Query psy12834
Match_columns 275
No_of_seqs 171 out of 1602
Neff 10.8
Searched_HMMs 46136
Date Fri Aug 16 20:59:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12834.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12834hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3608|consensus 99.9 8.5E-28 1.9E-32 186.7 10.4 227 7-256 128-377 (467)
2 KOG1074|consensus 99.9 2.7E-28 5.9E-33 208.2 5.6 165 71-256 606-932 (958)
3 KOG2462|consensus 99.9 4.7E-26 1E-30 172.5 6.7 137 96-255 128-267 (279)
4 KOG3608|consensus 99.9 5.4E-25 1.2E-29 171.2 11.8 220 13-255 69-345 (467)
5 KOG2462|consensus 99.9 4.5E-26 9.7E-31 172.6 5.5 136 10-166 127-264 (279)
6 KOG3623|consensus 99.9 2.9E-25 6.4E-30 187.1 6.4 80 172-252 892-971 (1007)
7 KOG1074|consensus 99.9 6.8E-25 1.5E-29 187.6 4.0 188 43-232 606-936 (958)
8 KOG3623|consensus 99.8 4.2E-20 9.1E-25 156.3 5.3 68 156-225 905-972 (1007)
9 KOG3576|consensus 99.6 1.3E-16 2.8E-21 115.5 3.2 117 9-126 113-240 (267)
10 KOG3576|consensus 99.6 2.9E-16 6.2E-21 113.7 3.3 114 97-230 116-239 (267)
11 PLN03086 PRLI-interacting fact 99.3 1.2E-11 2.5E-16 105.9 7.9 158 12-199 406-565 (567)
12 PLN03086 PRLI-interacting fact 99.3 1.1E-11 2.4E-16 106.1 7.2 143 71-253 408-562 (567)
13 PHA00733 hypothetical protein 99.2 9E-12 1.9E-16 87.3 3.0 95 159-256 26-124 (128)
14 PHA00733 hypothetical protein 99.0 2.1E-10 4.6E-15 80.4 4.2 82 40-123 38-124 (128)
15 PHA02768 hypothetical protein; 99.0 1.8E-10 4E-15 66.3 1.4 42 204-247 6-47 (55)
16 KOG3993|consensus 98.9 1.7E-10 3.6E-15 93.1 0.3 185 70-269 267-496 (500)
17 KOG3993|consensus 98.8 7.2E-10 1.6E-14 89.5 0.8 110 12-122 266-380 (500)
18 PHA02768 hypothetical protein; 98.8 4.2E-09 9.2E-14 60.7 1.9 44 174-220 5-48 (55)
19 PHA00616 hypothetical protein 98.7 5.3E-09 1.1E-13 57.3 1.5 34 203-236 1-34 (44)
20 PF13465 zf-H2C2_2: Zinc-finge 98.7 5.9E-09 1.3E-13 51.3 1.4 25 218-242 1-25 (26)
21 PF05605 zf-Di19: Drought indu 98.5 1.9E-07 4.1E-12 55.1 4.6 51 174-227 2-53 (54)
22 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.3E-07 2.8E-12 46.5 1.8 26 189-215 1-26 (26)
23 PHA00732 hypothetical protein 98.4 1.8E-07 3.9E-12 59.4 2.8 48 174-227 1-48 (79)
24 PHA00616 hypothetical protein 98.4 2.2E-07 4.7E-12 51.0 2.0 35 174-209 1-35 (44)
25 PHA00732 hypothetical protein 98.4 2.6E-07 5.6E-12 58.7 2.4 48 203-256 1-49 (79)
26 PF05605 zf-Di19: Drought indu 98.4 1E-06 2.3E-11 51.9 4.8 51 13-66 2-53 (54)
27 PF12756 zf-C2H2_2: C2H2 type 98.1 9.3E-07 2E-11 59.8 0.8 73 176-254 1-73 (100)
28 PF00096 zf-C2H2: Zinc finger, 98.0 4.7E-06 1E-10 39.7 1.6 22 204-225 1-22 (23)
29 PF00096 zf-C2H2: Zinc finger, 97.9 9.5E-06 2.1E-10 38.6 2.3 22 14-35 1-22 (23)
30 PF13912 zf-C2H2_6: C2H2-type 97.7 1.4E-05 3.1E-10 39.7 0.8 25 231-255 1-25 (27)
31 PF13894 zf-C2H2_4: C2H2-type 97.7 2.9E-05 6.3E-10 37.2 1.9 21 205-225 2-22 (24)
32 PF13894 zf-C2H2_4: C2H2-type 97.7 4.6E-05 1E-09 36.5 2.4 24 14-37 1-24 (24)
33 PF13912 zf-C2H2_6: C2H2-type 97.7 2.4E-05 5.3E-10 38.8 1.4 25 203-227 1-25 (27)
34 PF12756 zf-C2H2_2: C2H2 type 97.5 5.5E-05 1.2E-09 51.0 2.1 22 16-37 2-23 (100)
35 PF09237 GAGA: GAGA factor; I 97.5 6.5E-05 1.4E-09 42.1 1.8 40 192-231 13-52 (54)
36 KOG1146|consensus 97.4 2.1E-05 4.5E-10 73.1 -2.0 201 15-226 438-641 (1406)
37 COG5189 SFP1 Putative transcri 97.3 9.5E-05 2E-09 58.3 1.1 71 172-252 347-419 (423)
38 smart00355 ZnF_C2H2 zinc finge 97.1 0.00048 1E-08 33.4 2.4 22 205-226 2-23 (26)
39 COG5189 SFP1 Putative transcri 97.1 0.00014 3.1E-09 57.4 0.4 70 40-119 347-419 (423)
40 PRK04860 hypothetical protein; 97.0 0.00028 6E-09 51.5 1.4 39 203-245 119-157 (160)
41 PF12874 zf-met: Zinc-finger o 97.0 0.00019 4.2E-09 34.7 0.3 21 232-252 1-21 (25)
42 PF13909 zf-H2C2_5: C2H2-type 97.0 0.0005 1.1E-08 32.9 1.6 23 204-227 1-23 (24)
43 PF09237 GAGA: GAGA factor; I 97.0 0.00054 1.2E-08 38.5 1.9 28 40-67 22-49 (54)
44 KOG2231|consensus 97.0 0.0015 3.3E-08 57.7 5.5 126 101-251 118-263 (669)
45 PF12874 zf-met: Zinc-finger o 96.9 0.00047 1E-08 33.3 1.3 23 204-226 1-23 (25)
46 smart00355 ZnF_C2H2 zinc finge 96.7 0.0016 3.5E-08 31.4 2.1 23 14-36 1-23 (26)
47 PF13909 zf-H2C2_5: C2H2-type 96.6 0.0022 4.7E-08 30.6 2.2 23 14-37 1-23 (24)
48 KOG2785|consensus 96.6 0.013 2.8E-07 48.0 7.6 29 172-200 164-192 (390)
49 KOG2231|consensus 96.6 0.0086 1.9E-07 53.2 7.1 23 100-122 184-206 (669)
50 KOG2482|consensus 96.5 0.017 3.6E-07 46.6 8.0 86 29-120 131-217 (423)
51 KOG2785|consensus 96.5 0.004 8.7E-08 50.8 4.3 84 170-253 64-242 (390)
52 KOG1146|consensus 96.3 0.0022 4.8E-08 60.3 2.4 93 160-252 451-610 (1406)
53 PF12171 zf-C2H2_jaz: Zinc-fin 96.3 0.0012 2.6E-08 32.6 0.3 21 232-252 2-22 (27)
54 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0015 3.2E-08 32.2 0.0 22 204-225 2-23 (27)
55 COG5236 Uncharacterized conser 95.9 0.0075 1.6E-07 48.5 3.1 23 100-122 222-244 (493)
56 KOG2482|consensus 95.7 0.018 3.9E-07 46.4 4.3 64 1-65 131-218 (423)
57 PRK04860 hypothetical protein; 95.6 0.0049 1.1E-07 45.0 1.0 40 173-217 118-157 (160)
58 PF13913 zf-C2HC_2: zinc-finge 95.3 0.018 3.9E-07 27.7 2.1 21 14-35 3-23 (25)
59 COG5236 Uncharacterized conser 95.3 0.038 8.2E-07 44.7 5.0 67 176-251 222-301 (493)
60 smart00451 ZnF_U1 U1-like zinc 94.8 0.016 3.4E-07 30.4 1.2 23 231-253 3-25 (35)
61 smart00451 ZnF_U1 U1-like zinc 94.8 0.023 5E-07 29.8 1.9 23 203-225 3-25 (35)
62 PF12013 DUF3505: Protein of u 94.5 0.059 1.3E-06 36.8 3.7 27 173-200 10-36 (109)
63 KOG4173|consensus 94.4 0.027 5.9E-07 42.0 2.0 76 173-252 78-167 (253)
64 PF13913 zf-C2HC_2: zinc-finge 94.2 0.041 8.9E-07 26.4 1.8 18 205-223 4-21 (25)
65 KOG2893|consensus 93.4 0.025 5.5E-07 43.2 0.2 44 14-62 11-54 (341)
66 cd00350 rubredoxin_like Rubred 93.2 0.049 1.1E-06 28.2 1.1 11 175-185 2-12 (33)
67 COG4049 Uncharacterized protei 93.0 0.065 1.4E-06 30.8 1.4 31 169-199 12-42 (65)
68 KOG2893|consensus 92.2 0.033 7.1E-07 42.6 -0.6 45 173-223 10-54 (341)
69 TIGR00622 ssl1 transcription f 92.0 0.32 6.8E-06 33.0 4.0 25 203-227 81-105 (112)
70 COG5048 FOG: Zn-finger [Genera 91.8 0.065 1.4E-06 46.2 0.8 159 69-241 288-456 (467)
71 KOG4173|consensus 91.2 0.13 2.8E-06 38.5 1.7 74 13-90 79-166 (253)
72 COG2888 Predicted Zn-ribbon RN 88.4 0.29 6.2E-06 28.7 1.3 32 174-211 27-58 (61)
73 cd00729 rubredoxin_SM Rubredox 88.2 0.27 5.8E-06 25.6 1.0 24 175-211 3-26 (34)
74 PF12013 DUF3505: Protein of u 88.2 0.83 1.8E-05 31.1 3.7 25 99-123 81-109 (109)
75 PF09986 DUF2225: Uncharacteri 88.1 0.099 2.1E-06 40.5 -1.0 44 173-216 4-61 (214)
76 COG4049 Uncharacterized protei 88.1 0.34 7.3E-06 27.9 1.4 28 228-255 14-41 (65)
77 TIGR02098 MJ0042_CXXC MJ0042 f 87.3 0.34 7.3E-06 25.9 1.1 13 176-188 4-16 (38)
78 COG5048 FOG: Zn-finger [Genera 87.3 0.16 3.4E-06 43.8 -0.3 55 11-66 31-87 (467)
79 PF12907 zf-met2: Zinc-binding 86.6 0.49 1.1E-05 25.6 1.4 32 175-206 2-36 (40)
80 PF13719 zinc_ribbon_5: zinc-r 85.5 0.59 1.3E-05 24.8 1.4 32 176-213 4-35 (37)
81 KOG2186|consensus 84.1 0.67 1.4E-05 36.1 1.7 46 13-62 3-48 (276)
82 PF09538 FYDLN_acid: Protein o 84.1 0.65 1.4E-05 31.5 1.5 30 43-83 10-39 (108)
83 PF13717 zinc_ribbon_4: zinc-r 84.0 0.76 1.7E-05 24.2 1.4 32 176-213 4-35 (36)
84 PF10571 UPF0547: Uncharacteri 83.7 0.81 1.7E-05 22.2 1.3 9 205-213 16-24 (26)
85 KOG2186|consensus 83.6 0.68 1.5E-05 36.0 1.6 50 43-95 4-53 (276)
86 TIGR00622 ssl1 transcription f 83.6 1.4 3.1E-05 29.9 3.0 80 172-255 13-105 (112)
87 PRK00464 nrdR transcriptional 83.0 0.21 4.6E-06 36.3 -1.3 20 232-251 29-48 (154)
88 PF09986 DUF2225: Uncharacteri 82.8 0.19 4.2E-06 38.9 -1.7 23 11-33 3-25 (214)
89 KOG1280|consensus 82.7 0.9 1.9E-05 37.1 2.0 41 170-210 75-116 (381)
90 smart00659 RPOLCX RNA polymera 82.5 0.84 1.8E-05 25.3 1.3 11 204-214 3-13 (44)
91 PRK14890 putative Zn-ribbon RN 82.5 0.78 1.7E-05 27.0 1.2 33 173-211 24-56 (59)
92 smart00734 ZnF_Rad18 Rad18-lik 82.2 1.4 3E-05 21.3 1.8 20 205-225 3-22 (26)
93 PF09538 FYDLN_acid: Protein o 81.8 0.94 2E-05 30.8 1.6 14 173-186 25-38 (108)
94 PHA00626 hypothetical protein 81.5 0.81 1.8E-05 26.5 1.0 10 204-213 24-33 (59)
95 PF06524 NOA36: NOA36 protein; 80.9 0.84 1.8E-05 35.7 1.2 26 95-120 206-231 (314)
96 TIGR00373 conserved hypothetic 80.5 1.1 2.4E-05 32.9 1.7 30 41-79 108-137 (158)
97 COG1592 Rubrerythrin [Energy p 80.0 1 2.2E-05 33.2 1.3 23 174-210 134-156 (166)
98 smart00531 TFIIE Transcription 79.3 1.1 2.3E-05 32.5 1.3 35 42-80 99-133 (147)
99 PRK00398 rpoP DNA-directed RNA 79.1 0.46 9.9E-06 26.7 -0.5 10 204-213 4-13 (46)
100 PF09723 Zn-ribbon_8: Zinc rib 78.8 0.88 1.9E-05 25.0 0.5 11 14-24 6-16 (42)
101 smart00531 TFIIE Transcription 78.7 1 2.2E-05 32.7 1.0 12 174-185 99-110 (147)
102 PRK06266 transcription initiat 78.6 1.3 2.7E-05 33.3 1.5 29 42-79 117-145 (178)
103 KOG2807|consensus 78.3 3.4 7.5E-05 33.6 3.9 26 96-121 343-368 (378)
104 PRK06266 transcription initiat 78.1 0.72 1.6E-05 34.6 0.1 17 174-190 117-133 (178)
105 PF02892 zf-BED: BED zinc fing 77.9 1.1 2.3E-05 24.9 0.8 27 172-198 14-44 (45)
106 PRK09678 DNA-binding transcrip 77.9 0.27 5.9E-06 30.5 -1.8 43 204-248 2-46 (72)
107 TIGR00373 conserved hypothetic 77.6 0.75 1.6E-05 33.7 0.1 18 173-190 108-125 (158)
108 smart00614 ZnF_BED BED zinc fi 76.0 2.2 4.7E-05 24.4 1.7 26 174-199 18-48 (50)
109 PF15269 zf-C2H2_7: Zinc-finge 75.7 2.1 4.5E-05 23.5 1.4 22 204-225 21-42 (54)
110 COG1996 RPC10 DNA-directed RNA 75.3 1.5 3.2E-05 24.9 0.8 10 204-213 7-16 (49)
111 PF09416 UPF1_Zn_bind: RNA hel 75.2 3.2 6.9E-05 30.0 2.7 44 197-240 8-69 (152)
112 TIGR02300 FYDLN_acid conserved 74.2 2.2 4.8E-05 29.6 1.6 31 42-83 9-39 (129)
113 COG1592 Rubrerythrin [Energy p 74.1 1.8 4E-05 31.8 1.3 23 70-105 134-156 (166)
114 PF02176 zf-TRAF: TRAF-type zi 72.9 1.7 3.7E-05 25.8 0.8 39 203-241 9-52 (60)
115 PF08274 PhnA_Zn_Ribbon: PhnA 72.4 1.2 2.7E-05 22.4 0.1 10 230-239 18-27 (30)
116 TIGR02605 CxxC_CxxC_SSSS putat 70.8 0.91 2E-05 26.1 -0.7 12 175-186 6-17 (52)
117 smart00834 CxxC_CXXC_SSSS Puta 70.6 0.84 1.8E-05 24.7 -0.9 29 175-211 6-34 (41)
118 TIGR02300 FYDLN_acid conserved 70.2 3.2 6.9E-05 28.8 1.7 14 173-186 25-38 (129)
119 PF03604 DNA_RNApol_7kD: DNA d 68.8 3.6 7.9E-05 21.0 1.3 12 172-183 15-26 (32)
120 COG5151 SSL1 RNA polymerase II 68.3 7 0.00015 31.6 3.4 94 11-121 306-411 (421)
121 PF13451 zf-trcl: Probable zin 67.3 4.4 9.5E-05 23.1 1.6 38 11-48 2-39 (49)
122 KOG2907|consensus 66.8 2.9 6.3E-05 28.2 0.9 39 175-215 75-114 (116)
123 PF14353 CpXC: CpXC protein 66.0 1.9 4.1E-05 30.4 -0.1 20 203-222 38-57 (128)
124 PF07754 DUF1610: Domain of un 65.6 2.8 6.2E-05 19.8 0.5 11 11-21 14-24 (24)
125 PF04959 ARS2: Arsenite-resist 64.0 2.8 6E-05 32.4 0.5 30 171-200 74-103 (214)
126 COG3357 Predicted transcriptio 63.6 4.4 9.6E-05 26.2 1.2 28 173-211 57-84 (97)
127 COG5151 SSL1 RNA polymerase II 63.4 6 0.00013 32.0 2.2 21 173-193 387-407 (421)
128 KOG1280|consensus 62.9 9.3 0.0002 31.5 3.2 40 10-49 76-116 (381)
129 COG1198 PriA Primosomal protei 57.8 7 0.00015 36.3 2.0 13 200-212 472-484 (730)
130 PF05191 ADK_lid: Adenylate ki 57.6 1.2 2.5E-05 23.5 -1.8 9 233-241 23-31 (36)
131 COG0068 HypF Hydrogenase matur 57.6 2 4.4E-05 38.9 -1.4 57 177-241 126-183 (750)
132 KOG3408|consensus 56.4 7.4 0.00016 26.7 1.4 28 169-196 52-79 (129)
133 PF13878 zf-C2H2_3: zinc-finge 55.9 12 0.00027 20.3 2.0 11 175-185 14-24 (41)
134 PRK04023 DNA polymerase II lar 55.2 11 0.00023 36.1 2.7 12 11-22 624-635 (1121)
135 COG1198 PriA Primosomal protei 54.4 8.6 0.00019 35.7 2.0 47 177-240 438-484 (730)
136 KOG1842|consensus 53.7 8.7 0.00019 32.8 1.7 30 173-202 14-43 (505)
137 KOG2593|consensus 53.4 7.6 0.00017 33.1 1.4 35 41-78 127-161 (436)
138 PRK04023 DNA polymerase II lar 52.7 14 0.0003 35.3 3.0 10 127-136 664-673 (1121)
139 COG4888 Uncharacterized Zn rib 52.1 2.6 5.6E-05 27.8 -1.2 11 173-183 21-31 (104)
140 PRK00432 30S ribosomal protein 51.0 7.1 0.00015 22.3 0.6 11 202-212 36-46 (50)
141 PF12760 Zn_Tnp_IS1595: Transp 51.0 4.2 9.1E-05 22.7 -0.3 9 175-183 19-27 (46)
142 PF04780 DUF629: Protein of un 50.9 9.8 0.00021 33.1 1.7 29 173-201 56-84 (466)
143 KOG2593|consensus 50.1 11 0.00024 32.2 1.8 40 170-213 124-163 (436)
144 KOG2071|consensus 48.6 21 0.00047 31.8 3.4 90 95-184 415-523 (579)
145 KOG1701|consensus 46.8 1.8 4E-05 36.5 -3.1 40 44-83 276-315 (468)
146 KOG3408|consensus 46.2 14 0.0003 25.4 1.5 26 10-35 54-79 (129)
147 COG1655 Uncharacterized protei 45.9 4.6 0.0001 31.2 -0.9 25 11-35 17-41 (267)
148 TIGR01206 lysW lysine biosynth 45.9 7.9 0.00017 22.6 0.3 30 204-241 3-32 (54)
149 PRK14714 DNA polymerase II lar 45.9 20 0.00042 35.3 2.9 10 127-136 693-702 (1337)
150 PF04959 ARS2: Arsenite-resist 45.1 18 0.00039 28.0 2.2 26 42-67 77-102 (214)
151 PF06220 zf-U1: U1 zinc finger 45.0 14 0.00029 19.8 1.1 10 232-241 4-13 (38)
152 KOG2807|consensus 45.0 31 0.00067 28.4 3.5 25 231-255 345-369 (378)
153 PF03811 Zn_Tnp_IS1: InsA N-te 44.7 4.8 0.0001 21.2 -0.7 11 227-237 25-35 (36)
154 COG3091 SprT Zn-dependent meta 43.4 11 0.00023 27.2 0.6 36 201-241 115-150 (156)
155 PF09845 DUF2072: Zn-ribbon co 43.0 15 0.00033 25.8 1.3 15 174-188 1-15 (131)
156 PF05443 ROS_MUCR: ROS/MUCR tr 42.4 15 0.00031 26.1 1.2 26 171-199 69-94 (132)
157 PF07975 C1_4: TFIIH C1-like d 42.3 17 0.00036 21.0 1.2 22 231-252 21-42 (51)
158 COG1998 RPS31 Ribosomal protei 42.0 11 0.00024 21.3 0.4 8 232-239 38-45 (51)
159 KOG4167|consensus 41.4 8.8 0.00019 35.0 0.0 27 172-198 790-816 (907)
160 COG2331 Uncharacterized protei 40.9 12 0.00025 23.4 0.5 11 13-23 12-22 (82)
161 COG1997 RPL43A Ribosomal prote 40.3 11 0.00025 24.2 0.4 10 71-80 54-63 (89)
162 PF08209 Sgf11: Sgf11 (transcr 40.0 14 0.00031 19.0 0.6 21 231-252 4-24 (33)
163 KOG2272|consensus 39.8 16 0.00035 28.7 1.2 65 70-136 163-231 (332)
164 COG3364 Zn-ribbon containing p 38.5 24 0.00052 23.5 1.6 14 203-216 2-15 (112)
165 COG4640 Predicted membrane pro 38.4 23 0.0005 30.0 1.9 24 198-221 10-33 (465)
166 COG4530 Uncharacterized protei 38.1 20 0.00043 24.2 1.2 14 171-184 23-36 (129)
167 PRK12380 hydrogenase nickel in 38.0 17 0.00036 25.0 1.0 11 13-23 70-80 (113)
168 PF13453 zf-TFIIB: Transcripti 37.9 15 0.00034 19.8 0.6 11 72-82 21-31 (41)
169 PRK03824 hypA hydrogenase nick 37.1 9.5 0.00021 27.2 -0.4 12 71-82 71-82 (135)
170 PF13824 zf-Mss51: Zinc-finger 37.0 31 0.00067 20.2 1.8 14 201-214 12-25 (55)
171 PF14446 Prok-RING_1: Prokaryo 36.8 6.3 0.00014 22.9 -1.1 10 204-213 22-31 (54)
172 PF04606 Ogr_Delta: Ogr/Delta- 36.6 4.8 0.0001 22.7 -1.6 14 230-243 24-39 (47)
173 PF01780 Ribosomal_L37ae: Ribo 36.4 8.8 0.00019 25.0 -0.6 30 42-81 35-64 (90)
174 KOG0782|consensus 36.3 7.7 0.00017 34.3 -1.1 22 3-24 243-264 (1004)
175 PF01363 FYVE: FYVE zinc finge 36.3 17 0.00036 22.2 0.7 11 175-185 10-20 (69)
176 KOG4124|consensus 36.1 7.4 0.00016 32.1 -1.1 24 172-195 347-372 (442)
177 smart00154 ZnF_AN1 AN1-like Zi 35.7 17 0.00038 19.5 0.6 13 231-243 12-24 (39)
178 PF14311 DUF4379: Domain of un 35.6 29 0.00063 20.1 1.6 12 14-25 29-40 (55)
179 TIGR00595 priA primosomal prot 35.5 30 0.00065 30.9 2.4 12 201-212 251-262 (505)
180 PRK10220 hypothetical protein; 35.3 20 0.00043 24.2 0.9 12 42-53 20-31 (111)
181 PF07282 OrfB_Zn_ribbon: Putat 35.1 20 0.00044 21.8 0.9 12 69-80 45-56 (69)
182 PF05290 Baculo_IE-1: Baculovi 34.0 27 0.00058 24.6 1.4 55 40-112 78-135 (140)
183 PRK04351 hypothetical protein; 33.7 18 0.00038 26.3 0.5 12 230-241 131-142 (149)
184 PF04423 Rad50_zn_hook: Rad50 32.6 18 0.00038 21.0 0.3 14 15-28 22-35 (54)
185 KOG2636|consensus 32.5 34 0.00074 29.5 2.1 24 40-63 399-423 (497)
186 PF13821 DUF4187: Domain of un 32.5 49 0.0011 19.4 2.2 16 175-190 28-43 (55)
187 KOG3214|consensus 32.4 14 0.00031 24.4 -0.1 13 204-216 48-60 (109)
188 PF01155 HypA: Hydrogenase exp 32.1 18 0.00039 24.8 0.4 11 14-24 71-81 (113)
189 KOG1842|consensus 32.0 28 0.0006 30.0 1.5 29 12-40 14-42 (505)
190 KOG0717|consensus 31.6 26 0.00057 30.3 1.3 22 204-225 293-314 (508)
191 PF04780 DUF629: Protein of un 31.6 38 0.00082 29.7 2.3 24 14-37 58-81 (466)
192 PF04810 zf-Sec23_Sec24: Sec23 31.5 28 0.00061 18.7 1.0 10 41-50 23-32 (40)
193 KOG4118|consensus 31.4 16 0.00035 22.0 0.0 30 232-261 39-68 (74)
194 KOG4727|consensus 31.2 16 0.00034 26.9 -0.0 20 204-223 76-95 (193)
195 PF10276 zf-CHCC: Zinc-finger 31.1 28 0.00061 18.9 0.9 12 12-23 28-39 (40)
196 PF11931 DUF3449: Domain of un 31.1 16 0.00035 27.8 0.0 21 42-62 101-122 (196)
197 TIGR00595 priA primosomal prot 30.7 39 0.00084 30.2 2.3 29 197-240 234-262 (505)
198 COG1571 Predicted DNA-binding 30.6 30 0.00066 29.7 1.5 32 175-218 351-382 (421)
199 PF15135 UPF0515: Uncharacteri 30.2 44 0.00096 26.3 2.2 19 169-187 150-168 (278)
200 KOG4167|consensus 30.0 19 0.00041 33.1 0.2 29 230-258 791-819 (907)
201 TIGR00244 transcriptional regu 29.8 6.9 0.00015 28.1 -2.0 18 203-220 28-45 (147)
202 PF11672 DUF3268: Protein of u 29.4 22 0.00047 23.9 0.4 9 232-240 32-40 (102)
203 TIGR00100 hypA hydrogenase nic 29.1 22 0.00048 24.5 0.4 12 175-186 71-82 (115)
204 PF14445 Prok-RING_2: Prokaryo 28.8 21 0.00046 20.2 0.2 9 230-238 40-48 (57)
205 PTZ00448 hypothetical protein; 28.0 21 0.00046 30.0 0.2 22 231-252 314-335 (373)
206 PRK14873 primosome assembly pr 27.1 41 0.0009 31.2 1.9 13 198-210 405-417 (665)
207 COG5112 UFD2 U1-like Zn-finger 27.0 34 0.00073 22.9 0.9 26 170-195 51-76 (126)
208 PTZ00255 60S ribosomal protein 26.7 22 0.00049 23.2 0.1 14 173-186 53-66 (90)
209 COG4391 Uncharacterized protei 26.5 39 0.00085 20.2 1.1 15 10-24 45-59 (62)
210 COG0068 HypF Hydrogenase matur 26.4 22 0.00048 32.6 0.0 82 99-214 102-184 (750)
211 PRK12496 hypothetical protein; 26.3 24 0.00052 26.1 0.2 10 204-213 128-137 (164)
212 PF04438 zf-HIT: HIT zinc fing 26.1 61 0.0013 16.2 1.6 16 11-26 11-26 (30)
213 COG5188 PRP9 Splicing factor 3 26.0 34 0.00074 28.4 1.0 26 197-222 368-394 (470)
214 PF10263 SprT-like: SprT-like 26.0 14 0.0003 26.9 -1.1 11 174-184 123-133 (157)
215 smart00064 FYVE Protein presen 25.8 38 0.00083 20.5 1.0 10 176-185 12-21 (68)
216 PTZ00448 hypothetical protein; 25.7 45 0.00098 28.1 1.6 25 174-198 314-338 (373)
217 PF06397 Desulfoferrod_N: Desu 25.5 26 0.00057 18.5 0.2 12 230-241 5-16 (36)
218 TIGR00686 phnA alkylphosphonat 25.5 28 0.00061 23.5 0.4 14 231-244 19-32 (109)
219 PRK03681 hypA hydrogenase nick 25.1 43 0.00094 23.0 1.3 11 126-136 70-80 (114)
220 cd00065 FYVE FYVE domain; Zinc 24.8 46 0.00099 19.2 1.2 10 204-213 19-28 (57)
221 COG1773 Rubredoxin [Energy pro 24.5 37 0.0008 19.9 0.7 12 13-24 3-14 (55)
222 PF01428 zf-AN1: AN1-like Zinc 24.4 29 0.00062 19.0 0.2 15 12-26 12-26 (43)
223 smart00440 ZnF_C2C2 C2C2 Zinc 24.3 8.3 0.00018 20.8 -1.9 9 43-51 29-37 (40)
224 COG1327 Predicted transcriptio 24.2 14 0.0003 26.7 -1.3 17 203-219 28-44 (156)
225 PTZ00043 cytochrome c oxidase 23.7 39 0.00084 26.2 0.9 16 10-25 178-193 (268)
226 PRK00564 hypA hydrogenase nick 23.5 34 0.00074 23.7 0.5 12 175-186 72-83 (117)
227 smart00249 PHD PHD zinc finger 23.3 68 0.0015 17.0 1.7 11 231-241 14-24 (47)
228 cd00730 rubredoxin Rubredoxin; 23.2 35 0.00076 19.5 0.5 13 175-187 2-14 (50)
229 PRK00420 hypothetical protein; 22.7 49 0.0011 22.7 1.1 10 204-213 41-50 (112)
230 PF09963 DUF2197: Uncharacteri 22.6 46 0.00099 19.6 0.8 12 67-78 28-39 (56)
231 COG1675 TFA1 Transcription ini 22.4 63 0.0014 24.2 1.7 14 172-185 111-124 (176)
232 KOG0717|consensus 22.4 57 0.0012 28.4 1.7 22 14-35 293-314 (508)
233 PF08790 zf-LYAR: LYAR-type C2 22.3 25 0.00055 17.3 -0.2 20 232-252 1-20 (28)
234 PF14369 zf-RING_3: zinc-finge 21.8 87 0.0019 16.3 1.7 9 176-184 23-31 (35)
235 COG5188 PRP9 Splicing factor 3 21.7 60 0.0013 27.1 1.6 26 40-65 372-398 (470)
236 TIGR00280 L37a ribosomal prote 21.4 26 0.00057 22.9 -0.3 14 173-186 52-65 (91)
237 PF02591 DUF164: Putative zinc 21.4 66 0.0014 18.7 1.4 11 229-239 44-54 (56)
238 smart00731 SprT SprT homologue 20.8 38 0.00082 24.4 0.3 10 175-184 113-122 (146)
239 KOG3362|consensus 20.8 29 0.00063 24.8 -0.3 20 231-250 129-148 (156)
240 PRK05580 primosome assembly pr 20.6 74 0.0016 29.7 2.2 9 203-211 421-429 (679)
241 TIGR03826 YvyF flagellar opero 20.3 96 0.0021 22.2 2.2 10 127-136 4-13 (137)
242 PF00130 C1_1: Phorbol esters/ 20.3 26 0.00056 19.9 -0.5 30 201-241 9-38 (53)
243 cd00924 Cyt_c_Oxidase_Vb Cytoc 20.2 50 0.0011 22.0 0.7 17 197-214 74-90 (97)
244 COG1326 Uncharacterized archae 20.2 94 0.002 23.6 2.2 11 231-241 30-40 (201)
No 1
>KOG3608|consensus
Probab=99.95 E-value=8.5e-28 Score=186.68 Aligned_cols=227 Identities=27% Similarity=0.482 Sum_probs=199.9
Q ss_pred ccCCCCceec--ccccccccCHHHHHHHHHhhcCC-----------C-CCccccc--chhhcccchHHHHHHhhhcCCCc
Q psy12834 7 SHTGARPYEC--KTCKKTFVSKYTYKAHLVTHTDR-----------K-RPFSCEK--CDKSFYTQQNLVQHEKTHSGSKD 70 (275)
Q Consensus 7 ~~~~~~~~~C--~~C~~~f~~~~~l~~H~~~~~~~-----------~-~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~ 70 (275)
+...+..|.| ..|+..|.+...|..|+..|... + ..+.|.+ |-+.+.+++.|..|.+.|.+++.
T Consensus 128 ip~~g~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKv 207 (467)
T KOG3608|consen 128 IPALGQNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKV 207 (467)
T ss_pred cccchhhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeE
Confidence 3344567787 57999999999999999887542 2 2345655 99999999999999999999999
Q ss_pred cccCcchhhcCChHHHHHHHHh--hcCCCCccCCcccccccChhHHHHHHhhccCCCCccccccccccccccCCCccccc
Q psy12834 71 FVCTECGKAFGTLRNLEVHLAV--HTGNRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSSGTESID 148 (275)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~--~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~ 148 (275)
..|+.|+..|..+..|-.|.+. .....+|.|..|.+.|.+...|..|+..|. ..|.|+.|+-..
T Consensus 208 vACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc------------ 273 (467)
T KOG3608|consen 208 VACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTC------------ 273 (467)
T ss_pred EecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCC------------
Confidence 9999999999999999999653 455779999999999999999999999886 559999999999
Q ss_pred ccccccccccchHHHHHhhcCCCCCCCCCCCChhhccChhhHHHHHHhhcCCCCCccccc--ccccCCChhHHHHHHHhh
Q psy12834 149 KLLLCFLSQRSNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDI--CNATFIYPEHFKKHRRIH 226 (275)
Q Consensus 149 ~~~~~~~~~~~~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~--C~~~f~~~~~l~~H~~~h 226 (275)
+..+.|..|++..|...+||+|..|++.|.+.++|.+|+. .|+ +..|+|.. |..+|.+...|..|++.+
T Consensus 274 -------~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~-~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~ev 344 (467)
T KOG3608|consen 274 -------SSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQ-VHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEV 344 (467)
T ss_pred -------CChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHH-hcc-ccceecCCCCCcHHHHHHHHHHHHHHHh
Confidence 8889999999999999999999999999999999999987 788 66799988 999999999999999876
Q ss_pred c-CCC--ceeCcccchhhhhhhHHHhhhccccc
Q psy12834 227 T-GEK--PYVCEVRLAVFYYVTCLFNMIQPKRF 256 (275)
Q Consensus 227 ~-~~~--~~~C~~C~~~~~~~~~~~~H~~~~~~ 256 (275)
+ |.+ +|.|-.|++.|..=-+|..|+.++|.
T Consensus 345 hEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 345 HEGNNPILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred ccCCCCCceeeecchhhhccchhHHHHHHHhhc
Confidence 5 544 59999999999999999999977654
No 2
>KOG1074|consensus
Probab=99.95 E-value=2.7e-28 Score=208.22 Aligned_cols=165 Identities=28% Similarity=0.602 Sum_probs=126.8
Q ss_pred cccCcchhhcCChHHHHHHHHhhcCCCCccCCcccccccChhHHHHHHhhccCC----CCcccc---ccccccccccCCC
Q psy12834 71 FVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEVKDHERTHTGE----KPYQCE---FCGAQFRFKGSSG 143 (275)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~----~~~~c~---~c~~~~~~~~~~~ 143 (275)
.+|.+|.++...+..|+.|.+.|+|++||+|.+|++.|.++.+|..|+-.|... ..+.|+ +|-+.|..
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn----- 680 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTN----- 680 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccc-----
Confidence 789999999999999999999999999999999999999999999999988654 346788 89888842
Q ss_pred cccccccccccccccchHHHHHhhcCC-CC------------CCCCCCCChhhccChhhHHHHHHhhcCC----------
Q psy12834 144 TESIDKLLLCFLSQRSNLQSHKRATHF-ND------------KRYPCTSCPKAFKRRRLLDYHIKAAHTG---------- 200 (275)
Q Consensus 144 ~~~~~~~~~~~~~~~~~~~~h~~~~h~-~~------------~~~~C~~C~~~f~~~~~l~~H~~~~H~~---------- 200 (275)
.-.+..|++ .|. +. ..-+|..|.+.|.....+..++- .|..
T Consensus 681 --------------~V~lpQhIr-iH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~s-e~~~~~s~~~~~~~ 744 (958)
T KOG1074|consen 681 --------------AVTLPQHIR-IHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQIS-EQPSPESEPDEQMD 744 (958)
T ss_pred --------------cccccceEE-eecCCCCCCCcccccccchhcccchhhhcccccccchhhhh-ccCCcccCCccccc
Confidence 233333333 221 00 11335555555555444444432 2210
Q ss_pred -------------------------------------------------------------C------------------
Q psy12834 201 -------------------------------------------------------------E------------------ 201 (275)
Q Consensus 201 -------------------------------------------------------------~------------------ 201 (275)
+
T Consensus 745 ~~t~t~~~~~tp~~~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~ 824 (958)
T KOG1074|consen 745 ERTETEELDVTPPPPENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVN 824 (958)
T ss_pred ccccccccccCCCccccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccc
Confidence 0
Q ss_pred -----------------------------------------------------CCcccccccccCCChhHHHHHHHhhcC
Q psy12834 202 -----------------------------------------------------RPYQCDICNATFIYPEHFKKHRRIHTG 228 (275)
Q Consensus 202 -----------------------------------------------------~~~~C~~C~~~f~~~~~l~~H~~~h~~ 228 (275)
....|.+|++.|.+.++|..|++.|++
T Consensus 825 ~~pvl~~~~~~~l~eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg 904 (958)
T KOG1074|consen 825 MDPVLWNQETSMLNEGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTG 904 (958)
T ss_pred cCchhhcccccccccccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCC
Confidence 016899999999999999999999999
Q ss_pred CCceeCcccchhhhhhhHHHhhhccccc
Q psy12834 229 EKPYVCEVRLAVFYYVTCLFNMIQPKRF 256 (275)
Q Consensus 229 ~~~~~C~~C~~~~~~~~~~~~H~~~~~~ 256 (275)
++||.|.+|++.|..+.+|+.||..|.-
T Consensus 905 ~KPF~C~fC~~aFttrgnLKvHMgtH~w 932 (958)
T KOG1074|consen 905 PKPFFCHFCEEAFTTRGNLKVHMGTHMW 932 (958)
T ss_pred CCCccchhhhhhhhhhhhhhhhhccccc
Confidence 9999999999999999999999986643
No 3
>KOG2462|consensus
Probab=99.93 E-value=4.7e-26 Score=172.46 Aligned_cols=137 Identities=30% Similarity=0.607 Sum_probs=123.2
Q ss_pred CCCccCCcccccccChhHHHHHHhhccC---CCCccccccccccccccCCCcccccccccccccccchHHHHHhhcCCCC
Q psy12834 96 NRPFICRVCGKSFVRKAEVKDHERTHTG---EKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFND 172 (275)
Q Consensus 96 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~---~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h~~~ 172 (275)
...|+|+.|++.+.+..+|.+|.+.|.. .+.+.|++|++.| .+...|..|++ .|+
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~Y-------------------vSmpALkMHir-TH~-- 185 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVY-------------------VSMPALKMHIR-THT-- 185 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCcee-------------------eehHHHhhHhh-ccC--
Confidence 3458999999999999999999998864 5778999999999 67788999998 464
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhhHHHhhhc
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~~~~H~~ 252 (275)
-+..|.+||+.|.....|.-|+| -|++++||.|+.|+++|.+.++|+-|+++|.+.+.|+|..|++.|...+-|..|..
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiR-THTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIR-THTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred CCcccccccccccchHHhhcccc-cccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 67999999999999999999998 79999999999999999999999999999999999999999999999999999985
Q ss_pred ccc
Q psy12834 253 PKR 255 (275)
Q Consensus 253 ~~~ 255 (275)
.-.
T Consensus 265 S~C 267 (279)
T KOG2462|consen 265 SAC 267 (279)
T ss_pred hcc
Confidence 433
No 4
>KOG3608|consensus
Probab=99.92 E-value=5.4e-25 Score=171.21 Aligned_cols=220 Identities=24% Similarity=0.477 Sum_probs=188.8
Q ss_pred ceec--ccccccccC-HHHHHHHHHhhcC---------------------------------CCCCccccc--chhhccc
Q psy12834 13 PYEC--KTCKKTFVS-KYTYKAHLVTHTD---------------------------------RKRPFSCEK--CDKSFYT 54 (275)
Q Consensus 13 ~~~C--~~C~~~f~~-~~~l~~H~~~~~~---------------------------------~~~~~~C~~--C~~~f~~ 54 (275)
.+.| ..||+...+ ...|..|+-.|-- ....|.|.+ |+..|.+
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s 148 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVS 148 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccC
Confidence 5666 569988877 5788888744310 011266654 9999999
Q ss_pred chHHHHHHhhhcC------------C-CccccCc--chhhcCChHHHHHHHHhhcCCCCccCCcccccccChhHHHHHHh
Q psy12834 55 QQNLVQHEKTHSG------------S-KDFVCTE--CGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEVKDHER 119 (275)
Q Consensus 55 ~~~l~~H~~~~~~------------~-~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 119 (275)
...+..|+..|.- . ..+.|.. |.+.+.++..|++|.+.|.+++...|+.|+..|.++..|..|++
T Consensus 149 ~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~r 228 (467)
T KOG3608|consen 149 IVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLR 228 (467)
T ss_pred HHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHH
Confidence 9999999877631 1 2245654 99999999999999999999999999999999999999999988
Q ss_pred hcc--CCCCccccccccccccccCCCcccccccccccccccchHHHHHhhcCCCCCCCCCCCChhhccChhhHHHHHHhh
Q psy12834 120 THT--GEKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAA 197 (275)
Q Consensus 120 ~~~--~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 197 (275)
..+ ..++|.|..|.+.| .+...|..|+. .|.+ .|+|+.|+.+.+..++|..|++..
T Consensus 229 Rqt~l~~n~fqC~~C~KrF-------------------aTeklL~~Hv~-rHvn--~ykCplCdmtc~~~ssL~~H~r~r 286 (467)
T KOG3608|consen 229 RQTELNTNSFQCAQCFKRF-------------------ATEKLLKSHVV-RHVN--CYKCPLCDMTCSSASSLTTHIRYR 286 (467)
T ss_pred hhhhhcCCchHHHHHHHHH-------------------hHHHHHHHHHH-Hhhh--cccccccccCCCChHHHHHHHHhh
Confidence 654 46799999999999 78888899987 5655 499999999999999999999999
Q ss_pred cCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcc--cchhhhhhhHHHhhhcccc
Q psy12834 198 HTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEV--RLAVFYYVTCLFNMIQPKR 255 (275)
Q Consensus 198 H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~~~~~~~~~~H~~~~~ 255 (275)
|+.++||+|..|++.|.+.+.|..|+..|+ +..|.|.. |.++|.++-+++.|++.++
T Consensus 287 Hs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 287 HSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred hccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999998 77899999 9999999999999998776
No 5
>KOG2462|consensus
Probab=99.92 E-value=4.5e-26 Score=172.59 Aligned_cols=136 Identities=35% Similarity=0.701 Sum_probs=127.5
Q ss_pred CCCceecccccccccCHHHHHHHHHhhcC--CCCCcccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCChHHHH
Q psy12834 10 GARPYECKTCKKTFVSKYTYKAHLVTHTD--RKRPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLE 87 (275)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~--~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~ 87 (275)
....|.|+.||+.|.+...|-+|...|-. ..+.+.|++|++.|.+...|.+|+++|. -+..|.+||+.|...|-|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhh
Confidence 45689999999999999999999998864 3568999999999999999999999985 5789999999999999999
Q ss_pred HHHHhhcCCCCccCCcccccccChhHHHHHHhhccCCCCccccccccccccccCCCcccccccccccccccchHHHHHh
Q psy12834 88 VHLAVHTGNRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKR 166 (275)
Q Consensus 88 ~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~ 166 (275)
-|++.|+|++||.|+.|++.|.++++|+.|+++|.+.+.|.|..|++.| ...+-|+.|..
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsF-------------------sl~SyLnKH~E 264 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSF-------------------ALKSYLNKHSE 264 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHH-------------------HHHHHHHHhhh
Confidence 9999999999999999999999999999999999999999999999999 77788888887
No 6
>KOG3623|consensus
Probab=99.91 E-value=2.9e-25 Score=187.07 Aligned_cols=80 Identities=38% Similarity=0.782 Sum_probs=76.4
Q ss_pred CCCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhhHHHhhh
Q psy12834 172 DKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVTCLFNMI 251 (275)
Q Consensus 172 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~~~~H~ 251 (275)
+..|.|..|+++|...+.|.+|-. .|++++||+|.+|.++|..+-.|..|.|.|.||+||+|+.|++.|....+.-+||
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKY-EHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHM 970 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKY-EHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHM 970 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhh-hhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhh
Confidence 456999999999999999999965 9999999999999999999999999999999999999999999999999999999
Q ss_pred c
Q psy12834 252 Q 252 (275)
Q Consensus 252 ~ 252 (275)
-
T Consensus 971 N 971 (1007)
T KOG3623|consen 971 N 971 (1007)
T ss_pred c
Confidence 4
No 7
>KOG1074|consensus
Probab=99.90 E-value=6.8e-25 Score=187.65 Aligned_cols=188 Identities=29% Similarity=0.534 Sum_probs=138.1
Q ss_pred cccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCChHHHHHHHHhhcCC----CCccCC---cccccccChhHHH
Q psy12834 43 FSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEVHLAVHTGN----RPFICR---VCGKSFVRKAEVK 115 (275)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~----~~~~C~---~C~~~f~~~~~l~ 115 (275)
-+|-+|-++...++.|++|++.|.+++||+|.+|++.|..+.+|+.||..|... ..+.|+ +|-+.|.+.-.|.
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 689999999999999999999999999999999999999999999999888654 568999 9999999999999
Q ss_pred HHHhhccCC-C------------CccccccccccccccCCC----------------cccccccccc-------------
Q psy12834 116 DHERTHTGE-K------------PYQCEFCGAQFRFKGSSG----------------TESIDKLLLC------------- 153 (275)
Q Consensus 116 ~H~~~~~~~-~------------~~~c~~c~~~~~~~~~~~----------------~~~~~~~~~~------------- 153 (275)
.|++.|.+. . .-.|..|.+.|.-..... .+..++....
T Consensus 686 QhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~ 765 (958)
T KOG1074|consen 686 QHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGR 765 (958)
T ss_pred ceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccccc
Confidence 999998732 1 134666666552100000 0000000000
Q ss_pred ----------------------------------------c-ccccc---------------hHHHHHhhcCCC------
Q psy12834 154 ----------------------------------------F-LSQRS---------------NLQSHKRATHFN------ 171 (275)
Q Consensus 154 ----------------------------------------~-~~~~~---------------~~~~h~~~~h~~------ 171 (275)
. ....+ .+..-.. ...+
T Consensus 766 ~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~-~~l~eg~~t~ 844 (958)
T KOG1074|consen 766 ELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQET-SMLNEGLATK 844 (958)
T ss_pred ccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccc-cccccccccc
Confidence 0 00000 0000000 0000
Q ss_pred --------------------------------CCCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHH
Q psy12834 172 --------------------------------DKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHF 219 (275)
Q Consensus 172 --------------------------------~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l 219 (275)
.....|..|++.|...++|..|++ -|++++||.|.+|++.|....+|
T Consensus 845 ~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~r-THtg~KPF~C~fC~~aFttrgnL 923 (958)
T KOG1074|consen 845 TNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMR-THTGPKPFFCHFCEEAFTTRGNL 923 (958)
T ss_pred cccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhh-cCCCCCCccchhhhhhhhhhhhh
Confidence 012669999999999999999999 69999999999999999999999
Q ss_pred HHHHHhhcCCCce
Q psy12834 220 KKHRRIHTGEKPY 232 (275)
Q Consensus 220 ~~H~~~h~~~~~~ 232 (275)
..||..|++.++.
T Consensus 924 KvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 924 KVHMGTHMWVQPP 936 (958)
T ss_pred hhhhccccccCCC
Confidence 9999999988764
No 8
>KOG3623|consensus
Probab=99.80 E-value=4.2e-20 Score=156.31 Aligned_cols=68 Identities=35% Similarity=0.710 Sum_probs=64.3
Q ss_pred cccchHHHHHhhcCCCCCCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHh
Q psy12834 156 SQRSNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 156 ~~~~~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 225 (275)
...+.|.+|.- .|+|++||+|.+|.++|...--|..|.| .|++++||+|..|++.|+..++.-+||+-
T Consensus 905 qKqSSLaRHKY-EHsGqRPyqC~iCkKAFKHKHHLtEHkR-LHSGEKPfQCdKClKRFSHSGSYSQHMNH 972 (1007)
T KOG3623|consen 905 QKQSSLARHKY-EHSGQRPYQCIICKKAFKHKHHLTEHKR-LHSGEKPFQCDKCLKRFSHSGSYSQHMNH 972 (1007)
T ss_pred HhhHHHHHhhh-hhcCCCCcccchhhHhhhhhhhhhhhhh-hccCCCcchhhhhhhhcccccchHhhhcc
Confidence 67789999987 8999999999999999999999999987 99999999999999999999999999864
No 9
>KOG3576|consensus
Probab=99.63 E-value=1.3e-16 Score=115.49 Aligned_cols=117 Identities=29% Similarity=0.571 Sum_probs=104.0
Q ss_pred CCCCceecccccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCChHHHHH
Q psy12834 9 TGARPYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEV 88 (275)
Q Consensus 9 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~ 88 (275)
+++..|.|.+|++.|.....|..|++-|.+ .+.+.|..|++.|.+.-+|.+|++.|.+.+||+|..|++.|..+-+|..
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~-vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsles 191 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSD-VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLES 191 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccH-HHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHH
Confidence 456789999999999999999999998885 6789999999999999999999999999999999999999999999999
Q ss_pred HHHhhcC-----------CCCccCCcccccccChhHHHHHHhhccCCCC
Q psy12834 89 HLAVHTG-----------NRPFICRVCGKSFVRKAEVKDHERTHTGEKP 126 (275)
Q Consensus 89 H~~~~~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 126 (275)
|.+..++ .+.|.|..|++.......+..|+..++..-+
T Consensus 192 hl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 192 HLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 9876665 3669999999999989999999998875543
No 10
>KOG3576|consensus
Probab=99.61 E-value=2.9e-16 Score=113.74 Aligned_cols=114 Identities=35% Similarity=0.667 Sum_probs=70.7
Q ss_pred CCccCCcccccccChhHHHHHHhhccCCCCccccccccccccccCCCcccccccccccccccchHHHHHhhcCCCCCCCC
Q psy12834 97 RPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFNDKRYP 176 (275)
Q Consensus 97 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h~~~~~~~ 176 (275)
..|.|.+|++.|.-..-|.+|++-|...+.+.|..||+.| .+.-.|.+|.+ .|++-+||+
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgf-------------------ndtfdlkrh~r-thtgvrpyk 175 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGF-------------------NDTFDLKRHTR-THTGVRPYK 175 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcc-------------------cchhhhhhhhc-cccCccccc
Confidence 3466666666666666666666666666666666666666 45556666666 566666666
Q ss_pred CCCChhhccChhhHHHHHHhhcCC----------CCCcccccccccCCChhHHHHHHHhhcCCC
Q psy12834 177 CTSCPKAFKRRRLLDYHIKAAHTG----------ERPYQCDICNATFIYPEHFKKHRRIHTGEK 230 (275)
Q Consensus 177 C~~C~~~f~~~~~l~~H~~~~H~~----------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 230 (275)
|..|+++|.....|..|++.+|.. ++.|.|..||.+-.....+..|+..|+...
T Consensus 176 c~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 176 CSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred hhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 666666666666666666666653 234566666666666666666665555443
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.27 E-value=1.2e-11 Score=105.92 Aligned_cols=158 Identities=23% Similarity=0.533 Sum_probs=99.5
Q ss_pred CceecccccccccCHHHHHHHHHhhcCCCCCccccc--chhhcccchHHHHHHhhhcCCCccccCcchhhcCChHHHHHH
Q psy12834 12 RPYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEK--CDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEVH 89 (275)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H 89 (275)
..-.|+.|+..... ..|..|..... ...-.|+. |+..|.. ..+.. .+.|+.|++.|. ...|..|
T Consensus 406 ~~V~C~NC~~~i~l-~~l~lHe~~C~--r~~V~Cp~~~Cg~v~~r-~el~~---------H~~C~~Cgk~f~-~s~LekH 471 (567)
T PLN03086 406 DTVECRNCKHYIPS-RSIALHEAYCS--RHNVVCPHDGCGIVLRV-EEAKN---------HVHCEKCGQAFQ-QGEMEKH 471 (567)
T ss_pred CeEECCCCCCccch-hHHHHHHhhCC--CcceeCCcccccceeec-ccccc---------CccCCCCCCccc-hHHHHHH
Confidence 34568888776554 46667776554 23456774 7777632 22222 257888888875 5678888
Q ss_pred HHhhcCCCCccCCcccccccChhHHHHHHhhccCCCCccccccccccccccCCCcccccccccccccccchHHHHHhhcC
Q psy12834 90 LAVHTGNRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATH 169 (275)
Q Consensus 90 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h 169 (275)
+..++ .++.|+ |+..+ .+..|..|+..+.+.+++.|+.|++.+....+ ..+.. ...+.|..|...
T Consensus 472 ~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~-~~d~~--------d~~s~Lt~HE~~-- 536 (567)
T PLN03086 472 MKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGS-AMDVR--------DRLRGMSEHESI-- 536 (567)
T ss_pred HHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCcc-ccchh--------hhhhhHHHHHHh--
Confidence 88765 678888 88644 56778888888888888888888887731111 00000 123567777762
Q ss_pred CCCCCCCCCCChhhccChhhHHHHHHhhcC
Q psy12834 170 FNDKRYPCTSCPKAFKRRRLLDYHIKAAHT 199 (275)
Q Consensus 170 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 199 (275)
-+.+++.|..||+.+.. .+|..|+..+|.
T Consensus 537 CG~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~ 565 (567)
T PLN03086 537 CGSRTAPCDSCGRSVML-KEMDIHQIAVHQ 565 (567)
T ss_pred cCCcceEccccCCeeee-hhHHHHHHHhhc
Confidence 37777777777766654 456667666654
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.26 E-value=1.1e-11 Score=106.08 Aligned_cols=143 Identities=20% Similarity=0.417 Sum_probs=107.6
Q ss_pred cccCcchhhcCChHHHHHHHHhhcCCCCccCCc--ccccccChhHHHHHHhhccCCCCccccccccccccccCCCccccc
Q psy12834 71 FVCTECGKAFGTLRNLEVHLAVHTGNRPFICRV--CGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSSGTESID 148 (275)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~ 148 (275)
..|+.|...... ..|..|... .......|+. |+..|. +..+..| +.|+.|+..|
T Consensus 408 V~C~NC~~~i~l-~~l~lHe~~-C~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f------------ 463 (567)
T PLN03086 408 VECRNCKHYIPS-RSIALHEAY-CSRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAF------------ 463 (567)
T ss_pred EECCCCCCccch-hHHHHHHhh-CCCcceeCCcccccceee-ccccccC---------ccCCCCCCcc------------
Confidence 478888876554 667788754 3445567874 888774 2233333 5899999998
Q ss_pred ccccccccccchHHHHHhhcCCCCCCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCC----------ChhH
Q psy12834 149 KLLLCFLSQRSNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFI----------YPEH 218 (275)
Q Consensus 149 ~~~~~~~~~~~~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~----------~~~~ 218 (275)
. .+.+..|....| .++.|+ |++.+ ....|..|+. .|...+++.|+.|++.|. ....
T Consensus 464 -------~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~-thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~ 529 (567)
T PLN03086 464 -------Q-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQA-STCPLRLITCRFCGDMVQAGGSAMDVRDRLRG 529 (567)
T ss_pred -------c-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhh-ccCCCCceeCCCCCCccccCccccchhhhhhh
Confidence 4 466889988544 789999 99755 6689999975 788899999999999995 2458
Q ss_pred HHHHHHhhcCCCceeCcccchhhhhhhHHHhhhcc
Q psy12834 219 FKKHRRIHTGEKPYVCEVRLAVFYYVTCLFNMIQP 253 (275)
Q Consensus 219 l~~H~~~h~~~~~~~C~~C~~~~~~~~~~~~H~~~ 253 (275)
|..|.... +.+++.|..||+.+..+ ++..|+..
T Consensus 530 Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~ 562 (567)
T PLN03086 530 MSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIA 562 (567)
T ss_pred HHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHH
Confidence 99998885 89999999999998554 45577643
No 13
>PHA00733 hypothetical protein
Probab=99.20 E-value=9e-12 Score=87.26 Aligned_cols=95 Identities=21% Similarity=0.280 Sum_probs=75.9
Q ss_pred chHHHHHhhcCCCCCCCCCCCChhhccChhhHHHH--HHh--hcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeC
Q psy12834 159 SNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYH--IKA--AHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVC 234 (275)
Q Consensus 159 ~~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H--~~~--~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C 234 (275)
+.+.++-. ....++++.|.+|+..|.+...|..+ +.. .+...+||.|+.|++.|.+...|..|++.| ..+|.|
T Consensus 26 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C 102 (128)
T PHA00733 26 EELKRYHS-LTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVC 102 (128)
T ss_pred HHhhhhhc-CChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccC
Confidence 34444433 45567889999999999887777665 221 334578999999999999999999999977 457999
Q ss_pred cccchhhhhhhHHHhhhccccc
Q psy12834 235 EVRLAVFYYVTCLFNMIQPKRF 256 (275)
Q Consensus 235 ~~C~~~~~~~~~~~~H~~~~~~ 256 (275)
..|++.|...+.|..|+..+|.
T Consensus 103 ~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 103 PVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCccCCHHHHHHHHHHhcC
Confidence 9999999999999999987764
No 14
>PHA00733 hypothetical protein
Probab=99.04 E-value=2.1e-10 Score=80.36 Aligned_cols=82 Identities=22% Similarity=0.380 Sum_probs=55.0
Q ss_pred CCCcccccchhhcccchHHHHH--Hh---hhcCCCccccCcchhhcCChHHHHHHHHhhcCCCCccCCcccccccChhHH
Q psy12834 40 KRPFSCEKCDKSFYTQQNLVQH--EK---THSGSKDFVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEV 114 (275)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H--~~---~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l 114 (275)
.+++.|.+|...|.....|..+ +. ..++.++|.|+.|++.|.+...|..|+..+ ..+|.|..|++.|.....|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 3456677777666665555544 11 223456777888888887777777777754 3467788888888887778
Q ss_pred HHHHhhccC
Q psy12834 115 KDHERTHTG 123 (275)
Q Consensus 115 ~~H~~~~~~ 123 (275)
..|+...++
T Consensus 116 ~~H~~~~h~ 124 (128)
T PHA00733 116 LDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC
Confidence 777776654
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.98 E-value=1.8e-10 Score=66.29 Aligned_cols=42 Identities=19% Similarity=0.309 Sum_probs=29.6
Q ss_pred cccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhhHH
Q psy12834 204 YQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVTCL 247 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~~ 247 (275)
|+|+.||+.|+..++|..|+++|+ ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 677777777777777777777777 567777777777655554
No 16
>KOG3993|consensus
Probab=98.93 E-value=1.7e-10 Score=93.13 Aligned_cols=185 Identities=18% Similarity=0.211 Sum_probs=121.6
Q ss_pred ccccCcchhhcCChHHHHHHHHhhcCCCCccCCcccccccChhHHHHHHhhccCCCCccccccccccccccCCCcccccc
Q psy12834 70 DFVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSSGTESIDK 149 (275)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~ 149 (275)
.|.|..|...|.+...|..|.-.---...|+|+.|++.|.-..+|..|.+.|-....- ++.-......+....++
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~ea-----a~a~~~P~k~~~~~rae 341 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEA-----AKAGSPPPKQAVETRAE 341 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhh-----hhcCCCChhhhhhhhhh
Confidence 3788888888888888888853333344688999999999889999998877532210 00000000000000011
Q ss_pred cccccccccchHHHHHhhcCCCCCCCCCCCChhhccChhhHHHHHHhhcCCCC---------------------------
Q psy12834 150 LLLCFLSQRSNLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAAHTGER--------------------------- 202 (275)
Q Consensus 150 ~~~~~~~~~~~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~--------------------------- 202 (275)
+...... ..-..+.-|.|..|++.|.....|+.|+.++|....
T Consensus 342 ~~ea~rs----------g~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~ 411 (500)
T KOG3993|consen 342 VQEAERS----------GDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHS 411 (500)
T ss_pred hhhcccc----------CCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccc
Confidence 1111100 011234479999999999999999999876664321
Q ss_pred ------------------CcccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhhHHHhhhcccccccCCcccc
Q psy12834 203 ------------------PYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVTCLFNMIQPKRFRLGRPHLL 264 (275)
Q Consensus 203 ------------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~~~~H~~~~~~~~~~~~~~ 264 (275)
...|+.|+..++++..---+.+.-..++.|-|.+|.-.|.+...|..|++.-|...-+-+++
T Consensus 412 ~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse~rqv~l 491 (500)
T KOG3993|consen 412 SASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSELRQVAL 491 (500)
T ss_pred ccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHHhhhhHH
Confidence 14677888777777766666666666778999999999999999999998777766666666
Q ss_pred ccccc
Q psy12834 265 SQATP 269 (275)
Q Consensus 265 ~~~~~ 269 (275)
-+.++
T Consensus 492 lqmp~ 496 (500)
T KOG3993|consen 492 LQMPP 496 (500)
T ss_pred hcCCC
Confidence 55443
No 17
>KOG3993|consensus
Probab=98.84 E-value=7.2e-10 Score=89.54 Aligned_cols=110 Identities=25% Similarity=0.480 Sum_probs=70.5
Q ss_pred CceecccccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHHhhhcCCCccc---cCcchhhcCChHHHHH
Q psy12834 12 RPYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFV---CTECGKAFGTLRNLEV 88 (275)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~---C~~C~~~f~~~~~l~~ 88 (275)
+.|.|..|...|.+.-.|..|.-...- -.-|+|++|+++|....+|..|.++|-...--- =+-=.+........+.
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV-~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIV-HVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeE-EeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 469999999999999999999754332 125999999999999999999999984321100 0000000000000100
Q ss_pred HHH--hhcCCCCccCCcccccccChhHHHHHHhhcc
Q psy12834 89 HLA--VHTGNRPFICRVCGKSFVRKAEVKDHERTHT 122 (275)
Q Consensus 89 H~~--~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 122 (275)
-.+ .-..+..|.|..|++.|....-|++|+..|+
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 000 0023456888888888888888888877665
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.75 E-value=4.2e-09 Score=60.70 Aligned_cols=44 Identities=16% Similarity=0.461 Sum_probs=38.9
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHH
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFK 220 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~ 220 (275)
.|+|+.||+.|...+.|..|+++ |. ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~-H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK-HN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh-cC--CcccCCcccceecccceeE
Confidence 48999999999999999999995 65 6899999999999776653
No 19
>PHA00616 hypothetical protein
Probab=98.72 E-value=5.3e-09 Score=57.27 Aligned_cols=34 Identities=21% Similarity=0.266 Sum_probs=25.3
Q ss_pred CcccccccccCCChhHHHHHHHhhcCCCceeCcc
Q psy12834 203 PYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEV 236 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 236 (275)
||+|+.||+.|...+.|..|++.|++++++.|++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5777777777777777777777777777777664
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.71 E-value=5.9e-09 Score=51.34 Aligned_cols=25 Identities=44% Similarity=0.794 Sum_probs=17.9
Q ss_pred HHHHHHHhhcCCCceeCcccchhhh
Q psy12834 218 HFKKHRRIHTGEKPYVCEVRLAVFY 242 (275)
Q Consensus 218 ~l~~H~~~h~~~~~~~C~~C~~~~~ 242 (275)
+|..|+++|++++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4667777777777777777777764
No 21
>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=1.9e-07 Score=55.10 Aligned_cols=51 Identities=22% Similarity=0.443 Sum_probs=34.3
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCC-CCcccccccccCCChhHHHHHHHhhc
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGE-RPYQCDICNATFIYPEHFKKHRRIHT 227 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~-~~~~C~~C~~~f~~~~~l~~H~~~h~ 227 (275)
.|.||+|++ ..+...|..|+...|..+ +.+.||+|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 467788887 455677777877777664 3577777776543 37777776654
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=98.43 E-value=1.3e-07 Score=46.49 Aligned_cols=26 Identities=42% Similarity=0.972 Sum_probs=21.3
Q ss_pred hHHHHHHhhcCCCCCcccccccccCCC
Q psy12834 189 LLDYHIKAAHTGERPYQCDICNATFIY 215 (275)
Q Consensus 189 ~l~~H~~~~H~~~~~~~C~~C~~~f~~ 215 (275)
+|..|++ .|++++||+|+.|++.|.+
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 4778888 6888899999999888863
No 23
>PHA00732 hypothetical protein
Probab=98.42 E-value=1.8e-07 Score=59.38 Aligned_cols=48 Identities=21% Similarity=0.411 Sum_probs=31.8
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhhc
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHT 227 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 227 (275)
||.|..|++.|.+...|..|++..|.+ +.|+.|++.|. .|..|+.++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---ChhhhhcccC
Confidence 467777777777777777776544442 46777777776 4666665543
No 24
>PHA00616 hypothetical protein
Probab=98.37 E-value=2.2e-07 Score=50.95 Aligned_cols=35 Identities=14% Similarity=0.379 Sum_probs=30.4
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCCCCcccccc
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDIC 209 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C 209 (275)
||+|+.||+.|...+.|.+|++ .|++++++.|+.=
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r-~~hg~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLL-SVHKQNKLTLEYF 35 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHH-HhcCCCccceeEE
Confidence 6999999999999999999998 5666688888753
No 25
>PHA00732 hypothetical protein
Probab=98.36 E-value=2.6e-07 Score=58.67 Aligned_cols=48 Identities=25% Similarity=0.294 Sum_probs=40.5
Q ss_pred CcccccccccCCChhHHHHHHHh-hcCCCceeCcccchhhhhhhHHHhhhccccc
Q psy12834 203 PYQCDICNATFIYPEHFKKHRRI-HTGEKPYVCEVRLAVFYYVTCLFNMIQPKRF 256 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~~~~~~~~~~H~~~~~~ 256 (275)
||.|+.|++.|.+...|..|++. |.+ +.|+.|++.|. .+..|++.+-.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---ChhhhhcccCC
Confidence 58999999999999999999985 654 57999999997 58888864443
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=98.35 E-value=1e-06 Score=51.92 Aligned_cols=51 Identities=20% Similarity=0.438 Sum_probs=36.6
Q ss_pred ceecccccccccCHHHHHHHHHhhcC-CCCCcccccchhhcccchHHHHHHhhhc
Q psy12834 13 PYECKTCKKTFVSKYTYKAHLVTHTD-RKRPFSCEKCDKSFYTQQNLVQHEKTHS 66 (275)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~H~~~~~~-~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 66 (275)
.|.||.|++ ..+...|..|....+. +.+.+.||+|...+. .+|..|+...|
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 588999988 5667888888776443 345688888876543 37777777654
No 27
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.09 E-value=9.3e-07 Score=59.76 Aligned_cols=73 Identities=19% Similarity=0.285 Sum_probs=20.9
Q ss_pred CCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhhHHHhhhccc
Q psy12834 176 PCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVTCLFNMIQPK 254 (275)
Q Consensus 176 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~~~~H~~~~ 254 (275)
+|..|+..|.+...|..|+...|....+ ....+.....+..+++.-.. ..+.|.+|++.|.+..+|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-----~~~~l~~~~~~~~~~~~~~~-~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-----DQKYLVDPNRLLNYLRKKVK-ESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc-----cccccccccccccccccccC-CCCCCCccCCCCcCHHHHHHHHcCc
Confidence 5999999999999999999988876543 12223345555555543322 2689999999999999999999754
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.96 E-value=4.7e-06 Score=39.70 Aligned_cols=22 Identities=36% Similarity=0.843 Sum_probs=11.2
Q ss_pred cccccccccCCChhHHHHHHHh
Q psy12834 204 YQCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (275)
|+|+.|++.|.+...|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 3455555555555555555544
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.92 E-value=9.5e-06 Score=38.60 Aligned_cols=22 Identities=41% Similarity=0.812 Sum_probs=16.0
Q ss_pred eecccccccccCHHHHHHHHHh
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVT 35 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~ 35 (275)
|.|+.|++.|.++..|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5677777777777777777765
No 30
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.69 E-value=1.4e-05 Score=39.68 Aligned_cols=25 Identities=16% Similarity=0.291 Sum_probs=15.3
Q ss_pred ceeCcccchhhhhhhHHHhhhcccc
Q psy12834 231 PYVCEVRLAVFYYVTCLFNMIQPKR 255 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H~~~~~ 255 (275)
||.|+.|++.|.+..+|..|++.|+
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 4566666666666666666665543
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.68 E-value=2.9e-05 Score=37.20 Aligned_cols=21 Identities=33% Similarity=0.759 Sum_probs=8.6
Q ss_pred ccccccccCCChhHHHHHHHh
Q psy12834 205 QCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 205 ~C~~C~~~f~~~~~l~~H~~~ 225 (275)
.|+.|++.|.+...|..|+..
T Consensus 2 ~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp E-SSTS-EESSHHHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHHHh
Confidence 344444444444444444443
No 32
>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=97.66 E-value=4.6e-05 Score=36.47 Aligned_cols=24 Identities=38% Similarity=0.807 Sum_probs=15.1
Q ss_pred eecccccccccCHHHHHHHHHhhc
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVTHT 37 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~~~ 37 (275)
|.|+.|+..|.+...|+.|+.+++
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567777777777777777776553
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.66 E-value=2.4e-05 Score=38.80 Aligned_cols=25 Identities=36% Similarity=0.870 Sum_probs=16.3
Q ss_pred CcccccccccCCChhHHHHHHHhhc
Q psy12834 203 PYQCDICNATFIYPEHFKKHRRIHT 227 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~h~ 227 (275)
+|+|..|++.|.+..+|..|++.|.
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 4666666666666666666666554
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.52 E-value=5.5e-05 Score=50.97 Aligned_cols=22 Identities=23% Similarity=0.468 Sum_probs=0.0
Q ss_pred cccccccccCHHHHHHHHHhhc
Q psy12834 16 CKTCKKTFVSKYTYKAHLVTHT 37 (275)
Q Consensus 16 C~~C~~~f~~~~~l~~H~~~~~ 37 (275)
|..|+..|.+...|..|+...+
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H 23 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKH 23 (100)
T ss_dssp ----------------------
T ss_pred cccccccccccccccccccccc
Confidence 5566666666666666665444
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=97.51 E-value=6.5e-05 Score=42.15 Aligned_cols=40 Identities=28% Similarity=0.511 Sum_probs=20.8
Q ss_pred HHHHhhcCCCCCcccccccccCCChhHHHHHHHhhcCCCc
Q psy12834 192 YHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKP 231 (275)
Q Consensus 192 ~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 231 (275)
.+.++.+..+.|-.||+|+..+....+|..|+.+.++.+|
T Consensus 13 ~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 13 KKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ---CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3444445556667777777777777777777766665553
No 36
>KOG1146|consensus
Probab=97.36 E-value=2.1e-05 Score=73.10 Aligned_cols=201 Identities=16% Similarity=0.178 Sum_probs=115.1
Q ss_pred ecccccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCChHHHHHHHHhhc
Q psy12834 15 ECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEVHLAVHT 94 (275)
Q Consensus 15 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (275)
.|..|...+.+...+..|+..=+...+.+.|+.|++.|+....|..||+..+.+..- ..|.- +..-..+.+-.....
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~-gq~~~~~arg~~~~~ 514 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKA-GQNHPRLARGEVYRC 514 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhHh-ccccccccccccccC
Confidence 355566666666666666654444457789999999999999999999986654321 22211 111111111112234
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccCCCCccc--ccccc-ccccccCCCcccccccccccccccchHHHHHhhcCCC
Q psy12834 95 GNRPFICRVCGKSFVRKAEVKDHERTHTGEKPYQC--EFCGA-QFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFN 171 (275)
Q Consensus 95 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~c--~~c~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h~~ 171 (275)
+.++|.|..|...+..+.+|..|++..-......= ..-+. .+..... ......+......... ......
T Consensus 515 ~~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~-v~s~~P~~ag~~~~ag-------s~~pkt 586 (1406)
T KOG1146|consen 515 PGKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPAS-VTSAVPEEAGLGPSAG-------SSGPKT 586 (1406)
T ss_pred CCCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhh-hcccCcccccCCCCCC-------CCCCCC
Confidence 56789999999999999999999874221100000 00000 0000000 0000000000000000 001334
Q ss_pred CCCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhh
Q psy12834 172 DKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIH 226 (275)
Q Consensus 172 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h 226 (275)
...|.|..|++.-.-..+|+.|+.+.++-..|.-|..++..+.....+..+.+-+
T Consensus 587 kP~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 587 KPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred CCCcchhhhcchhhhhhccccccccCCCCCChHHHhhhcchhhccccccCcCCCC
Confidence 5568999999999999999999988777777778888887777777666665554
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.28 E-value=9.5e-05 Score=58.34 Aligned_cols=71 Identities=25% Similarity=0.419 Sum_probs=41.4
Q ss_pred CCCCCCCC--ChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhhHHHh
Q psy12834 172 DKRYPCTS--CPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVTCLFN 249 (275)
Q Consensus 172 ~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~~~~ 249 (275)
++||+|++ |++.|.+...|+-|+.--|..++...=| +=..|.-.-.+.+||+|+.|++.+.+..-|.-
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p----------~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKY 416 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP----------SPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC----------CccccccccccCCceeccccchhhccCcccee
Confidence 48888875 8888999999988875444222211111 00011111344567777777777776666666
Q ss_pred hhc
Q psy12834 250 MIQ 252 (275)
Q Consensus 250 H~~ 252 (275)
|..
T Consensus 417 Hr~ 419 (423)
T COG5189 417 HRK 419 (423)
T ss_pred ccc
Confidence 654
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.13 E-value=0.00048 Score=33.40 Aligned_cols=22 Identities=32% Similarity=0.662 Sum_probs=10.6
Q ss_pred ccccccccCCChhHHHHHHHhh
Q psy12834 205 QCDICNATFIYPEHFKKHRRIH 226 (275)
Q Consensus 205 ~C~~C~~~f~~~~~l~~H~~~h 226 (275)
+|+.|++.|.+...|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4444555555555555544433
No 39
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.09 E-value=0.00014 Score=57.36 Aligned_cols=70 Identities=23% Similarity=0.457 Sum_probs=38.7
Q ss_pred CCCccccc--chhhcccchHHHHHHhhhcCC-CccccCcchhhcCChHHHHHHHHhhcCCCCccCCcccccccChhHHHH
Q psy12834 40 KRPFSCEK--CDKSFYTQQNLVQHEKTHSGS-KDFVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEVKD 116 (275)
Q Consensus 40 ~~~~~C~~--C~~~f~~~~~l~~H~~~~~~~-~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~ 116 (275)
+++|+|++ |++.|++...|+-|+..-|.. +...=+ +-..+.-....++||+|.+|++.+.+...|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p----------~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKY 416 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP----------SPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC----------CccccccccccCCceeccccchhhccCcccee
Confidence 46777766 777777777777776543311 000000 00011111234677888888877777777776
Q ss_pred HHh
Q psy12834 117 HER 119 (275)
Q Consensus 117 H~~ 119 (275)
|+.
T Consensus 417 Hr~ 419 (423)
T COG5189 417 HRK 419 (423)
T ss_pred ccc
Confidence 654
No 40
>PRK04860 hypothetical protein; Provisional
Probab=97.03 E-value=0.00028 Score=51.46 Aligned_cols=39 Identities=26% Similarity=0.627 Sum_probs=30.8
Q ss_pred CcccccccccCCChhHHHHHHHhhcCCCceeCcccchhhhhhh
Q psy12834 203 PYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVFYYVT 245 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~ 245 (275)
+|.|. |+. ....+..|.++|.++++|.|..|+..|....
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 58887 876 6777888888888888888888888876544
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.02 E-value=0.00019 Score=34.72 Aligned_cols=21 Identities=14% Similarity=0.336 Sum_probs=10.7
Q ss_pred eeCcccchhhhhhhHHHhhhc
Q psy12834 232 YVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 232 ~~C~~C~~~~~~~~~~~~H~~ 252 (275)
|.|.+|+..|.+..++.+|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555555555555555554
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.99 E-value=0.0005 Score=32.90 Aligned_cols=23 Identities=26% Similarity=0.639 Sum_probs=11.5
Q ss_pred cccccccccCCChhHHHHHHHhhc
Q psy12834 204 YQCDICNATFIYPEHFKKHRRIHT 227 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~h~ 227 (275)
|+|+.|++... ...|..|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45555555555 555555555543
No 43
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.99 E-value=0.00054 Score=38.54 Aligned_cols=28 Identities=21% Similarity=0.427 Sum_probs=10.0
Q ss_pred CCCcccccchhhcccchHHHHHHhhhcC
Q psy12834 40 KRPFSCEKCDKSFYTQQNLVQHEKTHSG 67 (275)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 67 (275)
+.+-.|++|+..+....+|.+|+...|.
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 3344444444444444444444444433
No 44
>KOG2231|consensus
Probab=96.96 E-value=0.0015 Score=57.74 Aligned_cols=126 Identities=23% Similarity=0.356 Sum_probs=77.7
Q ss_pred CCcccccccChhHHHHHHhhccCCCCcccccccc---ccccccCCCcccccccccccccccchHHHHHhhcCCCCC----
Q psy12834 101 CRVCGKSFVRKAEVKDHERTHTGEKPYQCEFCGA---QFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFNDK---- 173 (275)
Q Consensus 101 C~~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h~~~~---- 173 (275)
|..| ..|.....|..|+...|.. +.|..|.. .|... ...-+...+..|+...-.+++
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~~--~~c~lC~~~~kif~~e-------------~k~Yt~~el~~h~~~gd~d~~s~rG 181 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHKL--HLCSLCLQNLKIFINE-------------RKLYTRAELNLHLMFGDPDDESCRG 181 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhhh--hccccccccceeeeee-------------eehehHHHHHHHHhcCCCccccccC
Confidence 4444 4445778899998655532 44444432 22111 111345667777763322122
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCCCCcccccc------cccCCChhHHHHHHHhhcCCCceeCc--ccchh-----
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDIC------NATFIYPEHFKKHRRIHTGEKPYVCE--VRLAV----- 240 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C------~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~~~----- 240 (275)
.-.|..|...|.....|.+|++..| |.|..| +.-|.+...|..|.+.++ |.|. .|...
T Consensus 182 hp~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~~f~~~ 252 (669)
T KOG2231|consen 182 HPLCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTKKFYVA 252 (669)
T ss_pred CccchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccceeeeh
Confidence 2569999999999999999998766 666666 455778889999988766 5555 45443
Q ss_pred hhhhhHHHhhh
Q psy12834 241 FYYVTCLFNMI 251 (275)
Q Consensus 241 ~~~~~~~~~H~ 251 (275)
|.....|..|.
T Consensus 253 ~~~ei~lk~~~ 263 (669)
T KOG2231|consen 253 FELEIELKAHN 263 (669)
T ss_pred hHHHHHHHhhc
Confidence 44445555444
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.93 E-value=0.00047 Score=33.32 Aligned_cols=23 Identities=35% Similarity=0.826 Sum_probs=15.9
Q ss_pred cccccccccCCChhHHHHHHHhh
Q psy12834 204 YQCDICNATFIYPEHFKKHRRIH 226 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~h 226 (275)
|.|.+|+..|.+...|..|++.+
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 45777777777777777776653
No 46
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.66 E-value=0.0016 Score=31.42 Aligned_cols=23 Identities=48% Similarity=0.876 Sum_probs=14.1
Q ss_pred eecccccccccCHHHHHHHHHhh
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVTH 36 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~~ 36 (275)
|.|+.|+..|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45666666666666666666544
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.58 E-value=0.0022 Score=30.59 Aligned_cols=23 Identities=35% Similarity=0.661 Sum_probs=12.4
Q ss_pred eecccccccccCHHHHHHHHHhhc
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVTHT 37 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~~~ 37 (275)
|+|+.|+.... ...|..|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45666666555 556666666544
No 48
>KOG2785|consensus
Probab=96.57 E-value=0.013 Score=48.02 Aligned_cols=29 Identities=21% Similarity=0.030 Sum_probs=24.0
Q ss_pred CCCCCCCCChhhccChhhHHHHHHhhcCC
Q psy12834 172 DKRYPCTSCPKAFKRRRLLDYHIKAAHTG 200 (275)
Q Consensus 172 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 200 (275)
..|-.|..|++.+.+...-..|+...|+.
T Consensus 164 ~~Pt~CLfC~~~~k~~e~~~~HM~~~Hgf 192 (390)
T KOG2785|consen 164 LIPTDCLFCDKKSKSLEENLKHMFKEHGF 192 (390)
T ss_pred cCCcceeecCCCcccHHHHHHHHhhccCC
Confidence 44567899999999999999999877764
No 49
>KOG2231|consensus
Probab=96.56 E-value=0.0086 Score=53.21 Aligned_cols=23 Identities=26% Similarity=0.663 Sum_probs=12.6
Q ss_pred cCCcccccccChhHHHHHHhhcc
Q psy12834 100 ICRVCGKSFVRKAEVKDHERTHT 122 (275)
Q Consensus 100 ~C~~C~~~f~~~~~l~~H~~~~~ 122 (275)
.|..|...|.....|..|++.++
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h 206 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH 206 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce
Confidence 45555555555555555555444
No 50
>KOG2482|consensus
Probab=96.55 E-value=0.017 Score=46.56 Aligned_cols=86 Identities=19% Similarity=0.245 Sum_probs=46.8
Q ss_pred HHHHHHhhcCCCCCcccccchhhc-ccchHHHHHHhhhcCCCccccCcchhhcCChHHHHHHHHhhcCCCCccCCccccc
Q psy12834 29 YKAHLVTHTDRKRPFSCEKCDKSF-YTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKS 107 (275)
Q Consensus 29 l~~H~~~~~~~~~~~~C~~C~~~f-~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 107 (275)
|+.+++...+.....+|-.|+..+ .+++....|+-..|+-..-. .........|..|.+.... .+.|--|.+.
T Consensus 131 LeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGl----pDniVyvnelLehLkekL~--r~~CLyCeki 204 (423)
T KOG2482|consen 131 LEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGL----PDNIVYVNELLEHLKEKLE--RLRCLYCEKI 204 (423)
T ss_pred HHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCC----CcceeeHHHHHHHHHHHHh--hheeeeeccc
Confidence 444555444444556788886544 36666667765544321100 0112223444455433221 3567778888
Q ss_pred ccChhHHHHHHhh
Q psy12834 108 FVRKAEVKDHERT 120 (275)
Q Consensus 108 f~~~~~l~~H~~~ 120 (275)
|.++..|..||+.
T Consensus 205 frdkntLkeHMrk 217 (423)
T KOG2482|consen 205 FRDKNTLKEHMRK 217 (423)
T ss_pred cCCcHHHHHHHHh
Confidence 8888888888775
No 51
>KOG2785|consensus
Probab=96.49 E-value=0.004 Score=50.85 Aligned_cols=84 Identities=18% Similarity=0.261 Sum_probs=68.0
Q ss_pred CCCCCCCCCCChhhccChhhHHHHHHhhcCC-------------------------------------------------
Q psy12834 170 FNDKRYPCTSCPKAFKRRRLLDYHIKAAHTG------------------------------------------------- 200 (275)
Q Consensus 170 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~------------------------------------------------- 200 (275)
..+.++.|..|.+.|.+..+...|+++.-..
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~ 143 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSE 143 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccch
Confidence 4567789999999999999999888653210
Q ss_pred --------------------CCCcccccccccCCChhHHHHHHHhhcCC-----------------------CceeCccc
Q psy12834 201 --------------------ERPYQCDICNATFIYPEHFKKHRRIHTGE-----------------------KPYVCEVR 237 (275)
Q Consensus 201 --------------------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C 237 (275)
..|-.|-.|++.+.+...-..||..+++- .-+-|..|
T Consensus 144 e~~~dd~~Edi~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~C 223 (390)
T KOG2785|consen 144 EEEEDDEEEDIEEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFC 223 (390)
T ss_pred hhccCcchhhhhhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEe
Confidence 01367999999999999999999887652 23889999
Q ss_pred c---hhhhhhhHHHhhhcc
Q psy12834 238 L---AVFYYVTCLFNMIQP 253 (275)
Q Consensus 238 ~---~~~~~~~~~~~H~~~ 253 (275)
+ +.|....+.++||..
T Consensus 224 N~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 224 NELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ccccCcccccHHHHHHHhh
Confidence 9 999999999999954
No 52
>KOG1146|consensus
Probab=96.35 E-value=0.0022 Score=60.31 Aligned_cols=93 Identities=23% Similarity=0.381 Sum_probs=74.7
Q ss_pred hHHHHHhhcCCCCCCCCCCCChhhccChhhHHHHHHhhcCC------------------------CCCcccccccccCCC
Q psy12834 160 NLQSHKRATHFNDKRYPCTSCPKAFKRRRLLDYHIKAAHTG------------------------ERPYQCDICNATFIY 215 (275)
Q Consensus 160 ~~~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~------------------------~~~~~C~~C~~~f~~ 215 (275)
.+..+....+...+.|.|+.|++.|.....|..|+|+.|.. .++|.|..|..+++.
T Consensus 451 ~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~sttt 530 (1406)
T KOG1146|consen 451 SLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTT 530 (1406)
T ss_pred ccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeec
Confidence 33444444566668899999999999999999999987753 247999999999999
Q ss_pred hhHHHHHHHh--hc-----------------------------------C------CCceeCcccchhhhhhhHHHhhhc
Q psy12834 216 PEHFKKHRRI--HT-----------------------------------G------EKPYVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 216 ~~~l~~H~~~--h~-----------------------------------~------~~~~~C~~C~~~~~~~~~~~~H~~ 252 (275)
+..|..|+.. |- + +..+.|..|++.-+---.|..|+.
T Consensus 531 ng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmt 610 (1406)
T KOG1146|consen 531 NGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMT 610 (1406)
T ss_pred chHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccc
Confidence 9999999875 30 0 114899999999988888988884
No 53
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.33 E-value=0.0012 Score=32.60 Aligned_cols=21 Identities=14% Similarity=0.225 Sum_probs=12.8
Q ss_pred eeCcccchhhhhhhHHHhhhc
Q psy12834 232 YVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 232 ~~C~~C~~~~~~~~~~~~H~~ 252 (275)
|-|..|++.|.+...+.+|+.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 456666666666666666664
No 54
>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=96.10 E-value=0.0015 Score=32.22 Aligned_cols=22 Identities=27% Similarity=0.712 Sum_probs=12.8
Q ss_pred cccccccccCCChhHHHHHHHh
Q psy12834 204 YQCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (275)
|.|..|++.|.+...|..|+++
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 4566666666666666655543
No 55
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.91 E-value=0.0075 Score=48.53 Aligned_cols=23 Identities=26% Similarity=0.561 Sum_probs=15.4
Q ss_pred cCCcccccccChhHHHHHHhhcc
Q psy12834 100 ICRVCGKSFVRKAEVKDHERTHT 122 (275)
Q Consensus 100 ~C~~C~~~f~~~~~l~~H~~~~~ 122 (275)
.|.+|...|.+-+.|..|++..+
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H 244 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH 244 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh
Confidence 46667766777777777766554
No 56
>KOG2482|consensus
Probab=95.66 E-value=0.018 Score=46.39 Aligned_cols=64 Identities=17% Similarity=0.374 Sum_probs=42.5
Q ss_pred ChhhhcccCCC--Cceecccccc-cccCHHHHHHHHHhhcC---------------------CCCCcccccchhhcccch
Q psy12834 1 MEDHLVSHTGA--RPYECKTCKK-TFVSKYTYKAHLVTHTD---------------------RKRPFSCEKCDKSFYTQQ 56 (275)
Q Consensus 1 ~~~~~~~~~~~--~~~~C~~C~~-~f~~~~~l~~H~~~~~~---------------------~~~~~~C~~C~~~f~~~~ 56 (275)
|+++|+.- .+ ....|-.|+. ...+.+....|+-.-|+ .-..+.|-.|.+.|+++.
T Consensus 131 LeqqQ~Er-edt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkn 209 (423)
T KOG2482|consen 131 LEQQQKER-EDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKN 209 (423)
T ss_pred HHHHHHHh-cCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcH
Confidence 34455544 33 3567999974 55666666777653322 012478999999999999
Q ss_pred HHHHHHhhh
Q psy12834 57 NLVQHEKTH 65 (275)
Q Consensus 57 ~l~~H~~~~ 65 (275)
.|..||+..
T Consensus 210 tLkeHMrkK 218 (423)
T KOG2482|consen 210 TLKEHMRKK 218 (423)
T ss_pred HHHHHHHhc
Confidence 999999754
No 57
>PRK04860 hypothetical protein; Provisional
Probab=95.60 E-value=0.0049 Score=45.01 Aligned_cols=40 Identities=25% Similarity=0.650 Sum_probs=34.0
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChh
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPE 217 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~ 217 (275)
-+|.|. |+. ....+.+|.+ .|.++++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~r-i~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNR-VVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHH-HhcCCccEECCCCCceeEEec
Confidence 369998 998 7788889987 899999999999999886543
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.31 E-value=0.018 Score=27.70 Aligned_cols=21 Identities=19% Similarity=0.444 Sum_probs=15.1
Q ss_pred eecccccccccCHHHHHHHHHh
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVT 35 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~ 35 (275)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4688888888 56677777654
No 59
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.28 E-value=0.038 Score=44.66 Aligned_cols=67 Identities=30% Similarity=0.496 Sum_probs=33.9
Q ss_pred CCCCChhhccChhhHHHHHHhhcCCCCCccccccccc-------CCChhHHHHHHHhhcCCCceeCcc--cc----hhhh
Q psy12834 176 PCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNAT-------FIYPEHFKKHRRIHTGEKPYVCEV--RL----AVFY 242 (275)
Q Consensus 176 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~-------f~~~~~l~~H~~~h~~~~~~~C~~--C~----~~~~ 242 (275)
.|..|...|-+...|..|.+..|. .|-+|++. |.+..+|..|.+. .-|.|.. |. ..|.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~----~hy~ct~qtc~~~k~~vf~ 292 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRN----AHYCCTFQTCRVGKCYVFP 292 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhc----CceEEEEEEEecCcEEEec
Confidence 366666666666666666664442 24444332 4444455544332 2344443 32 2355
Q ss_pred hhhHHHhhh
Q psy12834 243 YVTCLFNMI 251 (275)
Q Consensus 243 ~~~~~~~H~ 251 (275)
....|+.|+
T Consensus 293 ~~~el~~h~ 301 (493)
T COG5236 293 YHTELLEHL 301 (493)
T ss_pred cHHHHHHHH
Confidence 666666665
No 60
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.83 E-value=0.016 Score=30.44 Aligned_cols=23 Identities=9% Similarity=0.157 Sum_probs=17.2
Q ss_pred ceeCcccchhhhhhhHHHhhhcc
Q psy12834 231 PYVCEVRLAVFYYVTCLFNMIQP 253 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H~~~ 253 (275)
+|.|.+|+..|.....+.+|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46788888888877777787753
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=94.80 E-value=0.023 Score=29.76 Aligned_cols=23 Identities=26% Similarity=0.545 Sum_probs=18.0
Q ss_pred CcccccccccCCChhHHHHHHHh
Q psy12834 203 PYQCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~ 225 (275)
+|.|.+|+..|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788888888888888888754
No 62
>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=94.47 E-value=0.059 Score=36.84 Aligned_cols=27 Identities=19% Similarity=0.411 Sum_probs=20.6
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCC
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTG 200 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 200 (275)
+-..|..|+.+..- +.+..|++..|..
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~ 36 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHI 36 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhccc
Confidence 34569999988776 8888999876654
No 63
>KOG4173|consensus
Probab=94.43 E-value=0.027 Score=41.98 Aligned_cols=76 Identities=20% Similarity=0.364 Sum_probs=61.5
Q ss_pred CCCCCCC--ChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHH-hh---------cCCCceeCcc--cc
Q psy12834 173 KRYPCTS--CPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRR-IH---------TGEKPYVCEV--RL 238 (275)
Q Consensus 173 ~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~-~h---------~~~~~~~C~~--C~ 238 (275)
..+.|+. |...|.+......|+.+.|+. .|..|.+.|.+..-|-.|+. .| -|...|+|.. |+
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt 153 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCT 153 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhh
Confidence 4577876 888999999899998877776 49999999999988888874 34 2456699976 99
Q ss_pred hhhhhhhHHHhhhc
Q psy12834 239 AVFYYVTCLFNMIQ 252 (275)
Q Consensus 239 ~~~~~~~~~~~H~~ 252 (275)
..|.+..+-..|+-
T Consensus 154 ~KFkT~r~RkdH~I 167 (253)
T KOG4173|consen 154 EKFKTSRDRKDHMI 167 (253)
T ss_pred hhhhhhhhhhhHHH
Confidence 99999999999984
No 64
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.24 E-value=0.041 Score=26.44 Aligned_cols=18 Identities=39% Similarity=1.023 Sum_probs=8.6
Q ss_pred ccccccccCCChhHHHHHH
Q psy12834 205 QCDICNATFIYPEHFKKHR 223 (275)
Q Consensus 205 ~C~~C~~~f~~~~~l~~H~ 223 (275)
.|+.|+..| ....|..|+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~ 21 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHE 21 (25)
T ss_pred cCCCCCCEE-CHHHHHHHH
Confidence 445555555 444444444
No 65
>KOG2893|consensus
Probab=93.36 E-value=0.025 Score=43.16 Aligned_cols=44 Identities=23% Similarity=0.465 Sum_probs=31.0
Q ss_pred eecccccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHH
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHE 62 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 62 (275)
-+|=.|++.|.+...|..|++.. .|+|.+|.+...+.-.|..|-
T Consensus 11 pwcwycnrefddekiliqhqkak-----hfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAK-----HFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred ceeeecccccchhhhhhhhhhhc-----cceeeeehhhhccCCCceeeh
Confidence 35777888888888887777643 478888876666666666663
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=93.17 E-value=0.049 Score=28.19 Aligned_cols=11 Identities=27% Similarity=0.884 Sum_probs=6.4
Q ss_pred CCCCCChhhcc
Q psy12834 175 YPCTSCPKAFK 185 (275)
Q Consensus 175 ~~C~~C~~~f~ 185 (275)
|.|..||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 55666665544
No 67
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.96 E-value=0.065 Score=30.76 Aligned_cols=31 Identities=26% Similarity=0.488 Sum_probs=24.0
Q ss_pred CCCCCCCCCCCChhhccChhhHHHHHHhhcC
Q psy12834 169 HFNDKRYPCTSCPKAFKRRRLLDYHIKAAHT 199 (275)
Q Consensus 169 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 199 (275)
-.++.-+.||.||+.|....+..+|....|.
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3567778888888888888888888776553
No 68
>KOG2893|consensus
Probab=92.18 E-value=0.033 Score=42.57 Aligned_cols=45 Identities=29% Similarity=0.659 Sum_probs=36.4
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHH
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHR 223 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~ 223 (275)
++| |-+|++.|.+..-|.+|.+..| |+|-+|.+..-+--.|..|-
T Consensus 10 kpw-cwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceeeh
Confidence 344 9999999999999999887555 99999998877777777764
No 69
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.96 E-value=0.32 Score=33.04 Aligned_cols=25 Identities=24% Similarity=0.571 Sum_probs=13.5
Q ss_pred CcccccccccCCChhHHHHHHHhhc
Q psy12834 203 PYQCDICNATFIYPEHFKKHRRIHT 227 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~h~ 227 (275)
+|+|+.|...|-..-++-.|...|.
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ceeCCCCCCccccccchhhhhhccC
Confidence 4555555555555555555544443
No 70
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.82 E-value=0.065 Score=46.21 Aligned_cols=159 Identities=27% Similarity=0.455 Sum_probs=96.0
Q ss_pred CccccCcchhhcCChHHHHHHHH--hhcCC--CCccCC--cccccccChhHHHHHHhhccCCCCccccccccccccccCC
Q psy12834 69 KDFVCTECGKAFGTLRNLEVHLA--VHTGN--RPFICR--VCGKSFVRKAEVKDHERTHTGEKPYQCEFCGAQFRFKGSS 142 (275)
Q Consensus 69 ~~~~C~~C~~~f~~~~~l~~H~~--~~~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~~~~~~~ 142 (275)
.++.|..|...|.....+..|.. .|.++ .++.|+ .|++.|.....+..|...+.+..+..+.............
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 35778888888888888888888 78888 888888 7888888888888888888877665554333222111111
Q ss_pred CcccccccccccccccchHHHHHhhcCCCCCCCCCC--CChhhccChhhHHHHHHhhcCCCC--CcccccccccCCChhH
Q psy12834 143 GTESIDKLLLCFLSQRSNLQSHKRATHFNDKRYPCT--SCPKAFKRRRLLDYHIKAAHTGER--PYQCDICNATFIYPEH 218 (275)
Q Consensus 143 ~~~~~~~~~~~~~~~~~~~~~h~~~~h~~~~~~~C~--~C~~~f~~~~~l~~H~~~~H~~~~--~~~C~~C~~~f~~~~~ 218 (275)
... .... ............+.+. .|...+.....+..|.. .|-... .+.+..|.+.+.....
T Consensus 368 ~~~-----------~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 433 (467)
T COG5048 368 NNE-----------PPQS--LQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHII-THLSFRPYNCKNPPCSKSFNRHYN 433 (467)
T ss_pred CCC-----------Cccc--hhhccCccCCccccccccchhhhhccccccccccc-cccccCCcCCCCCcchhhccCccc
Confidence 000 0000 0000011122222222 24444444444444432 333333 4677788888888888
Q ss_pred HHHHHHhhcCCCceeCcccchhh
Q psy12834 219 FKKHRRIHTGEKPYVCEVRLAVF 241 (275)
Q Consensus 219 l~~H~~~h~~~~~~~C~~C~~~~ 241 (275)
+..|++.|....++.|..+....
T Consensus 434 ~~~~~~~~~~~~~~~~~~~~~~~ 456 (467)
T COG5048 434 LIPHKKIHTNHAPLLCSILKSFR 456 (467)
T ss_pred ccccccccccCCceeeccccccc
Confidence 88888888888877776655543
No 71
>KOG4173|consensus
Probab=91.24 E-value=0.13 Score=38.50 Aligned_cols=74 Identities=27% Similarity=0.518 Sum_probs=42.9
Q ss_pred ceeccc--ccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHHhhhc----------CCCccccCc--chh
Q psy12834 13 PYECKT--CKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHEKTHS----------GSKDFVCTE--CGK 78 (275)
Q Consensus 13 ~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~----------~~~~~~C~~--C~~ 78 (275)
.|.|++ |.+.|.+...+..|..+-++ -.|..|.+.|++..-|..|....| +...|.|-+ |+.
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 355654 55666666666666655443 357777777777777777654332 234455543 666
Q ss_pred hcCChHHHHHHH
Q psy12834 79 AFGTLRNLEVHL 90 (275)
Q Consensus 79 ~f~~~~~l~~H~ 90 (275)
.|.....-..|+
T Consensus 155 KFkT~r~RkdH~ 166 (253)
T KOG4173|consen 155 KFKTSRDRKDHM 166 (253)
T ss_pred hhhhhhhhhhHH
Confidence 666555555554
No 72
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=88.43 E-value=0.29 Score=28.75 Aligned_cols=32 Identities=25% Similarity=0.608 Sum_probs=18.5
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccc
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNA 211 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 211 (275)
.|.||.||........-= -....+|+|+.||+
T Consensus 27 ~F~CPnCGe~~I~Rc~~C------Rk~g~~Y~Cp~CGF 58 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKC------RKLGNPYRCPKCGF 58 (61)
T ss_pred EeeCCCCCceeeehhhhH------HHcCCceECCCcCc
Confidence 477888886655433221 12234578887775
No 73
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=88.21 E-value=0.27 Score=25.61 Aligned_cols=24 Identities=33% Similarity=0.818 Sum_probs=14.3
Q ss_pred CCCCCChhhccChhhHHHHHHhhcCCCCCcccccccc
Q psy12834 175 YPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNA 211 (275)
Q Consensus 175 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 211 (275)
|.|..||..+... +.|..||.|+.
T Consensus 3 ~~C~~CG~i~~g~-------------~~p~~CP~Cg~ 26 (34)
T cd00729 3 WVCPVCGYIHEGE-------------EAPEKCPICGA 26 (34)
T ss_pred EECCCCCCEeECC-------------cCCCcCcCCCC
Confidence 6677777654321 24567777764
No 74
>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=88.20 E-value=0.83 Score=31.15 Aligned_cols=25 Identities=28% Similarity=0.558 Sum_probs=18.6
Q ss_pred ccC----CcccccccChhHHHHHHhhccC
Q psy12834 99 FIC----RVCGKSFVRKAEVKDHERTHTG 123 (275)
Q Consensus 99 ~~C----~~C~~~f~~~~~l~~H~~~~~~ 123 (275)
|.| ..|++...+...+.+|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 677 7777777777777777776654
No 75
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=88.13 E-value=0.099 Score=40.48 Aligned_cols=44 Identities=23% Similarity=0.535 Sum_probs=27.4
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCC---------CCC-----cccccccccCCCh
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTG---------ERP-----YQCDICNATFIYP 216 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~---------~~~-----~~C~~C~~~f~~~ 216 (275)
+...||.|+..|.+........+..... ..| ..||.||.++...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4578999999998865544444322221 112 4788888887644
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.06 E-value=0.34 Score=27.91 Aligned_cols=28 Identities=18% Similarity=0.149 Sum_probs=16.7
Q ss_pred CCCceeCcccchhhhhhhHHHhhhcccc
Q psy12834 228 GEKPYVCEVRLAVFYYVTCLFNMIQPKR 255 (275)
Q Consensus 228 ~~~~~~C~~C~~~~~~~~~~~~H~~~~~ 255 (275)
||-.+.|+.|+..|....+...|+.+-|
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 4455666666666666666666664433
No 77
>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=87.33 E-value=0.34 Score=25.87 Aligned_cols=13 Identities=23% Similarity=0.764 Sum_probs=6.6
Q ss_pred CCCCChhhccChh
Q psy12834 176 PCTSCPKAFKRRR 188 (275)
Q Consensus 176 ~C~~C~~~f~~~~ 188 (275)
.|+.|+..|.-..
T Consensus 4 ~CP~C~~~~~v~~ 16 (38)
T TIGR02098 4 QCPNCKTSFRVVD 16 (38)
T ss_pred ECCCCCCEEEeCH
Confidence 4555555554433
No 78
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=87.30 E-value=0.16 Score=43.80 Aligned_cols=55 Identities=35% Similarity=0.696 Sum_probs=36.3
Q ss_pred CCceecccccccccCHHHHHHHHHhhcCCCCCccccc--chhhcccchHHHHHHhhhc
Q psy12834 11 ARPYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEK--CDKSFYTQQNLVQHEKTHS 66 (275)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~ 66 (275)
...+.|+.|...|........|...+.. ++++.|.. |...+.....+..|...++
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (467)
T COG5048 31 PRPDSCPNCTDSFSRLEHLTRHIRSHTG-EKPSQCSYSGCDKSFSRPLELSRHLRTHH 87 (467)
T ss_pred Cchhhcccccccccccchhhhhcccccc-cCCccccccccccccCCcchhhhhccccc
Confidence 3456777777777777777777777764 55677765 4555666666666665553
No 79
>PF12907 zf-met2: Zinc-binding
Probab=86.58 E-value=0.49 Score=25.60 Aligned_cols=32 Identities=22% Similarity=0.448 Sum_probs=18.9
Q ss_pred CCCCCChhhcc---ChhhHHHHHHhhcCCCCCccc
Q psy12834 175 YPCTSCPKAFK---RRRLLDYHIKAAHTGERPYQC 206 (275)
Q Consensus 175 ~~C~~C~~~f~---~~~~l~~H~~~~H~~~~~~~C 206 (275)
+.|.+|...|. +...|..|..+.|+...+..|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 45777774433 445677777666766544444
No 80
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=85.45 E-value=0.59 Score=24.83 Aligned_cols=32 Identities=25% Similarity=0.617 Sum_probs=15.6
Q ss_pred CCCCChhhccChhhHHHHHHhhcCCCCCcccccccccC
Q psy12834 176 PCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATF 213 (275)
Q Consensus 176 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f 213 (275)
.||.|+..|.-..+- .-......+|+.|+..|
T Consensus 4 ~CP~C~~~f~v~~~~------l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDK------LPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHHH------cccCCcEEECCCCCcEe
Confidence 466666665544431 12233345666665544
No 81
>KOG2186|consensus
Probab=84.10 E-value=0.67 Score=36.08 Aligned_cols=46 Identities=22% Similarity=0.522 Sum_probs=32.1
Q ss_pred ceecccccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHH
Q psy12834 13 PYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHE 62 (275)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 62 (275)
.|.|..||....-+ .+..|+-..++ .-|.|-.|+..|.. .++..|.
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn--~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN--AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC--CeeEEeeccccccc-chhhhhh
Confidence 47788888777755 45558777775 35788888888877 5556664
No 82
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=84.10 E-value=0.65 Score=31.53 Aligned_cols=30 Identities=30% Similarity=0.803 Sum_probs=16.8
Q ss_pred cccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCCh
Q psy12834 43 FSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTL 83 (275)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~ 83 (275)
..|+.|+..|... +..|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4566666666542 22455666666666543
No 83
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=83.98 E-value=0.76 Score=24.24 Aligned_cols=32 Identities=19% Similarity=0.525 Sum_probs=15.9
Q ss_pred CCCCChhhccChhhHHHHHHhhcCCCCCcccccccccC
Q psy12834 176 PCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATF 213 (275)
Q Consensus 176 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f 213 (275)
.|+.|+..|.-.... +-......+|+.|+..|
T Consensus 4 ~Cp~C~~~y~i~d~~------ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEK------IPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHH------CCCCCcEEECCCCCCEe
Confidence 466666665554432 22333345666665544
No 84
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=83.69 E-value=0.81 Score=22.16 Aligned_cols=9 Identities=33% Similarity=0.840 Sum_probs=5.2
Q ss_pred ccccccccC
Q psy12834 205 QCDICNATF 213 (275)
Q Consensus 205 ~C~~C~~~f 213 (275)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 466666555
No 85
>KOG2186|consensus
Probab=83.63 E-value=0.68 Score=36.05 Aligned_cols=50 Identities=26% Similarity=0.554 Sum_probs=29.7
Q ss_pred cccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCChHHHHHHHHhhcC
Q psy12834 43 FSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTLRNLEVHLAVHTG 95 (275)
Q Consensus 43 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 95 (275)
|.|..|+....- ..+.+|+...++ .-|.|-.|+.+|.. .++..|..--++
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcch
Confidence 567777665543 334557766665 44677777777765 556666543333
No 86
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.61 E-value=1.4 Score=29.91 Aligned_cols=80 Identities=19% Similarity=0.158 Sum_probs=54.1
Q ss_pred CCCCCCCCChhhccChhhHHHHHHhhcCC-C------------CCcccccccccCCChhHHHHHHHhhcCCCceeCcccc
Q psy12834 172 DKRYPCTSCPKAFKRRRLLDYHIKAAHTG-E------------RPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRL 238 (275)
Q Consensus 172 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~-~------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 238 (275)
+-|-.|+.||.+..+.-.|.+-+ +|-- . ....|-.|+..|....... ...-.....|+|..|.
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSy--HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~ 88 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSY--HHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCK 88 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhh--hccCCCcccccccccccCCCCcccCcCCCCCCccccc--ccccccccceeCCCCC
Confidence 34678999999999888887653 2311 1 1124999999998654111 0002234579999999
Q ss_pred hhhhhhhHHHhhhcccc
Q psy12834 239 AVFYYVTCLFNMIQPKR 255 (275)
Q Consensus 239 ~~~~~~~~~~~H~~~~~ 255 (275)
..|-..=++..|-..|.
T Consensus 89 ~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 89 NVFCVDCDVFVHESLHC 105 (112)
T ss_pred CccccccchhhhhhccC
Confidence 99998888888876554
No 87
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=82.98 E-value=0.21 Score=36.27 Aligned_cols=20 Identities=10% Similarity=-0.147 Sum_probs=10.7
Q ss_pred eeCcccchhhhhhhHHHhhh
Q psy12834 232 YVCEVRLAVFYYVTCLFNMI 251 (275)
Q Consensus 232 ~~C~~C~~~~~~~~~~~~H~ 251 (275)
|+|..||..|.+.+.+..-+
T Consensus 29 ~~c~~c~~~f~~~e~~~~~~ 48 (154)
T PRK00464 29 RECLACGKRFTTFERVELVP 48 (154)
T ss_pred eeccccCCcceEeEeccCcc
Confidence 55555555555555554444
No 88
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.76 E-value=0.19 Score=38.89 Aligned_cols=23 Identities=22% Similarity=0.515 Sum_probs=15.6
Q ss_pred CCceecccccccccCHHHHHHHH
Q psy12834 11 ARPYECKTCKKTFVSKYTYKAHL 33 (275)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~ 33 (275)
++.++||+|+..|.+........
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCc
Confidence 56788888888887765443333
No 89
>KOG1280|consensus
Probab=82.66 E-value=0.9 Score=37.11 Aligned_cols=41 Identities=17% Similarity=0.487 Sum_probs=29.6
Q ss_pred CCCCCCCCCCChhhccChhhHHHHHHhhcCCCCC-ccccccc
Q psy12834 170 FNDKRYPCTSCPKAFKRRRLLDYHIKAAHTGERP-YQCDICN 210 (275)
Q Consensus 170 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~-~~C~~C~ 210 (275)
.....|.|++|+.+=.+...|..|+.+.|..... ..|++|+
T Consensus 75 y~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 75 YDPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 3445788999988888888888888888866542 3466664
No 90
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=82.51 E-value=0.84 Score=25.35 Aligned_cols=11 Identities=27% Similarity=0.613 Sum_probs=5.4
Q ss_pred cccccccccCC
Q psy12834 204 YQCDICNATFI 214 (275)
Q Consensus 204 ~~C~~C~~~f~ 214 (275)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 44555554443
No 91
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=82.50 E-value=0.78 Score=27.04 Aligned_cols=33 Identities=21% Similarity=0.572 Sum_probs=17.7
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccc
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNA 211 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 211 (275)
-.|.|+.||......-.- --....+|+|+.||+
T Consensus 24 ~~F~CPnCG~~~I~RC~~------CRk~~~~Y~CP~CGF 56 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEK------CRKQSNPYTCPKCGF 56 (59)
T ss_pred CEeeCCCCCCeeEeechh------HHhcCCceECCCCCC
Confidence 447788888763332211 112234577777774
No 92
>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=82.19 E-value=1.4 Score=21.32 Aligned_cols=20 Identities=20% Similarity=0.391 Sum_probs=13.0
Q ss_pred ccccccccCCChhHHHHHHHh
Q psy12834 205 QCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 205 ~C~~C~~~f~~~~~l~~H~~~ 225 (275)
.||+|++.+ ....+..|+..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 3 QCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHHH
Confidence 577777776 55666666653
No 93
>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=81.83 E-value=0.94 Score=30.77 Aligned_cols=14 Identities=21% Similarity=0.579 Sum_probs=6.6
Q ss_pred CCCCCCCChhhccC
Q psy12834 173 KRYPCTSCPKAFKR 186 (275)
Q Consensus 173 ~~~~C~~C~~~f~~ 186 (275)
.|..||+||..|.-
T Consensus 25 ~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 25 DPIVCPKCGTEFPP 38 (108)
T ss_pred CCccCCCCCCccCc
Confidence 34445555544443
No 94
>PHA00626 hypothetical protein
Probab=81.52 E-value=0.81 Score=26.49 Aligned_cols=10 Identities=30% Similarity=0.550 Sum_probs=4.7
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
|+|+.|+..|
T Consensus 24 YkCkdCGY~f 33 (59)
T PHA00626 24 YVCCDCGYND 33 (59)
T ss_pred eEcCCCCCee
Confidence 4444444444
No 95
>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=80.91 E-value=0.84 Score=35.69 Aligned_cols=26 Identities=19% Similarity=0.475 Sum_probs=16.3
Q ss_pred CCCCccCCcccccccChhHHHHHHhh
Q psy12834 95 GNRPFICRVCGKSFVRKAEVKDHERT 120 (275)
Q Consensus 95 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 120 (275)
..+++.|+.|++.......|..-.+.
T Consensus 206 k~k~~PCPKCg~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 206 KGKPIPCPKCGYETQETKDLSMSTRS 231 (314)
T ss_pred cCCCCCCCCCCCcccccccceeeeec
Confidence 45778888888766555555444433
No 96
>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=80.51 E-value=1.1 Score=32.86 Aligned_cols=30 Identities=23% Similarity=0.528 Sum_probs=18.4
Q ss_pred CCcccccchhhcccchHHHHHHhhhcCCCccccCcchhh
Q psy12834 41 RPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKA 79 (275)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 79 (275)
.-|.|+.|+..|....++. ..|.|+.||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 3466777766666665553 24677777665
No 97
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=80.04 E-value=1 Score=33.16 Aligned_cols=23 Identities=39% Similarity=0.940 Sum_probs=16.0
Q ss_pred CCCCCCChhhccChhhHHHHHHhhcCCCCCccccccc
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICN 210 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~ 210 (275)
-|.|+.||. .+.++.|-+||+|+
T Consensus 134 ~~vC~vCGy--------------~~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGY--------------THEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCC--------------cccCCCCCcCCCCC
Confidence 677888874 34446777788887
No 98
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=79.26 E-value=1.1 Score=32.54 Aligned_cols=35 Identities=17% Similarity=0.525 Sum_probs=16.3
Q ss_pred CcccccchhhcccchHHHHHHhhhcCCCccccCcchhhc
Q psy12834 42 PFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAF 80 (275)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f 80 (275)
.|.|+.|+..|.....+.. . . ....|.|+.||...
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred EEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 4666666655554333221 0 0 12226666666543
No 99
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=79.12 E-value=0.46 Score=26.67 Aligned_cols=10 Identities=30% Similarity=0.979 Sum_probs=4.6
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
|+|+.||..|
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4444444444
No 100
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=78.76 E-value=0.88 Score=24.96 Aligned_cols=11 Identities=36% Similarity=1.114 Sum_probs=5.9
Q ss_pred eeccccccccc
Q psy12834 14 YECKTCKKTFV 24 (275)
Q Consensus 14 ~~C~~C~~~f~ 24 (275)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 55555555554
No 101
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=78.65 E-value=1 Score=32.66 Aligned_cols=12 Identities=25% Similarity=0.946 Sum_probs=5.8
Q ss_pred CCCCCCChhhcc
Q psy12834 174 RYPCTSCPKAFK 185 (275)
Q Consensus 174 ~~~C~~C~~~f~ 185 (275)
.|.||.|+..|.
T Consensus 99 ~Y~Cp~C~~~y~ 110 (147)
T smart00531 99 YYKCPNCQSKYT 110 (147)
T ss_pred EEECcCCCCEee
Confidence 344555554444
No 102
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=78.62 E-value=1.3 Score=33.29 Aligned_cols=29 Identities=28% Similarity=0.722 Sum_probs=16.8
Q ss_pred CcccccchhhcccchHHHHHHhhhcCCCccccCcchhh
Q psy12834 42 PFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKA 79 (275)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 79 (275)
-|.|+.|+..|....++. ..|.|+.||..
T Consensus 117 ~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred EEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 466666666665555442 24666666654
No 103
>KOG2807|consensus
Probab=78.30 E-value=3.4 Score=33.61 Aligned_cols=26 Identities=27% Similarity=0.535 Sum_probs=19.2
Q ss_pred CCCccCCcccccccChhHHHHHHhhc
Q psy12834 96 NRPFICRVCGKSFVRKAEVKDHERTH 121 (275)
Q Consensus 96 ~~~~~C~~C~~~f~~~~~l~~H~~~~ 121 (275)
...|+|..|...|-.......|-..|
T Consensus 343 ~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCcEEchhccceeeccchHHHHhhhh
Confidence 34588888888888777777776554
No 104
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=78.11 E-value=0.72 Score=34.57 Aligned_cols=17 Identities=18% Similarity=0.469 Sum_probs=8.8
Q ss_pred CCCCCCChhhccChhhH
Q psy12834 174 RYPCTSCPKAFKRRRLL 190 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l 190 (275)
-|.|+.|+..|+...++
T Consensus 117 ~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM 133 (178)
T ss_pred EEECCCCCcEEeHHHHh
Confidence 35555555555554443
No 105
>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=77.93 E-value=1.1 Score=24.85 Aligned_cols=27 Identities=33% Similarity=0.561 Sum_probs=13.4
Q ss_pred CCCCCCCCChhhccC----hhhHHHHHHhhc
Q psy12834 172 DKRYPCTSCPKAFKR----RRLLDYHIKAAH 198 (275)
Q Consensus 172 ~~~~~C~~C~~~f~~----~~~l~~H~~~~H 198 (275)
.....|.+|++.+.. .+.|..|++..|
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 344557777766554 366666664333
No 106
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=77.91 E-value=0.27 Score=30.53 Aligned_cols=43 Identities=16% Similarity=0.221 Sum_probs=28.2
Q ss_pred cccccccccCCChhHHHHHHHhhcCCCceeCc--ccchhhhhhhHHH
Q psy12834 204 YQCDICNATFIYPEHFKKHRRIHTGEKPYVCE--VRLAVFYYVTCLF 248 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~~~~~~~~~~~ 248 (275)
+.|+.|+.......+-..... ..+..++|. .||..|.....+.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~s 46 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESVQ 46 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEEE
Confidence 568888876643333332222 556778998 8999998887774
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=77.64 E-value=0.75 Score=33.74 Aligned_cols=18 Identities=11% Similarity=0.192 Sum_probs=9.4
Q ss_pred CCCCCCCChhhccChhhH
Q psy12834 173 KRYPCTSCPKAFKRRRLL 190 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l 190 (275)
.-|.|+.|+..|+...++
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CeEECCCCCcEeeHHHHH
Confidence 345555555555554444
No 108
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=75.96 E-value=2.2 Score=24.38 Aligned_cols=26 Identities=31% Similarity=0.593 Sum_probs=19.0
Q ss_pred CCCCCCChhhccCh-----hhHHHHHHhhcC
Q psy12834 174 RYPCTSCPKAFKRR-----RLLDYHIKAAHT 199 (275)
Q Consensus 174 ~~~C~~C~~~f~~~-----~~l~~H~~~~H~ 199 (275)
.-.|..|++.+... +.|.+|++..|+
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 35699999988654 688888875554
No 109
>PF15269 zf-C2H2_7: Zinc-finger
Probab=75.67 E-value=2.1 Score=23.49 Aligned_cols=22 Identities=27% Similarity=0.460 Sum_probs=18.6
Q ss_pred cccccccccCCChhHHHHHHHh
Q psy12834 204 YQCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (275)
|+|-.|.+++...+.|.+||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 7888898888888888888764
No 110
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=75.30 E-value=1.5 Score=24.90 Aligned_cols=10 Identities=30% Similarity=0.979 Sum_probs=5.7
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
|.|..|++.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 5555555555
No 111
>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=75.16 E-value=3.2 Score=29.99 Aligned_cols=44 Identities=20% Similarity=0.297 Sum_probs=22.5
Q ss_pred hcCCCCCcccccccccCCC------hhHHHHHHH-hhc-----------CCCceeCcccchh
Q psy12834 197 AHTGERPYQCDICNATFIY------PEHFKKHRR-IHT-----------GEKPYVCEVRLAV 240 (275)
Q Consensus 197 ~H~~~~~~~C~~C~~~f~~------~~~l~~H~~-~h~-----------~~~~~~C~~C~~~ 240 (275)
.|...-..+|..|+++|-+ .+.+..|+. +.+ ++..++|-.||..
T Consensus 8 ~~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 8 IHDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp ---CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred CCCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 4666677899999999864 456778863 333 2345889888765
No 112
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=74.19 E-value=2.2 Score=29.60 Aligned_cols=31 Identities=19% Similarity=0.322 Sum_probs=17.7
Q ss_pred CcccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCCh
Q psy12834 42 PFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTL 83 (275)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~ 83 (275)
...|+.|+..|... +..|..|+.||..|.-.
T Consensus 9 Kr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 9 KRICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cccCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 34566666666542 23456666666665543
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=74.13 E-value=1.8 Score=31.82 Aligned_cols=23 Identities=39% Similarity=1.086 Sum_probs=13.4
Q ss_pred ccccCcchhhcCChHHHHHHHHhhcCCCCccCCccc
Q psy12834 70 DFVCTECGKAFGTLRNLEVHLAVHTGNRPFICRVCG 105 (275)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~ 105 (275)
.|.|++||.++. ++.|-+||+|+
T Consensus 134 ~~vC~vCGy~~~-------------ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTHE-------------GEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCccc-------------CCCCCcCCCCC
Confidence 466666666532 25566666665
No 114
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=72.87 E-value=1.7 Score=25.77 Aligned_cols=39 Identities=18% Similarity=0.359 Sum_probs=17.5
Q ss_pred Cccccc-ccccCCChhHHHHHHHhhcCCCceeCcc----cchhh
Q psy12834 203 PYQCDI-CNATFIYPEHFKKHRRIHTGEKPYVCEV----RLAVF 241 (275)
Q Consensus 203 ~~~C~~-C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~~ 241 (275)
+..|+. |+..-.....|..|+..-=...+..|.+ |+..+
T Consensus 9 ~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~ 52 (60)
T PF02176_consen 9 PVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERV 52 (60)
T ss_dssp EEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EE
T ss_pred EeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCcc
Confidence 345655 2222223456666666544455666666 66665
No 115
>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=72.42 E-value=1.2 Score=22.36 Aligned_cols=10 Identities=20% Similarity=0.135 Sum_probs=5.0
Q ss_pred CceeCcccch
Q psy12834 230 KPYVCEVRLA 239 (275)
Q Consensus 230 ~~~~C~~C~~ 239 (275)
..|.|+.|+.
T Consensus 18 ~~~vCp~C~~ 27 (30)
T PF08274_consen 18 ELLVCPECGH 27 (30)
T ss_dssp SSEEETTTTE
T ss_pred CEEeCCcccc
Confidence 3455555544
No 116
>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=70.84 E-value=0.91 Score=26.15 Aligned_cols=12 Identities=42% Similarity=1.057 Sum_probs=7.4
Q ss_pred CCCCCChhhccC
Q psy12834 175 YPCTSCPKAFKR 186 (275)
Q Consensus 175 ~~C~~C~~~f~~ 186 (275)
|.|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 556666666653
No 117
>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=70.59 E-value=0.84 Score=24.66 Aligned_cols=29 Identities=21% Similarity=0.618 Sum_probs=15.5
Q ss_pred CCCCCChhhccChhhHHHHHHhhcCCCCCcccccccc
Q psy12834 175 YPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNA 211 (275)
Q Consensus 175 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 211 (275)
|+|+.||..|...... .. .....|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~-------~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKI-------SD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEec-------CC-CCCCCCCCCCC
Confidence 5677777766543321 11 33456777765
No 118
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=70.20 E-value=3.2 Score=28.82 Aligned_cols=14 Identities=7% Similarity=0.014 Sum_probs=6.6
Q ss_pred CCCCCCCChhhccC
Q psy12834 173 KRYPCTSCPKAFKR 186 (275)
Q Consensus 173 ~~~~C~~C~~~f~~ 186 (275)
.|..|++||..|.-
T Consensus 25 ~p~vcP~cg~~~~~ 38 (129)
T TIGR02300 25 RPAVSPYTGEQFPP 38 (129)
T ss_pred CCccCCCcCCccCc
Confidence 44445555554433
No 119
>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=68.75 E-value=3.6 Score=21.03 Aligned_cols=12 Identities=17% Similarity=0.551 Sum_probs=7.7
Q ss_pred CCCCCCCCChhh
Q psy12834 172 DKRYPCTSCPKA 183 (275)
Q Consensus 172 ~~~~~C~~C~~~ 183 (275)
..+.+|+.||..
T Consensus 15 ~~~irC~~CG~R 26 (32)
T PF03604_consen 15 GDPIRCPECGHR 26 (32)
T ss_dssp SSTSSBSSSS-S
T ss_pred CCcEECCcCCCe
Confidence 345788888864
No 120
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=68.31 E-value=7 Score=31.64 Aligned_cols=94 Identities=23% Similarity=0.445 Sum_probs=50.7
Q ss_pred CCceecccccccccCHHHHHHHHHhhcCCCCCcccccchhhcccchHHHHHHhhhcCC------------CccccCcchh
Q psy12834 11 ARPYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKCDKSFYTQQNLVQHEKTHSGS------------KDFVCTECGK 78 (275)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~------------~~~~C~~C~~ 78 (275)
+..|.||.|....- .-|..|+.|+........|.+-...-..- +.-.|-.|..
T Consensus 306 ~gGy~CP~CktkVC---------------sLPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~ 370 (421)
T COG5151 306 GGGYECPVCKTKVC---------------SLPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQG 370 (421)
T ss_pred cCceeCCcccceee---------------cCCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccC
Confidence 56788888854322 12677888876554444444322111111 1123667766
Q ss_pred hcCChHHHHHHHHhhcCCCCccCCcccccccChhHHHHHHhhc
Q psy12834 79 AFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKAEVKDHERTH 121 (275)
Q Consensus 79 ~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 121 (275)
.|+....-. ...-.....|+|..|...|-.......|-..|
T Consensus 371 ~fp~~~~~~--~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 371 PFPKPPVSP--FDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred CCCCCCCCc--ccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 665432100 01112345688888888888887777776554
No 121
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=67.31 E-value=4.4 Score=23.06 Aligned_cols=38 Identities=21% Similarity=0.460 Sum_probs=17.3
Q ss_pred CCceecccccccccCHHHHHHHHHhhcCCCCCcccccc
Q psy12834 11 ARPYECKTCKKTFVSKYTYKAHLVTHTDRKRPFSCEKC 48 (275)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~C~~C 48 (275)
++.+.|..||..|.-...=+.-.....-...|-.|+.|
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~C 39 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSC 39 (49)
T ss_pred CeeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHH
Confidence 35566777766554443333333321111234455555
No 122
>KOG2907|consensus
Probab=66.81 E-value=2.9 Score=28.23 Aligned_cols=39 Identities=21% Similarity=0.412 Sum_probs=18.8
Q ss_pred CCCCCChhhccChhhHHHHHHhhc-CCCCCcccccccccCCC
Q psy12834 175 YPCTSCPKAFKRRRLLDYHIKAAH-TGERPYQCDICNATFIY 215 (275)
Q Consensus 175 ~~C~~C~~~f~~~~~l~~H~~~~H-~~~~~~~C~~C~~~f~~ 215 (275)
.+||.||-.-.....|+ +|+.= +..-.|.|+.|++.|+.
T Consensus 75 ~kCpkCghe~m~Y~T~Q--lRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQ--LRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhh--cccccCCceEEEEcCccceeeec
Confidence 56777775433222221 12111 11234777777777653
No 123
>PF14353 CpXC: CpXC protein
Probab=65.98 E-value=1.9 Score=30.37 Aligned_cols=20 Identities=20% Similarity=0.497 Sum_probs=12.2
Q ss_pred CcccccccccCCChhHHHHH
Q psy12834 203 PYQCDICNATFIYPEHFKKH 222 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H 222 (275)
.+.||.||..|.-...+.-|
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EEECCCCCCceecCCCEEEE
Confidence 36777777777655544443
No 124
>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=65.64 E-value=2.8 Score=19.81 Aligned_cols=11 Identities=36% Similarity=0.942 Sum_probs=8.7
Q ss_pred CCceecccccc
Q psy12834 11 ARPYECKTCKK 21 (275)
Q Consensus 11 ~~~~~C~~C~~ 21 (275)
..+|.||.||+
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 45799999984
No 125
>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=64.01 E-value=2.8 Score=32.37 Aligned_cols=30 Identities=27% Similarity=0.602 Sum_probs=23.5
Q ss_pred CCCCCCCCCChhhccChhhHHHHHHhhcCC
Q psy12834 171 NDKRYPCTSCPKAFKRRRLLDYHIKAAHTG 200 (275)
Q Consensus 171 ~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 200 (275)
.+..|.|+.|++.|....-+..|+...|..
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 455699999999999999999999988864
No 126
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=63.62 E-value=4.4 Score=26.18 Aligned_cols=28 Identities=21% Similarity=0.654 Sum_probs=16.9
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccc
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNA 211 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~ 211 (275)
.|-.|..||..|.+. ...+|-+||.|..
T Consensus 57 ~Pa~CkkCGfef~~~-----------~ik~pSRCP~CKS 84 (97)
T COG3357 57 RPARCKKCGFEFRDD-----------KIKKPSRCPKCKS 84 (97)
T ss_pred cChhhcccCcccccc-----------ccCCcccCCcchh
Confidence 356677777777651 1234566777754
No 127
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=63.36 E-value=6 Score=31.98 Aligned_cols=21 Identities=29% Similarity=0.512 Sum_probs=11.3
Q ss_pred CCCCCCCChhhccChhhHHHH
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYH 193 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H 193 (275)
..|+|+.|...|-..-+...|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiH 407 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIH 407 (421)
T ss_pred cceechhhhhhhhhhhHHHHH
Confidence 345555555555555555555
No 128
>KOG1280|consensus
Probab=62.88 E-value=9.3 Score=31.51 Aligned_cols=40 Identities=13% Similarity=0.453 Sum_probs=28.6
Q ss_pred CCCceecccccccccCHHHHHHHHHhhcCCC-CCcccccch
Q psy12834 10 GARPYECKTCKKTFVSKYTYKAHLVTHTDRK-RPFSCEKCD 49 (275)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~-~~~~C~~C~ 49 (275)
....|+||+|+..=.+...|+.|+...+... ....|+.|.
T Consensus 76 ~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 76 DPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 3458999999988888899999998755432 223466663
No 129
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=57.77 E-value=7 Score=36.25 Aligned_cols=13 Identities=23% Similarity=0.600 Sum_probs=7.5
Q ss_pred CCCCccccccccc
Q psy12834 200 GERPYQCDICNAT 212 (275)
Q Consensus 200 ~~~~~~C~~C~~~ 212 (275)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 4455666666644
No 130
>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=57.63 E-value=1.2 Score=23.54 Aligned_cols=9 Identities=22% Similarity=0.349 Sum_probs=4.1
Q ss_pred eCcccchhh
Q psy12834 233 VCEVRLAVF 241 (275)
Q Consensus 233 ~C~~C~~~~ 241 (275)
.|+.||..+
T Consensus 23 ~Cd~cg~~L 31 (36)
T PF05191_consen 23 VCDNCGGEL 31 (36)
T ss_dssp BCTTTTEBE
T ss_pred ccCCCCCee
Confidence 444444433
No 131
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=57.59 E-value=2 Score=38.90 Aligned_cols=57 Identities=23% Similarity=0.495 Sum_probs=40.4
Q ss_pred CCCChhhccChhhHHHHHHhhcCCCCCc-ccccccccCCChhHHHHHHHhhcCCCceeCcccchhh
Q psy12834 177 CTSCPKAFKRRRLLDYHIKAAHTGERPY-QCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVF 241 (275)
Q Consensus 177 C~~C~~~f~~~~~l~~H~~~~H~~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~ 241 (275)
|..||-.|+-...|--= ...+....| .|+.|.+.+.+..+-+.|. +|..|+.||=..
T Consensus 126 CT~CGPRfTIi~alPYD--R~nTsM~~F~lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP~~ 183 (750)
T COG0068 126 CTNCGPRFTIIEALPYD--RENTSMADFPLCPFCDKEYKDPLNRRFHA------QPIACPKCGPHL 183 (750)
T ss_pred cCCCCcceeeeccCCCC--cccCccccCcCCHHHHHHhcCcccccccc------ccccCcccCCCe
Confidence 99999999876665321 234444444 5999999998888877763 567899998754
No 132
>KOG3408|consensus
Probab=56.39 E-value=7.4 Score=26.73 Aligned_cols=28 Identities=21% Similarity=0.471 Sum_probs=24.1
Q ss_pred CCCCCCCCCCCChhhccChhhHHHHHHh
Q psy12834 169 HFNDKRYPCTSCPKAFKRRRLLDYHIKA 196 (275)
Q Consensus 169 h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 196 (275)
-++...|.|-.|.+-|.+...|..|.++
T Consensus 52 lPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 52 LPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 4566779999999999999999999875
No 133
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=55.94 E-value=12 Score=20.29 Aligned_cols=11 Identities=18% Similarity=0.721 Sum_probs=6.0
Q ss_pred CCCCCChhhcc
Q psy12834 175 YPCTSCPKAFK 185 (275)
Q Consensus 175 ~~C~~C~~~f~ 185 (275)
-.|+.||..|.
T Consensus 14 ~~C~~CgM~Y~ 24 (41)
T PF13878_consen 14 TTCPTCGMLYS 24 (41)
T ss_pred cCCCCCCCEEC
Confidence 34666665554
No 134
>PRK04023 DNA polymerase II large subunit; Validated
Probab=55.22 E-value=11 Score=36.05 Aligned_cols=12 Identities=25% Similarity=0.628 Sum_probs=8.1
Q ss_pred CCceeccccccc
Q psy12834 11 ARPYECKTCKKT 22 (275)
Q Consensus 11 ~~~~~C~~C~~~ 22 (275)
.....|+.||..
T Consensus 624 Vg~RfCpsCG~~ 635 (1121)
T PRK04023 624 IGRRKCPSCGKE 635 (1121)
T ss_pred ccCccCCCCCCc
Confidence 345678888775
No 135
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=54.38 E-value=8.6 Score=35.68 Aligned_cols=47 Identities=15% Similarity=0.248 Sum_probs=27.9
Q ss_pred CCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchh
Q psy12834 177 CTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAV 240 (275)
Q Consensus 177 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 240 (275)
|..||..+.-..-= ..-+.|......+|.+|| +....|..|+.||-.
T Consensus 438 C~~Cg~v~~Cp~Cd--~~lt~H~~~~~L~CH~Cg---------------~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 438 CRDCGYIAECPNCD--SPLTLHKATGQLRCHYCG---------------YQEPIPQSCPECGSE 484 (730)
T ss_pred cccCCCcccCCCCC--cceEEecCCCeeEeCCCC---------------CCCCCCCCCCCCCCC
Confidence 77776654421100 001245555667787777 445678899999876
No 136
>KOG1842|consensus
Probab=53.73 E-value=8.7 Score=32.84 Aligned_cols=30 Identities=20% Similarity=0.410 Sum_probs=26.7
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCCC
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGER 202 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 202 (275)
..|.||+|...|.+...|..|+...|..+.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 458999999999999999999998898653
No 137
>KOG2593|consensus
Probab=53.41 E-value=7.6 Score=33.08 Aligned_cols=35 Identities=23% Similarity=0.680 Sum_probs=17.2
Q ss_pred CCcccccchhhcccchHHHHHHhhhcCCCccccCcchh
Q psy12834 41 RPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGK 78 (275)
Q Consensus 41 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~ 78 (275)
..|.|+.|.+.|.....+.. .......|.|..|+.
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 34666666666655444322 111223466666654
No 138
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.72 E-value=14 Score=35.34 Aligned_cols=10 Identities=40% Similarity=0.870 Sum_probs=5.5
Q ss_pred cccccccccc
Q psy12834 127 YQCEFCGAQF 136 (275)
Q Consensus 127 ~~c~~c~~~~ 136 (275)
+.|+.|+...
T Consensus 664 y~CPKCG~El 673 (1121)
T PRK04023 664 DECEKCGREP 673 (1121)
T ss_pred CcCCCCCCCC
Confidence 4466665554
No 139
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=52.11 E-value=2.6 Score=27.83 Aligned_cols=11 Identities=27% Similarity=0.911 Sum_probs=5.9
Q ss_pred CCCCCCCChhh
Q psy12834 173 KRYPCTSCPKA 183 (275)
Q Consensus 173 ~~~~C~~C~~~ 183 (275)
+.|.|+.|+..
T Consensus 21 k~FtCp~Cghe 31 (104)
T COG4888 21 KTFTCPRCGHE 31 (104)
T ss_pred ceEecCccCCe
Confidence 34556666543
No 140
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=51.01 E-value=7.1 Score=22.35 Aligned_cols=11 Identities=27% Similarity=0.782 Sum_probs=6.8
Q ss_pred CCccccccccc
Q psy12834 202 RPYQCDICNAT 212 (275)
Q Consensus 202 ~~~~C~~C~~~ 212 (275)
..+.|..|+..
T Consensus 36 ~r~~C~~Cgyt 46 (50)
T PRK00432 36 DRWHCGKCGYT 46 (50)
T ss_pred CcEECCCcCCE
Confidence 44667777654
No 141
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=50.97 E-value=4.2 Score=22.71 Aligned_cols=9 Identities=22% Similarity=0.936 Sum_probs=5.3
Q ss_pred CCCCCChhh
Q psy12834 175 YPCTSCPKA 183 (275)
Q Consensus 175 ~~C~~C~~~ 183 (275)
+.||.||..
T Consensus 19 ~~CP~Cg~~ 27 (46)
T PF12760_consen 19 FVCPHCGST 27 (46)
T ss_pred CCCCCCCCe
Confidence 447777643
No 142
>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=50.85 E-value=9.8 Score=33.12 Aligned_cols=29 Identities=21% Similarity=0.455 Sum_probs=25.7
Q ss_pred CCCCCCCChhhccChhhHHHHHHhhcCCC
Q psy12834 173 KRYPCTSCPKAFKRRRLLDYHIKAAHTGE 201 (275)
Q Consensus 173 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 201 (275)
+-|.|+.|.+.|.+...+..|+...|.+.
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 34789999999999999999999889764
No 143
>KOG2593|consensus
Probab=50.10 E-value=11 Score=32.17 Aligned_cols=40 Identities=20% Similarity=0.551 Sum_probs=24.1
Q ss_pred CCCCCCCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccC
Q psy12834 170 FNDKRYPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATF 213 (275)
Q Consensus 170 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f 213 (275)
.+...|.|+.|.+.|.....+.- .-.....|.|..|+-..
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L----~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL----LDNETGEFHCENCGGEL 163 (436)
T ss_pred cccccccCCccccchhhhHHHHh----hcccCceEEEecCCCch
Confidence 34456778888877777666531 22333447777776543
No 144
>KOG2071|consensus
Probab=48.64 E-value=21 Score=31.84 Aligned_cols=90 Identities=17% Similarity=0.237 Sum_probs=0.0
Q ss_pred CCCCccCCcccccccChhHHHHHHhhccC---------CCCccccccccccccccCCCcccccccccccccccc------
Q psy12834 95 GNRPFICRVCGKSFVRKAEVKDHERTHTG---------EKPYQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRS------ 159 (275)
Q Consensus 95 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~---------~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~------ 159 (275)
...+..|..||..|.+......|+..|-. ...-.=..+..+|...+.+.....++..........
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n~~~r~s~~~~~sR~Wf~s~s~W~~~K~~e~t~e~~~~~~~~~~~~ 494 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKNTTIRGSSKWQKSRSWFPSKSGWLAAKAGEETDEKEKVEHEELQIK 494 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhhhhhhhhhhcccccccccccceeechhhhccccccccccccccccchhhcch
Q ss_pred ---hHHHHHhhcCCC-CCCCCCCCChhhc
Q psy12834 160 ---NLQSHKRATHFN-DKRYPCTSCPKAF 184 (275)
Q Consensus 160 ---~~~~h~~~~h~~-~~~~~C~~C~~~f 184 (275)
.+..-...+... ++...|++|+..|
T Consensus 495 ~~~s~~~k~~~Vp~d~e~~~~C~IC~EkF 523 (579)
T KOG2071|consen 495 KELSLRSKYELVPADSERQASCPICQEKF 523 (579)
T ss_pred hhhhhhccceecccCcccccCCccccccc
No 145
>KOG1701|consensus
Probab=46.82 E-value=1.8 Score=36.49 Aligned_cols=40 Identities=20% Similarity=0.356 Sum_probs=24.0
Q ss_pred ccccchhhcccchHHHHHHhhhcCCCccccCcchhhcCCh
Q psy12834 44 SCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFGTL 83 (275)
Q Consensus 44 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~ 83 (275)
.|..|++...-...--.-|..-....-|+|..|++.....
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq 315 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQ 315 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccc
Confidence 5777877655544444444443345568888887765543
No 146
>KOG3408|consensus
Probab=46.23 E-value=14 Score=25.43 Aligned_cols=26 Identities=27% Similarity=0.652 Sum_probs=18.9
Q ss_pred CCCceecccccccccCHHHHHHHHHh
Q psy12834 10 GARPYECKTCKKTFVSKYTYKAHLVT 35 (275)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 35 (275)
|...|-|-.|.+.|.+...|+.|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44567777788888877777777764
No 147
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.91 E-value=4.6 Score=31.19 Aligned_cols=25 Identities=16% Similarity=0.416 Sum_probs=17.3
Q ss_pred CCceecccccccccCHHHHHHHHHh
Q psy12834 11 ARPYECKTCKKTFVSKYTYKAHLVT 35 (275)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~ 35 (275)
++.+.||+|+..|.....+..-.++
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRi 41 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRI 41 (267)
T ss_pred hceeccCcccchhhhhheeccceeE
Confidence 5678899999888876555444443
No 148
>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=45.90 E-value=7.9 Score=22.57 Aligned_cols=30 Identities=20% Similarity=0.402 Sum_probs=14.6
Q ss_pred cccccccccCCChhHHHHHHHhhcCCCceeCcccchhh
Q psy12834 204 YQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVF 241 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~ 241 (275)
++||.|+..+.-.... .+ ....|+.||..+
T Consensus 3 ~~CP~CG~~iev~~~~-------~G-eiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPE-------LG-ELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCc-------cC-CEEeCCCCCCEE
Confidence 4566666555332221 11 235666666654
No 149
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=45.87 E-value=20 Score=35.34 Aligned_cols=10 Identities=50% Similarity=1.168 Sum_probs=5.1
Q ss_pred cccccccccc
Q psy12834 127 YQCEFCGAQF 136 (275)
Q Consensus 127 ~~c~~c~~~~ 136 (275)
|.|+.|+...
T Consensus 693 y~CPsCGaev 702 (1337)
T PRK14714 693 YVCPDCGAEV 702 (1337)
T ss_pred eeCccCCCcc
Confidence 4555555544
No 150
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=45.09 E-value=18 Score=28.01 Aligned_cols=26 Identities=19% Similarity=0.350 Sum_probs=13.4
Q ss_pred CcccccchhhcccchHHHHHHhhhcC
Q psy12834 42 PFSCEKCDKSFYTQQNLVQHEKTHSG 67 (275)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~~~~~ 67 (275)
.|.|+.|++.|.-..-..+|+...|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 45666666666666656666555543
No 151
>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=44.99 E-value=14 Score=19.76 Aligned_cols=10 Identities=20% Similarity=0.534 Sum_probs=3.1
Q ss_pred eeCcccchhh
Q psy12834 232 YVCEVRLAVF 241 (275)
Q Consensus 232 ~~C~~C~~~~ 241 (275)
|-|++|+..|
T Consensus 4 yyCdyC~~~~ 13 (38)
T PF06220_consen 4 YYCDYCKKYL 13 (38)
T ss_dssp -B-TTT--B-
T ss_pred eeccccccee
Confidence 5566666666
No 152
>KOG2807|consensus
Probab=44.99 E-value=31 Score=28.40 Aligned_cols=25 Identities=24% Similarity=0.248 Sum_probs=16.3
Q ss_pred ceeCcccchhhhhhhHHHhhhcccc
Q psy12834 231 PYVCEVRLAVFYYVTCLFNMIQPKR 255 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H~~~~~ 255 (275)
.|.|..|...|...=+...|-..|.
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred cEEchhccceeeccchHHHHhhhhc
Confidence 4777777777766666666655443
No 153
>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=44.69 E-value=4.8 Score=21.24 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=4.8
Q ss_pred cCCCceeCccc
Q psy12834 227 TGEKPYVCEVR 237 (275)
Q Consensus 227 ~~~~~~~C~~C 237 (275)
.|.+.|.|..|
T Consensus 25 ~G~qryrC~~C 35 (36)
T PF03811_consen 25 SGHQRYRCKDC 35 (36)
T ss_pred CCCEeEecCcC
Confidence 33344444444
No 154
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=43.35 E-value=11 Score=27.25 Aligned_cols=36 Identities=25% Similarity=0.728 Sum_probs=17.6
Q ss_pred CCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchhh
Q psy12834 201 ERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVF 241 (275)
Q Consensus 201 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~ 241 (275)
.-+|.|. |+..|.+ .+.|-.+-.|+ .|.|+.|+...
T Consensus 115 ~~~Y~C~-C~q~~l~---~RRhn~~~~g~-~YrC~~C~gkL 150 (156)
T COG3091 115 TYPYRCQ-CQQHYLR---IRRHNTVRRGE-VYRCGKCGGKL 150 (156)
T ss_pred ceeEEee-cCCccch---hhhcccccccc-eEEeccCCceE
Confidence 3346666 6655432 22333333444 56666666543
No 155
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=42.99 E-value=15 Score=25.79 Aligned_cols=15 Identities=27% Similarity=0.671 Sum_probs=8.3
Q ss_pred CCCCCCChhhccChh
Q psy12834 174 RYPCTSCPKAFKRRR 188 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~ 188 (275)
|++|..||+.|.+.+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 345666666665544
No 156
>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=42.43 E-value=15 Score=26.08 Aligned_cols=26 Identities=27% Similarity=0.526 Sum_probs=15.7
Q ss_pred CCCCCCCCCChhhccChhhHHHHHHhhcC
Q psy12834 171 NDKRYPCTSCPKAFKRRRLLDYHIKAAHT 199 (275)
Q Consensus 171 ~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 199 (275)
.+....|.+||+.|... .+|++++|.
T Consensus 69 ~~d~i~clecGk~~k~L---krHL~~~~g 94 (132)
T PF05443_consen 69 TPDYIICLECGKKFKTL---KRHLRTHHG 94 (132)
T ss_dssp -SS-EE-TBT--EESBH---HHHHHHTT-
T ss_pred ccCeeEEccCCcccchH---HHHHHHccC
Confidence 34457799999999875 799986654
No 157
>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=42.31 E-value=17 Score=20.96 Aligned_cols=22 Identities=18% Similarity=0.135 Sum_probs=7.5
Q ss_pred ceeCcccchhhhhhhHHHhhhc
Q psy12834 231 PYVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H~~ 252 (275)
.|+|+.|+..|-..=++..|-.
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~ 42 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHET 42 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTT
T ss_pred eEECCCCCCccccCcChhhhcc
Confidence 3444444444444444444443
No 158
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=41.98 E-value=11 Score=21.35 Aligned_cols=8 Identities=13% Similarity=0.185 Sum_probs=3.8
Q ss_pred eeCcccch
Q psy12834 232 YVCEVRLA 239 (275)
Q Consensus 232 ~~C~~C~~ 239 (275)
+.|+.|+.
T Consensus 38 ~~CGkCgy 45 (51)
T COG1998 38 WACGKCGY 45 (51)
T ss_pred eEeccccc
Confidence 44555543
No 159
>KOG4167|consensus
Probab=41.41 E-value=8.8 Score=35.03 Aligned_cols=27 Identities=26% Similarity=0.598 Sum_probs=22.6
Q ss_pred CCCCCCCCChhhccChhhHHHHHHhhc
Q psy12834 172 DKRYPCTSCPKAFKRRRLLDYHIKAAH 198 (275)
Q Consensus 172 ~~~~~C~~C~~~f~~~~~l~~H~~~~H 198 (275)
..-|.|.+|++.|....++..|++++-
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 445889999999999999999998543
No 160
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.90 E-value=12 Score=23.40 Aligned_cols=11 Identities=45% Similarity=1.250 Sum_probs=6.0
Q ss_pred ceecccccccc
Q psy12834 13 PYECKTCKKTF 23 (275)
Q Consensus 13 ~~~C~~C~~~f 23 (275)
.|+|..|+..|
T Consensus 12 ~Y~c~~cg~~~ 22 (82)
T COG2331 12 SYECTECGNRF 22 (82)
T ss_pred EEeecccchHH
Confidence 35566665544
No 161
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=40.26 E-value=11 Score=24.23 Aligned_cols=10 Identities=40% Similarity=1.288 Sum_probs=4.2
Q ss_pred cccCcchhhc
Q psy12834 71 FVCTECGKAF 80 (275)
Q Consensus 71 ~~C~~C~~~f 80 (275)
|.|..|+..|
T Consensus 54 W~C~kCg~~f 63 (89)
T COG1997 54 WKCRKCGAKF 63 (89)
T ss_pred EEcCCCCCee
Confidence 4444444433
No 162
>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=40.05 E-value=14 Score=19.02 Aligned_cols=21 Identities=5% Similarity=-0.108 Sum_probs=14.2
Q ss_pred ceeCcccchhhhhhhHHHhhhc
Q psy12834 231 PYVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H~~ 252 (275)
.+.|+.|++.+ ..+-+..|+.
T Consensus 4 ~~~C~nC~R~v-~a~RfA~HLe 24 (33)
T PF08209_consen 4 YVECPNCGRPV-AASRFAPHLE 24 (33)
T ss_dssp EEE-TTTSSEE-EGGGHHHHHH
T ss_pred eEECCCCcCCc-chhhhHHHHH
Confidence 47888888875 5666777774
No 163
>KOG2272|consensus
Probab=39.83 E-value=16 Score=28.66 Aligned_cols=65 Identities=20% Similarity=0.325 Sum_probs=32.7
Q ss_pred ccccCcchhhcCChHHHHHHHHhhcC-CCCccCCccc---ccccChhHHHHHHhhccCCCCcccccccccc
Q psy12834 70 DFVCTECGKAFGTLRNLEVHLAVHTG-NRPFICRVCG---KSFVRKAEVKDHERTHTGEKPYQCEFCGAQF 136 (275)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~-~~~~~C~~C~---~~f~~~~~l~~H~~~~~~~~~~~c~~c~~~~ 136 (275)
-|+|..|++...+-+.-..-...... -..+.+++|+ +... .....-+-.|+....|.|..|.+.|
T Consensus 163 HFkCt~C~keL~sdaRevk~eLyClrChD~mgipiCgaC~rpIe--ervi~amgKhWHveHFvCa~CekPF 231 (332)
T KOG2272|consen 163 HFKCTTCGKELTSDAREVKGELYCLRCHDKMGIPICGACRRPIE--ERVIFAMGKHWHVEHFVCAKCEKPF 231 (332)
T ss_pred ceecccccccccchhhhhccceeccccccccCCcccccccCchH--HHHHHHhccccchhheeehhcCCcc
Confidence 36888888877664321100000000 0112334443 3332 2233345556666679999999988
No 164
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=38.51 E-value=24 Score=23.48 Aligned_cols=14 Identities=36% Similarity=0.664 Sum_probs=8.7
Q ss_pred CcccccccccCCCh
Q psy12834 203 PYQCDICNATFIYP 216 (275)
Q Consensus 203 ~~~C~~C~~~f~~~ 216 (275)
|++|..||..|.+-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 45666666666653
No 165
>COG4640 Predicted membrane protein [Function unknown]
Probab=38.45 E-value=23 Score=29.95 Aligned_cols=24 Identities=21% Similarity=0.414 Sum_probs=16.2
Q ss_pred cCCCCCcccccccccCCChhHHHH
Q psy12834 198 HTGERPYQCDICNATFIYPEHFKK 221 (275)
Q Consensus 198 H~~~~~~~C~~C~~~f~~~~~l~~ 221 (275)
+..+..++|+.||..|....++..
T Consensus 10 qk~Ed~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 10 QKAEDDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred ccccccccccccCCcCCchhhhhh
Confidence 344555668888888887766655
No 166
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.13 E-value=20 Score=24.18 Aligned_cols=14 Identities=14% Similarity=0.150 Sum_probs=7.8
Q ss_pred CCCCCCCCCChhhc
Q psy12834 171 NDKRYPCTSCPKAF 184 (275)
Q Consensus 171 ~~~~~~C~~C~~~f 184 (275)
+..|..||+||+.|
T Consensus 23 NrdPiVsPytG~s~ 36 (129)
T COG4530 23 NRDPIVSPYTGKSY 36 (129)
T ss_pred CCCccccCcccccc
Confidence 34455566666655
No 167
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=38.01 E-value=17 Score=24.99 Aligned_cols=11 Identities=18% Similarity=0.441 Sum_probs=5.1
Q ss_pred ceecccccccc
Q psy12834 13 PYECKTCKKTF 23 (275)
Q Consensus 13 ~~~C~~C~~~f 23 (275)
.++|+.|+..|
T Consensus 70 ~~~C~~Cg~~~ 80 (113)
T PRK12380 70 QAWCWDCSQVV 80 (113)
T ss_pred EEEcccCCCEE
Confidence 34455554444
No 168
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=37.94 E-value=15 Score=19.77 Aligned_cols=11 Identities=36% Similarity=0.902 Sum_probs=4.4
Q ss_pred ccCcchhhcCC
Q psy12834 72 VCTECGKAFGT 82 (275)
Q Consensus 72 ~C~~C~~~f~~ 82 (275)
.|+.|+-.|..
T Consensus 21 ~C~~C~G~W~d 31 (41)
T PF13453_consen 21 VCPSCGGIWFD 31 (41)
T ss_pred ECCCCCeEEcc
Confidence 34444444333
No 169
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.08 E-value=9.5 Score=27.16 Aligned_cols=12 Identities=25% Similarity=0.947 Sum_probs=6.6
Q ss_pred cccCcchhhcCC
Q psy12834 71 FVCTECGKAFGT 82 (275)
Q Consensus 71 ~~C~~C~~~f~~ 82 (275)
+.|+.|+..|..
T Consensus 71 ~~C~~CG~~~~~ 82 (135)
T PRK03824 71 LKCRNCGNEWSL 82 (135)
T ss_pred EECCCCCCEEec
Confidence 556666655543
No 170
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=36.98 E-value=31 Score=20.21 Aligned_cols=14 Identities=14% Similarity=0.432 Sum_probs=7.5
Q ss_pred CCCcccccccccCC
Q psy12834 201 ERPYQCDICNATFI 214 (275)
Q Consensus 201 ~~~~~C~~C~~~f~ 214 (275)
...|.|+.||..+.
T Consensus 12 ~v~~~Cp~cGipth 25 (55)
T PF13824_consen 12 HVNFECPDCGIPTH 25 (55)
T ss_pred ccCCcCCCCCCcCc
Confidence 33466666665543
No 171
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=36.85 E-value=6.3 Score=22.93 Aligned_cols=10 Identities=30% Similarity=0.833 Sum_probs=5.2
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
..|+.|+..+
T Consensus 22 VvCp~Cgapy 31 (54)
T PF14446_consen 22 VVCPECGAPY 31 (54)
T ss_pred EECCCCCCcc
Confidence 4555555444
No 172
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=36.62 E-value=4.8 Score=22.65 Aligned_cols=14 Identities=14% Similarity=-0.038 Sum_probs=7.5
Q ss_pred CceeCcc--cchhhhh
Q psy12834 230 KPYVCEV--RLAVFYY 243 (275)
Q Consensus 230 ~~~~C~~--C~~~~~~ 243 (275)
..|+|.. ||..|..
T Consensus 24 ~Y~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 24 LYCQCTNPECGHTFVA 39 (47)
T ss_pred EEEEECCCcCCCEEEE
Confidence 3456655 6655543
No 173
>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=36.44 E-value=8.8 Score=25.02 Aligned_cols=30 Identities=27% Similarity=0.738 Sum_probs=18.0
Q ss_pred CcccccchhhcccchHHHHHHhhhcCCCccccCcchhhcC
Q psy12834 42 PFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVCTECGKAFG 81 (275)
Q Consensus 42 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~ 81 (275)
.|.|+.|++.---.. ....|.|..|++.|.
T Consensus 35 ky~Cp~Cgk~~vkR~----------a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 35 KYTCPFCGKTSVKRV----------ATGIWKCKKCGKKFA 64 (90)
T ss_dssp -BEESSSSSSEEEEE----------ETTEEEETTTTEEEE
T ss_pred CCcCCCCCCceeEEe----------eeEEeecCCCCCEEe
Confidence 588888876432111 234578888887654
No 174
>KOG0782|consensus
Probab=36.29 E-value=7.7 Score=34.29 Aligned_cols=22 Identities=32% Similarity=0.537 Sum_probs=10.4
Q ss_pred hhhcccCCCCceeccccccccc
Q psy12834 3 DHLVSHTGARPYECKTCKKTFV 24 (275)
Q Consensus 3 ~~~~~~~~~~~~~C~~C~~~f~ 24 (275)
+|++.|.-...=+|..|++.|.
T Consensus 243 rHHWVHrrRqeGkC~~CgKgFQ 264 (1004)
T KOG0782|consen 243 RHHWVHRRRQEGKCNTCGKGFQ 264 (1004)
T ss_pred HHhHhhHhhhccccchhhhhhh
Confidence 3444444444444555555544
No 175
>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=36.26 E-value=17 Score=22.19 Aligned_cols=11 Identities=36% Similarity=0.791 Sum_probs=4.0
Q ss_pred CCCCCChhhcc
Q psy12834 175 YPCTSCPKAFK 185 (275)
Q Consensus 175 ~~C~~C~~~f~ 185 (275)
-.|..|++.|.
T Consensus 10 ~~C~~C~~~F~ 20 (69)
T PF01363_consen 10 SNCMICGKKFS 20 (69)
T ss_dssp SB-TTT--B-B
T ss_pred CcCcCcCCcCC
Confidence 34666776663
No 176
>KOG4124|consensus
Probab=36.10 E-value=7.4 Score=32.07 Aligned_cols=24 Identities=46% Similarity=0.877 Sum_probs=18.4
Q ss_pred CCCCCCC--CChhhccChhhHHHHHH
Q psy12834 172 DKRYPCT--SCPKAFKRRRLLDYHIK 195 (275)
Q Consensus 172 ~~~~~C~--~C~~~f~~~~~l~~H~~ 195 (275)
.++|.|+ .|++.+.+...|..|-.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~ 372 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKL 372 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccc
Confidence 3568885 59999998888887754
No 177
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=35.68 E-value=17 Score=19.46 Aligned_cols=13 Identities=15% Similarity=0.235 Sum_probs=9.7
Q ss_pred ceeCcccchhhhh
Q psy12834 231 PYVCEVRLAVFYY 243 (275)
Q Consensus 231 ~~~C~~C~~~~~~ 243 (275)
||.|..|+..|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 6788888887743
No 178
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=35.56 E-value=29 Score=20.10 Aligned_cols=12 Identities=17% Similarity=0.839 Sum_probs=5.5
Q ss_pred eecccccccccC
Q psy12834 14 YECKTCKKTFVS 25 (275)
Q Consensus 14 ~~C~~C~~~f~~ 25 (275)
++|+.||..|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 445555444443
No 179
>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=35.55 E-value=30 Score=30.89 Aligned_cols=12 Identities=25% Similarity=0.678 Sum_probs=7.1
Q ss_pred CCCccccccccc
Q psy12834 201 ERPYQCDICNAT 212 (275)
Q Consensus 201 ~~~~~C~~C~~~ 212 (275)
..|..||.|+..
T Consensus 251 ~~~~~Cp~C~s~ 262 (505)
T TIGR00595 251 PIPKTCPQCGSE 262 (505)
T ss_pred CCCCCCCCCCCC
Confidence 344567777653
No 180
>PRK10220 hypothetical protein; Provisional
Probab=35.29 E-value=20 Score=24.25 Aligned_cols=12 Identities=17% Similarity=0.758 Sum_probs=5.9
Q ss_pred Ccccccchhhcc
Q psy12834 42 PFSCEKCDKSFY 53 (275)
Q Consensus 42 ~~~C~~C~~~f~ 53 (275)
.|.|++|+..|.
T Consensus 20 ~~vCpeC~hEW~ 31 (111)
T PRK10220 20 MYICPECAHEWN 31 (111)
T ss_pred eEECCcccCcCC
Confidence 355555554443
No 181
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=35.09 E-value=20 Score=21.80 Aligned_cols=12 Identities=33% Similarity=0.991 Sum_probs=6.4
Q ss_pred CccccCcchhhc
Q psy12834 69 KDFVCTECGKAF 80 (275)
Q Consensus 69 ~~~~C~~C~~~f 80 (275)
..|.|+.||...
T Consensus 45 r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 45 RVFTCPNCGFEM 56 (69)
T ss_pred ceEEcCCCCCEE
Confidence 345566665543
No 182
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=34.00 E-value=27 Score=24.64 Aligned_cols=55 Identities=24% Similarity=0.486 Sum_probs=28.1
Q ss_pred CCCcccccchhhcccchHHHHHHhhhcCCCcccc---CcchhhcCChHHHHHHHHhhcCCCCccCCcccccccChh
Q psy12834 40 KRPFSCEKCDKSFYTQQNLVQHEKTHSGSKDFVC---TECGKAFGTLRNLEVHLAVHTGNRPFICRVCGKSFVRKA 112 (275)
Q Consensus 40 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C---~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~ 112 (275)
.+.|+|.+|..+...+.-| +|-.| .+|+.- -..|+.|-..| =.|+.|..+|.+..
T Consensus 78 ~~lYeCnIC~etS~ee~FL----------KPneCCgY~iCn~C---ya~LWK~~~~y-----pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFL----------KPNECCGYSICNAC---YANLWKFCNLY-----PVCPVCKTSFKSSS 135 (140)
T ss_pred CCceeccCcccccchhhcC----------CcccccchHHHHHH---HHHHHHHcccC-----CCCCcccccccccc
Confidence 3678888887654332211 22222 223322 24455554433 25778877776653
No 183
>PRK04351 hypothetical protein; Provisional
Probab=33.72 E-value=18 Score=26.32 Aligned_cols=12 Identities=25% Similarity=0.376 Sum_probs=6.5
Q ss_pred CceeCcccchhh
Q psy12834 230 KPYVCEVRLAVF 241 (275)
Q Consensus 230 ~~~~C~~C~~~~ 241 (275)
..|.|+.|+-.+
T Consensus 131 ~~yrCg~C~g~L 142 (149)
T PRK04351 131 KRYRCGKCRGKL 142 (149)
T ss_pred CcEEeCCCCcEe
Confidence 445666665544
No 184
>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=32.59 E-value=18 Score=20.96 Aligned_cols=14 Identities=14% Similarity=0.427 Sum_probs=7.4
Q ss_pred ecccccccccCHHH
Q psy12834 15 ECKTCKKTFVSKYT 28 (275)
Q Consensus 15 ~C~~C~~~f~~~~~ 28 (275)
.||+|++.|.....
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 89999998876543
No 185
>KOG2636|consensus
Probab=32.51 E-value=34 Score=29.48 Aligned_cols=24 Identities=17% Similarity=0.462 Sum_probs=14.0
Q ss_pred CCCcccccch-hhcccchHHHHHHh
Q psy12834 40 KRPFSCEKCD-KSFYTQQNLVQHEK 63 (275)
Q Consensus 40 ~~~~~C~~C~-~~f~~~~~l~~H~~ 63 (275)
...|.|.+|+ +++.....+.+|-.
T Consensus 399 ~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 399 DIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CcccceeeccCccccCcHHHHHHhH
Confidence 3456666664 56666666666643
No 186
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=32.48 E-value=49 Score=19.35 Aligned_cols=16 Identities=19% Similarity=0.359 Sum_probs=6.8
Q ss_pred CCCCCChhhccChhhH
Q psy12834 175 YPCTSCPKAFKRRRLL 190 (275)
Q Consensus 175 ~~C~~C~~~f~~~~~l 190 (275)
+-|-.||..|.+...|
T Consensus 28 ~YC~~Cg~~Y~d~~dL 43 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDL 43 (55)
T ss_pred ceeeeeCCccCCHHHH
Confidence 3344444444444443
No 187
>KOG3214|consensus
Probab=32.43 E-value=14 Score=24.39 Aligned_cols=13 Identities=31% Similarity=0.779 Sum_probs=7.8
Q ss_pred cccccccccCCCh
Q psy12834 204 YQCDICNATFIYP 216 (275)
Q Consensus 204 ~~C~~C~~~f~~~ 216 (275)
..|.+|+.+|...
T Consensus 48 ~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 48 ASCRICEESFQTT 60 (109)
T ss_pred eeeeehhhhhccc
Confidence 4566666666543
No 188
>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=32.14 E-value=18 Score=24.83 Aligned_cols=11 Identities=27% Similarity=0.860 Sum_probs=4.7
Q ss_pred eeccccccccc
Q psy12834 14 YECKTCKKTFV 24 (275)
Q Consensus 14 ~~C~~C~~~f~ 24 (275)
++|..||..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PF01155_consen 71 ARCRDCGHEFE 81 (113)
T ss_dssp EEETTTS-EEE
T ss_pred EECCCCCCEEe
Confidence 44444544443
No 189
>KOG1842|consensus
Probab=32.03 E-value=28 Score=29.96 Aligned_cols=29 Identities=14% Similarity=0.245 Sum_probs=25.0
Q ss_pred CceecccccccccCHHHHHHHHHhhcCCC
Q psy12834 12 RPYECKTCKKTFVSKYTYKAHLVTHTDRK 40 (275)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 40 (275)
..|.||+|...|.+...|..|....|+++
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 46999999999999999999998766543
No 190
>KOG0717|consensus
Probab=31.63 E-value=26 Score=30.32 Aligned_cols=22 Identities=27% Similarity=0.640 Sum_probs=20.0
Q ss_pred cccccccccCCChhHHHHHHHh
Q psy12834 204 YQCDICNATFIYPEHFKKHRRI 225 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (275)
+-|.+|+++|.+.-+|.+|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999865
No 191
>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=31.59 E-value=38 Score=29.67 Aligned_cols=24 Identities=21% Similarity=0.520 Sum_probs=21.3
Q ss_pred eecccccccccCHHHHHHHHHhhc
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVTHT 37 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~~~ 37 (275)
+.||.|.+.|.+...+..|+...|
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH 81 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEH 81 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhh
Confidence 569999999999999999998644
No 192
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=31.45 E-value=28 Score=18.70 Aligned_cols=10 Identities=20% Similarity=0.846 Sum_probs=4.3
Q ss_pred CCcccccchh
Q psy12834 41 RPFSCEKCDK 50 (275)
Q Consensus 41 ~~~~C~~C~~ 50 (275)
+.|.|+.|+.
T Consensus 23 ~~w~C~~C~~ 32 (40)
T PF04810_consen 23 KTWICNFCGT 32 (40)
T ss_dssp TEEEETTT--
T ss_pred CEEECcCCCC
Confidence 3455555543
No 193
>KOG4118|consensus
Probab=31.36 E-value=16 Score=21.98 Aligned_cols=30 Identities=13% Similarity=0.082 Sum_probs=15.9
Q ss_pred eeCcccchhhhhhhHHHhhhcccccccCCc
Q psy12834 232 YVCEVRLAVFYYVTCLFNMIQPKRFRLGRP 261 (275)
Q Consensus 232 ~~C~~C~~~~~~~~~~~~H~~~~~~~~~~~ 261 (275)
|.|..|-.....+-.+.+|.-.+|....-|
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~~~P 68 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKEPLP 68 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCCCCC
Confidence 455555555555555555555444444333
No 194
>KOG4727|consensus
Probab=31.16 E-value=16 Score=26.87 Aligned_cols=20 Identities=30% Similarity=0.712 Sum_probs=10.5
Q ss_pred cccccccccCCChhHHHHHH
Q psy12834 204 YQCDICNATFIYPEHFKKHR 223 (275)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~ 223 (275)
|-|.+|+-.|.++.++..|+
T Consensus 76 yyCdVCdcvvKDSinflDHi 95 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHI 95 (193)
T ss_pred eeeeecceeehhhHHHHHHh
Confidence 45555555555555555554
No 195
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=31.07 E-value=28 Score=18.86 Aligned_cols=12 Identities=25% Similarity=0.778 Sum_probs=8.3
Q ss_pred Cceecccccccc
Q psy12834 12 RPYECKTCKKTF 23 (275)
Q Consensus 12 ~~~~C~~C~~~f 23 (275)
++-.|+.|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 456777777765
No 196
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=31.07 E-value=16 Score=27.78 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=0.0
Q ss_pred Ccccccch-hhcccchHHHHHH
Q psy12834 42 PFSCEKCD-KSFYTQQNLVQHE 62 (275)
Q Consensus 42 ~~~C~~C~-~~f~~~~~l~~H~ 62 (275)
.|.|.+|+ .+|.-+..+.+|-
T Consensus 101 ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 101 EYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp ----------------------
T ss_pred eeeeEeCCCcceecHHHHHHhc
Confidence 35555553 3444555555554
No 197
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.70 E-value=39 Score=30.18 Aligned_cols=29 Identities=21% Similarity=0.327 Sum_probs=20.1
Q ss_pred hcCCCCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchh
Q psy12834 197 AHTGERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAV 240 (275)
Q Consensus 197 ~H~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 240 (275)
.|.......|..||... .-|..|+.|+-.
T Consensus 234 ~h~~~~~l~Ch~Cg~~~---------------~~~~~Cp~C~s~ 262 (505)
T TIGR00595 234 YHKKEGKLRCHYCGYQE---------------PIPKTCPQCGSE 262 (505)
T ss_pred EecCCCeEEcCCCcCcC---------------CCCCCCCCCCCC
Confidence 45556678899998544 345679999763
No 198
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.56 E-value=30 Score=29.74 Aligned_cols=32 Identities=16% Similarity=0.340 Sum_probs=17.9
Q ss_pred CCCCCChhhccChhhHHHHHHhhcCCCCCcccccccccCCChhH
Q psy12834 175 YPCTSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFIYPEH 218 (275)
Q Consensus 175 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~~~~~ 218 (275)
-.|+.||....+.. .. -|+|+.|+..+.....
T Consensus 351 p~Cp~Cg~~m~S~G-----------~~-g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 351 PVCPRCGGRMKSAG-----------RN-GFRCKKCGTRARETLI 382 (421)
T ss_pred CCCCccCCchhhcC-----------CC-CcccccccccCCcccc
Confidence 34777776665432 11 4677777766655443
No 199
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=30.23 E-value=44 Score=26.35 Aligned_cols=19 Identities=16% Similarity=0.544 Sum_probs=12.4
Q ss_pred CCCCCCCCCCCChhhccCh
Q psy12834 169 HFNDKRYPCTSCPKAFKRR 187 (275)
Q Consensus 169 h~~~~~~~C~~C~~~f~~~ 187 (275)
.++-.-|.|+.|+..|...
T Consensus 150 mwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 150 MWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ccceeeeecccccccchhh
Confidence 3445557788887777754
No 200
>KOG4167|consensus
Probab=30.03 E-value=19 Score=33.07 Aligned_cols=29 Identities=14% Similarity=0.207 Sum_probs=25.7
Q ss_pred CceeCcccchhhhhhhHHHhhhccccccc
Q psy12834 230 KPYVCEVRLAVFYYVTCLFNMIQPKRFRL 258 (275)
Q Consensus 230 ~~~~C~~C~~~~~~~~~~~~H~~~~~~~~ 258 (275)
..|-|..|++.|-...++.+||+.|+...
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~q~ 819 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQQE 819 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 35999999999999999999999888765
No 201
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=29.78 E-value=6.9 Score=28.08 Aligned_cols=18 Identities=22% Similarity=0.373 Sum_probs=11.0
Q ss_pred CcccccccccCCChhHHH
Q psy12834 203 PYQCDICNATFIYPEHFK 220 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~ 220 (275)
.=.|..|++.|++...+.
T Consensus 28 RReC~~C~~RFTTyErve 45 (147)
T TIGR00244 28 RRECLECHERFTTFERAE 45 (147)
T ss_pred cccCCccCCccceeeecc
Confidence 356777777776655443
No 202
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=29.43 E-value=22 Score=23.91 Aligned_cols=9 Identities=44% Similarity=0.589 Sum_probs=5.3
Q ss_pred eeCcccchh
Q psy12834 232 YVCEVRLAV 240 (275)
Q Consensus 232 ~~C~~C~~~ 240 (275)
|.|..|+..
T Consensus 32 y~C~~C~Ay 40 (102)
T PF11672_consen 32 YVCTPCDAY 40 (102)
T ss_pred EECCCCCce
Confidence 566666554
No 203
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=29.10 E-value=22 Score=24.48 Aligned_cols=12 Identities=17% Similarity=0.648 Sum_probs=8.0
Q ss_pred CCCCCChhhccC
Q psy12834 175 YPCTSCPKAFKR 186 (275)
Q Consensus 175 ~~C~~C~~~f~~ 186 (275)
..|+.|+..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (115)
T TIGR00100 71 CECEDCSEEVSP 82 (115)
T ss_pred EEcccCCCEEec
Confidence 567777766654
No 204
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=28.83 E-value=21 Score=20.23 Aligned_cols=9 Identities=22% Similarity=0.460 Sum_probs=4.4
Q ss_pred CceeCcccc
Q psy12834 230 KPYVCEVRL 238 (275)
Q Consensus 230 ~~~~C~~C~ 238 (275)
+.|.|.-|+
T Consensus 40 eYY~CksC~ 48 (57)
T PF14445_consen 40 EYYTCKSCN 48 (57)
T ss_pred hHhHHHhhh
Confidence 345555554
No 205
>PTZ00448 hypothetical protein; Provisional
Probab=27.96 E-value=21 Score=29.95 Aligned_cols=22 Identities=5% Similarity=-0.013 Sum_probs=12.1
Q ss_pred ceeCcccchhhhhhhHHHhhhc
Q psy12834 231 PYVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H~~ 252 (275)
.|.|..|+..|.+......|++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~K 335 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYR 335 (373)
T ss_pred CccccccccccCCHHHHHHHhh
Confidence 3555555555555555555554
No 206
>PRK14873 primosome assembly protein PriA; Provisional
Probab=27.11 E-value=41 Score=31.16 Aligned_cols=13 Identities=15% Similarity=0.486 Sum_probs=6.7
Q ss_pred cCCCCCccccccc
Q psy12834 198 HTGERPYQCDICN 210 (275)
Q Consensus 198 H~~~~~~~C~~C~ 210 (275)
|.......|.+||
T Consensus 405 h~~~~~l~Ch~CG 417 (665)
T PRK14873 405 PSAGGTPRCRWCG 417 (665)
T ss_pred ecCCCeeECCCCc
Confidence 3334445566665
No 207
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=27.03 E-value=34 Score=22.92 Aligned_cols=26 Identities=23% Similarity=0.298 Sum_probs=22.0
Q ss_pred CCCCCCCCCCChhhccChhhHHHHHH
Q psy12834 170 FNDKRYPCTSCPKAFKRRRLLDYHIK 195 (275)
Q Consensus 170 ~~~~~~~C~~C~~~f~~~~~l~~H~~ 195 (275)
++-..+.|-.|.+-|.+...|..|.+
T Consensus 51 PGlGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 51 PGLGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CCCceeeeehhHHHHHHHHHHHHHhc
Confidence 35556889999999999999999976
No 208
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=26.73 E-value=22 Score=23.19 Aligned_cols=14 Identities=21% Similarity=0.598 Sum_probs=8.7
Q ss_pred CCCCCCCChhhccC
Q psy12834 173 KRYPCTSCPKAFKR 186 (275)
Q Consensus 173 ~~~~C~~C~~~f~~ 186 (275)
..|.|..|++.|..
T Consensus 53 GIW~C~~C~~~~AG 66 (90)
T PTZ00255 53 GIWRCKGCKKTVAG 66 (90)
T ss_pred EEEEcCCCCCEEeC
Confidence 44667777766653
No 209
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.52 E-value=39 Score=20.19 Aligned_cols=15 Identities=13% Similarity=0.428 Sum_probs=10.3
Q ss_pred CCCceeccccccccc
Q psy12834 10 GARPYECKTCKKTFV 24 (275)
Q Consensus 10 ~~~~~~C~~C~~~f~ 24 (275)
.++.-.||.|+..|.
T Consensus 45 ~~gev~CPYC~t~y~ 59 (62)
T COG4391 45 DEGEVVCPYCSTRYR 59 (62)
T ss_pred CCCcEecCccccEEE
Confidence 345677888887764
No 210
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=26.38 E-value=22 Score=32.64 Aligned_cols=82 Identities=18% Similarity=0.411 Sum_probs=47.6
Q ss_pred ccCCcccccccChhHHHHHHhhccCCCC-ccccccccccccccCCCcccccccccccccccchHHHHHhhcCCCCCCCCC
Q psy12834 99 FICRVCGKSFVRKAEVKDHERTHTGEKP-YQCEFCGAQFRFKGSSGTESIDKLLLCFLSQRSNLQSHKRATHFNDKRYPC 177 (275)
Q Consensus 99 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~-~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~~h~~~~~~~C 177 (275)
-.|..|-+.+.+..+-+.+ -| ..|..||=.|+.-.+. .-... ..+-..--.|
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~-------YPF~~CT~CGPRfTIi~al-------------------PYDR~-nTsM~~F~lC 154 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYL-------YPFINCTNCGPRFTIIEAL-------------------PYDRE-NTSMADFPLC 154 (750)
T ss_pred hhhHHHHHHhcCCCCccee-------ccccccCCCCcceeeeccC-------------------CCCcc-cCccccCcCC
Confidence 4677776555444332211 11 2588999888433322 22221 1222223459
Q ss_pred CCChhhccChhhHHHHHHhhcCCCCCcccccccccCC
Q psy12834 178 TSCPKAFKRRRLLDYHIKAAHTGERPYQCDICNATFI 214 (275)
Q Consensus 178 ~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~f~ 214 (275)
+.|.+.|.+..+-+-|. .|.-|+.||-...
T Consensus 155 ~~C~~EY~dP~nRRfHA-------Qp~aCp~CGP~~~ 184 (750)
T COG0068 155 PFCDKEYKDPLNRRFHA-------QPIACPKCGPHLF 184 (750)
T ss_pred HHHHHHhcCcccccccc-------ccccCcccCCCeE
Confidence 99999999988865552 2478999997543
No 211
>PRK12496 hypothetical protein; Provisional
Probab=26.28 E-value=24 Score=26.11 Aligned_cols=10 Identities=20% Similarity=0.700 Sum_probs=5.5
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
|.|+.|++.|
T Consensus 128 ~~C~gC~~~~ 137 (164)
T PRK12496 128 KVCKGCKKKY 137 (164)
T ss_pred EECCCCCccc
Confidence 4555555555
No 212
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=26.08 E-value=61 Score=16.19 Aligned_cols=16 Identities=25% Similarity=0.688 Sum_probs=9.0
Q ss_pred CCceecccccccccCH
Q psy12834 11 ARPYECKTCKKTFVSK 26 (275)
Q Consensus 11 ~~~~~C~~C~~~f~~~ 26 (275)
...|+||.|+..+=+.
T Consensus 11 ~~kY~Cp~C~~~~CSl 26 (30)
T PF04438_consen 11 PAKYRCPRCGARYCSL 26 (30)
T ss_dssp EESEE-TTT--EESSH
T ss_pred CCEEECCCcCCceeCc
Confidence 3568888888776554
No 213
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=26.04 E-value=34 Score=28.42 Aligned_cols=26 Identities=23% Similarity=0.677 Sum_probs=12.9
Q ss_pred hcCCCCCccccccc-ccCCChhHHHHH
Q psy12834 197 AHTGERPYQCDICN-ATFIYPEHFKKH 222 (275)
Q Consensus 197 ~H~~~~~~~C~~C~-~~f~~~~~l~~H 222 (275)
.|.-++.|.|.+|+ +.+.-...+-.|
T Consensus 368 lhgLd~ef~CEICgNyvy~GR~~FdrH 394 (470)
T COG5188 368 LHGLDIEFECEICGNYVYYGRDRFDRH 394 (470)
T ss_pred hcCCCcceeeeecccccccchHHHHhh
Confidence 45555556666665 333334444444
No 214
>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=25.95 E-value=14 Score=26.87 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=6.5
Q ss_pred CCCCCCChhhc
Q psy12834 174 RYPCTSCPKAF 184 (275)
Q Consensus 174 ~~~C~~C~~~f 184 (275)
.|.|+.|+..+
T Consensus 123 ~~~C~~C~~~~ 133 (157)
T PF10263_consen 123 VYRCPSCGREY 133 (157)
T ss_pred EEEcCCCCCEe
Confidence 35566666555
No 215
>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 PTZ00448 hypothetical protein; Provisional
Probab=25.66 E-value=45 Score=28.09 Aligned_cols=25 Identities=12% Similarity=0.332 Sum_probs=16.4
Q ss_pred CCCCCCChhhccChhhHHHHHHhhc
Q psy12834 174 RYPCTSCPKAFKRRRLLDYHIKAAH 198 (275)
Q Consensus 174 ~~~C~~C~~~f~~~~~l~~H~~~~H 198 (275)
.|.|..|+..|.+....+.|+++.+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDw 338 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEW 338 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhH
Confidence 4667777777766666666666544
No 217
>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=25.54 E-value=26 Score=18.47 Aligned_cols=12 Identities=25% Similarity=0.360 Sum_probs=6.9
Q ss_pred CceeCcccchhh
Q psy12834 230 KPYVCEVRLAVF 241 (275)
Q Consensus 230 ~~~~C~~C~~~~ 241 (275)
+.|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 568999998764
No 218
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=25.47 E-value=28 Score=23.53 Aligned_cols=14 Identities=14% Similarity=0.190 Sum_probs=7.9
Q ss_pred ceeCcccchhhhhh
Q psy12834 231 PYVCEVRLAVFYYV 244 (275)
Q Consensus 231 ~~~C~~C~~~~~~~ 244 (275)
.|.|+.|+..+...
T Consensus 19 ~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 19 QLICPSCLYEWNEN 32 (109)
T ss_pred eeECcccccccccc
Confidence 35666666665433
No 219
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=25.05 E-value=43 Score=23.01 Aligned_cols=11 Identities=27% Similarity=0.543 Sum_probs=8.9
Q ss_pred Ccccccccccc
Q psy12834 126 PYQCEFCGAQF 136 (275)
Q Consensus 126 ~~~c~~c~~~~ 136 (275)
...|..|+..|
T Consensus 70 ~~~C~~Cg~~~ 80 (114)
T PRK03681 70 ECWCETCQQYV 80 (114)
T ss_pred EEEcccCCCee
Confidence 47899999877
No 220
>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=24.79 E-value=46 Score=19.18 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=4.7
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
+.|..||..|
T Consensus 19 ~~Cr~Cg~~~ 28 (57)
T cd00065 19 HHCRNCGRIF 28 (57)
T ss_pred cccCcCcCCc
Confidence 4444554444
No 221
>COG1773 Rubredoxin [Energy production and conversion]
Probab=24.49 E-value=37 Score=19.89 Aligned_cols=12 Identities=17% Similarity=0.714 Sum_probs=6.8
Q ss_pred ceeccccccccc
Q psy12834 13 PYECKTCKKTFV 24 (275)
Q Consensus 13 ~~~C~~C~~~f~ 24 (275)
.|+|..||..|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 455666665554
No 222
>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=24.43 E-value=29 Score=18.97 Aligned_cols=15 Identities=47% Similarity=1.094 Sum_probs=9.5
Q ss_pred CceecccccccccCH
Q psy12834 12 RPYECKTCKKTFVSK 26 (275)
Q Consensus 12 ~~~~C~~C~~~f~~~ 26 (275)
-++.|+.|+..|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 578999999888654
No 223
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=24.28 E-value=8.3 Score=20.83 Aligned_cols=9 Identities=33% Similarity=1.136 Sum_probs=4.3
Q ss_pred cccccchhh
Q psy12834 43 FSCEKCDKS 51 (275)
Q Consensus 43 ~~C~~C~~~ 51 (275)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 445555443
No 224
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=24.24 E-value=14 Score=26.66 Aligned_cols=17 Identities=24% Similarity=0.356 Sum_probs=10.9
Q ss_pred CcccccccccCCChhHH
Q psy12834 203 PYQCDICNATFIYPEHF 219 (275)
Q Consensus 203 ~~~C~~C~~~f~~~~~l 219 (275)
.-.|+.|+..|++....
T Consensus 28 RReC~~C~~RFTTfE~~ 44 (156)
T COG1327 28 RRECLECGERFTTFERA 44 (156)
T ss_pred hhcccccccccchhhee
Confidence 35677777777765543
No 225
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=23.69 E-value=39 Score=26.23 Aligned_cols=16 Identities=25% Similarity=0.669 Sum_probs=12.0
Q ss_pred CCCceecccccccccC
Q psy12834 10 GARPYECKTCKKTFVS 25 (275)
Q Consensus 10 ~~~~~~C~~C~~~f~~ 25 (275)
.+++.+|+.||..|.-
T Consensus 178 EGkpqRCpECGqVFKL 193 (268)
T PTZ00043 178 EGFLYRCGECDQIFML 193 (268)
T ss_pred CCCCccCCCCCcEEEE
Confidence 4568888888888764
No 226
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.52 E-value=34 Score=23.66 Aligned_cols=12 Identities=33% Similarity=0.930 Sum_probs=7.6
Q ss_pred CCCCCChhhccC
Q psy12834 175 YPCTSCPKAFKR 186 (275)
Q Consensus 175 ~~C~~C~~~f~~ 186 (275)
..|..|+..|..
T Consensus 72 ~~C~~Cg~~~~~ 83 (117)
T PRK00564 72 LECKDCSHVFKP 83 (117)
T ss_pred EEhhhCCCcccc
Confidence 567777755543
No 227
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=23.23 E-value=35 Score=19.51 Aligned_cols=13 Identities=23% Similarity=0.715 Sum_probs=10.1
Q ss_pred CCCCCChhhccCh
Q psy12834 175 YPCTSCPKAFKRR 187 (275)
Q Consensus 175 ~~C~~C~~~f~~~ 187 (275)
|+|..||..|.-.
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 7888888887753
No 229
>PRK00420 hypothetical protein; Validated
Probab=22.72 E-value=49 Score=22.69 Aligned_cols=10 Identities=10% Similarity=0.504 Sum_probs=5.1
Q ss_pred cccccccccC
Q psy12834 204 YQCDICNATF 213 (275)
Q Consensus 204 ~~C~~C~~~f 213 (275)
..||.|+...
T Consensus 41 ~~Cp~Cg~~~ 50 (112)
T PRK00420 41 VVCPVHGKVY 50 (112)
T ss_pred eECCCCCCee
Confidence 4555555543
No 230
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=22.58 E-value=46 Score=19.58 Aligned_cols=12 Identities=25% Similarity=0.850 Sum_probs=5.6
Q ss_pred CCCccccCcchh
Q psy12834 67 GSKDFVCTECGK 78 (275)
Q Consensus 67 ~~~~~~C~~C~~ 78 (275)
+...|-|..|..
T Consensus 28 Pi~tYmC~eC~~ 39 (56)
T PF09963_consen 28 PIHTYMCDECKE 39 (56)
T ss_pred CCcceeChhHHH
Confidence 334455555543
No 231
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=22.40 E-value=63 Score=24.23 Aligned_cols=14 Identities=21% Similarity=0.790 Sum_probs=6.5
Q ss_pred CCCCCCCCChhhcc
Q psy12834 172 DKRYPCTSCPKAFK 185 (275)
Q Consensus 172 ~~~~~C~~C~~~f~ 185 (275)
..-|.|+.|...|+
T Consensus 111 ~~~y~C~~~~~r~s 124 (176)
T COG1675 111 NNYYVCPNCHVKYS 124 (176)
T ss_pred CCceeCCCCCCccc
Confidence 33455555544444
No 232
>KOG0717|consensus
Probab=22.38 E-value=57 Score=28.43 Aligned_cols=22 Identities=32% Similarity=0.548 Sum_probs=19.9
Q ss_pred eecccccccccCHHHHHHHHHh
Q psy12834 14 YECKTCKKTFVSKYTYKAHLVT 35 (275)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~ 35 (275)
+-|.+|++.|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 8899999999999999999875
No 233
>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=22.34 E-value=25 Score=17.33 Aligned_cols=20 Identities=10% Similarity=-0.009 Sum_probs=10.1
Q ss_pred eeCcccchhhhhhhHHHhhhc
Q psy12834 232 YVCEVRLAVFYYVTCLFNMIQ 252 (275)
Q Consensus 232 ~~C~~C~~~~~~~~~~~~H~~ 252 (275)
|.|--|++.| ...+...|.+
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 3466666666 5555556653
No 234
>PF14369 zf-RING_3: zinc-finger
Probab=21.75 E-value=87 Score=16.28 Aligned_cols=9 Identities=33% Similarity=1.054 Sum_probs=5.0
Q ss_pred CCCCChhhc
Q psy12834 176 PCTSCPKAF 184 (275)
Q Consensus 176 ~C~~C~~~f 184 (275)
.||.|+-.|
T Consensus 23 ~CP~C~~gF 31 (35)
T PF14369_consen 23 ACPRCHGGF 31 (35)
T ss_pred CCcCCCCcE
Confidence 366665554
No 235
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.67 E-value=60 Score=27.07 Aligned_cols=26 Identities=23% Similarity=0.577 Sum_probs=16.1
Q ss_pred CCCcccccch-hhcccchHHHHHHhhh
Q psy12834 40 KRPFSCEKCD-KSFYTQQNLVQHEKTH 65 (275)
Q Consensus 40 ~~~~~C~~C~-~~f~~~~~l~~H~~~~ 65 (275)
.+.|.|.+|+ +++.....+.+|....
T Consensus 372 d~ef~CEICgNyvy~GR~~FdrHF~E~ 398 (470)
T COG5188 372 DIEFECEICGNYVYYGRDRFDRHFEED 398 (470)
T ss_pred CcceeeeecccccccchHHHHhhhhhh
Confidence 3456777774 6666666666665443
No 236
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=21.43 E-value=26 Score=22.92 Aligned_cols=14 Identities=21% Similarity=0.638 Sum_probs=8.3
Q ss_pred CCCCCCCChhhccC
Q psy12834 173 KRYPCTSCPKAFKR 186 (275)
Q Consensus 173 ~~~~C~~C~~~f~~ 186 (275)
..|.|..|++.|..
T Consensus 52 GIW~C~~C~~~~AG 65 (91)
T TIGR00280 52 GIWTCRKCGAKFAG 65 (91)
T ss_pred EEEEcCCCCCEEeC
Confidence 34666666666553
No 237
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=21.36 E-value=66 Score=18.67 Aligned_cols=11 Identities=9% Similarity=0.060 Sum_probs=5.0
Q ss_pred CCceeCcccch
Q psy12834 229 EKPYVCEVRLA 239 (275)
Q Consensus 229 ~~~~~C~~C~~ 239 (275)
+....|+.||+
T Consensus 44 ~~i~~Cp~CgR 54 (56)
T PF02591_consen 44 DEIVFCPNCGR 54 (56)
T ss_pred CCeEECcCCCc
Confidence 33444555543
No 238
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.79 E-value=38 Score=24.39 Aligned_cols=10 Identities=40% Similarity=1.238 Sum_probs=4.8
Q ss_pred CCCCCChhhc
Q psy12834 175 YPCTSCPKAF 184 (275)
Q Consensus 175 ~~C~~C~~~f 184 (275)
|.|..|+..+
T Consensus 113 y~C~~C~~~~ 122 (146)
T smart00731 113 YRCTGCGQRY 122 (146)
T ss_pred EECCCCCCCC
Confidence 4455555443
No 239
>KOG3362|consensus
Probab=20.78 E-value=29 Score=24.76 Aligned_cols=20 Identities=25% Similarity=0.388 Sum_probs=11.4
Q ss_pred ceeCcccchhhhhhhHHHhh
Q psy12834 231 PYVCEVRLAVFYYVTCLFNM 250 (275)
Q Consensus 231 ~~~C~~C~~~~~~~~~~~~H 250 (275)
.|.|..||..+..+.-+.-|
T Consensus 129 ~ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred hhHHHhcCCceeechhhhhc
Confidence 45566666666555555544
No 240
>PRK05580 primosome assembly protein PriA; Validated
Probab=20.61 E-value=74 Score=29.68 Aligned_cols=9 Identities=33% Similarity=0.977 Sum_probs=4.1
Q ss_pred Ccccccccc
Q psy12834 203 PYQCDICNA 211 (275)
Q Consensus 203 ~~~C~~C~~ 211 (275)
+..|+.|+.
T Consensus 421 ~~~Cp~Cg~ 429 (679)
T PRK05580 421 PKACPECGS 429 (679)
T ss_pred CCCCCCCcC
Confidence 444555543
No 241
>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=20.35 E-value=96 Score=22.20 Aligned_cols=10 Identities=40% Similarity=0.969 Sum_probs=8.2
Q ss_pred cccccccccc
Q psy12834 127 YQCEFCGAQF 136 (275)
Q Consensus 127 ~~c~~c~~~~ 136 (275)
-.|+.|++.|
T Consensus 4 ~nC~~CgklF 13 (137)
T TIGR03826 4 ANCPKCGRLF 13 (137)
T ss_pred ccccccchhh
Confidence 3688899988
No 242
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=20.32 E-value=26 Score=19.92 Aligned_cols=30 Identities=27% Similarity=0.549 Sum_probs=14.6
Q ss_pred CCCcccccccccCCChhHHHHHHHhhcCCCceeCcccchhh
Q psy12834 201 ERPYQCDICNATFIYPEHFKKHRRIHTGEKPYVCEVRLAVF 241 (275)
Q Consensus 201 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~ 241 (275)
..|-.|.+|++.. .-.+...|.|..|+...
T Consensus 9 ~~~~~C~~C~~~i-----------~g~~~~g~~C~~C~~~~ 38 (53)
T PF00130_consen 9 SKPTYCDVCGKFI-----------WGLGKQGYRCSWCGLVC 38 (53)
T ss_dssp SSTEB-TTSSSBE-----------CSSSSCEEEETTTT-EE
T ss_pred CCCCCCcccCccc-----------CCCCCCeEEECCCCChH
Confidence 4455666666554 11233456666666553
No 243
>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=20.18 E-value=50 Score=22.01 Aligned_cols=17 Identities=29% Similarity=0.778 Sum_probs=11.3
Q ss_pred hcCCCCCcccccccccCC
Q psy12834 197 AHTGERPYQCDICNATFI 214 (275)
Q Consensus 197 ~H~~~~~~~C~~C~~~f~ 214 (275)
.+.+ ++++|+.||..|.
T Consensus 74 l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 74 LEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EeCC-CceeCCCCCcEEE
Confidence 3444 5778888887774
No 244
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=20.16 E-value=94 Score=23.60 Aligned_cols=11 Identities=27% Similarity=0.156 Sum_probs=6.4
Q ss_pred ceeCcccchhh
Q psy12834 231 PYVCEVRLAVF 241 (275)
Q Consensus 231 ~~~C~~C~~~~ 241 (275)
.++|..||..+
T Consensus 30 lvrC~eCG~V~ 40 (201)
T COG1326 30 LVRCEECGTVH 40 (201)
T ss_pred EEEccCCCcEe
Confidence 45666666554
Done!