Query psy14244
Match_columns 226
No_of_seqs 229 out of 2940
Neff 9.7
Searched_HMMs 46136
Date Fri Aug 16 23:03:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14244.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14244hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 2.1E-29 4.6E-34 193.9 3.1 123 24-162 129-264 (279)
2 KOG2462|consensus 99.9 5.1E-28 1.1E-32 186.4 5.1 131 43-189 130-263 (279)
3 KOG1074|consensus 99.9 4E-23 8.8E-28 178.9 4.5 68 45-112 607-681 (958)
4 KOG3608|consensus 99.8 1.1E-22 2.4E-27 161.1 -2.0 164 13-193 195-376 (467)
5 KOG1074|consensus 99.8 1.3E-20 2.8E-25 163.5 0.4 52 43-94 353-404 (958)
6 KOG3576|consensus 99.8 3.8E-20 8.3E-25 136.5 -2.3 120 38-170 112-241 (267)
7 KOG3608|consensus 99.7 2.4E-18 5.2E-23 136.7 -1.6 145 1-164 216-375 (467)
8 KOG3576|consensus 99.6 3.6E-17 7.9E-22 120.9 -0.3 108 69-190 115-233 (267)
9 KOG3623|consensus 99.6 1.6E-16 3.4E-21 136.6 0.2 105 45-163 212-331 (1007)
10 KOG3623|consensus 99.5 2.4E-15 5.2E-20 129.4 1.0 82 67-162 890-971 (1007)
11 PLN03086 PRLI-interacting fact 99.4 1.4E-13 3E-18 118.7 2.6 88 73-180 455-552 (567)
12 PLN03086 PRLI-interacting fact 99.2 1E-11 2.3E-16 107.2 3.6 128 26-164 434-563 (567)
13 PHA00733 hypothetical protein 99.2 7.7E-12 1.7E-16 88.9 0.8 83 68-166 37-124 (128)
14 PHA00733 hypothetical protein 99.0 1.5E-10 3.2E-15 82.3 1.9 78 43-136 40-123 (128)
15 PHA02768 hypothetical protein; 99.0 5.2E-10 1.1E-14 66.1 2.8 39 71-111 5-43 (55)
16 KOG3993|consensus 98.9 1.6E-09 3.6E-14 88.7 3.7 70 26-95 268-380 (500)
17 PHA02768 hypothetical protein; 98.9 5.8E-10 1.3E-14 66.0 0.8 45 41-87 3-47 (55)
18 PF13465 zf-H2C2_2: Zinc-finge 98.7 7.9E-09 1.7E-13 52.3 2.2 25 86-110 1-25 (26)
19 PHA00616 hypothetical protein 98.6 1.3E-08 2.9E-13 57.3 0.2 35 141-175 1-35 (44)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 1.4E-08 3E-13 51.4 -0.7 26 58-83 1-26 (26)
21 PHA00616 hypothetical protein 98.5 7E-08 1.5E-12 54.4 1.5 36 71-106 1-36 (44)
22 KOG3993|consensus 98.3 7.4E-08 1.6E-12 79.2 -1.3 143 41-196 265-485 (500)
23 PHA00732 hypothetical protein 98.3 4.6E-07 1E-11 58.6 2.6 47 43-95 1-48 (79)
24 PHA00732 hypothetical protein 98.2 1.3E-06 2.8E-11 56.5 3.0 38 71-111 1-39 (79)
25 PF05605 zf-Di19: Drought indu 98.1 5.3E-07 1.2E-11 54.2 -0.3 51 99-165 2-53 (54)
26 PF05605 zf-Di19: Drought indu 97.9 8.9E-06 1.9E-10 48.8 2.4 50 43-95 2-53 (54)
27 COG5189 SFP1 Putative transcri 97.9 1E-05 2.2E-10 64.6 2.9 70 69-162 347-419 (423)
28 PF00096 zf-C2H2: Zinc finger, 97.9 9.4E-06 2E-10 39.6 1.7 23 72-94 1-23 (23)
29 PF00096 zf-C2H2: Zinc finger, 97.8 1.5E-06 3.3E-11 42.5 -2.2 22 142-163 1-22 (23)
30 PF12756 zf-C2H2_2: C2H2 type 97.6 9.1E-06 2E-10 55.1 -0.4 73 73-164 1-73 (100)
31 PF13912 zf-C2H2_6: C2H2-type 97.6 1.2E-05 2.5E-10 40.9 0.1 26 141-166 1-26 (27)
32 COG5189 SFP1 Putative transcri 97.6 2.3E-05 4.9E-10 62.7 1.4 70 23-92 347-419 (423)
33 PF13894 zf-C2H2_4: C2H2-type 97.5 6.4E-05 1.4E-09 36.7 1.9 23 72-94 1-23 (24)
34 PF13912 zf-C2H2_6: C2H2-type 97.5 5E-05 1.1E-09 38.5 1.4 25 71-95 1-25 (27)
35 PF09237 GAGA: GAGA factor; I 97.4 2E-05 4.4E-10 45.4 -0.7 42 129-170 12-53 (54)
36 PF13894 zf-C2H2_4: C2H2-type 97.4 1.2E-05 2.7E-10 39.4 -1.8 23 142-164 1-23 (24)
37 PF12756 zf-C2H2_2: C2H2 type 97.4 0.00011 2.5E-09 49.6 2.2 24 71-94 50-73 (100)
38 PF09237 GAGA: GAGA factor; I 97.2 0.00045 9.9E-09 39.9 3.0 33 67-99 20-52 (54)
39 smart00355 ZnF_C2H2 zinc finge 96.9 0.00095 2.1E-08 32.9 2.4 24 72-95 1-24 (26)
40 smart00355 ZnF_C2H2 zinc finge 96.9 0.00024 5.3E-09 35.1 0.0 24 142-165 1-24 (26)
41 COG5048 FOG: Zn-finger [Genera 96.8 0.0015 3.3E-08 55.7 4.4 137 42-178 288-455 (467)
42 PF12171 zf-C2H2_jaz: Zinc-fin 96.7 0.00085 1.8E-08 33.9 1.2 22 142-163 2-23 (27)
43 PRK04860 hypothetical protein; 96.7 0.0012 2.5E-08 48.8 2.3 37 71-111 119-155 (160)
44 PF12874 zf-met: Zinc-finger o 96.6 0.0011 2.4E-08 32.7 1.3 23 72-94 1-23 (25)
45 PF12874 zf-met: Zinc-finger o 96.5 0.00036 7.7E-09 34.6 -0.9 23 142-164 1-23 (25)
46 PRK04860 hypothetical protein; 96.2 0.0011 2.3E-08 49.1 -0.4 39 43-85 119-157 (160)
47 PF13909 zf-H2C2_5: C2H2-type 96.1 0.0043 9.4E-08 30.3 1.7 23 72-95 1-23 (24)
48 PF12171 zf-C2H2_jaz: Zinc-fin 95.9 0.0072 1.6E-07 30.4 2.0 22 44-65 2-23 (27)
49 PF13909 zf-H2C2_5: C2H2-type 95.6 0.00068 1.5E-08 33.2 -2.5 23 142-165 1-23 (24)
50 KOG2231|consensus 95.6 0.0063 1.4E-07 54.3 1.7 117 26-165 100-236 (669)
51 KOG1146|consensus 95.5 0.019 4.2E-07 54.5 4.5 52 42-93 464-540 (1406)
52 PRK00398 rpoP DNA-directed RNA 94.9 0.0075 1.6E-07 34.7 0.0 29 25-53 3-31 (46)
53 KOG1146|consensus 94.7 0.011 2.5E-07 56.0 0.8 100 46-162 439-539 (1406)
54 PF13913 zf-C2HC_2: zinc-finge 94.4 0.034 7.4E-07 27.4 1.8 20 72-92 3-22 (25)
55 smart00451 ZnF_U1 U1-like zinc 94.2 0.014 3E-07 31.2 0.1 23 141-163 3-25 (35)
56 PF09538 FYDLN_acid: Protein o 94.0 0.027 5.9E-07 38.7 1.3 30 26-56 10-39 (108)
57 COG1997 RPL43A Ribosomal prote 93.8 0.022 4.7E-07 37.0 0.4 34 24-57 34-67 (89)
58 COG5048 FOG: Zn-finger [Genera 93.7 0.054 1.2E-06 46.1 2.8 66 98-177 288-359 (467)
59 COG2888 Predicted Zn-ribbon RN 93.7 0.033 7.2E-07 33.3 1.0 50 25-79 9-58 (61)
60 cd00350 rubredoxin_like Rubred 93.7 0.042 9E-07 29.1 1.3 10 98-107 16-25 (33)
61 smart00451 ZnF_U1 U1-like zinc 93.5 0.058 1.3E-06 28.7 1.8 23 71-93 3-25 (35)
62 KOG2785|consensus 93.5 0.035 7.7E-07 46.0 1.2 51 99-162 166-241 (390)
63 PRK14890 putative Zn-ribbon RN 93.1 0.065 1.4E-06 32.2 1.6 28 25-52 7-34 (59)
64 cd00729 rubredoxin_SM Rubredox 93.1 0.063 1.4E-06 28.7 1.4 26 99-150 2-27 (34)
65 PF10571 UPF0547: Uncharacteri 93.0 0.049 1.1E-06 27.1 0.9 24 27-54 2-25 (26)
66 KOG2231|consensus 92.9 0.094 2E-06 47.1 3.1 107 73-189 117-232 (669)
67 COG4049 Uncharacterized protei 92.2 0.033 7.2E-07 32.8 -0.4 30 138-167 14-43 (65)
68 PF09986 DUF2225: Uncharacteri 92.0 0.041 8.8E-07 42.9 -0.2 15 23-37 3-17 (214)
69 COG1996 RPC10 DNA-directed RNA 91.8 0.049 1.1E-06 31.5 0.0 29 24-52 5-33 (49)
70 KOG2893|consensus 91.8 0.047 1E-06 42.4 -0.1 46 45-94 12-58 (341)
71 TIGR00622 ssl1 transcription f 91.7 0.26 5.6E-06 34.0 3.4 80 26-111 2-93 (112)
72 COG5236 Uncharacterized conser 91.1 0.047 1E-06 44.7 -0.7 17 49-65 159-175 (493)
73 PF09986 DUF2225: Uncharacteri 90.7 0.13 2.8E-06 40.1 1.4 13 142-154 49-61 (214)
74 TIGR00622 ssl1 transcription f 90.7 0.41 8.8E-06 33.0 3.6 79 69-165 13-105 (112)
75 PF09538 FYDLN_acid: Protein o 90.7 0.15 3.2E-06 35.1 1.5 31 100-155 10-40 (108)
76 PF01780 Ribosomal_L37ae: Ribo 90.7 0.039 8.5E-07 36.3 -1.3 33 24-56 34-66 (90)
77 smart00659 RPOLCX RNA polymera 90.6 0.081 1.8E-06 30.0 0.1 25 26-51 3-27 (44)
78 COG4049 Uncharacterized protei 90.2 0.13 2.8E-06 30.3 0.8 31 65-95 11-41 (65)
79 TIGR00280 L37a ribosomal prote 90.2 0.068 1.5E-06 35.2 -0.5 34 24-57 34-67 (91)
80 PTZ00255 60S ribosomal protein 90.1 0.076 1.6E-06 35.0 -0.3 34 24-57 35-68 (90)
81 COG1592 Rubrerythrin [Energy p 90.0 0.18 3.8E-06 37.4 1.5 24 99-149 134-157 (166)
82 PRK10350 hypothetical protein; 89.9 1.3 2.8E-05 31.0 5.5 15 209-223 58-72 (145)
83 COG5236 Uncharacterized conser 89.5 0.18 3.8E-06 41.4 1.3 92 72-173 152-251 (493)
84 PF03604 DNA_RNApol_7kD: DNA d 89.2 0.14 3E-06 26.9 0.3 25 26-51 1-25 (32)
85 TIGR02300 FYDLN_acid conserved 89.0 0.19 4.2E-06 35.2 1.0 30 26-56 10-39 (129)
86 PRK03976 rpl37ae 50S ribosomal 88.9 0.09 2E-06 34.6 -0.6 34 24-57 35-68 (90)
87 KOG2482|consensus 88.8 0.13 2.8E-06 42.2 0.0 21 142-162 335-355 (423)
88 COG0068 HypF Hydrogenase matur 88.5 0.16 3.4E-06 45.8 0.4 79 26-110 102-184 (750)
89 PF12013 DUF3505: Protein of u 88.4 0.22 4.7E-06 34.3 1.0 27 140-166 79-109 (109)
90 PF07754 DUF1610: Domain of un 88.1 0.21 4.5E-06 24.3 0.5 6 26-31 17-22 (24)
91 KOG2186|consensus 88.0 0.24 5.2E-06 38.9 1.0 47 99-162 3-49 (276)
92 smart00834 CxxC_CXXC_SSSS Puta 87.2 0.15 3.3E-06 28.2 -0.3 10 26-35 6-15 (41)
93 PF12013 DUF3505: Protein of u 87.0 0.52 1.1E-05 32.4 2.2 25 72-96 81-109 (109)
94 PRK00464 nrdR transcriptional 86.6 0.26 5.6E-06 36.2 0.5 21 140-160 27-47 (154)
95 COG3357 Predicted transcriptio 86.5 0.29 6.2E-06 32.1 0.6 26 25-50 58-83 (97)
96 COG1592 Rubrerythrin [Energy p 86.3 0.32 7E-06 36.1 0.9 23 43-78 134-156 (166)
97 KOG2186|consensus 86.2 0.32 7E-06 38.2 0.9 46 44-92 4-49 (276)
98 PRK04023 DNA polymerase II lar 86.2 0.57 1.2E-05 44.1 2.6 22 25-52 626-647 (1121)
99 TIGR00373 conserved hypothetic 85.8 0.5 1.1E-05 34.9 1.7 38 64-110 102-139 (158)
100 smart00531 TFIIE Transcription 85.7 0.19 4.1E-06 36.7 -0.6 39 40-82 96-134 (147)
101 PF13719 zinc_ribbon_5: zinc-r 85.2 0.58 1.3E-05 25.4 1.4 32 73-109 4-35 (37)
102 PF14353 CpXC: CpXC protein 84.9 0.22 4.8E-06 35.3 -0.5 38 26-63 2-58 (128)
103 TIGR02098 MJ0042_CXXC MJ0042 f 84.6 0.54 1.2E-05 25.5 1.1 10 100-109 26-35 (38)
104 PF01286 XPA_N: XPA protein N- 84.5 0.32 6.9E-06 25.9 0.1 25 27-51 5-29 (34)
105 KOG2482|consensus 84.5 0.62 1.3E-05 38.3 1.8 79 43-134 195-356 (423)
106 PRK00464 nrdR transcriptional 84.4 0.31 6.7E-06 35.8 0.0 9 101-109 30-38 (154)
107 KOG4173|consensus 84.2 0.24 5.1E-06 37.7 -0.6 66 43-111 79-158 (253)
108 PRK06266 transcription initiat 83.9 0.65 1.4E-05 35.1 1.6 36 66-110 112-147 (178)
109 TIGR02300 FYDLN_acid conserved 83.9 0.72 1.6E-05 32.4 1.7 34 100-158 10-43 (129)
110 TIGR02605 CxxC_CxxC_SSSS putat 83.6 0.38 8.2E-06 28.2 0.2 10 72-81 6-15 (52)
111 KOG2893|consensus 82.9 0.68 1.5E-05 36.1 1.3 35 73-111 12-46 (341)
112 PF13717 zinc_ribbon_4: zinc-r 82.7 0.82 1.8E-05 24.7 1.3 12 73-84 4-15 (36)
113 PHA00626 hypothetical protein 82.7 0.45 9.8E-06 28.2 0.3 12 71-82 23-34 (59)
114 PF02176 zf-TRAF: TRAF-type zi 82.5 0.37 8E-06 29.1 -0.2 41 69-110 7-53 (60)
115 KOG2907|consensus 82.2 0.4 8.8E-06 32.8 -0.1 30 26-55 8-37 (116)
116 KOG0402|consensus 82.1 0.53 1.1E-05 30.3 0.4 32 25-56 36-67 (92)
117 PRK14714 DNA polymerase II lar 81.9 1 2.3E-05 43.4 2.4 52 26-109 668-719 (1337)
118 TIGR01206 lysW lysine biosynth 81.9 0.42 9.1E-06 28.4 -0.1 28 26-53 3-32 (54)
119 COG1198 PriA Primosomal protei 81.7 1.2 2.6E-05 41.0 2.7 25 125-150 460-484 (730)
120 smart00531 TFIIE Transcription 81.7 1 2.2E-05 32.8 1.9 43 65-111 93-135 (147)
121 PF09723 Zn-ribbon_8: Zinc rib 81.3 0.34 7.4E-06 27.1 -0.6 11 44-54 6-16 (42)
122 COG1198 PriA Primosomal protei 80.5 1.2 2.6E-05 41.0 2.3 18 26-52 436-453 (730)
123 PF08274 PhnA_Zn_Ribbon: PhnA 80.3 0.73 1.6E-05 23.8 0.5 25 27-52 4-28 (30)
124 KOG4173|consensus 79.8 0.3 6.5E-06 37.2 -1.5 77 70-162 78-167 (253)
125 PF14369 zf-RING_3: zinc-finge 79.6 0.68 1.5E-05 24.8 0.3 29 25-53 2-31 (35)
126 cd00730 rubredoxin Rubredoxin; 79.3 0.73 1.6E-05 26.9 0.3 12 44-55 2-13 (50)
127 PF05290 Baculo_IE-1: Baculovi 79.3 1.1 2.4E-05 31.8 1.3 54 23-84 78-134 (140)
128 PRK04023 DNA polymerase II lar 77.7 2.1 4.6E-05 40.4 3.0 9 44-52 627-635 (1121)
129 TIGR01384 TFS_arch transcripti 77.1 0.34 7.3E-06 33.0 -1.8 37 72-110 63-101 (104)
130 PF13240 zinc_ribbon_2: zinc-r 77.1 0.7 1.5E-05 22.2 -0.1 7 28-34 2-8 (23)
131 PF15135 UPF0515: Uncharacteri 76.6 1.1 2.4E-05 35.2 0.7 74 21-108 108-183 (278)
132 PRK06266 transcription initiat 76.3 1.2 2.6E-05 33.6 0.9 33 42-83 116-148 (178)
133 PF09845 DUF2072: Zn-ribbon co 76.0 0.66 1.4E-05 32.8 -0.6 15 43-57 1-15 (131)
134 KOG2071|consensus 75.3 2.8 6E-05 37.2 2.9 24 43-66 418-441 (579)
135 PF02176 zf-TRAF: TRAF-type zi 75.3 1.5 3.2E-05 26.3 1.0 43 96-153 6-54 (60)
136 PF00301 Rubredoxin: Rubredoxi 75.3 0.66 1.4E-05 26.7 -0.6 12 44-55 2-13 (47)
137 PF07282 OrfB_Zn_ribbon: Putat 75.2 1.3 2.7E-05 27.6 0.6 27 27-53 30-56 (69)
138 TIGR00373 conserved hypothetic 74.5 2.2 4.8E-05 31.5 1.9 33 41-82 107-139 (158)
139 PRK00432 30S ribosomal protein 74.5 1.6 3.5E-05 25.5 0.9 25 27-52 22-46 (50)
140 PRK14873 primosome assembly pr 74.4 2 4.2E-05 39.4 1.8 10 69-78 408-417 (665)
141 PF07295 DUF1451: Protein of u 74.3 0.59 1.3E-05 34.0 -1.2 38 15-52 98-139 (146)
142 smart00734 ZnF_Rad18 Rad18-lik 74.1 3.1 6.7E-05 20.6 1.7 19 73-92 3-21 (26)
143 PF08271 TF_Zn_Ribbon: TFIIB z 73.8 0.81 1.8E-05 25.7 -0.5 28 26-53 1-29 (43)
144 smart00661 RPOL9 RNA polymeras 73.7 1.4 3E-05 25.6 0.5 11 43-53 20-30 (52)
145 PRK03564 formate dehydrogenase 72.7 3.4 7.5E-05 34.0 2.7 35 44-81 188-222 (309)
146 COG4530 Uncharacterized protei 72.3 2.8 6E-05 28.6 1.7 26 27-53 11-36 (129)
147 PF09082 DUF1922: Domain of un 72.3 0.76 1.7E-05 28.5 -0.9 27 25-53 3-29 (68)
148 KOG4369|consensus 71.2 9.2 0.0002 37.2 5.3 32 177-208 1846-1877(2131)
149 KOG1280|consensus 70.8 2.4 5.1E-05 35.1 1.4 37 70-106 78-116 (381)
150 COG1773 Rubredoxin [Energy pro 70.7 1.5 3.4E-05 26.0 0.2 7 72-78 37-43 (55)
151 PRK03824 hypA hydrogenase nick 70.5 2.2 4.9E-05 30.6 1.1 8 100-107 108-115 (135)
152 COG5188 PRP9 Splicing factor 3 70.5 3.1 6.8E-05 34.5 2.0 25 138-162 371-396 (470)
153 PF05191 ADK_lid: Adenylate ki 70.4 1.5 3.3E-05 23.6 0.1 14 96-109 18-31 (36)
154 KOG2785|consensus 70.0 3.5 7.7E-05 34.6 2.2 51 43-93 166-242 (390)
155 PF06524 NOA36: NOA36 protein; 69.9 1.9 4.1E-05 34.2 0.6 12 22-33 139-150 (314)
156 COG1655 Uncharacterized protei 69.7 1.6 3.6E-05 33.9 0.2 16 23-38 17-32 (267)
157 KOG4124|consensus 69.5 3.7 7.9E-05 34.1 2.2 24 139-162 396-419 (442)
158 PRK14714 DNA polymerase II lar 67.7 5.3 0.00011 38.9 3.1 12 99-110 692-703 (1337)
159 KOG0978|consensus 67.3 2.1 4.5E-05 39.0 0.4 18 72-89 679-696 (698)
160 PF01155 HypA: Hydrogenase exp 67.3 1.1 2.5E-05 31.0 -1.0 10 45-54 72-81 (113)
161 COG2331 Uncharacterized protei 67.3 1.4 3E-05 27.9 -0.5 32 99-152 12-44 (82)
162 PF01363 FYVE: FYVE zinc finge 67.2 2.1 4.6E-05 26.5 0.4 28 26-55 10-37 (69)
163 COG1571 Predicted DNA-binding 67.2 3 6.5E-05 35.7 1.3 30 27-57 352-381 (421)
164 smart00154 ZnF_AN1 AN1-like Zi 66.9 3.1 6.8E-05 22.8 0.9 12 43-54 12-23 (39)
165 KOG1883|consensus 66.7 5.7 0.00012 38.2 3.0 16 207-222 1439-1454(1517)
166 PRK14873 primosome assembly pr 66.6 3 6.6E-05 38.2 1.3 11 70-80 421-431 (665)
167 PF10122 Mu-like_Com: Mu-like 66.4 4.5 9.7E-05 23.6 1.5 29 25-53 4-34 (51)
168 COG4888 Uncharacterized Zn rib 65.9 1.2 2.7E-05 29.8 -1.0 12 23-34 20-31 (104)
169 TIGR00143 hypF [NiFe] hydrogen 65.8 1.5 3.3E-05 40.5 -0.8 78 25-109 68-150 (711)
170 TIGR00595 priA primosomal prot 65.7 3.7 7.9E-05 36.4 1.6 10 70-79 252-261 (505)
171 PRK09678 DNA-binding transcrip 64.9 2.1 4.5E-05 27.1 -0.0 38 72-111 2-41 (72)
172 smart00614 ZnF_BED BED zinc fi 64.5 5.5 0.00012 23.0 1.7 21 72-92 19-44 (50)
173 PF04216 FdhE: Protein involve 64.4 0.69 1.5E-05 37.8 -2.9 13 68-80 194-206 (290)
174 PF03107 C1_2: C1 domain; Int 63.4 2.5 5.4E-05 21.6 0.1 22 26-50 1-22 (30)
175 PF11781 RRN7: RNA polymerase 63.4 2.4 5.2E-05 22.9 0.0 28 24-52 7-34 (36)
176 PF05443 ROS_MUCR: ROS/MUCR tr 63.3 4.1 8.9E-05 29.1 1.2 28 69-99 70-97 (132)
177 COG5151 SSL1 RNA polymerase II 62.3 4.1 9E-05 33.2 1.2 26 139-164 386-411 (421)
178 PF10083 DUF2321: Uncharacteri 62.1 4.1 8.8E-05 29.8 1.0 50 28-84 31-81 (158)
179 COG3364 Zn-ribbon containing p 62.1 1.6 3.5E-05 29.3 -1.0 14 43-56 2-15 (112)
180 TIGR00100 hypA hydrogenase nic 61.7 3.7 7.9E-05 28.6 0.7 10 45-54 72-81 (115)
181 cd00065 FYVE FYVE domain; Zinc 61.6 3.9 8.5E-05 24.2 0.8 27 27-55 4-30 (57)
182 PF06524 NOA36: NOA36 protein; 60.1 7.1 0.00015 31.1 2.1 92 65-164 136-232 (314)
183 KOG2593|consensus 60.1 5.1 0.00011 34.3 1.4 17 95-111 124-140 (436)
184 PF02892 zf-BED: BED zinc fing 59.8 7.5 0.00016 21.7 1.7 24 69-92 14-41 (45)
185 COG1998 RPS31 Ribosomal protei 59.5 4.3 9.4E-05 23.4 0.6 24 28-51 22-45 (51)
186 PF12760 Zn_Tnp_IS1595: Transp 58.8 4 8.7E-05 23.2 0.4 8 26-33 19-26 (46)
187 PF07975 C1_4: TFIIH C1-like d 58.7 2.8 6E-05 24.6 -0.3 24 43-66 21-44 (51)
188 PF13453 zf-TFIIB: Transcripti 58.6 4.9 0.00011 22.2 0.8 16 72-87 20-35 (41)
189 smart00440 ZnF_C2C2 C2C2 Zinc 57.6 3.3 7.1E-05 22.9 -0.1 10 72-81 29-38 (40)
190 KOG2272|consensus 57.4 9.2 0.0002 30.3 2.3 36 141-182 280-315 (332)
191 PRK12380 hydrogenase nickel in 57.0 5.1 0.00011 27.8 0.8 10 44-53 71-80 (113)
192 PRK12496 hypothetical protein; 57.0 6.7 0.00015 29.2 1.5 12 100-111 128-139 (164)
193 COG1594 RPB9 DNA-directed RNA 56.6 10 0.00023 26.3 2.3 37 72-110 73-111 (113)
194 PF05495 zf-CHY: CHY zinc fing 56.5 4.5 9.8E-05 25.4 0.4 40 61-108 31-70 (71)
195 PRK03681 hypA hydrogenase nick 56.0 5.5 0.00012 27.7 0.8 8 45-52 72-79 (114)
196 PF15135 UPF0515: Uncharacteri 55.8 7.3 0.00016 30.8 1.5 11 100-110 156-166 (278)
197 PF05129 Elf1: Transcription e 54.1 2.8 6E-05 27.2 -0.9 31 24-54 21-57 (81)
198 smart00064 FYVE Protein presen 53.8 7.4 0.00016 23.9 1.1 28 100-153 11-38 (68)
199 KOG2593|consensus 53.5 9.1 0.0002 32.8 1.9 39 68-109 125-163 (436)
200 COG1571 Predicted DNA-binding 53.5 7.8 0.00017 33.3 1.5 20 138-157 364-383 (421)
201 COG5151 SSL1 RNA polymerase II 53.3 18 0.00039 29.7 3.4 31 25-59 308-338 (421)
202 PRK00564 hypA hydrogenase nick 53.1 7.6 0.00016 27.1 1.2 10 26-35 72-81 (117)
203 cd00924 Cyt_c_Oxidase_Vb Cytoc 53.0 6.4 0.00014 26.5 0.7 19 17-36 72-90 (97)
204 PRK05978 hypothetical protein; 52.6 6.2 0.00013 28.8 0.6 9 45-53 54-62 (148)
205 PF08790 zf-LYAR: LYAR-type C2 51.7 4.3 9.3E-05 20.5 -0.2 19 142-161 1-19 (28)
206 COG4391 Uncharacterized protei 51.5 6.3 0.00014 23.9 0.5 39 16-54 15-59 (62)
207 TIGR01562 FdhE formate dehydro 51.4 16 0.00034 30.2 2.9 35 45-81 186-220 (305)
208 TIGR00686 phnA alkylphosphonat 50.8 5.8 0.00013 27.1 0.2 26 28-54 5-30 (109)
209 COG3677 Transposase and inacti 49.7 7.6 0.00017 27.6 0.7 14 70-83 52-65 (129)
210 PF04959 ARS2: Arsenite-resist 49.2 6.9 0.00015 30.5 0.5 30 68-97 74-103 (214)
211 PF01096 TFIIS_C: Transcriptio 48.9 2.7 5.9E-05 23.0 -1.3 9 72-80 29-37 (39)
212 PF13878 zf-C2H2_3: zinc-finge 48.8 17 0.00038 20.1 2.0 23 72-94 14-38 (41)
213 PF08792 A2L_zn_ribbon: A2L zi 48.5 6.2 0.00013 20.8 0.1 9 45-53 23-31 (33)
214 KOG2807|consensus 48.1 17 0.00037 30.0 2.6 33 25-61 276-308 (378)
215 PRK10220 hypothetical protein; 47.3 7.9 0.00017 26.5 0.5 26 28-54 6-31 (111)
216 PF14446 Prok-RING_1: Prokaryo 47.3 9.4 0.0002 22.6 0.7 12 100-111 6-17 (54)
217 PF07649 C1_3: C1-like domain; 47.2 7 0.00015 19.8 0.2 8 43-50 15-22 (30)
218 PF11672 DUF3268: Protein of u 46.6 16 0.00034 24.9 1.8 13 98-110 1-13 (102)
219 PRK14559 putative protein seri 46.3 14 0.00029 33.9 1.9 24 26-53 2-25 (645)
220 KOG4167|consensus 46.3 3.6 7.8E-05 37.5 -1.6 26 140-165 791-816 (907)
221 PRK00762 hypA hydrogenase nick 45.6 10 0.00022 26.7 0.9 11 44-55 71-81 (124)
222 PF13824 zf-Mss51: Zinc-finger 45.5 17 0.00037 21.6 1.7 13 69-81 12-24 (55)
223 PF07503 zf-HYPF: HypF finger; 45.5 12 0.00025 20.0 0.9 9 45-53 23-31 (35)
224 PF12907 zf-met2: Zinc-binding 45.1 12 0.00026 20.7 0.9 22 72-93 2-26 (40)
225 COG1327 Predicted transcriptio 44.9 10 0.00023 27.6 0.8 12 45-56 30-41 (156)
226 PRK05580 primosome assembly pr 44.8 12 0.00027 34.5 1.5 11 69-79 419-429 (679)
227 KOG4167|consensus 44.6 5 0.00011 36.6 -1.0 26 70-95 791-816 (907)
228 TIGR00244 transcriptional regu 44.5 10 0.00023 27.5 0.8 13 45-57 30-42 (147)
229 KOG3408|consensus 44.4 13 0.00027 26.0 1.1 26 68-93 54-79 (129)
230 PF07227 DUF1423: Protein of u 43.9 12 0.00027 32.2 1.2 54 28-82 131-194 (446)
231 PF00130 C1_1: Phorbol esters/ 43.9 6.9 0.00015 22.7 -0.2 30 23-53 9-38 (53)
232 PRK11032 hypothetical protein; 43.9 3.7 7.9E-05 30.4 -1.7 39 14-52 109-151 (160)
233 PF03811 Zn_Tnp_IS1: InsA N-te 43.9 15 0.00032 19.8 1.1 18 60-77 18-35 (36)
234 PF13451 zf-trcl: Probable zin 43.7 7.7 0.00017 22.5 0.0 14 98-111 3-16 (49)
235 PF11023 DUF2614: Protein of u 43.5 14 0.0003 25.5 1.2 30 24-55 68-97 (114)
236 COG1645 Uncharacterized Zn-fin 42.3 8.4 0.00018 27.4 0.0 6 73-78 46-51 (131)
237 COG1439 Predicted nucleic acid 41.5 9.3 0.0002 28.7 0.1 23 26-52 140-162 (177)
238 COG5152 Uncharacterized conser 41.3 9.5 0.00021 29.1 0.2 14 24-37 195-208 (259)
239 COG0068 HypF Hydrogenase matur 40.6 20 0.00044 32.9 2.1 58 101-179 125-183 (750)
240 smart00249 PHD PHD zinc finger 40.5 19 0.00042 19.5 1.4 9 45-53 16-24 (47)
241 KOG1729|consensus 40.1 5.3 0.00011 32.6 -1.4 55 24-79 167-222 (288)
242 PF14206 Cys_rich_CPCC: Cystei 39.9 12 0.00025 24.1 0.4 29 26-54 2-31 (78)
243 PRK00420 hypothetical protein; 39.7 13 0.00028 25.8 0.6 7 45-51 42-48 (112)
244 PRK14892 putative transcriptio 39.6 7.6 0.00016 26.3 -0.5 39 70-115 20-58 (99)
245 COG3091 SprT Zn-dependent meta 39.5 12 0.00025 27.4 0.4 37 96-151 114-150 (156)
246 PF04641 Rtf2: Rtf2 RING-finge 39.4 13 0.00028 29.9 0.6 13 23-35 111-123 (260)
247 KOG3214|consensus 39.4 10 0.00022 25.5 0.0 9 24-32 22-30 (109)
248 COG4957 Predicted transcriptio 39.1 15 0.00032 26.2 0.8 26 71-99 76-101 (148)
249 PF10276 zf-CHCC: Zinc-finger 38.7 11 0.00025 20.8 0.2 20 16-35 20-39 (40)
250 PF10013 DUF2256: Uncharacteri 38.0 12 0.00026 20.9 0.2 16 143-158 10-25 (42)
251 PF15269 zf-C2H2_7: Zinc-finge 38.0 12 0.00027 21.1 0.2 24 140-163 19-42 (54)
252 KOG3507|consensus 37.7 13 0.00027 22.4 0.3 27 25-52 20-46 (62)
253 PF13248 zf-ribbon_3: zinc-rib 37.3 11 0.00025 18.4 0.0 7 27-33 4-10 (26)
254 PF04423 Rad50_zn_hook: Rad50 37.2 11 0.00023 22.2 -0.1 12 143-154 22-33 (54)
255 PF09416 UPF1_Zn_bind: RNA hel 37.2 16 0.00034 26.8 0.8 12 139-150 58-69 (152)
256 PRK05452 anaerobic nitric oxid 36.5 13 0.00029 32.7 0.4 15 42-56 424-438 (479)
257 PF01927 Mut7-C: Mut7-C RNAse 36.3 31 0.00068 25.0 2.2 16 71-86 124-139 (147)
258 COG1675 TFA1 Transcription ini 36.3 24 0.00052 26.6 1.6 35 67-110 109-143 (176)
259 smart00731 SprT SprT homologue 36.1 13 0.00028 27.0 0.2 32 43-81 112-143 (146)
260 PF14311 DUF4379: Domain of un 36.0 25 0.00054 20.6 1.4 11 72-82 29-39 (55)
261 COG1779 C4-type Zn-finger prot 35.7 9.9 0.00022 29.0 -0.5 12 45-56 45-56 (201)
262 PF10263 SprT-like: SprT-like 35.6 11 0.00024 27.4 -0.2 31 43-81 123-153 (157)
263 KOG2636|consensus 35.6 16 0.00035 31.5 0.7 25 138-162 398-423 (497)
264 TIGR01053 LSD1 zinc finger dom 35.3 14 0.0003 19.2 0.2 23 28-50 4-26 (31)
265 PF01428 zf-AN1: AN1-like Zinc 35.1 8.7 0.00019 21.4 -0.7 15 140-154 12-26 (43)
266 COG4306 Uncharacterized protei 35.0 26 0.00056 24.7 1.5 56 86-154 25-81 (160)
267 KOG3362|consensus 34.6 13 0.00029 26.7 0.1 21 43-63 129-149 (156)
268 PRK11827 hypothetical protein; 34.5 16 0.00034 22.3 0.3 13 72-84 27-39 (60)
269 PF14690 zf-ISL3: zinc-finger 34.5 13 0.00027 20.9 -0.1 8 25-32 2-9 (47)
270 smart00132 LIM Zinc-binding do 34.3 24 0.00052 18.3 1.1 9 72-80 28-36 (39)
271 cd00029 C1 Protein kinase C co 33.8 22 0.00047 20.0 0.9 29 24-53 10-38 (50)
272 smart00109 C1 Protein kinase C 33.4 22 0.00048 19.7 0.9 27 24-52 10-36 (49)
273 PRK04351 hypothetical protein; 33.1 21 0.00046 26.1 0.9 14 139-152 130-143 (149)
274 PF11238 DUF3039: Protein of u 32.7 9.8 0.00021 22.8 -0.7 23 30-52 30-53 (58)
275 COG4357 Zinc finger domain con 32.5 26 0.00057 23.4 1.1 14 74-87 83-96 (105)
276 KOG0320|consensus 32.4 27 0.00058 26.3 1.3 50 23-82 129-178 (187)
277 KOG0801|consensus 31.9 13 0.00029 27.3 -0.3 34 86-136 128-161 (205)
278 PF03833 PolC_DP2: DNA polymer 31.8 15 0.00033 34.4 0.0 9 26-34 656-664 (900)
279 PF02318 FYVE_2: FYVE-type zin 31.8 6.4 0.00014 27.5 -2.0 11 26-36 55-65 (118)
280 PF01485 IBR: IBR domain; Int 31.6 22 0.00047 21.2 0.6 29 27-55 20-52 (64)
281 TIGR00310 ZPR1_znf ZPR1 zinc f 31.4 14 0.00031 28.2 -0.2 10 72-81 31-40 (192)
282 TIGR00570 cdk7 CDK-activating 31.3 30 0.00065 28.6 1.5 28 26-54 4-31 (309)
283 KOG1842|consensus 31.3 26 0.00057 30.3 1.3 12 143-154 182-193 (505)
284 PF09297 zf-NADH-PPase: NADH p 31.1 14 0.0003 19.1 -0.3 6 45-50 23-28 (32)
285 PHA02998 RNA polymerase subuni 30.4 19 0.00042 27.0 0.3 11 100-110 172-182 (195)
286 KOG4124|consensus 30.3 29 0.00063 29.0 1.3 24 21-44 394-417 (442)
287 PF04780 DUF629: Protein of un 30.3 36 0.00077 29.9 1.9 26 71-96 57-83 (466)
288 TIGR00595 priA primosomal prot 30.0 42 0.0009 29.9 2.4 24 125-149 238-261 (505)
289 KOG0978|consensus 29.8 11 0.00023 34.6 -1.3 13 98-110 677-689 (698)
290 COG2824 PhnA Uncharacterized Z 29.8 18 0.00039 24.7 0.0 26 28-54 6-31 (112)
291 TIGR03826 YvyF flagellar opero 29.8 22 0.00048 25.6 0.5 23 27-52 5-27 (137)
292 PF14319 Zn_Tnp_IS91: Transpos 29.7 20 0.00043 24.7 0.3 30 23-52 40-69 (111)
293 CHL00174 accD acetyl-CoA carbo 29.7 20 0.00042 29.5 0.2 31 25-55 38-69 (296)
294 PF14205 Cys_rich_KTR: Cystein 29.5 28 0.0006 20.6 0.8 10 99-108 28-37 (55)
295 PRK05654 acetyl-CoA carboxylas 29.2 18 0.0004 29.6 0.0 31 25-55 27-58 (292)
296 COG3880 Modulator of heat shoc 29.2 13 0.00029 27.6 -0.7 31 25-55 74-104 (176)
297 PF04810 zf-Sec23_Sec24: Sec23 29.0 26 0.00057 19.1 0.6 14 138-151 21-34 (40)
298 COG5216 Uncharacterized conser 28.7 27 0.00059 21.0 0.7 31 72-108 23-53 (67)
299 PF14599 zinc_ribbon_6: Zinc-r 28.7 13 0.00028 22.7 -0.7 25 26-50 31-55 (61)
300 KOG1280|consensus 28.5 25 0.00053 29.4 0.6 41 139-179 77-119 (381)
301 PF10071 DUF2310: Zn-ribbon-co 28.5 22 0.00047 28.5 0.3 11 27-37 222-232 (258)
302 PF01215 COX5B: Cytochrome c o 28.3 16 0.00035 26.2 -0.4 11 43-53 112-122 (136)
303 COG1656 Uncharacterized conser 28.3 16 0.00035 27.1 -0.4 22 69-90 128-149 (165)
304 TIGR00515 accD acetyl-CoA carb 28.3 21 0.00045 29.2 0.2 31 25-55 26-57 (285)
305 KOG4317|consensus 28.3 19 0.00041 29.6 -0.1 32 26-63 8-39 (383)
306 PLN02294 cytochrome c oxidase 28.2 25 0.00054 26.2 0.5 16 139-154 139-154 (174)
307 PF09963 DUF2197: Uncharacteri 28.2 18 0.00039 21.6 -0.1 14 139-152 29-42 (56)
308 KOG0717|consensus 27.9 32 0.0007 29.9 1.3 21 142-162 461-481 (508)
309 KOG1842|consensus 27.9 23 0.00049 30.6 0.4 29 140-168 14-42 (505)
310 COG1326 Uncharacterized archae 27.8 34 0.00074 26.1 1.2 11 43-53 30-40 (201)
311 PRK05580 primosome assembly pr 27.8 46 0.001 30.8 2.3 25 125-150 406-430 (679)
312 PTZ00303 phosphatidylinositol 27.6 21 0.00046 33.2 0.1 31 26-56 461-494 (1374)
313 PF14787 zf-CCHC_5: GAG-polypr 27.6 23 0.00051 19.0 0.2 18 141-158 2-19 (36)
314 KOG2906|consensus 27.4 18 0.00039 24.2 -0.2 11 25-35 21-31 (105)
315 TIGR00340 zpr1_rel ZPR1-relate 27.4 16 0.00035 27.2 -0.6 10 72-81 29-38 (163)
316 smart00778 Prim_Zn_Ribbon Zinc 26.7 32 0.00069 18.6 0.7 24 27-50 5-32 (37)
317 PF15616 TerY-C: TerY-C metal 26.7 25 0.00054 25.1 0.3 13 97-109 103-115 (131)
318 smart00504 Ubox Modified RING 26.2 29 0.00063 20.6 0.5 9 101-109 37-45 (63)
319 PF12773 DZR: Double zinc ribb 26.2 33 0.00071 19.5 0.7 9 72-80 30-38 (50)
320 PRK12775 putative trifunctiona 25.7 28 0.00061 33.8 0.6 36 72-110 797-832 (1006)
321 KOG4407|consensus 25.5 39 0.00085 33.6 1.4 9 162-170 290-298 (1973)
322 PRK00423 tfb transcription ini 25.3 29 0.00062 28.7 0.5 32 23-54 9-41 (310)
323 KOG2071|consensus 24.9 27 0.00058 31.3 0.3 27 139-165 416-442 (579)
324 PF14634 zf-RING_5: zinc-RING 24.9 50 0.0011 18.2 1.3 6 72-77 37-42 (44)
325 PF04606 Ogr_Delta: Ogr/Delta- 24.9 16 0.00034 20.9 -0.8 12 71-82 25-38 (47)
326 cd04476 RPA1_DBD_C RPA1_DBD_C: 24.7 30 0.00065 25.5 0.5 27 26-53 35-61 (166)
327 COG0675 Transposase and inacti 24.7 32 0.00069 28.3 0.7 14 70-83 321-334 (364)
328 PRK07591 threonine synthase; V 24.5 26 0.00055 30.4 0.1 27 25-54 18-44 (421)
329 PF09332 Mcm10: Mcm10 replicat 24.5 17 0.00037 30.5 -0.9 13 43-55 285-297 (344)
330 PF11494 Ta0938: Ta0938; Inte 24.5 35 0.00075 22.8 0.7 13 72-84 38-50 (105)
331 TIGR00627 tfb4 transcription f 24.4 42 0.00091 27.4 1.3 14 140-153 254-267 (279)
332 PRK06450 threonine synthase; V 24.4 31 0.00066 28.9 0.5 26 26-54 4-29 (338)
333 PF08646 Rep_fac-A_C: Replicat 24.2 23 0.0005 25.5 -0.2 28 27-55 20-49 (146)
334 COG3809 Uncharacterized protei 24.1 29 0.00062 22.3 0.2 33 28-60 4-38 (88)
335 PRK06260 threonine synthase; V 23.9 42 0.0009 28.8 1.2 11 100-110 4-14 (397)
336 PHA02942 putative transposase; 23.8 33 0.00072 29.3 0.6 28 45-83 327-354 (383)
337 COG4416 Com Mu-like prophage p 23.5 39 0.00085 19.9 0.7 27 25-51 4-32 (60)
338 KOG1813|consensus 23.2 55 0.0012 26.8 1.7 15 23-37 239-253 (313)
339 KOG2807|consensus 23.2 82 0.0018 26.2 2.7 25 140-164 344-368 (378)
340 PF10058 DUF2296: Predicted in 23.1 36 0.00079 20.1 0.5 10 25-34 22-31 (54)
341 PRK12860 transcriptional activ 23.1 57 0.0012 24.9 1.7 28 71-106 134-161 (189)
342 PRK01343 zinc-binding protein; 23.1 50 0.0011 19.8 1.1 26 141-178 9-34 (57)
343 PF08209 Sgf11: Sgf11 (transcr 22.8 30 0.00065 18.2 0.1 12 99-110 4-15 (33)
344 KOG2636|consensus 22.7 55 0.0012 28.4 1.7 28 66-93 396-424 (497)
345 PF06397 Desulfoferrod_N: Desu 22.6 31 0.00067 18.6 0.1 13 139-151 4-16 (36)
346 cd01411 SIR2H SIR2H: Uncharact 22.5 54 0.0012 25.7 1.5 7 73-79 138-144 (225)
347 PF13005 zf-IS66: zinc-finger 22.3 25 0.00055 19.7 -0.3 7 72-78 41-47 (47)
348 PF05766 NinG: Bacteriophage L 22.3 26 0.00057 26.7 -0.2 30 24-53 5-34 (189)
349 PF11789 zf-Nse: Zinc-finger o 22.3 26 0.00057 20.9 -0.2 45 69-146 9-53 (57)
350 KOG2461|consensus 22.2 1.1E+02 0.0024 26.4 3.4 20 89-108 321-340 (396)
351 PRK07218 replication factor A; 22.1 35 0.00075 29.6 0.4 43 25-74 297-339 (423)
352 PLN02748 tRNA dimethylallyltra 21.9 36 0.00078 30.0 0.5 26 139-164 416-442 (468)
353 KOG0696|consensus 21.8 36 0.00077 29.6 0.4 57 22-78 70-128 (683)
354 PF14354 Lar_restr_allev: Rest 21.8 42 0.00091 20.0 0.6 6 27-32 5-10 (61)
355 PTZ00448 hypothetical protein; 21.7 64 0.0014 27.3 1.8 23 71-93 314-336 (373)
356 smart00709 Zpr1 Duplicated dom 21.6 21 0.00046 26.4 -0.8 10 72-81 30-39 (160)
357 PRK08402 replication factor A; 21.5 30 0.00065 29.2 -0.1 25 27-51 214-238 (355)
358 PTZ00448 hypothetical protein; 21.1 37 0.00081 28.7 0.4 23 141-163 314-336 (373)
359 TIGR03830 CxxCG_CxxCG_HTH puta 21.0 44 0.00095 23.2 0.7 19 70-88 30-48 (127)
360 PF01844 HNH: HNH endonuclease 20.6 35 0.00076 18.8 0.1 18 144-161 1-18 (47)
361 KOG1701|consensus 20.6 27 0.0006 30.0 -0.5 84 27-111 336-439 (468)
362 COG4338 Uncharacterized protei 20.6 25 0.00054 20.2 -0.5 16 143-158 14-29 (54)
363 PRK12722 transcriptional activ 20.6 41 0.0009 25.6 0.5 33 39-79 130-162 (187)
364 KOG0717|consensus 20.3 27 0.00059 30.4 -0.6 22 142-163 293-314 (508)
No 1
>KOG2462|consensus
Probab=99.95 E-value=2.1e-29 Score=193.95 Aligned_cols=123 Identities=33% Similarity=0.624 Sum_probs=91.7
Q ss_pred CcccCccchhHHHhhcCCC-------------ccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHH
Q psy14244 24 NAYKCHQCQRLIFLSANAG-------------VHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTH 90 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~-------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 90 (226)
..|+|++||+.+.+.++|. .+.|++||+.|.+...|..|+++|+ -+++|.+||+.|...=.|.-|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGH 206 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGH 206 (279)
T ss_pred CceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcc
Confidence 4477777777777777644 4467777777777777777777776 567777777777777777777
Q ss_pred HhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcChhhhhccCC
Q psy14244 91 QLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 91 ~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~ 162 (226)
+|+|||||||.|+.|+++|.. +++|..|+.+|. +.|+|.|..|+|.|...+.|.+|..
T Consensus 207 iRTHTGEKPF~C~hC~kAFAD-------------RSNLRAHmQTHS-~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 207 IRTHTGEKPFSCPHCGKAFAD-------------RSNLRAHMQTHS-DVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred cccccCCCCccCCcccchhcc-------------hHHHHHHHHhhc-CCccccCcchhhHHHHHHHHHHhhh
Confidence 777777777777777777776 777777777777 5677777777777777777777754
No 2
>KOG2462|consensus
Probab=99.94 E-value=5.1e-28 Score=186.36 Aligned_cols=131 Identities=24% Similarity=0.421 Sum_probs=122.9
Q ss_pred ccccCccccccCChhHHhhccCCCCC---CCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCC
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMK---PRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTH 119 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~ 119 (226)
.|.|+.||+.+.+.++|.+|..+|.. .+.+.|++||+.|.+...|..|+++|+ -+.+|.+||+.|.+
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSR-------- 199 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSR-------- 199 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccc--------
Confidence 68999999999999999999998874 578999999999999999999999998 67999999999999
Q ss_pred CCCCCCccccccccccCCCCCCccCCcchhhhcChhhhhccCCCCCCCCCCcccchhhhccchhHHHHHH
Q psy14244 120 TPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQCGPEDIKPNVDNLQTQISNNDEQAKIKM 189 (226)
Q Consensus 120 ~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~~~~~~~~~~~~~~~~~ 189 (226)
.+-|..|+++|+ |||||.|+.|++.|.++++|+.||.+|.+.+.|.|..|...|.-..-+..|.
T Consensus 200 -----PWLLQGHiRTHT-GEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 200 -----PWLLQGHIRTHT-GEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred -----hHHhhccccccc-CCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhh
Confidence 999999999999 7999999999999999999999999999999999999999998777666654
No 3
>KOG1074|consensus
Probab=99.87 E-value=4e-23 Score=178.93 Aligned_cols=68 Identities=34% Similarity=0.733 Sum_probs=60.9
Q ss_pred ccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCC----CccCC---CCccccccc
Q psy14244 45 KCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIR----PFKCT---TCDKSFVNQ 112 (226)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k----~~~C~---~C~~~f~~~ 112 (226)
.|-+|.+.....+.|+.|.++|+|++||+|.+||++|.++.+|+.||-+|.... .|.|+ +|-+.|.+.
T Consensus 607 qCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~ 681 (958)
T KOG1074|consen 607 QCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNA 681 (958)
T ss_pred ceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccc
Confidence 599999999999999999999999999999999999999999999999986543 47788 788777654
No 4
>KOG3608|consensus
Probab=99.84 E-value=1.1e-22 Score=161.13 Aligned_cols=164 Identities=23% Similarity=0.438 Sum_probs=143.0
Q ss_pred ceeeEEeeCCCCcccCccchhHHHhhcCC------------CccccCccccccCChhHHhhccCCCCCCCCcccccCccc
Q psy14244 13 QQTLLCIHGNDNAYKCHQCQRLIFLSANA------------GVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKS 80 (226)
Q Consensus 13 ~~~h~~~h~~~~~~~C~~C~k~f~~~~~~------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 80 (226)
|+.|+++|+++|...|+.||..|..+..+ .+|.|..|.+.|.+...|..|+..|. .-|+|+.|+.+
T Consensus 195 LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmt 272 (467)
T KOG3608|consen 195 LREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMT 272 (467)
T ss_pred HHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccC
Confidence 36999999999999999999998765432 37899999999999999999998875 46899999999
Q ss_pred cCChhhHHHHHhH-hcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCc--chhhhcChhhh
Q psy14244 81 FTNSQNLNTHQLI-HSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDR--CSQFFGDRMNL 157 (226)
Q Consensus 81 f~~~~~l~~H~~~-h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~--C~~~f~~~~~L 157 (226)
.+..+.|..|++. |+..|||+|+.|++.|.+ .++|.+|...|. +..|.|.. |..+|.+...+
T Consensus 273 c~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~-------------esdL~kH~~~HS--~~~y~C~h~~C~~s~r~~~q~ 337 (467)
T KOG3608|consen 273 CSSASSLTTHIRYRHSKDKPFKCDECDTRCVR-------------ESDLAKHVQVHS--KTVYQCEHPDCHYSVRTYTQM 337 (467)
T ss_pred CCChHHHHHHHHhhhccCCCccccchhhhhcc-------------HHHHHHHHHhcc--ccceecCCCCCcHHHHHHHHH
Confidence 9999999999987 889999999999999998 899999988666 77899977 99999999999
Q ss_pred hccCCCCC-CCC--CCcccchhhhccchhHHHHHHHHHH
Q psy14244 158 ISHQCGPE-DIK--PNVDNLQTQISNNDEQAKIKMQQQQ 193 (226)
Q Consensus 158 ~~H~~~h~-~~~--~~~c~~~~~~~~~~~~~~~~~q~~~ 193 (226)
++|++-++ |.. +|.|-.|.+.++....+.+|+-.+.
T Consensus 338 ~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 338 RRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKH 376 (467)
T ss_pred HHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhh
Confidence 99987655 554 4999999999999998888876543
No 5
>KOG1074|consensus
Probab=99.79 E-value=1.3e-20 Score=163.52 Aligned_cols=52 Identities=37% Similarity=0.770 Sum_probs=49.9
Q ss_pred ccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHh
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIH 94 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 94 (226)
+|+|.+|++.|.+.+.|+.|.++|+|++||.|.+||.+|.++.+|..|.-.|
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH 404 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRH 404 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeec
Confidence 7899999999999999999999999999999999999999999999997766
No 6
>KOG3576|consensus
Probab=99.75 E-value=3.8e-20 Score=136.53 Aligned_cols=120 Identities=26% Similarity=0.476 Sum_probs=107.2
Q ss_pred hcCCCccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCC
Q psy14244 38 SANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTS 117 (226)
Q Consensus 38 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~ 117 (226)
.++-..|.|.+|++.|.-...|.+|++-|...+.|.|..||+.|...-.|.+|+|+|+|.+||+|..|+++|+.
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftq------ 185 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQ------ 185 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHh------
Confidence 34445799999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCCCCCccccccccccCCC----------CCCccCCcchhhhcChhhhhccCCCCCCCCCC
Q psy14244 118 THTPTYTKSNLAQHSCMNSHF----------PKPYQCDRCSQFFGDRMNLISHQCGPEDIKPN 170 (226)
Q Consensus 118 ~~~~~~~~~~l~~H~~~~~~~----------~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~ 170 (226)
.-+|..|.+..++. .|-|.|+.||.+-.....+..|++.|+...|.
T Consensus 186 -------rcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 186 -------RCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred -------hccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 88888887655532 46799999999999999999999998877654
No 7
>KOG3608|consensus
Probab=99.68 E-value=2.4e-18 Score=136.72 Aligned_cols=145 Identities=26% Similarity=0.497 Sum_probs=124.2
Q ss_pred CCCCCCceeeeeceeeEEeeC--CCCcccCccchhHHHhhcCCC--------ccccCccccccCChhHHhhccC-CCCCC
Q psy14244 1 MFTQTPNLVLFSQQTLLCIHG--NDNAYKCHQCQRLIFLSANAG--------VHKCEYCHKVFDQQSSLLSHNC-PQMKP 69 (226)
Q Consensus 1 ~f~~~~~l~~~~~~~h~~~h~--~~~~~~C~~C~k~f~~~~~~~--------~~~C~~C~~~f~~~~~l~~H~~-~h~~~ 69 (226)
||..+..|. .|++-.+ ...+|.|..|.|.|.+...|+ -|+|+.|+.+....++|..|++ .|..+
T Consensus 216 ~F~~~tkl~-----DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~d 290 (467)
T KOG3608|consen 216 LFRTKTKLF-----DHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKD 290 (467)
T ss_pred HhccccHHH-----HHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhccC
Confidence 577777773 5655543 457999999999998776555 6799999999999999999987 47889
Q ss_pred CCcccccCccccCChhhHHHHHhHhcCCCCccCCC--CcccccccCCCCCCCCCCCCCccccccccccCCC--CCCccCC
Q psy14244 70 RPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTT--CDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHF--PKPYQCD 145 (226)
Q Consensus 70 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~--C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~--~k~~~C~ 145 (226)
+||+|+.|++.|.+...|.+|+..|+ +..|.|.. |..++.+ ...|.+|++.++.| +-+|.|.
T Consensus 291 kpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~-------------~~q~~~H~~evhEg~np~~Y~CH 356 (467)
T KOG3608|consen 291 KPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRT-------------YTQMRRHFLEVHEGNNPILYACH 356 (467)
T ss_pred CCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHH-------------HHHHHHHHHHhccCCCCCceeee
Confidence 99999999999999999999999988 77799987 9999998 88999999877744 4579999
Q ss_pred cchhhhcChhhhhccCCCC
Q psy14244 146 RCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 146 ~C~~~f~~~~~L~~H~~~h 164 (226)
.|++.|++..+|.+|+..-
T Consensus 357 ~Cdr~ft~G~~L~~HL~kk 375 (467)
T KOG3608|consen 357 CCDRFFTSGKSLSAHLMKK 375 (467)
T ss_pred cchhhhccchhHHHHHHHh
Confidence 9999999999999997543
No 8
>KOG3576|consensus
Probab=99.62 E-value=3.6e-17 Score=120.88 Aligned_cols=108 Identities=27% Similarity=0.446 Sum_probs=97.1
Q ss_pred CCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcch
Q psy14244 69 PRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCS 148 (226)
Q Consensus 69 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~ 148 (226)
...|.|.+|++.|.....|.+|++-|...+.+-|..||+.|.. .-+|++|+++|+ |.+||+|..|+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfnd-------------tfdlkrh~rtht-gvrpykc~~c~ 180 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFND-------------TFDLKRHTRTHT-GVRPYKCSLCE 180 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccc-------------hhhhhhhhcccc-Cccccchhhhh
Confidence 3569999999999999999999999999999999999999998 889999999999 79999999999
Q ss_pred hhhcChhhhhccCCCCCC-----------CCCCcccchhhhccchhHHHHHHH
Q psy14244 149 QFFGDRMNLISHQCGPED-----------IKPNVDNLQTQISNNDEQAKIKMQ 190 (226)
Q Consensus 149 ~~f~~~~~L~~H~~~h~~-----------~~~~~c~~~~~~~~~~~~~~~~~q 190 (226)
+.|+.+-.|+.|++.-+| ++.|+|..|+.+....+....|+.
T Consensus 181 kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~ 233 (267)
T KOG3576|consen 181 KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLK 233 (267)
T ss_pred HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHH
Confidence 999999999999864433 578999999999888777666653
No 9
>KOG3623|consensus
Probab=99.59 E-value=1.6e-16 Score=136.60 Aligned_cols=105 Identities=30% Similarity=0.613 Sum_probs=95.0
Q ss_pred ccCccccccCChhHHhhccCCCC--CCCCcccccCccccCChhhHHHHHhHhcC-------------CCCccCCCCcccc
Q psy14244 45 KCEYCHKVFDQQSSLLSHNCPQM--KPRPYKCDTCEKSFTNSQNLNTHQLIHSG-------------IRPFKCTTCDKSF 109 (226)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-------------~k~~~C~~C~~~f 109 (226)
.|++|.+++.....|+.|++..+ .+..|.|..|..+|.+...|.+||.+|.. .+.|+|+.||++|
T Consensus 212 tcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAF 291 (1007)
T KOG3623|consen 212 TCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAF 291 (1007)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhh
Confidence 79999999999999999976543 35569999999999999999999999854 3469999999999
Q ss_pred cccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcChhhhhccCCC
Q psy14244 110 VNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
.. +-.|+.|+++|. |+|||.|+.|+|.|.....+..||.+
T Consensus 292 Kf-------------KHHLKEHlRIHS-GEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 292 KF-------------KHHLKEHLRIHS-GEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred hh-------------HHHHHhhheeec-CCCCcCCcccccccccCCcccccccc
Confidence 98 999999999999 79999999999999999999999853
No 10
>KOG3623|consensus
Probab=99.51 E-value=2.4e-15 Score=129.43 Aligned_cols=82 Identities=35% Similarity=0.762 Sum_probs=76.4
Q ss_pred CCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCc
Q psy14244 67 MKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDR 146 (226)
Q Consensus 67 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~ 146 (226)
+.+.+|.|+.|+++|.-.+.|.+|.-.|+|.+||.|.+|.++|.. +-.|..|++.|. |+|||.|+.
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKH-------------KHHLtEHkRLHS-GEKPfQCdK 955 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKH-------------KHHLTEHKRLHS-GEKPFQCDK 955 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhh-------------hhhhhhhhhhcc-CCCcchhhh
Confidence 445689999999999999999999999999999999999999998 899999999999 799999999
Q ss_pred chhhhcChhhhhccCC
Q psy14244 147 CSQFFGDRMNLISHQC 162 (226)
Q Consensus 147 C~~~f~~~~~L~~H~~ 162 (226)
|+|.|.....+..||.
T Consensus 956 ClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 956 CLKRFSHSGSYSQHMN 971 (1007)
T ss_pred hhhhcccccchHhhhc
Confidence 9999999999999985
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.38 E-value=1.4e-13 Score=118.66 Aligned_cols=88 Identities=15% Similarity=0.368 Sum_probs=46.3
Q ss_pred ccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhc
Q psy14244 73 KCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFG 152 (226)
Q Consensus 73 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~ 152 (226)
.|+.|++.|. ...|..|+++++ +++.|+ |++.+ . +..|..|...+. ..+++.|+.|++.|.
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~-------------R~~L~~H~~thC-p~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-E-------------KEQMVQHQASTC-PLRLITCRFCGDMVQ 515 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-c-------------hhHHHhhhhccC-CCCceeCCCCCCccc
Confidence 5555655553 344555555543 455565 55443 2 455555555444 355566666665553
Q ss_pred C----------hhhhhccCCCCCCCCCCcccchhhhcc
Q psy14244 153 D----------RMNLISHQCGPEDIKPNVDNLQTQISN 180 (226)
Q Consensus 153 ~----------~~~L~~H~~~h~~~~~~~c~~~~~~~~ 180 (226)
. .+.|..|..++ |.+++.|..|+....
T Consensus 516 ~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vr 552 (567)
T PLN03086 516 AGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVM 552 (567)
T ss_pred cCccccchhhhhhhHHHHHHhc-CCcceEccccCCeee
Confidence 1 23455555553 555555655554443
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.19 E-value=1e-11 Score=107.18 Aligned_cols=128 Identities=17% Similarity=0.356 Sum_probs=96.6
Q ss_pred ccCcc--chhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCC
Q psy14244 26 YKCHQ--CQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCT 103 (226)
Q Consensus 26 ~~C~~--C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~ 103 (226)
..|+. ||..|....-...+.|+.|++.|. ...|..|+..++ .++.|+ ||+.+ ....|..|+++|.+++++.|+
T Consensus 434 V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~ 508 (567)
T PLN03086 434 VVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCR 508 (567)
T ss_pred eeCCcccccceeeccccccCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCC
Confidence 45763 777776655556778999999996 678999999875 789999 99765 668999999999999999999
Q ss_pred CCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcChhhhhccCCCC
Q psy14244 104 TCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 104 ~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~h 164 (226)
+|++.+....++..-. ...+.|..|.... +.+++.|..||+.|..+ +|..|+...
T Consensus 509 fC~~~v~~g~~~~d~~---d~~s~Lt~HE~~C--G~rt~~C~~Cgk~Vrlr-dm~~H~~~~ 563 (567)
T PLN03086 509 FCGDMVQAGGSAMDVR---DRLRGMSEHESIC--GSRTAPCDSCGRSVMLK-EMDIHQIAV 563 (567)
T ss_pred CCCCccccCccccchh---hhhhhHHHHHHhc--CCcceEccccCCeeeeh-hHHHHHHHh
Confidence 9999985210000000 0135788997663 68999999999998865 667776543
No 13
>PHA00733 hypothetical protein
Probab=99.15 E-value=7.7e-12 Score=88.91 Aligned_cols=83 Identities=18% Similarity=0.366 Sum_probs=53.7
Q ss_pred CCCCcccccCccccCChhhHHHH--Hh---HhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCc
Q psy14244 68 KPRPYKCDTCEKSFTNSQNLNTH--QL---IHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPY 142 (226)
Q Consensus 68 ~~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~ 142 (226)
..+++.|.+|.+.|.+...|..+ ++ .+.+.+||.|+.|++.|.. .+.|..|.+.+ +.+|
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss-------------~s~L~~H~r~h---~~~~ 100 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSS-------------SVSLKQHIRYT---EHSK 100 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCC-------------HHHHHHHHhcC---CcCc
Confidence 34566777777666666555554 21 2234667777777777776 67777776653 2467
Q ss_pred cCCcchhhhcChhhhhccCCCCCC
Q psy14244 143 QCDRCSQFFGDRMNLISHQCGPED 166 (226)
Q Consensus 143 ~C~~C~~~f~~~~~L~~H~~~h~~ 166 (226)
.|+.|++.|.....|..|+...++
T Consensus 101 ~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 101 VCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCCCCCCccCCHHHHHHHHHHhcC
Confidence 777777777777777777665554
No 14
>PHA00733 hypothetical protein
Probab=99.00 E-value=1.5e-10 Score=82.33 Aligned_cols=78 Identities=21% Similarity=0.313 Sum_probs=61.9
Q ss_pred ccccCccccccCChhHHh------hccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCC
Q psy14244 43 VHKCEYCHKVFDQQSSLL------SHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPT 116 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~------~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~ 116 (226)
++.|.+|.+.|.....|. .|+. +.+++||.|+.|++.|.+...|..|++.+ +.+|.|..|++.|..
T Consensus 40 ~~~~~~~~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~----- 111 (128)
T PHA00733 40 RLIRAVVKTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRN----- 111 (128)
T ss_pred hHHHHHHhhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCC-----
Confidence 456777777666655444 4443 34588999999999999999999999876 457999999999998
Q ss_pred CCCCCCCCCccccccccccC
Q psy14244 117 STHTPTYTKSNLAQHSCMNS 136 (226)
Q Consensus 117 ~~~~~~~~~~~l~~H~~~~~ 136 (226)
...|..|++..+
T Consensus 112 --------~~sL~~H~~~~h 123 (128)
T PHA00733 112 --------TDSTLDHVCKKH 123 (128)
T ss_pred --------HHHHHHHHHHhc
Confidence 889999987666
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.95 E-value=5.2e-10 Score=66.15 Aligned_cols=39 Identities=21% Similarity=0.526 Sum_probs=32.6
Q ss_pred CcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccc
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~ 111 (226)
.|.|+.||+.|.....|..|+++|+ ++|+|..|++.|..
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~ 43 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLR 43 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecc
Confidence 4788888888888888888888887 68888888888876
No 16
>KOG3993|consensus
Probab=98.86 E-value=1.6e-09 Score=88.73 Aligned_cols=70 Identities=30% Similarity=0.526 Sum_probs=59.5
Q ss_pred ccCccchhHHHhhcCCC----------ccccCccccccCChhHHhhccCCCCCC--------------------------
Q psy14244 26 YKCHQCQRLIFLSANAG----------VHKCEYCHKVFDQQSSLLSHNCPQMKP-------------------------- 69 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~----------~~~C~~C~~~f~~~~~l~~H~~~h~~~-------------------------- 69 (226)
|.|..|...|.+...|. -|+|+.|+|.|....+|..|.++|-..
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 88999998887766655 478999999999999999999888422
Q ss_pred -------CCcccccCccccCChhhHHHHHhHhc
Q psy14244 70 -------RPYKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 70 -------~~~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
..|.|.+|++.|....-|+.|..+|.
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 14899999999999999999988774
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.86 E-value=5.8e-10 Score=65.96 Aligned_cols=45 Identities=13% Similarity=0.301 Sum_probs=40.4
Q ss_pred CCccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhH
Q psy14244 41 AGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNL 87 (226)
Q Consensus 41 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 87 (226)
+-.|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|
T Consensus 3 ~~~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 3 LLGYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 345899999999999999999999999 699999999999877665
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.72 E-value=7.9e-09 Score=52.29 Aligned_cols=25 Identities=48% Similarity=0.970 Sum_probs=21.5
Q ss_pred hHHHHHhHhcCCCCccCCCCccccc
Q psy14244 86 NLNTHQLIHSGIRPFKCTTCDKSFV 110 (226)
Q Consensus 86 ~l~~H~~~h~~~k~~~C~~C~~~f~ 110 (226)
+|..|+++|++++||.|+.|++.|.
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 4778999999999999999998885
No 19
>PHA00616 hypothetical protein
Probab=98.56 E-value=1.3e-08 Score=57.28 Aligned_cols=35 Identities=23% Similarity=0.372 Sum_probs=32.7
Q ss_pred CccCCcchhhhcChhhhhccCCCCCCCCCCcccch
Q psy14244 141 PYQCDRCSQFFGDRMNLISHQCGPEDIKPNVDNLQ 175 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~~~ 175 (226)
||.|+.||+.|..++.|..|++.|+|++|+.++.-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYF 35 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEE
Confidence 79999999999999999999999999999988753
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=98.50 E-value=1.4e-08 Score=51.38 Aligned_cols=26 Identities=42% Similarity=0.792 Sum_probs=23.8
Q ss_pred HHhhccCCCCCCCCcccccCccccCC
Q psy14244 58 SLLSHNCPQMKPRPYKCDTCEKSFTN 83 (226)
Q Consensus 58 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 83 (226)
+|.+|+++|++++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 48899999999999999999999964
No 21
>PHA00616 hypothetical protein
Probab=98.46 E-value=7e-08 Score=54.35 Aligned_cols=36 Identities=17% Similarity=0.253 Sum_probs=29.6
Q ss_pred CcccccCccccCChhhHHHHHhHhcCCCCccCCCCc
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCD 106 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~ 106 (226)
||.|+.||+.|.....|..|++.|++++++.|+.=-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y 36 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFY 36 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEE
Confidence 578888888888888888888888888888877533
No 22
>KOG3993|consensus
Probab=98.30 E-value=7.4e-08 Score=79.24 Aligned_cols=143 Identities=18% Similarity=0.285 Sum_probs=107.5
Q ss_pred CCccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCC-----------------------
Q psy14244 41 AGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGI----------------------- 97 (226)
Q Consensus 41 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----------------------- 97 (226)
+..|.|..|...|.+.-.|..|.-.-.....|+|+.|++.|+-..+|..|.|.|...
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~e 344 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQE 344 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhh
Confidence 336899999999999999999987666667899999999999999999999988321
Q ss_pred ----------CCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCC---------------------------
Q psy14244 98 ----------RPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPK--------------------------- 140 (226)
Q Consensus 98 ----------k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k--------------------------- 140 (226)
.-|.|..|++.|.+ .+.|++|.-+|+..+.
T Consensus 345 a~rsg~dss~gi~~C~~C~KkFrR-------------qAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~ 411 (500)
T KOG3993|consen 345 AERSGDDSSSGIFSCHTCGKKFRR-------------QAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHS 411 (500)
T ss_pred ccccCCcccCceeecHHhhhhhHH-------------HHHHHHhHHhhhccccchhcccCcchhhccccccccccccccc
Confidence 13899999999998 7777777555442211
Q ss_pred ----------Ccc--------CCcchhhhcChhhhhccCCCCCCCCCCcccchhhhccchhHHHHHHHHHHHHH
Q psy14244 141 ----------PYQ--------CDRCSQFFGDRMNLISHQCGPEDIKPNVDNLQTQISNNDEQAKIKMQQQQQQQ 196 (226)
Q Consensus 141 ----------~~~--------C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~~~~~~~~~~~~~~~~~q~~~q~~ 196 (226)
.|. |++||..+..+..--.+.+.-..+..|.|.+|...+.+...+..|++.-+-.+
T Consensus 412 ~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 412 SASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred ccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 011 55666666665555555555556677889999999998888888876654443
No 23
>PHA00732 hypothetical protein
Probab=98.30 E-value=4.6e-07 Score=58.64 Aligned_cols=47 Identities=28% Similarity=0.428 Sum_probs=34.6
Q ss_pred ccccCccccccCChhHHhhccCC-CCCCCCcccccCccccCChhhHHHHHhHhc
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCP-QMKPRPYKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
+|.|+.||+.|.+.+.|..|++. |. ++.|+.|++.|. .|..|+.+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 46788888888888888888874 54 357888888887 3667775543
No 24
>PHA00732 hypothetical protein
Probab=98.19 E-value=1.3e-06 Score=56.55 Aligned_cols=38 Identities=29% Similarity=0.549 Sum_probs=33.8
Q ss_pred CcccccCccccCChhhHHHHHhH-hcCCCCccCCCCcccccc
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLI-HSGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~k~~~C~~C~~~f~~ 111 (226)
||.|+.|++.|.....|..|++. |++ +.|+.|++.|.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~~ 39 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYRR 39 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeCC
Confidence 68999999999999999999985 653 689999999975
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.09 E-value=5.3e-07 Score=54.19 Aligned_cols=51 Identities=31% Similarity=0.505 Sum_probs=38.9
Q ss_pred CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCC-CCCccCCcchhhhcChhhhhccCCCCC
Q psy14244 99 PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHF-PKPYQCDRCSQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 99 ~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~-~k~~~C~~C~~~f~~~~~L~~H~~~h~ 165 (226)
.|.||+|++.|. ...|..|....+.. .+.+.|++|...++ .+|..|+..++
T Consensus 2 ~f~CP~C~~~~~--------------~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKGFS--------------ESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCccC--------------HHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 489999999654 67899997665533 46789999998765 38888887655
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.89 E-value=8.9e-06 Score=48.83 Aligned_cols=50 Identities=28% Similarity=0.435 Sum_probs=36.7
Q ss_pred ccccCccccccCChhHHhhccC-CCCCC-CCcccccCccccCChhhHHHHHhHhc
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNC-PQMKP-RPYKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~-~h~~~-~~~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
.|.|++|++. .+...|..|.. .|..+ +.+.||+|...+. ..|..|+..++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 4789999994 55678999954 44443 5689999998655 48888988754
No 27
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.87 E-value=1e-05 Score=64.59 Aligned_cols=70 Identities=26% Similarity=0.575 Sum_probs=45.9
Q ss_pred CCCccccc--CccccCChhhHHHHHhH-hcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCC
Q psy14244 69 PRPYKCDT--CEKSFTNSQNLNTHQLI-HSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCD 145 (226)
Q Consensus 69 ~~~~~C~~--C~~~f~~~~~l~~H~~~-h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~ 145 (226)
++||+|++ |.+.|.+...|+-|+.. |...+..+-+. + ..+--... ..|||+|+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~--------------------p---~~~~~F~~-~~KPYrCe 402 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPS--------------------P---EKMNIFSA-KDKPYRCE 402 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCC--------------------c---cccccccc-cCCceecc
Confidence 47888876 88888888888888765 32222111110 0 00110112 47999999
Q ss_pred cchhhhcChhhhhccCC
Q psy14244 146 RCSQFFGDRMNLISHQC 162 (226)
Q Consensus 146 ~C~~~f~~~~~L~~H~~ 162 (226)
+|+|.|.+...|+.|..
T Consensus 403 vC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 403 VCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ccchhhccCccceeccc
Confidence 99999999999999964
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=97.85 E-value=9.4e-06 Score=39.58 Aligned_cols=23 Identities=48% Similarity=0.895 Sum_probs=17.8
Q ss_pred cccccCccccCChhhHHHHHhHh
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIH 94 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h 94 (226)
|.|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 56888888888888888887764
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=97.75 E-value=1.5e-06 Score=42.49 Aligned_cols=22 Identities=32% Similarity=0.679 Sum_probs=20.3
Q ss_pred ccCCcchhhhcChhhhhccCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
|.|+.|++.|.+...|..|++.
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 6899999999999999999865
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.64 E-value=9.1e-06 Score=55.13 Aligned_cols=73 Identities=22% Similarity=0.383 Sum_probs=19.7
Q ss_pred ccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhc
Q psy14244 73 KCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFG 152 (226)
Q Consensus 73 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~ 152 (226)
.|..|+..|.+...|..|+...++...- ....+.. ...+..+..... ...+.|.+|++.|.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~-------------~~~~~~~~~~~~--~~~~~C~~C~~~f~ 61 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVD-------------PNRLLNYLRKKV--KESFRCPYCNKTFR 61 (100)
T ss_dssp -------------------------------------------------------------------SSEEBSSSS-EES
T ss_pred Cccccccccccccccccccccccccccc----ccccccc-------------cccccccccccc--CCCCCCCccCCCCc
Confidence 3777888888888888887664432211 1111111 233333332222 33688888888888
Q ss_pred ChhhhhccCCCC
Q psy14244 153 DRMNLISHQCGP 164 (226)
Q Consensus 153 ~~~~L~~H~~~h 164 (226)
+...|..||+.+
T Consensus 62 s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 62 SREALQEHMRSK 73 (100)
T ss_dssp SHHHHHHHHHHT
T ss_pred CHHHHHHHHcCc
Confidence 888888888754
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.64 E-value=1.2e-05 Score=40.91 Aligned_cols=26 Identities=27% Similarity=0.643 Sum_probs=24.0
Q ss_pred CccCCcchhhhcChhhhhccCCCCCC
Q psy14244 141 PYQCDRCSQFFGDRMNLISHQCGPED 166 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~~H~~~h~~ 166 (226)
||.|+.|++.|.+...|..|++.|.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999998864
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.62 E-value=2.3e-05 Score=62.65 Aligned_cols=70 Identities=23% Similarity=0.444 Sum_probs=40.2
Q ss_pred CCcccCcc--chhHHHhhcCCCcccc-CccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHh
Q psy14244 23 DNAYKCHQ--CQRLIFLSANAGVHKC-EYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQL 92 (226)
Q Consensus 23 ~~~~~C~~--C~k~f~~~~~~~~~~C-~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 92 (226)
++||+|++ |.|.|+...+|+-|.- ..|.....-...-..+..--...+||+|++|+++|.+...|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 48888875 7787777777774421 1122111111111111122345688888888888888888877753
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.52 E-value=6.4e-05 Score=36.69 Aligned_cols=23 Identities=35% Similarity=0.787 Sum_probs=17.1
Q ss_pred cccccCccccCChhhHHHHHhHh
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIH 94 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h 94 (226)
|.|++|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 57888888888888888888775
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.51 E-value=5e-05 Score=38.50 Aligned_cols=25 Identities=36% Similarity=0.885 Sum_probs=16.3
Q ss_pred CcccccCccccCChhhHHHHHhHhc
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
||.|..|++.|.+...|..|++.|.
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 4666666666666666666666553
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=97.44 E-value=2e-05 Score=45.40 Aligned_cols=42 Identities=21% Similarity=0.256 Sum_probs=27.3
Q ss_pred cccccccCCCCCCccCCcchhhhcChhhhhccCCCCCCCCCC
Q psy14244 129 AQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQCGPEDIKPN 170 (226)
Q Consensus 129 ~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~ 170 (226)
..+.+.+...+.|-.|++|+..+....+|++|+..+++.+|-
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~~ 53 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKPG 53 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS--
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccCC
Confidence 445555665688999999999999999999999988888763
No 36
>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=97.40 E-value=1.2e-05 Score=39.38 Aligned_cols=23 Identities=26% Similarity=0.550 Sum_probs=19.0
Q ss_pred ccCCcchhhhcChhhhhccCCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~h 164 (226)
|.|++|++.|.+...|..|+.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 68999999999999999998765
No 37
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.37 E-value=0.00011 Score=49.62 Aligned_cols=24 Identities=25% Similarity=0.685 Sum_probs=20.7
Q ss_pred CcccccCccccCChhhHHHHHhHh
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIH 94 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h 94 (226)
.+.|.+|++.|.+...|..||+.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 588999999999999999999974
No 38
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.19 E-value=0.00045 Score=39.89 Aligned_cols=33 Identities=27% Similarity=0.478 Sum_probs=23.9
Q ss_pred CCCCCcccccCccccCChhhHHHHHhHhcCCCC
Q psy14244 67 MKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRP 99 (226)
Q Consensus 67 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~ 99 (226)
..+.|-.|++|+..+....+|++|+.+.++.+|
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 346789999999999999999999999888776
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.91 E-value=0.00095 Score=32.88 Aligned_cols=24 Identities=33% Similarity=0.772 Sum_probs=17.5
Q ss_pred cccccCccccCChhhHHHHHhHhc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
|.|+.|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 467777777777777777777654
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.88 E-value=0.00024 Score=35.13 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=21.5
Q ss_pred ccCCcchhhhcChhhhhccCCCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~h~ 165 (226)
|.|+.|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999998664
No 41
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.82 E-value=0.0015 Score=55.70 Aligned_cols=137 Identities=24% Similarity=0.367 Sum_probs=99.0
Q ss_pred CccccCccccccCChhHHhhccC--CCCCC--CCcccc--cCccccCChhhHHHHHhHhcCCCCccCCC--CcccccccC
Q psy14244 42 GVHKCEYCHKVFDQQSSLLSHNC--PQMKP--RPYKCD--TCEKSFTNSQNLNTHQLIHSGIRPFKCTT--CDKSFVNQI 113 (226)
Q Consensus 42 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~k~~~C~~--C~~~f~~~~ 113 (226)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|++.+++.+.. |...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 36889999999999999999999 89999 999999 79999999999999999999988887765 444443322
Q ss_pred CCCCCCC----------------------CCCCCccccccccccCC-CCCCccCCcchhhhcChhhhhccCCCCCCCCCC
Q psy14244 114 NPTSTHT----------------------PTYTKSNLAQHSCMNSH-FPKPYQCDRCSQFFGDRMNLISHQCGPEDIKPN 170 (226)
Q Consensus 114 ~~~~~~~----------------------~~~~~~~l~~H~~~~~~-~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~ 170 (226)
....... .......+..|...+.. ....+.+..|.+.|.....+..|++.|....+.
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 2110000 01122233333333331 123577899999999999999999999888877
Q ss_pred cccchhhh
Q psy14244 171 VDNLQTQI 178 (226)
Q Consensus 171 ~c~~~~~~ 178 (226)
.+..+...
T Consensus 448 ~~~~~~~~ 455 (467)
T COG5048 448 LCSILKSF 455 (467)
T ss_pred eecccccc
Confidence 66655543
No 42
>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=96.69 E-value=0.00085 Score=33.92 Aligned_cols=22 Identities=27% Similarity=0.744 Sum_probs=20.8
Q ss_pred ccCCcchhhhcChhhhhccCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
|.|..|++.|.+...|..|+++
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 7899999999999999999976
No 43
>PRK04860 hypothetical protein; Provisional
Probab=96.68 E-value=0.0012 Score=48.83 Aligned_cols=37 Identities=24% Similarity=0.802 Sum_probs=33.1
Q ss_pred CcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccc
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~ 111 (226)
+|.|. |+. ....+..|.++|+++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 69998 987 66778899999999999999999999875
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.61 E-value=0.0011 Score=32.69 Aligned_cols=23 Identities=35% Similarity=0.767 Sum_probs=17.5
Q ss_pred cccccCccccCChhhHHHHHhHh
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIH 94 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h 94 (226)
|.|++|++.|.+...|..|++.+
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 56788888888888888887654
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.54 E-value=0.00036 Score=34.57 Aligned_cols=23 Identities=26% Similarity=0.567 Sum_probs=20.8
Q ss_pred ccCCcchhhhcChhhhhccCCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~h 164 (226)
|.|.+|++.|.+...|..|++++
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 67999999999999999998764
No 46
>PRK04860 hypothetical protein; Provisional
Probab=96.20 E-value=0.0011 Score=49.07 Aligned_cols=39 Identities=21% Similarity=0.509 Sum_probs=34.0
Q ss_pred ccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChh
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQ 85 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 85 (226)
+|.|. |+. ....+.+|.++|+++++|.|..|+..|....
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 68998 987 5678899999999999999999999886543
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.09 E-value=0.0043 Score=30.25 Aligned_cols=23 Identities=39% Similarity=0.681 Sum_probs=17.3
Q ss_pred cccccCccccCChhhHHHHHhHhc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
|.|+.|+.... ...|..|++.++
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 67889998887 888999988864
No 48
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.87 E-value=0.0072 Score=30.43 Aligned_cols=22 Identities=27% Similarity=0.573 Sum_probs=13.0
Q ss_pred cccCccccccCChhHHhhccCC
Q psy14244 44 HKCEYCHKVFDQQSSLLSHNCP 65 (226)
Q Consensus 44 ~~C~~C~~~f~~~~~l~~H~~~ 65 (226)
|.|..|++.|.+...|..|+++
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 4466666666666666666543
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.60 E-value=0.00068 Score=33.20 Aligned_cols=23 Identities=30% Similarity=0.505 Sum_probs=17.5
Q ss_pred ccCCcchhhhcChhhhhccCCCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~h~ 165 (226)
|.|+.|+.... ...|..|++.++
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 68999999888 889999987654
No 50
>KOG2231|consensus
Probab=95.56 E-value=0.0063 Score=54.30 Aligned_cols=117 Identities=22% Similarity=0.417 Sum_probs=59.7
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCCcccccCc---------cccCChhhHHHHHhHhcC
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCE---------KSFTNSQNLNTHQLIHSG 96 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---------~~f~~~~~l~~H~~~h~~ 96 (226)
+.|.+|++.|.-. +....|..| ..|.+...|..|+..-++ .+.|..|- ....+...|..|+..-..
T Consensus 100 ~~C~~C~~~~~~~--~~~~~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~ 174 (669)
T KOG2231|consen 100 HSCHICDRRFRAL--YNKKECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP 174 (669)
T ss_pred hhcCccccchhhh--cccCCCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCC
Confidence 4577777655321 122346666 666677778888643221 23333331 112234455556554211
Q ss_pred -CC----CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcc------hhhhcChhhhhccCCCCC
Q psy14244 97 -IR----PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRC------SQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 97 -~k----~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C------~~~f~~~~~L~~H~~~h~ 165 (226)
++ .-.|..|...|.. ...|.+|++.++ |-|..| +.-|....+|..|.+.+|
T Consensus 175 d~~s~rGhp~C~~C~~~fld-------------~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 175 DDESCRGHPLCKFCHERFLD-------------DDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred ccccccCCccchhhhhhhcc-------------HHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 22 1356666666665 566666665444 334444 334566666666665544
No 51
>KOG1146|consensus
Probab=95.46 E-value=0.019 Score=54.53 Aligned_cols=52 Identities=27% Similarity=0.462 Sum_probs=40.7
Q ss_pred CccccCccccccCChhHHhhccCCCC-------------------------CCCCcccccCccccCChhhHHHHHhH
Q psy14244 42 GVHKCEYCHKVFDQQSSLLSHNCPQM-------------------------KPRPYKCDTCEKSFTNSQNLNTHQLI 93 (226)
Q Consensus 42 ~~~~C~~C~~~f~~~~~l~~H~~~h~-------------------------~~~~~~C~~C~~~f~~~~~l~~H~~~ 93 (226)
+.++|+.|+..|.....|..||++.+ +.++|.|..|...+.....|..|+..
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 35678888888888888888877622 12578999999999999999999875
No 52
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=94.87 E-value=0.0075 Score=34.68 Aligned_cols=29 Identities=31% Similarity=0.695 Sum_probs=20.1
Q ss_pred cccCccchhHHHhhcCCCccccCcccccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
.|+|+.||..|..........|+.||..+
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRI 31 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeE
Confidence 57788888777665555567788887654
No 53
>KOG1146|consensus
Probab=94.71 E-value=0.011 Score=55.99 Aligned_cols=100 Identities=19% Similarity=0.248 Sum_probs=64.7
Q ss_pred cCccccccCChhHHhhccC-CCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCC
Q psy14244 46 CEYCHKVFDQQSSLLSHNC-PQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYT 124 (226)
Q Consensus 46 C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~ 124 (226)
|..|+..+.+...+..|+. .+.-.+.|.|+.|+..|.....|..|+|+-+.+-.- .+|...-..
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~gq~~------------- 503 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKAGQNH------------- 503 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhHhcccc-------------
Confidence 4455666666555555533 455668899999999999999999999984333211 333222110
Q ss_pred CccccccccccCCCCCCccCCcchhhhcChhhhhccCC
Q psy14244 125 KSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 125 ~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~ 162 (226)
..+.+ ......+.+||.|..|...++.+.+|..|+.
T Consensus 504 -~~~ar-g~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 504 -PRLAR-GEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred -ccccc-cccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 00111 1112224689999999999999999999973
No 54
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.43 E-value=0.034 Score=27.44 Aligned_cols=20 Identities=30% Similarity=0.750 Sum_probs=12.5
Q ss_pred cccccCccccCChhhHHHHHh
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQL 92 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~ 92 (226)
..|+.||+.| ....|..|++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3577777777 5555666654
No 55
>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=94.21 E-value=0.014 Score=31.21 Aligned_cols=23 Identities=26% Similarity=0.625 Sum_probs=20.7
Q ss_pred CccCCcchhhhcChhhhhccCCC
Q psy14244 141 PYQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
+|.|++|+..|.+...+..|+.+
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 68899999999999999999865
No 56
>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=94.04 E-value=0.027 Score=38.71 Aligned_cols=30 Identities=17% Similarity=0.408 Sum_probs=20.7
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCCh
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQQ 56 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~ 56 (226)
..|+.||+.|...+. .|-.|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDLnk-~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNK-DPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCC-CCccCCCCCCccCcc
Confidence 457777777766554 666777777777655
No 57
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=93.79 E-value=0.022 Score=36.98 Aligned_cols=34 Identities=24% Similarity=0.486 Sum_probs=24.4
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCChh
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQS 57 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~ 57 (226)
.+|.||.|++.-..+.+...+.|..||..|....
T Consensus 34 ~~~~Cp~C~~~~VkR~a~GIW~C~kCg~~fAGga 67 (89)
T COG1997 34 AKHVCPFCGRTTVKRIATGIWKCRKCGAKFAGGA 67 (89)
T ss_pred cCCcCCCCCCcceeeeccCeEEcCCCCCeecccc
Confidence 3577888887766666677788888888776543
No 58
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.69 E-value=0.054 Score=46.10 Aligned_cols=66 Identities=29% Similarity=0.477 Sum_probs=56.7
Q ss_pred CCccCCCCcccccccCCCCCCCCCCCCCcccccccc--ccCCCC--CCccCC--cchhhhcChhhhhccCCCCCCCCCCc
Q psy14244 98 RPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSC--MNSHFP--KPYQCD--RCSQFFGDRMNLISHQCGPEDIKPNV 171 (226)
Q Consensus 98 k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~--~~~~~~--k~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~ 171 (226)
.++.|..|...|.. ...+..|.+ .|. ++ +|+.|+ .|++.|.+...+..|...|.+..++.
T Consensus 288 ~~~~~~~~~~~~s~-------------~~~l~~~~~~~~h~-~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (467)
T COG5048 288 LPIKSKQCNISFSR-------------SSPLTRHLRSVNHS-GESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAK 353 (467)
T ss_pred cCCCCccccCCccc-------------cccccccccccccc-cccCCceeeeccCCCccccccccccCCcccccCCCccc
Confidence 36888999999988 888999998 566 67 999999 89999999999999999999998877
Q ss_pred ccchhh
Q psy14244 172 DNLQTQ 177 (226)
Q Consensus 172 c~~~~~ 177 (226)
+.....
T Consensus 354 ~~~~~~ 359 (467)
T COG5048 354 EKLLNS 359 (467)
T ss_pred cccccC
Confidence 765544
No 59
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=93.66 E-value=0.033 Score=33.33 Aligned_cols=50 Identities=24% Similarity=0.412 Sum_probs=26.9
Q ss_pred cccCccchhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCCcccccCcc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEK 79 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 79 (226)
+=.|..||...........|.|+.||..--.+..--+ .-..+|.|+.||+
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~I~Rc~~CR-----k~g~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGEVEIYRCAKCR-----KLGNPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCceeeehhhhHH-----HcCCceECCCcCc
Confidence 3457777766655555666777777754333222111 1124566666664
No 60
>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=93.65 E-value=0.042 Score=29.12 Aligned_cols=10 Identities=30% Similarity=1.055 Sum_probs=5.2
Q ss_pred CCccCCCCcc
Q psy14244 98 RPFKCTTCDK 107 (226)
Q Consensus 98 k~~~C~~C~~ 107 (226)
.++.|+.|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4455555543
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=93.53 E-value=0.058 Score=28.71 Aligned_cols=23 Identities=22% Similarity=0.527 Sum_probs=18.8
Q ss_pred CcccccCccccCChhhHHHHHhH
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLI 93 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~ 93 (226)
+|.|++|+..|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888888888888765
No 62
>KOG2785|consensus
Probab=93.47 E-value=0.035 Score=45.99 Aligned_cols=51 Identities=22% Similarity=0.339 Sum_probs=38.4
Q ss_pred CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCC----------------------CCccCCcch---hhhcC
Q psy14244 99 PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFP----------------------KPYQCDRCS---QFFGD 153 (226)
Q Consensus 99 ~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~----------------------k~~~C~~C~---~~f~~ 153 (226)
|-.|.+|++.+.+ -.....|+..+|+.- ..+.|-.|+ +.|..
T Consensus 166 Pt~CLfC~~~~k~-------------~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~s 232 (390)
T KOG2785|consen 166 PTDCLFCDKKSKS-------------LEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSS 232 (390)
T ss_pred CcceeecCCCccc-------------HHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccc
Confidence 4567777777766 556677877777431 348899999 99999
Q ss_pred hhhhhccCC
Q psy14244 154 RMNLISHQC 162 (226)
Q Consensus 154 ~~~L~~H~~ 162 (226)
....+.||.
T Consensus 233 leavr~HM~ 241 (390)
T KOG2785|consen 233 LEAVRAHMR 241 (390)
T ss_pred cHHHHHHHh
Confidence 999999995
No 63
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=93.07 E-value=0.065 Score=32.18 Aligned_cols=28 Identities=29% Similarity=0.437 Sum_probs=15.3
Q ss_pred cccCccchhHHHhhcCCCccccCccccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
+..|..||....-......|.|+.||..
T Consensus 7 ~~~CtSCg~~i~~~~~~~~F~CPnCG~~ 34 (59)
T PRK14890 7 PPKCTSCGIEIAPREKAVKFLCPNCGEV 34 (59)
T ss_pred CccccCCCCcccCCCccCEeeCCCCCCe
Confidence 4456666655544444455666666654
No 64
>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=93.07 E-value=0.063 Score=28.66 Aligned_cols=26 Identities=19% Similarity=0.459 Sum_probs=19.7
Q ss_pred CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhh
Q psy14244 99 PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQF 150 (226)
Q Consensus 99 ~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~ 150 (226)
.|.|..||..+.. .+.|..|++||..
T Consensus 2 ~~~C~~CG~i~~g--------------------------~~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEG--------------------------EEAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeEC--------------------------CcCCCcCcCCCCc
Confidence 4889999987753 2357799999963
No 65
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=92.99 E-value=0.049 Score=27.14 Aligned_cols=24 Identities=29% Similarity=0.574 Sum_probs=13.3
Q ss_pred cCccchhHHHhhcCCCccccCccccccC
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
.||.|++...... -.|+.||..|.
T Consensus 2 ~CP~C~~~V~~~~----~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESA----KFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhc----CcCCCCCCCCc
Confidence 3666766543322 24677776663
No 66
>KOG2231|consensus
Probab=92.87 E-value=0.094 Score=47.10 Aligned_cols=107 Identities=21% Similarity=0.334 Sum_probs=63.0
Q ss_pred ccccCccccCChhhHHHHHhHhcCCCCccCCCCccc---ccccCCCCCCCCCCCCCccccccccccCCCCC----CccCC
Q psy14244 73 KCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKS---FVNQINPTSTHTPTYTKSNLAQHSCMNSHFPK----PYQCD 145 (226)
Q Consensus 73 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~---f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k----~~~C~ 145 (226)
.|..| -.|.+...|+.|++.-+ +.+.|..|-.. |.. ..+.++...|..|+..--.+++ --.|.
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~-------e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~ 186 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFIN-------ERKLYTRAELNLHLMFGDPDDESCRGHPLCK 186 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeee-------eeehehHHHHHHHHhcCCCccccccCCccch
Confidence 35555 45568899999996533 23566665432 322 1222336778888654332222 24699
Q ss_pred cchhhhcChhhhhccCCCCCCCCCCc--ccchhhhccchhHHHHHH
Q psy14244 146 RCSQFFGDRMNLISHQCGPEDIKPNV--DNLQTQISNNDEQAKIKM 189 (226)
Q Consensus 146 ~C~~~f~~~~~L~~H~~~h~~~~~~~--c~~~~~~~~~~~~~~~~~ 189 (226)
.|...|.....|.+|++.++..--+. -..+.....+-+.+.+|-
T Consensus 187 ~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~Hf 232 (669)
T KOG2231|consen 187 FCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHF 232 (669)
T ss_pred hhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHh
Confidence 99999999999999998766431111 122334455555555553
No 67
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.21 E-value=0.033 Score=32.79 Aligned_cols=30 Identities=23% Similarity=0.393 Sum_probs=25.7
Q ss_pred CCCCccCCcchhhhcChhhhhccCCCCCCC
Q psy14244 138 FPKPYQCDRCSQFFGDRMNLISHQCGPEDI 167 (226)
Q Consensus 138 ~~k~~~C~~C~~~f~~~~~L~~H~~~h~~~ 167 (226)
|+..+.|+.||..|....+..+|....++-
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 677899999999999999999998765543
No 68
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=92.03 E-value=0.041 Score=42.86 Aligned_cols=15 Identities=20% Similarity=0.450 Sum_probs=9.6
Q ss_pred CCcccCccchhHHHh
Q psy14244 23 DNAYKCHQCQRLIFL 37 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~ 37 (226)
++.+.||+|++.|..
T Consensus 3 ~k~~~CPvC~~~F~~ 17 (214)
T PF09986_consen 3 DKKITCPVCGKEFKT 17 (214)
T ss_pred CCceECCCCCCeeee
Confidence 355677777776654
No 69
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=91.81 E-value=0.049 Score=31.52 Aligned_cols=29 Identities=31% Similarity=0.708 Sum_probs=19.3
Q ss_pred CcccCccchhHHHhhcCCCccccCccccc
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
..|+|..||+.|..........|++||..
T Consensus 5 ~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREVELDQETRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCeeehhhccCceeCCCCCcE
Confidence 35777777777755555566677777653
No 70
>KOG2893|consensus
Probab=91.75 E-value=0.047 Score=42.37 Aligned_cols=46 Identities=30% Similarity=0.749 Sum_probs=35.0
Q ss_pred ccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHH-HhHh
Q psy14244 45 KCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTH-QLIH 94 (226)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H-~~~h 94 (226)
+|-+|.+.|++..-|..|++. +-|+|.+|.+..-+--.|..| |.+|
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhh
Confidence 588999999998888888664 458899998877666667666 4444
No 71
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.68 E-value=0.26 Score=33.95 Aligned_cols=80 Identities=16% Similarity=0.262 Sum_probs=45.6
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCChhHHhhcc------CCCC------CCCCcccccCccccCChhhHHHHHhH
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHN------CPQM------KPRPYKCDTCEKSFTNSQNLNTHQLI 93 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~------~~h~------~~~~~~C~~C~~~f~~~~~l~~H~~~ 93 (226)
|.|+.|+-. .-.-|-.|++||-...+...|.+-. ..-. ....-.|--|...|........ ..
T Consensus 2 Y~CPrC~sk----vC~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~ 75 (112)
T TIGR00622 2 YFCPQCRAK----VCELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DE 75 (112)
T ss_pred ccCCCCCCC----ccCCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cc
Confidence 678888642 2223567888888888777776531 0000 0011248888888865432110 00
Q ss_pred hcCCCCccCCCCcccccc
Q psy14244 94 HSGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 94 h~~~k~~~C~~C~~~f~~ 111 (226)
-.....|.|+.|...|-.
T Consensus 76 ~~~~~~y~C~~C~~~FC~ 93 (112)
T TIGR00622 76 LKDSHRYVCAVCKNVFCV 93 (112)
T ss_pred cccccceeCCCCCCcccc
Confidence 123446888888888865
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.14 E-value=0.047 Score=44.67 Aligned_cols=17 Identities=24% Similarity=0.403 Sum_probs=8.2
Q ss_pred cccccCChhHHhhccCC
Q psy14244 49 CHKVFDQQSSLLSHNCP 65 (226)
Q Consensus 49 C~~~f~~~~~l~~H~~~ 65 (226)
|.........|..|.+.
T Consensus 159 c~~~C~~~k~lk~H~K~ 175 (493)
T COG5236 159 CHRRCGSLKELKKHYKA 175 (493)
T ss_pred hhhhhhhHHHHHHHHHh
Confidence 44444444555555443
No 73
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=90.73 E-value=0.13 Score=40.11 Aligned_cols=13 Identities=15% Similarity=0.450 Sum_probs=10.5
Q ss_pred ccCCcchhhhcCh
Q psy14244 142 YQCDRCSQFFGDR 154 (226)
Q Consensus 142 ~~C~~C~~~f~~~ 154 (226)
..||.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 4699999988754
No 74
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.71 E-value=0.41 Score=33.00 Aligned_cols=79 Identities=19% Similarity=0.367 Sum_probs=51.8
Q ss_pred CCCcccccCccccCChhhHHHHHhHhc--CCCCc------------cCCCCcccccccCCCCCCCCCCCCCccccccccc
Q psy14244 69 PRPYKCDTCEKSFTNSQNLNTHQLIHS--GIRPF------------KCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCM 134 (226)
Q Consensus 69 ~~~~~C~~C~~~f~~~~~l~~H~~~h~--~~k~~------------~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~ 134 (226)
+-|-.|++||-.......|.+- -|+ ..++| .|-.|...|.. ...... .
T Consensus 13 ~LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~-------------~~~~~~---~ 74 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPK-------------PPVSPF---D 74 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHh--hhccCCCcccccccccccCCCCcccCcCCCCCC-------------cccccc---c
Confidence 3577999999988888777543 122 12222 38888888875 211000 0
Q ss_pred cCCCCCCccCCcchhhhcChhhhhccCCCCC
Q psy14244 135 NSHFPKPYQCDRCSQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 135 ~~~~~k~~~C~~C~~~f~~~~~L~~H~~~h~ 165 (226)
.......|.|+.|...|-..-++-.|...|.
T Consensus 75 ~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 75 ELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ccccccceeCCCCCCccccccchhhhhhccC
Confidence 0113458999999999999999999976664
No 75
>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=90.70 E-value=0.15 Score=35.10 Aligned_cols=31 Identities=26% Similarity=0.643 Sum_probs=25.0
Q ss_pred ccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcChh
Q psy14244 100 FKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRM 155 (226)
Q Consensus 100 ~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~ 155 (226)
..|+.||+.|.. | +..|..|++||..|.-..
T Consensus 10 R~Cp~CG~kFYD----------------L---------nk~PivCP~CG~~~~~~~ 40 (108)
T PF09538_consen 10 RTCPSCGAKFYD----------------L---------NKDPIVCPKCGTEFPPEP 40 (108)
T ss_pred ccCCCCcchhcc----------------C---------CCCCccCCCCCCccCccc
Confidence 689999999975 1 246889999999998763
No 76
>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=90.66 E-value=0.039 Score=36.31 Aligned_cols=33 Identities=27% Similarity=0.630 Sum_probs=22.4
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCCh
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQ 56 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~ 56 (226)
..|.|+.||+.-..+.....+.|..|++.|..-
T Consensus 34 ~ky~Cp~Cgk~~vkR~a~GIW~C~~C~~~~AGG 66 (90)
T PF01780_consen 34 AKYTCPFCGKTSVKRVATGIWKCKKCGKKFAGG 66 (90)
T ss_dssp S-BEESSSSSSEEEEEETTEEEETTTTEEEE-B
T ss_pred CCCcCCCCCCceeEEeeeEEeecCCCCCEEeCC
Confidence 357788888766666666678888888877543
No 77
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=90.58 E-value=0.081 Score=30.04 Aligned_cols=25 Identities=28% Similarity=0.640 Sum_probs=13.0
Q ss_pred ccCccchhHHHhhcCCCccccCcccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHK 51 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~ 51 (226)
|.|..||..|... ...+..|+.||.
T Consensus 3 Y~C~~Cg~~~~~~-~~~~irC~~CG~ 27 (44)
T smart00659 3 YICGECGRENEIK-SKDVVRCRECGY 27 (44)
T ss_pred EECCCCCCEeecC-CCCceECCCCCc
Confidence 5566666555443 233445555554
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.25 E-value=0.13 Score=30.34 Aligned_cols=31 Identities=13% Similarity=0.221 Sum_probs=24.3
Q ss_pred CCCCCCCcccccCccccCChhhHHHHHhHhc
Q psy14244 65 PQMKPRPYKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 65 ~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
.-.|+..+.||-||..|.....+.+|+...+
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 4456777889999999988888888877644
No 79
>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=90.16 E-value=0.068 Score=35.24 Aligned_cols=34 Identities=21% Similarity=0.551 Sum_probs=24.9
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCChh
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQS 57 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~ 57 (226)
..|.|+.|++.-..+....++.|..|++.|....
T Consensus 34 a~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGA 67 (91)
T TIGR00280 34 AKYVCPFCGKKTVKRGSTGIWTCRKCGAKFAGGA 67 (91)
T ss_pred cCccCCCCCCCceEEEeeEEEEcCCCCCEEeCCc
Confidence 3588888887655666667888888888886543
No 80
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=90.07 E-value=0.076 Score=34.99 Aligned_cols=34 Identities=21% Similarity=0.530 Sum_probs=23.4
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCChh
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQS 57 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~ 57 (226)
..|.|+.|++.-..+....++.|..|++.|....
T Consensus 35 a~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGA 68 (90)
T PTZ00255 35 AKYFCPFCGKHAVKRQAVGIWRCKGCKKTVAGGA 68 (90)
T ss_pred CCccCCCCCCCceeeeeeEEEEcCCCCCEEeCCc
Confidence 3577888876555555566778888888776543
No 81
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=89.98 E-value=0.18 Score=37.44 Aligned_cols=24 Identities=21% Similarity=0.530 Sum_probs=20.3
Q ss_pred CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchh
Q psy14244 99 PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQ 149 (226)
Q Consensus 99 ~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~ 149 (226)
.|.|++||..+. ++.|-.||+||.
T Consensus 134 ~~vC~vCGy~~~---------------------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE---------------------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc---------------------------CCCCCcCCCCCC
Confidence 699999998764 478999999994
No 82
>PRK10350 hypothetical protein; Provisional
Probab=89.86 E-value=1.3 Score=30.95 Aligned_cols=15 Identities=40% Similarity=0.364 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHh
Q psy14244 209 QQQQQQQQQQQQQQQ 223 (226)
Q Consensus 209 ~~~~~~~~~~~~~~~ 223 (226)
.+.+.+.+|++.|.|
T Consensus 58 lq~Qtq~qQQ~LQ~Q 72 (145)
T PRK10350 58 LKTQTRLQQQHLQNQ 72 (145)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333444444444
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.47 E-value=0.18 Score=41.45 Aligned_cols=92 Identities=23% Similarity=0.366 Sum_probs=59.0
Q ss_pred ccccc--CccccCChhhHHHHHhHhcCCCCccCCCCc---ccccccCCCCCCCCCCCCCccccccccccCC--CCC-Ccc
Q psy14244 72 YKCDT--CEKSFTNSQNLNTHQLIHSGIRPFKCTTCD---KSFVNQINPTSTHTPTYTKSNLAQHSCMNSH--FPK-PYQ 143 (226)
Q Consensus 72 ~~C~~--C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~---~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~--~~k-~~~ 143 (226)
|.||. |.........|..|.++.++. +.|..|- +.|.. .+...+...|..|...-.. |-| --.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~-------E~~lF~~~~Lr~H~~~G~~e~GFKGHP~ 222 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWN-------EIRLFRSSTLRDHKNGGLEEEGFKGHPL 222 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCcc-------ceeeeecccccccccCCccccCcCCCch
Confidence 77875 777777788899999885543 6777774 34433 2223335667777543221 112 236
Q ss_pred CCcchhhhcChhhhhccCCCCCCCCCCccc
Q psy14244 144 CDRCSQFFGDRMNLISHQCGPEDIKPNVDN 173 (226)
Q Consensus 144 C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~ 173 (226)
|..|..-|-.-..|..|++.-+. +-++|.
T Consensus 223 C~FC~~~FYdDDEL~~HcR~~HE-~ChICD 251 (493)
T COG5236 223 CIFCKIYFYDDDELRRHCRLRHE-ACHICD 251 (493)
T ss_pred hhhccceecChHHHHHHHHhhhh-hhhhhh
Confidence 99999999999999999876553 334443
No 84
>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=89.15 E-value=0.14 Score=26.91 Aligned_cols=25 Identities=24% Similarity=0.620 Sum_probs=10.7
Q ss_pred ccCccchhHHHhhcCCCccccCcccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHK 51 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~ 51 (226)
|.|..||..+.... ..+-+|+.||.
T Consensus 1 Y~C~~Cg~~~~~~~-~~~irC~~CG~ 25 (32)
T PF03604_consen 1 YICGECGAEVELKP-GDPIRCPECGH 25 (32)
T ss_dssp EBESSSSSSE-BST-SSTSSBSSSS-
T ss_pred CCCCcCCCeeEcCC-CCcEECCcCCC
Confidence 44555555544322 22335555553
No 85
>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=88.96 E-value=0.19 Score=35.20 Aligned_cols=30 Identities=10% Similarity=0.125 Sum_probs=18.3
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCCh
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQQ 56 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~ 56 (226)
..|+.||+.|...+. .|-.|+.||..|...
T Consensus 10 r~Cp~cg~kFYDLnk-~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDLNR-RPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccccCC-CCccCCCcCCccCcc
Confidence 457777766655443 566677777666544
No 86
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=88.90 E-value=0.09 Score=34.64 Aligned_cols=34 Identities=21% Similarity=0.469 Sum_probs=25.2
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCChh
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQS 57 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~ 57 (226)
..|.|+.|++.-..+....++.|..|++.|....
T Consensus 35 a~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGA 68 (90)
T PRK03976 35 AKHVCPVCGRPKVKRVGTGIWECRKCGAKFAGGA 68 (90)
T ss_pred cCccCCCCCCCceEEEEEEEEEcCCCCCEEeCCc
Confidence 3588888887666666677888888888886543
No 87
>KOG2482|consensus
Probab=88.78 E-value=0.13 Score=42.15 Aligned_cols=21 Identities=24% Similarity=0.488 Sum_probs=18.5
Q ss_pred ccCCcchhhhcChhhhhccCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~ 162 (226)
-.|-.|.-.|-....|..||.
T Consensus 335 ~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 335 SRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred cccccccccccCcchhhhhcc
Confidence 468889999999999999985
No 88
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=88.46 E-value=0.16 Score=45.78 Aligned_cols=79 Identities=20% Similarity=0.442 Sum_probs=55.5
Q ss_pred ccCccchhHHHhhcCCC---cc-ccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCcc
Q psy14244 26 YKCHQCQRLIFLSANAG---VH-KCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFK 101 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~---~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~ 101 (226)
-.|+.|-+.+.+.++-. || .|..||-.|+-...|---+..-+-...-.|+.|.+.|.+..+- |-|. .|..
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nR----RfHA--Qp~a 175 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNR----RFHA--QPIA 175 (750)
T ss_pred hhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccc----cccc--cccc
Confidence 46999998887766644 44 5999999998877776543322223344799999999888663 3343 4689
Q ss_pred CCCCccccc
Q psy14244 102 CTTCDKSFV 110 (226)
Q Consensus 102 C~~C~~~f~ 110 (226)
|+.||-...
T Consensus 176 Cp~CGP~~~ 184 (750)
T COG0068 176 CPKCGPHLF 184 (750)
T ss_pred CcccCCCeE
Confidence 999996543
No 89
>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=88.44 E-value=0.22 Score=34.33 Aligned_cols=27 Identities=15% Similarity=0.377 Sum_probs=23.8
Q ss_pred CCccC----CcchhhhcChhhhhccCCCCCC
Q psy14244 140 KPYQC----DRCSQFFGDRMNLISHQCGPED 166 (226)
Q Consensus 140 k~~~C----~~C~~~f~~~~~L~~H~~~h~~ 166 (226)
..|.| +.|++.+.+...+..|++.++|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 35899 9999999999999999987765
No 90
>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=88.13 E-value=0.21 Score=24.32 Aligned_cols=6 Identities=33% Similarity=1.503 Sum_probs=2.3
Q ss_pred ccCccc
Q psy14244 26 YKCHQC 31 (226)
Q Consensus 26 ~~C~~C 31 (226)
|.||.|
T Consensus 17 f~CPnC 22 (24)
T PF07754_consen 17 FPCPNC 22 (24)
T ss_pred EeCCCC
Confidence 333333
No 91
>KOG2186|consensus
Probab=87.96 E-value=0.24 Score=38.92 Aligned_cols=47 Identities=21% Similarity=0.477 Sum_probs=39.6
Q ss_pred CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcChhhhhccCC
Q psy14244 99 PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 99 ~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~ 162 (226)
-|.|..||.+.. +..+.+|+.+.+ ..-|.|-.||++|.. .++..|..
T Consensus 3 ~FtCnvCgEsvK--------------Kp~vekH~srCr--n~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVK--------------KPQVEKHMSRCR--NAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcc--------------ccchHHHHHhcc--CCeeEEeeccccccc-chhhhhhh
Confidence 378999999987 788999987776 378999999999998 67888864
No 92
>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=87.17 E-value=0.15 Score=28.17 Aligned_cols=10 Identities=30% Similarity=1.135 Sum_probs=4.7
Q ss_pred ccCccchhHH
Q psy14244 26 YKCHQCQRLI 35 (226)
Q Consensus 26 ~~C~~C~k~f 35 (226)
|+|+.||..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 4454554443
No 93
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=86.95 E-value=0.52 Score=32.40 Aligned_cols=25 Identities=20% Similarity=0.499 Sum_probs=20.9
Q ss_pred ccc----ccCccccCChhhHHHHHhHhcC
Q psy14244 72 YKC----DTCEKSFTNSQNLNTHQLIHSG 96 (226)
Q Consensus 72 ~~C----~~C~~~f~~~~~l~~H~~~h~~ 96 (226)
|.| +.|+..+.+...+..|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 788 8899999999999999887654
No 94
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=86.64 E-value=0.26 Score=36.21 Aligned_cols=21 Identities=14% Similarity=0.237 Sum_probs=16.1
Q ss_pred CCccCCcchhhhcChhhhhcc
Q psy14244 140 KPYQCDRCSQFFGDRMNLISH 160 (226)
Q Consensus 140 k~~~C~~C~~~f~~~~~L~~H 160 (226)
+.+.|+.||++|.....+..=
T Consensus 27 ~~~~c~~c~~~f~~~e~~~~~ 47 (154)
T PRK00464 27 RRRECLACGKRFTTFERVELV 47 (154)
T ss_pred eeeeccccCCcceEeEeccCc
Confidence 348999999999886655543
No 95
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=86.46 E-value=0.29 Score=32.07 Aligned_cols=26 Identities=15% Similarity=0.388 Sum_probs=12.7
Q ss_pred cccCccchhHHHhhcCCCccccCccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCH 50 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~ 50 (226)
|-.|..||..|.+...-.|-+|+.|.
T Consensus 58 Pa~CkkCGfef~~~~ik~pSRCP~CK 83 (97)
T COG3357 58 PARCKKCGFEFRDDKIKKPSRCPKCK 83 (97)
T ss_pred ChhhcccCccccccccCCcccCCcch
Confidence 34455555555553333345555553
No 96
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=86.27 E-value=0.32 Score=36.06 Aligned_cols=23 Identities=26% Similarity=0.579 Sum_probs=14.2
Q ss_pred ccccCccccccCChhHHhhccCCCCCCCCcccccCc
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCE 78 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 78 (226)
.|.|++||.. +-++.|-.||+||
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 5677777654 2345566777776
No 97
>KOG2186|consensus
Probab=86.23 E-value=0.32 Score=38.22 Aligned_cols=46 Identities=17% Similarity=0.428 Sum_probs=28.4
Q ss_pred cccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHh
Q psy14244 44 HKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQL 92 (226)
Q Consensus 44 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 92 (226)
|.|..||....-. .+..|+..-++ ..|.|..|++.|.. ..+..|..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 4566676665543 35556655555 56777777777776 55666644
No 98
>PRK04023 DNA polymerase II large subunit; Validated
Probab=86.20 E-value=0.57 Score=44.07 Aligned_cols=22 Identities=23% Similarity=0.644 Sum_probs=14.4
Q ss_pred cccCccchhHHHhhcCCCccccCccccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
...|+.||... ..+.|+.||..
T Consensus 626 ~RfCpsCG~~t------~~frCP~CG~~ 647 (1121)
T PRK04023 626 RRKCPSCGKET------FYRRCPFCGTH 647 (1121)
T ss_pred CccCCCCCCcC------CcccCCCCCCC
Confidence 45688887652 33577777765
No 99
>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=85.80 E-value=0.5 Score=34.93 Aligned_cols=38 Identities=16% Similarity=0.299 Sum_probs=26.9
Q ss_pred CCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCccccc
Q psy14244 64 CPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFV 110 (226)
Q Consensus 64 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~ 110 (226)
....+...|.|+.|+..|+....+. ..|.|+.||....
T Consensus 102 ~~e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 102 EFETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred hhccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 3344556788888888887777764 2588888887654
No 100
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=85.68 E-value=0.19 Score=36.71 Aligned_cols=39 Identities=18% Similarity=0.407 Sum_probs=26.1
Q ss_pred CCCccccCccccccCChhHHhhccCCCCCCCCcccccCccccC
Q psy14244 40 NAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFT 82 (226)
Q Consensus 40 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 82 (226)
+-..|.|+.|+..|.....+..- . . +..|.|+.||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~-d--~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLL-D--M-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhc-C--C-CCcEECCCCCCEEE
Confidence 33478999999998865554431 1 1 34499999997653
No 101
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=85.19 E-value=0.58 Score=25.39 Aligned_cols=32 Identities=25% Similarity=0.752 Sum_probs=14.7
Q ss_pred ccccCccccCChhhHHHHHhHhcCCCCccCCCCcccc
Q psy14244 73 KCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSF 109 (226)
Q Consensus 73 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f 109 (226)
.|+.|+..|.-... ++..+.....|+.|+..|
T Consensus 4 ~CP~C~~~f~v~~~-----~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDD-----KLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHH-----HcccCCcEEECCCCCcEe
Confidence 45555555544332 111223345555555554
No 102
>PF14353 CpXC: CpXC protein
Probab=84.85 E-value=0.22 Score=35.34 Aligned_cols=38 Identities=21% Similarity=0.442 Sum_probs=23.9
Q ss_pred ccCccchhHHHhh-------------------cCCCccccCccccccCChhHHhhcc
Q psy14244 26 YKCHQCQRLIFLS-------------------ANAGVHKCEYCHKVFDQQSSLLSHN 63 (226)
Q Consensus 26 ~~C~~C~k~f~~~-------------------~~~~~~~C~~C~~~f~~~~~l~~H~ 63 (226)
..||.|+..|... ..+-.|.|+.||..|.-...+.-|-
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEc
Confidence 4688888766421 2233677888888877666555553
No 103
>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=84.57 E-value=0.54 Score=25.53 Aligned_cols=10 Identities=20% Similarity=0.936 Sum_probs=5.3
Q ss_pred ccCCCCcccc
Q psy14244 100 FKCTTCDKSF 109 (226)
Q Consensus 100 ~~C~~C~~~f 109 (226)
..|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4555555544
No 104
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=84.49 E-value=0.32 Score=25.88 Aligned_cols=25 Identities=24% Similarity=0.437 Sum_probs=12.8
Q ss_pred cCccchhHHHhhcCCCccccCcccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHK 51 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~ 51 (226)
.|.+|++.|..+.-+..|.+++|.+
T Consensus 5 ~C~eC~~~f~dSyL~~~F~~~VCD~ 29 (34)
T PF01286_consen 5 KCDECGKPFMDSYLLNNFDLPVCDK 29 (34)
T ss_dssp E-TTT--EES-SSCCCCTS-S--TT
T ss_pred hHhHhCCHHHHHHHHHhCCcccccc
Confidence 5778888887777777776666653
No 105
>KOG2482|consensus
Probab=84.48 E-value=0.62 Score=38.31 Aligned_cols=79 Identities=25% Similarity=0.458 Sum_probs=58.8
Q ss_pred ccccCccccccCChhHHhhccCCCCCC--C--------------------------------------------------
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKP--R-------------------------------------------------- 70 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~--~-------------------------------------------------- 70 (226)
.+.|-+|.+.|.++..|+.||+..... .
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~ 274 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDD 274 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCC
Confidence 568999999999999999998532211 0
Q ss_pred --C--cccccCccccCChhhHHHHHhHhcC---------------------------CCCccCCCCcccccccCCCCCCC
Q psy14244 71 --P--YKCDTCEKSFTNSQNLNTHQLIHSG---------------------------IRPFKCTTCDKSFVNQINPTSTH 119 (226)
Q Consensus 71 --~--~~C~~C~~~f~~~~~l~~H~~~h~~---------------------------~k~~~C~~C~~~f~~~~~~~~~~ 119 (226)
+ -.|-.|.....+...|..||++-+. .+.-.|-.|.-.|..
T Consensus 275 a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~-------- 346 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWK-------- 346 (423)
T ss_pred CCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccC--------
Confidence 1 3799999999989999999997322 112357788888887
Q ss_pred CCCCCCccccccccc
Q psy14244 120 TPTYTKSNLAQHSCM 134 (226)
Q Consensus 120 ~~~~~~~~l~~H~~~ 134 (226)
...|..|+..
T Consensus 347 -----e~~l~~hm~e 356 (423)
T KOG2482|consen 347 -----EPGLLIHMVE 356 (423)
T ss_pred -----cchhhhhccc
Confidence 7788888754
No 106
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=84.39 E-value=0.31 Score=35.81 Aligned_cols=9 Identities=44% Similarity=1.243 Sum_probs=3.3
Q ss_pred cCCCCcccc
Q psy14244 101 KCTTCDKSF 109 (226)
Q Consensus 101 ~C~~C~~~f 109 (226)
.|+.||+.|
T Consensus 30 ~c~~c~~~f 38 (154)
T PRK00464 30 ECLACGKRF 38 (154)
T ss_pred eccccCCcc
Confidence 333333333
No 107
>KOG4173|consensus
Probab=84.22 E-value=0.24 Score=37.71 Aligned_cols=66 Identities=26% Similarity=0.610 Sum_probs=45.2
Q ss_pred ccccCc--cccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhH-h---------cCCCCccCCC--Cccc
Q psy14244 43 VHKCEY--CHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLI-H---------SGIRPFKCTT--CDKS 108 (226)
Q Consensus 43 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~k~~~C~~--C~~~ 108 (226)
.+.|.+ |...|.+...+..|..+-++ -.|.+|.+.|++...|..|+.. | -|..-|.|.+ |+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 345765 66777777777776544333 2688888888888888888765 3 2344578854 8888
Q ss_pred ccc
Q psy14244 109 FVN 111 (226)
Q Consensus 109 f~~ 111 (226)
|.+
T Consensus 156 FkT 158 (253)
T KOG4173|consen 156 FKT 158 (253)
T ss_pred hhh
Confidence 876
No 108
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=83.93 E-value=0.65 Score=35.05 Aligned_cols=36 Identities=19% Similarity=0.540 Sum_probs=24.6
Q ss_pred CCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCccccc
Q psy14244 66 QMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFV 110 (226)
Q Consensus 66 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~ 110 (226)
-.....|.|+.|+..|+....+. ..|.|+.||....
T Consensus 112 e~~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 112 EENNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred ccCCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 33445688888888887766553 2588888887654
No 109
>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=83.93 E-value=0.72 Score=32.40 Aligned_cols=34 Identities=18% Similarity=0.223 Sum_probs=26.1
Q ss_pred ccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcChhhhh
Q psy14244 100 FKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDRMNLI 158 (226)
Q Consensus 100 ~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~~~L~ 158 (226)
..|+.||+.|.. | +..|..|++||..|.....+.
T Consensus 10 r~Cp~cg~kFYD----------------L---------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 10 RICPNTGSKFYD----------------L---------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred ccCCCcCccccc----------------c---------CCCCccCCCcCCccCcchhhc
Confidence 689999999965 1 346889999999987664444
No 110
>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=83.65 E-value=0.38 Score=28.20 Aligned_cols=10 Identities=40% Similarity=1.354 Sum_probs=4.1
Q ss_pred cccccCcccc
Q psy14244 72 YKCDTCEKSF 81 (226)
Q Consensus 72 ~~C~~C~~~f 81 (226)
|.|..||..|
T Consensus 6 y~C~~Cg~~f 15 (52)
T TIGR02605 6 YRCTACGHRF 15 (52)
T ss_pred EEeCCCCCEe
Confidence 3344444433
No 111
>KOG2893|consensus
Probab=82.88 E-value=0.68 Score=36.13 Aligned_cols=35 Identities=31% Similarity=0.685 Sum_probs=29.1
Q ss_pred ccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccc
Q psy14244 73 KCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 73 ~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~ 111 (226)
-|-+|.+.|.....|..|.+. |.|+|.+|-+..-+
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~s 46 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFS 46 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhcc
Confidence 488999999999999888765 45999999877554
No 112
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=82.70 E-value=0.82 Score=24.65 Aligned_cols=12 Identities=17% Similarity=0.750 Sum_probs=5.9
Q ss_pred ccccCccccCCh
Q psy14244 73 KCDTCEKSFTNS 84 (226)
Q Consensus 73 ~C~~C~~~f~~~ 84 (226)
.|+.|+..|.-.
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 455555555443
No 113
>PHA00626 hypothetical protein
Probab=82.67 E-value=0.45 Score=28.16 Aligned_cols=12 Identities=25% Similarity=0.562 Sum_probs=6.0
Q ss_pred CcccccCccccC
Q psy14244 71 PYKCDTCEKSFT 82 (226)
Q Consensus 71 ~~~C~~C~~~f~ 82 (226)
.|.|+.||..|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 455555555443
No 114
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=82.47 E-value=0.37 Score=29.06 Aligned_cols=41 Identities=24% Similarity=0.555 Sum_probs=25.5
Q ss_pred CCCccccc--CccccCChhhHHHHHhHhcCCCCccCCC----Cccccc
Q psy14244 69 PRPYKCDT--CEKSFTNSQNLNTHQLIHSGIRPFKCTT----CDKSFV 110 (226)
Q Consensus 69 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~k~~~C~~----C~~~f~ 110 (226)
..+..|+. |...+. ...|..|+...-..++..|++ |+..+.
T Consensus 7 ~~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp TSEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CCEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 45567877 444443 557888888777778888888 888776
No 115
>KOG2907|consensus
Probab=82.22 E-value=0.4 Score=32.76 Aligned_cols=30 Identities=17% Similarity=0.355 Sum_probs=20.3
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCC
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQ 55 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~ 55 (226)
.=|+.||-.....+......|..|+..+..
T Consensus 8 ~FC~~CG~ll~~~~~~~~~~C~~Ck~~~~v 37 (116)
T KOG2907|consen 8 DFCSDCGSLLEEPSAQSTVLCIRCKIEYPV 37 (116)
T ss_pred chhhhhhhhcccccccCceEeccccccCCH
Confidence 347788877666666666668888776653
No 116
>KOG0402|consensus
Probab=82.13 E-value=0.53 Score=30.28 Aligned_cols=32 Identities=28% Similarity=0.639 Sum_probs=25.9
Q ss_pred cccCccchhHHHhhcCCCccccCccccccCCh
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQ 56 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~ 56 (226)
.|.|+.||+.---+.....+.|..|.+.+...
T Consensus 36 ky~CsfCGK~~vKR~AvGiW~C~~C~kv~agg 67 (92)
T KOG0402|consen 36 KYTCSFCGKKTVKRKAVGIWKCGSCKKVVAGG 67 (92)
T ss_pred hhhhhhcchhhhhhhceeEEecCCccceeccc
Confidence 48899999887777788888899898887653
No 117
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=81.94 E-value=1 Score=43.44 Aligned_cols=52 Identities=23% Similarity=0.653 Sum_probs=30.3
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCC
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTC 105 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C 105 (226)
++|+.||..... ..|+.||... +.+|.|+.||....... ++ ...|+.|
T Consensus 668 rkCPkCG~~t~~------~fCP~CGs~t---------------e~vy~CPsCGaev~~de---------s~--a~~CP~C 715 (1337)
T PRK14714 668 RRCPSCGTETYE------NRCPDCGTHT---------------EPVYVCPDCGAEVPPDE---------SG--RVECPRC 715 (1337)
T ss_pred EECCCCCCcccc------ccCcccCCcC---------------CCceeCccCCCccCCCc---------cc--cccCCCC
Confidence 778888863211 2688887663 22467888876543311 11 3467788
Q ss_pred cccc
Q psy14244 106 DKSF 109 (226)
Q Consensus 106 ~~~f 109 (226)
+...
T Consensus 716 Gtpl 719 (1337)
T PRK14714 716 DVEL 719 (1337)
T ss_pred CCcc
Confidence 7544
No 118
>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=81.89 E-value=0.42 Score=28.40 Aligned_cols=28 Identities=21% Similarity=0.548 Sum_probs=12.0
Q ss_pred ccCccchhHHHhhcCC--CccccCcccccc
Q psy14244 26 YKCHQCQRLIFLSANA--GVHKCEYCHKVF 53 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~--~~~~C~~C~~~f 53 (226)
|+|+.||..+...... ....|+.||..+
T Consensus 3 ~~CP~CG~~iev~~~~~GeiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPELGELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCccCCEEeCCCCCCEE
Confidence 4555555544322111 133455555443
No 119
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=81.74 E-value=1.2 Score=41.03 Aligned_cols=25 Identities=28% Similarity=0.537 Sum_probs=18.3
Q ss_pred CccccccccccCCCCCCccCCcchhh
Q psy14244 125 KSNLAQHSCMNSHFPKPYQCDRCSQF 150 (226)
Q Consensus 125 ~~~l~~H~~~~~~~~k~~~C~~C~~~ 150 (226)
...|..|.+.+. ...|..|+.||..
T Consensus 460 ~~~L~CH~Cg~~-~~~p~~Cp~Cgs~ 484 (730)
T COG1198 460 TGQLRCHYCGYQ-EPIPQSCPECGSE 484 (730)
T ss_pred CCeeEeCCCCCC-CCCCCCCCCCCCC
Confidence 456777777666 5778889999854
No 120
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=81.67 E-value=1 Score=32.84 Aligned_cols=43 Identities=19% Similarity=0.466 Sum_probs=29.5
Q ss_pred CCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccc
Q psy14244 65 PQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 65 ~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~ 111 (226)
.-.....|.|+.|+..|.....+.. .. ....|.|+.||.....
T Consensus 93 ~e~~~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 93 DETNNAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEELEE 135 (147)
T ss_pred cccCCcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEEEE
Confidence 3345567999999999986554432 11 2344999999988653
No 121
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=81.25 E-value=0.34 Score=27.13 Aligned_cols=11 Identities=36% Similarity=0.951 Sum_probs=6.3
Q ss_pred cccCccccccC
Q psy14244 44 HKCEYCHKVFD 54 (226)
Q Consensus 44 ~~C~~C~~~f~ 54 (226)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 45666665554
No 122
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=80.48 E-value=1.2 Score=41.00 Aligned_cols=18 Identities=22% Similarity=0.794 Sum_probs=10.7
Q ss_pred ccCccchhHHHhhcCCCccccCccccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
.-|..||. +..|+.|+..
T Consensus 436 l~C~~Cg~---------v~~Cp~Cd~~ 453 (730)
T COG1198 436 LLCRDCGY---------IAECPNCDSP 453 (730)
T ss_pred eecccCCC---------cccCCCCCcc
Confidence 34777765 3456777654
No 123
>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=80.34 E-value=0.73 Score=23.77 Aligned_cols=25 Identities=20% Similarity=0.452 Sum_probs=8.8
Q ss_pred cCccchhHHHhhcCCCccccCccccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
+|+.|+-.+.. ..-..+.|+.|+..
T Consensus 4 ~Cp~C~se~~y-~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY-EDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----E-E-SSSEEETTTTEE
T ss_pred CCCCCCCccee-ccCCEEeCCccccc
Confidence 46666655444 33334556666543
No 124
>KOG4173|consensus
Probab=79.78 E-value=0.3 Score=37.17 Aligned_cols=77 Identities=21% Similarity=0.435 Sum_probs=57.7
Q ss_pred CCccccc--CccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccC---------CC
Q psy14244 70 RPYKCDT--CEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNS---------HF 138 (226)
Q Consensus 70 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~---------~~ 138 (226)
..|.|++ |...|.+...+..|...-++ -.|.+|.+.|++ .--|..|+-..+ .|
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt-------------~hLLd~HI~E~HDs~Fqa~veRG 141 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPT-------------GHLLDAHILEWHDSLFQALVERG 141 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCc-------------hhhhhHHHHHHHHHHHHHHHHcC
Confidence 4578987 88899998888888755333 379999999997 556666664322 13
Q ss_pred CCCccC--CcchhhhcChhhhhccCC
Q psy14244 139 PKPYQC--DRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 139 ~k~~~C--~~C~~~f~~~~~L~~H~~ 162 (226)
..-|.| +-|+..|.+...-..||.
T Consensus 142 ~dMy~ClvEgCt~KFkT~r~RkdH~I 167 (253)
T KOG4173|consen 142 QDMYQCLVEGCTEKFKTSRDRKDHMI 167 (253)
T ss_pred ccHHHHHHHhhhhhhhhhhhhhhHHH
Confidence 446889 669999999999999974
No 125
>PF14369 zf-RING_3: zinc-finger
Probab=79.58 E-value=0.68 Score=24.81 Aligned_cols=29 Identities=34% Similarity=0.879 Sum_probs=14.3
Q ss_pred cccCccchhHHHhhcCCCcc-ccCcccccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVH-KCEYCHKVF 53 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~-~C~~C~~~f 53 (226)
.|-|-.|.+.+........- .|+.|+..|
T Consensus 2 ~ywCh~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 2 RYWCHQCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred CEeCccCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 35566666555443222222 366666655
No 126
>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=79.35 E-value=0.73 Score=26.92 Aligned_cols=12 Identities=25% Similarity=0.858 Sum_probs=6.6
Q ss_pred cccCccccccCC
Q psy14244 44 HKCEYCHKVFDQ 55 (226)
Q Consensus 44 ~~C~~C~~~f~~ 55 (226)
|.|..||..+..
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 455566655543
No 127
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=79.25 E-value=1.1 Score=31.75 Aligned_cols=54 Identities=20% Similarity=0.432 Sum_probs=26.2
Q ss_pred CCcccCccchhHHHhhcCCCcccc---CccccccCChhHHhhccCCCCCCCCcccccCccccCCh
Q psy14244 23 DNAYKCHQCQRLIFLSANAGVHKC---EYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNS 84 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~~~~~~~~~C---~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 84 (226)
.+.|+|.+|..+.....-++|-.| .+|+.- ...|+.|-.+|. .||+|..+|.+.
T Consensus 78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~C---ya~LWK~~~~yp-----vCPvCkTSFKss 134 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLKPNECCGYSICNAC---YANLWKFCNLYP-----VCPVCKTSFKSS 134 (140)
T ss_pred CCceeccCcccccchhhcCCcccccchHHHHHH---HHHHHHHcccCC-----CCCccccccccc
Confidence 355666666665555555555443 112221 244555544332 455555555543
No 128
>PRK04023 DNA polymerase II large subunit; Validated
Probab=77.66 E-value=2.1 Score=40.45 Aligned_cols=9 Identities=44% Similarity=0.899 Sum_probs=5.3
Q ss_pred cccCccccc
Q psy14244 44 HKCEYCHKV 52 (226)
Q Consensus 44 ~~C~~C~~~ 52 (226)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 356666655
No 129
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=77.12 E-value=0.34 Score=33.04 Aligned_cols=37 Identities=22% Similarity=0.378 Sum_probs=17.7
Q ss_pred cccccCccccCChhhHHHHHhHh--cCCCCccCCCCccccc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIH--SGIRPFKCTTCDKSFV 110 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h--~~~k~~~C~~C~~~f~ 110 (226)
..|+.||..-.....+. +|+- ....-|.|..|+..+.
T Consensus 63 ~~Cp~Cg~~~a~f~~~Q--~RsadE~~T~fy~C~~C~~~w~ 101 (104)
T TIGR01384 63 VECPKCGHKEAYYWLLQ--TRRADEPETRFYKCTKCGYVWR 101 (104)
T ss_pred CCCCCCCCCeeEEEEec--cCCCCCCcEEEEEeCCCCCeeE
Confidence 57777775433222221 1221 1112377877876654
No 130
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=77.09 E-value=0.7 Score=22.21 Aligned_cols=7 Identities=29% Similarity=0.866 Sum_probs=3.5
Q ss_pred CccchhH
Q psy14244 28 CHQCQRL 34 (226)
Q Consensus 28 C~~C~k~ 34 (226)
|+.||..
T Consensus 2 Cp~CG~~ 8 (23)
T PF13240_consen 2 CPNCGAE 8 (23)
T ss_pred CcccCCC
Confidence 4555543
No 131
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=76.55 E-value=1.1 Score=35.21 Aligned_cols=74 Identities=19% Similarity=0.524 Sum_probs=48.6
Q ss_pred CCCCcccCccchhHHHhhcC--CCccccCccccccCChhHHhhccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCC
Q psy14244 21 GNDNAYKCHQCQRLIFLSAN--AGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIR 98 (226)
Q Consensus 21 ~~~~~~~C~~C~k~f~~~~~--~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k 98 (226)
..++-|.|..|...+-.+-. ..+-.|..|.+.|.-.-. ..--|...|.|+.|+..|.....+ ..
T Consensus 108 ~~drqFaC~~Cd~~WwRrvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~aef~C~~C~h~F~G~~qm---------~v 173 (278)
T PF15135_consen 108 SVDRQFACSSCDHMWWRRVPQRKEVSRCRKCRKRYDPVPC-----DKMWGIAEFHCPKCRHNFRGFAQM---------GV 173 (278)
T ss_pred ccceeeeccccchHHHhccCcccccccccccccccCCCcc-----ccccceeeeecccccccchhhhhc---------CC
Confidence 34577999999877654432 235689999998865431 123455679999999999765432 23
Q ss_pred CccCCCCccc
Q psy14244 99 PFKCTTCDKS 108 (226)
Q Consensus 99 ~~~C~~C~~~ 108 (226)
+-.|-.|+..
T Consensus 174 ~sPCy~C~~~ 183 (278)
T PF15135_consen 174 PSPCYGCGNP 183 (278)
T ss_pred CCCccCCCCc
Confidence 4566666644
No 132
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=76.26 E-value=1.2 Score=33.62 Aligned_cols=33 Identities=18% Similarity=0.519 Sum_probs=25.2
Q ss_pred CccccCccccccCChhHHhhccCCCCCCCCcccccCccccCC
Q psy14244 42 GVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTN 83 (226)
Q Consensus 42 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 83 (226)
.-|.|+.|+..|+....+. ..|.|+.||.....
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 3688999999988777653 36999999976543
No 133
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=75.99 E-value=0.66 Score=32.82 Aligned_cols=15 Identities=40% Similarity=0.955 Sum_probs=8.4
Q ss_pred ccccCccccccCChh
Q psy14244 43 VHKCEYCHKVFDQQS 57 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~ 57 (226)
||.|..||+.|.+.+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 455666666665543
No 134
>KOG2071|consensus
Probab=75.30 E-value=2.8 Score=37.25 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=17.6
Q ss_pred ccccCccccccCChhHHhhccCCC
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQ 66 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h 66 (226)
+..|..||..|.+......||..|
T Consensus 418 pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 418 PNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cchhcccccccccchhhhhHhhhh
Confidence 457999999998877666665444
No 135
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=75.25 E-value=1.5 Score=26.31 Aligned_cols=43 Identities=21% Similarity=0.512 Sum_probs=25.7
Q ss_pred CCCCccCCC--CcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCc----chhhhcC
Q psy14244 96 GIRPFKCTT--CDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDR----CSQFFGD 153 (226)
Q Consensus 96 ~~k~~~C~~--C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~----C~~~f~~ 153 (226)
...+..|+. |...+. +..|..|....- ..++..|++ |+..+..
T Consensus 6 ~~~~v~C~~~cc~~~i~--------------r~~l~~H~~~~C-~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 6 PFRPVPCPNGCCNEMIP--------------RKELDDHLENEC-PKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp TTSEEE-TT--S-BEEE--------------CCCHHHHHHTTS-TTSEEE-SS----S--EEEH
T ss_pred CCCEeeCCCCCccccee--------------HHHHHHHHHccC-CCCcEECCCCCCCCCCccch
Confidence 445677877 556565 678888886444 356778888 8877664
No 136
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=75.25 E-value=0.66 Score=26.70 Aligned_cols=12 Identities=33% Similarity=0.838 Sum_probs=6.3
Q ss_pred cccCccccccCC
Q psy14244 44 HKCEYCHKVFDQ 55 (226)
Q Consensus 44 ~~C~~C~~~f~~ 55 (226)
|.|..||..+..
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 455555555544
No 137
>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=75.17 E-value=1.3 Score=27.62 Aligned_cols=27 Identities=19% Similarity=0.394 Sum_probs=12.8
Q ss_pred cCccchhHHHhhcCCCccccCcccccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
.|+.||...........|.|+.||..+
T Consensus 30 ~C~~CG~~~~~~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 30 TCPRCGHRNKKRRSGRVFTCPNCGFEM 56 (69)
T ss_pred CccCcccccccccccceEEcCCCCCEE
Confidence 355555444443333445555555443
No 138
>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=74.55 E-value=2.2 Score=31.49 Aligned_cols=33 Identities=12% Similarity=0.282 Sum_probs=25.2
Q ss_pred CCccccCccccccCChhHHhhccCCCCCCCCcccccCccccC
Q psy14244 41 AGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFT 82 (226)
Q Consensus 41 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 82 (226)
-.-|.|+.|+..|+....+. ..|.||.||....
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 34678999999988877774 2689999997643
No 139
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=74.46 E-value=1.6 Score=25.47 Aligned_cols=25 Identities=20% Similarity=0.533 Sum_probs=12.8
Q ss_pred cCccchhHHHhhcCCCccccCccccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
-||.||.. ........+.|..||..
T Consensus 22 fCP~Cg~~-~m~~~~~r~~C~~Cgyt 46 (50)
T PRK00432 22 FCPRCGSG-FMAEHLDRWHCGKCGYT 46 (50)
T ss_pred cCcCCCcc-hheccCCcEECCCcCCE
Confidence 36666654 22223345566666654
No 140
>PRK14873 primosome assembly protein PriA; Provisional
Probab=74.41 E-value=2 Score=39.45 Aligned_cols=10 Identities=20% Similarity=0.517 Sum_probs=6.6
Q ss_pred CCCcccccCc
Q psy14244 69 PRPYKCDTCE 78 (226)
Q Consensus 69 ~~~~~C~~C~ 78 (226)
.....|.+||
T Consensus 408 ~~~l~Ch~CG 417 (665)
T PRK14873 408 GGTPRCRWCG 417 (665)
T ss_pred CCeeECCCCc
Confidence 4456777776
No 141
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=74.34 E-value=0.59 Score=34.02 Aligned_cols=38 Identities=16% Similarity=0.361 Sum_probs=17.8
Q ss_pred eeEEeeCCCCc----ccCccchhHHHhhcCCCccccCccccc
Q psy14244 15 TLLCIHGNDNA----YKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 15 ~h~~~h~~~~~----~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
.|-..++|+.+ |.|..||........-..-.|+.||..
T Consensus 98 h~g~Y~sGE~~g~G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 98 HHGVYHSGEVVGPGTLVCENCGHEVELTHPERLPPCPKCGHT 139 (146)
T ss_pred hcCCeecCcEecCceEecccCCCEEEecCCCcCCCCCCCCCC
Confidence 33344555433 566666654333322233346666543
No 142
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=74.13 E-value=3.1 Score=20.59 Aligned_cols=19 Identities=21% Similarity=0.499 Sum_probs=13.7
Q ss_pred ccccCccccCChhhHHHHHh
Q psy14244 73 KCDTCEKSFTNSQNLNTHQL 92 (226)
Q Consensus 73 ~C~~C~~~f~~~~~l~~H~~ 92 (226)
.||+|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 588888887 5566777765
No 143
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=73.81 E-value=0.81 Score=25.68 Aligned_cols=28 Identities=25% Similarity=0.559 Sum_probs=13.5
Q ss_pred ccCccchhHH-HhhcCCCccccCcccccc
Q psy14244 26 YKCHQCQRLI-FLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 26 ~~C~~C~k~f-~~~~~~~~~~C~~C~~~f 53 (226)
|+||.||... .......-+.|+.||...
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl 29 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNCGLVL 29 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT-BBE
T ss_pred CCCcCCcCCceEEcCCCCeEECCCCCCEe
Confidence 4567776543 112223345677776553
No 144
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=73.75 E-value=1.4 Score=25.62 Aligned_cols=11 Identities=18% Similarity=0.250 Sum_probs=5.5
Q ss_pred ccccCcccccc
Q psy14244 43 VHKCEYCHKVF 53 (226)
Q Consensus 43 ~~~C~~C~~~f 53 (226)
.+.|+.||..+
T Consensus 20 ~~vC~~Cg~~~ 30 (52)
T smart00661 20 RFVCRKCGYEE 30 (52)
T ss_pred EEECCcCCCeE
Confidence 34555555444
No 145
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=72.67 E-value=3.4 Score=34.01 Aligned_cols=35 Identities=20% Similarity=0.399 Sum_probs=18.3
Q ss_pred cccCccccccCChhHHhhccCCCCCCCCcccccCcccc
Q psy14244 44 HKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSF 81 (226)
Q Consensus 44 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 81 (226)
..|++||..=. .+ + .+.....|.+...|..|+...
T Consensus 188 ~~CPvCGs~P~-~s-~-v~~~~~~G~RyL~CslC~teW 222 (309)
T PRK03564 188 QFCPVCGSMPV-SS-V-VQIGTTQGLRYLHCNLCESEW 222 (309)
T ss_pred CCCCCCCCcch-hh-e-eeccCCCCceEEEcCCCCCcc
Confidence 45777775421 11 1 122334566667777776443
No 146
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.31 E-value=2.8 Score=28.62 Aligned_cols=26 Identities=12% Similarity=0.075 Sum_probs=16.4
Q ss_pred cCccchhHHHhhcCCCccccCcccccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
.||.||+.|-. -+..|..|++||++|
T Consensus 11 idPetg~KFYD-LNrdPiVsPytG~s~ 36 (129)
T COG4530 11 IDPETGKKFYD-LNRDPIVSPYTGKSY 36 (129)
T ss_pred cCccccchhhc-cCCCccccCcccccc
Confidence 47777776654 234456677777777
No 147
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=72.26 E-value=0.76 Score=28.53 Aligned_cols=27 Identities=30% Similarity=0.896 Sum_probs=18.1
Q ss_pred cccCccchhHHHhhcCCCccccCcccccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
.|+| .||+..-...+.+..+| .||+..
T Consensus 3 ifrC-~Cgr~lya~e~~kTkkC-~CG~~l 29 (68)
T PF09082_consen 3 IFRC-DCGRYLYAKEGAKTKKC-VCGKTL 29 (68)
T ss_dssp EEEE-TTS--EEEETT-SEEEE-TTTEEE
T ss_pred EEEe-cCCCEEEecCCcceeEe-cCCCee
Confidence 3778 68887777777777888 888874
No 148
>KOG4369|consensus
Probab=71.15 E-value=9.2 Score=37.18 Aligned_cols=32 Identities=47% Similarity=0.410 Sum_probs=16.7
Q ss_pred hhccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy14244 177 QISNNDEQAKIKMQQQQQQQQQQQQQQQQQQQ 208 (226)
Q Consensus 177 ~~~~~~~~~~~~~q~~~q~~~qqqqqqq~qqq 208 (226)
.+.++........|+++-++.|++|.-|||||
T Consensus 1846 ~~a~~~s~~~q~~qqq~iq~lq~~q~lqqqqq 1877 (2131)
T KOG4369|consen 1846 SVANSTSTNIQQQQQQQIQHLQQQQALQQQQQ 1877 (2131)
T ss_pred cccCcchhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444445566666666666555443333
No 149
>KOG1280|consensus
Probab=70.83 E-value=2.4 Score=35.09 Aligned_cols=37 Identities=19% Similarity=0.418 Sum_probs=26.9
Q ss_pred CCcccccCccccCChhhHHHHHhHhcCCCC--ccCCCCc
Q psy14244 70 RPYKCDTCEKSFTNSQNLNTHQLIHSGIRP--FKCTTCD 106 (226)
Q Consensus 70 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~--~~C~~C~ 106 (226)
..|.|++|+..--+...|..|+..-+.+-+ -.|++|+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 468999999888888899999877444333 3466665
No 150
>COG1773 Rubredoxin [Energy production and conversion]
Probab=70.68 E-value=1.5 Score=26.01 Aligned_cols=7 Identities=29% Similarity=1.132 Sum_probs=4.2
Q ss_pred cccccCc
Q psy14244 72 YKCDTCE 78 (226)
Q Consensus 72 ~~C~~C~ 78 (226)
+.|+.|+
T Consensus 37 w~CP~Cg 43 (55)
T COG1773 37 WVCPECG 43 (55)
T ss_pred cCCCCCC
Confidence 5566665
No 151
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=70.50 E-value=2.2 Score=30.59 Aligned_cols=8 Identities=38% Similarity=1.190 Sum_probs=4.2
Q ss_pred ccCCCCcc
Q psy14244 100 FKCTTCDK 107 (226)
Q Consensus 100 ~~C~~C~~ 107 (226)
+.||.||.
T Consensus 108 ~~CP~Cgs 115 (135)
T PRK03824 108 LKCPKCGS 115 (135)
T ss_pred cCCcCCCC
Confidence 44555553
No 152
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=70.46 E-value=3.1 Score=34.48 Aligned_cols=25 Identities=16% Similarity=0.390 Sum_probs=21.6
Q ss_pred CCCCccCCcch-hhhcChhhhhccCC
Q psy14244 138 FPKPYQCDRCS-QFFGDRMNLISHQC 162 (226)
Q Consensus 138 ~~k~~~C~~C~-~~f~~~~~L~~H~~ 162 (226)
-.+.|.|.+|| +++..+..+.+|..
T Consensus 371 Ld~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 371 LDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred CCcceeeeecccccccchHHHHhhhh
Confidence 57889999999 88888999998864
No 153
>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=70.37 E-value=1.5 Score=23.62 Aligned_cols=14 Identities=14% Similarity=0.278 Sum_probs=6.6
Q ss_pred CCCCccCCCCcccc
Q psy14244 96 GIRPFKCTTCDKSF 109 (226)
Q Consensus 96 ~~k~~~C~~C~~~f 109 (226)
...+-.|..||..+
T Consensus 18 P~~~~~Cd~cg~~L 31 (36)
T PF05191_consen 18 PKVEGVCDNCGGEL 31 (36)
T ss_dssp -SSTTBCTTTTEBE
T ss_pred CCCCCccCCCCCee
Confidence 34445555555433
No 154
>KOG2785|consensus
Probab=69.96 E-value=3.5 Score=34.57 Aligned_cols=51 Identities=18% Similarity=0.333 Sum_probs=43.6
Q ss_pred ccccCccccccCChhHHhhccCCCCCCC-----------------------CcccccCc---cccCChhhHHHHHhH
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKPR-----------------------PYKCDTCE---KSFTNSQNLNTHQLI 93 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~-----------------------~~~C~~C~---~~f~~~~~l~~H~~~ 93 (226)
|-.|-.|++.+.+...-..||..++|-- -+.|-.|. +.|.+....+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4469999999999999999998887642 37899998 999999999999986
No 155
>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=69.89 E-value=1.9 Score=34.21 Aligned_cols=12 Identities=25% Similarity=0.825 Sum_probs=9.5
Q ss_pred CCCcccCccchh
Q psy14244 22 NDNAYKCHQCQR 33 (226)
Q Consensus 22 ~~~~~~C~~C~k 33 (226)
|.+.|+|..|..
T Consensus 139 GGrif~CsfC~~ 150 (314)
T PF06524_consen 139 GGRIFKCSFCDN 150 (314)
T ss_pred CCeEEEeecCCC
Confidence 457899999874
No 156
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.66 E-value=1.6 Score=33.93 Aligned_cols=16 Identities=13% Similarity=0.355 Sum_probs=11.5
Q ss_pred CCcccCccchhHHHhh
Q psy14244 23 DNAYKCHQCQRLIFLS 38 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~~ 38 (226)
++.+.||+|+..|...
T Consensus 17 kk~ieCPvC~tkFkke 32 (267)
T COG1655 17 KKTIECPVCNTKFKKE 32 (267)
T ss_pred hceeccCcccchhhhh
Confidence 4567888888877543
No 157
>KOG4124|consensus
Probab=69.48 E-value=3.7 Score=34.08 Aligned_cols=24 Identities=33% Similarity=0.731 Sum_probs=20.1
Q ss_pred CCCccCCcchhhhcChhhhhccCC
Q psy14244 139 PKPYQCDRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 139 ~k~~~C~~C~~~f~~~~~L~~H~~ 162 (226)
.|+|+|++|.+.+.....|.-|..
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred cCcccChhhhhhhccCCCCCceee
Confidence 689999999999988877777753
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=67.66 E-value=5.3 Score=38.94 Aligned_cols=12 Identities=17% Similarity=0.636 Sum_probs=9.6
Q ss_pred CccCCCCccccc
Q psy14244 99 PFKCTTCDKSFV 110 (226)
Q Consensus 99 ~~~C~~C~~~f~ 110 (226)
+|.|+.||....
T Consensus 692 vy~CPsCGaev~ 703 (1337)
T PRK14714 692 VYVCPDCGAEVP 703 (1337)
T ss_pred ceeCccCCCccC
Confidence 589999998654
No 159
>KOG0978|consensus
Probab=67.35 E-value=2.1 Score=39.04 Aligned_cols=18 Identities=22% Similarity=0.527 Sum_probs=11.7
Q ss_pred cccccCccccCChhhHHH
Q psy14244 72 YKCDTCEKSFTNSQNLNT 89 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~ 89 (226)
-+||.|+.+|.....+..
T Consensus 679 RKCP~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 679 RKCPKCNAAFGANDVHRI 696 (698)
T ss_pred CCCCCCCCCCCccccccc
Confidence 367778777776655443
No 160
>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=67.31 E-value=1.1 Score=31.01 Aligned_cols=10 Identities=30% Similarity=1.009 Sum_probs=4.4
Q ss_pred ccCccccccC
Q psy14244 45 KCEYCHKVFD 54 (226)
Q Consensus 45 ~C~~C~~~f~ 54 (226)
+|..||..|.
T Consensus 72 ~C~~Cg~~~~ 81 (113)
T PF01155_consen 72 RCRDCGHEFE 81 (113)
T ss_dssp EETTTS-EEE
T ss_pred ECCCCCCEEe
Confidence 4555555543
No 161
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.28 E-value=1.4 Score=27.90 Aligned_cols=32 Identities=25% Similarity=0.672 Sum_probs=21.4
Q ss_pred CccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCc-cCCcchhhhc
Q psy14244 99 PFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPY-QCDRCSQFFG 152 (226)
Q Consensus 99 ~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~-~C~~C~~~f~ 152 (226)
.|+|..|+..|.- ..++ .+.|+ .|+.||..+.
T Consensus 12 ~Y~c~~cg~~~dv-----------------vq~~-----~ddplt~ce~c~a~~k 44 (82)
T COG2331 12 SYECTECGNRFDV-----------------VQAM-----TDDPLTTCEECGARLK 44 (82)
T ss_pred EEeecccchHHHH-----------------HHhc-----ccCccccChhhChHHH
Confidence 3899999988863 2222 34555 7999987654
No 162
>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=67.18 E-value=2.1 Score=26.52 Aligned_cols=28 Identities=25% Similarity=0.527 Sum_probs=11.9
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCC
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQ 55 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~ 55 (226)
-.|..|++.|.. ..+.|-|..||..|-+
T Consensus 10 ~~C~~C~~~F~~--~~rrhhCr~CG~~vC~ 37 (69)
T PF01363_consen 10 SNCMICGKKFSL--FRRRHHCRNCGRVVCS 37 (69)
T ss_dssp SB-TTT--B-BS--SS-EEE-TTT--EEEC
T ss_pred CcCcCcCCcCCC--ceeeEccCCCCCEECC
Confidence 457777777732 3456677777776643
No 163
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=67.18 E-value=3 Score=35.71 Aligned_cols=30 Identities=13% Similarity=0.349 Sum_probs=21.1
Q ss_pred cCccchhHHHhhcCCCccccCccccccCChh
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKVFDQQS 57 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~ 57 (226)
.|+.||....+...- -|+|+.||..+....
T Consensus 352 ~Cp~Cg~~m~S~G~~-g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKSAGRN-GFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhhcCCC-CcccccccccCCccc
Confidence 588888777665554 778888887776544
No 164
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=66.94 E-value=3.1 Score=22.81 Aligned_cols=12 Identities=33% Similarity=0.722 Sum_probs=7.0
Q ss_pred ccccCccccccC
Q psy14244 43 VHKCEYCHKVFD 54 (226)
Q Consensus 43 ~~~C~~C~~~f~ 54 (226)
+++|..|+..|-
T Consensus 12 ~f~C~~C~~~FC 23 (39)
T smart00154 12 GFKCRHCGNLFC 23 (39)
T ss_pred CeECCccCCccc
Confidence 555666665554
No 165
>KOG1883|consensus
Probab=66.74 E-value=5.7 Score=38.19 Aligned_cols=16 Identities=44% Similarity=0.387 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q psy14244 207 QQQQQQQQQQQQQQQQ 222 (226)
Q Consensus 207 qq~~~~~~~~~~~~~~ 222 (226)
++|+++.++.|||.|+
T Consensus 1439 ~~Qqq~~~~~qqqlqh 1454 (1517)
T KOG1883|consen 1439 TIQQQSNHPTQQQLQH 1454 (1517)
T ss_pred HHHHHhcchHHHHHHH
Confidence 3333333344444444
No 166
>PRK14873 primosome assembly protein PriA; Provisional
Probab=66.63 E-value=3 Score=38.24 Aligned_cols=11 Identities=18% Similarity=0.821 Sum_probs=8.6
Q ss_pred CCcccccCccc
Q psy14244 70 RPYKCDTCEKS 80 (226)
Q Consensus 70 ~~~~C~~C~~~ 80 (226)
.|+.|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 47789999865
No 167
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=66.40 E-value=4.5 Score=23.58 Aligned_cols=29 Identities=21% Similarity=0.566 Sum_probs=20.2
Q ss_pred cccCccchhHHHhhcCCC--ccccCcccccc
Q psy14244 25 AYKCHQCQRLIFLSANAG--VHKCEYCHKVF 53 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~--~~~C~~C~~~f 53 (226)
-++|+.|++.......+. ..+|+.|+...
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN 34 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTIN 34 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccc
Confidence 478999998766643433 45788888654
No 168
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=65.88 E-value=1.2 Score=29.79 Aligned_cols=12 Identities=17% Similarity=0.725 Sum_probs=7.6
Q ss_pred CCcccCccchhH
Q psy14244 23 DNAYKCHQCQRL 34 (226)
Q Consensus 23 ~~~~~C~~C~k~ 34 (226)
++.|.|+.||..
T Consensus 20 ~k~FtCp~Cghe 31 (104)
T COG4888 20 PKTFTCPRCGHE 31 (104)
T ss_pred CceEecCccCCe
Confidence 355777777753
No 169
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=65.83 E-value=1.5 Score=40.49 Aligned_cols=78 Identities=17% Similarity=0.423 Sum_probs=51.7
Q ss_pred cccCccchhHHHhhcCCC---cc-ccCccccccCChhHHhhccCCCCC-CCCcccccCccccCChhhHHHHHhHhcCCCC
Q psy14244 25 AYKCHQCQRLIFLSANAG---VH-KCEYCHKVFDQQSSLLSHNCPQMK-PRPYKCDTCEKSFTNSQNLNTHQLIHSGIRP 99 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~---~~-~C~~C~~~f~~~~~l~~H~~~h~~-~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~ 99 (226)
.-.|+.|-+.+.+.++-+ || .|..||-.|.-...|-.-.. .+. ...-.|+.|.+.|.+...- |.|. .+
T Consensus 68 ~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~-~t~m~~f~~C~~C~~ey~~p~~r----r~h~--~~ 140 (711)
T TIGR00143 68 VATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRE-NTSMADFPLCPDCAKEYKDPLDR----RFHA--QP 140 (711)
T ss_pred hhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCC-CcCCCCCcCCHHHHHHhcCCccc----cCCC--CC
Confidence 356999998887655544 44 59999999987666543322 222 2334799999888776542 3333 45
Q ss_pred ccCCCCcccc
Q psy14244 100 FKCTTCDKSF 109 (226)
Q Consensus 100 ~~C~~C~~~f 109 (226)
..|+.||-..
T Consensus 141 ~~C~~Cgp~l 150 (711)
T TIGR00143 141 IACPRCGPQL 150 (711)
T ss_pred ccCCCCCcEE
Confidence 7899999654
No 170
>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=65.65 E-value=3.7 Score=36.44 Aligned_cols=10 Identities=30% Similarity=0.826 Sum_probs=5.6
Q ss_pred CCcccccCcc
Q psy14244 70 RPYKCDTCEK 79 (226)
Q Consensus 70 ~~~~C~~C~~ 79 (226)
.|..|+.|+.
T Consensus 252 ~~~~Cp~C~s 261 (505)
T TIGR00595 252 IPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCC
Confidence 3456666654
No 171
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=64.88 E-value=2.1 Score=27.11 Aligned_cols=38 Identities=16% Similarity=0.489 Sum_probs=21.5
Q ss_pred cccccCccccCChhhHHHHHhHhcCCCCccCC--CCcccccc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCT--TCDKSFVN 111 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~--~C~~~f~~ 111 (226)
+.|+.||........-... .-..+.-+.|. .||..|..
T Consensus 2 m~CP~Cg~~a~irtSr~~s--~~~~~~Y~qC~N~eCg~tF~t 41 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYIT--DTTKERYHQCQNVNCSATFIT 41 (72)
T ss_pred ccCCCCCCccEEEEChhcC--hhhheeeeecCCCCCCCEEEE
Confidence 4677787655322221111 12455667887 78888875
No 172
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=64.46 E-value=5.5 Score=23.02 Aligned_cols=21 Identities=38% Similarity=0.657 Sum_probs=12.5
Q ss_pred cccccCccccCCh-----hhHHHHHh
Q psy14244 72 YKCDTCEKSFTNS-----QNLNTHQL 92 (226)
Q Consensus 72 ~~C~~C~~~f~~~-----~~l~~H~~ 92 (226)
-.|..|++.+... +.|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 3566666655443 46777776
No 173
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=64.44 E-value=0.69 Score=37.79 Aligned_cols=13 Identities=23% Similarity=0.570 Sum_probs=5.8
Q ss_pred CCCCcccccCccc
Q psy14244 68 KPRPYKCDTCEKS 80 (226)
Q Consensus 68 ~~~~~~C~~C~~~ 80 (226)
|.+-..|..|+..
T Consensus 194 G~R~L~Cs~C~t~ 206 (290)
T PF04216_consen 194 GKRYLHCSLCGTE 206 (290)
T ss_dssp -EEEEEETTT--E
T ss_pred ccEEEEcCCCCCe
Confidence 4455566666543
No 174
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=63.38 E-value=2.5 Score=21.62 Aligned_cols=22 Identities=27% Similarity=0.537 Sum_probs=11.8
Q ss_pred ccCccchhHHHhhcCCCccccCccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCH 50 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~ 50 (226)
|.|.+|++...... .|.|..|+
T Consensus 1 ~~C~~C~~~~~~~~---~Y~C~~c~ 22 (30)
T PF03107_consen 1 FWCDVCRRKIDGFY---FYHCSECC 22 (30)
T ss_pred CCCCCCCCCcCCCE---eEEeCCCC
Confidence 45666665433222 56666665
No 175
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=63.36 E-value=2.4 Score=22.86 Aligned_cols=28 Identities=18% Similarity=0.515 Sum_probs=19.6
Q ss_pred CcccCccchhHHHhhcCCCccccCccccc
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
..+.|++|+.. ...+....|-|..||..
T Consensus 7 ~~~~C~~C~~~-~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 7 PNEPCPVCGSR-WFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred CCCcCCCCCCe-EeEccCCEEEhhhCceE
Confidence 34669999877 55566667778888754
No 176
>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=63.34 E-value=4.1 Score=29.11 Aligned_cols=28 Identities=36% Similarity=0.705 Sum_probs=17.3
Q ss_pred CCCcccccCccccCChhhHHHHHhHhcCCCC
Q psy14244 69 PRPYKCDTCEKSFTNSQNLNTHQLIHSGIRP 99 (226)
Q Consensus 69 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~ 99 (226)
+....|-+||+.|.. |.+|++.|+|..|
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCCH
Confidence 445789999998876 5889999987654
No 177
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=62.27 E-value=4.1 Score=33.22 Aligned_cols=26 Identities=23% Similarity=0.510 Sum_probs=21.2
Q ss_pred CCCccCCcchhhhcChhhhhccCCCC
Q psy14244 139 PKPYQCDRCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 139 ~k~~~C~~C~~~f~~~~~L~~H~~~h 164 (226)
...|.|+.|...|-..-+...|...|
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHh
Confidence 45799999999998888888886554
No 178
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=62.13 E-value=4.1 Score=29.77 Aligned_cols=50 Identities=16% Similarity=0.379 Sum_probs=28.0
Q ss_pred CccchhHHHhhcCCCccccCccccccCChhHHhhcc-CCCCCCCCcccccCccccCCh
Q psy14244 28 CHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHN-CPQMKPRPYKCDTCEKSFTNS 84 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~-~~h~~~~~~~C~~C~~~f~~~ 84 (226)
|..||...-. .|+.|+..-.......-=. ...+-+.|.-|..||+.|+..
T Consensus 31 C~kCG~~tI~-------~Cp~C~~~IrG~y~v~gv~~~g~~~~~PsYC~~CGkpyPWt 81 (158)
T PF10083_consen 31 CSKCGAKTIT-------SCPNCSTPIRGDYHVEGVFGLGGHYEAPSYCHNCGKPYPWT 81 (158)
T ss_pred HHHhhHHHHH-------HCcCCCCCCCCceecCCeeeeCCCCCCChhHHhCCCCCchH
Confidence 6677754322 5788876554432211111 113344778888888888764
No 179
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=62.10 E-value=1.6 Score=29.33 Aligned_cols=14 Identities=43% Similarity=0.990 Sum_probs=8.3
Q ss_pred ccccCccccccCCh
Q psy14244 43 VHKCEYCHKVFDQQ 56 (226)
Q Consensus 43 ~~~C~~C~~~f~~~ 56 (226)
+|.|..||..|.+.
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 45566666666654
No 180
>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=61.66 E-value=3.7 Score=28.59 Aligned_cols=10 Identities=30% Similarity=0.823 Sum_probs=4.9
Q ss_pred ccCccccccC
Q psy14244 45 KCEYCHKVFD 54 (226)
Q Consensus 45 ~C~~C~~~f~ 54 (226)
.|..||..|.
T Consensus 72 ~C~~Cg~~~~ 81 (115)
T TIGR00100 72 ECEDCSEEVS 81 (115)
T ss_pred EcccCCCEEe
Confidence 4555554443
No 181
>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=61.65 E-value=3.9 Score=24.15 Aligned_cols=27 Identities=26% Similarity=0.702 Sum_probs=15.2
Q ss_pred cCccchhHHHhhcCCCccccCccccccCC
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKVFDQ 55 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~f~~ 55 (226)
.|..|++.|.. ..+.+.|..||+.|-.
T Consensus 4 ~C~~C~~~F~~--~~rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 4 SCMGCGKPFTL--TRRRHHCRNCGRIFCS 30 (57)
T ss_pred cCcccCccccC--CccccccCcCcCCcCh
Confidence 35666665554 2345566666666544
No 182
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=60.14 E-value=7.1 Score=31.09 Aligned_cols=92 Identities=17% Similarity=0.266 Sum_probs=48.3
Q ss_pred CCCCCCCcccccCccccCChhhHHHHHhH--hcCCCCccCCCCcccccccCCCCCCCCCCCCCcccccccccc---CCCC
Q psy14244 65 PQMKPRPYKCDTCEKSFTNSQNLNTHQLI--HSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMN---SHFP 139 (226)
Q Consensus 65 ~h~~~~~~~C~~C~~~f~~~~~l~~H~~~--h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~---~~~~ 139 (226)
..+|.+.|.|.+|..-.---..+ .|..+ -.....|+|..|.+.=.. +-++-. ...-..|++.. ....
T Consensus 136 w~hGGrif~CsfC~~flCEDDQF-EHQAsCQvLe~E~~KC~SCNrlGq~--sCLRCK-----~cfCddHvrrKg~ky~k~ 207 (314)
T PF06524_consen 136 WDHGGRIFKCSFCDNFLCEDDQF-EHQASCQVLESETFKCQSCNRLGQY--SCLRCK-----ICFCDDHVRRKGFKYEKG 207 (314)
T ss_pred ccCCCeEEEeecCCCeeeccchh-hhhhhhhhhhcccccccccccccch--hhhhee-----eeehhhhhhhcccccccC
Confidence 44566788998887433222222 45554 123345777666553211 000000 00112233221 1135
Q ss_pred CCccCCcchhhhcChhhhhccCCCC
Q psy14244 140 KPYQCDRCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 140 k~~~C~~C~~~f~~~~~L~~H~~~h 164 (226)
+++.||.||.......+|..-.++|
T Consensus 208 k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCcccccccceeeeecc
Confidence 7899999999888877776655554
No 183
>KOG2593|consensus
Probab=60.11 E-value=5.1 Score=34.29 Aligned_cols=17 Identities=18% Similarity=0.784 Sum_probs=12.8
Q ss_pred cCCCCccCCCCcccccc
Q psy14244 95 SGIRPFKCTTCDKSFVN 111 (226)
Q Consensus 95 ~~~k~~~C~~C~~~f~~ 111 (226)
+....|.|+.|.+.|+.
T Consensus 124 t~~~~Y~Cp~C~kkyt~ 140 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTS 140 (436)
T ss_pred cccccccCCccccchhh
Confidence 44556888888888875
No 184
>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=59.85 E-value=7.5 Score=21.67 Aligned_cols=24 Identities=29% Similarity=0.523 Sum_probs=13.2
Q ss_pred CCCcccccCccccCC----hhhHHHHHh
Q psy14244 69 PRPYKCDTCEKSFTN----SQNLNTHQL 92 (226)
Q Consensus 69 ~~~~~C~~C~~~f~~----~~~l~~H~~ 92 (226)
.....|..|++.+.. .+.|..|++
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 445677777776655 367777774
No 185
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=59.46 E-value=4.3 Score=23.45 Aligned_cols=24 Identities=21% Similarity=0.627 Sum_probs=10.6
Q ss_pred CccchhHHHhhcCCCccccCcccc
Q psy14244 28 CHQCQRLIFLSANAGVHKCEYCHK 51 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~~C~~C~~ 51 (226)
||-||-...-......+.|..||.
T Consensus 22 CPrCG~gvfmA~H~dR~~CGkCgy 45 (51)
T COG1998 22 CPRCGPGVFMADHKDRWACGKCGY 45 (51)
T ss_pred CCCCCCcchhhhcCceeEeccccc
Confidence 555554333333333445555543
No 186
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=58.78 E-value=4 Score=23.18 Aligned_cols=8 Identities=25% Similarity=1.053 Sum_probs=4.1
Q ss_pred ccCccchh
Q psy14244 26 YKCHQCQR 33 (226)
Q Consensus 26 ~~C~~C~k 33 (226)
+.||.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 44555553
No 187
>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=58.70 E-value=2.8 Score=24.58 Aligned_cols=24 Identities=17% Similarity=0.404 Sum_probs=8.9
Q ss_pred ccccCccccccCChhHHhhccCCC
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQ 66 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h 66 (226)
+|.|+.|+..|--.-.+-.|...|
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTTS-
T ss_pred eEECCCCCCccccCcChhhhcccc
Confidence 455555555555444444454443
No 188
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=58.63 E-value=4.9 Score=22.16 Aligned_cols=16 Identities=19% Similarity=0.505 Sum_probs=7.4
Q ss_pred cccccCccccCChhhH
Q psy14244 72 YKCDTCEKSFTNSQNL 87 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l 87 (226)
+.|+.|+-.+-....|
T Consensus 20 d~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGEL 35 (41)
T ss_pred EECCCCCeEEccHHHH
Confidence 4455554444444444
No 189
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=57.65 E-value=3.3 Score=22.87 Aligned_cols=10 Identities=30% Similarity=1.079 Sum_probs=5.3
Q ss_pred cccccCcccc
Q psy14244 72 YKCDTCEKSF 81 (226)
Q Consensus 72 ~~C~~C~~~f 81 (226)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5555555443
No 190
>KOG2272|consensus
Probab=57.39 E-value=9.2 Score=30.32 Aligned_cols=36 Identities=8% Similarity=0.105 Sum_probs=22.1
Q ss_pred CccCCcchhhhcChhhhhccCCCCCCCCCCcccchhhhccch
Q psy14244 141 PYQCDRCSQFFGDRMNLISHQCGPEDIKPNVDNLQTQISNND 182 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~~~~~~~~~~ 182 (226)
-|.|+.|++....++.+..- +--..|..|-..++.+
T Consensus 280 cf~Cs~Cdkkl~~K~Kf~E~------DmkP~CKkCy~rfp~e 315 (332)
T KOG2272|consen 280 CFSCSTCDKKLTQKNKFYEF------DMKPVCKKCYDRFPLE 315 (332)
T ss_pred cccccccccccccccceeee------ccchHHHHHHhhccHH
Confidence 47888888887776665432 2223566666655543
No 191
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=57.03 E-value=5.1 Score=27.80 Aligned_cols=10 Identities=30% Similarity=0.548 Sum_probs=5.1
Q ss_pred cccCcccccc
Q psy14244 44 HKCEYCHKVF 53 (226)
Q Consensus 44 ~~C~~C~~~f 53 (226)
..|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 3455555444
No 192
>PRK12496 hypothetical protein; Provisional
Probab=57.03 E-value=6.7 Score=29.17 Aligned_cols=12 Identities=25% Similarity=0.695 Sum_probs=10.0
Q ss_pred ccCCCCcccccc
Q psy14244 100 FKCTTCDKSFVN 111 (226)
Q Consensus 100 ~~C~~C~~~f~~ 111 (226)
|.|..|++.|..
T Consensus 128 ~~C~gC~~~~~~ 139 (164)
T PRK12496 128 KVCKGCKKKYPE 139 (164)
T ss_pred EECCCCCccccC
Confidence 789999998863
No 193
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=56.55 E-value=10 Score=26.26 Aligned_cols=37 Identities=24% Similarity=0.435 Sum_probs=20.1
Q ss_pred cccccCccccCChhhHHHHHhH-hc-CCCCccCCCCccccc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLI-HS-GIRPFKCTTCDKSFV 110 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~-h~-~~k~~~C~~C~~~f~ 110 (226)
..|+.||..=.....|+ .|+ -. ...-|.|..||..+.
T Consensus 73 ~~CpkCg~~ea~y~~~Q--tRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYYWQLQ--TRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEEEeee--hhccCCCceEEEEecccCCEee
Confidence 56888875433333322 222 11 222388999988764
No 194
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=56.52 E-value=4.5 Score=25.45 Aligned_cols=40 Identities=15% Similarity=0.383 Sum_probs=15.8
Q ss_pred hccCCCCCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCccc
Q psy14244 61 SHNCPQMKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKS 108 (226)
Q Consensus 61 ~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~ 108 (226)
.|...........|..|+..++.... ..+ ..+.|+.|+..
T Consensus 31 ~H~~~~~~~~~v~Cg~C~~~~~~~~~-------~c~-~~~~C~~C~~~ 70 (71)
T PF05495_consen 31 DHPFDRWPVKRVICGKCRTEQPIDEY-------SCG-ADYFCPICGLY 70 (71)
T ss_dssp SS---TTT--EEEETTT--EEES-SB-------TT---SEEETTTTEE
T ss_pred cCccccccccCeECCCCCCccChhhh-------hcC-CCccCcCcCCC
Confidence 44333333345667777665544433 011 34667776643
No 195
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=56.02 E-value=5.5 Score=27.66 Aligned_cols=8 Identities=38% Similarity=0.949 Sum_probs=3.9
Q ss_pred ccCccccc
Q psy14244 45 KCEYCHKV 52 (226)
Q Consensus 45 ~C~~C~~~ 52 (226)
.|..||..
T Consensus 72 ~C~~Cg~~ 79 (114)
T PRK03681 72 WCETCQQY 79 (114)
T ss_pred EcccCCCe
Confidence 45555543
No 196
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=55.81 E-value=7.3 Score=30.81 Aligned_cols=11 Identities=36% Similarity=1.120 Sum_probs=5.8
Q ss_pred ccCCCCccccc
Q psy14244 100 FKCTTCDKSFV 110 (226)
Q Consensus 100 ~~C~~C~~~f~ 110 (226)
|.|+.|+..|.
T Consensus 156 f~C~~C~h~F~ 166 (278)
T PF15135_consen 156 FHCPKCRHNFR 166 (278)
T ss_pred eecccccccch
Confidence 55555555554
No 197
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=54.06 E-value=2.8 Score=27.22 Aligned_cols=31 Identities=23% Similarity=0.627 Sum_probs=10.4
Q ss_pred CcccCccchhH------HHhhcCCCccccCccccccC
Q psy14244 24 NAYKCHQCQRL------IFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 24 ~~~~C~~C~k~------f~~~~~~~~~~C~~C~~~f~ 54 (226)
+.|.|+.|+-. +....+...-.|..||..|.
T Consensus 21 ~~F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~~~ 57 (81)
T PF05129_consen 21 KVFDCPFCNHEKSVSVKIDKKEGIGILSCRVCGESFQ 57 (81)
T ss_dssp S----TTT--SS-EEEEEETTTTEEEEEESSS--EEE
T ss_pred ceEcCCcCCCCCeEEEEEEccCCEEEEEecCCCCeEE
Confidence 45777777621 11122222445666666554
No 198
>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 KOG2593|consensus
Probab=53.53 E-value=9.1 Score=32.80 Aligned_cols=39 Identities=26% Similarity=0.689 Sum_probs=19.2
Q ss_pred CCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccc
Q psy14244 68 KPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSF 109 (226)
Q Consensus 68 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f 109 (226)
....|.|+.|.+.|.....+. ..-...-.|.|..|+-..
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGEL 163 (436)
T ss_pred ccccccCCccccchhhhHHHH---hhcccCceEEEecCCCch
Confidence 334566666666665544432 122222346666665443
No 200
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=53.53 E-value=7.8 Score=33.28 Aligned_cols=20 Identities=10% Similarity=0.338 Sum_probs=15.4
Q ss_pred CCCCccCCcchhhhcChhhh
Q psy14244 138 FPKPYQCDRCSQFFGDRMNL 157 (226)
Q Consensus 138 ~~k~~~C~~C~~~f~~~~~L 157 (226)
|.+-|+|+.||..+......
T Consensus 364 G~~g~rC~kCg~~~~~~~~~ 383 (421)
T COG1571 364 GRNGFRCKKCGTRARETLIK 383 (421)
T ss_pred CCCCcccccccccCCccccc
Confidence 44489999999998766544
No 201
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=53.29 E-value=18 Score=29.70 Aligned_cols=31 Identities=19% Similarity=0.467 Sum_probs=15.2
Q ss_pred cccCccchhHHHhhcCCCccccCccccccCChhHH
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSL 59 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l 59 (226)
-|.||.|.... ---|-.|+.|.-..-....|
T Consensus 308 Gy~CP~CktkV----CsLPi~CP~Csl~LilsthL 338 (421)
T COG5151 308 GYECPVCKTKV----CSLPISCPICSLQLILSTHL 338 (421)
T ss_pred ceeCCccccee----ecCCccCcchhHHHHHHHHH
Confidence 37777775321 11244566665544333333
No 202
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=53.15 E-value=7.6 Score=27.11 Aligned_cols=10 Identities=20% Similarity=0.976 Sum_probs=4.9
Q ss_pred ccCccchhHH
Q psy14244 26 YKCHQCQRLI 35 (226)
Q Consensus 26 ~~C~~C~k~f 35 (226)
++|..||..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 4555555433
No 203
>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=53.04 E-value=6.4 Score=26.51 Aligned_cols=19 Identities=11% Similarity=0.504 Sum_probs=10.8
Q ss_pred EEeeCCCCcccCccchhHHH
Q psy14244 17 LCIHGNDNAYKCHQCQRLIF 36 (226)
Q Consensus 17 ~~~h~~~~~~~C~~C~k~f~ 36 (226)
++++.| +|++|++||..|.
T Consensus 72 ~~l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EEEeCC-CceeCCCCCcEEE
Confidence 444444 4666666665554
No 204
>PRK05978 hypothetical protein; Provisional
Probab=52.63 E-value=6.2 Score=28.80 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=4.3
Q ss_pred ccCcccccc
Q psy14244 45 KCEYCHKVF 53 (226)
Q Consensus 45 ~C~~C~~~f 53 (226)
.|+.||..|
T Consensus 54 ~C~~CG~~~ 62 (148)
T PRK05978 54 HCAACGEDF 62 (148)
T ss_pred CccccCCcc
Confidence 355555444
No 205
>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=51.70 E-value=4.3 Score=20.52 Aligned_cols=19 Identities=37% Similarity=0.668 Sum_probs=13.2
Q ss_pred ccCCcchhhhcChhhhhccC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQ 161 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~ 161 (226)
|.|-.|++.| .......|.
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEE-EGGGTTT--
T ss_pred CeeecCCCCc-CcCCcCCCC
Confidence 5789999999 456667664
No 206
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.53 E-value=6.3 Score=23.90 Aligned_cols=39 Identities=18% Similarity=0.334 Sum_probs=21.9
Q ss_pred eEEeeCCCCcccCccchh------HHHhhcCCCccccCccccccC
Q psy14244 16 LLCIHGNDNAYKCHQCQR------LIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 16 h~~~h~~~~~~~C~~C~k------~f~~~~~~~~~~C~~C~~~f~ 54 (226)
|..++.++.++-|+-=+- .|..-....--.|++|+..|.
T Consensus 15 ~~~I~~~~~~l~C~g~~~p~~HPrV~L~mg~~gev~CPYC~t~y~ 59 (62)
T COG4391 15 HETIEIGDLPLMCPGPEPPNDHPRVFLDMGDEGEVVCPYCSTRYR 59 (62)
T ss_pred ceEEEeCCeeEEcCCCCCCCCCCEEEEEcCCCCcEecCccccEEE
Confidence 667777788888864332 222222223345777776654
No 207
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=51.45 E-value=16 Score=30.16 Aligned_cols=35 Identities=17% Similarity=0.401 Sum_probs=17.1
Q ss_pred ccCccccccCChhHHhhccCCCCCCCCcccccCcccc
Q psy14244 45 KCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSF 81 (226)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 81 (226)
.|++||..= . .++.+.-....|.+...|..|+...
T Consensus 186 ~CPvCGs~P-~-~s~~~~~~~~~G~RyL~CslC~teW 220 (305)
T TIGR01562 186 LCPACGSPP-V-ASMVRQGGKETGLRYLSCSLCATEW 220 (305)
T ss_pred cCCCCCChh-h-hhhhcccCCCCCceEEEcCCCCCcc
Confidence 577777542 1 1111111124556667777776443
No 208
>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=50.80 E-value=5.8 Score=27.08 Aligned_cols=26 Identities=15% Similarity=0.433 Sum_probs=10.9
Q ss_pred CccchhHHHhhcCCCccccCccccccC
Q psy14244 28 CHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
||.|+..|.+..+. .|.|+.|+..+.
T Consensus 5 CP~C~seytY~dg~-~~iCpeC~~EW~ 30 (109)
T TIGR00686 5 CPKCNSEYTYHDGT-QLICPSCLYEWN 30 (109)
T ss_pred CCcCCCcceEecCC-eeECcccccccc
Confidence 45554443332222 244555544443
No 209
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=49.75 E-value=7.6 Score=27.63 Aligned_cols=14 Identities=43% Similarity=1.063 Sum_probs=6.6
Q ss_pred CCcccccCccccCC
Q psy14244 70 RPYKCDTCEKSFTN 83 (226)
Q Consensus 70 ~~~~C~~C~~~f~~ 83 (226)
.-|.|..|++.|..
T Consensus 52 qRyrC~~C~~tf~~ 65 (129)
T COG3677 52 QRYKCKSCGSTFTV 65 (129)
T ss_pred cccccCCcCcceee
Confidence 33455555555433
No 210
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=49.16 E-value=6.9 Score=30.46 Aligned_cols=30 Identities=17% Similarity=0.393 Sum_probs=22.4
Q ss_pred CCCCcccccCccccCChhhHHHHHhHhcCC
Q psy14244 68 KPRPYKCDTCEKSFTNSQNLNTHQLIHSGI 97 (226)
Q Consensus 68 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 97 (226)
++.-|.|+.|+|.|....-...|+...+.+
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 445699999999999999999999885443
No 211
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=48.92 E-value=2.7 Score=23.03 Aligned_cols=9 Identities=33% Similarity=0.962 Sum_probs=4.6
Q ss_pred cccccCccc
Q psy14244 72 YKCDTCEKS 80 (226)
Q Consensus 72 ~~C~~C~~~ 80 (226)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (39)
T PF01096_consen 29 YVCCNCGHR 37 (39)
T ss_dssp EEESSSTEE
T ss_pred EEeCCCCCe
Confidence 455555544
No 212
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=48.75 E-value=17 Score=20.05 Aligned_cols=23 Identities=22% Similarity=0.524 Sum_probs=14.0
Q ss_pred cccccCccccCC--hhhHHHHHhHh
Q psy14244 72 YKCDTCEKSFTN--SQNLNTHQLIH 94 (226)
Q Consensus 72 ~~C~~C~~~f~~--~~~l~~H~~~h 94 (226)
-.|+.||..|.. ...-..|.+-|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 467777776654 34555565555
No 213
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=48.46 E-value=6.2 Score=20.77 Aligned_cols=9 Identities=33% Similarity=1.051 Sum_probs=4.0
Q ss_pred ccCcccccc
Q psy14244 45 KCEYCHKVF 53 (226)
Q Consensus 45 ~C~~C~~~f 53 (226)
.|..||..|
T Consensus 23 ~C~~Cg~~~ 31 (33)
T PF08792_consen 23 VCIFCGSSF 31 (33)
T ss_pred EcccCCcEe
Confidence 444444443
No 214
>KOG2807|consensus
Probab=48.14 E-value=17 Score=30.01 Aligned_cols=33 Identities=21% Similarity=0.459 Sum_probs=22.2
Q ss_pred cccCccchhHHHhhcCCCccccCccccccCChhHHhh
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLS 61 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~ 61 (226)
-|-||.|+... ---|-.|++|+-.......|.+
T Consensus 276 Gy~CP~Ckakv----CsLP~eCpiC~ltLVss~hLAR 308 (378)
T KOG2807|consen 276 GYFCPQCKAKV----CSLPIECPICSLTLVSSPHLAR 308 (378)
T ss_pred ceeCCcccCee----ecCCccCCccceeEecchHHHH
Confidence 47788886432 2235678999888877777754
No 215
>PRK10220 hypothetical protein; Provisional
Probab=47.34 E-value=7.9 Score=26.47 Aligned_cols=26 Identities=19% Similarity=0.554 Sum_probs=10.9
Q ss_pred CccchhHHHhhcCCCccccCccccccC
Q psy14244 28 CHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
||.|+..|.+.-+. .|.|+.|+..+.
T Consensus 6 CP~C~seytY~d~~-~~vCpeC~hEW~ 31 (111)
T PRK10220 6 CPKCNSEYTYEDNG-MYICPECAHEWN 31 (111)
T ss_pred CCCCCCcceEcCCC-eEECCcccCcCC
Confidence 55554433332221 244555554443
No 216
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=47.29 E-value=9.4 Score=22.63 Aligned_cols=12 Identities=42% Similarity=1.010 Sum_probs=9.6
Q ss_pred ccCCCCcccccc
Q psy14244 100 FKCTTCDKSFVN 111 (226)
Q Consensus 100 ~~C~~C~~~f~~ 111 (226)
..|+.|++.|..
T Consensus 6 ~~C~~Cg~~~~~ 17 (54)
T PF14446_consen 6 CKCPVCGKKFKD 17 (54)
T ss_pred ccChhhCCcccC
Confidence 478899998864
No 217
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=47.19 E-value=7 Score=19.83 Aligned_cols=8 Identities=25% Similarity=0.895 Sum_probs=2.7
Q ss_pred ccccCccc
Q psy14244 43 VHKCEYCH 50 (226)
Q Consensus 43 ~~~C~~C~ 50 (226)
.|.|..|+
T Consensus 15 ~Y~C~~Cd 22 (30)
T PF07649_consen 15 FYRCSECD 22 (30)
T ss_dssp EEE-TTT-
T ss_pred eEECccCC
Confidence 34444443
No 218
>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=46.62 E-value=16 Score=24.90 Aligned_cols=13 Identities=23% Similarity=0.657 Sum_probs=9.4
Q ss_pred CCccCCCCccccc
Q psy14244 98 RPFKCTTCDKSFV 110 (226)
Q Consensus 98 k~~~C~~C~~~f~ 110 (226)
+|..|++||..-.
T Consensus 1 ~p~~CpYCg~~~~ 13 (102)
T PF11672_consen 1 KPIICPYCGGPAE 13 (102)
T ss_pred CCcccCCCCCeeE
Confidence 4678999986543
No 219
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=46.31 E-value=14 Score=33.94 Aligned_cols=24 Identities=25% Similarity=0.389 Sum_probs=13.8
Q ss_pred ccCccchhHHHhhcCCCccccCcccccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
..|+.||..-... .--|+.||..+
T Consensus 2 ~~Cp~Cg~~n~~~----akFC~~CG~~l 25 (645)
T PRK14559 2 LICPQCQFENPNN----NRFCQKCGTSL 25 (645)
T ss_pred CcCCCCCCcCCCC----CccccccCCCC
Confidence 3688887642111 11388888775
No 220
>KOG4167|consensus
Probab=46.28 E-value=3.6 Score=37.52 Aligned_cols=26 Identities=15% Similarity=0.286 Sum_probs=23.0
Q ss_pred CCccCCcchhhhcChhhhhccCCCCC
Q psy14244 140 KPYQCDRCSQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 140 k~~~C~~C~~~f~~~~~L~~H~~~h~ 165 (226)
..|.|..||+.|-.-.++..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 45899999999999999999998874
No 221
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=45.61 E-value=10 Score=26.74 Aligned_cols=11 Identities=18% Similarity=0.132 Sum_probs=6.0
Q ss_pred cccCccccccCC
Q psy14244 44 HKCEYCHKVFDQ 55 (226)
Q Consensus 44 ~~C~~C~~~f~~ 55 (226)
..| .||..|..
T Consensus 71 ~~C-~Cg~~~~~ 81 (124)
T PRK00762 71 IEC-ECGYEGVV 81 (124)
T ss_pred EEe-eCcCcccc
Confidence 456 66655543
No 222
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=45.52 E-value=17 Score=21.63 Aligned_cols=13 Identities=15% Similarity=0.511 Sum_probs=6.7
Q ss_pred CCCcccccCcccc
Q psy14244 69 PRPYKCDTCEKSF 81 (226)
Q Consensus 69 ~~~~~C~~C~~~f 81 (226)
...|.|+.||-.+
T Consensus 12 ~v~~~Cp~cGipt 24 (55)
T PF13824_consen 12 HVNFECPDCGIPT 24 (55)
T ss_pred ccCCcCCCCCCcC
Confidence 3445555555443
No 223
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=45.48 E-value=12 Score=20.03 Aligned_cols=9 Identities=22% Similarity=0.840 Sum_probs=3.5
Q ss_pred ccCcccccc
Q psy14244 45 KCEYCHKVF 53 (226)
Q Consensus 45 ~C~~C~~~f 53 (226)
.|..||-.+
T Consensus 23 sC~~CGPr~ 31 (35)
T PF07503_consen 23 SCTNCGPRY 31 (35)
T ss_dssp -BTTCC-SC
T ss_pred cCCCCCCCE
Confidence 455555443
No 224
>PF12907 zf-met2: Zinc-binding
Probab=45.12 E-value=12 Score=20.66 Aligned_cols=22 Identities=32% Similarity=0.643 Sum_probs=13.5
Q ss_pred cccccCcccc---CChhhHHHHHhH
Q psy14244 72 YKCDTCEKSF---TNSQNLNTHQLI 93 (226)
Q Consensus 72 ~~C~~C~~~f---~~~~~l~~H~~~ 93 (226)
+.|.+|...| .+...|..|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~en 26 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAEN 26 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHc
Confidence 4677777433 445667777665
No 225
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=44.88 E-value=10 Score=27.59 Aligned_cols=12 Identities=25% Similarity=0.581 Sum_probs=6.0
Q ss_pred ccCccccccCCh
Q psy14244 45 KCEYCHKVFDQQ 56 (226)
Q Consensus 45 ~C~~C~~~f~~~ 56 (226)
.|+.||..|.+.
T Consensus 30 eC~~C~~RFTTf 41 (156)
T COG1327 30 ECLECGERFTTF 41 (156)
T ss_pred cccccccccchh
Confidence 355555555443
No 226
>PRK05580 primosome assembly protein PriA; Validated
Probab=44.79 E-value=12 Score=34.46 Aligned_cols=11 Identities=36% Similarity=0.963 Sum_probs=5.8
Q ss_pred CCCcccccCcc
Q psy14244 69 PRPYKCDTCEK 79 (226)
Q Consensus 69 ~~~~~C~~C~~ 79 (226)
..|..|+.|+.
T Consensus 419 ~~~~~Cp~Cg~ 429 (679)
T PRK05580 419 PIPKACPECGS 429 (679)
T ss_pred CCCCCCCCCcC
Confidence 34455666654
No 227
>KOG4167|consensus
Probab=44.59 E-value=5 Score=36.65 Aligned_cols=26 Identities=27% Similarity=0.531 Sum_probs=23.6
Q ss_pred CCcccccCccccCChhhHHHHHhHhc
Q psy14244 70 RPYKCDTCEKSFTNSQNLNTHQLIHS 95 (226)
Q Consensus 70 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 95 (226)
..|.|..|++.|.-...+..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 35999999999999999999999985
No 228
>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=44.55 E-value=10 Score=27.51 Aligned_cols=13 Identities=31% Similarity=0.731 Sum_probs=6.4
Q ss_pred ccCccccccCChh
Q psy14244 45 KCEYCHKVFDQQS 57 (226)
Q Consensus 45 ~C~~C~~~f~~~~ 57 (226)
.|..||+.|.+..
T Consensus 30 eC~~C~~RFTTyE 42 (147)
T TIGR00244 30 ECLECHERFTTFE 42 (147)
T ss_pred cCCccCCccceee
Confidence 4555555554443
No 229
>KOG3408|consensus
Probab=44.43 E-value=13 Score=26.04 Aligned_cols=26 Identities=23% Similarity=0.487 Sum_probs=22.1
Q ss_pred CCCCcccccCccccCChhhHHHHHhH
Q psy14244 68 KPRPYKCDTCEKSFTNSQNLNTHQLI 93 (226)
Q Consensus 68 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 93 (226)
|...|.|..|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 33458999999999999999999886
No 230
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=43.92 E-value=12 Score=32.24 Aligned_cols=54 Identities=17% Similarity=0.347 Sum_probs=34.0
Q ss_pred CccchhHHHhhcCCCcc-ccCccccccCChhHHhhccCC----C-----CCCCCcccccCccccC
Q psy14244 28 CHQCQRLIFLSANAGVH-KCEYCHKVFDQQSSLLSHNCP----Q-----MKPRPYKCDTCEKSFT 82 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~-~C~~C~~~f~~~~~l~~H~~~----h-----~~~~~~~C~~C~~~f~ 82 (226)
|.+|++ |....+--.| .|+.||.+....-.|...+.. - +.+..|.|.-||+...
T Consensus 131 C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~se 194 (446)
T PF07227_consen 131 CCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSE 194 (446)
T ss_pred ccccCC-cccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhh
Confidence 667766 5444433333 699999888877777765421 1 1244699999987643
No 231
>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=43.90 E-value=6.9 Score=22.68 Aligned_cols=30 Identities=20% Similarity=0.532 Sum_probs=19.1
Q ss_pred CCcccCccchhHHHhhcCCCccccCcccccc
Q psy14244 23 DNAYKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
..|-.|.+|++.... .....+.|..|+...
T Consensus 9 ~~~~~C~~C~~~i~g-~~~~g~~C~~C~~~~ 38 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWG-LGKQGYRCSWCGLVC 38 (53)
T ss_dssp SSTEB-TTSSSBECS-SSSCEEEETTTT-EE
T ss_pred CCCCCCcccCcccCC-CCCCeEEECCCCChH
Confidence 467788888876633 455567888887654
No 232
>PRK11032 hypothetical protein; Provisional
Probab=43.87 E-value=3.7 Score=30.39 Aligned_cols=39 Identities=13% Similarity=0.307 Sum_probs=17.4
Q ss_pred eeeEEeeCCCC----cccCccchhHHHhhcCCCccccCccccc
Q psy14244 14 QTLLCIHGNDN----AYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 14 ~~h~~~h~~~~----~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
..|-..|+|+- .+.|..||........-..-.|+.||..
T Consensus 109 ~h~g~Y~sGEvvg~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~~ 151 (160)
T PRK11032 109 NHHGVYHSGEVVGLGNLVCEKCHHHLAFYTPEVLPLCPKCGHD 151 (160)
T ss_pred hhcCeeecceeeecceEEecCCCCEEEecCCCcCCCCCCCCCC
Confidence 34444455442 2556666554333322223345555543
No 233
>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=43.85 E-value=15 Score=19.80 Aligned_cols=18 Identities=17% Similarity=0.519 Sum_probs=7.6
Q ss_pred hhccCCCCCCCCcccccC
Q psy14244 60 LSHNCPQMKPRPYKCDTC 77 (226)
Q Consensus 60 ~~H~~~h~~~~~~~C~~C 77 (226)
.+|=....|...|.|..|
T Consensus 18 ~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 18 KKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCCEeEecCcC
Confidence 333333344444444444
No 234
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=43.72 E-value=7.7 Score=22.50 Aligned_cols=14 Identities=29% Similarity=0.838 Sum_probs=10.5
Q ss_pred CCccCCCCcccccc
Q psy14244 98 RPFKCTTCDKSFVN 111 (226)
Q Consensus 98 k~~~C~~C~~~f~~ 111 (226)
+++.|..||..|.-
T Consensus 3 k~l~C~dCg~~Fvf 16 (49)
T PF13451_consen 3 KTLTCKDCGAEFVF 16 (49)
T ss_pred eeEEcccCCCeEEE
Confidence 46788888888764
No 235
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=43.53 E-value=14 Score=25.48 Aligned_cols=30 Identities=17% Similarity=0.452 Sum_probs=18.2
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCC
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQ 55 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~ 55 (226)
...+||.|++..+--.. ...|-+|+....-
T Consensus 68 v~V~CP~C~K~TKmLGr--~D~CM~C~~pLTL 97 (114)
T PF11023_consen 68 VQVECPNCGKQTKMLGR--VDACMHCKEPLTL 97 (114)
T ss_pred eeeECCCCCChHhhhch--hhccCcCCCcCcc
Confidence 45678888876543332 2467777765443
No 236
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=42.25 E-value=8.4 Score=27.38 Aligned_cols=6 Identities=33% Similarity=1.010 Sum_probs=2.9
Q ss_pred ccccCc
Q psy14244 73 KCDTCE 78 (226)
Q Consensus 73 ~C~~C~ 78 (226)
.||+|+
T Consensus 46 ~CPvC~ 51 (131)
T COG1645 46 FCPVCG 51 (131)
T ss_pred ECCCCC
Confidence 355554
No 237
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=41.45 E-value=9.3 Score=28.68 Aligned_cols=23 Identities=26% Similarity=0.716 Sum_probs=14.3
Q ss_pred ccCccchhHHHhhcCCCccccCccccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
+.|.-|++.|. .....|++||-.
T Consensus 140 ~rC~GC~~~f~----~~~~~Cp~CG~~ 162 (177)
T COG1439 140 LRCHGCKRIFP----EPKDFCPICGSP 162 (177)
T ss_pred EEEecCceecC----CCCCcCCCCCCc
Confidence 56777777766 233457777754
No 238
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=41.31 E-value=9.5 Score=29.08 Aligned_cols=14 Identities=14% Similarity=0.327 Sum_probs=7.9
Q ss_pred CcccCccchhHHHh
Q psy14244 24 NAYKCHQCQRLIFL 37 (226)
Q Consensus 24 ~~~~C~~C~k~f~~ 37 (226)
-||.|.+|.+.|.+
T Consensus 195 IPF~C~iCKkdy~s 208 (259)
T COG5152 195 IPFLCGICKKDYES 208 (259)
T ss_pred Cceeehhchhhccc
Confidence 45666666655443
No 239
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=40.63 E-value=20 Score=32.94 Aligned_cols=58 Identities=21% Similarity=0.296 Sum_probs=40.4
Q ss_pred cCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCc-cCCcchhhhcChhhhhccCCCCCCCCCCcccchhhhc
Q psy14244 101 KCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPY-QCDRCSQFFGDRMNLISHQCGPEDIKPNVDNLQTQIS 179 (226)
Q Consensus 101 ~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~-~C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~~~~~~~ 179 (226)
.|..||-.|+-. ..|--- |..+ ..+.| .|+.|.+.|.+..+-+-| ..|..|+.|+...
T Consensus 125 ~CT~CGPRfTIi-------------~alPYD-R~nT-sM~~F~lC~~C~~EY~dP~nRRfH------AQp~aCp~CGP~~ 183 (750)
T COG0068 125 NCTNCGPRFTII-------------EALPYD-RENT-SMADFPLCPFCDKEYKDPLNRRFH------AQPIACPKCGPHL 183 (750)
T ss_pred ccCCCCcceeee-------------ccCCCC-cccC-ccccCcCCHHHHHHhcCccccccc------cccccCcccCCCe
Confidence 699999999752 222111 1222 23444 699999999999888888 5788999999743
No 240
>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 KOG1729|consensus
Probab=40.05 E-value=5.3 Score=32.59 Aligned_cols=55 Identities=24% Similarity=0.482 Sum_probs=26.0
Q ss_pred CcccCccchhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCC-cccccCcc
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRP-YKCDTCEK 79 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~-~~C~~C~~ 79 (226)
..-.|..|++...+-. .+.|-|..||..|-..-...+-+..-...++ ..|+.|-.
T Consensus 167 ea~~C~~C~~~~Ftl~-~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~ 222 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLS-ERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFE 222 (288)
T ss_pred cceecccCCCccccHH-HHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHH
Confidence 4456777777422211 2244577777776653333322222222222 36666643
No 242
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=39.86 E-value=12 Score=24.13 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=16.1
Q ss_pred ccCccchhHHHhhcCC-CccccCccccccC
Q psy14244 26 YKCHQCQRLIFLSANA-GVHKCEYCHKVFD 54 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~-~~~~C~~C~~~f~ 54 (226)
|.|+-||......... .-..|++|.-.-.
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~WEdD 31 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCFWEDD 31 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCCcccC
Confidence 6788887643332222 2336777766543
No 243
>PRK00420 hypothetical protein; Validated
Probab=39.75 E-value=13 Score=25.79 Aligned_cols=7 Identities=29% Similarity=0.415 Sum_probs=3.2
Q ss_pred ccCcccc
Q psy14244 45 KCEYCHK 51 (226)
Q Consensus 45 ~C~~C~~ 51 (226)
.|+.||.
T Consensus 42 ~Cp~Cg~ 48 (112)
T PRK00420 42 VCPVHGK 48 (112)
T ss_pred ECCCCCC
Confidence 3444444
No 244
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=39.58 E-value=7.6 Score=26.26 Aligned_cols=39 Identities=18% Similarity=0.451 Sum_probs=20.0
Q ss_pred CCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCC
Q psy14244 70 RPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINP 115 (226)
Q Consensus 70 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~ 115 (226)
..|.|+.|+. ..-...+ ..+.-...|+.||..+....+.
T Consensus 20 t~f~CP~Cge-~~v~v~~------~k~~~h~~C~~CG~y~~~~V~~ 58 (99)
T PRK14892 20 KIFECPRCGK-VSISVKI------KKNIAIITCGNCGLYTEFEVPS 58 (99)
T ss_pred cEeECCCCCC-eEeeeec------CCCcceEECCCCCCccCEECCc
Confidence 4577777773 1111111 1133346788887777654333
No 245
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=39.50 E-value=12 Score=27.37 Aligned_cols=37 Identities=19% Similarity=0.737 Sum_probs=24.2
Q ss_pred CCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhh
Q psy14244 96 GIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFF 151 (226)
Q Consensus 96 ~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f 151 (226)
..-+|.|. |+..|.+ ..+|-..-. |+ .|.|..|+-..
T Consensus 114 ~~~~Y~C~-C~q~~l~----------------~RRhn~~~~-g~-~YrC~~C~gkL 150 (156)
T COG3091 114 TTYPYRCQ-CQQHYLR----------------IRRHNTVRR-GE-VYRCGKCGGKL 150 (156)
T ss_pred cceeEEee-cCCccch----------------hhhcccccc-cc-eEEeccCCceE
Confidence 34479999 9998875 233332222 44 89999998653
No 246
>PF04641 Rtf2: Rtf2 RING-finger
Probab=39.40 E-value=13 Score=29.91 Aligned_cols=13 Identities=8% Similarity=0.355 Sum_probs=7.2
Q ss_pred CCcccCccchhHH
Q psy14244 23 DNAYKCHQCQRLI 35 (226)
Q Consensus 23 ~~~~~C~~C~k~f 35 (226)
..+|.||+.++.|
T Consensus 111 ~~~~~CPvt~~~~ 123 (260)
T PF04641_consen 111 EGRFICPVTGKEF 123 (260)
T ss_pred CceeECCCCCccc
Confidence 3456666665555
No 247
>KOG3214|consensus
Probab=39.38 E-value=10 Score=25.50 Aligned_cols=9 Identities=22% Similarity=0.940 Sum_probs=5.5
Q ss_pred CcccCccch
Q psy14244 24 NAYKCHQCQ 32 (226)
Q Consensus 24 ~~~~C~~C~ 32 (226)
..|.|+.|+
T Consensus 22 t~FnClfcn 30 (109)
T KOG3214|consen 22 TQFNCLFCN 30 (109)
T ss_pred eeeccCccc
Confidence 446677665
No 248
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=39.11 E-value=15 Score=26.24 Aligned_cols=26 Identities=31% Similarity=0.473 Sum_probs=19.2
Q ss_pred CcccccCccccCChhhHHHHHhHhcCCCC
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIHSGIRP 99 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~ 99 (226)
...|-.+|+.|.+ |.+|+.+|.+.-|
T Consensus 76 ~IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 76 YIICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred eEEEeccCcchHH---HHHHHhcccCCCH
Confidence 3578888888865 7888888877554
No 249
>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=38.74 E-value=11 Score=20.78 Aligned_cols=20 Identities=15% Similarity=0.330 Sum_probs=9.1
Q ss_pred eEEeeCCCCcccCccchhHH
Q psy14244 16 LLCIHGNDNAYKCHQCQRLI 35 (226)
Q Consensus 16 h~~~h~~~~~~~C~~C~k~f 35 (226)
-+.+....++-.|+.|+..|
T Consensus 20 yl~l~~~~~~~~CpYCg~~y 39 (40)
T PF10276_consen 20 YLNLDDEPGPVVCPYCGTRY 39 (40)
T ss_dssp EEE-TTTTCEEEETTTTEEE
T ss_pred EEecCCCCCeEECCCCCCEE
Confidence 33343322355666666543
No 250
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=37.99 E-value=12 Score=20.89 Aligned_cols=16 Identities=25% Similarity=0.414 Sum_probs=13.3
Q ss_pred cCCcchhhhcChhhhh
Q psy14244 143 QCDRCSQFFGDRMNLI 158 (226)
Q Consensus 143 ~C~~C~~~f~~~~~L~ 158 (226)
.|.+||+.|+......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 6999999999876654
No 251
>PF15269 zf-C2H2_7: Zinc-finger
Probab=37.97 E-value=12 Score=21.08 Aligned_cols=24 Identities=21% Similarity=0.416 Sum_probs=20.5
Q ss_pred CCccCCcchhhhcChhhhhccCCC
Q psy14244 140 KPYQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 140 k~~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
-.|+|-.|..+...++.|-.||+-
T Consensus 19 ~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 19 FKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ccceeecCCcccchHHHHHHHHHH
Confidence 347899999999999999999864
No 252
>KOG3507|consensus
Probab=37.71 E-value=13 Score=22.38 Aligned_cols=27 Identities=22% Similarity=0.465 Sum_probs=12.5
Q ss_pred cccCccchhHHHhhcCCCccccCccccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
.|.|..|+..-. -..-.+..|..||..
T Consensus 20 iYiCgdC~~en~-lk~~D~irCReCG~R 46 (62)
T KOG3507|consen 20 IYICGDCGQENT-LKRGDVIRCRECGYR 46 (62)
T ss_pred EEEecccccccc-ccCCCcEehhhcchH
Confidence 366666654211 111224556666654
No 253
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=37.31 E-value=11 Score=18.39 Aligned_cols=7 Identities=29% Similarity=0.842 Sum_probs=4.3
Q ss_pred cCccchh
Q psy14244 27 KCHQCQR 33 (226)
Q Consensus 27 ~C~~C~k 33 (226)
.|+.||.
T Consensus 4 ~Cp~Cg~ 10 (26)
T PF13248_consen 4 FCPNCGA 10 (26)
T ss_pred CCcccCC
Confidence 4666665
No 254
>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=37.22 E-value=11 Score=22.21 Aligned_cols=12 Identities=17% Similarity=0.584 Sum_probs=6.5
Q ss_pred cCCcchhhhcCh
Q psy14244 143 QCDRCSQFFGDR 154 (226)
Q Consensus 143 ~C~~C~~~f~~~ 154 (226)
.||+|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999998653
No 255
>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=37.21 E-value=16 Score=26.76 Aligned_cols=12 Identities=17% Similarity=0.479 Sum_probs=3.7
Q ss_pred CCCccCCcchhh
Q psy14244 139 PKPYQCDRCSQF 150 (226)
Q Consensus 139 ~k~~~C~~C~~~ 150 (226)
+...+|..||-.
T Consensus 58 dt~leCy~Cg~~ 69 (152)
T PF09416_consen 58 DTVLECYNCGSR 69 (152)
T ss_dssp S-B---TTT---
T ss_pred CcEEEEEecCCC
Confidence 446789999854
No 256
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=36.54 E-value=13 Score=32.69 Aligned_cols=15 Identities=20% Similarity=0.643 Sum_probs=8.7
Q ss_pred CccccCccccccCCh
Q psy14244 42 GVHKCEYCHKVFDQQ 56 (226)
Q Consensus 42 ~~~~C~~C~~~f~~~ 56 (226)
..|.|..||..+...
T Consensus 424 ~~~~c~~c~~~yd~~ 438 (479)
T PRK05452 424 PRMQCSVCQWIYDPA 438 (479)
T ss_pred CeEEECCCCeEECCC
Confidence 356666666666543
No 257
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=36.30 E-value=31 Score=24.99 Aligned_cols=16 Identities=19% Similarity=0.607 Sum_probs=8.6
Q ss_pred CcccccCccccCChhh
Q psy14244 71 PYKCDTCEKSFTNSQN 86 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~ 86 (226)
.+.|+.||+.|..-+.
T Consensus 124 f~~C~~C~kiyW~GsH 139 (147)
T PF01927_consen 124 FWRCPGCGKIYWEGSH 139 (147)
T ss_pred EEECCCCCCEeccccc
Confidence 4556666665554443
No 258
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.27 E-value=24 Score=26.58 Aligned_cols=35 Identities=20% Similarity=0.671 Sum_probs=23.6
Q ss_pred CCCCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCccccc
Q psy14244 67 MKPRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFV 110 (226)
Q Consensus 67 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~ 110 (226)
+....|.|+.|...|+.-..+. .+ |.||.||....
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA~~------~~---F~Cp~Cg~~L~ 143 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEAME------LG---FTCPKCGEDLE 143 (176)
T ss_pred ccCCceeCCCCCCcccHHHHHH------hC---CCCCCCCchhh
Confidence 4455688988887776554432 22 89999987754
No 259
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=36.14 E-value=13 Score=26.96 Aligned_cols=32 Identities=16% Similarity=0.444 Sum_probs=19.5
Q ss_pred ccccCccccccCChhHHhhccCCCCCCCCcccccCcccc
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSF 81 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 81 (226)
.|.|..|+..+. ++.+ +.....|.|..|+..+
T Consensus 112 ~y~C~~C~~~~~------~~rr-~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RVRR-SNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eEcc-ccCcceEEcCCCCCEE
Confidence 577888887653 2222 2222568888887655
No 260
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=35.99 E-value=25 Score=20.63 Aligned_cols=11 Identities=27% Similarity=1.011 Sum_probs=4.9
Q ss_pred cccccCccccC
Q psy14244 72 YKCDTCEKSFT 82 (226)
Q Consensus 72 ~~C~~C~~~f~ 82 (226)
++|+.||..|.
T Consensus 29 W~C~~Cgh~w~ 39 (55)
T PF14311_consen 29 WKCPKCGHEWK 39 (55)
T ss_pred EECCCCCCeeE
Confidence 44444444443
No 261
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=35.74 E-value=9.9 Score=29.03 Aligned_cols=12 Identities=25% Similarity=0.396 Sum_probs=6.7
Q ss_pred ccCccccccCCh
Q psy14244 45 KCEYCHKVFDQQ 56 (226)
Q Consensus 45 ~C~~C~~~f~~~ 56 (226)
.|..||..+...
T Consensus 45 ~C~~CgYR~~DV 56 (201)
T COG1779 45 VCERCGYRSTDV 56 (201)
T ss_pred EccccCCcccce
Confidence 466666655443
No 262
>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=35.61 E-value=11 Score=27.41 Aligned_cols=31 Identities=26% Similarity=0.744 Sum_probs=15.3
Q ss_pred ccccCccccccCChhHHhhccCCCCCCCCcccccCcccc
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSF 81 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 81 (226)
.|.|+.|+..+ .+|.+. ....|.|..|+..+
T Consensus 123 ~~~C~~C~~~~------~r~~~~--~~~~~~C~~C~~~l 153 (157)
T PF10263_consen 123 VYRCPSCGREY------KRHRRS--KRKRYRCGRCGGPL 153 (157)
T ss_pred EEEcCCCCCEe------eeeccc--chhhEECCCCCCEE
Confidence 45666666554 222222 22336666666543
No 263
>KOG2636|consensus
Probab=35.56 E-value=16 Score=31.46 Aligned_cols=25 Identities=20% Similarity=0.481 Sum_probs=21.8
Q ss_pred CCCCccCCcch-hhhcChhhhhccCC
Q psy14244 138 FPKPYQCDRCS-QFFGDRMNLISHQC 162 (226)
Q Consensus 138 ~~k~~~C~~C~-~~f~~~~~L~~H~~ 162 (226)
-...|.|.+|| +++..+..+.+|..
T Consensus 398 L~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 398 LDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CCcccceeeccCccccCcHHHHHHhH
Confidence 56789999999 89999999999963
No 264
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=35.28 E-value=14 Score=19.15 Aligned_cols=23 Identities=26% Similarity=0.829 Sum_probs=11.9
Q ss_pred CccchhHHHhhcCCCccccCccc
Q psy14244 28 CHQCQRLIFLSANAGVHKCEYCH 50 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~~C~~C~ 50 (226)
|.-|+.......+...++|..|.
T Consensus 4 C~~C~t~L~yP~gA~~vrCs~C~ 26 (31)
T TIGR01053 4 CGGCRTLLMYPRGASSVRCALCQ 26 (31)
T ss_pred cCCCCcEeecCCCCCeEECCCCC
Confidence 45555544455555555555554
No 265
>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=35.11 E-value=8.7 Score=21.42 Aligned_cols=15 Identities=27% Similarity=0.866 Sum_probs=10.2
Q ss_pred CCccCCcchhhhcCh
Q psy14244 140 KPYQCDRCSQFFGDR 154 (226)
Q Consensus 140 k~~~C~~C~~~f~~~ 154 (226)
.|+.|+.|+..|=..
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 589999999999755
No 266
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.03 E-value=26 Score=24.67 Aligned_cols=56 Identities=16% Similarity=0.285 Sum_probs=30.2
Q ss_pred hHHHHHhHhcCCCC-ccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCcchhhhcCh
Q psy14244 86 NLNTHQLIHSGIRP-FKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDRCSQFFGDR 154 (226)
Q Consensus 86 ~l~~H~~~h~~~k~-~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~C~~~f~~~ 154 (226)
.|..-.-++.|+.. ..|+.|..+... .....--+-.-+.-+.|--|..||+.|.+.
T Consensus 25 el~eafcskcgeati~qcp~csasirg-------------d~~vegvlglg~dye~psfchncgs~fpwt 81 (160)
T COG4306 25 ELMEAFCSKCGEATITQCPICSASIRG-------------DYYVEGVLGLGGDYEPPSFCHNCGSRFPWT 81 (160)
T ss_pred HHHHHHHhhhchHHHhcCCccCCcccc-------------cceeeeeeccCCCCCCcchhhcCCCCCCcH
Confidence 34444444444432 478888776543 222111111222235567799999999875
No 267
>KOG3362|consensus
Probab=34.62 E-value=13 Score=26.71 Aligned_cols=21 Identities=24% Similarity=0.423 Sum_probs=11.9
Q ss_pred ccccCccccccCChhHHhhcc
Q psy14244 43 VHKCEYCHKVFDQQSSLLSHN 63 (226)
Q Consensus 43 ~~~C~~C~~~f~~~~~l~~H~ 63 (226)
+|.|.-||..+-+...+..|.
T Consensus 129 ~ysC~~CG~kyCsv~C~~~Hn 149 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTHN 149 (156)
T ss_pred hhHHHhcCCceeechhhhhcc
Confidence 355666666665555555553
No 268
>PRK11827 hypothetical protein; Provisional
Probab=34.49 E-value=16 Score=22.26 Aligned_cols=13 Identities=15% Similarity=0.237 Sum_probs=6.7
Q ss_pred cccccCccccCCh
Q psy14244 72 YKCDTCEKSFTNS 84 (226)
Q Consensus 72 ~~C~~C~~~f~~~ 84 (226)
+.|..|+..|.-.
T Consensus 27 Lic~~~~laYPI~ 39 (60)
T PRK11827 27 LICKLDNLAFPLR 39 (60)
T ss_pred EECCccCeecccc
Confidence 4555555555443
No 269
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=34.48 E-value=13 Score=20.93 Aligned_cols=8 Identities=25% Similarity=0.916 Sum_probs=3.9
Q ss_pred cccCccch
Q psy14244 25 AYKCHQCQ 32 (226)
Q Consensus 25 ~~~C~~C~ 32 (226)
|..|+.||
T Consensus 2 ~~~Cp~Cg 9 (47)
T PF14690_consen 2 PPRCPHCG 9 (47)
T ss_pred CccCCCcC
Confidence 34455555
No 270
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=34.31 E-value=24 Score=18.31 Aligned_cols=9 Identities=44% Similarity=1.283 Sum_probs=4.1
Q ss_pred cccccCccc
Q psy14244 72 YKCDTCEKS 80 (226)
Q Consensus 72 ~~C~~C~~~ 80 (226)
|.|..|+..
T Consensus 28 f~C~~C~~~ 36 (39)
T smart00132 28 FKCSKCGKP 36 (39)
T ss_pred CCCcccCCc
Confidence 444444443
No 271
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=33.83 E-value=22 Score=19.99 Aligned_cols=29 Identities=17% Similarity=0.434 Sum_probs=17.2
Q ss_pred CcccCccchhHHHhhcCCCccccCcccccc
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
.|-.|..|++.+... ....++|+.|+...
T Consensus 10 ~~~~C~~C~~~i~~~-~~~~~~C~~C~~~~ 38 (50)
T cd00029 10 KPTFCDVCRKSIWGL-FKQGLRCSWCKVKC 38 (50)
T ss_pred CCCChhhcchhhhcc-ccceeEcCCCCCch
Confidence 355677777765542 33456677776543
No 272
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=33.41 E-value=22 Score=19.73 Aligned_cols=27 Identities=26% Similarity=0.603 Sum_probs=14.4
Q ss_pred CcccCccchhHHHhhcCCCccccCccccc
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
.+..|..|++.+.... ..++|..|+..
T Consensus 10 ~~~~C~~C~~~i~~~~--~~~~C~~C~~~ 36 (49)
T smart00109 10 KPTKCCVCRKSIWGSF--QGLRCSWCKVK 36 (49)
T ss_pred CCCCccccccccCcCC--CCcCCCCCCch
Confidence 3556777766544322 34566666543
No 273
>PRK04351 hypothetical protein; Provisional
Probab=33.07 E-value=21 Score=26.08 Aligned_cols=14 Identities=29% Similarity=0.807 Sum_probs=8.4
Q ss_pred CCCccCCcchhhhc
Q psy14244 139 PKPYQCDRCSQFFG 152 (226)
Q Consensus 139 ~k~~~C~~C~~~f~ 152 (226)
...|.|..|+-.+.
T Consensus 130 ~~~yrCg~C~g~L~ 143 (149)
T PRK04351 130 TKRYRCGKCRGKLK 143 (149)
T ss_pred CCcEEeCCCCcEee
Confidence 35567777765543
No 274
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=32.74 E-value=9.8 Score=22.82 Aligned_cols=23 Identities=13% Similarity=0.476 Sum_probs=8.9
Q ss_pred cchhHHHhhcCCCcc-ccCccccc
Q psy14244 30 QCQRLIFLSANAGVH-KCEYCHKV 52 (226)
Q Consensus 30 ~C~k~f~~~~~~~~~-~C~~C~~~ 52 (226)
.||+.|.-..+.+++ .|+.|...
T Consensus 30 LCGk~wvp~rdp~~~PVCP~Ck~i 53 (58)
T PF11238_consen 30 LCGKVWVPTRDPKPFPVCPECKEI 53 (58)
T ss_pred eeCceeCCCCCCCCCCCCcCHHHH
Confidence 344444333332222 34444443
No 275
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=32.48 E-value=26 Score=23.38 Aligned_cols=14 Identities=21% Similarity=0.596 Sum_probs=10.3
Q ss_pred cccCccccCChhhH
Q psy14244 74 CDTCEKSFTNSQNL 87 (226)
Q Consensus 74 C~~C~~~f~~~~~l 87 (226)
|+.|...|.....+
T Consensus 83 Cp~C~spFNp~Ck~ 96 (105)
T COG4357 83 CPYCQSPFNPGCKN 96 (105)
T ss_pred CCCcCCCCCccccc
Confidence 88888888766543
No 276
>KOG0320|consensus
Probab=32.39 E-value=27 Score=26.30 Aligned_cols=50 Identities=28% Similarity=0.505 Sum_probs=25.4
Q ss_pred CCcccCccchhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCCcccccCccccC
Q psy14244 23 DNAYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFT 82 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 82 (226)
+..|+|++|--.|.-..- .-..||..|-.. .++.-+ .....|+.|++...
T Consensus 129 ~~~~~CPiCl~~~sek~~----vsTkCGHvFC~~-Cik~al-----k~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP----VSTKCGHVFCSQ-CIKDAL-----KNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccc----cccccchhHHHH-HHHHHH-----HhCCCCCCcccccc
Confidence 345888888665543332 123456665432 122211 12346888887543
No 277
>KOG0801|consensus
Probab=31.88 E-value=13 Score=27.32 Aligned_cols=34 Identities=32% Similarity=0.537 Sum_probs=21.6
Q ss_pred hHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccC
Q psy14244 86 NLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNS 136 (226)
Q Consensus 86 ~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~ 136 (226)
.|..|+-.|.+ ++|++|.+... ...+..|+-+..
T Consensus 128 slP~hi~~~~g---~KCPvC~K~V~--------------sDd~e~HlvMCL 161 (205)
T KOG0801|consen 128 SLPVHIMDHSG---MKCPVCHKVVP--------------SDDAEIHLVMCL 161 (205)
T ss_pred ccceeeeccCC---ccCCccccccC--------------CCcceEEEEEEe
Confidence 34445545544 78999999876 456666665443
No 278
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=31.85 E-value=15 Score=34.36 Aligned_cols=9 Identities=22% Similarity=0.859 Sum_probs=0.0
Q ss_pred ccCccchhH
Q psy14244 26 YKCHQCQRL 34 (226)
Q Consensus 26 ~~C~~C~k~ 34 (226)
++|+.||..
T Consensus 656 r~Cp~Cg~~ 664 (900)
T PF03833_consen 656 RRCPKCGKE 664 (900)
T ss_dssp ---------
T ss_pred ccCcccCCc
Confidence 567777753
No 279
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=31.76 E-value=6.4 Score=27.48 Aligned_cols=11 Identities=18% Similarity=0.537 Sum_probs=4.7
Q ss_pred ccCccchhHHH
Q psy14244 26 YKCHQCQRLIF 36 (226)
Q Consensus 26 ~~C~~C~k~f~ 36 (226)
..|..|+..|.
T Consensus 55 ~~C~~C~~~fg 65 (118)
T PF02318_consen 55 RHCARCGKPFG 65 (118)
T ss_dssp SB-TTTS-BCS
T ss_pred cchhhhCCccc
Confidence 35666655543
No 280
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=31.57 E-value=22 Score=21.17 Aligned_cols=29 Identities=21% Similarity=0.426 Sum_probs=14.7
Q ss_pred cCcc--chhHHHhhcCCCc--cccCccccccCC
Q psy14244 27 KCHQ--CQRLIFLSANAGV--HKCEYCHKVFDQ 55 (226)
Q Consensus 27 ~C~~--C~k~f~~~~~~~~--~~C~~C~~~f~~ 55 (226)
.|+. |+..+........ ..|+.|+..|=.
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 52 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCF 52 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECS
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCcc
Confidence 6765 7777666555554 677777776644
No 281
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=31.44 E-value=14 Score=28.22 Aligned_cols=10 Identities=20% Similarity=0.517 Sum_probs=5.4
Q ss_pred cccccCcccc
Q psy14244 72 YKCDTCEKSF 81 (226)
Q Consensus 72 ~~C~~C~~~f 81 (226)
|.|+.||...
T Consensus 31 f~C~~CGyr~ 40 (192)
T TIGR00310 31 TICEHCGYRS 40 (192)
T ss_pred EECCCCCCcc
Confidence 5555565443
No 282
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.31 E-value=30 Score=28.57 Aligned_cols=28 Identities=11% Similarity=0.318 Sum_probs=12.8
Q ss_pred ccCccchhHHHhhcCCCccccCccccccC
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
+.||.|...-.....++.+.= .||..|-
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~-~CGH~~C 31 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN-VCGHTLC 31 (309)
T ss_pred CCCCcCCCCCccCcccccccC-CCCCccc
Confidence 467777654333333333322 4555544
No 283
>KOG1842|consensus
Probab=31.29 E-value=26 Score=30.26 Aligned_cols=12 Identities=33% Similarity=0.791 Sum_probs=9.0
Q ss_pred cCCcchhhhcCh
Q psy14244 143 QCDRCSQFFGDR 154 (226)
Q Consensus 143 ~C~~C~~~f~~~ 154 (226)
-|+.|+..|.-.
T Consensus 182 ~CP~Ca~~F~l~ 193 (505)
T KOG1842|consen 182 FCPECANSFGLT 193 (505)
T ss_pred ccccccchhhhH
Confidence 388998888743
No 284
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=31.14 E-value=14 Score=19.08 Aligned_cols=6 Identities=33% Similarity=1.215 Sum_probs=2.4
Q ss_pred ccCccc
Q psy14244 45 KCEYCH 50 (226)
Q Consensus 45 ~C~~C~ 50 (226)
.|+.|+
T Consensus 23 ~C~~Cg 28 (32)
T PF09297_consen 23 RCPSCG 28 (32)
T ss_dssp EESSSS
T ss_pred ECCCCc
Confidence 344443
No 285
>PHA02998 RNA polymerase subunit; Provisional
Probab=30.40 E-value=19 Score=26.97 Aligned_cols=11 Identities=36% Similarity=0.942 Sum_probs=6.6
Q ss_pred ccCCCCccccc
Q psy14244 100 FKCTTCDKSFV 110 (226)
Q Consensus 100 ~~C~~C~~~f~ 110 (226)
|.|..||..|.
T Consensus 172 YkC~~CG~~wk 182 (195)
T PHA02998 172 HACRDCKKHFK 182 (195)
T ss_pred EEcCCCCCccC
Confidence 56666666553
No 286
>KOG4124|consensus
Probab=30.35 E-value=29 Score=29.01 Aligned_cols=24 Identities=17% Similarity=0.384 Sum_probs=15.6
Q ss_pred CCCCcccCccchhHHHhhcCCCcc
Q psy14244 21 GNDNAYKCHQCQRLIFLSANAGVH 44 (226)
Q Consensus 21 ~~~~~~~C~~C~k~f~~~~~~~~~ 44 (226)
...|||+|++|.+.++...+|+++
T Consensus 394 ~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 394 VENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred eccCcccChhhhhhhccCCCCCce
Confidence 345677777777776666665554
No 287
>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=30.31 E-value=36 Score=29.88 Aligned_cols=26 Identities=23% Similarity=0.544 Sum_probs=21.3
Q ss_pred CcccccCccccCChhhHHHHHhH-hcC
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLI-HSG 96 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~-h~~ 96 (226)
-+.|+.|.+.|.+...+..|+.. |.+
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 47899999999999999999886 543
No 288
>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=30.04 E-value=42 Score=29.88 Aligned_cols=24 Identities=29% Similarity=0.636 Sum_probs=15.6
Q ss_pred CccccccccccCCCCCCccCCcchh
Q psy14244 125 KSNLAQHSCMNSHFPKPYQCDRCSQ 149 (226)
Q Consensus 125 ~~~l~~H~~~~~~~~k~~~C~~C~~ 149 (226)
...|..|.+... ...|..|+.||.
T Consensus 238 ~~~l~Ch~Cg~~-~~~~~~Cp~C~s 261 (505)
T TIGR00595 238 EGKLRCHYCGYQ-EPIPKTCPQCGS 261 (505)
T ss_pred CCeEEcCCCcCc-CCCCCCCCCCCC
Confidence 345666666555 356778888875
No 289
>KOG0978|consensus
Probab=29.84 E-value=11 Score=34.64 Aligned_cols=13 Identities=38% Similarity=0.879 Sum_probs=7.8
Q ss_pred CCccCCCCccccc
Q psy14244 98 RPFKCTTCDKSFV 110 (226)
Q Consensus 98 k~~~C~~C~~~f~ 110 (226)
+.-+||.|+.+|.
T Consensus 677 RqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 677 RQRKCPKCNAAFG 689 (698)
T ss_pred hcCCCCCCCCCCC
Confidence 3346666666664
No 290
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=29.79 E-value=18 Score=24.65 Aligned_cols=26 Identities=15% Similarity=0.475 Sum_probs=13.5
Q ss_pred CccchhHHHhhcCCCccccCccccccC
Q psy14244 28 CHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 28 C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
|+.|+-.|.+.-+. .+.|+.|+..+.
T Consensus 6 cp~c~sEytYed~~-~~~cpec~~ew~ 31 (112)
T COG2824 6 CPKCNSEYTYEDGG-QLICPECAHEWN 31 (112)
T ss_pred CCccCCceEEecCc-eEeCchhccccc
Confidence 55555544444333 555666655554
No 291
>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=29.78 E-value=22 Score=25.59 Aligned_cols=23 Identities=30% Similarity=0.761 Sum_probs=16.7
Q ss_pred cCccchhHHHhhcCCCccccCccccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
.|+.||+.|.. + ..-.|+.|.+.
T Consensus 5 nC~~CgklF~~-~--~~~iCp~C~~~ 27 (137)
T TIGR03826 5 NCPKCGRLFVK-T--GRDVCPSCYEE 27 (137)
T ss_pred cccccchhhhh-c--CCccCHHHhHH
Confidence 58999998887 3 23458888764
No 292
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=29.69 E-value=20 Score=24.74 Aligned_cols=30 Identities=17% Similarity=0.503 Sum_probs=13.3
Q ss_pred CCcccCccchhHHHhhcCCCccccCccccc
Q psy14244 23 DNAYKCHQCQRLIFLSANAGVHKCEYCHKV 52 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~~~~~~~~~C~~C~~~ 52 (226)
...|.|+.||.......+-+.--|+.|+..
T Consensus 40 ~~~~~C~~Cg~~~~~~~SCk~R~CP~C~~~ 69 (111)
T PF14319_consen 40 FHRYRCEDCGHEKIVYNSCKNRHCPSCQAK 69 (111)
T ss_pred cceeecCCCCceEEecCcccCcCCCCCCCh
Confidence 344555555544333333232245555543
No 293
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=29.66 E-value=20 Score=29.47 Aligned_cols=31 Identities=19% Similarity=0.418 Sum_probs=20.4
Q ss_pred cccCccchhHHHhhcCCC-ccccCccccccCC
Q psy14244 25 AYKCHQCQRLIFLSANAG-VHKCEYCHKVFDQ 55 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~-~~~C~~C~~~f~~ 55 (226)
-.+|+.|+..+..+.-.+ .+.|+.|+.-|.-
T Consensus 38 w~kc~~C~~~~~~~~l~~~~~vcp~c~~h~rl 69 (296)
T CHL00174 38 WVQCENCYGLNYKKFLKSKMNICEQCGYHLKM 69 (296)
T ss_pred eeECCCccchhhHHHHHHcCCCCCCCCCCcCC
Confidence 367888887655443322 4678888887764
No 294
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=29.51 E-value=28 Score=20.64 Aligned_cols=10 Identities=30% Similarity=1.095 Sum_probs=4.7
Q ss_pred CccCCCCccc
Q psy14244 99 PFKCTTCDKS 108 (226)
Q Consensus 99 ~~~C~~C~~~ 108 (226)
|..|+.|...
T Consensus 28 PlyCpKCK~E 37 (55)
T PF14205_consen 28 PLYCPKCKQE 37 (55)
T ss_pred cccCCCCCce
Confidence 3445555433
No 295
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=29.22 E-value=18 Score=29.62 Aligned_cols=31 Identities=16% Similarity=0.471 Sum_probs=21.2
Q ss_pred cccCccchhHHHhhcCCC-ccccCccccccCC
Q psy14244 25 AYKCHQCQRLIFLSANAG-VHKCEYCHKVFDQ 55 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~-~~~C~~C~~~f~~ 55 (226)
-.+|+.|+..+..+.-.+ .+.|+.|+.-|.-
T Consensus 27 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl 58 (292)
T PRK05654 27 WTKCPSCGQVLYRKELEANLNVCPKCGHHMRI 58 (292)
T ss_pred eeECCCccchhhHHHHHhcCCCCCCCCCCeeC
Confidence 478999987655443222 3689999988764
No 296
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=29.16 E-value=13 Score=27.56 Aligned_cols=31 Identities=26% Similarity=0.591 Sum_probs=20.9
Q ss_pred cccCccchhHHHhhcCCCccccCccccccCC
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFDQ 55 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~ 55 (226)
...|+.|+.+|......+.|-|..|-+.|.+
T Consensus 74 ~l~C~~C~~Tfk~f~~~g~fGCaeCY~tf~~ 104 (176)
T COG3880 74 LLGCHNCGMTFKEFIQSGLFGCAECYKTFES 104 (176)
T ss_pred HhcCccccccHHHHHHhcccchHHHHHHHHH
Confidence 3557777777776666666777777777654
No 297
>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=29.02 E-value=26 Score=19.13 Aligned_cols=14 Identities=21% Similarity=0.351 Sum_probs=8.7
Q ss_pred CCCCccCCcchhhh
Q psy14244 138 FPKPYQCDRCSQFF 151 (226)
Q Consensus 138 ~~k~~~C~~C~~~f 151 (226)
+.+.+.|.+|+..-
T Consensus 21 ~~~~w~C~~C~~~N 34 (40)
T PF04810_consen 21 GGKTWICNFCGTKN 34 (40)
T ss_dssp TTTEEEETTT--EE
T ss_pred CCCEEECcCCCCcC
Confidence 35678999998653
No 298
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=28.68 E-value=27 Score=20.96 Aligned_cols=31 Identities=26% Similarity=0.609 Sum_probs=17.8
Q ss_pred cccccCccccCChhhHHHHHhHhcCCCCccCCCCccc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKS 108 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~ 108 (226)
|.|+ ||.+|.-.-. ....|++.-.|+.|+-.
T Consensus 23 yPCP-CGDRFeIsLe-----Dl~~GE~VArCPSCSLi 53 (67)
T COG5216 23 YPCP-CGDRFEISLE-----DLRNGEVVARCPSCSLI 53 (67)
T ss_pred ecCC-CCCEeEEEHH-----HhhCCceEEEcCCceEE
Confidence 4555 7766654311 23357777777777643
No 299
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=28.65 E-value=13 Score=22.70 Aligned_cols=25 Identities=24% Similarity=0.461 Sum_probs=10.5
Q ss_pred ccCccchhHHHhhcCCCccccCccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCH 50 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~ 50 (226)
+.|..|++........--++|..|+
T Consensus 31 IlCNDC~~~s~v~fH~lg~KC~~C~ 55 (61)
T PF14599_consen 31 ILCNDCNAKSEVPFHFLGHKCSHCG 55 (61)
T ss_dssp EEESSS--EEEEE--TT----TTTS
T ss_pred EECCCCCCccceeeeHhhhcCCCCC
Confidence 4477777655555555556777776
No 300
>KOG1280|consensus
Probab=28.47 E-value=25 Score=29.38 Aligned_cols=41 Identities=12% Similarity=0.163 Sum_probs=30.8
Q ss_pred CCCccCCcchhhhcChhhhhccCCCCCCCCC--Ccccchhhhc
Q psy14244 139 PKPYQCDRCSQFFGDRMNLISHQCGPEDIKP--NVDNLQTQIS 179 (226)
Q Consensus 139 ~k~~~C~~C~~~f~~~~~L~~H~~~h~~~~~--~~c~~~~~~~ 179 (226)
+.-|.|++|+++=.+...|..|...-+.+.+ .+|++|....
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~~~ 119 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAANP 119 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccccCc
Confidence 4579999999998889999999876665554 4566666543
No 301
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=28.46 E-value=22 Score=28.54 Aligned_cols=11 Identities=36% Similarity=0.555 Sum_probs=5.1
Q ss_pred cCccchhHHHh
Q psy14244 27 KCHQCQRLIFL 37 (226)
Q Consensus 27 ~C~~C~k~f~~ 37 (226)
+||.||+.+..
T Consensus 222 ~CP~Cg~~W~L 232 (258)
T PF10071_consen 222 KCPSCGGDWRL 232 (258)
T ss_pred CCCCCCCcccc
Confidence 35555544433
No 302
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=28.34 E-value=16 Score=26.22 Aligned_cols=11 Identities=36% Similarity=0.981 Sum_probs=5.7
Q ss_pred ccccCcccccc
Q psy14244 43 VHKCEYCHKVF 53 (226)
Q Consensus 43 ~~~C~~C~~~f 53 (226)
+.+|+.||..|
T Consensus 112 ~~RCpeCG~~f 122 (136)
T PF01215_consen 112 PQRCPECGQVF 122 (136)
T ss_dssp EEEETTTEEEE
T ss_pred ccCCCCCCeEE
Confidence 44555555554
No 303
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=28.34 E-value=16 Score=27.09 Aligned_cols=22 Identities=18% Similarity=0.484 Sum_probs=16.2
Q ss_pred CCCcccccCccccCChhhHHHH
Q psy14244 69 PRPYKCDTCEKSFTNSQNLNTH 90 (226)
Q Consensus 69 ~~~~~C~~C~~~f~~~~~l~~H 90 (226)
+..+.|+.||+.|.--+....=
T Consensus 128 ~~f~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 128 EEFYRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred cceeECCCCcccccCchHHHHH
Confidence 3457899999999877666543
No 304
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=28.28 E-value=21 Score=29.19 Aligned_cols=31 Identities=16% Similarity=0.514 Sum_probs=21.6
Q ss_pred cccCccchhHHHhhcCC-CccccCccccccCC
Q psy14244 25 AYKCHQCQRLIFLSANA-GVHKCEYCHKVFDQ 55 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~-~~~~C~~C~~~f~~ 55 (226)
-.+|+.|+.....+.-. .-+.|+.||.-|.-
T Consensus 26 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl 57 (285)
T TIGR00515 26 WTKCPKCGQVLYTKELERNLEVCPKCDHHMRM 57 (285)
T ss_pred eeECCCCcchhhHHHHHhhCCCCCCCCCcCcC
Confidence 47899999876554322 23689999988764
No 305
>KOG4317|consensus
Probab=28.26 E-value=19 Score=29.60 Aligned_cols=32 Identities=16% Similarity=0.338 Sum_probs=21.4
Q ss_pred ccCccchhHHHhhcCCCccccCccccccCChhHHhhcc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHN 63 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 63 (226)
..|++|+..+.. |+|+.|+-.+-+...++.|-
T Consensus 8 ~~C~ic~vq~~~------YtCPRCn~~YCsl~CYr~h~ 39 (383)
T KOG4317|consen 8 LACGICGVQKRE------YTCPRCNLLYCSLKCYRNHK 39 (383)
T ss_pred eecccccccccc------ccCCCCCccceeeeeecCCC
Confidence 457777765433 77888877777766666653
No 306
>PLN02294 cytochrome c oxidase subunit Vb
Probab=28.21 E-value=25 Score=26.25 Aligned_cols=16 Identities=31% Similarity=0.854 Sum_probs=13.5
Q ss_pred CCCccCCcchhhhcCh
Q psy14244 139 PKPYQCDRCSQFFGDR 154 (226)
Q Consensus 139 ~k~~~C~~C~~~f~~~ 154 (226)
.+|+.|+.||..|.-+
T Consensus 139 Gkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 139 GKSFECPVCTQYFELE 154 (174)
T ss_pred CCceeCCCCCCEEEEE
Confidence 5899999999998743
No 307
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=28.20 E-value=18 Score=21.61 Aligned_cols=14 Identities=29% Similarity=0.752 Sum_probs=10.1
Q ss_pred CCCccCCcchhhhc
Q psy14244 139 PKPYQCDRCSQFFG 152 (226)
Q Consensus 139 ~k~~~C~~C~~~f~ 152 (226)
...|.|+.|...-.
T Consensus 29 i~tYmC~eC~~RI~ 42 (56)
T PF09963_consen 29 IHTYMCDECKERIR 42 (56)
T ss_pred CcceeChhHHHHHh
Confidence 45689999986544
No 308
>KOG0717|consensus
Probab=27.94 E-value=32 Score=29.94 Aligned_cols=21 Identities=29% Similarity=0.629 Sum_probs=19.5
Q ss_pred ccCCcchhhhcChhhhhccCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQC 162 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~ 162 (226)
..|..|+.+|.++..|..|+.
T Consensus 461 ~~C~tCr~~FdSRnkLF~Hlk 481 (508)
T KOG0717|consen 461 ISCTTCRESFDSRNKLFAHLK 481 (508)
T ss_pred HhhhhhhhhccchhHHHHHhh
Confidence 679999999999999999985
No 309
>KOG1842|consensus
Probab=27.89 E-value=23 Score=30.62 Aligned_cols=29 Identities=14% Similarity=0.083 Sum_probs=24.8
Q ss_pred CCccCCcchhhhcChhhhhccCCCCCCCC
Q psy14244 140 KPYQCDRCSQFFGDRMNLISHQCGPEDIK 168 (226)
Q Consensus 140 k~~~C~~C~~~f~~~~~L~~H~~~h~~~~ 168 (226)
..|.||+|.+.|.+...|..|...-|++.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 57999999999999999999997655543
No 310
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=27.82 E-value=34 Score=26.10 Aligned_cols=11 Identities=36% Similarity=0.860 Sum_probs=6.1
Q ss_pred ccccCcccccc
Q psy14244 43 VHKCEYCHKVF 53 (226)
Q Consensus 43 ~~~C~~C~~~f 53 (226)
...|..||..+
T Consensus 30 lvrC~eCG~V~ 40 (201)
T COG1326 30 LVRCEECGTVH 40 (201)
T ss_pred EEEccCCCcEe
Confidence 34566666555
No 311
>PRK05580 primosome assembly protein PriA; Validated
Probab=27.75 E-value=46 Score=30.83 Aligned_cols=25 Identities=28% Similarity=0.576 Sum_probs=17.2
Q ss_pred CccccccccccCCCCCCccCCcchhh
Q psy14244 125 KSNLAQHSCMNSHFPKPYQCDRCSQF 150 (226)
Q Consensus 125 ~~~l~~H~~~~~~~~k~~~C~~C~~~ 150 (226)
...|..|.+... ...|..|+.||..
T Consensus 406 ~~~l~Ch~Cg~~-~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 406 QRRLRCHHCGYQ-EPIPKACPECGST 430 (679)
T ss_pred CCeEECCCCcCC-CCCCCCCCCCcCC
Confidence 455667776655 4567889999764
No 312
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=27.58 E-value=21 Score=33.24 Aligned_cols=31 Identities=19% Similarity=0.387 Sum_probs=23.8
Q ss_pred ccCccchhHHHhh---cCCCccccCccccccCCh
Q psy14244 26 YKCHQCQRLIFLS---ANAGVHKCEYCHKVFDQQ 56 (226)
Q Consensus 26 ~~C~~C~k~f~~~---~~~~~~~C~~C~~~f~~~ 56 (226)
-.|..|++.|... ...+.|-|..||..|-..
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~ 494 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVF 494 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCcc
Confidence 5699999999653 235678899999988654
No 313
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=27.58 E-value=23 Score=18.99 Aligned_cols=18 Identities=28% Similarity=0.392 Sum_probs=10.1
Q ss_pred CccCCcchhhhcChhhhh
Q psy14244 141 PYQCDRCSQFFGDRMNLI 158 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~ 158 (226)
+-.|+.|++.|-..++-.
T Consensus 2 ~~~CprC~kg~Hwa~~C~ 19 (36)
T PF14787_consen 2 PGLCPRCGKGFHWASECR 19 (36)
T ss_dssp --C-TTTSSSCS-TTT--
T ss_pred CccCcccCCCcchhhhhh
Confidence 346999999998776554
No 314
>KOG2906|consensus
Probab=27.39 E-value=18 Score=24.23 Aligned_cols=11 Identities=18% Similarity=0.878 Sum_probs=5.3
Q ss_pred cccCccchhHH
Q psy14244 25 AYKCHQCQRLI 35 (226)
Q Consensus 25 ~~~C~~C~k~f 35 (226)
.|.|..|+..|
T Consensus 21 rf~C~tCpY~~ 31 (105)
T KOG2906|consen 21 RFSCRTCPYVF 31 (105)
T ss_pred eEEcCCCCcee
Confidence 34455555444
No 315
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=27.38 E-value=16 Score=27.16 Aligned_cols=10 Identities=30% Similarity=0.853 Sum_probs=5.1
Q ss_pred cccccCcccc
Q psy14244 72 YKCDTCEKSF 81 (226)
Q Consensus 72 ~~C~~C~~~f 81 (226)
|.|+.||...
T Consensus 29 f~C~~CGyr~ 38 (163)
T TIGR00340 29 YICEKCGYRS 38 (163)
T ss_pred EECCCCCCch
Confidence 4555555443
No 316
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=26.73 E-value=32 Score=18.63 Aligned_cols=24 Identities=21% Similarity=0.461 Sum_probs=10.9
Q ss_pred cCccchh--HH--HhhcCCCccccCccc
Q psy14244 27 KCHQCQR--LI--FLSANAGVHKCEYCH 50 (226)
Q Consensus 27 ~C~~C~k--~f--~~~~~~~~~~C~~C~ 50 (226)
.||.|+- .| ........+.|..|+
T Consensus 5 pCP~CGG~DrFr~~d~~g~G~~~C~~Cg 32 (37)
T smart00778 5 PCPNCGGSDRFRFDDKDGRGTWFCSVCG 32 (37)
T ss_pred CCCCCCCccccccccCCCCcCEEeCCCC
Confidence 4666653 12 222223345565554
No 317
>PF15616 TerY-C: TerY-C metal binding domain
Probab=26.73 E-value=25 Score=25.08 Aligned_cols=13 Identities=15% Similarity=0.296 Sum_probs=7.7
Q ss_pred CCCccCCCCcccc
Q psy14244 97 IRPFKCTTCDKSF 109 (226)
Q Consensus 97 ~k~~~C~~C~~~f 109 (226)
+....||.|+..-
T Consensus 103 ~~~~~CPwCg~~g 115 (131)
T PF15616_consen 103 EGEVTCPWCGNEG 115 (131)
T ss_pred CCCEECCCCCCee
Confidence 3456677776553
No 318
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=26.19 E-value=29 Score=20.61 Aligned_cols=9 Identities=0% Similarity=0.021 Sum_probs=4.5
Q ss_pred cCCCCcccc
Q psy14244 101 KCTTCDKSF 109 (226)
Q Consensus 101 ~C~~C~~~f 109 (226)
.|+.|+..+
T Consensus 37 ~cP~~~~~~ 45 (63)
T smart00504 37 TDPVTGQPL 45 (63)
T ss_pred CCCCCcCCC
Confidence 455555444
No 319
>PF12773 DZR: Double zinc ribbon
Probab=26.19 E-value=33 Score=19.48 Aligned_cols=9 Identities=22% Similarity=0.652 Sum_probs=4.3
Q ss_pred cccccCccc
Q psy14244 72 YKCDTCEKS 80 (226)
Q Consensus 72 ~~C~~C~~~ 80 (226)
..|+.|+..
T Consensus 30 ~~C~~Cg~~ 38 (50)
T PF12773_consen 30 KICPNCGAE 38 (50)
T ss_pred CCCcCCcCC
Confidence 345555543
No 320
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=25.71 E-value=28 Score=33.82 Aligned_cols=36 Identities=14% Similarity=0.439 Sum_probs=18.2
Q ss_pred cccccCccccCChhhHHHHHhHhcCCCCccCCCCccccc
Q psy14244 72 YKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFV 110 (226)
Q Consensus 72 ~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~ 110 (226)
-.|+.|.+.......+. ---..+-.|.|..|++.+.
T Consensus 797 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~ 832 (1006)
T PRK12775 797 ATCPKCHRPLEGDEEYV---CCATSELQWRCDDCGKVSE 832 (1006)
T ss_pred ccCcccCCCCCCCceeE---EecCcceeeehhhhccccc
Confidence 35666655443332221 1122344577888887765
No 321
>KOG4407|consensus
Probab=25.53 E-value=39 Score=33.56 Aligned_cols=9 Identities=0% Similarity=-0.274 Sum_probs=3.9
Q ss_pred CCCCCCCCC
Q psy14244 162 CGPEDIKPN 170 (226)
Q Consensus 162 ~~h~~~~~~ 170 (226)
.+|+.+..|
T Consensus 290 n~~~~~~~~ 298 (1973)
T KOG4407|consen 290 NTHHAPSLH 298 (1973)
T ss_pred CcCcccccc
Confidence 344444433
No 322
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=25.28 E-value=29 Score=28.71 Aligned_cols=32 Identities=19% Similarity=0.489 Sum_probs=20.1
Q ss_pred CCcccCccchhH-HHhhcCCCccccCccccccC
Q psy14244 23 DNAYKCHQCQRL-IFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 23 ~~~~~C~~C~k~-f~~~~~~~~~~C~~C~~~f~ 54 (226)
+++..||.||.. +-......-..|..||....
T Consensus 9 ~~~~~Cp~Cg~~~iv~d~~~Ge~vC~~CG~Vl~ 41 (310)
T PRK00423 9 EEKLVCPECGSDKLIYDYERGEIVCADCGLVIE 41 (310)
T ss_pred ccCCcCcCCCCCCeeEECCCCeEeecccCCccc
Confidence 566789999851 21122334567999998654
No 323
>KOG2071|consensus
Probab=24.93 E-value=27 Score=31.34 Aligned_cols=27 Identities=26% Similarity=0.405 Sum_probs=22.3
Q ss_pred CCCccCCcchhhhcChhhhhccCCCCC
Q psy14244 139 PKPYQCDRCSQFFGDRMNLISHQCGPE 165 (226)
Q Consensus 139 ~k~~~C~~C~~~f~~~~~L~~H~~~h~ 165 (226)
..|..|..||..|.+......||..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 457899999999999988888876553
No 324
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=24.89 E-value=50 Score=18.21 Aligned_cols=6 Identities=50% Similarity=1.320 Sum_probs=2.5
Q ss_pred cccccC
Q psy14244 72 YKCDTC 77 (226)
Q Consensus 72 ~~C~~C 77 (226)
..|++|
T Consensus 37 ~~CP~C 42 (44)
T PF14634_consen 37 VKCPIC 42 (44)
T ss_pred CCCcCC
Confidence 344444
No 325
>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=24.87 E-value=16 Score=20.86 Aligned_cols=12 Identities=25% Similarity=0.825 Sum_probs=5.7
Q ss_pred Cccccc--CccccC
Q psy14244 71 PYKCDT--CEKSFT 82 (226)
Q Consensus 71 ~~~C~~--C~~~f~ 82 (226)
.+.|.. ||..|.
T Consensus 25 Y~qC~N~~Cg~tfv 38 (47)
T PF04606_consen 25 YCQCTNPECGHTFV 38 (47)
T ss_pred EEEECCCcCCCEEE
Confidence 344543 555554
No 326
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=24.72 E-value=30 Score=25.52 Aligned_cols=27 Identities=26% Similarity=0.673 Sum_probs=18.9
Q ss_pred ccCccchhHHHhhcCCCccccCcccccc
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
..|+.|++..... ....|.|+.|+...
T Consensus 35 ~aC~~C~kkv~~~-~~~~~~C~~C~~~~ 61 (166)
T cd04476 35 PACPGCNKKVVEE-GNGTYRCEKCNKSV 61 (166)
T ss_pred ccccccCcccEeC-CCCcEECCCCCCcC
Confidence 3488898865432 22678899998876
No 327
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=24.67 E-value=32 Score=28.27 Aligned_cols=14 Identities=29% Similarity=0.664 Sum_probs=8.0
Q ss_pred CCcccccCccccCC
Q psy14244 70 RPYKCDTCEKSFTN 83 (226)
Q Consensus 70 ~~~~C~~C~~~f~~ 83 (226)
+.|.|+.||..+..
T Consensus 321 r~~~C~~cg~~~~r 334 (364)
T COG0675 321 RLFKCPRCGFVHDR 334 (364)
T ss_pred eeEECCCCCCeehh
Confidence 44666666655433
No 328
>PRK07591 threonine synthase; Validated
Probab=24.54 E-value=26 Score=30.38 Aligned_cols=27 Identities=33% Similarity=0.643 Sum_probs=20.1
Q ss_pred cccCccchhHHHhhcCCCccccCccccccC
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
.++|..||+.|... .. +.|+.||-.+.
T Consensus 18 ~l~C~~Cg~~~~~~--~~-~~C~~cg~~l~ 44 (421)
T PRK07591 18 ALKCRECGAEYPLG--PI-HVCEECFGPLE 44 (421)
T ss_pred EEEeCCCCCcCCCC--CC-ccCCCCCCeEE
Confidence 48899999988754 22 88999975543
No 329
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=24.54 E-value=17 Score=30.48 Aligned_cols=13 Identities=23% Similarity=0.416 Sum_probs=6.3
Q ss_pred ccccCccccccCC
Q psy14244 43 VHKCEYCHKVFDQ 55 (226)
Q Consensus 43 ~~~C~~C~~~f~~ 55 (226)
-|+|..|++...+
T Consensus 285 FFkC~~C~~Rt~s 297 (344)
T PF09332_consen 285 FFKCKDCGNRTIS 297 (344)
T ss_dssp EEE-T-TS-EEEE
T ss_pred eEECCCCCCeeee
Confidence 3578888877543
No 330
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=24.51 E-value=35 Score=22.83 Aligned_cols=13 Identities=46% Similarity=1.099 Sum_probs=5.8
Q ss_pred cccccCccccCCh
Q psy14244 72 YKCDTCEKSFTNS 84 (226)
Q Consensus 72 ~~C~~C~~~f~~~ 84 (226)
|-|+.|.+.|.+-
T Consensus 38 FCCd~ca~EF~nm 50 (105)
T PF11494_consen 38 FCCDDCAKEFKNM 50 (105)
T ss_dssp SS--SSSS-TTS-
T ss_pred EEcHHHHHHHHHH
Confidence 4556777777654
No 331
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.44 E-value=42 Score=27.37 Aligned_cols=14 Identities=14% Similarity=0.489 Sum_probs=10.8
Q ss_pred CCccCCcchhhhcC
Q psy14244 140 KPYQCDRCSQFFGD 153 (226)
Q Consensus 140 k~~~C~~C~~~f~~ 153 (226)
..|.|+.|.-.|-.
T Consensus 254 ~GyvCs~Clsi~C~ 267 (279)
T TIGR00627 254 IGFVCSVCLSVLCQ 267 (279)
T ss_pred ceEECCCccCCcCC
Confidence 45888888888873
No 332
>PRK06450 threonine synthase; Validated
Probab=24.36 E-value=31 Score=28.93 Aligned_cols=26 Identities=19% Similarity=0.393 Sum_probs=18.6
Q ss_pred ccCccchhHHHhhcCCCccccCccccccC
Q psy14244 26 YKCHQCQRLIFLSANAGVHKCEYCHKVFD 54 (226)
Q Consensus 26 ~~C~~C~k~f~~~~~~~~~~C~~C~~~f~ 54 (226)
++|..||+.|.. ...+.|+.||-.+.
T Consensus 4 ~~C~~Cg~~~~~---~~~~~C~~cg~~l~ 29 (338)
T PRK06450 4 EVCMKCGKERES---IYEIRCKKCGGPFE 29 (338)
T ss_pred eEECCcCCcCCC---cccccCCcCCCEeE
Confidence 789999988743 33478999975443
No 333
>PF08646 Rep_fac-A_C: Replication factor-A C terminal domain; InterPro: IPR013955 Replication factor A (RP-A) binds and subsequently stabilises single-stranded DNA intermediates and thus prevents complementary DNA from reannealing. It also plays an essential role in several cellular processes in DNA metabolism including replication, recombination and repair of DNA []. Replication factor-A protein is also known as Replication protein A 70 kDa DNA-binding subunit. This entry is found at the C terminus of Replication factor A.; PDB: 1L1O_F 3U50_C.
Probab=24.15 E-value=23 Score=25.50 Aligned_cols=28 Identities=25% Similarity=0.737 Sum_probs=18.4
Q ss_pred cCc--cchhHHHhhcCCCccccCccccccCC
Q psy14244 27 KCH--QCQRLIFLSANAGVHKCEYCHKVFDQ 55 (226)
Q Consensus 27 ~C~--~C~k~f~~~~~~~~~~C~~C~~~f~~ 55 (226)
.|+ .|++..... +-..|.|+.|+.....
T Consensus 20 aC~~~~C~kKv~~~-~~~~y~C~~C~~~~~~ 49 (146)
T PF08646_consen 20 ACPNEKCNKKVTEN-GDGSYRCEKCNKTVEN 49 (146)
T ss_dssp E-TSTTTS-B-EEE-TTTEEEETTTTEEESS
T ss_pred CCCCccCCCEeecC-CCcEEECCCCCCcCCC
Confidence 489 999875554 4467999999988643
No 334
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.05 E-value=29 Score=22.26 Aligned_cols=33 Identities=18% Similarity=0.447 Sum_probs=14.5
Q ss_pred CccchhHH--HhhcCCCccccCccccccCChhHHh
Q psy14244 28 CHQCQRLI--FLSANAGVHKCEYCHKVFDQQSSLL 60 (226)
Q Consensus 28 C~~C~k~f--~~~~~~~~~~C~~C~~~f~~~~~l~ 60 (226)
||+|+... ...++...--|+.|+-...+...|.
T Consensus 4 CP~C~v~l~~~~rs~vEiD~CPrCrGVWLDrGELd 38 (88)
T COG3809 4 CPICGVELVMSVRSGVEIDYCPRCRGVWLDRGELD 38 (88)
T ss_pred cCcCCceeeeeeecCceeeeCCccccEeecchhHH
Confidence 55555332 2223333344555555555444443
No 335
>PRK06260 threonine synthase; Validated
Probab=23.92 E-value=42 Score=28.78 Aligned_cols=11 Identities=36% Similarity=1.005 Sum_probs=7.0
Q ss_pred ccCCCCccccc
Q psy14244 100 FKCTTCDKSFV 110 (226)
Q Consensus 100 ~~C~~C~~~f~ 110 (226)
++|..||+.|.
T Consensus 4 ~~C~~cg~~~~ 14 (397)
T PRK06260 4 LKCIECGKEYD 14 (397)
T ss_pred EEECCCCCCCC
Confidence 56666766664
No 336
>PHA02942 putative transposase; Provisional
Probab=23.83 E-value=33 Score=29.30 Aligned_cols=28 Identities=18% Similarity=0.536 Sum_probs=18.8
Q ss_pred ccCccccccCChhHHhhccCCCCCCCCcccccCccccCC
Q psy14244 45 KCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEKSFTN 83 (226)
Q Consensus 45 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 83 (226)
.|+.||..-.. ...+.|.|+.||.....
T Consensus 327 ~Cs~CG~~~~~-----------l~~r~f~C~~CG~~~dr 354 (383)
T PHA02942 327 SCPKCGHKMVE-----------IAHRYFHCPSCGYENDR 354 (383)
T ss_pred cCCCCCCccCc-----------CCCCEEECCCCCCEeCc
Confidence 59999865321 12457999999987644
No 337
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=23.53 E-value=39 Score=19.92 Aligned_cols=27 Identities=22% Similarity=0.711 Sum_probs=16.5
Q ss_pred cccCccchhHHHhhcCCC--ccccCcccc
Q psy14244 25 AYKCHQCQRLIFLSANAG--VHKCEYCHK 51 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~--~~~C~~C~~ 51 (226)
..+|..|++.....+... .-+|+.|..
T Consensus 4 tiRC~~CnKlLa~a~~~~yle~KCPrCK~ 32 (60)
T COG4416 4 TIRCAKCNKLLAEAEGQAYLEKKCPRCKE 32 (60)
T ss_pred eeehHHHhHHHHhcccceeeeecCCccce
Confidence 467888888765544332 336777754
No 338
>KOG1813|consensus
Probab=23.18 E-value=55 Score=26.77 Aligned_cols=15 Identities=20% Similarity=0.682 Sum_probs=9.6
Q ss_pred CCcccCccchhHHHh
Q psy14244 23 DNAYKCHQCQRLIFL 37 (226)
Q Consensus 23 ~~~~~C~~C~k~f~~ 37 (226)
.-||.|.+|.+.|..
T Consensus 239 ~~Pf~c~icr~~f~~ 253 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYR 253 (313)
T ss_pred cCCcccccccccccc
Confidence 356777777766543
No 339
>KOG2807|consensus
Probab=23.17 E-value=82 Score=26.22 Aligned_cols=25 Identities=20% Similarity=0.521 Sum_probs=18.9
Q ss_pred CCccCCcchhhhcChhhhhccCCCC
Q psy14244 140 KPYQCDRCSQFFGDRMNLISHQCGP 164 (226)
Q Consensus 140 k~~~C~~C~~~f~~~~~L~~H~~~h 164 (226)
..|.|+.|...|-..-+...|...|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 4688999988888777777775544
No 340
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=23.12 E-value=36 Score=20.11 Aligned_cols=10 Identities=30% Similarity=0.664 Sum_probs=5.3
Q ss_pred cccCccchhH
Q psy14244 25 AYKCHQCQRL 34 (226)
Q Consensus 25 ~~~C~~C~k~ 34 (226)
+..|..|...
T Consensus 22 aLIC~~C~~h 31 (54)
T PF10058_consen 22 ALICSKCFSH 31 (54)
T ss_pred eEECcccchh
Confidence 4556666543
No 341
>PRK12860 transcriptional activator FlhC; Provisional
Probab=23.12 E-value=57 Score=24.91 Aligned_cols=28 Identities=25% Similarity=0.587 Sum_probs=15.7
Q ss_pred CcccccCccccCChhhHHHHHhHhcCCCCccCCCCc
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCD 106 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~ 106 (226)
.-.|..||-.|.... +.....|.|+.|.
T Consensus 134 l~~C~~Cgg~fv~~~--------~e~~~~f~CplC~ 161 (189)
T PRK12860 134 LARCCRCGGKFVTHA--------HDLRHNFVCGLCQ 161 (189)
T ss_pred eccCCCCCCCeeccc--------cccCCCCcCCCCC
Confidence 346777776664321 1233457777776
No 342
>PRK01343 zinc-binding protein; Provisional
Probab=23.07 E-value=50 Score=19.82 Aligned_cols=26 Identities=15% Similarity=0.264 Sum_probs=17.4
Q ss_pred CccCCcchhhhcChhhhhccCCCCCCCCCCcccchhhh
Q psy14244 141 PYQCDRCSQFFGDRMNLISHQCGPEDIKPNVDNLQTQI 178 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~c~~~~~~ 178 (226)
...|++|++.+.. ...||-...|..+
T Consensus 9 ~~~CP~C~k~~~~------------~~rPFCS~RC~~i 34 (57)
T PRK01343 9 TRPCPECGKPSTR------------EAYPFCSERCRDI 34 (57)
T ss_pred CCcCCCCCCcCcC------------CCCcccCHHHhhh
Confidence 4679999998753 2356666666543
No 343
>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=22.80 E-value=30 Score=18.20 Aligned_cols=12 Identities=17% Similarity=0.700 Sum_probs=8.6
Q ss_pred CccCCCCccccc
Q psy14244 99 PFKCTTCDKSFV 110 (226)
Q Consensus 99 ~~~C~~C~~~f~ 110 (226)
.+.|+.|++...
T Consensus 4 ~~~C~nC~R~v~ 15 (33)
T PF08209_consen 4 YVECPNCGRPVA 15 (33)
T ss_dssp EEE-TTTSSEEE
T ss_pred eEECCCCcCCcc
Confidence 368899998876
No 344
>KOG2636|consensus
Probab=22.72 E-value=55 Score=28.43 Aligned_cols=28 Identities=14% Similarity=0.360 Sum_probs=22.3
Q ss_pred CCCCCCcccccCc-cccCChhhHHHHHhH
Q psy14244 66 QMKPRPYKCDTCE-KSFTNSQNLNTHQLI 93 (226)
Q Consensus 66 h~~~~~~~C~~C~-~~f~~~~~l~~H~~~ 93 (226)
|--...|.|.+|| .++.....+.+|...
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF~E 424 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHFNE 424 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHhHH
Confidence 3344569999999 888899999999764
No 345
>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=22.59 E-value=31 Score=18.58 Aligned_cols=13 Identities=23% Similarity=0.861 Sum_probs=7.5
Q ss_pred CCCccCCcchhhh
Q psy14244 139 PKPYQCDRCSQFF 151 (226)
Q Consensus 139 ~k~~~C~~C~~~f 151 (226)
.+.|+|..||...
T Consensus 4 ~~~YkC~~CGniV 16 (36)
T PF06397_consen 4 GEFYKCEHCGNIV 16 (36)
T ss_dssp TEEEE-TTT--EE
T ss_pred ccEEEccCCCCEE
Confidence 3569999999765
No 346
>cd01411 SIR2H SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=22.47 E-value=54 Score=25.65 Aligned_cols=7 Identities=14% Similarity=0.287 Sum_probs=3.8
Q ss_pred ccccCcc
Q psy14244 73 KCDTCEK 79 (226)
Q Consensus 73 ~C~~C~~ 79 (226)
.|+.|+.
T Consensus 138 ~C~~Cgg 144 (225)
T cd01411 138 YHAKCGG 144 (225)
T ss_pred CCCCCCC
Confidence 4666653
No 347
>PF13005 zf-IS66: zinc-finger binding domain of transposase IS66 ; InterPro: IPR024474 This entry represents a predicted helix-turn-helix domain from insertion element IS66 transposases [].
Probab=22.34 E-value=25 Score=19.69 Aligned_cols=7 Identities=43% Similarity=1.350 Sum_probs=3.7
Q ss_pred cccccCc
Q psy14244 72 YKCDTCE 78 (226)
Q Consensus 72 ~~C~~C~ 78 (226)
|.|+.|+
T Consensus 41 y~C~~C~ 47 (47)
T PF13005_consen 41 YACPCCG 47 (47)
T ss_pred EECCCCC
Confidence 5555553
No 348
>PF05766 NinG: Bacteriophage Lambda NinG protein; InterPro: IPR008713 The ninR region of phage lambda contains two recombination genes, ninB (also known as orf) and ninG (also known as rap). These genes are involved in the RecF and RecBCD recombination pathways of Escherichia coli that operate on phage lambda [, ]. NinB and NinG participate in Red recombination, the primary pathway operating when wild-type lambda grows lytically in rec+ cells [].
Probab=22.31 E-value=26 Score=26.70 Aligned_cols=30 Identities=13% Similarity=0.251 Sum_probs=21.8
Q ss_pred CcccCccchhHHHhhcCCCccccCcccccc
Q psy14244 24 NAYKCHQCQRLIFLSANAGVHKCEYCHKVF 53 (226)
Q Consensus 24 ~~~~C~~C~k~f~~~~~~~~~~C~~C~~~f 53 (226)
++-+|.+||..|.-..+...+=|+.|+...
T Consensus 5 k~rKCKvCg~~F~P~~s~q~vCSpeCa~a~ 34 (189)
T PF05766_consen 5 KRRKCKVCGEWFVPARSNQKVCSPECAIAL 34 (189)
T ss_pred CCCcCcccCCccccCCCceeeeCHHHHhHH
Confidence 567888998888776666666667788543
No 349
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=22.27 E-value=26 Score=20.92 Aligned_cols=45 Identities=22% Similarity=0.387 Sum_probs=23.6
Q ss_pred CCCcccccCccccCChhhHHHHHhHhcCCCCccCCCCcccccccCCCCCCCCCCCCCccccccccccCCCCCCccCCc
Q psy14244 69 PRPYKCDTCEKSFTNSQNLNTHQLIHSGIRPFKCTTCDKSFVNQINPTSTHTPTYTKSNLAQHSCMNSHFPKPYQCDR 146 (226)
Q Consensus 69 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~k~~~C~~C~~~f~~~~~~~~~~~~~~~~~~l~~H~~~~~~~~k~~~C~~ 146 (226)
...+.|++....| +.|+....|+..|. +..+...+ ...+...|++
T Consensus 9 ~~~~~CPiT~~~~---------------~~PV~s~~C~H~fe--------------k~aI~~~i----~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPF---------------EDPVKSKKCGHTFE--------------KEAILQYI----QRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB----------------SSEEEESSS--EEE--------------HHHHHHHC----TTTS-EE-SC
T ss_pred EeccCCCCcCChh---------------hCCcCcCCCCCeec--------------HHHHHHHH----HhcCCCCCCC
Confidence 3456777655543 35677778998887 55666665 2356678887
No 350
>KOG2461|consensus
Probab=22.23 E-value=1.1e+02 Score=26.36 Aligned_cols=20 Identities=5% Similarity=-0.278 Sum_probs=8.2
Q ss_pred HHHhHhcCCCCccCCCCccc
Q psy14244 89 THQLIHSGIRPFKCTTCDKS 108 (226)
Q Consensus 89 ~H~~~h~~~k~~~C~~C~~~ 108 (226)
.+...+++..+..++.+.+.
T Consensus 321 ~~~~~~~~~~~~~~~~~~~~ 340 (396)
T KOG2461|consen 321 QSEVPATVSVWTGETIPVRT 340 (396)
T ss_pred cccccccccccCcCcccccc
Confidence 33444444444444443333
No 351
>PRK07218 replication factor A; Provisional
Probab=22.07 E-value=35 Score=29.63 Aligned_cols=43 Identities=16% Similarity=0.234 Sum_probs=24.2
Q ss_pred cccCccchhHHHhhcCCCccccCccccccCChhHHhhccCCCCCCCCccc
Q psy14244 25 AYKCHQCQRLIFLSANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKC 74 (226)
Q Consensus 25 ~~~C~~C~k~f~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C 74 (226)
-.+||.|++.. ..+.|+.||+.= ....|..-...--|.....|
T Consensus 297 i~rCP~C~r~v------~~~~C~~hG~ve-~~~dlrik~vLDDGtg~~~~ 339 (423)
T PRK07218 297 IERCPECGRVI------QKGQCRSHGAVE-GEDDLRIKAILDDGTGSVTV 339 (423)
T ss_pred eecCcCccccc------cCCcCCCCCCcC-CeeeeEEEEEEECCCCeEEE
Confidence 46788888765 336788888762 22333333333344455555
No 352
>PLN02748 tRNA dimethylallyltransferase
Probab=21.89 E-value=36 Score=29.96 Aligned_cols=26 Identities=19% Similarity=0.452 Sum_probs=21.9
Q ss_pred CCCccCCcchh-hhcChhhhhccCCCC
Q psy14244 139 PKPYQCDRCSQ-FFGDRMNLISHQCGP 164 (226)
Q Consensus 139 ~k~~~C~~C~~-~f~~~~~L~~H~~~h 164 (226)
-+.|.|++|++ ++.....+..|+++.
T Consensus 416 ~~~~~Ce~C~~~~~~G~~eW~~Hlksr 442 (468)
T PLN02748 416 WTQYVCEACGNKVLRGAHEWEQHKQGR 442 (468)
T ss_pred cccccccCCCCcccCCHHHHHHHhcch
Confidence 36789999997 899999999998764
No 353
>KOG0696|consensus
Probab=21.85 E-value=36 Score=29.63 Aligned_cols=57 Identities=18% Similarity=0.327 Sum_probs=31.5
Q ss_pred CCCcccCccchhHHHhhc-CCCccccCccccccCChhHHhhc-cCCCCCCCCcccccCc
Q psy14244 22 NDNAYKCHQCQRLIFLSA-NAGVHKCEYCHKVFDQQSSLLSH-NCPQMKPRPYKCDTCE 78 (226)
Q Consensus 22 ~~~~~~C~~C~k~f~~~~-~~~~~~C~~C~~~f~~~~~l~~H-~~~h~~~~~~~C~~C~ 78 (226)
|+.-|.|.+|......+- .+-.|.|+--++.+.+-..-..| -++|+-..|--|+.||
T Consensus 70 gKQGfQCqvC~fvvHkrChefVtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCG 128 (683)
T KOG0696|consen 70 GKQGFQCQVCCFVVHKRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCG 128 (683)
T ss_pred ccCceeeeEEeehhhhhhcceEEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHH
Confidence 344455666654443332 23356677777776666555555 3455555666666666
No 354
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=21.83 E-value=42 Score=19.98 Aligned_cols=6 Identities=33% Similarity=0.982 Sum_probs=3.1
Q ss_pred cCccch
Q psy14244 27 KCHQCQ 32 (226)
Q Consensus 27 ~C~~C~ 32 (226)
.||.||
T Consensus 5 PCPFCG 10 (61)
T PF14354_consen 5 PCPFCG 10 (61)
T ss_pred CCCCCC
Confidence 455554
No 355
>PTZ00448 hypothetical protein; Provisional
Probab=21.66 E-value=64 Score=27.34 Aligned_cols=23 Identities=13% Similarity=0.352 Sum_probs=21.2
Q ss_pred CcccccCccccCChhhHHHHHhH
Q psy14244 71 PYKCDTCEKSFTNSQNLNTHQLI 93 (226)
Q Consensus 71 ~~~C~~C~~~f~~~~~l~~H~~~ 93 (226)
.|.|..|+-.|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 58899999999999999999987
No 356
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=21.61 E-value=21 Score=26.40 Aligned_cols=10 Identities=20% Similarity=0.850 Sum_probs=5.4
Q ss_pred cccccCcccc
Q psy14244 72 YKCDTCEKSF 81 (226)
Q Consensus 72 ~~C~~C~~~f 81 (226)
|.|+.||...
T Consensus 30 f~C~~CGyk~ 39 (160)
T smart00709 30 FECEHCGYRN 39 (160)
T ss_pred EECCCCCCcc
Confidence 4555555443
No 357
>PRK08402 replication factor A; Reviewed
Probab=21.51 E-value=30 Score=29.25 Aligned_cols=25 Identities=16% Similarity=0.414 Sum_probs=17.6
Q ss_pred cCccchhHHHhhcCCCccccCcccc
Q psy14244 27 KCHQCQRLIFLSANAGVHKCEYCHK 51 (226)
Q Consensus 27 ~C~~C~k~f~~~~~~~~~~C~~C~~ 51 (226)
.|+.|+|.+.....-..|.|+.||.
T Consensus 214 aCp~CnKkv~~~~~~~~~~Ce~~~~ 238 (355)
T PRK08402 214 ACPECRRKVDYDPATDTWICPEHGE 238 (355)
T ss_pred cCCCCCeEEEEecCCCCEeCCCCCC
Confidence 5888888766445556778888875
No 358
>PTZ00448 hypothetical protein; Provisional
Probab=21.08 E-value=37 Score=28.66 Aligned_cols=23 Identities=17% Similarity=0.316 Sum_probs=20.7
Q ss_pred CccCCcchhhhcChhhhhccCCC
Q psy14244 141 PYQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 141 ~~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 68899999999999999999875
No 359
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=21.03 E-value=44 Score=23.16 Aligned_cols=19 Identities=11% Similarity=0.485 Sum_probs=11.4
Q ss_pred CCcccccCccccCChhhHH
Q psy14244 70 RPYKCDTCEKSFTNSQNLN 88 (226)
Q Consensus 70 ~~~~C~~C~~~f~~~~~l~ 88 (226)
..+.|+.||..+.+.....
T Consensus 30 ~~~~C~~CGe~~~~~e~~~ 48 (127)
T TIGR03830 30 PGWYCPACGEELLDPEESK 48 (127)
T ss_pred eeeECCCCCCEEEcHHHHH
Confidence 3456777777666655443
No 360
>PF01844 HNH: HNH endonuclease; InterPro: IPR002711 HNH endonuclease is found in bacteria and viruses [, , ]. This family includes pyocins, colicins and anaredoxins.; GO: 0003676 nucleic acid binding, 0004519 endonuclease activity; PDB: 2QGP_C.
Probab=20.65 E-value=35 Score=18.81 Aligned_cols=18 Identities=28% Similarity=0.506 Sum_probs=8.4
Q ss_pred CCcchhhhcChhhhhccC
Q psy14244 144 CDRCSQFFGDRMNLISHQ 161 (226)
Q Consensus 144 C~~C~~~f~~~~~L~~H~ 161 (226)
|.+||+.|.....+..|-
T Consensus 1 C~~C~~~~~~~~~~~v~H 18 (47)
T PF01844_consen 1 CQYCGKPGSDNESLHVHH 18 (47)
T ss_dssp -TTT--B--GG-GEEEEE
T ss_pred CCCCCCcCccCcceEeEC
Confidence 789999988776665553
No 361
>KOG1701|consensus
Probab=20.59 E-value=27 Score=29.98 Aligned_cols=84 Identities=18% Similarity=0.423 Sum_probs=43.1
Q ss_pred cCccchhHHHhhc--------CCCccccCccccccCChhHHhh--ccCCCC-----CCCCcccccCccccCChhhHHHHH
Q psy14244 27 KCHQCQRLIFLSA--------NAGVHKCEYCHKVFDQQSSLLS--HNCPQM-----KPRPYKCDTCEKSFTNSQNLNTHQ 91 (226)
Q Consensus 27 ~C~~C~k~f~~~~--------~~~~~~C~~C~~~f~~~~~l~~--H~~~h~-----~~~~~~C~~C~~~f~~~~~l~~H~ 91 (226)
+|..||....++- ...-|+|-+|.+...... |.. --.+|. ..-.-+|.+|+.-..-...-..-+
T Consensus 336 kC~~Cg~~I~d~iLrA~GkayHp~CF~Cv~C~r~ldgip-Ftvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etv 414 (468)
T KOG1701|consen 336 KCNKCGEPIMDRILRALGKAYHPGCFTCVVCARCLDGIP-FTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETV 414 (468)
T ss_pred HHhhhhhHHHHHHHHhcccccCCCceEEEEeccccCCcc-ccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceE
Confidence 4778887664431 112467888777655432 111 111221 122347888887654433322223
Q ss_pred hHhcC-----CCCccCCCCcccccc
Q psy14244 92 LIHSG-----IRPFKCTTCDKSFVN 111 (226)
Q Consensus 92 ~~h~~-----~k~~~C~~C~~~f~~ 111 (226)
|+-.- +.-|.|..|+.-.+.
T Consensus 415 Rvvamdr~fHv~CY~CEDCg~~LS~ 439 (468)
T KOG1701|consen 415 RVVAMDRDFHVNCYKCEDCGLLLSS 439 (468)
T ss_pred EEEEccccccccceehhhcCccccc
Confidence 33222 234889999987763
No 362
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.57 E-value=25 Score=20.20 Aligned_cols=16 Identities=25% Similarity=0.441 Sum_probs=12.8
Q ss_pred cCCcchhhhcChhhhh
Q psy14244 143 QCDRCSQFFGDRMNLI 158 (226)
Q Consensus 143 ~C~~C~~~f~~~~~L~ 158 (226)
.|++|++.|+....+.
T Consensus 14 ICpvCqRPFsWRkKW~ 29 (54)
T COG4338 14 ICPVCQRPFSWRKKWA 29 (54)
T ss_pred hhhhhcCchHHHHHHH
Confidence 6999999998875543
No 363
>PRK12722 transcriptional activator FlhC; Provisional
Probab=20.57 E-value=41 Score=25.59 Aligned_cols=33 Identities=15% Similarity=0.451 Sum_probs=22.0
Q ss_pred cCCCccccCccccccCChhHHhhccCCCCCCCCcccccCcc
Q psy14244 39 ANAGVHKCEYCHKVFDQQSSLLSHNCPQMKPRPYKCDTCEK 79 (226)
Q Consensus 39 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 79 (226)
.-+....|..||-.|.... +.....|.|+.|.-
T Consensus 130 ~~L~l~~C~~Cgg~fv~~~--------~e~~~~f~CplC~~ 162 (187)
T PRK12722 130 GMLQLSSCNCCGGHFVTHA--------HDPVGSFVCGLCQP 162 (187)
T ss_pred CcEeeccCCCCCCCeeccc--------cccCCCCcCCCCCC
Confidence 3455678999998886322 12234789999964
No 364
>KOG0717|consensus
Probab=20.34 E-value=27 Score=30.38 Aligned_cols=22 Identities=23% Similarity=0.474 Sum_probs=20.0
Q ss_pred ccCCcchhhhcChhhhhccCCC
Q psy14244 142 YQCDRCSQFFGDRMNLISHQCG 163 (226)
Q Consensus 142 ~~C~~C~~~f~~~~~L~~H~~~ 163 (226)
+-|.+|+++|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999754
Done!