-cCCcceEccccCCeeee-h
Confidence 9999 99755 6689999999999999999999999884 23578899887 48889999999988754 4
Q ss_pred HHHHHhhhcCCC
Q psy4573 276 LVRHHVRSHHSS 287 (306)
Q Consensus 276 ~l~~H~~~~h~~ 287 (306)
.|..|+...|..
T Consensus 555 dm~~H~~~~h~~ 566 (567)
T PLN03086 555 EMDIHQIAVHQK 566 (567)
T ss_pred hHHHHHHHhhcC
Confidence 588888887753
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.19 E-value=1.6e-11 Score=110.31 Aligned_cols=93 Identities=17% Similarity=0.409 Sum_probs=80.6
Q ss_pred CCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhhc----------C
Q psy4573 204 RPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERFS----------T 273 (306)
Q Consensus 204 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~----------~ 273 (306)
+.+.|+.|++.|. ...|..|+.+++ .++.|+ ||..+ .+..|..|+..|.+.+++.|++|++.|. .
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 4578999999996 678999999985 789999 99755 7799999999999999999999999985 2
Q ss_pred hHHHHHHhhhcCCCCCCCcccccccchhh
Q psy4573 274 KALVRHHVRSHHSSARLGLNLLDHELSMI 302 (306)
Q Consensus 274 ~~~l~~H~~~~h~~~~~~C~~c~~~~~~~ 302 (306)
...|..|.... +..++.|..|++.+..+
T Consensus 527 ~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr 554 (567)
T PLN03086 527 LRGMSEHESIC-GSRTAPCDSCGRSVMLK 554 (567)
T ss_pred hhhHHHHHHhc-CCcceEccccCCeeeeh
Confidence 45899998884 88999999999987654
No 13
>PHA00733 hypothetical protein
Probab=99.17 E-value=2.7e-11 Score=89.01 Aligned_cols=95 Identities=20% Similarity=0.339 Sum_probs=68.9
Q ss_pred HHHHHHHhhccCCCCcccCcCCCccCCcHHHHHH--HH---HccCCCCcccCcccCcCCChhHHHHHHhhccCCCcccCC
Q psy4573 191 NHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEH--IR---IHTGQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCE 265 (306)
Q Consensus 191 ~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~ 265 (306)
..|.++-..--..+++.|.+|...|.....|..+ +. .+.+.+||.|+.||+.|.+...|..|++.+ ..+|.|.
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~ 103 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCP 103 (128)
T ss_pred HHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCC
Confidence 3444433332334667788888777776666655 22 234577899999999999999999998865 3468999
Q ss_pred cchHhhcChHHHHHHhhhcCCC
Q psy4573 266 FCSERFSTKALVRHHVRSHHSS 287 (306)
Q Consensus 266 ~C~~~f~~~~~l~~H~~~~h~~ 287 (306)
.|+++|.....|..|+.+.|+.
T Consensus 104 ~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 104 VCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCCccCCHHHHHHHHHHhcCc
Confidence 9999999999999999888865
No 14
>PHA00733 hypothetical protein
Probab=99.05 E-value=2.9e-10 Score=83.60 Aligned_cols=80 Identities=23% Similarity=0.384 Sum_probs=60.2
Q ss_pred ceeccccccccCChHHH------HHHHhhccCCCCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHHH
Q psy4573 177 KFECEVCHRKLSTKNHL------RLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALN 250 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l------~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 250 (306)
++.|.+|...|.....| .+|+. +.+.+||.|+.|++.|.+...|..|++.+ +.+|.|++|++.|.....|.
T Consensus 40 ~~~~~~~~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~ 116 (128)
T PHA00733 40 RLIRAVVKTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTL 116 (128)
T ss_pred hHHHHHHhhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHH
Confidence 34444444444444444 44433 34578999999999999999999999876 35799999999999999999
Q ss_pred HHHhhccCC
Q psy4573 251 THKRGHTGE 259 (306)
Q Consensus 251 ~H~~~h~~~ 259 (306)
.|+...|+.
T Consensus 117 ~H~~~~h~~ 125 (128)
T PHA00733 117 DHVCKKHNI 125 (128)
T ss_pred HHHHHhcCc
Confidence 999877653
No 15
>KOG3993|consensus
Probab=99.02 E-value=6.2e-11 Score=100.09 Aligned_cols=199 Identities=20% Similarity=0.317 Sum_probs=126.0
Q ss_pred ceecccchhccCChHHHhhhhhhcccCCcccCCCChhhhccHHHHHHHHHhcccCCccccCcchhhccchHHHHHHhhhc
Q psy4573 71 RYACSICLAEFHTLTEKDRHTLSHVVEGEYKCNQCDHVAKKLAYLQAHMKKHRNEYTAYCDLCQEGFFRKAKYETHNIQK 150 (306)
Q Consensus 71 ~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~ 150 (306)
.|.|.+|...|.+.-.|.+|.-.......|+|++|++.|+-..+|..|.+.|.....-- .
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa--------------------~ 326 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAA--------------------K 326 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhh--------------------h
Confidence 48888888888888888888755444556888888888888888888888886432100 0
Q ss_pred CCCCCccc-cccccccccc--ccccccCcceeccccccccCChHHHHHHHhhccCCCC-----------------cccCc
Q psy4573 151 HNAPPFEC-ESCKKIFTYH--KNTTHLGIKFECEVCHRKLSTKNHLRLHMRTHTNERP-----------------AVCSY 210 (306)
Q Consensus 151 h~~~~~~c-~~c~~~f~~~--~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~-----------------~~C~~ 210 (306)
.+..|-+- ...+...... +-....+..|.|..|++.|+....|+.|+.+|..... +.+..
T Consensus 327 a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~ 406 (500)
T KOG3993|consen 327 AGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQA 406 (500)
T ss_pred cCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccc
Confidence 00000000 0000000000 0011223389999999999999999999888753211 22344
Q ss_pred CCCccCCcHHHHHHHHHccC-CCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhhcChHHHHHHhhhcCCCCC
Q psy4573 211 CGKGFRRGDALTEHIRIHTG-QRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERFSTKALVRHHVRSHHSSAR 289 (306)
Q Consensus 211 C~~~f~~~~~l~~H~~~h~~-~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 289 (306)
++-.+.....-..++-.+.+ ..-..++.++..++++..=-.+.+.-..++.|.|.+|.-+|.....|.+|+..-|+...
T Consensus 407 ~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse~ 486 (500)
T KOG3993|consen 407 VATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSEL 486 (500)
T ss_pred cccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHHh
Confidence 44333322222222222211 12245788888888877766777666777889999999999999999999999888643
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.82 E-value=1.4e-09 Score=65.82 Aligned_cols=41 Identities=24% Similarity=0.493 Sum_probs=20.2
Q ss_pred cccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhhcChHH
Q psy4573 234 YVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERFSTKAL 276 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~ 276 (306)
|.|++||+.|+..+.|..|+++|. ++|+|..|++.|...+.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGE 46 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccce
Confidence 445555555555555555555544 34455555555544433
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.75 E-value=3e-09 Score=64.33 Aligned_cols=42 Identities=17% Similarity=0.367 Sum_probs=21.3
Q ss_pred cccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHH
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQAL 249 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L 249 (306)
|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 445555555555555555555554 345555555555544443
No 18
>KOG3993|consensus
Probab=98.54 E-value=2.8e-08 Score=84.36 Aligned_cols=188 Identities=17% Similarity=0.189 Sum_probs=116.5
Q ss_pred CcccccccccccCChHHHHHHhhhcCCCCceecccchhccCChHHHhhhhhhcccCCcccC---CCChhhhccHHHHHHH
Q psy4573 42 GSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTEKDRHTLSHVVEGEYKC---NQCDHVAKKLAYLQAH 118 (306)
Q Consensus 42 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~C---~~C~~~f~~~~~l~~H 118 (306)
+.|.|..|...|.....|..|.-.-.-.-.|.|+.|+++|+.-.+|..|.+.|.....--= +-=.+........+.-
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 3499999999999999999996543334469999999999999999999998854321100 0000000011111111
Q ss_pred HHh--cccCCccccCcchhhccchHHHHHHhhhcCCC-CC-------c---------cccccccccccccc-------cc
Q psy4573 119 MKK--HRNEYTAYCDLCQEGFFRKAKYETHNIQKHNA-PP-------F---------ECESCKKIFTYHKN-------TT 172 (306)
Q Consensus 119 ~~~--~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~-~~-------~---------~c~~c~~~f~~~~~-------~~ 172 (306)
.+. ...+..|.|..|++.|....+|+.|+..++.. .. + -+..+...+..... ..
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a 425 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVA 425 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeee
Confidence 110 12345789999999999999999998887721 10 1 12222222221111 01
Q ss_pred ccCcceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHHHcc
Q psy4573 173 HLGIKFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRIHT 229 (306)
Q Consensus 173 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 229 (306)
.......++.++-.+.++..--.+.+.-..+..|.|.+|.-.|.++..|.+|+...+
T Consensus 426 ~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 426 GSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred ccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcC
Confidence 111234577788666666544444444445667899999999999999999987643
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=98.47 E-value=9.1e-08 Score=49.39 Aligned_cols=20 Identities=55% Similarity=1.301 Sum_probs=7.6
Q ss_pred HHHHHccCCCCcccCcccCc
Q psy4573 223 EHIRIHTGQRPYVCEICGKG 242 (306)
Q Consensus 223 ~H~~~h~~~~~~~C~~C~~~ 242 (306)
.|+++|++++||.|++|++.
T Consensus 4 ~H~~~H~~~k~~~C~~C~k~ 23 (26)
T PF13465_consen 4 RHMRTHTGEKPYKCPYCGKS 23 (26)
T ss_dssp HHHHHHSSSSSEEESSSSEE
T ss_pred HHhhhcCCCCCCCCCCCcCe
Confidence 33333333333333333333
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=98.46 E-value=5.9e-08 Score=50.09 Aligned_cols=25 Identities=52% Similarity=1.103 Sum_probs=17.9
Q ss_pred HHHHHHhhccCCCcccCCcchHhhc
Q psy4573 248 ALNTHKRGHTGEIPYHCEFCSERFS 272 (306)
Q Consensus 248 ~L~~H~~~h~~~~~~~C~~C~~~f~ 272 (306)
+|.+|+++|.++++|.|++|+++|.
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 3667777777777777777777764
No 21
>PHA00616 hypothetical protein
Probab=98.45 E-value=6.8e-08 Score=55.55 Aligned_cols=32 Identities=25% Similarity=0.374 Sum_probs=16.4
Q ss_pred cccCcccCcCCChhHHHHHHhhccCCCcccCC
Q psy4573 234 YVCEICGKGFTQKQALNTHKRGHTGEIPYHCE 265 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~ 265 (306)
|+|+.||+.|.+.+.|..|++.|++++++.|.
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 45555555555555555555555555554443
No 22
>PHA00732 hypothetical protein
Probab=98.28 E-value=4.7e-07 Score=60.33 Aligned_cols=46 Identities=33% Similarity=0.491 Sum_probs=25.9
Q ss_pred CcccCcCCCccCCcHHHHHHHHH-ccCCCCcccCcccCcCCChhHHHHHHhhc
Q psy4573 205 PAVCSYCGKGFRRGDALTEHIRI-HTGQRPYVCEICGKGFTQKQALNTHKRGH 256 (306)
Q Consensus 205 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 256 (306)
||.|..|++.|.+...|..|++. |. ++.|+.||+.|. .|..|.++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 35566666666666666666653 33 235666666665 355555443
No 23
>PHA00616 hypothetical protein
Probab=98.27 E-value=6e-07 Score=51.66 Aligned_cols=33 Identities=33% Similarity=0.520 Sum_probs=30.8
Q ss_pred cccCCcchHhhcChHHHHHHhhhcCCCCCCCcc
Q psy4573 261 PYHCEFCSERFSTKALVRHHVRSHHSSARLGLN 293 (306)
Q Consensus 261 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~C~ 293 (306)
+|+|+.||+.|.+.+.|.+|+++||+..++.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 589999999999999999999999999988763
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=98.20 E-value=2.5e-06 Score=52.78 Aligned_cols=51 Identities=27% Similarity=0.582 Sum_probs=32.1
Q ss_pred CcccCcccCcCCChhHHHHHHhhccC--CCcccCCcchHhhcChHHHHHHhhhcCC
Q psy4573 233 PYVCEICGKGFTQKQALNTHKRGHTG--EIPYHCEFCSERFSTKALVRHHVRSHHS 286 (306)
Q Consensus 233 ~~~C~~C~~~f~~~~~L~~H~~~h~~--~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 286 (306)
.|.||.|++. .+...|..|....|. .+.+.|++|...+. .+|..|+..+|+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 3677777773 455667777654433 23577777776544 377777777663
No 25
>PHA00732 hypothetical protein
Probab=98.14 E-value=2.1e-06 Score=57.20 Aligned_cols=46 Identities=33% Similarity=0.641 Sum_probs=26.7
Q ss_pred ceeccccccccCChHHHHHHHhh-ccCCCCcccCcCCCccCCcHHHHHHHHHc
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRT-HTNERPAVCSYCGKGFRRGDALTEHIRIH 228 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 228 (306)
||.|+.|++.|.+...|..|++. |. ++.|+.|++.|. .+..|+...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 35666666666666666666653 33 245666666665 345565443
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.94 E-value=1.7e-05 Score=48.98 Aligned_cols=49 Identities=33% Similarity=0.587 Sum_probs=25.4
Q ss_pred cccCcCCCccCCcHHHHHHHHH-ccC-CCCcccCcccCcCCChhHHHHHHhhcc
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRI-HTG-QRPYVCEICGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~-h~~-~~~~~C~~C~~~f~~~~~L~~H~~~h~ 257 (306)
|.|++|++ ..+...|..|+.. |.. .+.+.||+|...+. .+|..|+..++
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 55666666 3344556666543 332 23456666665433 36666665543
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.76 E-value=1.2e-05 Score=40.12 Aligned_cols=20 Identities=50% Similarity=1.011 Sum_probs=8.8
Q ss_pred ccCcccCcCCChhHHHHHHh
Q psy4573 235 VCEICGKGFTQKQALNTHKR 254 (306)
Q Consensus 235 ~C~~C~~~f~~~~~L~~H~~ 254 (306)
+|++|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 34444444444444444443
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.66 E-value=3.6e-05 Score=38.35 Aligned_cols=22 Identities=36% Similarity=0.963 Sum_probs=14.4
Q ss_pred eeccccccccCChHHHHHHHhh
Q psy4573 178 FECEVCHRKLSTKNHLRLHMRT 199 (306)
Q Consensus 178 ~~C~~C~~~f~~~~~l~~H~~~ 199 (306)
|.|+.|++.|.+...|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666654
No 29
>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=97.63 E-value=2.7e-05 Score=39.16 Aligned_cols=24 Identities=38% Similarity=1.034 Sum_probs=11.5
Q ss_pred ccCCcchHhhcChHHHHHHhhhcC
Q psy4573 262 YHCEFCSERFSTKALVRHHVRSHH 285 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~~~h 285 (306)
|.|++|++.|.+...|..|+.++|
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 345555555555555555555443
No 30
>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=97.56 E-value=3.9e-05 Score=39.90 Aligned_cols=24 Identities=46% Similarity=0.945 Sum_probs=13.1
Q ss_pred cccCcccCcCCChhHHHHHHhhcc
Q psy4573 234 YVCEICGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~h~ 257 (306)
|.|..|++.|.+...|..|++.|.
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhc
Confidence 455555555555555555555443
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=97.53 E-value=5.1e-05 Score=38.09 Aligned_cols=24 Identities=46% Similarity=0.956 Sum_probs=14.0
Q ss_pred cccCcccCcCCChhHHHHHHhhcc
Q psy4573 234 YVCEICGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~h~ 257 (306)
|.|++|++.|.+...|..|++.|+
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 456666666666666666666543
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.50 E-value=5e-05 Score=53.59 Aligned_cols=20 Identities=30% Similarity=0.685 Sum_probs=0.0
Q ss_pred ccccccccCChHHHHHHHhh
Q psy4573 180 CEVCHRKLSTKNHLRLHMRT 199 (306)
Q Consensus 180 C~~C~~~f~~~~~l~~H~~~ 199 (306)
|..|+..|.+...|..|+..
T Consensus 2 C~~C~~~f~~~~~l~~H~~~ 21 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKK 21 (100)
T ss_dssp --------------------
T ss_pred cccccccccccccccccccc
Confidence 55555555555555555544
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.41 E-value=8.1e-05 Score=52.49 Aligned_cols=73 Identities=19% Similarity=0.254 Sum_probs=17.1
Q ss_pred cccccccccCChHHHHHHhhhcCCCCceecccchhccCChHHHhhhhhhcccCCcccCCCChhhhccHHHHHHHHHhc
Q psy4573 45 ACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTEKDRHTLSHVVEGEYKCNQCDHVAKKLAYLQAHMKKH 122 (306)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 122 (306)
.|..|+..|.+...|..|+...++...- ....+.....+..+++... ...+.|.+|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc----ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 4777888888888888887665543211 1111122333333333221 22477777777777777777777654
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=97.36 E-value=7.7e-05 Score=38.77 Aligned_cols=26 Identities=42% Similarity=0.894 Sum_probs=24.0
Q ss_pred cccCCcchHhhcChHHHHHHhhhcCC
Q psy4573 261 PYHCEFCSERFSTKALVRHHVRSHHS 286 (306)
Q Consensus 261 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 286 (306)
+|.|..|++.|.+...|..|++.|++
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 58999999999999999999988875
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.16 E-value=0.00014 Score=60.08 Aligned_cols=53 Identities=26% Similarity=0.698 Sum_probs=44.1
Q ss_pred CCCCcccCc--ccCcCCChhHHHHHHhhcc-------------------CCCcccCCcchHhhcChHHHHHHhh
Q psy4573 230 GQRPYVCEI--CGKGFTQKQALNTHKRGHT-------------------GEIPYHCEFCSERFSTKALVRHHVR 282 (306)
Q Consensus 230 ~~~~~~C~~--C~~~f~~~~~L~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 282 (306)
+++||+|++ |.+.+.++-.|.-|+.--| ..+||+|+.|++.+.+...|..|..
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 458999976 9999999999999986433 2478999999999999999998854
No 36
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.95 E-value=0.0003 Score=35.32 Aligned_cols=24 Identities=38% Similarity=0.822 Sum_probs=13.6
Q ss_pred ccCCcchHhhcChHHHHHHhhhcCC
Q psy4573 262 YHCEFCSERFSTKALVRHHVRSHHS 286 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~~~h~ 286 (306)
|+|+.|++... ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 45666666665 6666666666553
No 37
>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=96.67 E-value=0.0013 Score=38.87 Aligned_cols=24 Identities=29% Similarity=0.504 Sum_probs=8.4
Q ss_pred cccCcccCcCCChhHHHHHHhhcc
Q psy4573 234 YVCEICGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~h~ 257 (306)
-.|++|+..+....+|.+|+..+|
T Consensus 25 atCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 25 ATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp EE-TTT--EESSHHHHHHHHHHHT
T ss_pred CCCCcchhhccchhhHHHHHHHHh
Confidence 334444444444444444443333
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.65 E-value=0.0017 Score=32.92 Aligned_cols=19 Identities=53% Similarity=0.936 Sum_probs=7.7
Q ss_pred cCcccCcCCChhHHHHHHh
Q psy4573 236 CEICGKGFTQKQALNTHKR 254 (306)
Q Consensus 236 C~~C~~~f~~~~~L~~H~~ 254 (306)
|+.|++.|.+...|..|++
T Consensus 3 C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 3 CPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCcchhCCHHHHHHHHH
Confidence 3344444444444444433
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.53 E-value=0.0021 Score=32.49 Aligned_cols=24 Identities=33% Similarity=0.863 Sum_probs=21.6
Q ss_pred ccCCcchHhhcChHHHHHHhhhcC
Q psy4573 262 YHCEFCSERFSTKALVRHHVRSHH 285 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~~~h 285 (306)
|.|..|+++|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999998654
No 40
>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=96.50 E-value=0.0021 Score=37.92 Aligned_cols=34 Identities=21% Similarity=0.416 Sum_probs=24.6
Q ss_pred ccCCCcccCCcchHhhcChHHHHHHhhhcCCCCC
Q psy4573 256 HTGEIPYHCEFCSERFSTKALVRHHVRSHHSSAR 289 (306)
Q Consensus 256 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 289 (306)
+-.++|-.|++|+..+.+..+|.+|+...|+.++
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3457788999999999999999999999998654
No 41
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.43 E-value=0.0072 Score=50.82 Aligned_cols=128 Identities=24% Similarity=0.419 Sum_probs=86.2
Q ss_pred cccccc--cccccCChHHHHHHhhhcCCCCceecccch---hcc------CChHHHhhhhhhcccCCc----ccCCCChh
Q psy4573 43 SLACNV--CSKRCGSKSGLKIHMKSHTLSKRYACSICL---AEF------HTLTEKDRHTLSHVVEGE----YKCNQCDH 107 (306)
Q Consensus 43 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~~------~~~~~l~~H~~~~~~~~~----~~C~~C~~ 107 (306)
.|.||. |..+......|..|.++.++. +.|.+|- +.| .++..|..|...-..+.- =.|..|..
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccc
Confidence 488874 788888889999999886654 7788883 233 345566667643222212 25999999
Q ss_pred hhccHHHHHHHHHhcccCCccccCcchhh-------ccchHHHHHHhhhcCCCCCcccccccccccccccccccCcceec
Q psy4573 108 VAKKLAYLQAHMKKHRNEYTAYCDLCQEG-------FFRKAKYETHNIQKHNAPPFECESCKKIFTYHKNTTHLGIKFEC 180 (306)
Q Consensus 108 ~f~~~~~l~~H~~~~~~~~~~~C~~C~~~-------~~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~~~~~~~~~~~~C 180 (306)
.|-+...|..|++..+.. |-+|+.. |.+...|..|++..|- .|..
T Consensus 229 ~FYdDDEL~~HcR~~HE~----ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy----~ct~-------------------- 280 (493)
T COG5236 229 YFYDDDELRRHCRLRHEA----CHICDMVGPIRYQYFKSYEDLEAHFRNAHY----CCTF-------------------- 280 (493)
T ss_pred eecChHHHHHHHHhhhhh----hhhhhccCccchhhhhCHHHHHHHhhcCce----EEEE--------------------
Confidence 999999999999876643 5555543 6677888888776662 1211
Q ss_pred cccc----cccCChHHHHHHHhhc
Q psy4573 181 EVCH----RKLSTKNHLRLHMRTH 200 (306)
Q Consensus 181 ~~C~----~~f~~~~~l~~H~~~h 200 (306)
..|- .+|++...|..|+...
T Consensus 281 qtc~~~k~~vf~~~~el~~h~~~~ 304 (493)
T COG5236 281 QTCRVGKCYVFPYHTELLEHLTRF 304 (493)
T ss_pred EEEecCcEEEeccHHHHHHHHHHH
Confidence 0121 3588888899998653
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.41 E-value=0.0018 Score=32.42 Aligned_cols=23 Identities=30% Similarity=0.629 Sum_probs=11.7
Q ss_pred cccCcccCcCCChhHHHHHHhhcc
Q psy4573 234 YVCEICGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~h~ 257 (306)
|+|+.|+.... ...|.+|++.++
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 45556665555 555666655543
No 43
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.23 E-value=0.0014 Score=54.36 Aligned_cols=51 Identities=22% Similarity=0.444 Sum_probs=35.9
Q ss_pred CCcccCCC--ChhhhccHHHHHHHHHhcc-------------------cCCccccCcchhhccchHHHHHHh
Q psy4573 97 EGEYKCNQ--CDHVAKKLAYLQAHMKKHR-------------------NEYTAYCDLCQEGFFRKAKYETHN 147 (306)
Q Consensus 97 ~~~~~C~~--C~~~f~~~~~l~~H~~~~~-------------------~~~~~~C~~C~~~~~~~~~l~~H~ 147 (306)
++||+|++ |++.+.+.-.|+.|+..-+ .++||+|++|++.+.....|+.|+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 47788866 7788888778887775433 136777777777777777777663
No 44
>KOG1146|consensus
Probab=96.07 E-value=0.003 Score=62.13 Aligned_cols=111 Identities=16% Similarity=0.287 Sum_probs=72.9
Q ss_pred CCcccccccccccCChHHHHHHhhhcCCCCceecccchhccCChHHHhhhhhhcccCCcccCCCChhhhccHHHHHHHHH
Q psy4573 41 DGSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTEKDRHTLSHVVEGEYKCNQCDHVAKKLAYLQAHMK 120 (306)
Q Consensus 41 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 120 (306)
.+.+.|+.|++.|.....|..||+.-+.+..- .+|... .....+.+-...-.+..+|.|..|...+....+|.+|++
T Consensus 463 ~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~g-q~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 463 FKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKAG-QNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred cccccCCccchhhhhHHHhhhcccccccccch--hHhHhc-cccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 36788999999999999999998885444322 333322 122222222223345677888888888888888888875
Q ss_pred hccc-------------------------------------------CCccccCcchhhccchHHHHHHhhhcCCCC
Q psy4573 121 KHRN-------------------------------------------EYTAYCDLCQEGFFRKAKYETHNIQKHNAP 154 (306)
Q Consensus 121 ~~~~-------------------------------------------~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~ 154 (306)
.-.. .-.|.|..|++......+|+.|+...+...
T Consensus 540 S~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~ 616 (1406)
T KOG1146|consen 540 SDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSS 616 (1406)
T ss_pred HHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCC
Confidence 4210 123678888888888888888877666433
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.05 E-value=0.0042 Score=31.35 Aligned_cols=22 Identities=32% Similarity=0.830 Sum_probs=14.1
Q ss_pred ccccccccccCChHHHHHHhhh
Q psy4573 44 LACNVCSKRCGSKSGLKIHMKS 65 (306)
Q Consensus 44 ~~C~~C~~~f~~~~~l~~H~~~ 65 (306)
|.|..|+..|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666654
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.01 E-value=0.0054 Score=30.95 Aligned_cols=22 Identities=41% Similarity=1.055 Sum_probs=14.4
Q ss_pred eeccccccccCChHHHHHHHhh
Q psy4573 178 FECEVCHRKLSTKNHLRLHMRT 199 (306)
Q Consensus 178 ~~C~~C~~~f~~~~~l~~H~~~ 199 (306)
|.|.+|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666654
No 47
>PRK04860 hypothetical protein; Provisional
Probab=95.90 E-value=0.0042 Score=47.54 Aligned_cols=34 Identities=26% Similarity=0.662 Sum_probs=16.0
Q ss_pred cccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcC
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGF 243 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 243 (306)
|.|. |+. ....+..|.++|+++++|.|..|+..|
T Consensus 120 Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l 153 (160)
T PRK04860 120 YRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETL 153 (160)
T ss_pred EEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCcee
Confidence 4444 443 333444455555544455555554444
No 48
>PRK04860 hypothetical protein; Provisional
Probab=95.89 E-value=0.0042 Score=47.54 Aligned_cols=37 Identities=24% Similarity=0.551 Sum_probs=25.0
Q ss_pred ceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCC
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRR 217 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 217 (306)
+|.|. |+. ....+.+|.++|.++++|.|..|+..|..
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 67776 766 45556777777777777777777766543
No 49
>KOG2785|consensus
Probab=95.59 E-value=0.036 Score=47.62 Aligned_cols=51 Identities=29% Similarity=0.510 Sum_probs=44.6
Q ss_pred CcccCcccCcCCChhHHHHHHhhccCCC-----------------------cccCCcch---HhhcChHHHHHHhhh
Q psy4573 233 PYVCEICGKGFTQKQALNTHKRGHTGEI-----------------------PYHCEFCS---ERFSTKALVRHHVRS 283 (306)
Q Consensus 233 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~-----------------------~~~C~~C~---~~f~~~~~l~~H~~~ 283 (306)
|-.|..|+..+.+...-..||..+|+-. -|.|=.|+ +.|......+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4679999999999999999999888732 27888899 999999999999976
No 50
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.57 E-value=0.0035 Score=32.38 Aligned_cols=21 Identities=24% Similarity=0.828 Sum_probs=10.1
Q ss_pred ccCCcchHhhcChHHHHHHhh
Q psy4573 262 YHCEFCSERFSTKALVRHHVR 282 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~ 282 (306)
|.|..|++.|.+...+..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 344455555555555444443
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=95.53 E-value=0.005 Score=31.80 Aligned_cols=22 Identities=27% Similarity=0.774 Sum_probs=17.1
Q ss_pred cccCcccCcCCChhHHHHHHhh
Q psy4573 234 YVCEICGKGFTQKQALNTHKRG 255 (306)
Q Consensus 234 ~~C~~C~~~f~~~~~L~~H~~~ 255 (306)
|.|..|++.|.+...|..|++.
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 6788888888888888877764
No 52
>KOG2231|consensus
Probab=95.32 E-value=0.04 Score=51.40 Aligned_cols=107 Identities=21% Similarity=0.404 Sum_probs=60.8
Q ss_pred eccccccccCChHHHHHHHhhccCCCCcccCcCCC---------ccCCcHHHHHHHHHccC-CCC----cccCcccCcCC
Q psy4573 179 ECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGK---------GFRRGDALTEHIRIHTG-QRP----YVCEICGKGFT 244 (306)
Q Consensus 179 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---------~f~~~~~l~~H~~~h~~-~~~----~~C~~C~~~f~ 244 (306)
.|..| -.|.+...|..|+.--+. .+.|.+|-. ...+...|..|+..-.. ++. -.|..|...|.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 46666 666677778888754321 244444332 22345566677654221 211 35777777788
Q ss_pred ChhHHHHHHhhccCCCcccC---CcchHhhcChHHHHHHhhhcCCCCC
Q psy4573 245 QKQALNTHKRGHTGEIPYHC---EFCSERFSTKALVRHHVRSHHSSAR 289 (306)
Q Consensus 245 ~~~~L~~H~~~h~~~~~~~C---~~C~~~f~~~~~l~~H~~~~h~~~~ 289 (306)
....|.+|++.++-.-.| | +.++.-|..-..|..|.+.+|.-..
T Consensus 194 d~~el~rH~~~~h~~chf-C~~~~~~neyy~~~~dLe~HfR~~HflCE 240 (669)
T KOG2231|consen 194 DDDELYRHLRFDHEFCHF-CDYKTGQNEYYNDYDDLEEHFRKGHFLCE 240 (669)
T ss_pred cHHHHHHhhccceeheee-cCcccccchhcccchHHHHHhhhcCcccc
Confidence 888887777755433221 2 2234556667777777777775444
No 53
>KOG2482|consensus
Probab=94.64 E-value=0.098 Score=44.21 Aligned_cols=153 Identities=19% Similarity=0.303 Sum_probs=91.5
Q ss_pred CccccCcchhhc-cchHHHHHHhhhcCCCCCcccccccccccccccccccC---cceeccccccccCChHHHHHHHhh--
Q psy4573 126 YTAYCDLCQEGF-FRKAKYETHNIQKHNAPPFECESCKKIFTYHKNTTHLG---IKFECEVCHRKLSTKNHLRLHMRT-- 199 (306)
Q Consensus 126 ~~~~C~~C~~~~-~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~~~~~~~~---~~~~C~~C~~~f~~~~~l~~H~~~-- 199 (306)
...+|-.|+..+ ...+.+..|+-..|+-.. +.-++...-.....+.. ..+.|-.|.+.|+++..|+.||+.
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lni---GlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~ 219 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNI---GLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKR 219 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhcc---CCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhcc
Confidence 456788888776 457777788777773210 00000000001111111 158899999999999999999987
Q ss_pred ccCCCC--------cccCc--CCCccCCcHHHHHHH--HHc---------------cCCCC--cccCcccCcCCChhHHH
Q psy4573 200 HTNERP--------AVCSY--CGKGFRRGDALTEHI--RIH---------------TGQRP--YVCEICGKGFTQKQALN 250 (306)
Q Consensus 200 h~~~~~--------~~C~~--C~~~f~~~~~l~~H~--~~h---------------~~~~~--~~C~~C~~~f~~~~~L~ 250 (306)
|..-+| |.=.+ -|++ ......+. .+. .+..+ .+|..|.....+...|.
T Consensus 220 HrrinPknreYDkfyiINY~ev~ks---~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~ 296 (423)
T KOG2482|consen 220 HRRINPKNREYDKFYIINYLEVGKS---WTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLF 296 (423)
T ss_pred CcccCCCccccceEEEEeHhhcCCc---cchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHH
Confidence 443333 11000 0111 11111111 111 11122 58999999999999999
Q ss_pred HHHhhccC---------------------------CCcccCCcchHhhcChHHHHHHhhhc
Q psy4573 251 THKRGHTG---------------------------EIPYHCEFCSERFSTKALVRHHVRSH 284 (306)
Q Consensus 251 ~H~~~h~~---------------------------~~~~~C~~C~~~f~~~~~l~~H~~~~ 284 (306)
.||+..|. .+.-.|-.|.-.|-.+..|..||..+
T Consensus 297 eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 297 EHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 99987663 11246999999999999999998653
No 54
>KOG2231|consensus
Probab=94.63 E-value=0.092 Score=49.06 Aligned_cols=22 Identities=18% Similarity=0.264 Sum_probs=11.5
Q ss_pred cCCCChhhhccHHHHHHHHHhc
Q psy4573 101 KCNQCDHVAKKLAYLQAHMKKH 122 (306)
Q Consensus 101 ~C~~C~~~f~~~~~l~~H~~~~ 122 (306)
.|..|...|.....|..|++.+
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~ 205 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFD 205 (669)
T ss_pred cchhhhhhhccHHHHHHhhccc
Confidence 3555555555555555555443
No 55
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.26 E-value=0.079 Score=37.59 Aligned_cols=76 Identities=22% Similarity=0.409 Sum_probs=42.1
Q ss_pred ceeccccccccCChHHHHHHHhhccC--CC------------CcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCc
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTN--ER------------PAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKG 242 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~--~~------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 242 (306)
|..|+.||.+..+...|.+-. |+- .. ...|-.|...|....... ...-.....|+|+.|...
T Consensus 15 P~~CpiCgLtLVss~HLARSy--HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 15 PVECPICGLTLILSTHLARSY--HHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCcCCcCCCEEeccchHHHhh--hccCCCcccccccccccCCCCcccCcCCCCCCccccc--ccccccccceeCCCCCCc
Confidence 678888988888888776642 210 01 123666776665442111 000122335667777666
Q ss_pred CCChhHHHHHHhhc
Q psy4573 243 FTQKQALNTHKRGH 256 (306)
Q Consensus 243 f~~~~~L~~H~~~h 256 (306)
|-..-++..|...|
T Consensus 91 FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 91 FCVDCDVFVHESLH 104 (112)
T ss_pred cccccchhhhhhcc
Confidence 66666666665544
No 56
>KOG2785|consensus
Probab=94.15 E-value=0.094 Score=45.12 Aligned_cols=51 Identities=24% Similarity=0.559 Sum_probs=43.0
Q ss_pred CcccCcCCCccCCcHHHHHHHHHccCC-----------------------CCcccCccc---CcCCChhHHHHHHhh
Q psy4573 205 PAVCSYCGKGFRRGDALTEHIRIHTGQ-----------------------RPYVCEICG---KGFTQKQALNTHKRG 255 (306)
Q Consensus 205 ~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~L~~H~~~ 255 (306)
|-.|-.|+..+.+-.....|+..+++- ..+.|..|+ +.|.+....+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 356999999999999999999887652 347898998 999999999999964
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.02 E-value=0.038 Score=27.89 Aligned_cols=20 Identities=20% Similarity=0.647 Sum_probs=11.9
Q ss_pred ccCCcchHhhcChHHHHHHhh
Q psy4573 262 YHCEFCSERFSTKALVRHHVR 282 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~ 282 (306)
..|++|++.| ..+.|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3566666666 5555666654
No 58
>KOG2482|consensus
Probab=93.92 E-value=0.087 Score=44.52 Aligned_cols=50 Identities=22% Similarity=0.403 Sum_probs=33.3
Q ss_pred cccccccccc-CChHHHHHHhhhcCC------C----------------CceecccchhccCChHHHhhhhhh
Q psy4573 44 LACNVCSKRC-GSKSGLKIHMKSHTL------S----------------KRYACSICLAEFHTLTEKDRHTLS 93 (306)
Q Consensus 44 ~~C~~C~~~f-~~~~~l~~H~~~h~~------~----------------~~~~C~~C~~~~~~~~~l~~H~~~ 93 (306)
..|-.|...+ ..++....|+-..++ + ..+.|-+|.+.|..+..|..||+.
T Consensus 145 lqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 145 LQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred eEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHh
Confidence 5688887766 445555566543211 1 147888888888888888888875
No 59
>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=93.53 E-value=0.096 Score=37.51 Aligned_cols=25 Identities=32% Similarity=0.648 Sum_probs=23.3
Q ss_pred ccC----CcchHhhcChHHHHHHhhhcCC
Q psy4573 262 YHC----EFCSERFSTKALVRHHVRSHHS 286 (306)
Q Consensus 262 ~~C----~~C~~~f~~~~~l~~H~~~~h~ 286 (306)
|.| ..|++...+...|..|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999999885
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.38 E-value=0.12 Score=43.79 Aligned_cols=135 Identities=26% Similarity=0.475 Sum_probs=70.6
Q ss_pred ccccCc--chhhccchHHHHHHhhhcCCCCCcccccc---cccccccccccccCcceeccccccccCChHHHHHHHhhcc
Q psy4573 127 TAYCDL--CQEGFFRKAKYETHNIQKHNAPPFECESC---KKIFTYHKNTTHLGIKFECEVCHRKLSTKNHLRLHMRTHT 201 (306)
Q Consensus 127 ~~~C~~--C~~~~~~~~~l~~H~~~~h~~~~~~c~~c---~~~f~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 201 (306)
.|.||. |.........|..|.+..|+. +.|.+| .+.|+.. ...-.+..|..|...-.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E----------------~~lF~~~~Lr~H~~~G~ 212 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNE----------------IRLFRSSTLRDHKNGGL 212 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccc----------------eeeeecccccccccCCc
Confidence 467764 777777777788887777753 334433 3333321 11222334555554433
Q ss_pred CCCCc----ccCcCCCccCCcHHHHHHHHHccCCCCcccCcccC-------cCCChhHHHHHHhhccCCCcccCCc--ch
Q psy4573 202 NERPA----VCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGK-------GFTQKQALNTHKRGHTGEIPYHCEF--CS 268 (306)
Q Consensus 202 ~~~~~----~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~L~~H~~~h~~~~~~~C~~--C~ 268 (306)
.+..| .|..|...|.+...|..|.+.-+ + +|-+|+. -|.+...|..|-+.-| |.|.. |-
T Consensus 213 ~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~H-E---~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~ 284 (493)
T COG5236 213 EEEGFKGHPLCIFCKIYFYDDDELRRHCRLRH-E---ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCR 284 (493)
T ss_pred cccCcCCCchhhhccceecChHHHHHHHHhhh-h---hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEe
Confidence 22222 36666666666666666665432 2 2333332 2555666666654211 33322 21
Q ss_pred ----HhhcChHHHHHHhhhcCCC
Q psy4573 269 ----ERFSTKALVRHHVRSHHSS 287 (306)
Q Consensus 269 ----~~f~~~~~l~~H~~~~h~~ 287 (306)
+.|.....|..|+...|+.
T Consensus 285 ~~k~~vf~~~~el~~h~~~~h~~ 307 (493)
T COG5236 285 VGKCYVFPYHTELLEHLTRFHKV 307 (493)
T ss_pred cCcEEEeccHHHHHHHHHHHhhc
Confidence 3567777777777776664
No 61
>KOG1146|consensus
Probab=92.50 E-value=0.041 Score=54.62 Aligned_cols=56 Identities=25% Similarity=0.462 Sum_probs=46.7
Q ss_pred ccCCCCcccCcccCcCCChhHHHHHHhhcc-------------------------CCCcccCCcchHhhcChHHHHHHhh
Q psy4573 228 HTGQRPYVCEICGKGFTQKQALNTHKRGHT-------------------------GEIPYHCEFCSERFSTKALVRHHVR 282 (306)
Q Consensus 228 h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-------------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 282 (306)
+...+.|+|+.|+..|.....|..|++..+ +.++|.|..|.++++...+|..|++
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 444577899999999999999999998733 2346999999999999999999986
Q ss_pred h
Q psy4573 283 S 283 (306)
Q Consensus 283 ~ 283 (306)
.
T Consensus 540 S 540 (1406)
T KOG1146|consen 540 S 540 (1406)
T ss_pred H
Confidence 5
No 62
>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=92.27 E-value=0.092 Score=28.50 Aligned_cols=10 Identities=40% Similarity=0.952 Sum_probs=4.4
Q ss_pred cccCcCCCcc
Q psy4573 206 AVCSYCGKGF 215 (306)
Q Consensus 206 ~~C~~C~~~f 215 (306)
|.|..||..+
T Consensus 2 ~~C~~CGy~y 11 (33)
T cd00350 2 YVCPVCGYIY 11 (33)
T ss_pred EECCCCCCEE
Confidence 3444444443
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=92.02 E-value=0.13 Score=28.15 Aligned_cols=23 Identities=17% Similarity=0.548 Sum_probs=15.1
Q ss_pred cccccccccccCChHHHHHHhhh
Q psy4573 43 SLACNVCSKRCGSKSGLKIHMKS 65 (306)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~ 65 (306)
+|.|..|+..|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46677777777766666666543
No 64
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.99 E-value=0.15 Score=27.84 Aligned_cols=23 Identities=17% Similarity=0.603 Sum_probs=16.3
Q ss_pred ceeccccccccCChHHHHHHHhh
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRT 199 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~ 199 (306)
+|.|.+|+..|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46677777777777777777653
No 65
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.76 E-value=0.46 Score=33.77 Aligned_cols=21 Identities=10% Similarity=0.309 Sum_probs=12.8
Q ss_pred CccccCcchhhccchHHHHHH
Q psy4573 126 YTAYCDLCQEGFFRKAKYETH 146 (306)
Q Consensus 126 ~~~~C~~C~~~~~~~~~l~~H 146 (306)
-|..|+.|+-.......|.+.
T Consensus 14 LP~~CpiCgLtLVss~HLARS 34 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARS 34 (112)
T ss_pred CCCcCCcCCCEEeccchHHHh
Confidence 356677777666666555543
No 66
>KOG2893|consensus
Probab=91.55 E-value=0.058 Score=43.12 Aligned_cols=42 Identities=26% Similarity=0.508 Sum_probs=33.3
Q ss_pred eccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHH
Q psy4573 179 ECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEH 224 (306)
Q Consensus 179 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 224 (306)
=|..|++.|.+..-|..|++.-+ |+|.+|.+...+-..|..|
T Consensus 12 wcwycnrefddekiliqhqkakh----fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceee
Confidence 38889999999998988886543 8899998887776666666
No 67
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=91.18 E-value=0.13 Score=31.00 Aligned_cols=31 Identities=26% Similarity=0.410 Sum_probs=21.6
Q ss_pred ccCCCcccCCcchHhhcChHHHHHHhhhcCC
Q psy4573 256 HTGEIPYHCEFCSERFSTKALVRHHVRSHHS 286 (306)
Q Consensus 256 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 286 (306)
-.|+..++|+-|+..|....+..+|+..-|+
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3456667777777777777777777766554
No 68
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.50 E-value=0.054 Score=48.83 Aligned_cols=121 Identities=29% Similarity=0.490 Sum_probs=86.5
Q ss_pred cceeccccccccCChHHHHHHHh--hccCC--CCcccC--cCCCccCCcHHHHHHHHHccCCCCcccCc-----------
Q psy4573 176 IKFECEVCHRKLSTKNHLRLHMR--THTNE--RPAVCS--YCGKGFRRGDALTEHIRIHTGQRPYVCEI----------- 238 (306)
Q Consensus 176 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----------- 238 (306)
.++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.+..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 36889999999999999999999 79999 899999 79999999999999999887665544422
Q ss_pred --------------------------ccCcCCChhHHHHHHhhccCCC--cccCCcchHhhcChHHHHHHhhhcCCCCCC
Q psy4573 239 --------------------------CGKGFTQKQALNTHKRGHTGEI--PYHCEFCSERFSTKALVRHHVRSHHSSARL 290 (306)
Q Consensus 239 --------------------------C~~~f~~~~~L~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 290 (306)
|-..+.....+..|...|.... .+.+..|...|.....+..|++.+.-..++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 2222333333333333333322 356777888888888888888887777665
Q ss_pred Cccccc
Q psy4573 291 GLNLLD 296 (306)
Q Consensus 291 ~C~~c~ 296 (306)
-|..+.
T Consensus 448 ~~~~~~ 453 (467)
T COG5048 448 LCSILK 453 (467)
T ss_pred eecccc
Confidence 554443
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=90.11 E-value=0.53 Score=33.64 Aligned_cols=71 Identities=23% Similarity=0.413 Sum_probs=45.9
Q ss_pred ceeccccccccCChHHHHHHHhh-ccCCCCcccCcCCCccCCcHHHHHHHHHcc--------------C---------CC
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRT-HTNERPAVCSYCGKGFRRGDALTEHIRIHT--------------G---------QR 232 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~--------------~---------~~ 232 (306)
...|..|+..... +.+..|++. |+...... ...+..-++.-. + -.
T Consensus 11 vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~----------~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~ 79 (109)
T PF12013_consen 11 VLICRQCQYAVQP-SEVESHLRKRHHILKSQE----------RQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYD 79 (109)
T ss_pred EEEeCCCCcccCc-hHHHHHHHHhcccccHHH----------HHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCC
Confidence 5789999988777 789999985 43321110 011111111100 0 12
Q ss_pred Cccc----CcccCcCCChhHHHHHHhhccC
Q psy4573 233 PYVC----EICGKGFTQKQALNTHKRGHTG 258 (306)
Q Consensus 233 ~~~C----~~C~~~f~~~~~L~~H~~~h~~ 258 (306)
.|.| ..|++.+.+...|..|++.+||
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3899 9999999999999999998775
No 70
>KOG4173|consensus
Probab=88.94 E-value=0.25 Score=38.67 Aligned_cols=78 Identities=24% Similarity=0.440 Sum_probs=60.9
Q ss_pred ceeccc--chhccCChHHHhhhhhhcccCCcccCCCChhhhccHHHHHHHHHhc----------ccCCccccC--cchhh
Q psy4573 71 RYACSI--CLAEFHTLTEKDRHTLSHVVEGEYKCNQCDHVAKKLAYLQAHMKKH----------RNEYTAYCD--LCQEG 136 (306)
Q Consensus 71 ~~~C~~--C~~~~~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~----------~~~~~~~C~--~C~~~ 136 (306)
.+.|++ |...|.+.+....|...-++ ..|.+|.+.|++...|..|+... .+.-.|+|- .|+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 477877 77788888888888765544 36889999999988888887543 235568884 59999
Q ss_pred ccchHHHHHHhhhcC
Q psy4573 137 FFRKAKYETHNIQKH 151 (306)
Q Consensus 137 ~~~~~~l~~H~~~~h 151 (306)
|.+...-..|+...|
T Consensus 156 FkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhHHHHhc
Confidence 999999999988887
No 71
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=87.43 E-value=0.28 Score=29.58 Aligned_cols=26 Identities=12% Similarity=0.257 Sum_probs=20.6
Q ss_pred cceeccccccccCChHHHHHHHhhcc
Q psy4573 176 IKFECEVCHRKLSTKNHLRLHMRTHT 201 (306)
Q Consensus 176 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 201 (306)
.-++||.|+..|....+..+|....+
T Consensus 16 ~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 16 EFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred eeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 36788888888888888888887643
No 72
>KOG2893|consensus
Probab=86.10 E-value=0.2 Score=40.21 Aligned_cols=38 Identities=29% Similarity=0.724 Sum_probs=16.6
Q ss_pred cCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHH
Q psy4573 208 CSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQAL 249 (306)
Q Consensus 208 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L 249 (306)
|=+|++.|.+...|.+|++- +-|+|.+|.+..-+-..|
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sgpgl 50 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGL 50 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCc
Confidence 34445555554444444432 224444444443333333
No 73
>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=85.82 E-value=0.63 Score=33.10 Aligned_cols=31 Identities=35% Similarity=0.722 Sum_probs=19.1
Q ss_pred ceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCc
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRG 218 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 218 (306)
+..|+.||..|-.. ++.|..|+.||..|.-.
T Consensus 9 KR~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 45566666666552 34666777777666544
No 74
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=85.78 E-value=0.25 Score=44.50 Aligned_cols=59 Identities=25% Similarity=0.323 Sum_probs=46.4
Q ss_pred hhcCCcccccccccccCChHHHHHHhhhcCCCCceecccch--hccCChHHHhhhhhhccc
Q psy4573 38 VEQDGSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICL--AEFHTLTEKDRHTLSHVV 96 (306)
Q Consensus 38 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~--~~~~~~~~l~~H~~~~~~ 96 (306)
......+.|+.|...|........|...+..+.++.|...+ ..+.....+..|...+..
T Consensus 28 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (467)
T COG5048 28 SNAPRPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRTHHN 88 (467)
T ss_pred ccCCchhhcccccccccccchhhhhcccccccCCccccccccccccCCcchhhhhcccccc
Confidence 44566788999999999999999999999999999998854 455566666666665543
No 75
>KOG4173|consensus
Probab=85.52 E-value=0.39 Score=37.66 Aligned_cols=76 Identities=29% Similarity=0.600 Sum_probs=48.8
Q ss_pred ceeccc--cccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHH-Hc---------cCCCCcccC--cccCc
Q psy4573 177 KFECEV--CHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIR-IH---------TGQRPYVCE--ICGKG 242 (306)
Q Consensus 177 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~-~h---------~~~~~~~C~--~C~~~ 242 (306)
.+.|+. |...|.+..++..|..+-++ -.|..|.+.|.+...|..|+. .| .|...|.|- .|+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 466765 66777777777777655332 357777777777777777764 23 234557773 37777
Q ss_pred CCChhHHHHHHhh
Q psy4573 243 FTQKQALNTHKRG 255 (306)
Q Consensus 243 f~~~~~L~~H~~~ 255 (306)
|.+...-..|+-.
T Consensus 156 FkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 156 FKTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhhHHHH
Confidence 7777777777643
No 76
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=85.28 E-value=0.49 Score=25.81 Aligned_cols=10 Identities=40% Similarity=0.733 Sum_probs=4.9
Q ss_pred cccCcCCCcc
Q psy4573 206 AVCSYCGKGF 215 (306)
Q Consensus 206 ~~C~~C~~~f 215 (306)
|.|..||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4455555444
No 77
>PHA00626 hypothetical protein
Probab=83.91 E-value=0.83 Score=27.70 Aligned_cols=14 Identities=21% Similarity=0.411 Sum_probs=7.8
Q ss_pred ceeccccccccCCh
Q psy4573 177 KFECEVCHRKLSTK 190 (306)
Q Consensus 177 ~~~C~~C~~~f~~~ 190 (306)
.|.|+.||+.|...
T Consensus 23 rYkCkdCGY~ft~~ 36 (59)
T PHA00626 23 DYVCCDCGYNDSKD 36 (59)
T ss_pred ceEcCCCCCeechh
Confidence 46666666655443
No 78
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=83.32 E-value=0.78 Score=25.41 Aligned_cols=11 Identities=27% Similarity=0.748 Sum_probs=5.9
Q ss_pred ceecccccccc
Q psy4573 177 KFECEVCHRKL 187 (306)
Q Consensus 177 ~~~C~~C~~~f 187 (306)
..+|+.|+..|
T Consensus 25 ~v~C~~C~~~f 35 (36)
T PF13717_consen 25 KVRCSKCGHVF 35 (36)
T ss_pred EEECCCCCCEe
Confidence 45555555544
No 79
>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=83.26 E-value=0.78 Score=23.31 Aligned_cols=8 Identities=50% Similarity=1.364 Sum_probs=3.1
Q ss_pred cCcCCCcc
Q psy4573 208 CSYCGKGF 215 (306)
Q Consensus 208 C~~C~~~f 215 (306)
|+.||..|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 33333333
No 80
>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=82.90 E-value=0.7 Score=26.60 Aligned_cols=29 Identities=21% Similarity=0.587 Sum_probs=12.6
Q ss_pred cccccccccccccccccccCcceecccccc
Q psy4573 156 FECESCKKIFTYHKNTTHLGIKFECEVCHR 185 (306)
Q Consensus 156 ~~c~~c~~~f~~~~~~~~~~~~~~C~~C~~ 185 (306)
|.|..||..|........ ...-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 344444444443333222 33445555554
No 81
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=82.15 E-value=0.8 Score=25.53 Aligned_cols=11 Identities=27% Similarity=0.727 Sum_probs=5.7
Q ss_pred ceecccccccc
Q psy4573 177 KFECEVCHRKL 187 (306)
Q Consensus 177 ~~~C~~C~~~f 187 (306)
..+|+.|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 45555555444
No 82
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=81.51 E-value=0.85 Score=28.16 Aligned_cols=10 Identities=40% Similarity=1.009 Sum_probs=5.6
Q ss_pred CCcccCcCCC
Q psy4573 204 RPAVCSYCGK 213 (306)
Q Consensus 204 ~~~~C~~C~~ 213 (306)
++|.|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 4566666654
No 83
>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=80.49 E-value=0.97 Score=25.22 Aligned_cols=9 Identities=22% Similarity=0.685 Sum_probs=4.0
Q ss_pred eeccccccc
Q psy4573 178 FECEVCHRK 186 (306)
Q Consensus 178 ~~C~~C~~~ 186 (306)
..|+.|+..
T Consensus 26 v~C~~C~~~ 34 (38)
T TIGR02098 26 VRCGKCGHV 34 (38)
T ss_pred EECCCCCCE
Confidence 444444443
No 84
>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=80.31 E-value=0.99 Score=25.56 Aligned_cols=9 Identities=22% Similarity=0.508 Sum_probs=4.4
Q ss_pred ceecccccc
Q psy4573 177 KFECEVCHR 185 (306)
Q Consensus 177 ~~~C~~C~~ 185 (306)
...|+.||.
T Consensus 26 ~~~CP~Cg~ 34 (41)
T smart00834 26 LATCPECGG 34 (41)
T ss_pred CCCCCCCCC
Confidence 344555554
No 85
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=78.36 E-value=1.1 Score=27.54 Aligned_cols=32 Identities=25% Similarity=0.407 Sum_probs=16.9
Q ss_pred ceeccccccccCChHHHHHHHhhccCCCCcccCcCCC
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGK 213 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 213 (306)
.|.||.||........--+ ...++|.|+.||.
T Consensus 27 ~F~CPnCGe~~I~Rc~~CR-----k~g~~Y~Cp~CGF 58 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKCR-----KLGNPYRCPKCGF 58 (61)
T ss_pred EeeCCCCCceeeehhhhHH-----HcCCceECCCcCc
Confidence 5666666654443332211 1235677777775
No 86
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.16 E-value=0.45 Score=38.57 Aligned_cols=43 Identities=30% Similarity=0.733 Sum_probs=22.9
Q ss_pred CCcccCcCCCccCCcHHHHHHHHHc----------cCCCC-----cccCcccCcCCCh
Q psy4573 204 RPAVCSYCGKGFRRGDALTEHIRIH----------TGQRP-----YVCEICGKGFTQK 246 (306)
Q Consensus 204 ~~~~C~~C~~~f~~~~~l~~H~~~h----------~~~~~-----~~C~~C~~~f~~~ 246 (306)
+.+.|+.|+..|.+.......+++- .+..| ..||.||.+|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4456666666666554444443321 11222 4688888776544
No 87
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=76.12 E-value=1.2 Score=25.84 Aligned_cols=24 Identities=13% Similarity=0.562 Sum_probs=10.4
Q ss_pred cccCCcchHhhcC----hHHHHHHhhhc
Q psy4573 261 PYHCEFCSERFST----KALVRHHVRSH 284 (306)
Q Consensus 261 ~~~C~~C~~~f~~----~~~l~~H~~~~ 284 (306)
...|.+|++.+.. -+.|.+|++..
T Consensus 16 ~a~C~~C~~~~~~~~~~ts~l~~HL~~~ 43 (45)
T PF02892_consen 16 KAKCKYCGKVIKYSSGGTSNLKRHLKKK 43 (45)
T ss_dssp -EEETTTTEE-----SSTHHHHHHHHHT
T ss_pred eEEeCCCCeEEeeCCCcHHHHHHhhhhh
Confidence 3455555554433 24566665443
No 88
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=75.85 E-value=1.8 Score=25.41 Aligned_cols=7 Identities=29% Similarity=0.975 Sum_probs=3.1
Q ss_pred eeccccc
Q psy4573 178 FECEVCH 184 (306)
Q Consensus 178 ~~C~~C~ 184 (306)
..|+.||
T Consensus 22 ~~Cp~CG 28 (46)
T PRK00398 22 VRCPYCG 28 (46)
T ss_pred eECCCCC
Confidence 4444444
No 89
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=75.66 E-value=1.5 Score=27.23 Aligned_cols=39 Identities=26% Similarity=0.658 Sum_probs=17.8
Q ss_pred CcccCc-ccCcCCChhHHHHHHhhccCCCcccCCc----chHhh
Q psy4573 233 PYVCEI-CGKGFTQKQALNTHKRGHTGEIPYHCEF----CSERF 271 (306)
Q Consensus 233 ~~~C~~-C~~~f~~~~~L~~H~~~h~~~~~~~C~~----C~~~f 271 (306)
+..|+. |+..-..+..|..|+...-...+..|++ |+..+
T Consensus 9 ~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~ 52 (60)
T PF02176_consen 9 PVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERV 52 (60)
T ss_dssp EEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EE
T ss_pred EeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCcc
Confidence 345555 3322234556666666555555566666 66555
No 90
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=75.53 E-value=1.7 Score=33.49 Aligned_cols=23 Identities=43% Similarity=1.112 Sum_probs=13.8
Q ss_pred CcccCcccCcCCChhHHHHHHhhccCCCcccCCcch
Q psy4573 233 PYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCS 268 (306)
Q Consensus 233 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~ 268 (306)
.|+|++||.. +.++-|-.||+|+
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 5666666654 3445556666666
No 91
>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=74.88 E-value=3 Score=21.16 Aligned_cols=20 Identities=30% Similarity=0.800 Sum_probs=15.0
Q ss_pred eeccccccccCChHHHHHHHh
Q psy4573 178 FECEVCHRKLSTKNHLRLHMR 198 (306)
Q Consensus 178 ~~C~~C~~~f~~~~~l~~H~~ 198 (306)
..||.|++.+ ....++.|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3588888887 5577888875
No 92
>KOG2186|consensus
Probab=74.87 E-value=1.8 Score=35.32 Aligned_cols=46 Identities=26% Similarity=0.517 Sum_probs=36.8
Q ss_pred ccccccccccCChHHHHHHhhhcCCCCceecccchhccCChHHHhhhhh
Q psy4573 44 LACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTEKDRHTL 92 (306)
Q Consensus 44 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~ 92 (306)
|.|..||.... ...+.+|+-..++ .-|.|--|+..|.. .+...|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 78999998876 6678889888887 47899999999977 66677754
No 93
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=74.13 E-value=0.75 Score=35.03 Aligned_cols=14 Identities=43% Similarity=0.771 Sum_probs=7.7
Q ss_pred cccCcccCcCCChh
Q psy4573 234 YVCEICGKGFTQKQ 247 (306)
Q Consensus 234 ~~C~~C~~~f~~~~ 247 (306)
++|+.||..|.+..
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 55666666555443
No 94
>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=74.08 E-value=2.8 Score=30.46 Aligned_cols=31 Identities=35% Similarity=0.501 Sum_probs=18.9
Q ss_pred ceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCc
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRG 218 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 218 (306)
+..|+.||..|... ++.|..|+.||..|.-.
T Consensus 9 Kr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 9 KRICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cccCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 45566666666552 44666777777666544
No 95
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=72.58 E-value=2.6 Score=22.61 Aligned_cols=9 Identities=22% Similarity=0.763 Sum_probs=4.2
Q ss_pred ceecccccc
Q psy4573 177 KFECEVCHR 185 (306)
Q Consensus 177 ~~~C~~C~~ 185 (306)
+.+|+.||.
T Consensus 17 ~irC~~CG~ 25 (32)
T PF03604_consen 17 PIRCPECGH 25 (32)
T ss_dssp TSSBSSSS-
T ss_pred cEECCcCCC
Confidence 445555553
No 96
>KOG2807|consensus
Probab=71.46 E-value=4 Score=34.72 Aligned_cols=36 Identities=22% Similarity=0.470 Sum_probs=25.9
Q ss_pred cCCcccccccccccCChHHHHHHhhhcCCCCceecccchhccCChHHHhh
Q psy4573 40 QDGSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTEKDR 89 (306)
Q Consensus 40 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~ 89 (306)
..+.|.||.|....-+. |..|++|+-+.-....|++
T Consensus 273 ~~~Gy~CP~CkakvCsL--------------P~eCpiC~ltLVss~hLAR 308 (378)
T KOG2807|consen 273 SGGGYFCPQCKAKVCSL--------------PIECPICSLTLVSSPHLAR 308 (378)
T ss_pred ccCceeCCcccCeeecC--------------CccCCccceeEecchHHHH
Confidence 34568899886544332 7889999988877777775
No 97
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=71.19 E-value=0.97 Score=36.66 Aligned_cols=22 Identities=27% Similarity=0.459 Sum_probs=14.3
Q ss_pred CCcccccccccccCChHHHHHH
Q psy4573 41 DGSLACNVCSKRCGSKSGLKIH 62 (306)
Q Consensus 41 ~~~~~C~~C~~~f~~~~~l~~H 62 (306)
++.++||.|+..|.+.......
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~ 24 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGK 24 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCC
Confidence 4567788888888766443333
No 98
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=70.72 E-value=4.1 Score=31.26 Aligned_cols=31 Identities=19% Similarity=0.406 Sum_probs=16.1
Q ss_pred CCCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCc
Q psy4573 203 ERPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKG 242 (306)
Q Consensus 203 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 242 (306)
...|.|+.|+..|+...++. ..|.|+.||..
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 34455666665555555443 13556655543
No 99
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=70.35 E-value=5.9 Score=30.00 Aligned_cols=14 Identities=14% Similarity=0.337 Sum_probs=7.6
Q ss_pred CCcccCcCCCccCC
Q psy4573 204 RPAVCSYCGKGFRR 217 (306)
Q Consensus 204 ~~~~C~~C~~~f~~ 217 (306)
..|.|+.|+..|..
T Consensus 98 ~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 98 AYYKCPNCQSKYTF 111 (147)
T ss_pred cEEECcCCCCEeeH
Confidence 34556666655553
No 100
>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=70.30 E-value=3.2 Score=25.38 Aligned_cols=12 Identities=25% Similarity=0.545 Sum_probs=6.3
Q ss_pred cceecccccccc
Q psy4573 176 IKFECEVCHRKL 187 (306)
Q Consensus 176 ~~~~C~~C~~~f 187 (306)
....|+.||..+
T Consensus 21 eiV~Cp~CGael 32 (54)
T TIGR01206 21 ELVICDECGAEL 32 (54)
T ss_pred CEEeCCCCCCEE
Confidence 345566665543
No 101
>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=68.52 E-value=2.9 Score=25.17 Aligned_cols=9 Identities=33% Similarity=0.940 Sum_probs=3.4
Q ss_pred ccCcchhhc
Q psy4573 129 YCDLCQEGF 137 (306)
Q Consensus 129 ~C~~C~~~~ 137 (306)
.|+.|+..|
T Consensus 7 ~C~~Cg~~f 15 (52)
T TIGR02605 7 RCTACGHRF 15 (52)
T ss_pred EeCCCCCEe
Confidence 333333333
No 102
>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=67.86 E-value=4.8 Score=30.91 Aligned_cols=34 Identities=21% Similarity=0.502 Sum_probs=23.0
Q ss_pred cCCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhh
Q psy4573 229 TGQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERF 271 (306)
Q Consensus 229 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 271 (306)
....-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 3445577888887777776664 247788887654
No 103
>KOG2807|consensus
Probab=67.36 E-value=7 Score=33.30 Aligned_cols=25 Identities=32% Similarity=0.460 Sum_probs=13.6
Q ss_pred CcccCCcchHhhcChHHHHHHhhhc
Q psy4573 260 IPYHCEFCSERFSTKALVRHHVRSH 284 (306)
Q Consensus 260 ~~~~C~~C~~~f~~~~~l~~H~~~~ 284 (306)
..|+|+.|...|-.--+..-|...|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 3466666666665555555554443
No 104
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=66.22 E-value=4.6 Score=30.59 Aligned_cols=38 Identities=21% Similarity=0.424 Sum_probs=22.4
Q ss_pred CCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhh
Q psy4573 230 GQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERF 271 (306)
Q Consensus 230 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 271 (306)
...-|.|+.|+..|+....+.. . . ....|.|+.|+...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 3456888888887775433321 0 1 13338888888654
No 105
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=64.95 E-value=5.2 Score=31.40 Aligned_cols=30 Identities=23% Similarity=0.511 Sum_probs=16.8
Q ss_pred CCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCc
Q psy4573 204 RPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKG 242 (306)
Q Consensus 204 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 242 (306)
..|.|+.|+..|.....+. ..|.|+.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 4466666666665554432 24666666654
No 106
>KOG2186|consensus
Probab=64.22 E-value=3.3 Score=33.82 Aligned_cols=47 Identities=21% Similarity=0.581 Sum_probs=32.1
Q ss_pred cccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCcCCChhHHHHHHhh
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKGFTQKQALNTHKRG 255 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 255 (306)
|.|..||...... .+..|+..-.+ .-|.|-.|+..|.. .....|..-
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 6778888776544 45667777665 45778888888876 666666653
No 107
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=63.93 E-value=3.7 Score=25.41 Aligned_cols=38 Identities=16% Similarity=0.470 Sum_probs=17.4
Q ss_pred cccccc--cccccCChHHHHHHhhhcCCCCceeccc----chhcc
Q psy4573 43 SLACNV--CSKRCGSKSGLKIHMKSHTLSKRYACSI----CLAEF 81 (306)
Q Consensus 43 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~~ 81 (306)
...|+. |...+. ...|..|+...-+..+..|++ |+..+
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~ 52 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERV 52 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCcc
Confidence 445655 333332 455666666555555566666 65544
No 108
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=63.30 E-value=4 Score=24.28 Aligned_cols=11 Identities=27% Similarity=1.053 Sum_probs=6.7
Q ss_pred ceecccccccc
Q psy4573 177 KFECEVCHRKL 187 (306)
Q Consensus 177 ~~~C~~C~~~f 187 (306)
.|.|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 46666666665
No 109
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=61.51 E-value=7.2 Score=30.59 Aligned_cols=33 Identities=24% Similarity=0.594 Sum_probs=22.1
Q ss_pred CCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhh
Q psy4573 230 GQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERF 271 (306)
Q Consensus 230 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f 271 (306)
...-|.|+.|+..|+....+. ..|.|+.||...
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 344577888887777766553 247888887654
No 110
>PF12907 zf-met2: Zinc-binding
Probab=61.20 E-value=8.3 Score=21.89 Aligned_cols=28 Identities=18% Similarity=0.612 Sum_probs=20.1
Q ss_pred ccCCcchHhh---cChHHHHHHhhhcCCCCC
Q psy4573 262 YHCEFCSERF---STKALVRHHVRSHHSSAR 289 (306)
Q Consensus 262 ~~C~~C~~~f---~~~~~l~~H~~~~h~~~~ 289 (306)
+.|.+|.-+| .+...|..|....|++..
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~ 32 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNT 32 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCC
Confidence 5688888655 355678888888887753
No 111
>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=60.93 E-value=2.9 Score=34.25 Aligned_cols=23 Identities=22% Similarity=0.521 Sum_probs=12.5
Q ss_pred CCCcccCcccCcCCChhHHHHHH
Q psy4573 231 QRPYVCEICGKGFTQKQALNTHK 253 (306)
Q Consensus 231 ~~~~~C~~C~~~f~~~~~L~~H~ 253 (306)
.+++.||.||........|..-.
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmSt 229 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMST 229 (314)
T ss_pred CCCCCCCCCCCcccccccceeee
Confidence 35566666666555555554333
No 112
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=59.15 E-value=4.6 Score=27.17 Aligned_cols=31 Identities=29% Similarity=0.549 Sum_probs=17.3
Q ss_pred ceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCC
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRR 217 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 217 (306)
+|.||.|++.-.. + .+...|.|..|+..|..
T Consensus 35 ~~~Cp~C~~~~Vk--------R--~a~GIW~C~kCg~~fAG 65 (89)
T COG1997 35 KHVCPFCGRTTVK--------R--IATGIWKCRKCGAKFAG 65 (89)
T ss_pred CCcCCCCCCccee--------e--eccCeEEcCCCCCeecc
Confidence 5667777664211 1 12345777777777654
No 113
>KOG4377|consensus
Probab=57.89 E-value=4.9 Score=35.30 Aligned_cols=102 Identities=25% Similarity=0.505 Sum_probs=65.6
Q ss_pred ceecc--ccccccCChHHHHHHHhhccCC------------CCcccC--cCCCccCCcHHHHHHHHHccCC-------CC
Q psy4573 177 KFECE--VCHRKLSTKNHLRLHMRTHTNE------------RPAVCS--YCGKGFRRGDALTEHIRIHTGQ-------RP 233 (306)
Q Consensus 177 ~~~C~--~C~~~f~~~~~l~~H~~~h~~~------------~~~~C~--~C~~~f~~~~~l~~H~~~h~~~-------~~ 233 (306)
-|.|- .|+..+-.+.++.+|+.+|... ..|-|. +|.+ +.+.+..|-..|+.. --
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfrrth 347 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTH 347 (480)
T ss_pred hhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceecce
Confidence 35664 6998888899999999988543 225664 4776 556666776666432 23
Q ss_pred cccCccc--CcCCChhHHHHHHhhccCCCc----------------------------ccCCc--chHhhcChHHHHHHh
Q psy4573 234 YVCEICG--KGFTQKQALNTHKRGHTGEIP----------------------------YHCEF--CSERFSTKALVRHHV 281 (306)
Q Consensus 234 ~~C~~C~--~~f~~~~~L~~H~~~h~~~~~----------------------------~~C~~--C~~~f~~~~~l~~H~ 281 (306)
|-|..+| ..|. ...|...|..... |.|.. |+.++...+++..|-
T Consensus 348 fhC~r~gCTdtfK----~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shk 423 (480)
T KOG4377|consen 348 FHCQRIGCTDTFK----DSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHK 423 (480)
T ss_pred eEEeccCCccccc----cccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhh
Confidence 6787766 4444 4445444432111 44543 889999999999887
Q ss_pred hhcC
Q psy4573 282 RSHH 285 (306)
Q Consensus 282 ~~~h 285 (306)
+.|-
T Consensus 424 rkhe 427 (480)
T KOG4377|consen 424 RKHE 427 (480)
T ss_pred hhhh
Confidence 6654
No 114
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=57.89 E-value=2.9 Score=39.57 Aligned_cols=57 Identities=18% Similarity=0.236 Sum_probs=40.4
Q ss_pred ccCcchhhccchHHHHHHhhhcCCCCCcccccccccccccccccccCcceecccccc
Q psy4573 129 YCDLCQEGFFRKAKYETHNIQKHNAPPFECESCKKIFTYHKNTTHLGIKFECEVCHR 185 (306)
Q Consensus 129 ~C~~C~~~~~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~~~~~~~~~~~~C~~C~~ 185 (306)
.|..||-.|+....|-.-+.+..-..--.|+.|.+.+....+.....++..|+.||-
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCcccCC
Confidence 488888888777666665444444444468888888877777777777888888884
No 115
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=57.80 E-value=6.3 Score=23.51 Aligned_cols=10 Identities=40% Similarity=1.132 Sum_probs=5.0
Q ss_pred ccCcccCcCC
Q psy4573 235 VCEICGKGFT 244 (306)
Q Consensus 235 ~C~~C~~~f~ 244 (306)
.|..|++.++
T Consensus 20 ~C~~C~~~l~ 29 (50)
T smart00614 20 KCKYCGKKLS 29 (50)
T ss_pred EecCCCCEee
Confidence 4555555443
No 116
>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=55.31 E-value=8.7 Score=22.44 Aligned_cols=8 Identities=50% Similarity=1.477 Sum_probs=3.9
Q ss_pred cccCcccC
Q psy4573 234 YVCEICGK 241 (306)
Q Consensus 234 ~~C~~C~~ 241 (306)
+.|+.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 34555553
No 117
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=55.06 E-value=12 Score=21.33 Aligned_cols=23 Identities=26% Similarity=0.483 Sum_probs=14.9
Q ss_pred ccccccccccCC--hHHHHHHhhhc
Q psy4573 44 LACNVCSKRCGS--KSGLKIHMKSH 66 (306)
Q Consensus 44 ~~C~~C~~~f~~--~~~l~~H~~~h 66 (306)
-+|+.||+.|.. ..+-..|.+-|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 578888888843 34555565554
No 118
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=54.93 E-value=8.6 Score=37.21 Aligned_cols=8 Identities=50% Similarity=1.302 Sum_probs=3.5
Q ss_pred CcccCccc
Q psy4573 233 PYVCEICG 240 (306)
Q Consensus 233 ~~~C~~C~ 240 (306)
|..|+.||
T Consensus 475 p~~Cp~Cg 482 (730)
T COG1198 475 PQSCPECG 482 (730)
T ss_pred CCCCCCCC
Confidence 34444444
No 119
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=54.48 E-value=4.3 Score=33.32 Aligned_cols=24 Identities=17% Similarity=0.260 Sum_probs=15.0
Q ss_pred CCcccCCcchHhhcChHHHHHHhh
Q psy4573 259 EIPYHCEFCSERFSTKALVRHHVR 282 (306)
Q Consensus 259 ~~~~~C~~C~~~f~~~~~l~~H~~ 282 (306)
.++++||.|++.......|..-.+
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR 230 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTR 230 (314)
T ss_pred CCCCCCCCCCCcccccccceeeee
Confidence 466788888877665555544333
No 120
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=54.32 E-value=8.7 Score=37.19 Aligned_cols=12 Identities=33% Similarity=0.766 Sum_probs=6.2
Q ss_pred CCCcccCCcchH
Q psy4573 258 GEIPYHCEFCSE 269 (306)
Q Consensus 258 ~~~~~~C~~C~~ 269 (306)
...|..|+.|+-
T Consensus 472 ~~~p~~Cp~Cgs 483 (730)
T COG1198 472 EPIPQSCPECGS 483 (730)
T ss_pred CCCCCCCCCCCC
Confidence 344555555553
No 121
>KOG1280|consensus
Probab=54.21 E-value=9.8 Score=32.75 Aligned_cols=29 Identities=28% Similarity=0.466 Sum_probs=17.6
Q ss_pred cccCCcchHhhcChHHHHHHhhhcCCCCC
Q psy4573 261 PYHCEFCSERFSTKALVRHHVRSHHSSAR 289 (306)
Q Consensus 261 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 289 (306)
-|.|++|++.=.+...|..|+...|++..
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~ 107 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEAS 107 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccC
Confidence 46666666655555666666666666554
No 122
>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=52.73 E-value=5.8 Score=20.91 Aligned_cols=10 Identities=30% Similarity=0.567 Sum_probs=5.5
Q ss_pred ceecccchhc
Q psy4573 71 RYACSICLAE 80 (306)
Q Consensus 71 ~~~C~~C~~~ 80 (306)
.+.|+.|+..
T Consensus 19 ~~vCp~C~~e 28 (30)
T PF08274_consen 19 LLVCPECGHE 28 (30)
T ss_dssp SEEETTTTEE
T ss_pred EEeCCccccc
Confidence 4566666543
No 123
>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=52.39 E-value=14 Score=29.89 Aligned_cols=28 Identities=18% Similarity=0.403 Sum_probs=20.8
Q ss_pred cCcceeccccccccCChHHHHHHHhhcc
Q psy4573 174 LGIKFECEVCHRKLSTKNHLRLHMRTHT 201 (306)
Q Consensus 174 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 201 (306)
....|.|++|++.|.....+..|+..-+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 3447999999999999999999987643
No 124
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=52.23 E-value=5.1 Score=19.61 Aligned_cols=6 Identities=50% Similarity=1.436 Sum_probs=2.4
Q ss_pred cCcccC
Q psy4573 236 CEICGK 241 (306)
Q Consensus 236 C~~C~~ 241 (306)
|+.||.
T Consensus 2 Cp~CG~ 7 (23)
T PF13240_consen 2 CPNCGA 7 (23)
T ss_pred CcccCC
Confidence 344443
No 125
>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=51.95 E-value=11 Score=21.26 Aligned_cols=30 Identities=17% Similarity=0.492 Sum_probs=12.1
Q ss_pred cccccccccccccccccccCcceecccccc
Q psy4573 156 FECESCKKIFTYHKNTTHLGIKFECEVCHR 185 (306)
Q Consensus 156 ~~c~~c~~~f~~~~~~~~~~~~~~C~~C~~ 185 (306)
..|..|+..+.........+....|++|+.
T Consensus 3 ~rC~~C~aylNp~~~~~~~~~~w~C~~C~~ 32 (40)
T PF04810_consen 3 VRCRRCRAYLNPFCQFDDGGKTWICNFCGT 32 (40)
T ss_dssp -B-TTT--BS-TTSEEETTTTEEEETTT--
T ss_pred cccCCCCCEECCcceEcCCCCEEECcCCCC
Confidence 445555555544444444445566666654
No 126
>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=51.79 E-value=3.5 Score=24.80 Aligned_cols=26 Identities=15% Similarity=0.508 Sum_probs=11.8
Q ss_pred CcceeccccccccCChHHHHHHHhhc
Q psy4573 175 GIKFECEVCHRKLSTKNHLRLHMRTH 200 (306)
Q Consensus 175 ~~~~~C~~C~~~f~~~~~l~~H~~~h 200 (306)
...|.|+.|...|-..-++-.|...|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 34677777777777666665554333
No 127
>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=51.75 E-value=7.7 Score=28.69 Aligned_cols=27 Identities=37% Similarity=0.677 Sum_probs=15.7
Q ss_pred CCcccCcccCcCCChhHHHHHHhhccCCCc
Q psy4573 232 RPYVCEICGKGFTQKQALNTHKRGHTGEIP 261 (306)
Q Consensus 232 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 261 (306)
.-..|-+||+.|... .+|++.|+|..+
T Consensus 71 d~i~clecGk~~k~L---krHL~~~~gltp 97 (132)
T PF05443_consen 71 DYIICLECGKKFKTL---KRHLRTHHGLTP 97 (132)
T ss_dssp S-EE-TBT--EESBH---HHHHHHTT-S-H
T ss_pred CeeEEccCCcccchH---HHHHHHccCCCH
Confidence 346799999887654 888888877543
No 128
>PF14353 CpXC: CpXC protein
Probab=51.29 E-value=7.7 Score=28.50 Aligned_cols=20 Identities=20% Similarity=0.373 Sum_probs=11.6
Q ss_pred ceecccchhccCChHHHhhh
Q psy4573 71 RYACSICLAEFHTLTEKDRH 90 (306)
Q Consensus 71 ~~~C~~C~~~~~~~~~l~~H 90 (306)
.+.|+.||..+.-...+..|
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EEECCCCCCceecCCCEEEE
Confidence 46777777766544444433
No 129
>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=49.91 E-value=4.9 Score=32.47 Aligned_cols=26 Identities=27% Similarity=0.752 Sum_probs=13.2
Q ss_pred ccCCcchHhhcChHHHHHHhhhcCCC
Q psy4573 262 YHCEFCSERFSTKALVRHHVRSHHSS 287 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~~~h~~ 287 (306)
|.|+.|++.|.-..-+..|+...|++
T Consensus 78 ~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 78 WRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred ECCCCCCcccCChHHHHHHHhhcCHH
Confidence 55555555555555555565555543
No 130
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=49.02 E-value=11 Score=20.53 Aligned_cols=10 Identities=20% Similarity=0.623 Sum_probs=6.8
Q ss_pred ceeccccccc
Q psy4573 177 KFECEVCHRK 186 (306)
Q Consensus 177 ~~~C~~C~~~ 186 (306)
.+.|+.||..
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 5777777764
No 131
>KOG2593|consensus
Probab=47.70 E-value=17 Score=32.46 Aligned_cols=34 Identities=21% Similarity=0.434 Sum_probs=15.2
Q ss_pred CcccccccccccCChHHHHHHhhhcCCCCceecccch
Q psy4573 42 GSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICL 78 (306)
Q Consensus 42 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 78 (306)
..|.|+.|.+.|.....+ ...-.....|.|..|+
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~---~L~~~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEAL---QLLDNETGEFHCENCG 160 (436)
T ss_pred ccccCCccccchhhhHHH---HhhcccCceEEEecCC
Confidence 445555555555433322 2222223345555554
No 132
>PRK04023 DNA polymerase II large subunit; Validated
Probab=47.70 E-value=23 Score=35.40 Aligned_cols=10 Identities=40% Similarity=0.909 Sum_probs=6.3
Q ss_pred CcccCcCCCc
Q psy4573 205 PAVCSYCGKG 214 (306)
Q Consensus 205 ~~~C~~C~~~ 214 (306)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 3567777755
No 133
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=47.66 E-value=28 Score=29.55 Aligned_cols=74 Identities=16% Similarity=0.410 Sum_probs=37.4
Q ss_pred ccccCcchhhccchHHHHHHhhhcCCCCCc------------ccccccccccccccc----cccCcceeccccccccCCh
Q psy4573 127 TAYCDLCQEGFFRKAKYETHNIQKHNAPPF------------ECESCKKIFTYHKNT----THLGIKFECEVCHRKLSTK 190 (306)
Q Consensus 127 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~------------~c~~c~~~f~~~~~~----~~~~~~~~C~~C~~~f~~~ 190 (306)
|..||.|.........|.+-..---+-++| .|-.|.-.|...... .-....|.|+.|...|-..
T Consensus 322 Pi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~d 401 (421)
T COG5151 322 PISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSD 401 (421)
T ss_pred CccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhh
Confidence 456777776665555544321100022222 355555555443321 1112357777777777777
Q ss_pred HHHHHHHhhc
Q psy4573 191 NHLRLHMRTH 200 (306)
Q Consensus 191 ~~l~~H~~~h 200 (306)
-+.-.|-..|
T Consensus 402 CdvfiHe~Lh 411 (421)
T COG5151 402 CDVFIHETLH 411 (421)
T ss_pred hHHHHHHHHh
Confidence 6666665444
No 134
>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=47.51 E-value=16 Score=21.61 Aligned_cols=8 Identities=38% Similarity=1.065 Sum_probs=3.3
Q ss_pred eecccccc
Q psy4573 178 FECEVCHR 185 (306)
Q Consensus 178 ~~C~~C~~ 185 (306)
+.|+.|+.
T Consensus 35 w~CP~C~a 42 (47)
T PF00301_consen 35 WVCPVCGA 42 (47)
T ss_dssp -B-TTTSS
T ss_pred CcCcCCCC
Confidence 55666554
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=47.15 E-value=11 Score=27.89 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=15.8
Q ss_pred cCCcccccccccccCChHHHHHHhhhcCCCC
Q psy4573 40 QDGSLACNVCSKRCGSKSGLKIHMKSHTLSK 70 (306)
Q Consensus 40 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 70 (306)
.+....|-+||+.|+.. .+|++.|++..
T Consensus 69 ~~d~i~clecGk~~k~L---krHL~~~~glt 96 (132)
T PF05443_consen 69 TPDYIICLECGKKFKTL---KRHLRTHHGLT 96 (132)
T ss_dssp -SS-EE-TBT--EESBH---HHHHHHTT-S-
T ss_pred ccCeeEEccCCcccchH---HHHHHHccCCC
Confidence 44557888888888644 88888887654
No 136
>KOG2071|consensus
Probab=46.74 E-value=20 Score=33.44 Aligned_cols=24 Identities=21% Similarity=0.488 Sum_probs=18.0
Q ss_pred ceeccccccccCChHHHHHHHhhc
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRTH 200 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~h 200 (306)
+..|..||..|.+......||..|
T Consensus 418 pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 418 PNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cchhcccccccccchhhhhHhhhh
Confidence 467888888888887777777665
No 137
>PRK04023 DNA polymerase II large subunit; Validated
Probab=46.36 E-value=19 Score=35.85 Aligned_cols=7 Identities=57% Similarity=1.516 Sum_probs=3.0
Q ss_pred ccCcccC
Q psy4573 235 VCEICGK 241 (306)
Q Consensus 235 ~C~~C~~ 241 (306)
.|+.||.
T Consensus 665 ~CPKCG~ 671 (1121)
T PRK04023 665 ECEKCGR 671 (1121)
T ss_pred cCCCCCC
Confidence 3444443
No 138
>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=46.01 E-value=4.2 Score=22.48 Aligned_cols=8 Identities=50% Similarity=1.157 Sum_probs=3.4
Q ss_pred cccCcccC
Q psy4573 234 YVCEICGK 241 (306)
Q Consensus 234 ~~C~~C~~ 241 (306)
-+|+.||.
T Consensus 22 ~~Cd~cg~ 29 (36)
T PF05191_consen 22 GVCDNCGG 29 (36)
T ss_dssp TBCTTTTE
T ss_pred CccCCCCC
Confidence 34444443
No 139
>KOG3408|consensus
Probab=45.66 E-value=11 Score=27.03 Aligned_cols=26 Identities=27% Similarity=0.534 Sum_probs=20.9
Q ss_pred CCCcccCcccCcCCChhHHHHHHhhc
Q psy4573 231 QRPYVCEICGKGFTQKQALNTHKRGH 256 (306)
Q Consensus 231 ~~~~~C~~C~~~f~~~~~L~~H~~~h 256 (306)
...|.|.+|.+-|.+...|..|.++.
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhcc
Confidence 34588999999999999998888653
No 140
>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=45.32 E-value=11 Score=18.74 Aligned_cols=10 Identities=30% Similarity=0.823 Sum_probs=7.6
Q ss_pred cceecccccc
Q psy4573 176 IKFECEVCHR 185 (306)
Q Consensus 176 ~~~~C~~C~~ 185 (306)
..|.||.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4788888874
No 141
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=45.30 E-value=5.2 Score=26.08 Aligned_cols=6 Identities=33% Similarity=0.811 Sum_probs=2.4
Q ss_pred cccCcC
Q psy4573 238 ICGKGF 243 (306)
Q Consensus 238 ~C~~~f 243 (306)
.||..|
T Consensus 34 eCg~tF 39 (72)
T PRK09678 34 NCSATF 39 (72)
T ss_pred CCCCEE
Confidence 344443
No 142
>PF15269 zf-C2H2_7: Zinc-finger
Probab=44.50 E-value=15 Score=21.15 Aligned_cols=23 Identities=39% Similarity=0.589 Sum_probs=19.4
Q ss_pred cccccccccccCChHHHHHHhhh
Q psy4573 43 SLACNVCSKRCGSKSGLKIHMKS 65 (306)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~ 65 (306)
.|+|-+|+.+...++.|-.||+-
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 37899999999999999888863
No 143
>KOG4167|consensus
Probab=43.86 E-value=8.3 Score=36.64 Aligned_cols=25 Identities=20% Similarity=0.519 Sum_probs=22.9
Q ss_pred ccCCcchHhhcChHHHHHHhhhcCC
Q psy4573 262 YHCEFCSERFSTKALVRHHVRSHHS 286 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~~~h~ 286 (306)
|.|..|++.|..-.++..||++|.-
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHH
Confidence 9999999999999999999998854
No 144
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=43.85 E-value=8.6 Score=23.06 Aligned_cols=8 Identities=38% Similarity=1.111 Sum_probs=3.6
Q ss_pred ccCCcchH
Q psy4573 262 YHCEFCSE 269 (306)
Q Consensus 262 ~~C~~C~~ 269 (306)
+.|+.|++
T Consensus 38 ~~C~~Cgy 45 (50)
T PRK00432 38 WHCGKCGY 45 (50)
T ss_pred EECCCcCC
Confidence 44444444
No 145
>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=40.29 E-value=13 Score=22.31 Aligned_cols=7 Identities=29% Similarity=1.099 Sum_probs=3.2
Q ss_pred ccCCCCh
Q psy4573 100 YKCNQCD 106 (306)
Q Consensus 100 ~~C~~C~ 106 (306)
|.|++|+
T Consensus 35 w~CP~C~ 41 (50)
T cd00730 35 WVCPVCG 41 (50)
T ss_pred CCCCCCC
Confidence 4444443
No 146
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=40.12 E-value=7.9 Score=23.59 Aligned_cols=9 Identities=56% Similarity=1.464 Sum_probs=4.8
Q ss_pred ccCcccCcC
Q psy4573 235 VCEICGKGF 243 (306)
Q Consensus 235 ~C~~C~~~f 243 (306)
+|+.||+.|
T Consensus 7 ~C~~Cg~~~ 15 (54)
T PF14446_consen 7 KCPVCGKKF 15 (54)
T ss_pred cChhhCCcc
Confidence 455555554
No 147
>KOG2272|consensus
Probab=39.58 E-value=28 Score=28.59 Aligned_cols=117 Identities=16% Similarity=0.332 Sum_probs=50.6
Q ss_pred cccCCCChhhhccHHHHHHHHH----------hcccCCccccCcchhhccchHHHHHHhhhcCCCCCccccccccccccc
Q psy4573 99 EYKCNQCDHVAKKLAYLQAHMK----------KHRNEYTAYCDLCQEGFFRKAKYETHNIQKHNAPPFECESCKKIFTYH 168 (306)
Q Consensus 99 ~~~C~~C~~~f~~~~~l~~H~~----------~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~c~~c~~~f~~~ 168 (306)
-|.|++|++...+...++..-+ ...+...|.|..|...... ..|. -+...-..--|.|..|++...+.
T Consensus 99 CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~-~~l~-fr~d~yH~yHFkCt~C~keL~sd 176 (332)
T KOG2272|consen 99 CFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE-QPLT-FRGDPYHPYHFKCTTCGKELTSD 176 (332)
T ss_pred cchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-cccc-ccCCCCCccceecccccccccch
Confidence 4778888776655544432211 1112234666666543322 1111 11111112235677777766544
Q ss_pred ccccccCc-------ceeccccccccCChH-HHHHHHhhccCCCCcccCcCCCccCC
Q psy4573 169 KNTTHLGI-------KFECEVCHRKLSTKN-HLRLHMRTHTNERPAVCSYCGKGFRR 217 (306)
Q Consensus 169 ~~~~~~~~-------~~~C~~C~~~f~~~~-~l~~H~~~h~~~~~~~C~~C~~~f~~ 217 (306)
...+..+. .+.+++|+.--.... ....=+..|....-|.|..|.+-|..
T Consensus 177 aRevk~eLyClrChD~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPFlG 233 (332)
T KOG2272|consen 177 AREVKGELYCLRCHDKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFLG 233 (332)
T ss_pred hhhhccceeccccccccCCcccccccCchHHHHHHHhccccchhheeehhcCCcccc
Confidence 43222221 234444443211111 11111223333444777777766654
No 148
>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=39.58 E-value=5.1 Score=22.17 Aligned_cols=18 Identities=22% Similarity=0.682 Sum_probs=8.7
Q ss_pred HHHHhhccCCCcccCCcc
Q psy4573 250 NTHKRGHTGEIPYHCEFC 267 (306)
Q Consensus 250 ~~H~~~h~~~~~~~C~~C 267 (306)
.+|=+...|.+.|.|..|
T Consensus 18 ~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 18 KKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCCEeEecCcC
Confidence 344444444555555554
No 149
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=39.37 E-value=11 Score=22.31 Aligned_cols=10 Identities=20% Similarity=0.627 Sum_probs=5.7
Q ss_pred cccCCcchHh
Q psy4573 261 PYHCEFCSER 270 (306)
Q Consensus 261 ~~~C~~C~~~ 270 (306)
++.|+.|+++
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 3556666654
No 150
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=38.69 E-value=20 Score=25.74 Aligned_cols=40 Identities=15% Similarity=0.341 Sum_probs=22.2
Q ss_pred cccccccccccCChHHHHHHhhhcCCCCceecccchhccC
Q psy4573 43 SLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFH 82 (306)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~ 82 (306)
...|+.|+..=.....|+.-........-|.|..||..|.
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 3678888755444444433322222222378888888764
No 151
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=38.11 E-value=15 Score=26.94 Aligned_cols=11 Identities=27% Similarity=0.534 Sum_probs=4.7
Q ss_pred cccCcchhhcc
Q psy4573 128 AYCDLCQEGFF 138 (306)
Q Consensus 128 ~~C~~C~~~~~ 138 (306)
++|..||+.|.
T Consensus 2 H~Ct~Cg~~f~ 12 (131)
T PF09845_consen 2 HQCTKCGRVFE 12 (131)
T ss_pred cccCcCCCCcC
Confidence 34444444443
No 152
>KOG2593|consensus
Probab=37.93 E-value=42 Score=30.07 Aligned_cols=39 Identities=31% Similarity=0.571 Sum_probs=24.6
Q ss_pred cCCCCcccCcCCCccCCcHHHHHHHHHccCCCCcccCcccCc
Q psy4573 201 TNERPAVCSYCGKGFRRGDALTEHIRIHTGQRPYVCEICGKG 242 (306)
Q Consensus 201 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 242 (306)
+..+.|.|+.|.+.|.....++ .+-.....|.|..|+-.
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 4556688888888886654432 23333456788888754
No 153
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=37.86 E-value=31 Score=19.44 Aligned_cols=19 Identities=16% Similarity=0.137 Sum_probs=13.2
Q ss_pred ceeccccccccCChHHHHH
Q psy4573 177 KFECEVCHRKLSTKNHLRL 195 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~ 195 (306)
.+.|+.|+-.+.+...|.+
T Consensus 19 id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EEECCCCCeEEccHHHHHH
Confidence 5678888777777666654
No 154
>KOG1280|consensus
Probab=36.72 E-value=32 Score=29.75 Aligned_cols=39 Identities=18% Similarity=0.387 Sum_probs=27.9
Q ss_pred cCCcccccccccccCChHHHHHHhhhcCCCCc--eecccch
Q psy4573 40 QDGSLACNVCSKRCGSKSGLKIHMKSHTLSKR--YACSICL 78 (306)
Q Consensus 40 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~--~~C~~C~ 78 (306)
.+..|+|+.|+..=.+...|..|+...+.+.. ..|++|.
T Consensus 76 ~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 76 DPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 34478899998887788888888877666543 3466664
No 155
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=36.61 E-value=10 Score=26.26 Aligned_cols=39 Identities=18% Similarity=0.314 Sum_probs=22.7
Q ss_pred cCCcccccccccccCChHHHHHHhhhcCCCCceecccchhccC
Q psy4573 40 QDGSLACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFH 82 (306)
Q Consensus 40 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~ 82 (306)
.++.|.|+.|+..-...-.+ +.-.......|..||..|.
T Consensus 19 L~k~FtCp~Cghe~vs~ctv----kk~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTV----KKTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CCceEecCccCCeeeeEEEE----EecCceeEEEcccCcceEE
Confidence 46778888888665543221 2222233456888877664
No 156
>KOG2071|consensus
Probab=36.05 E-value=31 Score=32.23 Aligned_cols=16 Identities=31% Similarity=0.673 Sum_probs=12.7
Q ss_pred CCCcccCcccCcCCCh
Q psy4573 231 QRPYVCEICGKGFTQK 246 (306)
Q Consensus 231 ~~~~~C~~C~~~f~~~ 246 (306)
+++..|++|+..|...
T Consensus 511 e~~~~C~IC~EkFe~v 526 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVV 526 (579)
T ss_pred ccccCCccccccccee
Confidence 6678899999988653
No 157
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=35.56 E-value=32 Score=25.32 Aligned_cols=17 Identities=12% Similarity=0.323 Sum_probs=9.6
Q ss_pred CCCCcccCcCCCccCCc
Q psy4573 202 NERPAVCSYCGKGFRRG 218 (306)
Q Consensus 202 ~~~~~~C~~C~~~f~~~ 218 (306)
..+.|+|.+|..+..+.
T Consensus 77 d~~lYeCnIC~etS~ee 93 (140)
T PF05290_consen 77 DPKLYECNICKETSAEE 93 (140)
T ss_pred CCCceeccCcccccchh
Confidence 33556666666555443
No 158
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.96 E-value=22 Score=25.10 Aligned_cols=28 Identities=25% Similarity=0.330 Sum_probs=16.6
Q ss_pred eeccccccccCChHHHHHHHhhccCCCCcccCcCCCccC
Q psy4573 178 FECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFR 216 (306)
Q Consensus 178 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 216 (306)
-.||.|++.|-. .+..|..|++||++|.
T Consensus 10 ridPetg~KFYD-----------LNrdPiVsPytG~s~P 37 (129)
T COG4530 10 RIDPETGKKFYD-----------LNRDPIVSPYTGKSYP 37 (129)
T ss_pred ccCccccchhhc-----------cCCCccccCcccccch
Confidence 445666665554 2446666777777663
No 159
>KOG1701|consensus
Probab=34.58 E-value=16 Score=32.43 Aligned_cols=42 Identities=14% Similarity=0.294 Sum_probs=28.1
Q ss_pred cccccccccCChHHHHHHhhhcCCCCceecccchhccCChHH
Q psy4573 45 ACNVCSKRCGSKSGLKIHMKSHTLSKRYACSICLAEFHTLTE 86 (306)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~ 86 (306)
.|..|++...-...-..-|...--..-|+|..|.+.+..++-
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~F 317 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSF 317 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccc
Confidence 799999888766665555544222336899999887655443
No 160
>KOG4167|consensus
Probab=34.28 E-value=10 Score=36.12 Aligned_cols=30 Identities=27% Similarity=0.469 Sum_probs=23.9
Q ss_pred hcCCcccccccccccCChHHHHHHhhhcCC
Q psy4573 39 EQDGSLACNVCSKRCGSKSGLKIHMKSHTL 68 (306)
Q Consensus 39 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 68 (306)
+.++-|.|.+|++.|.-.-.+..||++|.-
T Consensus 788 ~~~giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 788 DPTGIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred CCCceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 345678899999999888888888888754
No 161
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=34.15 E-value=53 Score=27.04 Aligned_cols=56 Identities=18% Similarity=0.459 Sum_probs=27.2
Q ss_pred CccccCcchhhccchHHHHHHhhhcC-CCCCcccccccccccccccccccCc-ceeccccccccCCh
Q psy4573 126 YTAYCDLCQEGFFRKAKYETHNIQKH-NAPPFECESCKKIFTYHKNTTHLGI-KFECEVCHRKLSTK 190 (306)
Q Consensus 126 ~~~~C~~C~~~~~~~~~l~~H~~~~h-~~~~~~c~~c~~~f~~~~~~~~~~~-~~~C~~C~~~f~~~ 190 (306)
..|.|..|+... ++ .+. ....-.|..|.+.|.-.-....-+. .|.|+.|+..|..-
T Consensus 111 rqFaC~~Cd~~W-----wR----rvp~rKeVSRCr~C~~rYDPVP~dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 111 RQFACSSCDHMW-----WR----RVPQRKEVSRCRKCRKRYDPVPCDKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred eeeeccccchHH-----Hh----ccCcccccccccccccccCCCccccccceeeeecccccccchhh
Confidence 567777775431 11 122 1222346666665543221111121 47777777777653
No 162
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=32.71 E-value=25 Score=23.93 Aligned_cols=14 Identities=57% Similarity=1.132 Sum_probs=7.7
Q ss_pred CCcccCcCCCccCC
Q psy4573 204 RPAVCSYCGKGFRR 217 (306)
Q Consensus 204 ~~~~C~~C~~~f~~ 217 (306)
.|-.|..||+.|.+
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34556666666554
No 163
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=32.10 E-value=45 Score=28.42 Aligned_cols=22 Identities=23% Similarity=0.471 Sum_probs=13.8
Q ss_pred CccccCcchhhccchHHHHHHh
Q psy4573 126 YTAYCDLCQEGFFRKAKYETHN 147 (306)
Q Consensus 126 ~~~~C~~C~~~~~~~~~l~~H~ 147 (306)
..|+|+.|...|-..-+.-.|.
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe 408 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHE 408 (421)
T ss_pred cceechhhhhhhhhhhHHHHHH
Confidence 3566777777666666655663
No 164
>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=31.39 E-value=1.5e+02 Score=22.69 Aligned_cols=54 Identities=26% Similarity=0.404 Sum_probs=35.8
Q ss_pred CcccCcccCcCCChhHHHHHHhhccCCCcccCCc--chHhhcChHHHHHHhhhcCCCC
Q psy4573 233 PYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEF--CSERFSTKALVRHHVRSHHSSA 288 (306)
Q Consensus 233 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~ 288 (306)
...|+.|.-........ .-.+.+.+.|+=.|.. |... .+-..|.+|++..|+..
T Consensus 80 ~L~CPLCRG~V~GWtvv-e~AR~~LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~ 135 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVV-EPARRFLNAKKRSCSQESCSFS-GTYSELRKHARSEHPSA 135 (162)
T ss_pred cccCccccCceeceEEc-hHHHHHhccCCccCcccccccc-cCHHHHHHHHHhhCCCC
Confidence 47899997554333333 3355566667666765 6654 36678999999999864
No 165
>KOG3408|consensus
Probab=30.78 E-value=37 Score=24.52 Aligned_cols=26 Identities=19% Similarity=0.485 Sum_probs=23.3
Q ss_pred CCCcccCCcchHhhcChHHHHHHhhh
Q psy4573 258 GEIPYHCEFCSERFSTKALVRHHVRS 283 (306)
Q Consensus 258 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 283 (306)
|..+|.|-.|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 45569999999999999999999876
No 166
>PF12773 DZR: Double zinc ribbon
Probab=30.25 E-value=41 Score=19.76 Aligned_cols=8 Identities=38% Similarity=1.119 Sum_probs=3.8
Q ss_pred cccCcccC
Q psy4573 234 YVCEICGK 241 (306)
Q Consensus 234 ~~C~~C~~ 241 (306)
..|+.|+.
T Consensus 30 ~~C~~Cg~ 37 (50)
T PF12773_consen 30 KICPNCGA 37 (50)
T ss_pred CCCcCCcC
Confidence 34555544
No 167
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.06 E-value=20 Score=26.69 Aligned_cols=14 Identities=29% Similarity=0.624 Sum_probs=9.3
Q ss_pred ceeccccccccCCh
Q psy4573 177 KFECEVCHRKLSTK 190 (306)
Q Consensus 177 ~~~C~~C~~~f~~~ 190 (306)
.+.|..||..|...
T Consensus 70 ~~~C~~CG~~~~~~ 83 (135)
T PRK03824 70 VLKCRNCGNEWSLK 83 (135)
T ss_pred EEECCCCCCEEecc
Confidence 57777777666553
No 168
>KOG4124|consensus
Probab=29.30 E-value=10 Score=32.65 Aligned_cols=54 Identities=31% Similarity=0.708 Sum_probs=37.5
Q ss_pred CCcccC--cccCcCCChhHHHHHHhhcc-------------------CCCcccCCcchHhhcChHHHHHHhhhcC
Q psy4573 232 RPYVCE--ICGKGFTQKQALNTHKRGHT-------------------GEIPYHCEFCSERFSTKALVRHHVRSHH 285 (306)
Q Consensus 232 ~~~~C~--~C~~~f~~~~~L~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~~~h 285 (306)
++|.|+ .|.+.+++.-.|.-|...-| ..|+|+|++|.+.+.....|..|+...|
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~~~ 422 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTHSH 422 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeehhh
Confidence 567774 48888888777777654322 2567899999998877766666654444
No 169
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=28.55 E-value=46 Score=18.76 Aligned_cols=14 Identities=14% Similarity=0.574 Sum_probs=9.0
Q ss_pred CcceeccccccccC
Q psy4573 175 GIKFECEVCHRKLS 188 (306)
Q Consensus 175 ~~~~~C~~C~~~f~ 188 (306)
..-|.|..|+..+.
T Consensus 26 T~fy~C~~C~~~w~ 39 (40)
T smart00440 26 TVFYVCTKCGHRWR 39 (40)
T ss_pred eEEEEeCCCCCEeC
Confidence 33577777776553
No 170
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=28.15 E-value=37 Score=30.45 Aligned_cols=31 Identities=19% Similarity=0.449 Sum_probs=21.1
Q ss_pred eccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHH
Q psy4573 179 ECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDA 220 (306)
Q Consensus 179 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 220 (306)
.|+.||....+. |.+-|+|+.|+..+.+...
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCcccc
Confidence 588888765553 4447888888887776543
No 171
>KOG1842|consensus
Probab=28.04 E-value=39 Score=30.37 Aligned_cols=25 Identities=28% Similarity=0.493 Sum_probs=16.7
Q ss_pred CcccCcccCcCCChhHHHHHHhhcc
Q psy4573 233 PYVCEICGKGFTQKQALNTHKRGHT 257 (306)
Q Consensus 233 ~~~C~~C~~~f~~~~~L~~H~~~h~ 257 (306)
.|.||+|...|.+...|..|.-.-|
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhc
Confidence 4667777777777777777765433
No 172
>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=27.60 E-value=35 Score=21.71 Aligned_cols=8 Identities=38% Similarity=1.032 Sum_probs=2.0
Q ss_pred eecccccc
Q psy4573 178 FECEVCHR 185 (306)
Q Consensus 178 ~~C~~C~~ 185 (306)
+.|..||.
T Consensus 26 hhCr~CG~ 33 (69)
T PF01363_consen 26 HHCRNCGR 33 (69)
T ss_dssp EE-TTT--
T ss_pred EccCCCCC
Confidence 33444443
No 173
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=27.45 E-value=38 Score=20.68 Aligned_cols=9 Identities=22% Similarity=0.977 Sum_probs=5.3
Q ss_pred ceecccccc
Q psy4573 177 KFECEVCHR 185 (306)
Q Consensus 177 ~~~C~~C~~ 185 (306)
.|+|+.|+.
T Consensus 44 ~y~C~~Cg~ 52 (54)
T PF10058_consen 44 QYRCPYCGA 52 (54)
T ss_pred EEEcCCCCC
Confidence 566666653
No 174
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=27.30 E-value=32 Score=23.53 Aligned_cols=11 Identities=18% Similarity=0.522 Sum_probs=5.9
Q ss_pred ceecccchhcc
Q psy4573 71 RYACSICLAEF 81 (306)
Q Consensus 71 ~~~C~~C~~~~ 81 (306)
.+.|..|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PTZ00255 54 IWRCKGCKKTV 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 45555555554
No 175
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=27.24 E-value=42 Score=19.86 Aligned_cols=8 Identities=38% Similarity=0.982 Sum_probs=3.6
Q ss_pred eecccccc
Q psy4573 178 FECEVCHR 185 (306)
Q Consensus 178 ~~C~~C~~ 185 (306)
+.|+.||.
T Consensus 21 ~vC~~Cg~ 28 (52)
T smart00661 21 FVCRKCGY 28 (52)
T ss_pred EECCcCCC
Confidence 44444444
No 176
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=27.20 E-value=72 Score=33.02 Aligned_cols=8 Identities=25% Similarity=0.712 Sum_probs=3.7
Q ss_pred eecccccc
Q psy4573 178 FECEVCHR 185 (306)
Q Consensus 178 ~~C~~C~~ 185 (306)
++|+.||.
T Consensus 668 rkCPkCG~ 675 (1337)
T PRK14714 668 RRCPSCGT 675 (1337)
T ss_pred EECCCCCC
Confidence 44444444
No 177
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=27.19 E-value=27 Score=19.05 Aligned_cols=10 Identities=20% Similarity=0.634 Sum_probs=5.6
Q ss_pred eccccccccC
Q psy4573 179 ECEVCHRKLS 188 (306)
Q Consensus 179 ~C~~C~~~f~ 188 (306)
.|..|++.+.
T Consensus 22 ~C~~C~Y~~~ 31 (35)
T PF02150_consen 22 ACRTCGYEEP 31 (35)
T ss_dssp EESSSS-EEE
T ss_pred CCCCCCCccC
Confidence 6777766543
No 178
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.83 E-value=35 Score=21.25 Aligned_cols=7 Identities=43% Similarity=1.203 Sum_probs=2.9
Q ss_pred ccCCcch
Q psy4573 262 YHCEFCS 268 (306)
Q Consensus 262 ~~C~~C~ 268 (306)
|.|+.|.
T Consensus 32 ymC~eC~ 38 (68)
T COG4896 32 YMCPECE 38 (68)
T ss_pred EechhhH
Confidence 4444443
No 179
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=26.66 E-value=64 Score=16.91 Aligned_cols=14 Identities=21% Similarity=0.700 Sum_probs=7.2
Q ss_pred ceeccccccccCCh
Q psy4573 177 KFECEVCHRKLSTK 190 (306)
Q Consensus 177 ~~~C~~C~~~f~~~ 190 (306)
.|.|+.|+..+-+.
T Consensus 13 kY~Cp~C~~~~CSl 26 (30)
T PF04438_consen 13 KYRCPRCGARYCSL 26 (30)
T ss_dssp SEE-TTT--EESSH
T ss_pred EEECCCcCCceeCc
Confidence 57888887765543
No 180
>KOG3507|consensus
Probab=26.49 E-value=37 Score=20.98 Aligned_cols=10 Identities=30% Similarity=0.634 Sum_probs=5.2
Q ss_pred CcccCcCCCc
Q psy4573 205 PAVCSYCGKG 214 (306)
Q Consensus 205 ~~~C~~C~~~ 214 (306)
.+.|..||..
T Consensus 37 ~irCReCG~R 46 (62)
T KOG3507|consen 37 VIRCRECGYR 46 (62)
T ss_pred cEehhhcchH
Confidence 4555555543
No 181
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=26.11 E-value=21 Score=23.12 Aligned_cols=31 Identities=16% Similarity=0.471 Sum_probs=12.8
Q ss_pred CCcccccccccccccccccccCcceeccccccc
Q psy4573 154 PPFECESCKKIFTYHKNTTHLGIKFECEVCHRK 186 (306)
Q Consensus 154 ~~~~c~~c~~~f~~~~~~~~~~~~~~C~~C~~~ 186 (306)
....|+.|+...+.....- +..|.|+.|+..
T Consensus 40 ~~v~Cg~C~~~~~~~~~~c--~~~~~C~~C~~~ 70 (71)
T PF05495_consen 40 KRVICGKCRTEQPIDEYSC--GADYFCPICGLY 70 (71)
T ss_dssp -EEEETTT--EEES-SBTT----SEEETTTTEE
T ss_pred cCeECCCCCCccChhhhhc--CCCccCcCcCCC
Confidence 3556666665554433210 034666666543
No 182
>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=25.94 E-value=38 Score=31.54 Aligned_cols=6 Identities=50% Similarity=1.625 Sum_probs=2.9
Q ss_pred ccCcCC
Q psy4573 207 VCSYCG 212 (306)
Q Consensus 207 ~C~~C~ 212 (306)
.|..||
T Consensus 215 ~C~~Cg 220 (505)
T TIGR00595 215 LCRSCG 220 (505)
T ss_pred EhhhCc
Confidence 355454
No 183
>COG2879 Uncharacterized small protein [Function unknown]
Probab=25.64 E-value=63 Score=20.33 Aligned_cols=18 Identities=17% Similarity=0.204 Sum_probs=13.7
Q ss_pred cChHHHHHHhhhcCCCCC
Q psy4573 272 STKALVRHHVRSHHSSAR 289 (306)
Q Consensus 272 ~~~~~l~~H~~~~h~~~~ 289 (306)
.+-++..+||+.+|++++
T Consensus 23 pdYdnYVehmr~~hPd~p 40 (65)
T COG2879 23 PDYDNYVEHMRKKHPDKP 40 (65)
T ss_pred CcHHHHHHHHHHhCcCCC
Confidence 355677888888888876
No 184
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=25.35 E-value=35 Score=19.11 Aligned_cols=12 Identities=17% Similarity=0.603 Sum_probs=8.6
Q ss_pred cceecccccccc
Q psy4573 176 IKFECEVCHRKL 187 (306)
Q Consensus 176 ~~~~C~~C~~~f 187 (306)
.-|.|..|+..+
T Consensus 27 ~fy~C~~C~~~w 38 (39)
T PF01096_consen 27 LFYVCCNCGHRW 38 (39)
T ss_dssp EEEEESSSTEEE
T ss_pred EEEEeCCCCCee
Confidence 367888888754
No 185
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=25.29 E-value=33 Score=25.92 Aligned_cols=10 Identities=50% Similarity=1.122 Sum_probs=6.0
Q ss_pred CcccCcccCc
Q psy4573 233 PYVCEICGKG 242 (306)
Q Consensus 233 ~~~C~~C~~~ 242 (306)
.|+|..||..
T Consensus 112 ~l~C~~Cg~~ 121 (146)
T PF07295_consen 112 TLVCENCGHE 121 (146)
T ss_pred eEecccCCCE
Confidence 4666666643
No 186
>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=25.27 E-value=43 Score=23.69 Aligned_cols=11 Identities=18% Similarity=0.625 Sum_probs=5.4
Q ss_pred cccCcccCcCC
Q psy4573 234 YVCEICGKGFT 244 (306)
Q Consensus 234 ~~C~~C~~~f~ 244 (306)
|.|++|+..+.
T Consensus 20 ~iCpeC~~EW~ 30 (109)
T TIGR00686 20 LICPSCLYEWN 30 (109)
T ss_pred eECcccccccc
Confidence 45555554443
No 187
>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=25.12 E-value=54 Score=17.73 Aligned_cols=22 Identities=23% Similarity=0.560 Sum_probs=12.2
Q ss_pred ceeccccccccCChHHHHHHHhh
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMRT 199 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~~ 199 (306)
.+.|+.|++...... +..|+..
T Consensus 4 ~~~C~nC~R~v~a~R-fA~HLek 25 (33)
T PF08209_consen 4 YVECPNCGRPVAASR-FAPHLEK 25 (33)
T ss_dssp EEE-TTTSSEEEGGG-HHHHHHH
T ss_pred eEECCCCcCCcchhh-hHHHHHH
Confidence 466777777655433 5566543
No 188
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=24.83 E-value=31 Score=20.59 Aligned_cols=14 Identities=29% Similarity=0.641 Sum_probs=7.9
Q ss_pred CCcccccccccccC
Q psy4573 41 DGSLACNVCSKRCG 54 (306)
Q Consensus 41 ~~~~~C~~C~~~f~ 54 (306)
++.+.|..||..|.
T Consensus 2 Dk~l~C~dCg~~Fv 15 (49)
T PF13451_consen 2 DKTLTCKDCGAEFV 15 (49)
T ss_pred CeeEEcccCCCeEE
Confidence 34556666665553
No 189
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.82 E-value=22 Score=23.23 Aligned_cols=12 Identities=33% Similarity=0.692 Sum_probs=7.6
Q ss_pred Cccccccccccc
Q psy4573 42 GSLACNVCSKRC 53 (306)
Q Consensus 42 ~~~~C~~C~~~f 53 (306)
-.|+|..|+..|
T Consensus 11 Y~Y~c~~cg~~~ 22 (82)
T COG2331 11 YSYECTECGNRF 22 (82)
T ss_pred eEEeecccchHH
Confidence 346777777555
No 190
>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=24.05 E-value=33 Score=23.51 Aligned_cols=11 Identities=36% Similarity=0.884 Sum_probs=5.8
Q ss_pred ceecccchhcc
Q psy4573 71 RYACSICLAEF 81 (306)
Q Consensus 71 ~~~C~~C~~~~ 81 (306)
.+.|..|++.|
T Consensus 53 IW~C~~C~~~~ 63 (91)
T TIGR00280 53 IWTCRKCGAKF 63 (91)
T ss_pred EEEcCCCCCEE
Confidence 35555555544
No 191
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=23.80 E-value=19 Score=24.59 Aligned_cols=10 Identities=30% Similarity=0.976 Sum_probs=5.0
Q ss_pred ccCCCChhhh
Q psy4573 100 YKCNQCDHVA 109 (306)
Q Consensus 100 ~~C~~C~~~f 109 (306)
|.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (90)
T PF01780_consen 54 WKCKKCGKKF 63 (90)
T ss_dssp EEETTTTEEE
T ss_pred eecCCCCCEE
Confidence 5555555443
No 192
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=23.67 E-value=29 Score=24.90 Aligned_cols=10 Identities=20% Similarity=0.295 Sum_probs=5.8
Q ss_pred cccCcccCcC
Q psy4573 234 YVCEICGKGF 243 (306)
Q Consensus 234 ~~C~~C~~~f 243 (306)
+.|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 5566666554
No 193
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=23.40 E-value=41 Score=26.60 Aligned_cols=15 Identities=27% Similarity=0.840 Sum_probs=9.0
Q ss_pred cceeccccccccCCh
Q psy4573 176 IKFECEVCHRKLSTK 190 (306)
Q Consensus 176 ~~~~C~~C~~~f~~~ 190 (306)
+||.|.+|-+.|.+.
T Consensus 195 IPF~C~iCKkdy~sp 209 (259)
T COG5152 195 IPFLCGICKKDYESP 209 (259)
T ss_pred Cceeehhchhhccch
Confidence 366666666665554
No 194
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=23.36 E-value=48 Score=24.47 Aligned_cols=25 Identities=28% Similarity=0.464 Sum_probs=18.9
Q ss_pred eeccccccccCChHHHHHHHhhccCCCC
Q psy4573 178 FECEVCHRKLSTKNHLRLHMRTHTNERP 205 (306)
Q Consensus 178 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 205 (306)
..|-.+|+.|.+ |++|+.+|.+.-|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 568888888765 8899999876543
No 195
>KOG4377|consensus
Probab=23.27 E-value=73 Score=28.39 Aligned_cols=28 Identities=18% Similarity=0.433 Sum_probs=19.4
Q ss_pred CCCCCCCceEEEEEEeecccccCcccCc
Q psy4573 2 CPYKKPSLHQVSFRFYASRKKRGHEKTL 29 (306)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 (306)
||-.-|..++-.+++++.+--.+.-...
T Consensus 203 ~p~s~P~~sp~~l~~~f~~d~sp~t~~~ 230 (480)
T KOG4377|consen 203 CPLSEPIYSPIELEMYFWRDYSPKTEKS 230 (480)
T ss_pred CCcCCcccCccceeEEEeecCCCCCCcc
Confidence 6677788888888887766555554443
No 196
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=22.93 E-value=46 Score=30.40 Aligned_cols=26 Identities=27% Similarity=0.612 Sum_probs=17.1
Q ss_pred ccCCcchHhhcChHHHHHHhhhcCCC
Q psy4573 262 YHCEFCSERFSTKALVRHHVRSHHSS 287 (306)
Q Consensus 262 ~~C~~C~~~f~~~~~l~~H~~~~h~~ 287 (306)
..|+.|.+.|.....+..|+...|..
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhh
Confidence 45666776777777777776665554
No 197
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.84 E-value=36 Score=24.63 Aligned_cols=10 Identities=30% Similarity=0.730 Sum_probs=4.4
Q ss_pred cccCcCCCcc
Q psy4573 206 AVCSYCGKGF 215 (306)
Q Consensus 206 ~~C~~C~~~f 215 (306)
+.|..|+..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 3444444333
No 198
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.82 E-value=59 Score=19.67 Aligned_cols=10 Identities=30% Similarity=0.866 Sum_probs=3.9
Q ss_pred cccCcCCCcc
Q psy4573 206 AVCSYCGKGF 215 (306)
Q Consensus 206 ~~C~~C~~~f 215 (306)
++|+.|+..|
T Consensus 29 W~C~~Cgh~w 38 (55)
T PF14311_consen 29 WKCPKCGHEW 38 (55)
T ss_pred EECCCCCCee
Confidence 3344443333
No 199
>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=22.70 E-value=28 Score=25.05 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=6.5
Q ss_pred cccCcccCcCC
Q psy4573 234 YVCEICGKGFT 244 (306)
Q Consensus 234 ~~C~~C~~~f~ 244 (306)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 55666665553
No 200
>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=22.62 E-value=63 Score=18.37 Aligned_cols=9 Identities=22% Similarity=0.560 Sum_probs=3.8
Q ss_pred eeccccccc
Q psy4573 178 FECEVCHRK 186 (306)
Q Consensus 178 ~~C~~C~~~ 186 (306)
+.|+.||..
T Consensus 20 ~vC~~CG~V 28 (43)
T PF08271_consen 20 LVCPNCGLV 28 (43)
T ss_dssp EEETTT-BB
T ss_pred EECCCCCCE
Confidence 445555443
No 201
>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=22.34 E-value=34 Score=23.83 Aligned_cols=22 Identities=9% Similarity=-0.009 Sum_probs=16.3
Q ss_pred hhhhhhhcCCcccccccccccCC
Q psy4573 33 KKCREVEQDGSLACNVCSKRCGS 55 (306)
Q Consensus 33 ~~~~~~~~~~~~~C~~C~~~f~~ 55 (306)
.|.+...+ ++.+|+.||..|.-
T Consensus 70 ~W~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 70 IWMWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEEEeCC-CceeCCCCCcEEEE
Confidence 45555555 78999999999863
No 202
>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=22.31 E-value=98 Score=19.58 Aligned_cols=14 Identities=21% Similarity=0.612 Sum_probs=8.3
Q ss_pred CceecccchhccCC
Q psy4573 70 KRYACSICLAEFHT 83 (306)
Q Consensus 70 ~~~~C~~C~~~~~~ 83 (306)
..|.|+.||..+..
T Consensus 45 r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 45 RVFTCPNCGFEMDR 58 (69)
T ss_pred ceEEcCCCCCEECc
Confidence 35666666665544
No 203
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=22.31 E-value=53 Score=20.21 Aligned_cols=12 Identities=25% Similarity=0.783 Sum_probs=6.1
Q ss_pred cCCcccCCCChh
Q psy4573 96 VEGEYKCNQCDH 107 (306)
Q Consensus 96 ~~~~~~C~~C~~ 107 (306)
+...|-|+.|..
T Consensus 28 Pi~tYmC~eC~~ 39 (56)
T PF09963_consen 28 PIHTYMCDECKE 39 (56)
T ss_pred CCcceeChhHHH
Confidence 344455555544
No 204
>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=22.10 E-value=33 Score=18.81 Aligned_cols=6 Identities=33% Similarity=1.082 Sum_probs=2.2
Q ss_pred eccccc
Q psy4573 179 ECEVCH 184 (306)
Q Consensus 179 ~C~~C~ 184 (306)
.|+.||
T Consensus 23 sC~~CG 28 (35)
T PF07503_consen 23 SCTNCG 28 (35)
T ss_dssp -BTTCC
T ss_pred cCCCCC
Confidence 344444
No 205
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=21.56 E-value=51 Score=19.66 Aligned_cols=18 Identities=17% Similarity=0.436 Sum_probs=6.5
Q ss_pred hhhhhhcCCccccccccc
Q psy4573 34 KCREVEQDGSLACNVCSK 51 (306)
Q Consensus 34 ~~~~~~~~~~~~C~~C~~ 51 (306)
........+.|.|++|++
T Consensus 32 fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 32 FLESNQRTPKWKCPICNK 49 (50)
T ss_dssp HHHHHHHS---B-TTT--
T ss_pred HHHHhhccCCeECcCCcC
Confidence 333344455577777764
No 206
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=21.56 E-value=46 Score=18.65 Aligned_cols=13 Identities=31% Similarity=0.807 Sum_probs=9.0
Q ss_pred CcccCcccCcCCC
Q psy4573 233 PYVCEICGKGFTQ 245 (306)
Q Consensus 233 ~~~C~~C~~~f~~ 245 (306)
|+.|..|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 6777777777643
No 207
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=21.50 E-value=20 Score=18.57 Aligned_cols=17 Identities=35% Similarity=0.597 Sum_probs=7.5
Q ss_pred cccccccccCChHHHHHH
Q psy4573 45 ACNVCSKRCGSKSGLKIH 62 (306)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H 62 (306)
.|-.|++.| .....+.|
T Consensus 2 sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 2 SCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EETTTTEEE-EGGGTTT-
T ss_pred eeecCCCCc-CcCCcCCC
Confidence 455555555 23333333
No 208
>PLN02294 cytochrome c oxidase subunit Vb
Probab=21.26 E-value=38 Score=26.14 Aligned_cols=24 Identities=17% Similarity=0.230 Sum_probs=16.4
Q ss_pred hhhhhhhhcCCcccccccccccCCh
Q psy4573 32 AKKCREVEQDGSLACNVCSKRCGSK 56 (306)
Q Consensus 32 ~~~~~~~~~~~~~~C~~C~~~f~~~ 56 (306)
..|.+..+ +++.+|++||..|+-.
T Consensus 131 v~Wf~L~k-Gkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 131 VVWFWLEK-GKSFECPVCTQYFELE 154 (174)
T ss_pred eEEEEecC-CCceeCCCCCCEEEEE
Confidence 34555554 4678899999988643
No 209
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=21.23 E-value=1.3e+02 Score=18.46 Aligned_cols=9 Identities=33% Similarity=0.918 Sum_probs=3.9
Q ss_pred cccCcccCc
Q psy4573 234 YVCEICGKG 242 (306)
Q Consensus 234 ~~C~~C~~~ 242 (306)
|.|+.||..
T Consensus 15 ~~Cp~cGip 23 (55)
T PF13824_consen 15 FECPDCGIP 23 (55)
T ss_pred CcCCCCCCc
Confidence 444444443
No 210
>KOG3214|consensus
Probab=20.58 E-value=21 Score=24.72 Aligned_cols=39 Identities=21% Similarity=0.458 Sum_probs=20.4
Q ss_pred CCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHhhcCh
Q psy4573 232 RPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSERFSTK 274 (306)
Q Consensus 232 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~ 274 (306)
..|.|+.|.--=+-.-.|.+ -+...-..|.+|+.+|...
T Consensus 22 t~FnClfcnHek~v~~~~Dk----~~~iG~~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 22 TQFNCLFCNHEKSVSCTLDK----KHNIGKASCRICEESFQTT 60 (109)
T ss_pred eeeccCccccccceeeeehh----hcCcceeeeeehhhhhccc
Confidence 35778888643222222211 1222335688888888644
No 211
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.57 E-value=24 Score=30.12 Aligned_cols=72 Identities=19% Similarity=0.327 Sum_probs=25.7
Q ss_pred ccccccccccccccccc---cCcceeccccccccCChHHHHHHHhhccCCCCcccCcCCCccCCcHHHHHHHHHccCCCC
Q psy4573 157 ECESCKKIFTYHKNTTH---LGIKFECEVCHRKLSTKNHLRLHMRTHTNERPAVCSYCGKGFRRGDALTEHIRIHTGQRP 233 (306)
Q Consensus 157 ~c~~c~~~f~~~~~~~~---~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 233 (306)
.|++||..-........ ..+-..|..|+..... ....|+.||..-...-.+.. ...-.+.+.
T Consensus 174 ~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~--------------~R~~Cp~Cg~~~~~~l~~~~-~e~~~~~rv 238 (290)
T PF04216_consen 174 YCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRF--------------VRIKCPYCGNTDHEKLEYFT-VEGEPAYRV 238 (290)
T ss_dssp S-TTT---EEEEEEE------EEEEEETTT--EEE----------------TTS-TTT---SS-EEE---------SEEE
T ss_pred cCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeee--------------cCCCCcCCCCCCCcceeeEe-cCCCCcEEE
Confidence 56666655433322222 1235667777764322 22568888865443322211 111223455
Q ss_pred cccCcccCcC
Q psy4573 234 YVCEICGKGF 243 (306)
Q Consensus 234 ~~C~~C~~~f 243 (306)
+.|..|+.-+
T Consensus 239 e~C~~C~~Yl 248 (290)
T PF04216_consen 239 EVCESCGSYL 248 (290)
T ss_dssp EEETTTTEEE
T ss_pred EECCcccchH
Confidence 6787777443
No 212
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=20.38 E-value=61 Score=23.21 Aligned_cols=15 Identities=13% Similarity=0.565 Sum_probs=9.1
Q ss_pred ceeccccccccCChH
Q psy4573 177 KFECEVCHRKLSTKN 191 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~ 191 (306)
...|..||..|....
T Consensus 70 ~~~C~~Cg~~~~~~~ 84 (113)
T PF01155_consen 70 RARCRDCGHEFEPDE 84 (113)
T ss_dssp EEEETTTS-EEECHH
T ss_pred cEECCCCCCEEecCC
Confidence 466777777776543
No 213
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.35 E-value=30 Score=28.10 Aligned_cols=27 Identities=11% Similarity=0.273 Sum_probs=17.9
Q ss_pred cCCcccccccccccCChHHHHHHhhhc
Q psy4573 40 QDGSLACNVCSKRCGSKSGLKIHMKSH 66 (306)
Q Consensus 40 ~~~~~~C~~C~~~f~~~~~l~~H~~~h 66 (306)
-++.+.||.|+..|.....+..-.++-
T Consensus 16 ~kk~ieCPvC~tkFkkeev~tgsiRii 42 (267)
T COG1655 16 YKKTIECPVCNTKFKKEEVKTGSIRII 42 (267)
T ss_pred hhceeccCcccchhhhhheeccceeEe
Confidence 356788999999997665444444433
No 214
>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=20.30 E-value=72 Score=27.48 Aligned_cols=46 Identities=26% Similarity=0.664 Sum_probs=28.7
Q ss_pred cccCcCCCccCCcHHHHHHHHH---ccCCCCcccCcccCcCCChhHHHHHHhhccCCCcccCCcchHh
Q psy4573 206 AVCSYCGKGFRRGDALTEHIRI---HTGQRPYVCEICGKGFTQKQALNTHKRGHTGEIPYHCEFCSER 270 (306)
Q Consensus 206 ~~C~~C~~~f~~~~~l~~H~~~---h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 270 (306)
-.|+.||..-. ..-++. ..|.+-..|..|+-.+. ..+..|+.|+.+
T Consensus 185 ~~CPvCGs~P~-----~s~~~~~~~~~G~RyL~CslC~teW~--------------~~R~~C~~Cg~~ 233 (305)
T TIGR01562 185 TLCPACGSPPV-----ASMVRQGGKETGLRYLSCSLCATEWH--------------YVRVKCSHCEES 233 (305)
T ss_pred CcCCCCCChhh-----hhhhcccCCCCCceEEEcCCCCCccc--------------ccCccCCCCCCC
Confidence 36999994431 111222 45677788999986541 123689999975
No 215
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=20.16 E-value=20 Score=27.01 Aligned_cols=32 Identities=28% Similarity=0.716 Sum_probs=14.8
Q ss_pred ceecccchhccCChHHHhhhhhhcccCCcccCCCChh
Q psy4573 71 RYACSICLAEFHTLTEKDRHTLSHVVEGEYKCNQCDH 107 (306)
Q Consensus 71 ~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~C~~C~~ 107 (306)
+|.|. |+..+-+ ..+|-..-.++ .|.|..|+.
T Consensus 117 ~Y~C~-C~q~~l~---~RRhn~~~~g~-~YrC~~C~g 148 (156)
T COG3091 117 PYRCQ-CQQHYLR---IRRHNTVRRGE-VYRCGKCGG 148 (156)
T ss_pred eEEee-cCCccch---hhhcccccccc-eEEeccCCc
Confidence 55666 6555432 22232233333 566666654
No 216
>KOG3362|consensus
Probab=20.10 E-value=32 Score=25.65 Aligned_cols=22 Identities=27% Similarity=0.569 Sum_probs=14.9
Q ss_pred ceeccccccccCChHHHHHHHh
Q psy4573 177 KFECEVCHRKLSTKNHLRLHMR 198 (306)
Q Consensus 177 ~~~C~~C~~~f~~~~~l~~H~~ 198 (306)
+|.|..||-.+-+..-+..|..
T Consensus 129 ~ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred hhHHHhcCCceeechhhhhccc
Confidence 4667777777777776666654
No 217
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.03 E-value=51 Score=24.30 Aligned_cols=15 Identities=7% Similarity=0.087 Sum_probs=8.6
Q ss_pred CCCCCcccccccchh
Q psy4573 287 SARLGLNLLDHELSM 301 (306)
Q Consensus 287 ~~~~~C~~c~~~~~~ 301 (306)
.++|+|+.|+++|+.
T Consensus 51 ~qRyrC~~C~~tf~~ 65 (129)
T COG3677 51 HQRYKCKSCGSTFTV 65 (129)
T ss_pred ccccccCCcCcceee
Confidence 355666666666553
No 218
>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=20.03 E-value=56 Score=16.85 Aligned_cols=10 Identities=20% Similarity=0.707 Sum_probs=3.8
Q ss_pred ceeccccccc
Q psy4573 177 KFECEVCHRK 186 (306)
Q Consensus 177 ~~~C~~C~~~ 186 (306)
.|.|..|+..
T Consensus 15 ~Y~C~~Cdf~ 24 (30)
T PF07649_consen 15 FYRCSECDFD 24 (30)
T ss_dssp EEE-TTT---
T ss_pred eEECccCCCc
Confidence 4666666554
Done!