Query psy11589
Match_columns 262
No_of_seqs 336 out of 2153
Neff 10.7
Searched_HMMs 46136
Date Fri Aug 16 22:33:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11589.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11589hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 6.3E-32 1.4E-36 203.4 5.6 135 121-257 128-265 (279)
2 KOG1074|consensus 100.0 1.6E-31 3.5E-36 226.6 3.3 78 124-202 606-691 (958)
3 KOG3608|consensus 100.0 2.4E-28 5.3E-33 188.9 10.5 232 8-260 133-377 (467)
4 KOG2462|consensus 99.9 9E-29 1.9E-33 186.4 4.9 133 93-229 129-265 (279)
5 KOG1074|consensus 99.9 5.2E-28 1.1E-32 205.5 4.0 166 94-261 605-933 (958)
6 KOG3623|consensus 99.9 2.4E-27 5.2E-32 198.6 5.7 77 179-256 895-971 (1007)
7 KOG3608|consensus 99.9 1E-25 2.2E-30 174.5 11.8 190 67-259 135-345 (467)
8 KOG3623|consensus 99.9 2E-22 4.4E-27 169.3 6.1 106 67-173 211-331 (1007)
9 KOG3576|consensus 99.8 3.4E-19 7.4E-24 128.3 3.0 111 149-260 115-237 (267)
10 KOG3576|consensus 99.7 1.5E-18 3.3E-23 125.0 2.3 83 93-176 116-198 (267)
11 PLN03086 PRLI-interacting fact 99.4 1.1E-12 2.3E-17 111.6 8.5 144 94-257 407-562 (567)
12 PHA00733 hypothetical protein 99.4 7E-13 1.5E-17 92.4 5.6 82 177-260 39-124 (128)
13 PLN03086 PRLI-interacting fact 99.3 2.4E-11 5.2E-16 103.5 9.3 146 10-203 408-565 (567)
14 PHA00733 hypothetical protein 99.2 8.5E-12 1.8E-16 87.0 4.3 81 149-232 38-124 (128)
15 PHA02768 hypothetical protein; 99.2 9.8E-12 2.1E-16 71.3 2.3 44 207-252 5-48 (55)
16 KOG3993|consensus 99.0 2.4E-11 5.3E-16 97.4 -0.6 163 94-257 267-480 (500)
17 KOG3993|consensus 99.0 2.7E-11 6E-16 97.1 -0.4 162 66-229 267-480 (500)
18 PF13465 zf-H2C2_2: Zinc-finge 99.0 3E-10 6.6E-15 55.9 2.0 26 222-247 1-26 (26)
19 PHA02768 hypothetical protein; 98.9 5.2E-10 1.1E-14 64.3 1.6 42 179-223 6-47 (55)
20 PHA00616 hypothetical protein 98.8 2.4E-09 5.2E-14 58.5 1.6 34 207-240 1-34 (44)
21 PHA00732 hypothetical protein 98.7 1.3E-08 2.8E-13 64.3 2.8 48 178-231 1-48 (79)
22 PF13465 zf-H2C2_2: Zinc-finge 98.6 1.6E-08 3.5E-13 49.7 1.9 26 193-219 1-26 (26)
23 PF05605 zf-Di19: Drought indu 98.5 1.2E-07 2.7E-12 55.7 3.8 49 208-259 3-53 (54)
24 PHA00616 hypothetical protein 98.5 6E-08 1.3E-12 53.0 1.6 28 235-262 1-28 (44)
25 PHA00732 hypothetical protein 98.5 9.1E-08 2E-12 60.5 2.4 45 207-257 1-46 (79)
26 PF05605 zf-Di19: Drought indu 98.4 6.7E-07 1.5E-11 52.6 4.5 52 178-232 2-54 (54)
27 PF00096 zf-C2H2: Zinc finger, 98.3 3.3E-07 7.2E-12 43.7 1.7 23 236-258 1-23 (23)
28 PF12756 zf-C2H2_2: C2H2 type 98.2 6.8E-07 1.5E-11 60.1 2.3 71 154-229 2-72 (100)
29 PF00096 zf-C2H2: Zinc finger, 98.2 1.3E-06 2.8E-11 41.6 1.8 23 208-230 1-23 (23)
30 PF13894 zf-C2H2_4: C2H2-type 98.1 3E-06 6.4E-11 40.7 2.1 23 236-258 1-23 (24)
31 PF13912 zf-C2H2_6: C2H2-type 98.0 2.1E-06 4.6E-11 42.6 1.1 25 235-259 1-25 (27)
32 PF12756 zf-C2H2_2: C2H2 type 97.9 7.5E-06 1.6E-10 55.0 2.4 71 11-88 1-72 (100)
33 PF13894 zf-C2H2_4: C2H2-type 97.9 1E-05 2.2E-10 38.8 2.0 23 208-230 1-23 (24)
34 PF13912 zf-C2H2_6: C2H2-type 97.8 1.3E-05 2.8E-10 39.7 1.7 26 207-232 1-26 (27)
35 PF09237 GAGA: GAGA factor; I 97.7 3.4E-05 7.5E-10 43.1 2.2 34 202-235 19-52 (54)
36 COG5189 SFP1 Putative transcri 97.6 1.4E-05 3.1E-10 62.5 0.5 70 176-255 347-418 (423)
37 smart00355 ZnF_C2H2 zinc finge 97.6 6.8E-05 1.5E-09 36.4 2.6 24 236-259 1-24 (26)
38 PF13909 zf-H2C2_5: C2H2-type 97.6 5E-05 1.1E-09 36.4 1.9 24 236-260 1-24 (24)
39 PF09237 GAGA: GAGA factor; I 97.4 0.00014 3E-09 40.8 2.6 38 225-262 13-51 (54)
40 smart00355 ZnF_C2H2 zinc finge 97.4 0.00019 4.2E-09 34.7 2.5 24 208-231 1-24 (26)
41 PRK04860 hypothetical protein; 97.2 0.00015 3.2E-09 52.6 1.4 40 206-249 118-157 (160)
42 COG5189 SFP1 Putative transcri 97.2 0.00018 3.9E-09 56.6 1.6 69 6-86 346-418 (423)
43 PF12874 zf-met: Zinc-finger o 97.2 0.00019 4.1E-09 34.7 1.1 23 236-258 1-23 (25)
44 KOG1146|consensus 97.0 8.3E-05 1.8E-09 68.9 -1.7 100 97-199 439-539 (1406)
45 PF13909 zf-H2C2_5: C2H2-type 97.0 0.00067 1.4E-08 32.3 2.2 24 10-38 1-24 (24)
46 KOG2231|consensus 97.0 0.0022 4.7E-08 56.5 6.6 100 96-202 117-236 (669)
47 PF12874 zf-met: Zinc-finger o 97.0 0.00049 1.1E-08 33.2 1.5 23 208-230 1-23 (25)
48 COG5236 Uncharacterized conser 96.7 0.0027 5.9E-08 50.8 4.7 118 9-147 151-305 (493)
49 PF12171 zf-C2H2_jaz: Zinc-fin 96.6 0.00046 9.9E-09 34.0 -0.0 22 236-257 2-23 (27)
50 KOG2231|consensus 96.5 0.0062 1.4E-07 53.7 6.0 47 96-147 184-236 (669)
51 PF12171 zf-C2H2_jaz: Zinc-fin 96.3 0.0027 5.7E-08 31.2 1.5 22 67-88 2-23 (27)
52 KOG1146|consensus 96.2 0.0019 4.1E-08 60.4 1.2 77 181-257 439-540 (1406)
53 KOG2482|consensus 96.2 0.0087 1.9E-07 47.9 4.7 52 94-145 144-217 (423)
54 KOG2785|consensus 96.2 0.014 3E-07 47.6 5.7 51 207-257 166-242 (390)
55 KOG2482|consensus 95.9 0.0044 9.6E-08 49.5 1.9 68 8-88 143-217 (423)
56 KOG2785|consensus 95.9 0.018 3.8E-07 47.0 5.3 52 178-229 166-242 (390)
57 PRK04860 hypothetical protein; 95.9 0.0043 9.3E-08 45.1 1.6 36 94-134 119-154 (160)
58 PF13913 zf-C2HC_2: zinc-finge 95.8 0.0087 1.9E-07 28.8 2.1 19 237-256 4-22 (25)
59 COG5236 Uncharacterized conser 95.6 0.022 4.8E-07 45.7 4.7 128 95-230 152-304 (493)
60 PF13913 zf-C2HC_2: zinc-finge 95.4 0.015 3.2E-07 27.9 1.9 19 209-228 4-22 (25)
61 smart00451 ZnF_U1 U1-like zinc 95.1 0.015 3.3E-07 30.4 1.7 22 235-256 3-24 (35)
62 KOG4173|consensus 95.1 0.013 2.8E-07 43.5 1.7 75 152-228 80-167 (253)
63 KOG2893|consensus 95.0 0.0066 1.4E-07 46.0 0.1 41 181-226 13-53 (341)
64 KOG2893|consensus 94.7 0.01 2.2E-07 45.0 0.3 48 68-119 12-59 (341)
65 TIGR00622 ssl1 transcription f 94.4 0.11 2.4E-06 35.1 4.7 48 181-231 58-105 (112)
66 cd00350 rubredoxin_like Rubred 94.2 0.027 5.8E-07 29.1 1.2 10 234-243 16-25 (33)
67 COG5048 FOG: Zn-finger [Genera 94.0 0.013 2.8E-07 50.2 -0.4 148 94-242 289-453 (467)
68 TIGR00622 ssl1 transcription f 93.9 0.1 2.2E-06 35.3 3.7 49 209-259 57-105 (112)
69 COG5048 FOG: Zn-finger [Genera 93.6 0.03 6.4E-07 47.9 1.0 149 65-215 288-454 (467)
70 PF12013 DUF3505: Protein of u 93.4 0.29 6.4E-06 33.2 5.6 26 8-38 10-35 (109)
71 smart00451 ZnF_U1 U1-like zinc 93.2 0.078 1.7E-06 27.6 1.9 24 8-35 2-25 (35)
72 KOG4173|consensus 93.1 0.054 1.2E-06 40.3 1.6 84 122-208 78-176 (253)
73 PF12013 DUF3505: Protein of u 93.1 0.15 3.2E-06 34.7 3.7 25 236-260 81-109 (109)
74 COG4049 Uncharacterized protei 91.2 0.17 3.8E-06 29.0 1.8 27 62-88 13-39 (65)
75 cd00729 rubredoxin_SM Rubredox 90.3 0.15 3.3E-06 26.4 1.0 10 208-217 3-12 (34)
76 COG4049 Uncharacterized protei 89.5 0.2 4.3E-06 28.8 1.1 32 88-119 11-42 (65)
77 COG1592 Rubrerythrin [Energy p 89.1 0.2 4.3E-06 36.6 1.2 23 178-214 134-156 (166)
78 PF10571 UPF0547: Uncharacteri 88.4 0.35 7.5E-06 23.4 1.4 10 237-246 16-25 (26)
79 PF09986 DUF2225: Uncharacteri 87.9 0.092 2E-06 40.4 -1.3 13 208-220 49-61 (214)
80 PF09986 DUF2225: Uncharacteri 87.2 0.14 3.1E-06 39.4 -0.6 14 178-191 48-61 (214)
81 smart00659 RPOLCX RNA polymera 87.2 0.36 7.8E-06 26.7 1.2 26 208-244 3-28 (44)
82 TIGR02098 MJ0042_CXXC MJ0042 f 85.8 0.42 9.2E-06 25.4 1.0 9 236-244 26-34 (38)
83 PF06524 NOA36: NOA36 protein; 85.7 0.31 6.8E-06 37.8 0.6 26 233-258 207-232 (314)
84 PHA00626 hypothetical protein 85.2 0.2 4.4E-06 28.8 -0.5 12 207-218 23-34 (59)
85 COG1996 RPC10 DNA-directed RNA 84.6 0.49 1.1E-05 26.7 0.9 28 207-244 6-33 (49)
86 smart00614 ZnF_BED BED zinc fi 84.6 0.8 1.7E-05 26.1 1.8 21 236-256 19-44 (50)
87 PF13719 zinc_ribbon_5: zinc-r 84.0 0.83 1.8E-05 24.2 1.6 10 68-77 4-13 (37)
88 TIGR00373 conserved hypothetic 83.8 1.1 2.5E-05 32.6 2.8 33 204-245 106-138 (158)
89 PF09538 FYDLN_acid: Protein o 83.4 0.88 1.9E-05 30.8 1.9 12 207-218 26-37 (108)
90 PF13717 zinc_ribbon_4: zinc-r 83.3 0.97 2.1E-05 23.8 1.7 9 69-77 5-13 (36)
91 smart00834 CxxC_CXXC_SSSS Puta 83.3 0.36 7.8E-06 26.1 -0.0 10 152-161 6-15 (41)
92 PRK14890 putative Zn-ribbon RN 82.0 0.7 1.5E-05 27.1 0.9 7 152-158 26-32 (59)
93 PF06524 NOA36: NOA36 protein; 82.0 1.4 3.1E-05 34.3 2.7 39 120-159 139-179 (314)
94 PF02892 zf-BED: BED zinc fing 81.8 1.2 2.5E-05 24.6 1.7 23 233-255 14-40 (45)
95 PF09538 FYDLN_acid: Protein o 81.5 0.9 1.9E-05 30.7 1.4 12 151-162 26-37 (108)
96 KOG2186|consensus 81.1 1 2.3E-05 34.9 1.8 45 152-198 4-48 (276)
97 TIGR02605 CxxC_CxxC_SSSS putat 79.9 0.62 1.3E-05 26.7 0.2 12 67-78 6-17 (52)
98 COG1198 PriA Primosomal protei 79.9 1.3 2.9E-05 40.5 2.3 29 201-244 456-484 (730)
99 PRK06266 transcription initiat 79.6 1.7 3.8E-05 32.4 2.5 31 206-245 116-146 (178)
100 PRK00398 rpoP DNA-directed RNA 79.0 0.87 1.9E-05 25.4 0.6 30 66-105 3-32 (46)
101 COG1592 Rubrerythrin [Energy p 78.9 1.3 2.9E-05 32.4 1.6 25 207-244 134-158 (166)
102 smart00734 ZnF_Rad18 Rad18-lik 78.6 2.2 4.9E-05 20.5 1.9 19 237-256 3-21 (26)
103 PF15269 zf-C2H2_7: Zinc-finge 78.2 1.9 4.1E-05 23.6 1.7 23 9-35 20-42 (54)
104 PF09723 Zn-ribbon_8: Zinc rib 77.5 0.64 1.4E-05 25.4 -0.2 7 154-160 8-14 (42)
105 smart00531 TFIIE Transcription 77.5 2.3 5E-05 30.6 2.6 36 93-133 98-133 (147)
106 KOG2186|consensus 76.4 1.8 3.8E-05 33.7 1.7 46 95-144 4-49 (276)
107 TIGR00373 conserved hypothetic 76.3 2 4.4E-05 31.3 2.0 17 123-139 109-125 (158)
108 KOG2807|consensus 76.0 4.3 9.3E-05 32.9 3.8 21 177-197 289-309 (378)
109 PF12907 zf-met2: Zinc-binding 75.7 2 4.4E-05 23.2 1.4 13 192-204 18-30 (40)
110 PF03604 DNA_RNApol_7kD: DNA d 74.4 1.5 3.3E-05 22.3 0.7 6 180-185 19-24 (32)
111 PF15269 zf-C2H2_7: Zinc-finge 74.0 2.5 5.3E-05 23.1 1.4 21 236-256 21-41 (54)
112 PF08274 PhnA_Zn_Ribbon: PhnA 73.1 0.95 2.1E-05 22.7 -0.2 8 178-185 19-26 (30)
113 KOG2071|consensus 72.7 3.5 7.6E-05 36.3 2.8 25 177-202 417-441 (579)
114 smart00531 TFIIE Transcription 71.8 5.3 0.00012 28.7 3.2 36 122-161 98-133 (147)
115 COG1198 PriA Primosomal protei 71.7 2.3 4.9E-05 39.1 1.6 28 118-160 457-484 (730)
116 PF05290 Baculo_IE-1: Baculovi 71.6 3.1 6.6E-05 29.0 1.8 15 64-78 78-92 (140)
117 PF09845 DUF2072: Zn-ribbon co 70.3 2.5 5.5E-05 29.4 1.2 15 207-221 1-15 (131)
118 PRK04023 DNA polymerase II lar 70.2 4.3 9.4E-05 38.2 3.0 10 236-245 664-673 (1121)
119 TIGR02300 FYDLN_acid conserved 69.7 3.6 7.9E-05 28.4 1.9 11 178-188 26-36 (129)
120 PF02176 zf-TRAF: TRAF-type zi 69.5 1.8 3.9E-05 25.6 0.3 21 220-240 23-43 (60)
121 PF14353 CpXC: CpXC protein 68.8 1.2 2.7E-05 31.1 -0.5 10 125-134 3-12 (128)
122 PRK00464 nrdR transcriptional 68.3 1.2 2.6E-05 32.3 -0.7 17 152-168 29-45 (154)
123 PRK06266 transcription initiat 68.2 3.6 7.8E-05 30.7 1.8 32 93-134 116-147 (178)
124 PF04959 ARS2: Arsenite-resist 66.7 4.9 0.00011 30.9 2.2 28 92-119 75-102 (214)
125 PF07754 DUF1610: Domain of un 66.6 2.8 6E-05 19.8 0.6 8 207-214 16-23 (24)
126 PF00301 Rubredoxin: Rubredoxi 65.0 2.6 5.7E-05 23.7 0.4 14 9-26 1-14 (47)
127 PF04959 ARS2: Arsenite-resist 64.9 2.7 5.9E-05 32.2 0.6 23 207-229 77-99 (214)
128 COG1997 RPL43A Ribosomal prote 63.2 6.3 0.00014 25.3 1.9 30 66-105 35-64 (89)
129 KOG2807|consensus 62.0 16 0.00035 29.8 4.3 22 178-199 345-366 (378)
130 COG5188 PRP9 Splicing factor 3 61.0 13 0.00027 30.7 3.6 26 202-227 369-395 (470)
131 KOG2071|consensus 60.9 9.2 0.0002 33.8 3.1 28 6-37 415-442 (579)
132 PF05443 ROS_MUCR: ROS/MUCR tr 60.1 5.5 0.00012 28.0 1.3 22 236-260 73-94 (132)
133 PRK04023 DNA polymerase II lar 59.9 7.9 0.00017 36.6 2.6 9 124-132 627-635 (1121)
134 COG5151 SSL1 RNA polymerase II 59.5 12 0.00026 30.2 3.2 22 178-199 388-409 (421)
135 PRK00432 30S ribosomal protein 58.6 4.3 9.3E-05 23.2 0.5 11 235-245 37-47 (50)
136 COG3364 Zn-ribbon containing p 57.4 7.3 0.00016 25.7 1.5 14 207-220 2-15 (112)
137 COG3091 SprT Zn-dependent meta 56.7 4.6 9.9E-05 28.9 0.5 34 206-244 116-149 (156)
138 COG5151 SSL1 RNA polymerase II 56.6 8.9 0.00019 30.9 2.1 25 206-230 387-411 (421)
139 PF08271 TF_Zn_Ribbon: TFIIB z 56.1 8.7 0.00019 20.9 1.5 11 67-77 20-30 (43)
140 PRK09678 DNA-binding transcrip 56.1 3.9 8.4E-05 25.4 0.1 15 122-136 26-42 (72)
141 KOG4167|consensus 54.7 2.5 5.5E-05 38.0 -1.2 25 235-259 792-816 (907)
142 PF05191 ADK_lid: Adenylate ki 54.6 5.2 0.00011 21.0 0.4 8 126-133 4-11 (36)
143 PF14446 Prok-RING_1: Prokaryo 54.6 8.2 0.00018 22.4 1.2 26 124-161 6-31 (54)
144 COG3357 Predicted transcriptio 54.6 7.8 0.00017 25.0 1.2 10 152-161 59-68 (97)
145 KOG2593|consensus 53.7 12 0.00027 31.7 2.6 35 177-215 127-161 (436)
146 KOG0696|consensus 51.9 8.6 0.00019 32.8 1.4 45 170-214 84-128 (683)
147 PF04780 DUF629: Protein of un 51.6 8.6 0.00019 33.3 1.4 28 178-205 57-84 (466)
148 smart00154 ZnF_AN1 AN1-like Zi 51.3 7.9 0.00017 20.7 0.8 13 235-247 12-24 (39)
149 KOG1280|consensus 50.1 14 0.0003 30.4 2.3 37 94-130 79-116 (381)
150 PRK03824 hypA hydrogenase nick 49.8 8 0.00017 27.4 0.8 15 65-79 69-83 (135)
151 KOG2272|consensus 48.8 17 0.00036 28.5 2.5 15 235-249 280-294 (332)
152 TIGR01206 lysW lysine biosynth 48.5 18 0.00039 21.0 2.0 10 67-76 23-32 (54)
153 PF09416 UPF1_Zn_bind: RNA hel 48.3 20 0.00043 25.9 2.6 55 4-75 9-69 (152)
154 KOG2593|consensus 48.2 16 0.00034 31.1 2.4 37 92-132 126-162 (436)
155 TIGR00686 phnA alkylphosphonat 48.2 9.1 0.0002 25.7 0.9 29 153-191 4-32 (109)
156 KOG4167|consensus 47.5 5.3 0.00011 36.2 -0.4 26 65-90 791-816 (907)
157 KOG1280|consensus 47.5 15 0.00033 30.2 2.1 24 151-174 79-102 (381)
158 PRK14714 DNA polymerase II lar 45.5 19 0.0004 35.3 2.7 8 124-131 668-675 (1337)
159 COG4640 Predicted membrane pro 45.2 15 0.00032 30.9 1.7 24 202-225 10-33 (465)
160 smart00661 RPOL9 RNA polymeras 45.1 24 0.00052 19.9 2.3 11 67-77 21-31 (52)
161 KOG3408|consensus 44.8 15 0.00032 25.2 1.4 23 206-228 56-78 (129)
162 TIGR00595 priA primosomal prot 44.6 17 0.00038 32.1 2.3 15 202-216 235-249 (505)
163 PF07282 OrfB_Zn_ribbon: Putat 44.5 14 0.0003 22.5 1.2 10 207-216 46-55 (69)
164 PF13451 zf-trcl: Probable zin 44.0 21 0.00045 20.3 1.7 10 67-76 5-14 (49)
165 PF07975 C1_4: TFIIH C1-like d 43.9 7.9 0.00017 22.2 0.1 20 94-113 21-40 (51)
166 cd00065 FYVE FYVE domain; Zinc 43.9 18 0.00039 20.8 1.6 14 206-219 17-30 (57)
167 PF15135 UPF0515: Uncharacteri 43.7 11 0.00024 29.4 0.8 73 136-222 92-170 (278)
168 COG4957 Predicted transcriptio 43.7 16 0.00035 25.6 1.5 20 209-231 78-97 (148)
169 PF13824 zf-Mss51: Zinc-finger 43.5 21 0.00046 20.8 1.8 15 204-218 11-25 (55)
170 KOG3408|consensus 43.4 13 0.00029 25.4 1.1 24 234-257 56-79 (129)
171 PF04780 DUF629: Protein of un 43.4 18 0.0004 31.4 2.1 26 95-120 58-83 (466)
172 PRK12380 hydrogenase nickel in 42.8 11 0.00023 25.8 0.6 10 179-188 71-80 (113)
173 PF03833 PolC_DP2: DNA polymer 42.5 8.2 0.00018 35.8 0.0 10 208-217 681-690 (900)
174 TIGR00100 hypA hydrogenase nic 41.9 10 0.00022 26.0 0.4 11 179-189 71-81 (115)
175 PRK10220 hypothetical protein; 41.8 15 0.00033 24.7 1.1 15 177-191 19-33 (111)
176 PF05495 zf-CHY: CHY zinc fing 41.3 3.8 8.1E-05 25.4 -1.7 9 152-160 42-50 (71)
177 KOG4377|consensus 41.1 13 0.00027 31.4 0.8 19 213-231 409-427 (480)
178 PF01780 Ribosomal_L37ae: Ribo 40.2 6.7 0.00015 25.5 -0.7 10 179-188 54-63 (90)
179 PF05129 Elf1: Transcription e 40.2 18 0.00038 23.1 1.2 13 94-106 46-58 (81)
180 PF08790 zf-LYAR: LYAR-type C2 40.0 12 0.00026 18.4 0.4 18 67-85 1-18 (28)
181 PF01927 Mut7-C: Mut7-C RNAse 39.6 23 0.0005 25.4 1.9 11 66-76 124-134 (147)
182 PF01363 FYVE: FYVE zinc finge 39.3 13 0.00029 22.5 0.6 9 180-188 11-19 (69)
183 PF14311 DUF4379: Domain of un 39.3 20 0.00043 20.7 1.3 11 208-218 29-39 (55)
184 KOG4124|consensus 39.0 5.1 0.00011 32.8 -1.6 26 177-202 348-375 (442)
185 COG1655 Uncharacterized protei 38.8 7.7 0.00017 29.9 -0.6 9 179-187 63-71 (267)
186 KOG1842|consensus 38.7 18 0.00038 30.9 1.4 29 177-205 14-42 (505)
187 PTZ00255 60S ribosomal protein 38.0 10 0.00022 24.6 -0.1 10 179-188 55-64 (90)
188 PF10013 DUF2256: Uncharacteri 37.9 20 0.00044 19.5 1.1 16 209-224 10-25 (42)
189 COG0068 HypF Hydrogenase matur 37.5 7.9 0.00017 35.2 -0.9 13 181-193 154-166 (750)
190 PF13453 zf-TFIIB: Transcripti 37.3 39 0.00085 18.1 2.2 16 67-82 20-35 (41)
191 PRK00564 hypA hydrogenase nick 37.2 14 0.0003 25.5 0.4 10 208-217 72-81 (117)
192 PF01428 zf-AN1: AN1-like Zinc 37.1 10 0.00022 20.7 -0.2 12 235-246 13-24 (43)
193 COG4530 Uncharacterized protei 36.4 31 0.00067 23.2 1.9 12 206-217 25-36 (129)
194 smart00064 FYVE Protein presen 36.2 21 0.00046 21.5 1.2 27 180-219 12-38 (68)
195 PF06220 zf-U1: U1 zinc finger 36.0 30 0.00066 18.3 1.6 21 235-255 3-25 (38)
196 PF07800 DUF1644: Protein of u 35.6 1.2E+02 0.0026 22.1 4.9 17 191-207 121-137 (162)
197 PF13878 zf-C2H2_3: zinc-finge 35.6 47 0.001 17.9 2.3 24 9-36 13-38 (41)
198 KOG1842|consensus 35.4 23 0.00051 30.2 1.6 26 66-91 15-40 (505)
199 TIGR00280 L37a ribosomal prote 35.3 10 0.00022 24.6 -0.4 11 178-188 53-63 (91)
200 COG1571 Predicted DNA-binding 34.9 24 0.00052 30.1 1.6 14 207-220 367-380 (421)
201 COG4888 Uncharacterized Zn rib 34.4 12 0.00025 24.8 -0.3 8 124-131 23-30 (104)
202 PRK14873 primosome assembly pr 33.9 27 0.00059 32.1 1.9 14 202-215 405-418 (665)
203 smart00440 ZnF_C2C2 C2C2 Zinc 33.8 12 0.00025 20.2 -0.3 9 95-103 29-37 (40)
204 PF01155 HypA: Hydrogenase exp 33.4 15 0.00031 25.1 0.1 12 208-219 71-82 (113)
205 PF09963 DUF2197: Uncharacteri 33.1 18 0.00038 21.2 0.4 9 68-76 4-12 (56)
206 KOG0717|consensus 33.0 24 0.00051 30.4 1.2 22 236-257 293-314 (508)
207 KOG2907|consensus 32.5 32 0.00069 23.3 1.5 11 95-105 103-113 (116)
208 PRK05580 primosome assembly pr 31.9 35 0.00075 31.6 2.2 11 205-215 406-416 (679)
209 COG0068 HypF Hydrogenase matur 31.7 15 0.00032 33.5 -0.2 13 97-109 154-166 (750)
210 PF04423 Rad50_zn_hook: Rad50 31.5 17 0.00037 20.9 0.1 12 237-248 22-33 (54)
211 PRK03681 hypA hydrogenase nick 31.4 14 0.00031 25.3 -0.2 9 179-187 71-79 (114)
212 PF01096 TFIIS_C: Transcriptio 31.3 6.1 0.00013 21.1 -1.6 8 95-102 29-36 (39)
213 KOG0717|consensus 31.2 21 0.00047 30.7 0.7 22 152-173 293-314 (508)
214 COG4896 Uncharacterized protei 30.6 29 0.00063 20.6 1.0 41 179-220 3-44 (68)
215 PF07649 C1_3: C1-like domain; 29.4 22 0.00048 17.5 0.3 6 208-213 16-21 (30)
216 PRK03976 rpl37ae 50S ribosomal 29.2 14 0.00031 24.0 -0.5 11 178-188 54-64 (90)
217 PRK05978 hypothetical protein; 28.6 20 0.00044 25.8 0.2 10 209-218 54-63 (148)
218 PRK04351 hypothetical protein; 28.2 24 0.00052 25.5 0.4 11 234-244 131-141 (149)
219 PF10263 SprT-like: SprT-like 27.9 15 0.00033 26.5 -0.6 10 179-188 124-133 (157)
220 PF04216 FdhE: Protein involve 27.8 6.5 0.00014 31.9 -2.8 55 148-217 194-248 (290)
221 COG5112 UFD2 U1-like Zn-finger 27.6 29 0.00062 23.1 0.7 23 206-228 54-76 (126)
222 COG1773 Rubredoxin [Energy pro 25.9 39 0.00086 19.7 1.0 13 8-24 2-14 (55)
223 KOG2636|consensus 25.8 47 0.001 28.5 1.8 28 201-228 395-423 (497)
224 KOG3507|consensus 25.4 53 0.0011 19.4 1.4 33 64-107 18-50 (62)
225 PLN02294 cytochrome c oxidase 25.3 35 0.00076 25.1 0.9 13 234-246 140-152 (174)
226 PF03145 Sina: Seven in absent 25.3 58 0.0013 24.6 2.1 46 157-204 24-73 (198)
227 cd00924 Cyt_c_Oxidase_Vb Cytoc 25.2 35 0.00075 22.6 0.8 13 234-246 78-90 (97)
228 PF08209 Sgf11: Sgf11 (transcr 25.1 68 0.0015 16.5 1.7 21 236-257 5-25 (33)
229 COG1675 TFA1 Transcription ini 24.5 1E+02 0.0022 23.0 3.2 13 206-218 112-124 (176)
230 PTZ00448 hypothetical protein; 24.3 57 0.0012 27.4 2.0 23 235-257 314-336 (373)
231 PF06397 Desulfoferrod_N: Desu 23.9 32 0.0007 18.1 0.3 10 235-244 6-15 (36)
232 COG4338 Uncharacterized protei 23.8 32 0.00069 19.3 0.3 17 209-225 14-30 (54)
233 PF14369 zf-RING_3: zinc-finge 23.7 98 0.0021 16.0 2.2 8 97-104 24-31 (35)
234 TIGR03826 YvyF flagellar opero 23.6 45 0.00098 23.7 1.1 12 207-218 81-92 (137)
235 PRK03564 formate dehydrogenase 23.4 31 0.00067 28.3 0.3 13 147-159 208-220 (309)
236 KOG2636|consensus 23.4 60 0.0013 27.9 2.0 28 228-255 394-422 (497)
237 PF14803 Nudix_N_2: Nudix N-te 23.4 52 0.0011 17.0 1.1 9 67-75 23-31 (34)
238 PRK14892 putative transcriptio 23.3 22 0.00047 23.7 -0.5 11 208-218 43-53 (99)
239 COG1998 RPS31 Ribosomal protei 23.3 30 0.00065 19.6 0.2 9 236-244 38-46 (51)
240 PF03811 Zn_Tnp_IS1: InsA N-te 22.6 14 0.00031 19.4 -1.2 11 203-213 25-35 (36)
241 PTZ00448 hypothetical protein; 21.1 71 0.0015 26.8 1.9 23 207-229 314-336 (373)
242 PRK00762 hypA hydrogenase nick 21.0 34 0.00073 23.8 0.1 10 179-189 71-80 (124)
243 PF10083 DUF2321: Uncharacteri 21.0 25 0.00054 25.4 -0.5 18 149-166 66-83 (158)
244 PF02591 DUF164: Putative zinc 20.5 80 0.0017 18.2 1.6 31 209-243 24-54 (56)
245 smart00731 SprT SprT homologue 20.5 38 0.00082 24.3 0.3 11 178-188 112-122 (146)
246 TIGR01384 TFS_arch transcripti 20.1 45 0.00098 22.2 0.6 13 207-219 16-28 (104)
No 1
>KOG2462|consensus
Probab=99.97 E-value=6.3e-32 Score=203.36 Aligned_cols=135 Identities=30% Similarity=0.653 Sum_probs=127.7
Q ss_pred CCcccCccccccccCchhHHhHHhhhCC---CCccccCcccccccCcchHHHHHhhcCCCcccCCcchhcCCCChHHHHH
Q psy11589 121 VREHQCSVCGKAFADITNMKVHMRIHTG---EKKYVCETCGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSH 197 (262)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H 197 (262)
...|+|+.|++.+.+..+|.+|..+|.. .+.+.|+.|++.|.+...|..|+++|+ .+.+|.+||+.|.....|..|
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~-l~c~C~iCGKaFSRPWLLQGH 206 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT-LPCECGICGKAFSRPWLLQGH 206 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC-CCcccccccccccchHHhhcc
Confidence 3458999999999999999999999864 567999999999999999999999998 689999999999999999999
Q ss_pred HHhhcCCCCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHHHHHHh
Q psy11589 198 IRNSHTIHQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 198 ~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
+| .|+||+||.|+.|++.|..+++|+.||++|.+.|+|+|..|+|+|...+-|.+|...
T Consensus 207 iR-THTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 207 IR-THTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cc-cccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 99 899999999999999999999999999999999999999999999999999999864
No 2
>KOG1074|consensus
Probab=99.97 E-value=1.6e-31 Score=226.62 Aligned_cols=78 Identities=35% Similarity=0.774 Sum_probs=72.2
Q ss_pred ccCccccccccCchhHHhHHhhhCCCCccccCcccccccCcchHHHHHhhcCC-----CcccCC---cchhcCCCChHHH
Q psy11589 124 HQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNVHSYSHTN-----TQFVCS---YCGNTYKNPKALT 195 (262)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-----~~~~C~---~C~~~f~~~~~l~ 195 (262)
-+|-+|.++..-...|+.|.++|.|++||+|.+||+.|.++.+|+.|+-.|.. .++.|+ +|.+.|...-.|.
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 48999999999999999999999999999999999999999999999999876 358899 9999999999999
Q ss_pred HHHHhhc
Q psy11589 196 SHIRNSH 202 (262)
Q Consensus 196 ~H~~~~H 202 (262)
.|++ +|
T Consensus 686 QhIr-iH 691 (958)
T KOG1074|consen 686 QHIR-IH 691 (958)
T ss_pred ceEE-ee
Confidence 9988 66
No 3
>KOG3608|consensus
Probab=99.95 E-value=2.4e-28 Score=188.94 Aligned_cols=232 Identities=22% Similarity=0.389 Sum_probs=195.4
Q ss_pred Cceecc--cCCCCCceeeehHHHHHHHhhhccCCccCccccccccccccccccccCCCcc---ceecCCCcccccchhHH
Q psy11589 8 SDFVCN--LCPPGSKVVVKYVHYLERHVRKHHTMFLRLPKVHSHFRKKNAIHVNNINKKV---SYKCPDCSVIVVSYSGF 82 (262)
Q Consensus 8 ~~~~C~--~C~~~~~~~~~~~~~l~~H~~~~~~~~~~~~~l~~~~~~~~~~h~~~~~~~~---~~~C~~C~~~f~~~~~l 82 (262)
..|.|. .|+. .|.+...|..|+..|.. |. ..+. ..+..+++ +..+..|-+.+.++..|
T Consensus 133 ~~f~C~WedCe~----~F~s~~ef~dHV~~H~l-~c-eyd~-----------~~~~~D~~pv~~C~W~~Ct~~~~~k~~L 195 (467)
T KOG3608|consen 133 QNFRCGWEDCER----EFVSIVEFQDHVVKHAL-FC-EYDI-----------QKTPEDERPVTMCNWAMCTKHMGNKYRL 195 (467)
T ss_pred hhhccChhhcCC----cccCHHHHHHHHHHhhh-hh-hhhh-----------hhCCCCCCceeeccchhhhhhhccHHHH
Confidence 346675 5999 99999999999987753 11 0000 11111222 34457899999999999
Q ss_pred HhhhhhcCCCCeeecCcchhhccChhHHHHHHHHhh-cCCCcccCccccccccCchhHHhHHhhhCCCCccccCcccccc
Q psy11589 83 KSHLDIHNVEKEYCCHICKKVFLRNRNLVCHIKAVH-ENVREHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASF 161 (262)
Q Consensus 83 ~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 161 (262)
++|++.|.+++...|+.|+..|.++..|..|+++.- ....+|.|..|.+.|.++..|..|+..|-. -|+|+.|+-+.
T Consensus 196 reH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc 273 (467)
T KOG3608|consen 196 REHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCDMTC 273 (467)
T ss_pred HHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccccCC
Confidence 999999999999999999999999999999976543 345689999999999999999999999864 59999999999
Q ss_pred cCcchHHHHHhhcCC--CcccCCcchhcCCCChHHHHHHHhhcCCCCcccccc--cccccCChHHHHHHHHhhC-C--CC
Q psy11589 162 ALWGSLNVHSYSHTN--TQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDV--CGKEFRMKRQLKEHMAVHT-T--DR 234 (262)
Q Consensus 162 ~~~~~l~~H~~~h~~--~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~--~~ 234 (262)
...++|..|++.-+. +||+|+.|++.|.+.+.|.+|+. +|+ +..|+|.. |.++|.+..+|.+|++.++ | +-
T Consensus 274 ~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~-~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~ 351 (467)
T KOG3608|consen 274 SSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQ-VHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPI 351 (467)
T ss_pred CChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHH-hcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCC
Confidence 999999999987554 89999999999999999999999 898 67899988 9999999999999998655 4 45
Q ss_pred CccCCCCCcccCChHHHHHHHHhhcc
Q psy11589 235 PFVCNMCPSTFKLKKHLRQHYKVHLK 260 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~~L~~H~~~H~~ 260 (262)
+|.|..|++.|++-.+|.+|+...++
T Consensus 352 ~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 352 LYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred ceeeecchhhhccchhHHHHHHHhhc
Confidence 69999999999999999999865443
No 4
>KOG2462|consensus
Probab=99.95 E-value=9e-29 Score=186.40 Aligned_cols=133 Identities=32% Similarity=0.662 Sum_probs=121.1
Q ss_pred CeeecCcchhhccChhHHHHHHHHhhc---CCCcccCccccccccCchhHHhHHhhhCCCCccccCcccccccCcchHHH
Q psy11589 93 KEYCCHICKKVFLRNRNLVCHIKAVHE---NVREHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNV 169 (262)
Q Consensus 93 ~~~~C~~C~~~f~~~~~l~~H~~~~h~---~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 169 (262)
..|+|+.|++.+.+..+|.+| +..|- ..+.+.|++|++++.+...|..|+++|. -+.+|.+|||.|...+.|..
T Consensus 129 ~r~~c~eCgk~ysT~snLsrH-kQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRH-KQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred Cceeccccccccccccccchh-hcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhc
Confidence 458999999999999999999 55663 3567999999999999999999999997 57999999999999999999
Q ss_pred HHhhcCC-CcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHh
Q psy11589 170 HSYSHTN-TQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAV 229 (262)
Q Consensus 170 H~~~h~~-~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 229 (262)
|+++|+| +||.|+.|++.|.++++|+.||+ .|.+.++|+|+.|++.|..++.|..|...
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQ-THS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQ-THSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHH-hhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999 89999999999999999999999 79999999999999999999999999754
No 5
>KOG1074|consensus
Probab=99.94 E-value=5.2e-28 Score=205.47 Aligned_cols=166 Identities=29% Similarity=0.631 Sum_probs=146.0
Q ss_pred eeecCcchhhccChhHHHHHHHHhhcCCCcccCccccccccCchhHHhHHhhhCCCC----ccccC---cccccccCcch
Q psy11589 94 EYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFADITNMKVHMRIHTGEK----KYVCE---TCGASFALWGS 166 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~----~~~C~---~C~~~f~~~~~ 166 (262)
|-.|-+|-++...++.|+.| .+.|+||+||+|.+|++.|.++.+|+.|+.+|.... ++.|+ +|.+.|...-.
T Consensus 605 PNqCiiC~rVlSC~saLqmH-yrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMH-YRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred ccceeeeeecccchhhhhhh-hhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 47899999999999999999 568999999999999999999999999999987553 48899 99999999999
Q ss_pred HHHHHhhcCCC--------------cccCCcchhcCCCChHHHHHHHhhcCCC---------------------------
Q psy11589 167 LNVHSYSHTNT--------------QFVCSYCGNTYKNPKALTSHIRNSHTIH--------------------------- 205 (262)
Q Consensus 167 l~~H~~~h~~~--------------~~~C~~C~~~f~~~~~l~~H~~~~H~~~--------------------------- 205 (262)
|..|+++|.+. .-.|..|.+.|.....+..++. .|.+.
T Consensus 684 lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~s-e~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~ 762 (958)
T KOG1074|consen 684 LPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQIS-EQPSPESEPDEQMDERTETEELDVTPPPPENS 762 (958)
T ss_pred ccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhh-ccCCcccCCcccccccccccccccCCCccccc
Confidence 99999999741 1468999999988888877765 23000
Q ss_pred --------------------------------------------------------------------------------
Q psy11589 206 -------------------------------------------------------------------------------- 205 (262)
Q Consensus 206 -------------------------------------------------------------------------------- 205 (262)
T Consensus 763 ~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~ 842 (958)
T KOG1074|consen 763 CGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLA 842 (958)
T ss_pred cccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccc
Confidence
Q ss_pred -----------------------------------CcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHH
Q psy11589 206 -----------------------------------QKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKH 250 (262)
Q Consensus 206 -----------------------------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 250 (262)
....|.+||+.|.+.+.|..|+++|+++|||.|..|++.|..+.+
T Consensus 843 t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgn 922 (958)
T KOG1074|consen 843 TKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGN 922 (958)
T ss_pred cccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhh
Confidence 016799999999999999999999999999999999999999999
Q ss_pred HHHHHHhhccC
Q psy11589 251 LRQHYKVHLKM 261 (262)
Q Consensus 251 L~~H~~~H~~~ 261 (262)
|+.||.+|+..
T Consensus 923 LKvHMgtH~w~ 933 (958)
T KOG1074|consen 923 LKVHMGTHMWV 933 (958)
T ss_pred hhhhhcccccc
Confidence 99999999854
No 6
>KOG3623|consensus
Probab=99.94 E-value=2.4e-27 Score=198.58 Aligned_cols=77 Identities=27% Similarity=0.674 Sum_probs=75.0
Q ss_pred ccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHHHHHH
Q psy11589 179 FVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLRQHYK 256 (262)
Q Consensus 179 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 256 (262)
|.|+.|++.|...+.|.+|.- .|+|.+||+|.+|.+.|..+..|..|+|.|.|||||+|+.|++.|+...+...||-
T Consensus 895 yaCDqCDK~FqKqSSLaRHKY-EHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 895 YACDQCDKAFQKQSSLARHKY-EHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred chHHHHHHHHHhhHHHHHhhh-hhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 899999999999999999988 89999999999999999999999999999999999999999999999999999983
No 7
>KOG3608|consensus
Probab=99.93 E-value=1e-25 Score=174.53 Aligned_cols=190 Identities=26% Similarity=0.515 Sum_probs=171.7
Q ss_pred eec--CCCcccccchhHHHhhhhhcCC------------C-CeeecCc--chhhccChhHHHHHHHHhhcCCCcccCccc
Q psy11589 67 YKC--PDCSVIVVSYSGFKSHLDIHNV------------E-KEYCCHI--CKKVFLRNRNLVCHIKAVHENVREHQCSVC 129 (262)
Q Consensus 67 ~~C--~~C~~~f~~~~~l~~H~~~h~~------------~-~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C 129 (262)
|.| ..|+..|.+...|..|+..|.. + ..+.|.+ |...+.++..|+.| .+.|++++...|+.|
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH-~r~Hs~eKvvACp~C 213 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREH-IRTHSNEKVVACPHC 213 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHH-HHhcCCCeEEecchH
Confidence 555 7899999999999999877742 2 1256765 99999999999999 568999999999999
Q ss_pred cccccCchhHHhHHhhh--CCCCccccCcccccccCcchHHHHHhhcCCCcccCCcchhcCCCChHHHHHHHhhcCCCCc
Q psy11589 130 GKAFADITNMKVHMRIH--TGEKKYVCETCGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSHTIHQK 207 (262)
Q Consensus 130 ~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~ 207 (262)
+..|.+...|-.|++.. ....+|.|..|.+.|.+...|..|+..|. .-|+|+.|+.+...+++|..|++..|..++|
T Consensus 214 g~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv-n~ykCplCdmtc~~~ssL~~H~r~rHs~dkp 292 (467)
T KOG3608|consen 214 GELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV-NCYKCPLCDMTCSSASSLTTHIRYRHSKDKP 292 (467)
T ss_pred HHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh-hcccccccccCCCChHHHHHHHHhhhccCCC
Confidence 99999999999997654 35678999999999999999999999987 4799999999999999999999999999999
Q ss_pred ccccccccccCChHHHHHHHHhhCCCCCccCCC--CCcccCChHHHHHHHHhhc
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNM--CPSTFKLKKHLRQHYKVHL 259 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~H~ 259 (262)
|+|+.|++.|.+.++|..|..+|+ +-.|.|.. |.+++.+...|++|++-++
T Consensus 293 fKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 293 FKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred ccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999998 77799988 9999999999999998765
No 8
>KOG3623|consensus
Probab=99.86 E-value=2e-22 Score=169.31 Aligned_cols=106 Identities=32% Similarity=0.681 Sum_probs=93.5
Q ss_pred eecCCCcccccchhHHHhhhhhcC--CCCeeecCcchhhccChhHHHHHHHHhhcC-------------CCcccCccccc
Q psy11589 67 YKCPDCSVIVVSYSGFKSHLDIHN--VEKEYCCHICKKVFLRNRNLVCHIKAVHEN-------------VREHQCSVCGK 131 (262)
Q Consensus 67 ~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~-------------~~~~~C~~C~~ 131 (262)
..|+.|+..+....+|..|++.-+ .+..|.|.+|.++|..+..|.+||. .|.. .+.|+|..|++
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~-~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQ-LHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHH-hhcCCCcccccccchhhhccccccccch
Confidence 689999999999999999987533 3445999999999999999999965 4532 25699999999
Q ss_pred cccCchhHHhHHhhhCCCCccccCcccccccCcchHHHHHhh
Q psy11589 132 AFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNVHSYS 173 (262)
Q Consensus 132 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 173 (262)
.|+.+-.|+.|+++|.|++||.|+.|+|.|....++..|+..
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 999999999999999999999999999999999999999653
No 9
>KOG3576|consensus
Probab=99.75 E-value=3.4e-19 Score=128.33 Aligned_cols=111 Identities=27% Similarity=0.590 Sum_probs=86.5
Q ss_pred CCccccCcccccccCcchHHHHHhhcCC-CcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHH
Q psy11589 149 EKKYVCETCGASFALWGSLNVHSYSHTN-TQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHM 227 (262)
Q Consensus 149 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~-~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~ 227 (262)
...|.|.+|++.|.....|.+|++-|.+ +.+-|..||+.|.+.-.|++|++ .|++.+||+|..|+++|.++-.|..|+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~r-thtgvrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTR-THTGVRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhc-cccCccccchhhhhHHHHhhccHHHHH
Confidence 4457788888888888888888888777 67788888888888888888888 688888888888888888888888886
Q ss_pred HhhCC-----------CCCccCCCCCcccCChHHHHHHHHhhcc
Q psy11589 228 AVHTT-----------DRPFVCNMCPSTFKLKKHLRQHYKVHLK 260 (262)
Q Consensus 228 ~~h~~-----------~~~~~C~~C~~~f~~~~~L~~H~~~H~~ 260 (262)
+.-+| +|.|.|..||++-.....+..|++.|+.
T Consensus 194 ~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 194 KKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 54332 3678888888888888888888877754
No 10
>KOG3576|consensus
Probab=99.72 E-value=1.5e-18 Score=125.01 Aligned_cols=83 Identities=35% Similarity=0.680 Sum_probs=50.5
Q ss_pred CeeecCcchhhccChhHHHHHHHHhhcCCCcccCccccccccCchhHHhHHhhhCCCCccccCcccccccCcchHHHHHh
Q psy11589 93 KEYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNVHSY 172 (262)
Q Consensus 93 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 172 (262)
..|.|.+|++.|.....|.+| ..-|...+.+.|..||+.|.....|.+|+++|+|.+||+|..|++.|+.+-+|..|++
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh-~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRH-LKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHH-hhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 346666666666666666666 3355555566666666666666666666666666666666666666666666666655
Q ss_pred hcCC
Q psy11589 173 SHTN 176 (262)
Q Consensus 173 ~h~~ 176 (262)
..++
T Consensus 195 kvhg 198 (267)
T KOG3576|consen 195 KVHG 198 (267)
T ss_pred HHcC
Confidence 4443
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.39 E-value=1.1e-12 Score=111.58 Aligned_cols=144 Identities=24% Similarity=0.490 Sum_probs=111.1
Q ss_pred eeecCcchhhccChhHHHHHHHHhhcCCCcccCcc--ccccccCchhHHhHHhhhCCCCccccCcccccccCcchHHHHH
Q psy11589 94 EYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSV--CGKAFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNVHS 171 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 171 (262)
.-.|+.|..... ...|..|. . +-.-....|+. |+..|. ...+..| +.|+.|++.|. ...|..|+
T Consensus 407 ~V~C~NC~~~i~-l~~l~lHe-~-~C~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~ 472 (567)
T PLN03086 407 TVECRNCKHYIP-SRSIALHE-A-YCSRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred eEECCCCCCccc-hhHHHHHH-h-hCCCcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHH
Confidence 357999887655 44566773 2 22223457874 999884 3334444 58999999996 67899999
Q ss_pred hhcCCCcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccC----------ChHHHHHHHHhhCCCCCccCCCC
Q psy11589 172 YSHTNTQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFR----------MKRQLKEHMAVHTTDRPFVCNMC 241 (262)
Q Consensus 172 ~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~~C~~C 241 (262)
..++ .++.|+ |++.+ ....|..|+. .|.+.+++.|+.|++.|. ..+.|..|..+. |.+++.|..|
T Consensus 473 ~~~H-kpv~Cp-Cg~~~-~R~~L~~H~~-thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~C 547 (567)
T PLN03086 473 KVFH-EPLQCP-CGVVL-EKEQMVQHQA-STCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSC 547 (567)
T ss_pred HhcC-CCccCC-CCCCc-chhHHHhhhh-ccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEcccc
Confidence 9986 899999 99755 6789999988 799999999999999995 245899999885 9999999999
Q ss_pred CcccCChHHHHHHHHh
Q psy11589 242 PSTFKLKKHLRQHYKV 257 (262)
Q Consensus 242 ~~~f~~~~~L~~H~~~ 257 (262)
|+.+.. ..|..|+..
T Consensus 548 gk~Vrl-rdm~~H~~~ 562 (567)
T PLN03086 548 GRSVML-KEMDIHQIA 562 (567)
T ss_pred CCeeee-hhHHHHHHH
Confidence 988765 567788754
No 12
>PHA00733 hypothetical protein
Probab=99.38 E-value=7e-13 Score=92.40 Aligned_cols=82 Identities=17% Similarity=0.327 Sum_probs=62.2
Q ss_pred CcccCCcchhcCCCChHHHHH--HH--hhcCCCCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHH
Q psy11589 177 TQFVCSYCGNTYKNPKALTSH--IR--NSHTIHQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLR 252 (262)
Q Consensus 177 ~~~~C~~C~~~f~~~~~l~~H--~~--~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 252 (262)
+++.|.+|...|.....|..+ +. ..+.+.+||.|+.||+.|.+...|..|++.| +.+|.|+.|++.|.....|.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~ 116 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTL 116 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHH
Confidence 566777777666666555544 11 1234578899999999999999999998876 45789999999999999999
Q ss_pred HHHHhhcc
Q psy11589 253 QHYKVHLK 260 (262)
Q Consensus 253 ~H~~~H~~ 260 (262)
.|++..++
T Consensus 117 ~H~~~~h~ 124 (128)
T PHA00733 117 DHVCKKHN 124 (128)
T ss_pred HHHHHhcC
Confidence 99877665
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.26 E-value=2.4e-11 Score=103.48 Aligned_cols=146 Identities=20% Similarity=0.403 Sum_probs=107.0
Q ss_pred eecccCCCCCceeeehHHHHHHHhhhccCCccCccccccccccccccccccCCCccceecC--CCcccccchhHHHhhhh
Q psy11589 10 FVCNLCPPGSKVVVKYVHYLERHVRKHHTMFLRLPKVHSHFRKKNAIHVNNINKKVSYKCP--DCSVIVVSYSGFKSHLD 87 (262)
Q Consensus 10 ~~C~~C~~~~~~~~~~~~~l~~H~~~~~~~~~~~~~l~~~~~~~~~~h~~~~~~~~~~~C~--~C~~~f~~~~~l~~H~~ 87 (262)
-.|+.|.. ......|..|..... -..-.|+ .|+..|. +..+..|
T Consensus 408 V~C~NC~~-----~i~l~~l~lHe~~C~--------------------------r~~V~Cp~~~Cg~v~~-r~el~~H-- 453 (567)
T PLN03086 408 VECRNCKH-----YIPSRSIALHEAYCS--------------------------RHNVVCPHDGCGIVLR-VEEAKNH-- 453 (567)
T ss_pred EECCCCCC-----ccchhHHHHHHhhCC--------------------------CcceeCCcccccceee-ccccccC--
Confidence 46999987 344566778865431 0113577 4888883 3333444
Q ss_pred hcCCCCeeecCcchhhccChhHHHHHHHHhhcCCCcccCccccccccCchhHHhHHhhhCCCCccccCcccccccC----
Q psy11589 88 IHNVEKEYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASFAL---- 163 (262)
Q Consensus 88 ~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~---- 163 (262)
+.|+.|++.|. ...|..|+...| .++.|+ |++.+ ....|..|+.+|.+++++.|+.|++.+..
T Consensus 454 -------~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~ 520 (567)
T PLN03086 454 -------VHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSA 520 (567)
T ss_pred -------ccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccc
Confidence 58999999885 678999966543 778999 99755 56889999999999999999999998852
Q ss_pred ------cchHHHHHhhcCCCcccCCcchhcCCCChHHHHHHHhhcC
Q psy11589 164 ------WGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSHT 203 (262)
Q Consensus 164 ------~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 203 (262)
...|..|......+++.|..||+.+... .|..|+...|.
T Consensus 521 ~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 521 MDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred cchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 3478899988866899999999888765 57778766664
No 14
>PHA00733 hypothetical protein
Probab=99.24 E-value=8.5e-12 Score=86.98 Aligned_cols=81 Identities=23% Similarity=0.423 Sum_probs=55.0
Q ss_pred CCccccCcccccccCcchHHH------HHhhcCCCcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHH
Q psy11589 149 EKKYVCETCGASFALWGSLNV------HSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQ 222 (262)
Q Consensus 149 ~~~~~C~~C~~~f~~~~~l~~------H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~ 222 (262)
.+++.|.+|...|.....|.. |+..+..+||.|+.|++.|.+...|..|++ .| +.+|.|++|++.|.....
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r-~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIR-YT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHh-cC--CcCccCCCCCCccCCHHH
Confidence 344555555555544444333 334444578888888888888888888887 44 356888888888888888
Q ss_pred HHHHHHhhCC
Q psy11589 223 LKEHMAVHTT 232 (262)
Q Consensus 223 l~~H~~~h~~ 232 (262)
|..|+...++
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 8888876554
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.19 E-value=9.8e-12 Score=71.34 Aligned_cols=44 Identities=14% Similarity=0.317 Sum_probs=37.6
Q ss_pred cccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHH
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLR 252 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 252 (262)
.|.|+.||+.|...+.|..|+++|+ +||+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4789999999999999999999988 6889999999988877663
No 16
>KOG3993|consensus
Probab=99.04 E-value=2.4e-11 Score=97.39 Aligned_cols=163 Identities=19% Similarity=0.336 Sum_probs=95.4
Q ss_pred eeecCcchhhccChhHHHHHHHHhhcCCCcccCccccccccCchhHHhHHhhhCCCCccc---cCcccccccCcchHHHH
Q psy11589 94 EYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFADITNMKVHMRIHTGEKKYV---CETCGASFALWGSLNVH 170 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~---C~~C~~~f~~~~~l~~H 170 (262)
.|.|.+|...|.+.-.|.+| +---.-...|.|+.|+++|.-..+|..|.+.|.....-. -+-=.+...+....+.-
T Consensus 267 dyiCqLCK~kYeD~F~LAQH-rC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQH-RCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhc-cCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 48899999999999999988 432223345899999999999999999988874321000 00000000000000000
Q ss_pred Hhh---cCCCcccCCcchhcCCCChHHHHHHHhhcCC-------------------------------------------
Q psy11589 171 SYS---HTNTQFVCSYCGNTYKNPKALTSHIRNSHTI------------------------------------------- 204 (262)
Q Consensus 171 ~~~---h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~------------------------------------------- 204 (262)
.+. .....|.|..|++.|.....|+.|+.+.|..
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 000 0012455666666666666666664422211
Q ss_pred --CCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHHHHHHh
Q psy11589 205 --HQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 205 --~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
.....|+.|+-.+.++..-..+.+.-..+..|.|.+|.-.|.+..+|.+|+..
T Consensus 426 ~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 426 GSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred ccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhh
Confidence 01134666666666665544554444445669999999999999999999853
No 17
>KOG3993|consensus
Probab=99.04 E-value=2.7e-11 Score=97.11 Aligned_cols=162 Identities=20% Similarity=0.255 Sum_probs=107.9
Q ss_pred ceecCCCcccccchhHHHhhhhhcCCCCeeecCcchhhccChhHHHHHHHHhhcC-------------------------
Q psy11589 66 SYKCPDCSVIVVSYSGFKSHLDIHNVEKEYCCHICKKVFLRNRNLVCHIKAVHEN------------------------- 120 (262)
Q Consensus 66 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~------------------------- 120 (262)
.|.|..|...|.+...|..|.-.-.....|+|+.|++.|....+|..| +++|..
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASH-RRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASH-RRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhh-hcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 489999999999999999997654444679999999999999999999 888842
Q ss_pred --------CCcccCccccccccCchhHHhHHhhhCCCCc-----------------cccCcccccccCcchHHHHHhhcC
Q psy11589 121 --------VREHQCSVCGKAFADITNMKVHMRIHTGEKK-----------------YVCETCGASFALWGSLNVHSYSHT 175 (262)
Q Consensus 121 --------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~-----------------~~C~~C~~~f~~~~~l~~H~~~h~ 175 (262)
+..|.|.+|++.|.....|+.|+.+|+.... +.|..+.-.+.....-..+...+.
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 1137777787777777777777766653211 223333333332222112222222
Q ss_pred C--CcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHh
Q psy11589 176 N--TQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAV 229 (262)
Q Consensus 176 ~--~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 229 (262)
+ ....|++|+-.+.++..--.+.+ .-..+.-|.|.+|.-.|.+...|.+|+..
T Consensus 426 ~sael~~pp~~~~ppsss~~sgg~~r-lg~~~q~f~~ky~~atfyss~~ltrhin~ 480 (500)
T KOG3993|consen 426 GSAELELPPYDGSPPSSSGSSGGYGR-LGIAEQGFTCKYCPATFYSSPGLTRHINK 480 (500)
T ss_pred ccccccCCCCCCCCcccCCCCCcccc-ccchhhccccccchHhhhcCcchHhHhhh
Confidence 1 12457777766666654433433 22334568899999999999999998764
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.98 E-value=3e-10 Score=55.86 Aligned_cols=26 Identities=35% Similarity=0.862 Sum_probs=20.5
Q ss_pred HHHHHHHhhCCCCCccCCCCCcccCC
Q psy11589 222 QLKEHMAVHTTDRPFVCNMCPSTFKL 247 (262)
Q Consensus 222 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 247 (262)
+|.+|+++|+|++||+|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47788888888888888888888763
No 19
>PHA02768 hypothetical protein; Provisional
Probab=98.91 E-value=5.2e-10 Score=64.28 Aligned_cols=42 Identities=21% Similarity=0.512 Sum_probs=28.3
Q ss_pred ccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHH
Q psy11589 179 FVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQL 223 (262)
Q Consensus 179 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l 223 (262)
|.|+.||+.|...+.|..|++ .|+ ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r-~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLR-KHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHH-hcC--CcccCCcccceeccccee
Confidence 567777777777777777776 465 566777777777665554
No 20
>PHA00616 hypothetical protein
Probab=98.79 E-value=2.4e-09 Score=58.48 Aligned_cols=34 Identities=24% Similarity=0.413 Sum_probs=29.0
Q ss_pred cccccccccccCChHHHHHHHHhhCCCCCccCCC
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNM 240 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 240 (262)
||+|+.||+.|..+++|..|++.|+|++|+.|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5888888888888888888888888888888764
No 21
>PHA00732 hypothetical protein
Probab=98.69 E-value=1.3e-08 Score=64.34 Aligned_cols=48 Identities=38% Similarity=0.687 Sum_probs=27.8
Q ss_pred cccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHhhC
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAVHT 231 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 231 (262)
||.|+.|++.|.+.+.|..|++..|. ++.|+.||+.|. .|..|+....
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 35666666666666666666652243 245666666665 3555655443
No 22
>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=98.65 E-value=1.6e-08 Score=49.67 Aligned_cols=26 Identities=38% Similarity=0.706 Sum_probs=23.0
Q ss_pred HHHHHHHhhcCCCCcccccccccccCC
Q psy11589 193 ALTSHIRNSHTIHQKSICDVCGKEFRM 219 (262)
Q Consensus 193 ~l~~H~~~~H~~~~~~~C~~C~~~f~~ 219 (262)
+|.+|++ .|++++||.|++|++.|.+
T Consensus 1 ~l~~H~~-~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMR-THTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHH-HHSSSSSEEESSSSEEESS
T ss_pred CHHHHhh-hcCCCCCCCCCCCcCeeCc
Confidence 4889999 7999999999999999864
No 23
>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=98.53 E-value=1.2e-07 Score=55.69 Aligned_cols=49 Identities=29% Similarity=0.541 Sum_probs=23.0
Q ss_pred ccccccccccCChHHHHHHHHh-hCCC-CCccCCCCCcccCChHHHHHHHHhhc
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAV-HTTD-RPFVCNMCPSTFKLKKHLRQHYKVHL 259 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~-h~~~-~~~~C~~C~~~f~~~~~L~~H~~~H~ 259 (262)
|.||.|++ -.+...|..|... |.++ +.+.||+|...+. .+|..||..++
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 45555555 2334455555432 3322 3455555554433 35555555443
No 24
>PHA00616 hypothetical protein
Probab=98.49 E-value=6e-08 Score=53.02 Aligned_cols=28 Identities=25% Similarity=0.421 Sum_probs=26.6
Q ss_pred CccCCCCCcccCChHHHHHHHHhhccCC
Q psy11589 235 PFVCNMCPSTFKLKKHLRQHYKVHLKME 262 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~ 262 (262)
||+|+.||+.|.++++|..|++.|+|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCC
Confidence 7999999999999999999999999974
No 25
>PHA00732 hypothetical protein
Probab=98.48 E-value=9.1e-08 Score=60.52 Aligned_cols=45 Identities=29% Similarity=0.546 Sum_probs=24.7
Q ss_pred cccccccccccCChHHHHHHHHh-hCCCCCccCCCCCcccCChHHHHHHHHh
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAV-HTTDRPFVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
||.|+.||+.|.+.+.|..|++. |. ++.|+.||+.|. .|..|+++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 35566666666666666666553 33 235666666665 35555543
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=98.39 E-value=6.7e-07 Score=52.56 Aligned_cols=52 Identities=23% Similarity=0.628 Sum_probs=43.4
Q ss_pred cccCCcchhcCCCChHHHHHHHhhcCCC-CcccccccccccCChHHHHHHHHhhCC
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIRNSHTIH-QKSICDVCGKEFRMKRQLKEHMAVHTT 232 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~-~~~~C~~C~~~f~~~~~l~~H~~~h~~ 232 (262)
.|.||+|++ ..+...|..|+...|..+ +.+.||+|...+. .+|..|+.++++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 489999999 566789999999889875 5799999998755 489999987653
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=98.32 E-value=3.3e-07 Score=43.69 Aligned_cols=23 Identities=30% Similarity=0.843 Sum_probs=14.4
Q ss_pred ccCCCCCcccCChHHHHHHHHhh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKVH 258 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~H 258 (262)
|.|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 45666666666666666666554
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.23 E-value=6.8e-07 Score=60.08 Aligned_cols=71 Identities=25% Similarity=0.440 Sum_probs=13.3
Q ss_pred cCcccccccCcchHHHHHhhcCCCcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHh
Q psy11589 154 CETCGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAV 229 (262)
Q Consensus 154 C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 229 (262)
|..|+..|.+...|..|+...++.... ....+.....+..+++ ......+.|..|++.|.+...|..||+.
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~~---~~~~l~~~~~~~~~~~--~~~~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDIP---DQKYLVDPNRLLNYLR--KKVKESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp ----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred ccccccccccccccccccccccccccc---cccccccccccccccc--cccCCCCCCCccCCCCcCHHHHHHHHcC
Confidence 555555555555555555544431111 1111223333333332 1111245566666666666666666554
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.16 E-value=1.3e-06 Score=41.58 Aligned_cols=23 Identities=48% Similarity=0.895 Sum_probs=16.7
Q ss_pred ccccccccccCChHHHHHHHHhh
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAVH 230 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~h 230 (262)
|.|++|++.|.++..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56777777777777777777654
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.07 E-value=3e-06 Score=40.70 Aligned_cols=23 Identities=43% Similarity=0.974 Sum_probs=13.6
Q ss_pred ccCCCCCcccCChHHHHHHHHhh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKVH 258 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~H 258 (262)
|.|++|++.|.+...|..|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45666666666666666666655
No 31
>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=98.02 E-value=2.1e-06 Score=42.61 Aligned_cols=25 Identities=40% Similarity=0.794 Sum_probs=15.8
Q ss_pred CccCCCCCcccCChHHHHHHHHhhc
Q psy11589 235 PFVCNMCPSTFKLKKHLRQHYKVHL 259 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~~L~~H~~~H~ 259 (262)
||+|+.|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4566666666666666666666554
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.90 E-value=7.5e-06 Score=54.96 Aligned_cols=71 Identities=21% Similarity=0.336 Sum_probs=14.8
Q ss_pred ecccCCCCCceeeehHHHHHHHhhhccCCc-cCccccccccccccccccccCCCccceecCCCcccccchhHHHhhhhh
Q psy11589 11 VCNLCPPGSKVVVKYVHYLERHVRKHHTMF-LRLPKVHSHFRKKNAIHVNNINKKVSYKCPDCSVIVVSYSGFKSHLDI 88 (262)
Q Consensus 11 ~C~~C~~~~~~~~~~~~~l~~H~~~~~~~~-~~~~~l~~~~~~~~~~h~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 88 (262)
+|..|+. .|.+...|..||...|+.. .....+....+ . ...... .-...+.|..|++.|.+...|..||+.
T Consensus 1 ~C~~C~~----~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~-~-~~~~~~-~~~~~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 1 QCLFCDE----SFSSVDDLLQHMKKKHGFDIPDQKYLVDPNR-L-LNYLRK-KVKESFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp -------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHH
T ss_pred Ccccccc----ccccccccccccccccccccccccccccccc-c-cccccc-ccCCCCCCCccCCCCcCHHHHHHHHcC
Confidence 5999999 9999999999998877521 11111100000 0 011110 011146666666666666666666664
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.88 E-value=1e-05 Score=38.77 Aligned_cols=23 Identities=48% Similarity=1.011 Sum_probs=15.5
Q ss_pred ccccccccccCChHHHHHHHHhh
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAVH 230 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~h 230 (262)
|.|++|++.|.+...|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 56777777777777777777765
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=97.80 E-value=1.3e-05 Score=39.72 Aligned_cols=26 Identities=38% Similarity=0.675 Sum_probs=20.1
Q ss_pred cccccccccccCChHHHHHHHHhhCC
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAVHTT 232 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 232 (262)
||.|..|++.|.+...|..|++.|.+
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 57788888888888888888877643
No 35
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.67 E-value=3.4e-05 Score=43.13 Aligned_cols=34 Identities=26% Similarity=0.675 Sum_probs=17.1
Q ss_pred cCCCCcccccccccccCChHHHHHHHHhhCCCCC
Q psy11589 202 HTIHQKSICDVCGKEFRMKRQLKEHMAVHTTDRP 235 (262)
Q Consensus 202 H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 235 (262)
...+.|-.|++|+..+.+..+|.+|+.+.++.||
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 3445566666666666666666666666555554
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.63 E-value=1.4e-05 Score=62.54 Aligned_cols=70 Identities=21% Similarity=0.491 Sum_probs=44.6
Q ss_pred CCcccCCc--chhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHHH
Q psy11589 176 NTQFVCSY--CGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLRQ 253 (262)
Q Consensus 176 ~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~ 253 (262)
++||+|++ |.+.+.....|+.|+...|...+-..=+ .. ..|.---...|||.|++|++.|.+...|+-
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p-------~p---~~~~~F~~~~KPYrCevC~KRYKNlNGLKY 416 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP-------SP---EKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC-------Cc---cccccccccCCceeccccchhhccCcccee
Confidence 47899987 9999999999999987445322211111 00 001111234578888888888888888877
Q ss_pred HH
Q psy11589 254 HY 255 (262)
Q Consensus 254 H~ 255 (262)
|.
T Consensus 417 Hr 418 (423)
T COG5189 417 HR 418 (423)
T ss_pred cc
Confidence 73
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.60 E-value=6.8e-05 Score=36.43 Aligned_cols=24 Identities=33% Similarity=0.761 Sum_probs=14.7
Q ss_pred ccCCCCCcccCChHHHHHHHHhhc
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKVHL 259 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~H~ 259 (262)
|+|+.|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 456666666666666666666553
No 38
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.59 E-value=5e-05 Score=36.37 Aligned_cols=24 Identities=29% Similarity=0.632 Sum_probs=15.8
Q ss_pred ccCCCCCcccCChHHHHHHHHhhcc
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKVHLK 260 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~H~~ 260 (262)
|+|+.|++... ...|..|++.|++
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 56777777776 7777777777653
No 39
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.44 E-value=0.00014 Score=40.78 Aligned_cols=38 Identities=16% Similarity=0.481 Sum_probs=24.6
Q ss_pred HHHHh-hCCCCCccCCCCCcccCChHHHHHHHHhhccCC
Q psy11589 225 EHMAV-HTTDRPFVCNMCPSTFKLKKHLRQHYKVHLKME 262 (262)
Q Consensus 225 ~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~ 262 (262)
.+.+. ...+.|-.|++|+..+.+..+|++|++++++.+
T Consensus 13 ~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 13 KKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp ---CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred hHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 34433 345789999999999999999999998877754
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.37 E-value=0.00019 Score=34.74 Aligned_cols=24 Identities=50% Similarity=0.805 Sum_probs=16.4
Q ss_pred ccccccccccCChHHHHHHHHhhC
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAVHT 231 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~h~ 231 (262)
|.|+.|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 457777777777777777776553
No 41
>PRK04860 hypothetical protein; Provisional
Probab=97.21 E-value=0.00015 Score=52.63 Aligned_cols=40 Identities=20% Similarity=0.442 Sum_probs=30.8
Q ss_pred CcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChH
Q psy11589 206 QKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKK 249 (262)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 249 (262)
-+|.|. |+. ....+.+|.++|+++++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 368887 886 5566778888888888888888888876543
No 42
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.17 E-value=0.00018 Score=56.60 Aligned_cols=69 Identities=20% Similarity=0.321 Sum_probs=40.8
Q ss_pred CCCceeccc--CCCCCceeeehHHHHHHHhhhccCC--ccCccccccccccccccccccCCCccceecCCCcccccchhH
Q psy11589 6 ENSDFVCNL--CPPGSKVVVKYVHYLERHVRKHHTM--FLRLPKVHSHFRKKNAIHVNNINKKVSYKCPDCSVIVVSYSG 81 (262)
Q Consensus 6 ~~~~~~C~~--C~~~~~~~~~~~~~l~~H~~~~~~~--~~~~~~l~~~~~~~~~~h~~~~~~~~~~~C~~C~~~f~~~~~ 81 (262)
+++||+|++ |++ .+.+...|..|+.--|.. ....+.- ..+.-.....+||.|++|++.+++...
T Consensus 346 d~KpykCpV~gC~K----~YknqnGLKYH~lhGH~~~~~~~~p~p--------~~~~~F~~~~KPYrCevC~KRYKNlNG 413 (423)
T COG5189 346 DGKPYKCPVEGCNK----KYKNQNGLKYHMLHGHQNQKLHENPSP--------EKMNIFSAKDKPYRCEVCDKRYKNLNG 413 (423)
T ss_pred cCceecCCCCCchh----hhccccchhhhhhccccCcccCCCCCc--------cccccccccCCceeccccchhhccCcc
Confidence 359999997 999 999999999998743310 0000000 111111223456666666666666666
Q ss_pred HHhhh
Q psy11589 82 FKSHL 86 (262)
Q Consensus 82 l~~H~ 86 (262)
|.-|.
T Consensus 414 LKYHr 418 (423)
T COG5189 414 LKYHR 418 (423)
T ss_pred ceecc
Confidence 66554
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.16 E-value=0.00019 Score=34.65 Aligned_cols=23 Identities=35% Similarity=0.881 Sum_probs=14.1
Q ss_pred ccCCCCCcccCChHHHHHHHHhh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKVH 258 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~H 258 (262)
|.|++|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 45666666666666666666543
No 44
>KOG1146|consensus
Probab=97.02 E-value=8.3e-05 Score=68.91 Aligned_cols=100 Identities=18% Similarity=0.307 Sum_probs=55.0
Q ss_pred cCcchhhccChhHHHHHHHHhhcCCCcccCccccccccCchhHHhHHhhhCCCCccccCcccccccCcchHHH-HHhhcC
Q psy11589 97 CHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNV-HSYSHT 175 (262)
Q Consensus 97 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~-H~~~h~ 175 (262)
|.-|+..+.....+..++...+...+.++|+.|+..++....|..|++.-+.+-.- ..|.. +.....+.+ -.....
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~-gq~~~~~arg~~~~~~ 515 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKA-GQNHPRLARGEVYRCP 515 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhHh-ccccccccccccccCC
Confidence 44556666666666666666666667788888888888888888887763322110 11110 000000000 111122
Q ss_pred CCcccCCcchhcCCCChHHHHHHH
Q psy11589 176 NTQFVCSYCGNTYKNPKALTSHIR 199 (262)
Q Consensus 176 ~~~~~C~~C~~~f~~~~~l~~H~~ 199 (262)
+++|.|..|...+.....|.+|+.
T Consensus 516 ~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHH
Confidence 256666666666666666666654
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.01 E-value=0.00067 Score=32.34 Aligned_cols=24 Identities=29% Similarity=0.721 Sum_probs=19.0
Q ss_pred eecccCCCCCceeeehHHHHHHHhhhccC
Q psy11589 10 FVCNLCPPGSKVVVKYVHYLERHVRKHHT 38 (262)
Q Consensus 10 ~~C~~C~~~~~~~~~~~~~l~~H~~~~~~ 38 (262)
|+|+.|++ ... ...|..|++.+|+
T Consensus 1 y~C~~C~y----~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSY----STS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-----EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCC----cCC-HHHHHHHHHhhCc
Confidence 78999999 777 8899999998763
No 46
>KOG2231|consensus
Probab=96.99 E-value=0.0022 Score=56.52 Aligned_cols=100 Identities=24% Similarity=0.508 Sum_probs=58.1
Q ss_pred ecCcchhhccChhHHHHHHHHhhcCCCcccCccccc---------cccCchhHHhHHhhhCC-CC----ccccCcccccc
Q psy11589 96 CCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGK---------AFADITNMKVHMRIHTG-EK----KYVCETCGASF 161 (262)
Q Consensus 96 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~---------~f~~~~~l~~H~~~h~~-~~----~~~C~~C~~~f 161 (262)
.|..| ..|.+...|..|+...|.. +.|.+|-. ...+...|..|++.--. +. --.|..|...|
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~~---~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~f 192 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHKL---HLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERF 192 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhhh---hccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhh
Confidence 46666 5566778888887777743 44444422 22344566666654222 11 13477777777
Q ss_pred cCcchHHHHHhhcCCCcccCCcc------hhcCCCChHHHHHHHhhc
Q psy11589 162 ALWGSLNVHSYSHTNTQFVCSYC------GNTYKNPKALTSHIRNSH 202 (262)
Q Consensus 162 ~~~~~l~~H~~~h~~~~~~C~~C------~~~f~~~~~l~~H~~~~H 202 (262)
.....|..|++..+. .|..| +..|..-..|..|.+..|
T Consensus 193 ld~~el~rH~~~~h~---~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 193 LDDDELYRHLRFDHE---FCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred ccHHHHHHhhcccee---heeecCcccccchhcccchHHHHHhhhcC
Confidence 777777777776553 33333 345666677777766433
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.96 E-value=0.00049 Score=33.15 Aligned_cols=23 Identities=30% Similarity=0.788 Sum_probs=17.1
Q ss_pred ccccccccccCChHHHHHHHHhh
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAVH 230 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~h 230 (262)
|.|++|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 56778888888888888887643
No 48
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.72 E-value=0.0027 Score=50.77 Aligned_cols=118 Identities=22% Similarity=0.459 Sum_probs=70.4
Q ss_pred ceeccc--CCCCCceeeehHHHHHHHhhhccCC------------cc------CccccccccccccccccccCCCccce-
Q psy11589 9 DFVCNL--CPPGSKVVVKYVHYLERHVRKHHTM------------FL------RLPKVHSHFRKKNAIHVNNINKKVSY- 67 (262)
Q Consensus 9 ~~~C~~--C~~~~~~~~~~~~~l~~H~~~~~~~------------~~------~~~~l~~~~~~~~~~h~~~~~~~~~~- 67 (262)
.|.|+. |.. +...+..|..|.+..|+. |. +...| ..|...-..+..|
T Consensus 151 ~F~CP~skc~~----~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~L--------r~H~~~G~~e~GFK 218 (493)
T COG5236 151 SFKCPKSKCHR----RCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTL--------RDHKNGGLEEEGFK 218 (493)
T ss_pred HhcCCchhhhh----hhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccc--------cccccCCccccCcC
Confidence 367774 666 677788899999887761 21 22222 2233222222223
Q ss_pred ---ecCCCcccccchhHHHhhhhhcCCCCeeecCcchh-------hccChhHHHHHHHHhhcCCCcccCcc--cc----c
Q psy11589 68 ---KCPDCSVIVVSYSGFKSHLDIHNVEKEYCCHICKK-------VFLRNRNLVCHIKAVHENVREHQCSV--CG----K 131 (262)
Q Consensus 68 ---~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~~h~~~~~~~C~~--C~----~ 131 (262)
.|.+|...|.+...|..|++..+. .|-+|+. -|.+..+|..|.+..| |.|.. |. .
T Consensus 219 GHP~C~FC~~~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h-----y~ct~qtc~~~k~~ 289 (493)
T COG5236 219 GHPLCIFCKIYFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH-----YCCTFQTCRVGKCY 289 (493)
T ss_pred CCchhhhccceecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc-----eEEEEEEEecCcEE
Confidence 478888888888888888776543 3555553 3566677777766544 55532 32 3
Q ss_pred cccCchhHHhHHhhhC
Q psy11589 132 AFADITNMKVHMRIHT 147 (262)
Q Consensus 132 ~f~~~~~l~~H~~~h~ 147 (262)
+|+....|..|+..-+
T Consensus 290 vf~~~~el~~h~~~~h 305 (493)
T COG5236 290 VFPYHTELLEHLTRFH 305 (493)
T ss_pred EeccHHHHHHHHHHHh
Confidence 5777777777765433
No 49
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.64 E-value=0.00046 Score=34.01 Aligned_cols=22 Identities=36% Similarity=0.810 Sum_probs=13.7
Q ss_pred ccCCCCCcccCChHHHHHHHHh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
|.|..|++.|.+...|..|+++
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 4566666666666666666544
No 50
>KOG2231|consensus
Probab=96.51 E-value=0.0062 Score=53.74 Aligned_cols=47 Identities=26% Similarity=0.644 Sum_probs=22.8
Q ss_pred ecCcchhhccChhHHHHHHHHhhcCCCcccCcccc------ccccCchhHHhHHhhhC
Q psy11589 96 CCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCG------KAFADITNMKVHMRIHT 147 (262)
Q Consensus 96 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~------~~f~~~~~l~~H~~~h~ 147 (262)
.|..|...|.....|..|+...| |.|..|+ .-|.....|..|.+..|
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 35555555555555555544333 3344332 23444455555555443
No 51
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.29 E-value=0.0027 Score=31.22 Aligned_cols=22 Identities=23% Similarity=0.523 Sum_probs=18.7
Q ss_pred eecCCCcccccchhHHHhhhhh
Q psy11589 67 YKCPDCSVIVVSYSGFKSHLDI 88 (262)
Q Consensus 67 ~~C~~C~~~f~~~~~l~~H~~~ 88 (262)
|.|..|++.|.+...|..|++.
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 6788999999999999888875
No 52
>KOG1146|consensus
Probab=96.21 E-value=0.0019 Score=60.39 Aligned_cols=77 Identities=16% Similarity=0.372 Sum_probs=61.9
Q ss_pred CCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHhhC-------------------------CCCC
Q psy11589 181 CSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAVHT-------------------------TDRP 235 (262)
Q Consensus 181 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~-------------------------~~~~ 235 (262)
|..|+..+.....+..|+...+...+-|.|+.|+..|.....|..||+.-+ +.+|
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 344555566666666776667777788999999999999999999998722 2268
Q ss_pred ccCCCCCcccCChHHHHHHHHh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
|.|..|.++++.+.+|.+|+..
T Consensus 519 ~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHH
Confidence 9999999999999999999864
No 53
>KOG2482|consensus
Probab=96.21 E-value=0.0087 Score=47.88 Aligned_cols=52 Identities=29% Similarity=0.528 Sum_probs=37.8
Q ss_pred eeecCcchhhcc-ChhHHHHHHHHhhcC---------------------CCcccCccccccccCchhHHhHHhh
Q psy11589 94 EYCCHICKKVFL-RNRNLVCHIKAVHEN---------------------VREHQCSVCGKAFADITNMKVHMRI 145 (262)
Q Consensus 94 ~~~C~~C~~~f~-~~~~l~~H~~~~h~~---------------------~~~~~C~~C~~~f~~~~~l~~H~~~ 145 (262)
...|-.|...+. +++....|+-.+|.- -..+.|-.|.+.|..+..|+.||+.
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHh
Confidence 467999987754 667777887666631 1236888888888888888888864
No 54
>KOG2785|consensus
Probab=96.16 E-value=0.014 Score=47.61 Aligned_cols=51 Identities=22% Similarity=0.380 Sum_probs=41.9
Q ss_pred cccccccccccCChHHHHHHHHhhCCC-----------------------CCccCCCCC---cccCChHHHHHHHHh
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAVHTTD-----------------------RPFVCNMCP---STFKLKKHLRQHYKV 257 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~L~~H~~~ 257 (262)
|-.|-.|++.+.+...-..||..++|- .-|.|-.|+ +.|.+-...+.||+.
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 567888999888888888898877763 237888888 999999999999964
No 55
>KOG2482|consensus
Probab=95.94 E-value=0.0044 Score=49.50 Aligned_cols=68 Identities=16% Similarity=0.299 Sum_probs=41.9
Q ss_pred CceecccCCCCCceeeehHHHHHHHhhhccCC-------ccCccccccccccccccccccCCCccceecCCCcccccchh
Q psy11589 8 SDFVCNLCPPGSKVVVKYVHYLERHVRKHHTM-------FLRLPKVHSHFRKKNAIHVNNINKKVSYKCPDCSVIVVSYS 80 (262)
Q Consensus 8 ~~~~C~~C~~~~~~~~~~~~~l~~H~~~~~~~-------~~~~~~l~~~~~~~~~~h~~~~~~~~~~~C~~C~~~f~~~~ 80 (262)
...+|-.|+.. .-.+++....|+-..|+- ......+ ..|... .-..+.|-.|.++|+++.
T Consensus 143 fslqClFCn~e---~lgnRs~~l~Hlf~~H~lniGlpDniVyvnel--------LehLke--kL~r~~CLyCekifrdkn 209 (423)
T KOG2482|consen 143 FSLQCLFCNNE---GLGNRSEILEHLFHVHGLNIGLPDNIVYVNEL--------LEHLKE--KLERLRCLYCEKIFRDKN 209 (423)
T ss_pred eeeEEEEecch---hcccHHHHHHHHHHHhhhccCCCcceeeHHHH--------HHHHHH--HHhhheeeeeccccCCcH
Confidence 34679999872 336677788888655540 0111111 011110 012378999999999999
Q ss_pred HHHhhhhh
Q psy11589 81 GFKSHLDI 88 (262)
Q Consensus 81 ~l~~H~~~ 88 (262)
.|..||+.
T Consensus 210 tLkeHMrk 217 (423)
T KOG2482|consen 210 TLKEHMRK 217 (423)
T ss_pred HHHHHHHh
Confidence 99999975
No 56
>KOG2785|consensus
Probab=95.92 E-value=0.018 Score=47.02 Aligned_cols=52 Identities=21% Similarity=0.420 Sum_probs=39.3
Q ss_pred cccCCcchhcCCCChHHHHHHHhhcCCCC----------------------cccccccc---cccCChHHHHHHHHh
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIRNSHTIHQ----------------------KSICDVCG---KEFRMKRQLKEHMAV 229 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~----------------------~~~C~~C~---~~f~~~~~l~~H~~~ 229 (262)
|-.|..|+..+.+...-..||...|.--- .+.|-.|. +.|.+....+.||..
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 46788888888888888888875554222 37788888 888888888889864
No 57
>PRK04860 hypothetical protein; Provisional
Probab=95.90 E-value=0.0043 Score=45.11 Aligned_cols=36 Identities=22% Similarity=0.586 Sum_probs=17.8
Q ss_pred eeecCcchhhccChhHHHHHHHHhhcCCCcccCcccccccc
Q psy11589 94 EYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFA 134 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~ 134 (262)
+|.|. |+. ....+..| .++|.++++|.|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH-~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRH-NRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHH-HHHhcCCccEECCCCCceeE
Confidence 35554 544 34444555 34455555555555555443
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.85 E-value=0.0087 Score=28.75 Aligned_cols=19 Identities=32% Similarity=0.667 Sum_probs=11.3
Q ss_pred cCCCCCcccCChHHHHHHHH
Q psy11589 237 VCNMCPSTFKLKKHLRQHYK 256 (262)
Q Consensus 237 ~C~~C~~~f~~~~~L~~H~~ 256 (262)
.|+.||+.| ..+.|..|++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 566666666 5555666654
No 59
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.62 E-value=0.022 Score=45.74 Aligned_cols=128 Identities=25% Similarity=0.384 Sum_probs=81.6
Q ss_pred eecCc--chhhccChhHHHHHHHHhhcCCCcccCcccc---cccc------CchhHHhHHhhhCCCCc----cccCcccc
Q psy11589 95 YCCHI--CKKVFLRNRNLVCHIKAVHENVREHQCSVCG---KAFA------DITNMKVHMRIHTGEKK----YVCETCGA 159 (262)
Q Consensus 95 ~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~---~~f~------~~~~l~~H~~~h~~~~~----~~C~~C~~ 159 (262)
|.|+. |.........|..|.+..|.. +.|.+|- +.|. +...|+.|...-..+.. -.|..|..
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~---~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF---VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc---EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccc
Confidence 67775 777777778888887766643 5566652 2332 34566777654333322 34888888
Q ss_pred cccCcchHHHHHhhcCCCcccCCcc----hhcCCCChHHHHHHHhhcCCCCcccccc--cc----cccCChHHHHHHHHh
Q psy11589 160 SFALWGSLNVHSYSHTNTQFVCSYC----GNTYKNPKALTSHIRNSHTIHQKSICDV--CG----KEFRMKRQLKEHMAV 229 (262)
Q Consensus 160 ~f~~~~~l~~H~~~h~~~~~~C~~C----~~~f~~~~~l~~H~~~~H~~~~~~~C~~--C~----~~f~~~~~l~~H~~~ 229 (262)
.|-...+|..|++..+++-+.|+.- .+.|.+...|..|.+..| |.|.+ |. ..|.....|..|+..
T Consensus 229 ~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h-----y~ct~qtc~~~k~~vf~~~~el~~h~~~ 303 (493)
T COG5236 229 YFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAH-----YCCTFQTCRVGKCYVFPYHTELLEHLTR 303 (493)
T ss_pred eecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCc-----eEEEEEEEecCcEEEeccHHHHHHHHHH
Confidence 8888888888888877654444332 234777788888877433 44443 22 357888888888754
Q ss_pred h
Q psy11589 230 H 230 (262)
Q Consensus 230 h 230 (262)
-
T Consensus 304 ~ 304 (493)
T COG5236 304 F 304 (493)
T ss_pred H
Confidence 3
No 60
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.38 E-value=0.015 Score=27.93 Aligned_cols=19 Identities=32% Similarity=0.854 Sum_probs=11.3
Q ss_pred cccccccccCChHHHHHHHH
Q psy11589 209 ICDVCGKEFRMKRQLKEHMA 228 (262)
Q Consensus 209 ~C~~C~~~f~~~~~l~~H~~ 228 (262)
.|+.||+.| ..+.|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 566666666 4455666654
No 61
>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=95.15 E-value=0.015 Score=30.36 Aligned_cols=22 Identities=32% Similarity=0.677 Sum_probs=16.5
Q ss_pred CccCCCCCcccCChHHHHHHHH
Q psy11589 235 PFVCNMCPSTFKLKKHLRQHYK 256 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~~L~~H~~ 256 (262)
+|.|++|+..|.+...+..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5677888888877777777764
No 62
>KOG4173|consensus
Probab=95.08 E-value=0.013 Score=43.49 Aligned_cols=75 Identities=25% Similarity=0.542 Sum_probs=48.6
Q ss_pred cccCc--ccccccCcchHHHHHhhcCCCcccCCcchhcCCCChHHHHHHHhhc---------CCCCcccccc--cccccC
Q psy11589 152 YVCET--CGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSH---------TIHQKSICDV--CGKEFR 218 (262)
Q Consensus 152 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H---------~~~~~~~C~~--C~~~f~ 218 (262)
+.|++ |...|.+...+..|..+-++ -.|.+|.+.|.+...|..|+...| .|..-|+|-+ |+..|.
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~--~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFk 157 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG--NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFK 157 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc--chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhh
Confidence 56655 66667666666666655443 257777777777777777776444 2445567743 777777
Q ss_pred ChHHHHHHHH
Q psy11589 219 MKRQLKEHMA 228 (262)
Q Consensus 219 ~~~~l~~H~~ 228 (262)
+...-..|+-
T Consensus 158 T~r~RkdH~I 167 (253)
T KOG4173|consen 158 TSRDRKDHMI 167 (253)
T ss_pred hhhhhhhHHH
Confidence 7777777764
No 63
>KOG2893|consensus
Probab=95.04 E-value=0.0066 Score=46.05 Aligned_cols=41 Identities=27% Similarity=0.621 Sum_probs=23.5
Q ss_pred CCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHH
Q psy11589 181 CSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEH 226 (262)
Q Consensus 181 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H 226 (262)
|-+|++.|.+...|+.|++. +-|+|.+|-+..-+--.|..|
T Consensus 13 cwycnrefddekiliqhqka-----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCceee
Confidence 56666666666666666553 336666666655554455544
No 64
>KOG2893|consensus
Probab=94.68 E-value=0.01 Score=45.05 Aligned_cols=48 Identities=25% Similarity=0.422 Sum_probs=38.6
Q ss_pred ecCCCcccccchhHHHhhhhhcCCCCeeecCcchhhccChhHHHHHHHHhhc
Q psy11589 68 KCPDCSVIVVSYSGFKSHLDIHNVEKEYCCHICKKVFLRNRNLVCHIKAVHE 119 (262)
Q Consensus 68 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 119 (262)
.|.+|++.|.+..-|..|++.. -|+|-+|-+...+--.|..|-..+|.
T Consensus 12 wcwycnrefddekiliqhqkak----hfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeeecccccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhhh
Confidence 5888999999888888888753 38888888888888888888766664
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=94.40 E-value=0.11 Score=35.08 Aligned_cols=48 Identities=19% Similarity=0.439 Sum_probs=25.8
Q ss_pred CCcchhcCCCChHHHHHHHhhcCCCCcccccccccccCChHHHHHHHHhhC
Q psy11589 181 CSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEFRMKRQLKEHMAVHT 231 (262)
Q Consensus 181 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 231 (262)
|--|...|....... ...-.....|+|+.|...|--.-++-.|..+|+
T Consensus 58 C~~C~~~f~~~~~~~---~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 58 CFGCQGPFPKPPVSP---FDELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ccCcCCCCCCccccc---ccccccccceeCCCCCCccccccchhhhhhccC
Confidence 666666666542111 000112345777777777776666666665553
No 66
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=94.20 E-value=0.027 Score=29.10 Aligned_cols=10 Identities=40% Similarity=1.238 Sum_probs=5.2
Q ss_pred CCccCCCCCc
Q psy11589 234 RPFVCNMCPS 243 (262)
Q Consensus 234 ~~~~C~~C~~ 243 (262)
.+..|+.||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4455555553
No 67
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.01 E-value=0.013 Score=50.17 Aligned_cols=148 Identities=22% Similarity=0.377 Sum_probs=81.1
Q ss_pred eeecCcchhhccChhHHHHHHHH-hhcCC--CcccCc--cccccccCchhHHhHHhhhCCCCccccCc--ccccccCcch
Q psy11589 94 EYCCHICKKVFLRNRNLVCHIKA-VHENV--REHQCS--VCGKAFADITNMKVHMRIHTGEKKYVCET--CGASFALWGS 166 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H~~~-~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~ 166 (262)
++.|..|...|.....|..|... .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.. +...+.....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccC
Confidence 35566666666666666666332 56666 666666 56666666666666666666555544433 2222221111
Q ss_pred ------HHHHHhhcCCCcccCCc--chhcCCCChHHHHHHHhhcCCCC--cccccccccccCChHHHHHHHHhhCCCCCc
Q psy11589 167 ------LNVHSYSHTNTQFVCSY--CGNTYKNPKALTSHIRNSHTIHQ--KSICDVCGKEFRMKRQLKEHMAVHTTDRPF 236 (262)
Q Consensus 167 ------l~~H~~~h~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 236 (262)
+...........+.+.. |...+.....+..|.. .|...+ .+.+..|.+.+.....+..|++.+....++
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHII-THLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCccchhhccCccCCccccccccchhhhhccccccccccc-cccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 11111111112333322 5555555555555554 444433 466677888888888888888887777666
Q ss_pred cCCCCC
Q psy11589 237 VCNMCP 242 (262)
Q Consensus 237 ~C~~C~ 242 (262)
.|..++
T Consensus 448 ~~~~~~ 453 (467)
T COG5048 448 LCSILK 453 (467)
T ss_pred eecccc
Confidence 655543
No 68
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.85 E-value=0.1 Score=35.26 Aligned_cols=49 Identities=18% Similarity=0.371 Sum_probs=34.6
Q ss_pred cccccccccCChHHHHHHHHhhCCCCCccCCCCCcccCChHHHHHHHHhhc
Q psy11589 209 ICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTFKLKKHLRQHYKVHL 259 (262)
Q Consensus 209 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 259 (262)
.|--|...|....... ...-.....|+|+.|...|=..-++-.|...|.
T Consensus 57 ~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcCCCCCCccccc--ccccccccceeCCCCCCccccccchhhhhhccC
Confidence 4999999998653111 000123456999999999998888888887774
No 69
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.57 E-value=0.03 Score=47.92 Aligned_cols=149 Identities=22% Similarity=0.393 Sum_probs=105.7
Q ss_pred cceecCCCcccccchhHHHhhhh--hcCCC--CeeecC--cchhhccChhHHHHHHHHhhcCCCcccCcc--ccccccCc
Q psy11589 65 VSYKCPDCSVIVVSYSGFKSHLD--IHNVE--KEYCCH--ICKKVFLRNRNLVCHIKAVHENVREHQCSV--CGKAFADI 136 (262)
Q Consensus 65 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~--C~~~f~~~ 136 (262)
.++.|..|...|.....|..|.+ .|.++ .++.|+ .|++.|.....+..| ...|.+..++.+.. +...+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRH-ILLHTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCC-cccccCCCccccccccCccccccc
Confidence 46899999999999999999999 89999 899999 799999999999999 56787777766654 33333222
Q ss_pred hhHHhH-----HhhhCCCCcccc--CcccccccCcchHHHHHhhcCC---CcccCCcchhcCCCChHHHHHHHhhcCCCC
Q psy11589 137 TNMKVH-----MRIHTGEKKYVC--ETCGASFALWGSLNVHSYSHTN---TQFVCSYCGNTYKNPKALTSHIRNSHTIHQ 206 (262)
Q Consensus 137 ~~l~~H-----~~~h~~~~~~~C--~~C~~~f~~~~~l~~H~~~h~~---~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 206 (262)
..-..+ ...-.......+ ..|...+.....+..|...+.. ..+.+..|...+.....+..|++ .|....
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 445 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKK-IHTNHA 445 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccccc-ccccCC
Confidence 221101 111112223333 2355666666677777766654 36778889999999999999988 777777
Q ss_pred ccccccccc
Q psy11589 207 KSICDVCGK 215 (262)
Q Consensus 207 ~~~C~~C~~ 215 (262)
++.|..++.
T Consensus 446 ~~~~~~~~~ 454 (467)
T COG5048 446 PLLCSILKS 454 (467)
T ss_pred ceeeccccc
Confidence 776655443
No 70
>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=93.42 E-value=0.29 Score=33.22 Aligned_cols=26 Identities=31% Similarity=0.598 Sum_probs=19.2
Q ss_pred CceecccCCCCCceeeehHHHHHHHhhhccC
Q psy11589 8 SDFVCNLCPPGSKVVVKYVHYLERHVRKHHT 38 (262)
Q Consensus 8 ~~~~C~~C~~~~~~~~~~~~~l~~H~~~~~~ 38 (262)
+-..|..|+. .... +.+..|++..|.
T Consensus 10 ~vlIC~~C~~----av~~-~~v~~HL~~~H~ 35 (109)
T PF12013_consen 10 RVLICRQCQY----AVQP-SEVESHLRKRHH 35 (109)
T ss_pred CEEEeCCCCc----ccCc-hHHHHHHHHhcc
Confidence 5678999987 4433 889999986543
No 71
>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=93.17 E-value=0.078 Score=27.57 Aligned_cols=24 Identities=25% Similarity=0.516 Sum_probs=21.3
Q ss_pred CceecccCCCCCceeeehHHHHHHHhhh
Q psy11589 8 SDFVCNLCPPGSKVVVKYVHYLERHVRK 35 (262)
Q Consensus 8 ~~~~C~~C~~~~~~~~~~~~~l~~H~~~ 35 (262)
.+|.|.+|+. .|.+...+..|+..
T Consensus 2 ~~~~C~~C~~----~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNV----TFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCC----ccCCHHHHHHHHCh
Confidence 4689999999 99999999999864
No 72
>KOG4173|consensus
Probab=93.09 E-value=0.054 Score=40.27 Aligned_cols=84 Identities=19% Similarity=0.449 Sum_probs=67.3
Q ss_pred CcccCcc--ccccccCchhHHhHHhhhCCCCccccCcccccccCcchHHHHHhhcCC-----------CcccCCc--chh
Q psy11589 122 REHQCSV--CGKAFADITNMKVHMRIHTGEKKYVCETCGASFALWGSLNVHSYSHTN-----------TQFVCSY--CGN 186 (262)
Q Consensus 122 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-----------~~~~C~~--C~~ 186 (262)
..+.|++ |...|.+...+..|..+-++ -.|..|.+.|.+...|..|+..-++ ..|.|.+ |+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4578877 88899988888888876665 3699999999999999999865433 2478854 999
Q ss_pred cCCCChHHHHHHHhhcCCCCcc
Q psy11589 187 TYKNPKALTSHIRNSHTIHQKS 208 (262)
Q Consensus 187 ~f~~~~~l~~H~~~~H~~~~~~ 208 (262)
.|.+...-..|+-..|.-...|
T Consensus 155 KFkT~r~RkdH~I~~Hk~Pa~f 176 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMHKYPADF 176 (253)
T ss_pred hhhhhhhhhhHHHHhccCCcce
Confidence 9999999999999888754444
No 73
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.07 E-value=0.15 Score=34.69 Aligned_cols=25 Identities=24% Similarity=0.558 Sum_probs=20.1
Q ss_pred ccC----CCCCcccCChHHHHHHHHhhcc
Q psy11589 236 FVC----NMCPSTFKLKKHLRQHYKVHLK 260 (262)
Q Consensus 236 ~~C----~~C~~~f~~~~~L~~H~~~H~~ 260 (262)
|.| +.|++.+.+...+.+|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 788 8888888888888888877765
No 74
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=91.23 E-value=0.17 Score=29.00 Aligned_cols=27 Identities=15% Similarity=0.528 Sum_probs=13.3
Q ss_pred CCccceecCCCcccccchhHHHhhhhh
Q psy11589 62 NKKVSYKCPDCSVIVVSYSGFKSHLDI 88 (262)
Q Consensus 62 ~~~~~~~C~~C~~~f~~~~~l~~H~~~ 88 (262)
.++.-+.|+-|+..|....+..+|...
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 344445555555555555555555443
No 75
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=90.29 E-value=0.15 Score=26.44 Aligned_cols=10 Identities=40% Similarity=0.906 Sum_probs=5.1
Q ss_pred cccccccccc
Q psy11589 208 SICDVCGKEF 217 (262)
Q Consensus 208 ~~C~~C~~~f 217 (262)
|.|.+||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4555555443
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.49 E-value=0.2 Score=28.75 Aligned_cols=32 Identities=25% Similarity=0.472 Sum_probs=27.2
Q ss_pred hcCCCCeeecCcchhhccChhHHHHHHHHhhc
Q psy11589 88 IHNVEKEYCCHICKKVFLRNRNLVCHIKAVHE 119 (262)
Q Consensus 88 ~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 119 (262)
.-.++..+.|+-|+..|....+...|+...|.
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 34567779999999999999999999877774
No 77
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=89.09 E-value=0.2 Score=36.57 Aligned_cols=23 Identities=39% Similarity=1.040 Sum_probs=16.3
Q ss_pred cccCCcchhcCCCChHHHHHHHhhcCCCCcccccccc
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCG 214 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~ 214 (262)
.|.|++||.. +.++.|-+||+||
T Consensus 134 ~~vC~vCGy~--------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT--------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc--------------ccCCCCCcCCCCC
Confidence 5778888763 4456777788887
No 78
>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=88.39 E-value=0.35 Score=23.39 Aligned_cols=10 Identities=30% Similarity=0.853 Sum_probs=6.5
Q ss_pred cCCCCCcccC
Q psy11589 237 VCNMCPSTFK 246 (262)
Q Consensus 237 ~C~~C~~~f~ 246 (262)
.|+.||+.|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5677776664
No 79
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=87.86 E-value=0.092 Score=40.42 Aligned_cols=13 Identities=23% Similarity=0.470 Sum_probs=8.2
Q ss_pred ccccccccccCCh
Q psy11589 208 SICDVCGKEFRMK 220 (262)
Q Consensus 208 ~~C~~C~~~f~~~ 220 (262)
..||.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 4577777766543
No 80
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=87.21 E-value=0.14 Score=39.37 Aligned_cols=14 Identities=29% Similarity=0.653 Sum_probs=11.2
Q ss_pred cccCCcchhcCCCC
Q psy11589 178 QFVCSYCGNTYKNP 191 (262)
Q Consensus 178 ~~~C~~C~~~f~~~ 191 (262)
.+.||.||++|...
T Consensus 48 V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 48 VWVCPHCGYAAFEE 61 (214)
T ss_pred EEECCCCCCccccc
Confidence 36899999987765
No 81
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=87.17 E-value=0.36 Score=26.73 Aligned_cols=26 Identities=31% Similarity=0.703 Sum_probs=14.4
Q ss_pred ccccccccccCChHHHHHHHHhhCCCCCccCCCCCcc
Q psy11589 208 SICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPST 244 (262)
Q Consensus 208 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 244 (262)
|.|..||..|... ...+.+|+.||..
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----------CCCceECCCCCce
Confidence 5666666665532 2244566666654
No 82
>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=85.78 E-value=0.42 Score=25.37 Aligned_cols=9 Identities=22% Similarity=0.678 Sum_probs=3.6
Q ss_pred ccCCCCCcc
Q psy11589 236 FVCNMCPST 244 (262)
Q Consensus 236 ~~C~~C~~~ 244 (262)
..|+.|+..
T Consensus 26 v~C~~C~~~ 34 (38)
T TIGR02098 26 VRCGKCGHV 34 (38)
T ss_pred EECCCCCCE
Confidence 334444433
No 83
>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=85.75 E-value=0.31 Score=37.79 Aligned_cols=26 Identities=23% Similarity=0.453 Sum_probs=17.7
Q ss_pred CCCccCCCCCcccCChHHHHHHHHhh
Q psy11589 233 DRPFVCNMCPSTFKLKKHLRQHYKVH 258 (262)
Q Consensus 233 ~~~~~C~~C~~~f~~~~~L~~H~~~H 258 (262)
.+++.||.||+....-.+|.+-.|+|
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeecc
Confidence 36778888887777666666555554
No 84
>PHA00626 hypothetical protein
Probab=85.18 E-value=0.2 Score=28.83 Aligned_cols=12 Identities=25% Similarity=0.537 Sum_probs=5.4
Q ss_pred cccccccccccC
Q psy11589 207 KSICDVCGKEFR 218 (262)
Q Consensus 207 ~~~C~~C~~~f~ 218 (262)
.|.|+.||+.|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 344444444443
No 85
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=84.59 E-value=0.49 Score=26.73 Aligned_cols=28 Identities=29% Similarity=0.701 Sum_probs=15.1
Q ss_pred cccccccccccCChHHHHHHHHhhCCCCCccCCCCCcc
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPST 244 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 244 (262)
.|.|..||+.|... .......|++||..
T Consensus 6 ~Y~C~~Cg~~~~~~----------~~~~~irCp~Cg~r 33 (49)
T COG1996 6 EYKCARCGREVELD----------QETRGIRCPYCGSR 33 (49)
T ss_pred EEEhhhcCCeeehh----------hccCceeCCCCCcE
Confidence 46677777666111 12344567777653
No 86
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=84.58 E-value=0.8 Score=26.08 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=13.4
Q ss_pred ccCCCCCcccCCh-----HHHHHHHH
Q psy11589 236 FVCNMCPSTFKLK-----KHLRQHYK 256 (262)
Q Consensus 236 ~~C~~C~~~f~~~-----~~L~~H~~ 256 (262)
-.|.+|++.+... ++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 3566666666554 47777776
No 87
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=83.96 E-value=0.83 Score=24.18 Aligned_cols=10 Identities=30% Similarity=0.959 Sum_probs=4.3
Q ss_pred ecCCCccccc
Q psy11589 68 KCPDCSVIVV 77 (262)
Q Consensus 68 ~C~~C~~~f~ 77 (262)
.|+.|+..|.
T Consensus 4 ~CP~C~~~f~ 13 (37)
T PF13719_consen 4 TCPNCQTRFR 13 (37)
T ss_pred ECCCCCceEE
Confidence 3444444443
No 88
>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=83.77 E-value=1.1 Score=32.64 Aligned_cols=33 Identities=18% Similarity=0.388 Sum_probs=20.8
Q ss_pred CCCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCccc
Q psy11589 204 IHQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTF 245 (262)
Q Consensus 204 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 245 (262)
...-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 345567777777776666653 247777777653
No 89
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.41 E-value=0.88 Score=30.76 Aligned_cols=12 Identities=42% Similarity=1.046 Sum_probs=4.9
Q ss_pred cccccccccccC
Q psy11589 207 KSICDVCGKEFR 218 (262)
Q Consensus 207 ~~~C~~C~~~f~ 218 (262)
|-.|+.||..|.
T Consensus 26 PivCP~CG~~~~ 37 (108)
T PF09538_consen 26 PIVCPKCGTEFP 37 (108)
T ss_pred CccCCCCCCccC
Confidence 334444444443
No 90
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=83.30 E-value=0.97 Score=23.77 Aligned_cols=9 Identities=33% Similarity=1.036 Sum_probs=3.8
Q ss_pred cCCCccccc
Q psy11589 69 CPDCSVIVV 77 (262)
Q Consensus 69 C~~C~~~f~ 77 (262)
|+.|+..|.
T Consensus 5 Cp~C~~~y~ 13 (36)
T PF13717_consen 5 CPNCQAKYE 13 (36)
T ss_pred CCCCCCEEe
Confidence 444444443
No 91
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=83.26 E-value=0.36 Score=26.07 Aligned_cols=10 Identities=60% Similarity=1.554 Sum_probs=4.1
Q ss_pred cccCcccccc
Q psy11589 152 YVCETCGASF 161 (262)
Q Consensus 152 ~~C~~C~~~f 161 (262)
|.|+.||..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 3344444433
No 92
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=81.99 E-value=0.7 Score=27.14 Aligned_cols=7 Identities=43% Similarity=1.735 Sum_probs=2.6
Q ss_pred cccCccc
Q psy11589 152 YVCETCG 158 (262)
Q Consensus 152 ~~C~~C~ 158 (262)
|.|+.||
T Consensus 26 F~CPnCG 32 (59)
T PRK14890 26 FLCPNCG 32 (59)
T ss_pred eeCCCCC
Confidence 3333333
No 93
>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=81.97 E-value=1.4 Score=34.33 Aligned_cols=39 Identities=18% Similarity=0.477 Sum_probs=17.4
Q ss_pred CCCcccCccccccccCchhHHhHHhhh--CCCCccccCcccc
Q psy11589 120 NVREHQCSVCGKAFADITNMKVHMRIH--TGEKKYVCETCGA 159 (262)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~ 159 (262)
+.+.|.|..|....-. ..--.|+..- .....|+|.-|++
T Consensus 139 GGrif~CsfC~~flCE-DDQFEHQAsCQvLe~E~~KC~SCNr 179 (314)
T PF06524_consen 139 GGRIFKCSFCDNFLCE-DDQFEHQASCQVLESETFKCQSCNR 179 (314)
T ss_pred CCeEEEeecCCCeeec-cchhhhhhhhhhhhccccccccccc
Confidence 4456666666653322 2222343221 1223466666654
No 94
>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=81.80 E-value=1.2 Score=24.62 Aligned_cols=23 Identities=22% Similarity=0.587 Sum_probs=11.1
Q ss_pred CCCccCCCCCcccCCh----HHHHHHH
Q psy11589 233 DRPFVCNMCPSTFKLK----KHLRQHY 255 (262)
Q Consensus 233 ~~~~~C~~C~~~f~~~----~~L~~H~ 255 (262)
....+|.+|++.+... ++|.+|+
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 3445666666665553 5666666
No 95
>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=81.54 E-value=0.9 Score=30.73 Aligned_cols=12 Identities=42% Similarity=1.093 Sum_probs=5.1
Q ss_pred ccccCccccccc
Q psy11589 151 KYVCETCGASFA 162 (262)
Q Consensus 151 ~~~C~~C~~~f~ 162 (262)
|..|+.||..|.
T Consensus 26 PivCP~CG~~~~ 37 (108)
T PF09538_consen 26 PIVCPKCGTEFP 37 (108)
T ss_pred CccCCCCCCccC
Confidence 344444444443
No 96
>KOG2186|consensus
Probab=81.14 E-value=1 Score=34.90 Aligned_cols=45 Identities=27% Similarity=0.633 Sum_probs=19.4
Q ss_pred cccCcccccccCcchHHHHHhhcCCCcccCCcchhcCCCChHHHHHH
Q psy11589 152 YVCETCGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSHI 198 (262)
Q Consensus 152 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~ 198 (262)
|.|..||....- ..+..|+....+.-|.|-.|+.+|.. ..+..|.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhh
Confidence 344444443322 23334444444444444445544444 3344443
No 97
>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=79.93 E-value=0.62 Score=26.74 Aligned_cols=12 Identities=25% Similarity=0.736 Sum_probs=7.8
Q ss_pred eecCCCcccccc
Q psy11589 67 YKCPDCSVIVVS 78 (262)
Q Consensus 67 ~~C~~C~~~f~~ 78 (262)
|.|..|+..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 667777766654
No 98
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=79.86 E-value=1.3 Score=40.48 Aligned_cols=29 Identities=28% Similarity=0.562 Sum_probs=17.2
Q ss_pred hcCCCCcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcc
Q psy11589 201 SHTIHQKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPST 244 (262)
Q Consensus 201 ~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 244 (262)
.|.......|..||.. ...|..|+.||..
T Consensus 456 ~H~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 456 LHKATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred EecCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 4445566677777633 2356677777654
No 99
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=79.58 E-value=1.7 Score=32.37 Aligned_cols=31 Identities=19% Similarity=0.503 Sum_probs=17.8
Q ss_pred CcccccccccccCChHHHHHHHHhhCCCCCccCCCCCccc
Q psy11589 206 QKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPSTF 245 (262)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 245 (262)
.-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 4466666666666555442 246666666553
No 100
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=78.98 E-value=0.87 Score=25.42 Aligned_cols=30 Identities=27% Similarity=0.433 Sum_probs=17.5
Q ss_pred ceecCCCcccccchhHHHhhhhhcCCCCeeecCcchhhcc
Q psy11589 66 SYKCPDCSVIVVSYSGFKSHLDIHNVEKEYCCHICKKVFL 105 (262)
Q Consensus 66 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 105 (262)
.|.|+.||..|..... .....|+.|+..+.
T Consensus 3 ~y~C~~CG~~~~~~~~----------~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEY----------GTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCC----------CCceECCCCCCeEE
Confidence 4777777776653221 11467777776543
No 101
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.94 E-value=1.3 Score=32.39 Aligned_cols=25 Identities=32% Similarity=0.804 Sum_probs=20.2
Q ss_pred cccccccccccCChHHHHHHHHhhCCCCCccCCCCCcc
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPST 244 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 244 (262)
-|.|++||..+ -|+.|-+||+||-.
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCCCh
Confidence 69999998654 46789999999943
No 102
>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=78.56 E-value=2.2 Score=20.52 Aligned_cols=19 Identities=16% Similarity=0.454 Sum_probs=12.8
Q ss_pred cCCCCCcccCChHHHHHHHH
Q psy11589 237 VCNMCPSTFKLKKHLRQHYK 256 (262)
Q Consensus 237 ~C~~C~~~f~~~~~L~~H~~ 256 (262)
.||+|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 577777776 5566667664
No 103
>PF15269 zf-C2H2_7: Zinc-finger
Probab=78.17 E-value=1.9 Score=23.57 Aligned_cols=23 Identities=22% Similarity=0.416 Sum_probs=20.3
Q ss_pred ceecccCCCCCceeeehHHHHHHHhhh
Q psy11589 9 DFVCNLCPPGSKVVVKYVHYLERHVRK 35 (262)
Q Consensus 9 ~~~C~~C~~~~~~~~~~~~~l~~H~~~ 35 (262)
.|+|-.|+. +....++|-.||+-
T Consensus 20 ~ykcfqcpf----tc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPF----TCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCc----ccchHHHHHHHHHH
Confidence 478999999 89999999999974
No 104
>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=77.54 E-value=0.64 Score=25.41 Aligned_cols=7 Identities=57% Similarity=1.545 Sum_probs=2.6
Q ss_pred cCccccc
Q psy11589 154 CETCGAS 160 (262)
Q Consensus 154 C~~C~~~ 160 (262)
|..||..
T Consensus 8 C~~Cg~~ 14 (42)
T PF09723_consen 8 CEECGHE 14 (42)
T ss_pred eCCCCCE
Confidence 3333333
No 105
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=77.52 E-value=2.3 Score=30.60 Aligned_cols=36 Identities=17% Similarity=0.337 Sum_probs=17.1
Q ss_pred CeeecCcchhhccChhHHHHHHHHhhcCCCcccCccccccc
Q psy11589 93 KEYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAF 133 (262)
Q Consensus 93 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f 133 (262)
..|.|+.|+..|.....+..- .. +..|.|+.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~----d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLL----DM-DGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhc----CC-CCcEECCCCCCEE
Confidence 346666666665543332210 11 2336666666554
No 106
>KOG2186|consensus
Probab=76.36 E-value=1.8 Score=33.70 Aligned_cols=46 Identities=24% Similarity=0.588 Sum_probs=25.2
Q ss_pred eecCcchhhccChhHHHHHHHHhhcCCCcccCccccccccCchhHHhHHh
Q psy11589 95 YCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFADITNMKVHMR 144 (262)
Q Consensus 95 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 144 (262)
|.|..|+.... +..+..|+.+-+ + ..|.|-.|+..|.. ..+..|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCr-n-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCR-N-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhcc-C-CeeEEeeccccccc-chhhhhhh
Confidence 56666666544 334555644333 2 45666666666665 45555544
No 107
>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=76.32 E-value=2 Score=31.31 Aligned_cols=17 Identities=18% Similarity=0.057 Sum_probs=7.6
Q ss_pred cccCccccccccCchhH
Q psy11589 123 EHQCSVCGKAFADITNM 139 (262)
Q Consensus 123 ~~~C~~C~~~f~~~~~l 139 (262)
-|.|+.|+..|+....+
T Consensus 109 ~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAM 125 (158)
T ss_pred eEECCCCCcEeeHHHHH
Confidence 34455555444443333
No 108
>KOG2807|consensus
Probab=76.04 E-value=4.3 Score=32.92 Aligned_cols=21 Identities=19% Similarity=0.360 Sum_probs=13.9
Q ss_pred CcccCCcchhcCCCChHHHHH
Q psy11589 177 TQFVCSYCGNTYKNPKALTSH 197 (262)
Q Consensus 177 ~~~~C~~C~~~f~~~~~l~~H 197 (262)
-|..|+.|+-+......|.+=
T Consensus 289 LP~eCpiC~ltLVss~hLARS 309 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARS 309 (378)
T ss_pred CCccCCccceeEecchHHHHH
Confidence 366777777777766666543
No 109
>PF12907 zf-met2: Zinc-binding
Probab=75.67 E-value=2 Score=23.17 Aligned_cols=13 Identities=31% Similarity=0.437 Sum_probs=6.4
Q ss_pred hHHHHHHHhhcCC
Q psy11589 192 KALTSHIRNSHTI 204 (262)
Q Consensus 192 ~~l~~H~~~~H~~ 204 (262)
..|..|..+.|..
T Consensus 18 ~~L~eH~enKHpK 30 (40)
T PF12907_consen 18 PQLKEHAENKHPK 30 (40)
T ss_pred HHHHHHHHccCCC
Confidence 3455555544544
No 110
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=74.42 E-value=1.5 Score=22.33 Aligned_cols=6 Identities=50% Similarity=1.403 Sum_probs=2.4
Q ss_pred cCCcch
Q psy11589 180 VCSYCG 185 (262)
Q Consensus 180 ~C~~C~ 185 (262)
+|+.||
T Consensus 19 rC~~CG 24 (32)
T PF03604_consen 19 RCPECG 24 (32)
T ss_dssp SBSSSS
T ss_pred ECCcCC
Confidence 344443
No 111
>PF15269 zf-C2H2_7: Zinc-finger
Probab=74.01 E-value=2.5 Score=23.14 Aligned_cols=21 Identities=43% Similarity=0.740 Sum_probs=12.7
Q ss_pred ccCCCCCcccCChHHHHHHHH
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYK 256 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~ 256 (262)
|+|-.|..+...++.|-+||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 456666666666666666654
No 112
>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=73.12 E-value=0.95 Score=22.70 Aligned_cols=8 Identities=50% Similarity=1.294 Sum_probs=3.4
Q ss_pred cccCCcch
Q psy11589 178 QFVCSYCG 185 (262)
Q Consensus 178 ~~~C~~C~ 185 (262)
.+.|+.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 34444443
No 113
>KOG2071|consensus
Probab=72.69 E-value=3.5 Score=36.32 Aligned_cols=25 Identities=20% Similarity=0.567 Sum_probs=19.7
Q ss_pred CcccCCcchhcCCCChHHHHHHHhhc
Q psy11589 177 TQFVCSYCGNTYKNPKALTSHIRNSH 202 (262)
Q Consensus 177 ~~~~C~~C~~~f~~~~~l~~H~~~~H 202 (262)
.+-.|..||..|........|+. .|
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md-~H 441 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMD-IH 441 (579)
T ss_pred CcchhcccccccccchhhhhHhh-hh
Confidence 45789999999998888877776 45
No 114
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=71.79 E-value=5.3 Score=28.73 Aligned_cols=36 Identities=14% Similarity=0.540 Sum_probs=19.6
Q ss_pred CcccCccccccccCchhHHhHHhhhCCCCccccCcccccc
Q psy11589 122 REHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASF 161 (262)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 161 (262)
..|.|+.|+..|.....+.. . . ....|.|+.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 45777777777664333222 0 1 12337777777654
No 115
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=71.72 E-value=2.3 Score=39.06 Aligned_cols=28 Identities=25% Similarity=0.676 Sum_probs=15.7
Q ss_pred hcCCCcccCccccccccCchhHHhHHhhhCCCCccccCccccc
Q psy11589 118 HENVREHQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGAS 160 (262)
Q Consensus 118 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 160 (262)
|.......|..||.. ...|..|+.||..
T Consensus 457 H~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 457 HKATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred ecCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 333445566666654 2345667777754
No 116
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=71.61 E-value=3.1 Score=29.01 Aligned_cols=15 Identities=20% Similarity=0.441 Sum_probs=9.2
Q ss_pred ccceecCCCcccccc
Q psy11589 64 KVSYKCPDCSVIVVS 78 (262)
Q Consensus 64 ~~~~~C~~C~~~f~~ 78 (262)
...|+|++|..+..+
T Consensus 78 ~~lYeCnIC~etS~e 92 (140)
T PF05290_consen 78 PKLYECNICKETSAE 92 (140)
T ss_pred CCceeccCcccccch
Confidence 355777777666544
No 117
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=70.28 E-value=2.5 Score=29.41 Aligned_cols=15 Identities=27% Similarity=0.647 Sum_probs=7.9
Q ss_pred cccccccccccCChH
Q psy11589 207 KSICDVCGKEFRMKR 221 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~ 221 (262)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 345555555555443
No 118
>PRK04023 DNA polymerase II large subunit; Validated
Probab=70.18 E-value=4.3 Score=38.25 Aligned_cols=10 Identities=20% Similarity=0.348 Sum_probs=5.6
Q ss_pred ccCCCCCccc
Q psy11589 236 FVCNMCPSTF 245 (262)
Q Consensus 236 ~~C~~C~~~f 245 (262)
+.|+.||..-
T Consensus 664 y~CPKCG~El 673 (1121)
T PRK04023 664 DECEKCGREP 673 (1121)
T ss_pred CcCCCCCCCC
Confidence 4566666543
No 119
>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=69.74 E-value=3.6 Score=28.44 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=5.0
Q ss_pred cccCCcchhcC
Q psy11589 178 QFVCSYCGNTY 188 (262)
Q Consensus 178 ~~~C~~C~~~f 188 (262)
|..|+.||..|
T Consensus 26 p~vcP~cg~~~ 36 (129)
T TIGR02300 26 PAVSPYTGEQF 36 (129)
T ss_pred CccCCCcCCcc
Confidence 44444444444
No 120
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=69.49 E-value=1.8 Score=25.55 Aligned_cols=21 Identities=24% Similarity=0.673 Sum_probs=10.1
Q ss_pred hHHHHHHHHhhCCCCCccCCC
Q psy11589 220 KRQLKEHMAVHTTDRPFVCNM 240 (262)
Q Consensus 220 ~~~l~~H~~~h~~~~~~~C~~ 240 (262)
+..|..|+...=..++..|++
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHHHccCCCCcEECCC
Confidence 334555555444444555555
No 121
>PF14353 CpXC: CpXC protein
Probab=68.84 E-value=1.2 Score=31.11 Aligned_cols=10 Identities=40% Similarity=1.185 Sum_probs=5.4
Q ss_pred cCcccccccc
Q psy11589 125 QCSVCGKAFA 134 (262)
Q Consensus 125 ~C~~C~~~f~ 134 (262)
.|+.|+..|.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 4555655554
No 122
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=68.34 E-value=1.2 Score=32.31 Aligned_cols=17 Identities=24% Similarity=0.681 Sum_probs=10.1
Q ss_pred cccCcccccccCcchHH
Q psy11589 152 YVCETCGASFALWGSLN 168 (262)
Q Consensus 152 ~~C~~C~~~f~~~~~l~ 168 (262)
+.|+.||++|.+...+.
T Consensus 29 ~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 29 RECLACGKRFTTFERVE 45 (154)
T ss_pred eeccccCCcceEeEecc
Confidence 56666666666554433
No 123
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=68.25 E-value=3.6 Score=30.70 Aligned_cols=32 Identities=19% Similarity=0.522 Sum_probs=18.0
Q ss_pred CeeecCcchhhccChhHHHHHHHHhhcCCCcccCcccccccc
Q psy11589 93 KEYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKAFA 134 (262)
Q Consensus 93 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~ 134 (262)
.-|.|+.|+..|.....+. ..|.|+.||....
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~----------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME----------YGFRCPQCGEMLE 147 (178)
T ss_pred CEEECCCCCcEEeHHHHhh----------cCCcCCCCCCCCe
Confidence 3466666666665554431 2466666666543
No 124
>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=66.72 E-value=4.9 Score=30.90 Aligned_cols=28 Identities=29% Similarity=0.516 Sum_probs=18.6
Q ss_pred CCeeecCcchhhccChhHHHHHHHHhhc
Q psy11589 92 EKEYCCHICKKVFLRNRNLVCHIKAVHE 119 (262)
Q Consensus 92 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 119 (262)
+..|.|++|++.|.-..-+.+||...|.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 3457788888888888888888777774
No 125
>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=66.64 E-value=2.8 Score=19.80 Aligned_cols=8 Identities=38% Similarity=0.862 Sum_probs=3.7
Q ss_pred cccccccc
Q psy11589 207 KSICDVCG 214 (262)
Q Consensus 207 ~~~C~~C~ 214 (262)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 34444444
No 126
>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=64.97 E-value=2.6 Score=23.68 Aligned_cols=14 Identities=21% Similarity=0.503 Sum_probs=10.6
Q ss_pred ceecccCCCCCceeeehH
Q psy11589 9 DFVCNLCPPGSKVVVKYV 26 (262)
Q Consensus 9 ~~~C~~C~~~~~~~~~~~ 26 (262)
.|+|..|+. ++.-.
T Consensus 1 ky~C~~Cgy----vYd~~ 14 (47)
T PF00301_consen 1 KYQCPVCGY----VYDPE 14 (47)
T ss_dssp EEEETTTSB----EEETT
T ss_pred CcCCCCCCE----EEcCC
Confidence 388999998 77533
No 127
>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=64.89 E-value=2.7 Score=32.24 Aligned_cols=23 Identities=30% Similarity=0.605 Sum_probs=11.8
Q ss_pred cccccccccccCChHHHHHHHHh
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAV 229 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~ 229 (262)
.|.|+.|+|.|.-..-...|+..
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHH
T ss_pred EECCCCCCcccCChHHHHHHHhh
Confidence 45555555555555555555544
No 128
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=63.22 E-value=6.3 Score=25.26 Aligned_cols=30 Identities=27% Similarity=0.520 Sum_probs=18.6
Q ss_pred ceecCCCcccccchhHHHhhhhhcCCCCeeecCcchhhcc
Q psy11589 66 SYKCPDCSVIVVSYSGFKSHLDIHNVEKEYCCHICKKVFL 105 (262)
Q Consensus 66 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 105 (262)
.|.|+.|++.-- .+. ....+.|..|+..|.
T Consensus 35 ~~~Cp~C~~~~V--------kR~--a~GIW~C~kCg~~fA 64 (89)
T COG1997 35 KHVCPFCGRTTV--------KRI--ATGIWKCRKCGAKFA 64 (89)
T ss_pred CCcCCCCCCcce--------eee--ccCeEEcCCCCCeec
Confidence 467888887521 111 234678888887775
No 129
>KOG2807|consensus
Probab=62.02 E-value=16 Score=29.81 Aligned_cols=22 Identities=18% Similarity=0.380 Sum_probs=12.9
Q ss_pred cccCCcchhcCCCChHHHHHHH
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIR 199 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~ 199 (262)
.|.|+.|...|-..-+...|..
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHes 366 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHES 366 (378)
T ss_pred cEEchhccceeeccchHHHHhh
Confidence 4666666666665555555544
No 130
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=61.03 E-value=13 Score=30.70 Aligned_cols=26 Identities=19% Similarity=0.609 Sum_probs=14.1
Q ss_pred cCCCCcccccccc-cccCChHHHHHHH
Q psy11589 202 HTIHQKSICDVCG-KEFRMKRQLKEHM 227 (262)
Q Consensus 202 H~~~~~~~C~~C~-~~f~~~~~l~~H~ 227 (262)
|.-++.|.|.+|| +.+..+..+.+|-
T Consensus 369 hgLd~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 369 HGLDIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred cCCCcceeeeecccccccchHHHHhhh
Confidence 4444446666666 5555555555554
No 131
>KOG2071|consensus
Probab=60.90 E-value=9.2 Score=33.82 Aligned_cols=28 Identities=18% Similarity=0.274 Sum_probs=22.8
Q ss_pred CCCceecccCCCCCceeeehHHHHHHHhhhcc
Q psy11589 6 ENSDFVCNLCPPGSKVVVKYVHYLERHVRKHH 37 (262)
Q Consensus 6 ~~~~~~C~~C~~~~~~~~~~~~~l~~H~~~~~ 37 (262)
.+.|-.|..||. .|...+....||..|-
T Consensus 415 ~~~pnqC~~CG~----R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGL----RFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhccccc----ccccchhhhhHhhhhh
Confidence 356789999999 8988888888887764
No 132
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=60.08 E-value=5.5 Score=28.04 Aligned_cols=22 Identities=32% Similarity=0.750 Sum_probs=9.5
Q ss_pred ccCCCCCcccCChHHHHHHHHhhcc
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKVHLK 260 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~H~~ 260 (262)
..|-+||+.|.. |.+|+++|+|
T Consensus 73 i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-
T ss_pred eEEccCCcccch---HHHHHHHccC
Confidence 455556655543 3556555544
No 133
>PRK04023 DNA polymerase II large subunit; Validated
Probab=59.86 E-value=7.9 Score=36.63 Aligned_cols=9 Identities=44% Similarity=1.269 Sum_probs=6.0
Q ss_pred ccCcccccc
Q psy11589 124 HQCSVCGKA 132 (262)
Q Consensus 124 ~~C~~C~~~ 132 (262)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 567777765
No 134
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=59.50 E-value=12 Score=30.23 Aligned_cols=22 Identities=18% Similarity=0.469 Sum_probs=13.1
Q ss_pred cccCCcchhcCCCChHHHHHHH
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIR 199 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~ 199 (262)
.|.|+.|...|-..-....|..
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~ 409 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHET 409 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHH
Confidence 4666666666666555555544
No 135
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=58.62 E-value=4.3 Score=23.16 Aligned_cols=11 Identities=27% Similarity=0.540 Sum_probs=6.3
Q ss_pred CccCCCCCccc
Q psy11589 235 PFVCNMCPSTF 245 (262)
Q Consensus 235 ~~~C~~C~~~f 245 (262)
.+.|+.||+.+
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 45666666553
No 136
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=57.39 E-value=7.3 Score=25.70 Aligned_cols=14 Identities=29% Similarity=0.638 Sum_probs=8.8
Q ss_pred cccccccccccCCh
Q psy11589 207 KSICDVCGKEFRMK 220 (262)
Q Consensus 207 ~~~C~~C~~~f~~~ 220 (262)
|++|..||..|..-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 45666666666664
No 137
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=56.75 E-value=4.6 Score=28.92 Aligned_cols=34 Identities=21% Similarity=0.534 Sum_probs=18.9
Q ss_pred CcccccccccccCChHHHHHHHHhhCCCCCccCCCCCcc
Q psy11589 206 QKSICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPST 244 (262)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 244 (262)
-+|.|. |+..|.+.. +|-.+-.|+ .|.|..|+-.
T Consensus 116 ~~Y~C~-C~q~~l~~R---Rhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRIR---RHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchhh---hcccccccc-eEEeccCCce
Confidence 456676 766655442 344444455 5777776543
No 138
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=56.58 E-value=8.9 Score=30.93 Aligned_cols=25 Identities=20% Similarity=0.469 Sum_probs=15.9
Q ss_pred CcccccccccccCChHHHHHHHHhh
Q psy11589 206 QKSICDVCGKEFRMKRQLKEHMAVH 230 (262)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~~h 230 (262)
..|+|+.|...|-..-+.-.|-..|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 4567777776666666666665554
No 139
>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=56.08 E-value=8.7 Score=20.94 Aligned_cols=11 Identities=27% Similarity=1.099 Sum_probs=5.6
Q ss_pred eecCCCccccc
Q psy11589 67 YKCPDCSVIVV 77 (262)
Q Consensus 67 ~~C~~C~~~f~ 77 (262)
+.|+.||....
T Consensus 20 ~vC~~CG~Vl~ 30 (43)
T PF08271_consen 20 LVCPNCGLVLE 30 (43)
T ss_dssp EEETTT-BBEE
T ss_pred EECCCCCCEee
Confidence 45666665543
No 140
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=56.08 E-value=3.9 Score=25.38 Aligned_cols=15 Identities=40% Similarity=0.840 Sum_probs=7.2
Q ss_pred CcccCc--cccccccCc
Q psy11589 122 REHQCS--VCGKAFADI 136 (262)
Q Consensus 122 ~~~~C~--~C~~~f~~~ 136 (262)
..+.|. .||.+|...
T Consensus 26 ~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 26 RYHQCQNVNCSATFITY 42 (72)
T ss_pred eeeecCCCCCCCEEEEE
Confidence 344554 455555443
No 141
>KOG4167|consensus
Probab=54.67 E-value=2.5 Score=38.04 Aligned_cols=25 Identities=32% Similarity=0.475 Sum_probs=23.2
Q ss_pred CccCCCCCcccCChHHHHHHHHhhc
Q psy11589 235 PFVCNMCPSTFKLKKHLRQHYKVHL 259 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~~L~~H~~~H~ 259 (262)
-|-|..|++.|....++..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3999999999999999999999996
No 142
>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=54.64 E-value=5.2 Score=21.01 Aligned_cols=8 Identities=38% Similarity=1.468 Sum_probs=3.3
Q ss_pred Cccccccc
Q psy11589 126 CSVCGKAF 133 (262)
Q Consensus 126 C~~C~~~f 133 (262)
|+.|+..|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 44444443
No 143
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=54.63 E-value=8.2 Score=22.38 Aligned_cols=26 Identities=50% Similarity=1.211 Sum_probs=14.3
Q ss_pred ccCccccccccCchhHHhHHhhhCCCCccccCcccccc
Q psy11589 124 HQCSVCGKAFADITNMKVHMRIHTGEKKYVCETCGASF 161 (262)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 161 (262)
..|+.|+..|.. ++....|+.|+..+
T Consensus 6 ~~C~~Cg~~~~~------------~dDiVvCp~Cgapy 31 (54)
T PF14446_consen 6 CKCPVCGKKFKD------------GDDIVVCPECGAPY 31 (54)
T ss_pred ccChhhCCcccC------------CCCEEECCCCCCcc
Confidence 356666666643 23345566666544
No 144
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=54.61 E-value=7.8 Score=25.00 Aligned_cols=10 Identities=40% Similarity=1.052 Sum_probs=4.2
Q ss_pred cccCcccccc
Q psy11589 152 YVCETCGASF 161 (262)
Q Consensus 152 ~~C~~C~~~f 161 (262)
-.|..||..|
T Consensus 59 a~CkkCGfef 68 (97)
T COG3357 59 ARCKKCGFEF 68 (97)
T ss_pred hhhcccCccc
Confidence 3344444444
No 145
>KOG2593|consensus
Probab=53.67 E-value=12 Score=31.71 Aligned_cols=35 Identities=26% Similarity=0.591 Sum_probs=18.1
Q ss_pred CcccCCcchhcCCCChHHHHHHHhhcCCCCccccccccc
Q psy11589 177 TQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGK 215 (262)
Q Consensus 177 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 215 (262)
..|.||.|.+.|.....+.. .-.....|.|..|+-
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L----~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQL----LDNETGEFHCENCGG 161 (436)
T ss_pred ccccCCccccchhhhHHHHh----hcccCceEEEecCCC
Confidence 34666666666665554432 222334466666653
No 146
>KOG0696|consensus
Probab=51.93 E-value=8.6 Score=32.78 Aligned_cols=45 Identities=24% Similarity=0.449 Sum_probs=21.5
Q ss_pred HHhhcCCCcccCCcchhcCCCChHHHHHHHhhcCCCCcccccccc
Q psy11589 170 HSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCG 214 (262)
Q Consensus 170 H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~ 214 (262)
|.+-|.-..|.||-=++.+.+...-..|....|+-..|--|+.||
T Consensus 84 HkrChefVtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCG 128 (683)
T KOG0696|consen 84 HKRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCG 128 (683)
T ss_pred hhhhcceEEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHH
Confidence 444443344555555555555444444444344444444455554
No 147
>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=51.58 E-value=8.6 Score=33.28 Aligned_cols=28 Identities=18% Similarity=0.597 Sum_probs=23.3
Q ss_pred cccCCcchhcCCCChHHHHHHHhhcCCC
Q psy11589 178 QFVCSYCGNTYKNPKALTSHIRNSHTIH 205 (262)
Q Consensus 178 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 205 (262)
=+.|+.|.+.|.+...+..|+...|.+.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 4689999999999999999988778653
No 148
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=51.33 E-value=7.9 Score=20.71 Aligned_cols=13 Identities=31% Similarity=0.603 Sum_probs=10.0
Q ss_pred CccCCCCCcccCC
Q psy11589 235 PFVCNMCPSTFKL 247 (262)
Q Consensus 235 ~~~C~~C~~~f~~ 247 (262)
||+|+.|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7888888887754
No 149
>KOG1280|consensus
Probab=50.13 E-value=14 Score=30.40 Aligned_cols=37 Identities=19% Similarity=0.542 Sum_probs=21.0
Q ss_pred eeecCcchhhccChhHHHHHHHHhhcCCCc-ccCcccc
Q psy11589 94 EYCCHICKKVFLRNRNLVCHIKAVHENVRE-HQCSVCG 130 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-~~C~~C~ 130 (262)
.|.|+.|+..-.+...|..|+...|....+ ..|++|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 466666666666666666666666654321 3444443
No 150
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=49.83 E-value=8 Score=27.41 Aligned_cols=15 Identities=20% Similarity=0.319 Sum_probs=10.5
Q ss_pred cceecCCCcccccch
Q psy11589 65 VSYKCPDCSVIVVSY 79 (262)
Q Consensus 65 ~~~~C~~C~~~f~~~ 79 (262)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 447888888777653
No 151
>KOG2272|consensus
Probab=48.84 E-value=17 Score=28.48 Aligned_cols=15 Identities=27% Similarity=0.671 Sum_probs=11.0
Q ss_pred CccCCCCCcccCChH
Q psy11589 235 PFVCNMCPSTFKLKK 249 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~ 249 (262)
-|.|+.|++...++.
T Consensus 280 cf~Cs~Cdkkl~~K~ 294 (332)
T KOG2272|consen 280 CFSCSTCDKKLTQKN 294 (332)
T ss_pred ccccccccccccccc
Confidence 388888888776654
No 152
>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=48.55 E-value=18 Score=21.00 Aligned_cols=10 Identities=20% Similarity=0.713 Sum_probs=4.9
Q ss_pred eecCCCcccc
Q psy11589 67 YKCPDCSVIV 76 (262)
Q Consensus 67 ~~C~~C~~~f 76 (262)
..|+.||..+
T Consensus 23 V~Cp~CGael 32 (54)
T TIGR01206 23 VICDECGAEL 32 (54)
T ss_pred EeCCCCCCEE
Confidence 3455555443
No 153
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=48.32 E-value=20 Score=25.89 Aligned_cols=55 Identities=15% Similarity=0.272 Sum_probs=26.2
Q ss_pred ccCCCceecccCCCCCceeee------hHHHHHHHhhhccCCccCccccccccccccccccccCCCccceecCCCccc
Q psy11589 4 KHENSDFVCNLCPPGSKVVVK------YVHYLERHVRKHHTMFLRLPKVHSHFRKKNAIHVNNINKKVSYKCPDCSVI 75 (262)
Q Consensus 4 ~~~~~~~~C~~C~~~~~~~~~------~~~~l~~H~~~~~~~~~~~~~l~~~~~~~~~~h~~~~~~~~~~~C~~C~~~ 75 (262)
+......+|..|++ -|= ..+++..|+..-. .... ..|....-++..++|..||-.
T Consensus 9 ~~p~~vv~C~~c~k----WFCNg~~~~s~SHIv~HLv~sr-----h~ev--------~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 9 HDPSCVVKCNTCNK----WFCNGRGNTSGSHIVNHLVRSR-----HKEV--------SLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp --CCCEEEETTTTE----EEES--TTSSS-HHHHHHHHHT--------E--------EE-TTSTT-S-B---TTT---
T ss_pred CCcccEeEcCCCCc----EeecCCCCCcccHHHHHHHHcc-----CCce--------eeCCCCCCCCcEEEEEecCCC
Confidence 44556678998888 773 4567888875421 1122 344445556777899999853
No 154
>KOG2593|consensus
Probab=48.16 E-value=16 Score=31.11 Aligned_cols=37 Identities=24% Similarity=0.532 Sum_probs=22.7
Q ss_pred CCeeecCcchhhccChhHHHHHHHHhhcCCCcccCcccccc
Q psy11589 92 EKEYCCHICKKVFLRNRNLVCHIKAVHENVREHQCSVCGKA 132 (262)
Q Consensus 92 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 132 (262)
...|.|+.|.+.|.....+..- -.....|.|..|+-.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHHhh----cccCceEEEecCCCc
Confidence 3457788888777766655322 233445777777643
No 155
>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=48.15 E-value=9.1 Score=25.66 Aligned_cols=29 Identities=21% Similarity=0.674 Sum_probs=16.5
Q ss_pred ccCcccccccCcchHHHHHhhcCCCcccCCcchhcCCCC
Q psy11589 153 VCETCGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNP 191 (262)
Q Consensus 153 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~ 191 (262)
.|+.|+..|... .+..|.||+|+..+...
T Consensus 4 ~CP~C~seytY~----------dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYH----------DGTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEe----------cCCeeECcccccccccc
Confidence 366666655443 23456677777666544
No 156
>KOG4167|consensus
Probab=47.55 E-value=5.3 Score=36.15 Aligned_cols=26 Identities=15% Similarity=0.511 Sum_probs=18.6
Q ss_pred cceecCCCcccccchhHHHhhhhhcC
Q psy11589 65 VSYKCPDCSVIVVSYSGFKSHLDIHN 90 (262)
Q Consensus 65 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 90 (262)
..|.|..|++.|....++..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 34777777777777777777777764
No 157
>KOG1280|consensus
Probab=47.51 E-value=15 Score=30.21 Aligned_cols=24 Identities=21% Similarity=0.378 Sum_probs=13.1
Q ss_pred ccccCcccccccCcchHHHHHhhc
Q psy11589 151 KYVCETCGASFALWGSLNVHSYSH 174 (262)
Q Consensus 151 ~~~C~~C~~~f~~~~~l~~H~~~h 174 (262)
.|.|+.|+..=.+...|..|....
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~ 102 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQ 102 (381)
T ss_pred cccCCcccccccchhHHHHHhhhc
Confidence 455555555555555555555443
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=45.52 E-value=19 Score=35.27 Aligned_cols=8 Identities=38% Similarity=1.298 Sum_probs=4.0
Q ss_pred ccCccccc
Q psy11589 124 HQCSVCGK 131 (262)
Q Consensus 124 ~~C~~C~~ 131 (262)
+.|+.||.
T Consensus 668 rkCPkCG~ 675 (1337)
T PRK14714 668 RRCPSCGT 675 (1337)
T ss_pred EECCCCCC
Confidence 44555554
No 159
>COG4640 Predicted membrane protein [Function unknown]
Probab=45.16 E-value=15 Score=30.90 Aligned_cols=24 Identities=17% Similarity=0.529 Sum_probs=16.2
Q ss_pred cCCCCcccccccccccCChHHHHH
Q psy11589 202 HTIHQKSICDVCGKEFRMKRQLKE 225 (262)
Q Consensus 202 H~~~~~~~C~~C~~~f~~~~~l~~ 225 (262)
+..+..++|+.||..|.+...+..
T Consensus 10 qk~Ed~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 10 QKAEDDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred ccccccccccccCCcCCchhhhhh
Confidence 344555668888888887766554
No 160
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=45.06 E-value=24 Score=19.86 Aligned_cols=11 Identities=18% Similarity=0.573 Sum_probs=6.1
Q ss_pred eecCCCccccc
Q psy11589 67 YKCPDCSVIVV 77 (262)
Q Consensus 67 ~~C~~C~~~f~ 77 (262)
+.|+.||..+.
T Consensus 21 ~vC~~Cg~~~~ 31 (52)
T smart00661 21 FVCRKCGYEEP 31 (52)
T ss_pred EECCcCCCeEE
Confidence 55666665443
No 161
>KOG3408|consensus
Probab=44.85 E-value=15 Score=25.23 Aligned_cols=23 Identities=26% Similarity=0.476 Sum_probs=13.1
Q ss_pred CcccccccccccCChHHHHHHHH
Q psy11589 206 QKSICDVCGKEFRMKRQLKEHMA 228 (262)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~ 228 (262)
..|.|-.|.+.|.+...|..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 34556666666666666655543
No 162
>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=44.58 E-value=17 Score=32.12 Aligned_cols=15 Identities=33% Similarity=0.680 Sum_probs=8.0
Q ss_pred cCCCCcccccccccc
Q psy11589 202 HTIHQKSICDVCGKE 216 (262)
Q Consensus 202 H~~~~~~~C~~C~~~ 216 (262)
|.......|..||..
T Consensus 235 h~~~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 235 HKKEGKLRCHYCGYQ 249 (505)
T ss_pred ecCCCeEEcCCCcCc
Confidence 444445566666643
No 163
>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=44.48 E-value=14 Score=22.48 Aligned_cols=10 Identities=40% Similarity=0.730 Sum_probs=4.7
Q ss_pred cccccccccc
Q psy11589 207 KSICDVCGKE 216 (262)
Q Consensus 207 ~~~C~~C~~~ 216 (262)
.|.|+.||..
T Consensus 46 ~~~C~~Cg~~ 55 (69)
T PF07282_consen 46 VFTCPNCGFE 55 (69)
T ss_pred eEEcCCCCCE
Confidence 3445555444
No 164
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=44.00 E-value=21 Score=20.28 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=4.8
Q ss_pred eecCCCcccc
Q psy11589 67 YKCPDCSVIV 76 (262)
Q Consensus 67 ~~C~~C~~~f 76 (262)
+.|..||..|
T Consensus 5 l~C~dCg~~F 14 (49)
T PF13451_consen 5 LTCKDCGAEF 14 (49)
T ss_pred EEcccCCCeE
Confidence 4455555444
No 165
>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=43.89 E-value=7.9 Score=22.18 Aligned_cols=20 Identities=30% Similarity=0.665 Sum_probs=6.5
Q ss_pred eeecCcchhhccChhHHHHH
Q psy11589 94 EYCCHICKKVFLRNRNLVCH 113 (262)
Q Consensus 94 ~~~C~~C~~~f~~~~~l~~H 113 (262)
.|.|+.|...|-..=++-.|
T Consensus 21 ~y~C~~C~~~FC~dCD~fiH 40 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIH 40 (51)
T ss_dssp EE--TTTT--B-HHHHHTTT
T ss_pred eEECCCCCCccccCcChhhh
Confidence 34444444444444444333
No 166
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=43.87 E-value=18 Score=20.84 Aligned_cols=14 Identities=29% Similarity=0.769 Sum_probs=7.4
Q ss_pred CcccccccccccCC
Q psy11589 206 QKSICDVCGKEFRM 219 (262)
Q Consensus 206 ~~~~C~~C~~~f~~ 219 (262)
+.+.|..||..|-.
T Consensus 17 rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 17 RRHHCRNCGRIFCS 30 (57)
T ss_pred cccccCcCcCCcCh
Confidence 34556666655543
No 167
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=43.70 E-value=11 Score=29.39 Aligned_cols=73 Identities=16% Similarity=0.368 Sum_probs=37.6
Q ss_pred chhHHhHHhhhCCC-----CccccCcccccccCcchHHHHHhhcCC-CcccCCcchhcCCCChHHHHHHHhhcCCCCccc
Q psy11589 136 ITNMKVHMRIHTGE-----KKYVCETCGASFALWGSLNVHSYSHTN-TQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSI 209 (262)
Q Consensus 136 ~~~l~~H~~~h~~~-----~~~~C~~C~~~f~~~~~l~~H~~~h~~-~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~ 209 (262)
..+|+.....+.+. ..|.|..|+... +. +.-.. ..-+|..|.+.|.-... . .--|...|.
T Consensus 92 e~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~W--wR------rvp~rKeVSRCr~C~~rYDPVP~--d----kmwG~aef~ 157 (278)
T PF15135_consen 92 EENLRMFDDAQENLIPSVDRQFACSSCDHMW--WR------RVPQRKEVSRCRKCRKRYDPVPC--D----KMWGIAEFH 157 (278)
T ss_pred HHHHHHhhhhhhccccccceeeeccccchHH--Hh------ccCcccccccccccccccCCCcc--c----cccceeeee
Confidence 44555554444333 557788886432 10 11111 34567777776543321 0 011334588
Q ss_pred ccccccccCChHH
Q psy11589 210 CDVCGKEFRMKRQ 222 (262)
Q Consensus 210 C~~C~~~f~~~~~ 222 (262)
|+.|+..|.....
T Consensus 158 C~~C~h~F~G~~q 170 (278)
T PF15135_consen 158 CPKCRHNFRGFAQ 170 (278)
T ss_pred cccccccchhhhh
Confidence 8888888886543
No 168
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=43.70 E-value=16 Score=25.60 Aligned_cols=20 Identities=45% Similarity=0.806 Sum_probs=10.2
Q ss_pred cccccccccCChHHHHHHHHhhC
Q psy11589 209 ICDVCGKEFRMKRQLKEHMAVHT 231 (262)
Q Consensus 209 ~C~~C~~~f~~~~~l~~H~~~h~ 231 (262)
.|-++|+.|. .|++|+.+|.
T Consensus 78 icLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred EEeccCcchH---HHHHHHhccc
Confidence 4555555553 3455555543
No 169
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=43.53 E-value=21 Score=20.77 Aligned_cols=15 Identities=27% Similarity=0.463 Sum_probs=8.4
Q ss_pred CCCcccccccccccC
Q psy11589 204 IHQKSICDVCGKEFR 218 (262)
Q Consensus 204 ~~~~~~C~~C~~~f~ 218 (262)
+...|.|+.||..+-
T Consensus 11 ~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 11 AHVNFECPDCGIPTH 25 (55)
T ss_pred cccCCcCCCCCCcCc
Confidence 344566666666543
No 170
>KOG3408|consensus
Probab=43.41 E-value=13 Score=25.42 Aligned_cols=24 Identities=33% Similarity=0.625 Sum_probs=21.8
Q ss_pred CCccCCCCCcccCChHHHHHHHHh
Q psy11589 234 RPFVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 234 ~~~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
..|-|-.|.+-|.+...|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 449999999999999999999876
No 171
>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=43.36 E-value=18 Score=31.36 Aligned_cols=26 Identities=23% Similarity=0.551 Sum_probs=16.2
Q ss_pred eecCcchhhccChhHHHHHHHHhhcC
Q psy11589 95 YCCHICKKVFLRNRNLVCHIKAVHEN 120 (262)
Q Consensus 95 ~~C~~C~~~f~~~~~l~~H~~~~h~~ 120 (262)
+.|+.|++.|.+...+..|+...|.+
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhh
Confidence 55666666666666666666655543
No 172
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=42.85 E-value=11 Score=25.81 Aligned_cols=10 Identities=20% Similarity=0.401 Sum_probs=4.7
Q ss_pred ccCCcchhcC
Q psy11589 179 FVCSYCGNTY 188 (262)
Q Consensus 179 ~~C~~C~~~f 188 (262)
..|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 4455555443
No 173
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=42.55 E-value=8.2 Score=35.79 Aligned_cols=10 Identities=40% Similarity=0.959 Sum_probs=0.0
Q ss_pred cccccccccc
Q psy11589 208 SICDVCGKEF 217 (262)
Q Consensus 208 ~~C~~C~~~f 217 (262)
|.|+.|+...
T Consensus 681 ~~Cp~C~~~~ 690 (900)
T PF03833_consen 681 YVCPDCGIEV 690 (900)
T ss_dssp ----------
T ss_pred eecccccccc
Confidence 5566665443
No 174
>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=41.92 E-value=10 Score=26.02 Aligned_cols=11 Identities=18% Similarity=0.543 Sum_probs=5.1
Q ss_pred ccCCcchhcCC
Q psy11589 179 FVCSYCGNTYK 189 (262)
Q Consensus 179 ~~C~~C~~~f~ 189 (262)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 34555554433
No 175
>PRK10220 hypothetical protein; Provisional
Probab=41.76 E-value=15 Score=24.68 Aligned_cols=15 Identities=13% Similarity=0.795 Sum_probs=8.5
Q ss_pred CcccCCcchhcCCCC
Q psy11589 177 TQFVCSYCGNTYKNP 191 (262)
Q Consensus 177 ~~~~C~~C~~~f~~~ 191 (262)
..|.|+.|+..+...
T Consensus 19 ~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 19 GMYICPECAHEWNDA 33 (111)
T ss_pred CeEECCcccCcCCcc
Confidence 346666666655544
No 176
>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=41.28 E-value=3.8 Score=25.37 Aligned_cols=9 Identities=22% Similarity=0.892 Sum_probs=2.9
Q ss_pred cccCccccc
Q psy11589 152 YVCETCGAS 160 (262)
Q Consensus 152 ~~C~~C~~~ 160 (262)
..|..|+..
T Consensus 42 v~Cg~C~~~ 50 (71)
T PF05495_consen 42 VICGKCRTE 50 (71)
T ss_dssp EEETTT--E
T ss_pred eECCCCCCc
Confidence 344444433
No 177
>KOG4377|consensus
Probab=41.06 E-value=13 Score=31.39 Aligned_cols=19 Identities=21% Similarity=0.363 Sum_probs=13.9
Q ss_pred cccccCChHHHHHHHHhhC
Q psy11589 213 CGKEFRMKRQLKEHMAVHT 231 (262)
Q Consensus 213 C~~~f~~~~~l~~H~~~h~ 231 (262)
|+..+.+.+.+..|.+.|.
T Consensus 409 c~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 409 CEATLYSVSQMASHKRKHE 427 (480)
T ss_pred CceEEEehhhhhhhhhhhh
Confidence 7777777777777776663
No 178
>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=40.25 E-value=6.7 Score=25.45 Aligned_cols=10 Identities=30% Similarity=1.182 Sum_probs=4.1
Q ss_pred ccCCcchhcC
Q psy11589 179 FVCSYCGNTY 188 (262)
Q Consensus 179 ~~C~~C~~~f 188 (262)
|.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (90)
T PF01780_consen 54 WKCKKCGKKF 63 (90)
T ss_dssp EEETTTTEEE
T ss_pred eecCCCCCEE
Confidence 4444444433
No 179
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=40.20 E-value=18 Score=23.09 Aligned_cols=13 Identities=23% Similarity=0.728 Sum_probs=5.9
Q ss_pred eeecCcchhhccC
Q psy11589 94 EYCCHICKKVFLR 106 (262)
Q Consensus 94 ~~~C~~C~~~f~~ 106 (262)
...|..|+..|..
T Consensus 46 ~~~C~~Cg~~~~~ 58 (81)
T PF05129_consen 46 ILSCRVCGESFQT 58 (81)
T ss_dssp EEEESSS--EEEE
T ss_pred EEEecCCCCeEEE
Confidence 3556666655543
No 180
>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=39.96 E-value=12 Score=18.38 Aligned_cols=18 Identities=39% Similarity=0.759 Sum_probs=8.9
Q ss_pred eecCCCcccccchhHHHhh
Q psy11589 67 YKCPDCSVIVVSYSGFKSH 85 (262)
Q Consensus 67 ~~C~~C~~~f~~~~~l~~H 85 (262)
|.|-.|++.| +......|
T Consensus 1 ~sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EEETTTTEEE-EGGGTTT-
T ss_pred CeeecCCCCc-CcCCcCCC
Confidence 3566666666 33333444
No 181
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=39.56 E-value=23 Score=25.43 Aligned_cols=11 Identities=36% Similarity=1.099 Sum_probs=9.6
Q ss_pred ceecCCCcccc
Q psy11589 66 SYKCPDCSVIV 76 (262)
Q Consensus 66 ~~~C~~C~~~f 76 (262)
-+.|+.|++.|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 57899999987
No 182
>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=39.34 E-value=13 Score=22.49 Aligned_cols=9 Identities=33% Similarity=1.158 Sum_probs=2.4
Q ss_pred cCCcchhcC
Q psy11589 180 VCSYCGNTY 188 (262)
Q Consensus 180 ~C~~C~~~f 188 (262)
.|..|++.|
T Consensus 11 ~C~~C~~~F 19 (69)
T PF01363_consen 11 NCMICGKKF 19 (69)
T ss_dssp B-TTT--B-
T ss_pred cCcCcCCcC
Confidence 344455544
No 183
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=39.30 E-value=20 Score=20.70 Aligned_cols=11 Identities=36% Similarity=0.978 Sum_probs=5.0
Q ss_pred ccccccccccC
Q psy11589 208 SICDVCGKEFR 218 (262)
Q Consensus 208 ~~C~~C~~~f~ 218 (262)
++|+.||..+.
T Consensus 29 W~C~~Cgh~w~ 39 (55)
T PF14311_consen 29 WKCPKCGHEWK 39 (55)
T ss_pred EECCCCCCeeE
Confidence 44444444443
No 184
>KOG4124|consensus
Probab=38.95 E-value=5.1 Score=32.81 Aligned_cols=26 Identities=31% Similarity=0.699 Sum_probs=19.4
Q ss_pred CcccCCc--chhcCCCChHHHHHHHhhc
Q psy11589 177 TQFVCSY--CGNTYKNPKALTSHIRNSH 202 (262)
Q Consensus 177 ~~~~C~~--C~~~f~~~~~l~~H~~~~H 202 (262)
++|.|++ |.+.+....+|..|....|
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h 375 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGH 375 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCc
Confidence 5677865 9999988888888865434
No 185
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.82 E-value=7.7 Score=29.88 Aligned_cols=9 Identities=33% Similarity=0.792 Sum_probs=6.7
Q ss_pred ccCCcchhc
Q psy11589 179 FVCSYCGNT 187 (262)
Q Consensus 179 ~~C~~C~~~ 187 (262)
+.||.|.++
T Consensus 63 vvCP~C~yA 71 (267)
T COG1655 63 VVCPICYYA 71 (267)
T ss_pred EEcchhhHH
Confidence 578888864
No 186
>KOG1842|consensus
Probab=38.72 E-value=18 Score=30.92 Aligned_cols=29 Identities=28% Similarity=0.454 Sum_probs=19.7
Q ss_pred CcccCCcchhcCCCChHHHHHHHhhcCCC
Q psy11589 177 TQFVCSYCGNTYKNPKALTSHIRNSHTIH 205 (262)
Q Consensus 177 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 205 (262)
..|.||+|...|.+...|..|....|.++
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 35677777777777777777776556443
No 187
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=37.96 E-value=10 Score=24.63 Aligned_cols=10 Identities=30% Similarity=0.727 Sum_probs=4.2
Q ss_pred ccCCcchhcC
Q psy11589 179 FVCSYCGNTY 188 (262)
Q Consensus 179 ~~C~~C~~~f 188 (262)
|.|..|++.|
T Consensus 55 W~C~~C~~~~ 64 (90)
T PTZ00255 55 WRCKGCKKTV 64 (90)
T ss_pred EEcCCCCCEE
Confidence 4444444433
No 188
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=37.91 E-value=20 Score=19.47 Aligned_cols=16 Identities=38% Similarity=1.043 Sum_probs=11.1
Q ss_pred cccccccccCChHHHH
Q psy11589 209 ICDVCGKEFRMKRQLK 224 (262)
Q Consensus 209 ~C~~C~~~f~~~~~l~ 224 (262)
.|++||+.|+......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 5788888887765543
No 189
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=37.48 E-value=7.9 Score=35.15 Aligned_cols=13 Identities=38% Similarity=1.221 Sum_probs=6.2
Q ss_pred CCcchhcCCCChH
Q psy11589 181 CSYCGNTYKNPKA 193 (262)
Q Consensus 181 C~~C~~~f~~~~~ 193 (262)
|+.|.+.+.+..+
T Consensus 154 C~~C~~EY~dP~n 166 (750)
T COG0068 154 CPFCDKEYKDPLN 166 (750)
T ss_pred CHHHHHHhcCccc
Confidence 5555554444433
No 190
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=37.27 E-value=39 Score=18.07 Aligned_cols=16 Identities=25% Similarity=0.524 Sum_probs=7.9
Q ss_pred eecCCCcccccchhHH
Q psy11589 67 YKCPDCSVIVVSYSGF 82 (262)
Q Consensus 67 ~~C~~C~~~f~~~~~l 82 (262)
..|+.|+-.+-+...|
T Consensus 20 d~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGEL 35 (41)
T ss_pred EECCCCCeEEccHHHH
Confidence 4455555555444444
No 191
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.21 E-value=14 Score=25.47 Aligned_cols=10 Identities=30% Similarity=0.730 Sum_probs=4.5
Q ss_pred cccccccccc
Q psy11589 208 SICDVCGKEF 217 (262)
Q Consensus 208 ~~C~~C~~~f 217 (262)
+.|..||..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 4444444443
No 192
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=37.05 E-value=10 Score=20.72 Aligned_cols=12 Identities=42% Similarity=1.099 Sum_probs=6.5
Q ss_pred CccCCCCCcccC
Q psy11589 235 PFVCNMCPSTFK 246 (262)
Q Consensus 235 ~~~C~~C~~~f~ 246 (262)
|+.|+.|+..|=
T Consensus 13 ~~~C~~C~~~FC 24 (43)
T PF01428_consen 13 PFKCKHCGKSFC 24 (43)
T ss_dssp HEE-TTTS-EE-
T ss_pred CeECCCCCcccC
Confidence 577777777664
No 193
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.38 E-value=31 Score=23.19 Aligned_cols=12 Identities=17% Similarity=0.404 Sum_probs=5.4
Q ss_pred Cccccccccccc
Q psy11589 206 QKSICDVCGKEF 217 (262)
Q Consensus 206 ~~~~C~~C~~~f 217 (262)
.|..|+.||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 344444444444
No 194
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=36.03 E-value=30 Score=18.34 Aligned_cols=21 Identities=19% Similarity=0.450 Sum_probs=8.1
Q ss_pred CccCCCCCcccC-Ch-HHHHHHH
Q psy11589 235 PFVCNMCPSTFK-LK-KHLRQHY 255 (262)
Q Consensus 235 ~~~C~~C~~~f~-~~-~~L~~H~ 255 (262)
.|-|++|+..++ +. +.-+.|.
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT
T ss_pred CeecccccceecCCChHHHHHhh
Confidence 467888887773 32 2335554
No 196
>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=35.61 E-value=1.2e+02 Score=22.11 Aligned_cols=17 Identities=24% Similarity=0.321 Sum_probs=9.0
Q ss_pred ChHHHHHHHhhcCCCCc
Q psy11589 191 PKALTSHIRNSHTIHQK 207 (262)
Q Consensus 191 ~~~l~~H~~~~H~~~~~ 207 (262)
-..|..|.+..|...+|
T Consensus 121 Y~eLrKHar~~HP~~rP 137 (162)
T PF07800_consen 121 YSELRKHARSEHPSARP 137 (162)
T ss_pred HHHHHHHHHhhCCCCCC
Confidence 34555555555555444
No 197
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=35.60 E-value=47 Score=17.92 Aligned_cols=24 Identities=17% Similarity=0.209 Sum_probs=17.0
Q ss_pred ceecccCCCCCceee--ehHHHHHHHhhhc
Q psy11589 9 DFVCNLCPPGSKVVV--KYVHYLERHVRKH 36 (262)
Q Consensus 9 ~~~C~~C~~~~~~~~--~~~~~l~~H~~~~ 36 (262)
.-.|+.||. .| ...+.-..|.+-|
T Consensus 13 ~~~C~~CgM----~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 13 ATTCPTCGM----LYSPGSPEDEKLHKKYH 38 (41)
T ss_pred CcCCCCCCC----EECCCCHHHHHHHHHHH
Confidence 468999999 66 4456667776654
No 198
>KOG1842|consensus
Probab=35.42 E-value=23 Score=30.23 Aligned_cols=26 Identities=27% Similarity=0.673 Sum_probs=19.7
Q ss_pred ceecCCCcccccchhHHHhhhhhcCC
Q psy11589 66 SYKCPDCSVIVVSYSGFKSHLDIHNV 91 (262)
Q Consensus 66 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 91 (262)
.|.|++|...|.+...|..|+...+.
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhcc
Confidence 47788888888888888888776443
No 199
>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=35.34 E-value=10 Score=24.64 Aligned_cols=11 Identities=27% Similarity=1.026 Sum_probs=4.8
Q ss_pred cccCCcchhcC
Q psy11589 178 QFVCSYCGNTY 188 (262)
Q Consensus 178 ~~~C~~C~~~f 188 (262)
.|.|..|++.|
T Consensus 53 IW~C~~C~~~~ 63 (91)
T TIGR00280 53 IWTCRKCGAKF 63 (91)
T ss_pred EEEcCCCCCEE
Confidence 34444444443
No 200
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=34.91 E-value=24 Score=30.14 Aligned_cols=14 Identities=29% Similarity=0.551 Sum_probs=7.9
Q ss_pred cccccccccccCCh
Q psy11589 207 KSICDVCGKEFRMK 220 (262)
Q Consensus 207 ~~~C~~C~~~f~~~ 220 (262)
-|+|+.||..+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 45666666555544
No 201
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=34.40 E-value=12 Score=24.78 Aligned_cols=8 Identities=38% Similarity=1.186 Sum_probs=3.3
Q ss_pred ccCccccc
Q psy11589 124 HQCSVCGK 131 (262)
Q Consensus 124 ~~C~~C~~ 131 (262)
|.|+.|+.
T Consensus 23 FtCp~Cgh 30 (104)
T COG4888 23 FTCPRCGH 30 (104)
T ss_pred EecCccCC
Confidence 44444443
No 202
>PRK14873 primosome assembly protein PriA; Provisional
Probab=33.92 E-value=27 Score=32.10 Aligned_cols=14 Identities=21% Similarity=0.589 Sum_probs=8.3
Q ss_pred cCCCCccccccccc
Q psy11589 202 HTIHQKSICDVCGK 215 (262)
Q Consensus 202 H~~~~~~~C~~C~~ 215 (262)
|.......|..||.
T Consensus 405 h~~~~~l~Ch~CG~ 418 (665)
T PRK14873 405 PSAGGTPRCRWCGR 418 (665)
T ss_pred ecCCCeeECCCCcC
Confidence 44445567777773
No 203
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=33.77 E-value=12 Score=20.15 Aligned_cols=9 Identities=33% Similarity=0.958 Sum_probs=4.2
Q ss_pred eecCcchhh
Q psy11589 95 YCCHICKKV 103 (262)
Q Consensus 95 ~~C~~C~~~ 103 (262)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 445545443
No 204
>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=33.39 E-value=15 Score=25.15 Aligned_cols=12 Identities=42% Similarity=0.952 Sum_probs=5.8
Q ss_pred ccccccccccCC
Q psy11589 208 SICDVCGKEFRM 219 (262)
Q Consensus 208 ~~C~~C~~~f~~ 219 (262)
..|..||..|.-
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 71 ARCRDCGHEFEP 82 (113)
T ss_dssp EEETTTS-EEEC
T ss_pred EECCCCCCEEec
Confidence 455555555543
No 205
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=33.07 E-value=18 Score=21.19 Aligned_cols=9 Identities=33% Similarity=0.534 Sum_probs=4.2
Q ss_pred ecCCCcccc
Q psy11589 68 KCPDCSVIV 76 (262)
Q Consensus 68 ~C~~C~~~f 76 (262)
+|.+|++.+
T Consensus 4 kC~lCdk~~ 12 (56)
T PF09963_consen 4 KCILCDKKE 12 (56)
T ss_pred EEEecCCEE
Confidence 344555443
No 206
>KOG0717|consensus
Probab=32.95 E-value=24 Score=30.44 Aligned_cols=22 Identities=32% Similarity=0.730 Sum_probs=18.5
Q ss_pred ccCCCCCcccCChHHHHHHHHh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
+-|.+|+++|.+...|.+|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7789999999998888888754
No 207
>KOG2907|consensus
Probab=32.50 E-value=32 Score=23.31 Aligned_cols=11 Identities=45% Similarity=0.975 Sum_probs=5.7
Q ss_pred eecCcchhhcc
Q psy11589 95 YCCHICKKVFL 105 (262)
Q Consensus 95 ~~C~~C~~~f~ 105 (262)
|.|+.|++.|.
T Consensus 103 YTC~kC~~k~~ 113 (116)
T KOG2907|consen 103 YTCPKCKYKFT 113 (116)
T ss_pred EEcCccceeee
Confidence 55555555443
No 208
>PRK05580 primosome assembly protein PriA; Validated
Probab=31.91 E-value=35 Score=31.57 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=5.4
Q ss_pred CCccccccccc
Q psy11589 205 HQKSICDVCGK 215 (262)
Q Consensus 205 ~~~~~C~~C~~ 215 (262)
.....|..||.
T Consensus 406 ~~~l~Ch~Cg~ 416 (679)
T PRK05580 406 QRRLRCHHCGY 416 (679)
T ss_pred CCeEECCCCcC
Confidence 34445555553
No 209
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=31.69 E-value=15 Score=33.55 Aligned_cols=13 Identities=31% Similarity=0.721 Sum_probs=6.5
Q ss_pred cCcchhhccChhH
Q psy11589 97 CHICKKVFLRNRN 109 (262)
Q Consensus 97 C~~C~~~f~~~~~ 109 (262)
|+.|.+.+.+..+
T Consensus 154 C~~C~~EY~dP~n 166 (750)
T COG0068 154 CPFCDKEYKDPLN 166 (750)
T ss_pred CHHHHHHhcCccc
Confidence 5555555554444
No 210
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=31.47 E-value=17 Score=20.92 Aligned_cols=12 Identities=17% Similarity=0.670 Sum_probs=6.4
Q ss_pred cCCCCCcccCCh
Q psy11589 237 VCNMCPSTFKLK 248 (262)
Q Consensus 237 ~C~~C~~~f~~~ 248 (262)
.||+|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999988754
No 211
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=31.38 E-value=14 Score=25.26 Aligned_cols=9 Identities=22% Similarity=0.582 Sum_probs=4.4
Q ss_pred ccCCcchhc
Q psy11589 179 FVCSYCGNT 187 (262)
Q Consensus 179 ~~C~~C~~~ 187 (262)
..|..|+..
T Consensus 71 ~~C~~Cg~~ 79 (114)
T PRK03681 71 CWCETCQQY 79 (114)
T ss_pred EEcccCCCe
Confidence 445555543
No 212
>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=31.32 E-value=6.1 Score=21.12 Aligned_cols=8 Identities=38% Similarity=1.090 Sum_probs=3.7
Q ss_pred eecCcchh
Q psy11589 95 YCCHICKK 102 (262)
Q Consensus 95 ~~C~~C~~ 102 (262)
|.|..|+.
T Consensus 29 y~C~~C~~ 36 (39)
T PF01096_consen 29 YVCCNCGH 36 (39)
T ss_dssp EEESSSTE
T ss_pred EEeCCCCC
Confidence 44444443
No 213
>KOG0717|consensus
Probab=31.18 E-value=21 Score=30.68 Aligned_cols=22 Identities=32% Similarity=0.472 Sum_probs=19.7
Q ss_pred cccCcccccccCcchHHHHHhh
Q psy11589 152 YVCETCGASFALWGSLNVHSYS 173 (262)
Q Consensus 152 ~~C~~C~~~f~~~~~l~~H~~~ 173 (262)
+.|.+|+++|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999654
No 214
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.63 E-value=29 Score=20.56 Aligned_cols=41 Identities=12% Similarity=0.351 Sum_probs=22.4
Q ss_pred ccCCcchhc-CCCChHHHHHHHhhcCCCCcccccccccccCCh
Q psy11589 179 FVCSYCGNT-YKNPKALTSHIRNSHTIHQKSICDVCGKEFRMK 220 (262)
Q Consensus 179 ~~C~~C~~~-f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~ 220 (262)
.+|.+|++. +.+...+..-.. ....-+.|.|++|.-....+
T Consensus 3 vkCiiCd~v~~iD~rt~~tKrL-rN~PIrtymC~eC~~Rva~k 44 (68)
T COG4896 3 VKCIICDRVDEIDNRTFKTKRL-RNKPIRTYMCPECEHRVAIK 44 (68)
T ss_pred ceEEEecceeeecchhHHHHHh-hCCCceeEechhhHhhhchh
Confidence 356677653 444444444332 23445567888887655444
No 215
>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=29.44 E-value=22 Score=17.49 Aligned_cols=6 Identities=33% Similarity=0.960 Sum_probs=2.0
Q ss_pred cccccc
Q psy11589 208 SICDVC 213 (262)
Q Consensus 208 ~~C~~C 213 (262)
|.|.+|
T Consensus 16 Y~C~~C 21 (30)
T PF07649_consen 16 YRCSEC 21 (30)
T ss_dssp EE-TTT
T ss_pred EECccC
Confidence 334333
No 216
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=29.20 E-value=14 Score=23.95 Aligned_cols=11 Identities=27% Similarity=0.969 Sum_probs=4.8
Q ss_pred cccCCcchhcC
Q psy11589 178 QFVCSYCGNTY 188 (262)
Q Consensus 178 ~~~C~~C~~~f 188 (262)
.|.|..|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PRK03976 54 IWECRKCGAKF 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 34444444443
No 217
>PRK05978 hypothetical protein; Provisional
Probab=28.61 E-value=20 Score=25.77 Aligned_cols=10 Identities=40% Similarity=1.262 Sum_probs=5.2
Q ss_pred cccccccccC
Q psy11589 209 ICDVCGKEFR 218 (262)
Q Consensus 209 ~C~~C~~~f~ 218 (262)
.|+.||..|.
T Consensus 54 ~C~~CG~~~~ 63 (148)
T PRK05978 54 HCAACGEDFT 63 (148)
T ss_pred CccccCCccc
Confidence 3555555543
No 218
>PRK04351 hypothetical protein; Provisional
Probab=28.18 E-value=24 Score=25.50 Aligned_cols=11 Identities=18% Similarity=0.803 Sum_probs=5.3
Q ss_pred CCccCCCCCcc
Q psy11589 234 RPFVCNMCPST 244 (262)
Q Consensus 234 ~~~~C~~C~~~ 244 (262)
..|.|..|+-.
T Consensus 131 ~~yrCg~C~g~ 141 (149)
T PRK04351 131 KRYRCGKCRGK 141 (149)
T ss_pred CcEEeCCCCcE
Confidence 33555555433
No 219
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=27.85 E-value=15 Score=26.47 Aligned_cols=10 Identities=40% Similarity=1.305 Sum_probs=4.7
Q ss_pred ccCCcchhcC
Q psy11589 179 FVCSYCGNTY 188 (262)
Q Consensus 179 ~~C~~C~~~f 188 (262)
|.|+.|+..+
T Consensus 124 ~~C~~C~~~~ 133 (157)
T PF10263_consen 124 YRCPSCGREY 133 (157)
T ss_pred EEcCCCCCEe
Confidence 4454454443
No 220
>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=27.85 E-value=6.5 Score=31.90 Aligned_cols=55 Identities=24% Similarity=0.704 Sum_probs=19.3
Q ss_pred CCCccccCcccccccCcchHHHHHhhcCCCcccCCcchhcCCCChHHHHHHHhhcCCCCccccccccccc
Q psy11589 148 GEKKYVCETCGASFALWGSLNVHSYSHTNTQFVCSYCGNTYKNPKALTSHIRNSHTIHQKSICDVCGKEF 217 (262)
Q Consensus 148 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f 217 (262)
|.+-..|+.|+-.... ....|+.||..-...-.+.. .. .-.+.+-+.|..|+..+
T Consensus 194 G~R~L~Cs~C~t~W~~-------------~R~~Cp~Cg~~~~~~l~~~~-~e-~~~~~rve~C~~C~~Yl 248 (290)
T PF04216_consen 194 GKRYLHCSLCGTEWRF-------------VRIKCPYCGNTDHEKLEYFT-VE-GEPAYRVEVCESCGSYL 248 (290)
T ss_dssp -EEEEEETTT--EEE---------------TTS-TTT---SS-EEE----------SEEEEEETTTTEEE
T ss_pred ccEEEEcCCCCCeeee-------------cCCCCcCCCCCCCcceeeEe-cC-CCCcEEEEECCcccchH
Confidence 4444566666644422 23467777765433322211 00 12234456666666543
No 221
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=27.63 E-value=29 Score=23.15 Aligned_cols=23 Identities=26% Similarity=0.515 Sum_probs=16.0
Q ss_pred CcccccccccccCChHHHHHHHH
Q psy11589 206 QKSICDVCGKEFRMKRQLKEHMA 228 (262)
Q Consensus 206 ~~~~C~~C~~~f~~~~~l~~H~~ 228 (262)
..+-|-.|.+.|.+...|..|.+
T Consensus 54 GqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhc
Confidence 44667777777777777777754
No 222
>COG1773 Rubredoxin [Energy production and conversion]
Probab=25.90 E-value=39 Score=19.68 Aligned_cols=13 Identities=23% Similarity=0.646 Sum_probs=10.5
Q ss_pred CceecccCCCCCceeee
Q psy11589 8 SDFVCNLCPPGSKVVVK 24 (262)
Q Consensus 8 ~~~~C~~C~~~~~~~~~ 24 (262)
+.|+|..||. +|.
T Consensus 2 ~~~~C~~CG~----vYd 14 (55)
T COG1773 2 KRWRCSVCGY----VYD 14 (55)
T ss_pred CceEecCCce----Eec
Confidence 3689999998 775
No 223
>KOG2636|consensus
Probab=25.77 E-value=47 Score=28.55 Aligned_cols=28 Identities=18% Similarity=0.616 Sum_probs=21.2
Q ss_pred hcCCCCcccccccc-cccCChHHHHHHHH
Q psy11589 201 SHTIHQKSICDVCG-KEFRMKRQLKEHMA 228 (262)
Q Consensus 201 ~H~~~~~~~C~~C~-~~f~~~~~l~~H~~ 228 (262)
.|.-...|.|.+|| +++..+..+.+|-.
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHhH
Confidence 56667778888888 77777888888854
No 224
>KOG3507|consensus
Probab=25.43 E-value=53 Score=19.36 Aligned_cols=33 Identities=21% Similarity=0.375 Sum_probs=19.5
Q ss_pred ccceecCCCcccccchhHHHhhhhhcCCCCeeecCcchhhccCh
Q psy11589 64 KVSYKCPDCSVIVVSYSGFKSHLDIHNVEKEYCCHICKKVFLRN 107 (262)
Q Consensus 64 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 107 (262)
...|.|..|+..-.- .....+.|..||...-.+
T Consensus 18 ~miYiCgdC~~en~l-----------k~~D~irCReCG~RIlyK 50 (62)
T KOG3507|consen 18 TMIYICGDCGQENTL-----------KRGDVIRCRECGYRILYK 50 (62)
T ss_pred cEEEEeccccccccc-----------cCCCcEehhhcchHHHHH
Confidence 345888888874321 122457888888764443
No 225
>PLN02294 cytochrome c oxidase subunit Vb
Probab=25.32 E-value=35 Score=25.12 Aligned_cols=13 Identities=31% Similarity=0.986 Sum_probs=6.6
Q ss_pred CCccCCCCCcccC
Q psy11589 234 RPFVCNMCPSTFK 246 (262)
Q Consensus 234 ~~~~C~~C~~~f~ 246 (262)
+|++|+.||..|.
T Consensus 140 kp~RCpeCG~~fk 152 (174)
T PLN02294 140 KSFECPVCTQYFE 152 (174)
T ss_pred CceeCCCCCCEEE
Confidence 3555555555443
No 226
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=25.31 E-value=58 Score=24.65 Aligned_cols=46 Identities=22% Similarity=0.447 Sum_probs=22.2
Q ss_pred ccccccCcchHHHHHhhcCCCcccCCc----chhcCCCChHHHHHHHhhcCC
Q psy11589 157 CGASFALWGSLNVHSYSHTNTQFVCSY----CGNTYKNPKALTSHIRNSHTI 204 (262)
Q Consensus 157 C~~~f~~~~~l~~H~~~h~~~~~~C~~----C~~~f~~~~~l~~H~~~~H~~ 204 (262)
|...+ .......|.....-+|+.||. |+..- ....|..|....|..
T Consensus 24 C~~~~-~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G-~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 24 CTETF-PYSEKREHEEECPFRPCSCPFPGSGCDWQG-SYKELLDHLRDKHSW 73 (198)
T ss_dssp ---EE--GGGHHHHHHT-TTSEEE-SSSSTT---EE-ECCCHHHHHHHHTTT
T ss_pred Ccccc-cccChhhHhccCCCcCCcCCCCCCCccccC-CHHHHHHHHHHHCCC
Confidence 55553 334566677666667777766 65443 334677777766653
No 227
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=25.19 E-value=35 Score=22.64 Aligned_cols=13 Identities=38% Similarity=0.858 Sum_probs=7.4
Q ss_pred CCccCCCCCcccC
Q psy11589 234 RPFVCNMCPSTFK 246 (262)
Q Consensus 234 ~~~~C~~C~~~f~ 246 (262)
+|++|+.||..|.
T Consensus 78 ~~~rC~eCG~~fk 90 (97)
T cd00924 78 KPKRCPECGHVFK 90 (97)
T ss_pred CceeCCCCCcEEE
Confidence 4566666665553
No 228
>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=25.09 E-value=68 Score=16.46 Aligned_cols=21 Identities=14% Similarity=0.355 Sum_probs=10.6
Q ss_pred ccCCCCCcccCChHHHHHHHHh
Q psy11589 236 FVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 236 ~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
+.|+.|++.. ..+-+..|+..
T Consensus 5 ~~C~nC~R~v-~a~RfA~HLek 25 (33)
T PF08209_consen 5 VECPNCGRPV-AASRFAPHLEK 25 (33)
T ss_dssp EE-TTTSSEE-EGGGHHHHHHH
T ss_pred EECCCCcCCc-chhhhHHHHHH
Confidence 4566666653 34445555543
No 229
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=24.53 E-value=1e+02 Score=23.00 Aligned_cols=13 Identities=15% Similarity=0.588 Sum_probs=6.0
Q ss_pred CcccccccccccC
Q psy11589 206 QKSICDVCGKEFR 218 (262)
Q Consensus 206 ~~~~C~~C~~~f~ 218 (262)
.-|.|+.|...|+
T Consensus 112 ~~y~C~~~~~r~s 124 (176)
T COG1675 112 NYYVCPNCHVKYS 124 (176)
T ss_pred CceeCCCCCCccc
Confidence 3355555444444
No 230
>PTZ00448 hypothetical protein; Provisional
Probab=24.27 E-value=57 Score=27.36 Aligned_cols=23 Identities=22% Similarity=0.590 Sum_probs=17.7
Q ss_pred CccCCCCCcccCChHHHHHHHHh
Q psy11589 235 PFVCNMCPSTFKLKKHLRQHYKV 257 (262)
Q Consensus 235 ~~~C~~C~~~f~~~~~L~~H~~~ 257 (262)
.|.|..|+-.|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 57788888888777777777764
No 231
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=23.94 E-value=32 Score=18.08 Aligned_cols=10 Identities=20% Similarity=0.697 Sum_probs=5.0
Q ss_pred CccCCCCCcc
Q psy11589 235 PFVCNMCPST 244 (262)
Q Consensus 235 ~~~C~~C~~~ 244 (262)
-|+|..||..
T Consensus 6 ~YkC~~CGni 15 (36)
T PF06397_consen 6 FYKCEHCGNI 15 (36)
T ss_dssp EEE-TTT--E
T ss_pred EEEccCCCCE
Confidence 4788888754
No 232
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.82 E-value=32 Score=19.26 Aligned_cols=17 Identities=29% Similarity=0.841 Sum_probs=12.0
Q ss_pred cccccccccCChHHHHH
Q psy11589 209 ICDVCGKEFRMKRQLKE 225 (262)
Q Consensus 209 ~C~~C~~~f~~~~~l~~ 225 (262)
.|++|+..|.......+
T Consensus 14 ICpvCqRPFsWRkKW~~ 30 (54)
T COG4338 14 ICPVCQRPFSWRKKWAR 30 (54)
T ss_pred hhhhhcCchHHHHHHHH
Confidence 58888888887665443
No 233
>PF14369 zf-RING_3: zinc-finger
Probab=23.67 E-value=98 Score=16.02 Aligned_cols=8 Identities=38% Similarity=0.945 Sum_probs=3.9
Q ss_pred cCcchhhc
Q psy11589 97 CHICKKVF 104 (262)
Q Consensus 97 C~~C~~~f 104 (262)
|+.|+..|
T Consensus 24 CP~C~~gF 31 (35)
T PF14369_consen 24 CPRCHGGF 31 (35)
T ss_pred CcCCCCcE
Confidence 55554444
No 234
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=23.58 E-value=45 Score=23.70 Aligned_cols=12 Identities=33% Similarity=0.852 Sum_probs=7.1
Q ss_pred cccccccccccC
Q psy11589 207 KSICDVCGKEFR 218 (262)
Q Consensus 207 ~~~C~~C~~~f~ 218 (262)
.|.|..||..-.
T Consensus 81 ~~~CE~CG~~I~ 92 (137)
T TIGR03826 81 GYPCERCGTSIR 92 (137)
T ss_pred cCcccccCCcCC
Confidence 366777766443
No 235
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.39 E-value=31 Score=28.29 Aligned_cols=13 Identities=23% Similarity=0.649 Sum_probs=7.0
Q ss_pred CCCCccccCcccc
Q psy11589 147 TGEKKYVCETCGA 159 (262)
Q Consensus 147 ~~~~~~~C~~C~~ 159 (262)
.|.+-..|..|+-
T Consensus 208 ~G~RyL~CslC~t 220 (309)
T PRK03564 208 QGLRYLHCNLCES 220 (309)
T ss_pred CCceEEEcCCCCC
Confidence 3444555666664
No 236
>KOG2636|consensus
Probab=23.36 E-value=60 Score=27.93 Aligned_cols=28 Identities=25% Similarity=0.666 Sum_probs=23.4
Q ss_pred HhhCCCCCccCCCCC-cccCChHHHHHHH
Q psy11589 228 AVHTTDRPFVCNMCP-STFKLKKHLRQHY 255 (262)
Q Consensus 228 ~~h~~~~~~~C~~C~-~~f~~~~~L~~H~ 255 (262)
+.|.=...|.|.+|| +++.-...+.+|.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHh
Confidence 455556779999999 8999999999996
No 237
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=23.35 E-value=52 Score=16.98 Aligned_cols=9 Identities=44% Similarity=1.224 Sum_probs=5.3
Q ss_pred eecCCCccc
Q psy11589 67 YKCPDCSVI 75 (262)
Q Consensus 67 ~~C~~C~~~ 75 (262)
+.|+.|+.+
T Consensus 23 ~vC~~Cg~I 31 (34)
T PF14803_consen 23 LVCPACGFI 31 (34)
T ss_dssp EEETTTTEE
T ss_pred eECCCCCCE
Confidence 556666654
No 238
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=23.30 E-value=22 Score=23.70 Aligned_cols=11 Identities=27% Similarity=0.561 Sum_probs=5.6
Q ss_pred ccccccccccC
Q psy11589 208 SICDVCGKEFR 218 (262)
Q Consensus 208 ~~C~~C~~~f~ 218 (262)
..|+.||..+.
T Consensus 43 ~~C~~CG~y~~ 53 (99)
T PRK14892 43 ITCGNCGLYTE 53 (99)
T ss_pred EECCCCCCccC
Confidence 34555555444
No 239
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=23.27 E-value=30 Score=19.59 Aligned_cols=9 Identities=33% Similarity=0.914 Sum_probs=4.6
Q ss_pred ccCCCCCcc
Q psy11589 236 FVCNMCPST 244 (262)
Q Consensus 236 ~~C~~C~~~ 244 (262)
+.|..||++
T Consensus 38 ~~CGkCgyT 46 (51)
T COG1998 38 WACGKCGYT 46 (51)
T ss_pred eEeccccce
Confidence 455555543
No 240
>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=22.57 E-value=14 Score=19.39 Aligned_cols=11 Identities=36% Similarity=0.748 Sum_probs=5.5
Q ss_pred CCCCccccccc
Q psy11589 203 TIHQKSICDVC 213 (262)
Q Consensus 203 ~~~~~~~C~~C 213 (262)
.+...|.|..|
T Consensus 25 ~G~qryrC~~C 35 (36)
T PF03811_consen 25 SGHQRYRCKDC 35 (36)
T ss_pred CCCEeEecCcC
Confidence 34444555555
No 241
>PTZ00448 hypothetical protein; Provisional
Probab=21.14 E-value=71 Score=26.84 Aligned_cols=23 Identities=17% Similarity=0.427 Sum_probs=20.3
Q ss_pred cccccccccccCChHHHHHHHHh
Q psy11589 207 KSICDVCGKEFRMKRQLKEHMAV 229 (262)
Q Consensus 207 ~~~C~~C~~~f~~~~~l~~H~~~ 229 (262)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 58899999999988999999875
No 242
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.00 E-value=34 Score=23.84 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=4.9
Q ss_pred ccCCcchhcCC
Q psy11589 179 FVCSYCGNTYK 189 (262)
Q Consensus 179 ~~C~~C~~~f~ 189 (262)
+.| .|+..|.
T Consensus 71 ~~C-~Cg~~~~ 80 (124)
T PRK00762 71 IEC-ECGYEGV 80 (124)
T ss_pred EEe-eCcCccc
Confidence 445 5554443
No 243
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.00 E-value=25 Score=25.39 Aligned_cols=18 Identities=22% Similarity=0.582 Sum_probs=11.4
Q ss_pred CCccccCcccccccCcch
Q psy11589 149 EKKYVCETCGASFALWGS 166 (262)
Q Consensus 149 ~~~~~C~~C~~~f~~~~~ 166 (262)
+.|..|..||+.|++...
T Consensus 66 ~~PsYC~~CGkpyPWt~~ 83 (158)
T PF10083_consen 66 EAPSYCHNCGKPYPWTEN 83 (158)
T ss_pred CCChhHHhCCCCCchHHH
Confidence 456667777777766533
No 244
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=20.51 E-value=80 Score=18.22 Aligned_cols=31 Identities=19% Similarity=0.430 Sum_probs=15.7
Q ss_pred cccccccccCChHHHHHHHHhhCCCCCccCCCCCc
Q psy11589 209 ICDVCGKEFRMKRQLKEHMAVHTTDRPFVCNMCPS 243 (262)
Q Consensus 209 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 243 (262)
.|.-|+...+..... .+..++....|+.||+
T Consensus 24 ~C~gC~~~l~~~~~~----~i~~~~~i~~Cp~CgR 54 (56)
T PF02591_consen 24 TCSGCHMELPPQELN----EIRKGDEIVFCPNCGR 54 (56)
T ss_pred ccCCCCEEcCHHHHH----HHHcCCCeEECcCCCc
Confidence 566666555433221 1223355566777764
No 245
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.46 E-value=38 Score=24.25 Aligned_cols=11 Identities=36% Similarity=1.159 Sum_probs=5.2
Q ss_pred cccCCcchhcC
Q psy11589 178 QFVCSYCGNTY 188 (262)
Q Consensus 178 ~~~C~~C~~~f 188 (262)
.|.|..|+..+
T Consensus 112 ~y~C~~C~~~~ 122 (146)
T smart00731 112 PYRCTGCGQRY 122 (146)
T ss_pred EEECCCCCCCC
Confidence 34555455443
No 246
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=20.14 E-value=45 Score=22.17 Aligned_cols=13 Identities=31% Similarity=0.631 Sum_probs=8.3
Q ss_pred cccccccccccCC
Q psy11589 207 KSICDVCGKEFRM 219 (262)
Q Consensus 207 ~~~C~~C~~~f~~ 219 (262)
.+.|+.|+..+..
T Consensus 16 ~~~C~~C~~~~~~ 28 (104)
T TIGR01384 16 VYVCPSCGYEKEK 28 (104)
T ss_pred eEECcCCCCcccc
Confidence 4677777766543
Done!