Query psy16578
Match_columns 177
No_of_seqs 131 out of 1126
Neff 11.0
Searched_HMMs 46136
Date Fri Aug 16 16:34:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16578.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16578hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 5.4E-28 1.2E-32 164.3 7.0 129 45-174 126-265 (279)
2 KOG2462|consensus 99.8 9.5E-22 2.1E-26 134.0 4.2 98 78-176 130-239 (279)
3 KOG3576|consensus 99.8 2.1E-20 4.6E-25 122.0 4.0 113 46-176 114-236 (267)
4 KOG1074|consensus 99.8 5.4E-20 1.2E-24 141.3 4.0 57 48-105 352-408 (958)
5 KOG3623|consensus 99.7 7.2E-19 1.6E-23 133.6 4.0 121 48-173 209-330 (1007)
6 KOG1074|consensus 99.7 6.1E-18 1.3E-22 130.2 5.7 52 124-176 880-931 (958)
7 KOG3608|consensus 99.7 1.5E-17 3.2E-22 117.1 5.5 107 49-176 237-345 (467)
8 KOG3608|consensus 99.7 9.5E-17 2.1E-21 113.1 7.0 112 48-177 262-377 (467)
9 KOG3623|consensus 99.6 3E-17 6.6E-22 124.9 1.5 78 78-173 894-971 (1007)
10 KOG3576|consensus 99.6 1.2E-16 2.5E-21 104.6 1.0 82 78-177 117-198 (267)
11 KOG3993|consensus 99.5 1.8E-14 3.9E-19 103.8 1.4 130 46-176 264-482 (500)
12 PHA00733 hypothetical protein 99.4 5.7E-13 1.2E-17 83.7 4.0 84 77-177 39-124 (128)
13 PLN03086 PRLI-interacting fact 99.4 2E-12 4.4E-17 98.5 7.4 104 47-176 451-564 (567)
14 PHA00733 hypothetical protein 99.2 1.5E-11 3.3E-16 77.3 4.0 85 45-148 36-124 (128)
15 PHA02768 hypothetical protein; 99.2 7.7E-12 1.7E-16 65.4 2.0 44 123-169 5-48 (55)
16 PHA02768 hypothetical protein; 99.0 1.2E-10 2.7E-15 60.9 1.7 43 50-95 6-48 (55)
17 PLN03086 PRLI-interacting fact 98.9 1.1E-09 2.4E-14 83.9 4.5 103 49-175 407-537 (567)
18 PF13465 zf-H2C2_2: Zinc-finge 98.9 9.2E-10 2E-14 49.4 1.9 26 138-164 1-26 (26)
19 PF05605 zf-Di19: Drought indu 98.8 8.2E-09 1.8E-13 55.1 4.4 52 123-177 2-54 (54)
20 KOG3993|consensus 98.8 1.1E-09 2.4E-14 79.6 0.2 81 79-176 268-380 (500)
21 PHA00732 hypothetical protein 98.8 5.3E-09 1.1E-13 59.9 2.5 46 123-175 1-47 (79)
22 PHA00616 hypothetical protein 98.6 1.4E-08 3E-13 50.7 1.6 26 152-177 1-26 (44)
23 PF05605 zf-Di19: Drought indu 98.6 7.2E-08 1.6E-12 51.4 4.3 52 79-148 3-54 (54)
24 PF13465 zf-H2C2_2: Zinc-finge 98.6 3.7E-08 7.9E-13 44.2 2.5 26 64-90 1-26 (26)
25 PHA00616 hypothetical protein 98.6 2.5E-08 5.5E-13 49.8 1.6 35 123-158 1-35 (44)
26 PHA00732 hypothetical protein 98.6 3.7E-08 8E-13 56.5 2.4 49 49-103 1-49 (79)
27 PF00096 zf-C2H2: Zinc finger, 98.5 6.3E-08 1.4E-12 42.2 1.4 22 153-174 1-22 (23)
28 PF13894 zf-C2H2_4: C2H2-type 98.4 1.2E-07 2.5E-12 41.7 1.7 24 153-176 1-24 (24)
29 PF12756 zf-C2H2_2: C2H2 type 98.4 1.9E-07 4.2E-12 56.4 2.0 67 80-146 1-73 (100)
30 PF00096 zf-C2H2: Zinc finger, 98.3 6.2E-07 1.3E-11 38.9 2.3 23 124-146 1-23 (23)
31 PF13912 zf-C2H2_6: C2H2-type 98.3 3.9E-07 8.4E-12 41.3 1.4 25 152-176 1-25 (27)
32 PF12756 zf-C2H2_2: C2H2 type 98.2 1.6E-06 3.4E-11 52.4 2.8 51 51-101 1-73 (100)
33 PF13909 zf-H2C2_5: C2H2-type 98.1 2.1E-06 4.6E-11 37.6 1.6 24 153-177 1-24 (24)
34 PF13894 zf-C2H2_4: C2H2-type 98.1 4.2E-06 9.2E-11 36.5 2.5 24 124-147 1-24 (24)
35 PF09237 GAGA: GAGA factor; I 98.0 2.1E-06 4.7E-11 43.8 1.0 32 145-176 17-48 (54)
36 PF13912 zf-C2H2_6: C2H2-type 98.0 4.4E-06 9.5E-11 37.7 1.8 26 123-148 1-26 (27)
37 smart00355 ZnF_C2H2 zinc finge 97.8 1.8E-05 3.9E-10 35.0 2.0 23 153-175 1-23 (26)
38 COG5189 SFP1 Putative transcri 97.8 1.2E-05 2.6E-10 57.1 1.9 67 77-143 348-418 (423)
39 PF09237 GAGA: GAGA factor; I 97.7 2.7E-05 5.9E-10 39.8 1.7 32 72-103 18-49 (54)
40 PF12874 zf-met: Zinc-finger o 97.6 2.6E-05 5.6E-10 34.4 1.2 23 153-175 1-23 (25)
41 KOG2231|consensus 97.5 0.0002 4.3E-09 56.5 5.6 107 50-176 100-236 (669)
42 KOG1146|consensus 97.5 6.4E-05 1.4E-09 62.7 2.9 124 51-174 438-611 (1406)
43 COG5189 SFP1 Putative transcri 97.5 4E-05 8.7E-10 54.5 0.9 53 121-173 347-419 (423)
44 smart00355 ZnF_C2H2 zinc finge 97.4 0.00015 3.3E-09 31.9 2.2 24 124-147 1-24 (26)
45 PF12171 zf-C2H2_jaz: Zinc-fin 97.4 5.2E-05 1.1E-09 34.1 0.6 22 153-174 2-23 (27)
46 PF13909 zf-H2C2_5: C2H2-type 97.4 0.00021 4.6E-09 31.1 2.5 24 124-148 1-24 (24)
47 PRK04860 hypothetical protein; 97.3 0.0005 1.1E-08 45.1 4.8 40 122-166 118-157 (160)
48 PF12874 zf-met: Zinc-finger o 97.2 0.00027 5.9E-09 31.0 1.8 23 124-146 1-23 (25)
49 COG5236 Uncharacterized conser 96.9 0.0014 3.1E-08 47.5 4.1 101 50-175 152-274 (493)
50 KOG2785|consensus 96.9 0.0016 3.6E-08 47.7 4.0 53 122-174 165-242 (390)
51 KOG2893|consensus 96.7 0.00039 8.5E-09 47.7 -0.1 50 120-175 8-57 (341)
52 PF12171 zf-C2H2_jaz: Zinc-fin 96.7 0.00052 1.1E-08 30.8 0.2 21 79-99 2-22 (27)
53 PF13913 zf-C2HC_2: zinc-finge 96.5 0.0022 4.9E-08 28.1 1.9 21 153-174 3-23 (25)
54 KOG1146|consensus 96.5 0.00095 2.1E-08 56.1 0.9 54 121-174 463-540 (1406)
55 PRK04860 hypothetical protein; 96.5 0.0022 4.9E-08 42.0 2.5 39 48-91 118-156 (160)
56 PF12013 DUF3505: Protein of u 96.4 0.017 3.7E-07 35.5 5.7 25 153-177 81-109 (109)
57 PF12013 DUF3505: Protein of u 96.3 0.011 2.4E-07 36.3 4.5 27 122-148 79-109 (109)
58 KOG2482|consensus 96.3 0.014 2.9E-07 42.5 5.5 127 48-174 143-356 (423)
59 KOG4173|consensus 96.2 0.0014 3E-08 43.9 0.4 49 50-102 80-130 (253)
60 smart00451 ZnF_U1 U1-like zinc 96.1 0.0037 8E-08 29.7 1.4 21 153-173 4-24 (35)
61 KOG2482|consensus 96.1 0.023 4.9E-07 41.4 5.7 113 64-176 130-303 (423)
62 KOG2893|consensus 95.8 0.003 6.6E-08 43.4 0.5 49 50-103 11-59 (341)
63 COG5236 Uncharacterized conser 95.6 0.01 2.2E-07 43.2 2.6 47 51-99 222-272 (493)
64 smart00451 ZnF_U1 U1-like zinc 95.6 0.012 2.7E-07 27.8 2.0 25 122-146 2-26 (35)
65 KOG2785|consensus 95.4 0.013 2.8E-07 43.2 2.4 129 49-177 3-191 (390)
66 COG4049 Uncharacterized protei 94.7 0.026 5.6E-07 29.5 1.7 31 44-74 12-42 (65)
67 cd00350 rubredoxin_like Rubred 94.6 0.018 3.9E-07 27.1 0.9 24 50-86 2-25 (33)
68 KOG4173|consensus 94.4 0.0093 2E-07 40.1 -0.3 78 78-176 79-170 (253)
69 KOG2186|consensus 94.3 0.023 5E-07 39.6 1.4 53 79-151 4-56 (276)
70 COG4049 Uncharacterized protei 93.9 0.036 7.7E-07 29.0 1.2 29 120-148 14-42 (65)
71 PF05443 ROS_MUCR: ROS/MUCR tr 93.9 0.029 6.2E-07 35.6 1.0 22 124-148 73-94 (132)
72 COG5048 FOG: Zn-finger [Genera 93.5 0.013 2.9E-07 44.4 -1.1 58 48-105 288-350 (467)
73 KOG2186|consensus 93.2 0.055 1.2E-06 37.8 1.6 49 50-102 4-52 (276)
74 PF06524 NOA36: NOA36 protein; 93.2 0.036 7.7E-07 38.8 0.7 20 151-170 208-227 (314)
75 PF09538 FYDLN_acid: Protein o 92.8 0.082 1.8E-06 32.3 1.8 15 122-136 25-39 (108)
76 PF02892 zf-BED: BED zinc fing 92.8 0.071 1.5E-06 26.8 1.4 13 123-135 16-28 (45)
77 KOG2231|consensus 92.8 0.15 3.3E-06 40.9 3.7 47 51-102 184-236 (669)
78 COG5048 FOG: Zn-finger [Genera 92.2 0.024 5.2E-07 43.0 -1.3 55 122-176 288-347 (467)
79 COG2888 Predicted Zn-ribbon RN 91.5 0.23 5E-06 26.5 2.3 30 50-90 10-39 (61)
80 PF09986 DUF2225: Uncharacteri 91.5 0.03 6.5E-07 38.8 -1.3 44 48-91 4-61 (214)
81 cd00729 rubredoxin_SM Rubredox 91.2 0.11 2.4E-06 24.5 0.9 25 49-86 2-26 (34)
82 COG4957 Predicted transcriptio 90.6 0.13 2.9E-06 32.3 1.1 21 124-147 77-97 (148)
83 smart00614 ZnF_BED BED zinc fi 90.1 0.23 5E-06 25.7 1.6 12 124-135 19-30 (50)
84 PF09986 DUF2225: Uncharacteri 90.0 0.037 8.1E-07 38.3 -1.9 45 121-165 3-61 (214)
85 smart00659 RPOLCX RNA polymera 89.7 0.25 5.5E-06 24.9 1.5 28 49-88 2-29 (44)
86 PRK00398 rpoP DNA-directed RNA 89.1 0.36 7.9E-06 24.5 1.8 12 79-90 4-15 (46)
87 smart00734 ZnF_Rad18 Rad18-lik 89.0 0.4 8.7E-06 21.1 1.7 20 153-173 2-21 (26)
88 PF08274 PhnA_Zn_Ribbon: PhnA 88.2 0.18 3.9E-06 23.1 0.3 26 125-162 4-29 (30)
89 PF13717 zinc_ribbon_4: zinc-r 88.2 0.32 6.9E-06 23.3 1.2 34 124-163 3-36 (36)
90 PRK14890 putative Zn-ribbon RN 87.9 0.47 1E-05 25.4 1.8 33 122-161 24-57 (59)
91 TIGR00373 conserved hypothetic 87.7 0.4 8.6E-06 31.6 1.8 32 121-162 107-138 (158)
92 TIGR02300 FYDLN_acid conserved 87.6 0.45 9.7E-06 29.8 1.8 15 122-136 25-39 (129)
93 COG1592 Rubrerythrin [Energy p 87.2 0.45 9.9E-06 31.4 1.8 23 123-159 134-156 (166)
94 TIGR02098 MJ0042_CXXC MJ0042 f 87.2 0.57 1.2E-05 22.5 1.8 34 79-134 3-36 (38)
95 PRK09678 DNA-binding transcrip 87.0 0.18 4E-06 28.3 -0.1 40 124-166 2-43 (72)
96 PRK00464 nrdR transcriptional 86.1 0.11 2.5E-06 33.9 -1.4 14 153-166 29-42 (154)
97 PF15269 zf-C2H2_7: Zinc-finge 85.9 0.55 1.2E-05 23.4 1.3 20 124-143 21-40 (54)
98 COG1997 RPL43A Ribosomal prote 85.5 0.59 1.3E-05 27.1 1.5 15 120-134 50-64 (89)
99 PF05443 ROS_MUCR: ROS/MUCR tr 85.4 0.62 1.4E-05 29.6 1.7 23 79-104 73-95 (132)
100 PRK06266 transcription initiat 85.3 0.56 1.2E-05 31.5 1.6 32 121-162 115-146 (178)
101 KOG4167|consensus 84.8 0.52 1.1E-05 38.2 1.4 30 46-75 789-818 (907)
102 PF03604 DNA_RNApol_7kD: DNA d 84.7 0.88 1.9E-05 21.2 1.6 12 122-133 16-27 (32)
103 smart00531 TFIIE Transcription 84.3 0.58 1.3E-05 30.4 1.3 37 47-88 97-133 (147)
104 TIGR00373 conserved hypothetic 84.1 0.74 1.6E-05 30.3 1.7 32 47-88 107-138 (158)
105 PF09723 Zn-ribbon_8: Zinc rib 84.1 0.42 9.1E-06 23.7 0.4 14 79-92 6-19 (42)
106 PF13719 zinc_ribbon_5: zinc-r 83.2 1.3 2.8E-05 21.3 1.9 34 79-134 3-36 (37)
107 PF04959 ARS2: Arsenite-resist 83.2 0.68 1.5E-05 32.1 1.3 25 121-145 75-99 (214)
108 smart00834 CxxC_CXXC_SSSS Puta 83.1 0.57 1.2E-05 22.8 0.7 13 79-91 6-18 (41)
109 PF04959 ARS2: Arsenite-resist 82.9 1 2.2E-05 31.2 2.0 26 79-104 78-103 (214)
110 PRK06266 transcription initiat 82.6 0.77 1.7E-05 30.9 1.4 31 48-88 116-146 (178)
111 PF10571 UPF0547: Uncharacteri 82.4 0.63 1.4E-05 20.5 0.6 11 153-163 15-25 (26)
112 TIGR02605 CxxC_CxxC_SSSS putat 81.9 0.5 1.1E-05 24.6 0.2 30 123-160 5-34 (52)
113 PF01780 Ribosomal_L37ae: Ribo 81.1 0.76 1.6E-05 27.0 0.8 15 120-134 50-64 (90)
114 PF08790 zf-LYAR: LYAR-type C2 80.0 0.47 1E-05 21.3 -0.2 21 124-145 1-21 (28)
115 COG1996 RPC10 DNA-directed RNA 79.5 1.4 3.1E-05 22.7 1.4 11 78-88 6-16 (49)
116 PTZ00255 60S ribosomal protein 78.5 1.1 2.4E-05 26.3 1.0 15 120-134 51-65 (90)
117 COG1198 PriA Primosomal protei 78.4 0.55 1.2E-05 38.6 -0.5 12 150-161 473-484 (730)
118 KOG3408|consensus 77.2 1.2 2.6E-05 27.6 0.9 22 152-173 57-78 (129)
119 PHA00626 hypothetical protein 76.5 1.1 2.3E-05 23.7 0.4 14 152-165 23-36 (59)
120 TIGR00280 L37a ribosomal prote 76.5 1.3 2.7E-05 26.1 0.8 15 120-134 50-64 (91)
121 PF02176 zf-TRAF: TRAF-type zi 76.2 1.8 3.9E-05 23.1 1.3 47 122-171 8-60 (60)
122 COG1571 Predicted DNA-binding 76.1 1.6 3.6E-05 33.3 1.5 17 121-137 365-381 (421)
123 PF07754 DUF1610: Domain of un 75.8 1.4 3.1E-05 19.0 0.7 7 79-85 17-23 (24)
124 COG5188 PRP9 Splicing factor 3 75.4 5.2 0.00011 29.8 3.7 23 49-71 238-260 (470)
125 PF12907 zf-met2: Zinc-binding 74.5 2.1 4.6E-05 21.0 1.2 24 153-176 2-28 (40)
126 PF09963 DUF2197: Uncharacteri 73.9 1.2 2.7E-05 23.6 0.3 41 50-90 3-43 (56)
127 PF13878 zf-C2H2_3: zinc-finge 73.0 6.9 0.00015 19.3 2.8 24 50-73 14-39 (41)
128 PRK03976 rpl37ae 50S ribosomal 72.6 1.8 3.8E-05 25.5 0.7 15 120-134 51-65 (90)
129 COG4530 Uncharacterized protei 72.0 2.3 4.9E-05 25.9 1.1 14 121-134 24-37 (129)
130 KOG4167|consensus 71.3 1.1 2.5E-05 36.4 -0.3 24 152-175 792-815 (907)
131 PF14353 CpXC: CpXC protein 70.8 4.1 8.9E-05 25.6 2.2 40 124-165 2-51 (128)
132 TIGR00686 phnA alkylphosphonat 70.3 2.1 4.7E-05 26.0 0.8 29 125-165 4-32 (109)
133 KOG4727|consensus 69.6 2.4 5.1E-05 28.1 0.9 20 153-172 76-95 (193)
134 KOG3408|consensus 68.2 6.6 0.00014 24.4 2.5 32 41-72 49-80 (129)
135 COG3357 Predicted transcriptio 68.0 3 6.4E-05 24.5 1.0 13 78-90 58-70 (97)
136 PF13451 zf-trcl: Probable zin 67.8 4.2 9.2E-05 21.0 1.4 38 121-159 2-40 (49)
137 PRK10220 hypothetical protein; 65.8 3.3 7.1E-05 25.2 0.9 29 125-165 5-33 (111)
138 PF10276 zf-CHCC: Zinc-finger 65.6 4.4 9.5E-05 19.9 1.2 13 121-133 27-39 (40)
139 PF07282 OrfB_Zn_ribbon: Putat 63.7 5.1 0.00011 22.0 1.4 31 124-165 29-59 (69)
140 PRK00432 30S ribosomal protein 62.7 6.8 0.00015 20.3 1.6 12 122-133 36-47 (50)
141 TIGR01206 lysW lysine biosynth 62.6 2.1 4.4E-05 22.6 -0.3 10 79-88 3-12 (54)
142 PF06220 zf-U1: U1 zinc finger 62.6 6.7 0.00015 19.0 1.5 10 153-162 4-13 (38)
143 KOG2593|consensus 62.3 4.8 0.0001 30.8 1.4 37 46-86 125-161 (436)
144 KOG1280|consensus 62.0 7.7 0.00017 28.9 2.3 27 78-104 79-105 (381)
145 PF04780 DUF629: Protein of un 61.7 6.6 0.00014 30.7 2.1 28 78-105 57-84 (466)
146 COG1198 PriA Primosomal protei 59.8 3.1 6.7E-05 34.4 0.1 12 121-132 473-484 (730)
147 COG3677 Transposase and inacti 58.2 17 0.00037 23.1 3.2 16 121-136 51-66 (129)
148 PRK04023 DNA polymerase II lar 57.9 15 0.00033 31.6 3.7 12 47-58 624-635 (1121)
149 TIGR00100 hypA hydrogenase nic 57.4 6 0.00013 24.5 1.1 26 122-160 69-94 (115)
150 COG1656 Uncharacterized conser 57.1 10 0.00023 25.1 2.1 45 50-97 98-149 (165)
151 COG1655 Uncharacterized protei 56.7 1.5 3.1E-05 30.6 -1.9 42 120-161 16-71 (267)
152 TIGR00595 priA primosomal prot 56.2 5.2 0.00011 31.7 0.8 9 80-88 215-223 (505)
153 PRK03824 hypA hydrogenase nick 56.0 4.9 0.00011 25.7 0.5 39 122-160 69-115 (135)
154 PRK12380 hydrogenase nickel in 55.4 7.6 0.00016 24.0 1.3 26 122-160 69-94 (113)
155 PF04606 Ogr_Delta: Ogr/Delta- 55.2 1.6 3.6E-05 22.2 -1.4 38 125-165 1-40 (47)
156 KOG0978|consensus 53.4 6.5 0.00014 32.3 0.9 49 123-172 643-698 (698)
157 PF01286 XPA_N: XPA protein N- 53.4 4.7 0.0001 19.0 0.1 15 124-138 4-18 (34)
158 KOG2636|consensus 53.4 9.6 0.00021 29.5 1.7 29 144-173 394-423 (497)
159 PF13824 zf-Mss51: Zinc-finger 53.0 11 0.00024 20.0 1.4 10 79-88 15-24 (55)
160 COG5151 SSL1 RNA polymerase II 52.9 26 0.00057 25.8 3.7 26 121-146 386-411 (421)
161 PRK14873 primosome assembly pr 52.3 3.8 8.2E-05 33.7 -0.5 9 123-131 422-430 (665)
162 smart00154 ZnF_AN1 AN1-like Zi 52.0 8.4 0.00018 18.7 0.9 14 78-91 12-25 (39)
163 PF07975 C1_4: TFIIH C1-like d 51.5 2.3 5E-05 22.1 -1.2 26 47-72 19-44 (51)
164 PF04780 DUF629: Protein of un 50.3 11 0.00025 29.4 1.8 21 124-144 58-78 (466)
165 KOG2071|consensus 50.2 12 0.00026 30.1 1.8 29 120-148 415-443 (579)
166 PF08209 Sgf11: Sgf11 (transcr 50.2 27 0.00058 16.3 2.4 24 79-103 5-28 (33)
167 PF03811 Zn_Tnp_IS1: InsA N-te 49.3 2.8 6E-05 20.1 -1.1 30 50-84 6-35 (36)
168 KOG1842|consensus 49.0 9.9 0.00021 29.4 1.2 24 50-73 16-39 (505)
169 cd00730 rubredoxin Rubredoxin; 48.5 8.5 0.00018 20.0 0.6 12 153-164 2-13 (50)
170 KOG3507|consensus 48.1 13 0.00028 19.9 1.2 13 122-134 36-48 (62)
171 COG1773 Rubredoxin [Energy pro 48.0 7.7 0.00017 20.6 0.4 11 153-163 4-14 (55)
172 PF01363 FYVE: FYVE zinc finge 47.9 11 0.00025 20.6 1.1 29 50-91 10-38 (69)
173 PF13453 zf-TFIIB: Transcripti 47.5 12 0.00027 18.2 1.1 18 79-96 20-37 (41)
174 KOG1280|consensus 47.2 16 0.00034 27.4 2.0 39 121-159 77-116 (381)
175 PF14446 Prok-RING_1: Prokaryo 46.9 15 0.00033 19.4 1.4 12 79-90 6-17 (54)
176 PF01428 zf-AN1: AN1-like Zinc 46.6 8.5 0.00018 19.1 0.4 14 78-91 13-26 (43)
177 KOG4124|consensus 45.9 3 6.4E-05 31.0 -1.8 52 121-172 347-418 (442)
178 TIGR00416 sms DNA repair prote 45.8 13 0.00029 29.1 1.6 11 49-59 7-17 (454)
179 PRK11823 DNA repair protein Ra 45.7 13 0.00029 29.0 1.6 24 48-86 6-29 (446)
180 KOG2907|consensus 45.3 9.1 0.0002 23.5 0.5 40 124-164 75-114 (116)
181 KOG0320|consensus 45.2 15 0.00033 24.7 1.5 48 41-88 123-177 (187)
182 KOG1842|consensus 45.2 13 0.00028 28.8 1.3 28 122-149 14-41 (505)
183 COG4896 Uncharacterized protei 44.8 12 0.00025 20.3 0.8 40 50-90 3-43 (68)
184 KOG4727|consensus 44.5 15 0.00033 24.4 1.4 25 120-144 72-96 (193)
185 KOG0717|consensus 44.4 14 0.0003 28.8 1.4 40 50-102 293-332 (508)
186 COG5112 UFD2 U1-like Zn-finger 44.1 21 0.00045 21.7 1.8 28 44-71 50-77 (126)
187 PF04423 Rad50_zn_hook: Rad50 43.5 10 0.00023 19.8 0.5 13 80-92 22-34 (54)
188 PRK00564 hypA hydrogenase nick 43.5 13 0.00027 23.2 0.9 27 122-160 70-96 (117)
189 KOG0402|consensus 42.9 9.7 0.00021 22.0 0.3 14 121-134 52-65 (92)
190 PRK03681 hypA hydrogenase nick 42.7 17 0.00036 22.5 1.4 13 78-90 70-82 (114)
191 PF14311 DUF4379: Domain of un 42.1 19 0.00041 18.8 1.4 16 50-65 29-44 (55)
192 PTZ00448 hypothetical protein; 41.8 20 0.00043 27.2 1.8 23 49-71 314-336 (373)
193 PF00301 Rubredoxin: Rubredoxi 41.6 8.7 0.00019 19.6 0.0 11 153-163 2-12 (47)
194 PRK14892 putative transcriptio 41.3 9.1 0.0002 23.1 0.1 37 121-165 19-55 (99)
195 COG5152 Uncharacterized conser 41.2 62 0.0014 22.3 3.9 54 44-97 191-253 (259)
196 cd00924 Cyt_c_Oxidase_Vb Cytoc 41.0 17 0.00037 21.8 1.2 14 77-90 78-91 (97)
197 KOG4477|consensus 40.9 24 0.00053 23.8 2.0 29 116-159 17-45 (228)
198 PF10013 DUF2256: Uncharacteri 40.6 18 0.0004 17.9 1.0 16 125-140 10-25 (42)
199 KOG2593|consensus 40.5 27 0.00058 27.1 2.3 35 121-159 126-160 (436)
200 KOG1701|consensus 40.5 14 0.0003 28.5 0.9 39 51-90 276-314 (468)
201 PF11781 RRN7: RNA polymerase 39.8 20 0.00043 17.1 1.1 12 120-131 22-33 (36)
202 COG1998 RPS31 Ribosomal protei 39.5 16 0.00035 18.8 0.8 25 125-161 21-46 (51)
203 PF02748 PyrI_C: Aspartate car 39.3 15 0.00032 19.2 0.6 18 118-135 30-47 (52)
204 KOG2807|consensus 39.2 77 0.0017 23.7 4.4 69 78-146 290-368 (378)
205 KOG0717|consensus 38.9 19 0.00042 28.1 1.4 22 124-145 293-314 (508)
206 COG2331 Uncharacterized protei 38.7 7.6 0.00017 22.0 -0.5 33 122-162 11-43 (82)
207 cd01121 Sms Sms (bacterial rad 38.7 18 0.00039 27.6 1.3 8 79-86 15-22 (372)
208 COG3091 SprT Zn-dependent meta 38.7 34 0.00075 22.4 2.3 36 120-161 114-149 (156)
209 KOG2636|consensus 38.4 25 0.00054 27.4 1.9 27 72-99 396-423 (497)
210 PLN02294 cytochrome c oxidase 38.3 16 0.00035 24.4 0.8 15 151-165 140-154 (174)
211 PF01155 HypA: Hydrogenase exp 38.2 13 0.00029 22.9 0.4 26 123-161 70-95 (113)
212 PTZ00448 hypothetical protein; 37.9 23 0.0005 26.8 1.7 21 153-173 315-335 (373)
213 KOG1994|consensus 37.6 13 0.00029 25.9 0.4 22 150-172 238-259 (268)
214 COG4306 Uncharacterized protei 37.1 9.2 0.0002 23.9 -0.4 14 123-136 68-81 (160)
215 PRK12496 hypothetical protein; 37.1 26 0.00056 23.3 1.7 29 123-164 127-155 (164)
216 cd00065 FYVE FYVE domain; Zinc 35.8 29 0.00062 18.0 1.5 10 125-134 4-13 (57)
217 PF11931 DUF3449: Domain of un 35.6 12 0.00027 25.6 0.0 24 150-173 99-123 (196)
218 COG1779 C4-type Zn-finger prot 35.1 4.9 0.00011 27.4 -1.9 43 121-165 12-56 (201)
219 PRK04351 hypothetical protein; 35.0 19 0.00042 23.5 0.8 34 48-90 111-144 (149)
220 PF01927 Mut7-C: Mut7-C RNAse 35.0 24 0.00051 22.9 1.2 18 153-170 125-142 (147)
221 PRK00420 hypothetical protein; 34.2 35 0.00076 21.1 1.8 15 121-135 38-52 (112)
222 COG1675 TFA1 Transcription ini 33.8 27 0.00059 23.5 1.4 30 121-160 111-140 (176)
223 CHL00174 accD acetyl-CoA carbo 33.6 20 0.00043 26.4 0.8 33 50-92 39-71 (296)
224 PLN03238 probable histone acet 33.6 29 0.00063 25.4 1.6 22 122-143 47-68 (290)
225 PLN03238 probable histone acet 33.4 53 0.0011 24.1 2.8 25 150-174 46-70 (290)
226 PF07911 DUF1677: Protein of u 33.3 28 0.00061 20.6 1.2 39 50-90 5-43 (91)
227 PRK14714 DNA polymerase II lar 33.1 35 0.00076 30.4 2.2 28 122-161 691-718 (1337)
228 PF07503 zf-HYPF: HypF finger; 33.0 4.8 0.0001 19.1 -1.6 10 79-88 22-31 (35)
229 smart00064 FYVE Protein presen 32.4 32 0.0007 18.7 1.4 11 124-134 11-21 (68)
230 COG2879 Uncharacterized small 32.3 56 0.0012 17.8 2.1 17 61-77 24-40 (65)
231 PF06397 Desulfoferrod_N: Desu 32.2 23 0.0005 17.0 0.6 11 78-88 6-16 (36)
232 TIGR00622 ssl1 transcription f 31.9 28 0.0006 21.6 1.1 20 79-98 82-101 (112)
233 PF13821 DUF4187: Domain of un 31.3 49 0.0011 17.5 1.8 18 79-96 28-45 (55)
234 PHA02998 RNA polymerase subuni 31.2 14 0.00031 24.7 -0.2 40 122-165 142-184 (195)
235 PF05290 Baculo_IE-1: Baculovi 30.9 39 0.00085 21.6 1.7 15 153-167 122-136 (140)
236 PRK03564 formate dehydrogenase 30.8 17 0.00037 26.9 0.1 11 48-58 186-196 (309)
237 KOG4118|consensus 30.7 28 0.00062 19.1 0.9 26 79-104 39-64 (74)
238 COG2956 Predicted N-acetylgluc 30.7 58 0.0013 24.6 2.7 16 72-87 348-363 (389)
239 KOG3214|consensus 30.7 26 0.00055 21.1 0.8 15 122-136 46-60 (109)
240 PF10263 SprT-like: SprT-like 30.6 15 0.00032 23.9 -0.2 33 48-89 122-154 (157)
241 COG4391 Uncharacterized protei 30.5 30 0.00065 18.8 1.0 16 120-135 45-60 (62)
242 PRK00762 hypA hydrogenase nick 30.4 19 0.00042 22.6 0.3 31 122-159 69-99 (124)
243 COG4338 Uncharacterized protei 30.4 20 0.00043 18.3 0.2 19 79-97 13-31 (54)
244 PF03145 Sina: Seven in absent 30.4 50 0.0011 22.5 2.3 51 123-177 14-72 (198)
245 KOG3556|consensus 30.0 43 0.00094 26.8 2.0 12 46-57 555-566 (724)
246 PRK05654 acetyl-CoA carboxylas 29.5 25 0.00054 25.8 0.8 33 50-92 28-60 (292)
247 smart00440 ZnF_C2C2 C2C2 Zinc 29.5 21 0.00045 17.4 0.2 9 124-132 29-37 (40)
248 COG0068 HypF Hydrogenase matur 29.4 7.6 0.00016 32.0 -2.0 11 122-132 172-182 (750)
249 PF09845 DUF2072: Zn-ribbon co 29.2 26 0.00056 22.3 0.7 15 49-63 1-15 (131)
250 TIGR03826 YvyF flagellar opero 29.2 34 0.00074 22.0 1.2 17 119-135 77-93 (137)
251 COG1439 Predicted nucleic acid 29.1 37 0.0008 22.9 1.4 25 122-161 138-162 (177)
252 TIGR00515 accD acetyl-CoA carb 29.0 37 0.00081 24.9 1.5 32 124-165 27-58 (285)
253 KOG2071|consensus 28.8 35 0.00075 27.6 1.4 26 150-175 416-441 (579)
254 PF11789 zf-Nse: Zinc-finger o 28.7 38 0.00083 18.0 1.2 32 48-84 23-54 (57)
255 COG4888 Uncharacterized Zn rib 28.6 10 0.00022 22.8 -1.1 12 123-134 46-57 (104)
256 PRK05452 anaerobic nitric oxid 28.6 20 0.00044 28.3 0.1 19 44-62 420-438 (479)
257 PF09416 UPF1_Zn_bind: RNA hel 28.5 81 0.0018 20.7 2.8 39 122-160 13-68 (152)
258 smart00731 SprT SprT homologue 27.9 24 0.00051 22.8 0.4 34 122-163 111-144 (146)
259 PF10058 DUF2296: Predicted in 27.7 53 0.0011 17.3 1.6 35 45-86 18-52 (54)
260 TIGR03831 YgiT_finger YgiT-typ 27.6 28 0.00061 17.0 0.5 11 79-89 33-43 (46)
261 PRK05978 hypothetical protein; 27.5 19 0.00041 23.5 -0.1 10 125-134 54-63 (148)
262 PLN03239 histone acetyltransfe 27.3 45 0.00097 25.2 1.7 25 121-145 104-128 (351)
263 KOG0782|consensus 27.0 15 0.00032 29.6 -0.8 15 123-137 276-290 (1004)
264 PF12760 Zn_Tnp_IS1595: Transp 27.0 86 0.0019 15.6 2.3 7 79-85 19-25 (46)
265 PLN00104 MYST -like histone ac 26.9 43 0.00093 26.3 1.6 25 121-145 196-220 (450)
266 PF09332 Mcm10: Mcm10 replicat 26.9 15 0.00032 27.6 -0.8 42 123-164 252-297 (344)
267 COG5188 PRP9 Splicing factor 3 26.8 30 0.00066 26.0 0.8 21 153-173 239-259 (470)
268 PTZ00064 histone acetyltransfe 26.5 49 0.0011 26.4 1.8 25 121-145 278-302 (552)
269 PF09082 DUF1922: Domain of un 26.3 33 0.00072 19.1 0.7 15 120-135 17-31 (68)
270 PF11672 DUF3268: Protein of u 26.3 19 0.00041 21.9 -0.3 35 122-159 1-38 (102)
271 TIGR01384 TFS_arch transcripti 25.9 30 0.00065 20.8 0.5 9 124-132 17-25 (104)
272 PF01215 COX5B: Cytochrome c o 25.9 32 0.00069 22.1 0.7 15 77-91 111-125 (136)
273 PRK12722 transcriptional activ 25.7 43 0.00092 22.9 1.2 28 50-86 135-162 (187)
274 COG2824 PhnA Uncharacterized Z 25.2 18 0.00039 22.0 -0.5 11 153-163 21-31 (112)
275 PF15135 UPF0515: Uncharacteri 25.0 54 0.0012 23.4 1.7 14 122-135 154-167 (278)
276 TIGR03829 YokU_near_AblA uncha 25.0 51 0.0011 19.5 1.3 21 77-97 34-54 (89)
277 PLN03239 histone acetyltransfe 24.7 42 0.00091 25.3 1.2 24 150-173 104-127 (351)
278 PF05191 ADK_lid: Adenylate ki 24.6 34 0.00073 16.3 0.5 31 124-163 2-32 (36)
279 PF01096 TFIIS_C: Transcriptio 24.3 25 0.00054 17.0 -0.0 10 124-133 29-38 (39)
280 KOG0562|consensus 23.9 44 0.00095 22.3 1.0 25 152-176 153-177 (184)
281 PTZ00064 histone acetyltransfe 23.6 47 0.001 26.5 1.3 23 152-174 280-302 (552)
282 PTZ00043 cytochrome c oxidase 23.5 44 0.00095 23.5 1.0 16 150-165 179-194 (268)
283 TIGR00627 tfb4 transcription f 23.5 70 0.0015 23.4 2.1 27 121-162 253-279 (279)
284 PLN00104 MYST -like histone ac 23.4 43 0.00094 26.3 1.1 25 150-174 196-220 (450)
285 PF10071 DUF2310: Zn-ribbon-co 23.4 29 0.00062 25.0 0.1 37 121-165 218-254 (258)
286 PF12230 PRP21_like_P: Pre-mRN 23.4 27 0.00058 24.5 0.0 22 152-174 168-189 (229)
287 PRK01343 zinc-binding protein; 22.8 52 0.0011 17.6 1.0 12 152-163 9-20 (57)
288 PF14255 Cys_rich_CPXG: Cystei 22.7 39 0.00084 17.7 0.5 11 80-90 2-12 (52)
289 PF08792 A2L_zn_ribbon: A2L zi 22.6 56 0.0012 15.2 1.0 14 121-134 19-32 (33)
290 PRK12860 transcriptional activ 22.5 53 0.0011 22.5 1.2 12 50-61 135-146 (189)
291 COG1326 Uncharacterized archae 22.3 75 0.0016 21.8 1.9 35 50-90 7-42 (201)
292 PLN02748 tRNA dimethylallyltra 22.1 59 0.0013 25.8 1.6 22 78-99 418-440 (468)
293 KOG1940|consensus 22.1 97 0.0021 22.7 2.5 58 79-143 197-254 (276)
294 PF11494 Ta0938: Ta0938; Inte 22.0 48 0.001 19.8 0.8 40 120-165 11-50 (105)
295 TIGR00244 transcriptional regu 21.8 40 0.00087 22.0 0.6 13 153-165 29-41 (147)
296 PF08271 TF_Zn_Ribbon: TFIIB z 21.2 93 0.002 15.2 1.7 13 121-133 17-29 (43)
297 smart00661 RPOL9 RNA polymeras 21.1 39 0.00085 17.1 0.3 13 152-164 20-32 (52)
298 KOG2747|consensus 21.0 51 0.0011 25.4 1.0 21 124-144 159-179 (396)
299 COG0675 Transposase and inacti 20.7 58 0.0013 24.0 1.3 26 50-91 310-335 (364)
300 PF14205 Cys_rich_KTR: Cystein 20.7 30 0.00066 18.3 -0.1 12 150-161 26-37 (55)
301 PF03107 C1_2: C1 domain; Int 20.3 56 0.0012 14.6 0.7 9 153-161 1-9 (30)
302 PF12773 DZR: Double zinc ribb 20.3 43 0.00094 16.8 0.4 27 124-162 13-39 (50)
303 COG3364 Zn-ribbon containing p 20.2 44 0.00096 20.2 0.5 14 49-62 2-15 (112)
304 PF03966 Trm112p: Trm112p-like 20.0 52 0.0011 18.0 0.7 17 119-135 49-65 (68)
305 PF13240 zinc_ribbon_2: zinc-r 20.0 43 0.00092 14.1 0.3 6 155-160 16-21 (23)
No 1
>KOG2462|consensus
Probab=99.95 E-value=5.4e-28 Score=164.27 Aligned_cols=129 Identities=26% Similarity=0.507 Sum_probs=112.1
Q ss_pred CCCCccccCccchhccChHHHHHHHHHHhCC--CCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccc-------
Q psy16578 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGK--RPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYR------- 115 (177)
Q Consensus 45 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~--~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~------- 115 (177)
.....|+|..||+.+.+..+|.+|.+.|... ++-+.|+.|++.|.+...|.+|+++|.-.-.+..|.+.|.
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred ccCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhc
Confidence 3456699999999999999999999999753 3458999999999999999999988886667777776665
Q ss_pred --cccCCCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccchhHHHHHHhh
Q psy16578 116 --RNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 116 --~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
.++.+||||.|..|+|+|.++++|+.||++|.+.++ |+|..|+|.|+..+.|.+|...
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~-~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKK-HQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCcc-ccCcchhhHHHHHHHHHHhhhh
Confidence 688899999999999999999999999999998665 9999999999999999999863
No 2
>KOG2462|consensus
Probab=99.84 E-value=9.5e-22 Score=134.04 Aligned_cols=98 Identities=23% Similarity=0.465 Sum_probs=84.0
Q ss_pred ceeCCCCccccccchHHHhHHHHhcCCC-----CCCCCcccccccc-------CCCCceecCCccccccChhHHHHHHHH
Q psy16578 78 KFKCPHCNKKCHQKCNLKSHIALKHDQL-----LAPLAPRSYRRNS-------QLNGSFICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~-----~~~~~~~~~~~~~-------~~~~~~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
.|.|++||+.+.+..+|.+|...|.... .++.|++.+.... ..+-+.+|.+|||.|...+.|+.|+|+
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRT 209 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRT 209 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhccccc
Confidence 3999999999999999999998887653 3466666665322 223578999999999999999999999
Q ss_pred hhCCCCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 146 ECGVEPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 146 h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
|+| |+||.|+.|++.|++++||+.||++|-
T Consensus 210 HTG-EKPF~C~hC~kAFADRSNLRAHmQTHS 239 (279)
T KOG2462|consen 210 HTG-EKPFSCPHCGKAFADRSNLRAHMQTHS 239 (279)
T ss_pred ccC-CCCccCCcccchhcchHHHHHHHHhhc
Confidence 999 777999999999999999999999985
No 3
>KOG3576|consensus
Probab=99.81 E-value=2.1e-20 Score=121.97 Aligned_cols=113 Identities=26% Similarity=0.513 Sum_probs=102.9
Q ss_pred CCCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCcee
Q psy16578 46 GEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFI 125 (177)
Q Consensus 46 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 125 (177)
+...|.|.+|++.|.-..-|.+|++.|...++ |.|..||+.|....+|.+|+++|.| -+||+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr-~lct~cgkgfndtfdlkrh~rthtg-----------------vrpyk 175 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKR-HLCTFCGKGFNDTFDLKRHTRTHTG-----------------VRPYK 175 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHH-HHHhhccCcccchhhhhhhhccccC-----------------ccccc
Confidence 45679999999999999999999999998877 9999999999999999999988876 58999
Q ss_pred cCCccccccChhHHHHHHHHhhCC----------CCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 126 CPKCSNRYVYKHNLKQHLKFECGV----------EPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 126 C~~C~~~f~~~~~l~~H~~~h~~~----------~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
|..|+++|..+-.|..|++.-||. .+.|.|..||+.-.....+..|+..||
T Consensus 176 c~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 176 CSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred hhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcC
Confidence 999999999999999999976664 446999999999999999999999887
No 4
>KOG1074|consensus
Probab=99.79 E-value=5.4e-20 Score=141.29 Aligned_cols=57 Identities=32% Similarity=0.620 Sum_probs=51.7
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCC
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQL 105 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 105 (177)
.+++|.+|.+.|....+|+.|.+.|+++.+ |+|++||..|.++++|+.|...|+...
T Consensus 352 ~khkCr~CakvfgS~SaLqiHlRSHTGERP-fqCnvCG~~FSTkGNLKvH~~rH~e~~ 408 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGSDSALQIHLRSHTGERP-FQCNVCGNRFSTKGNLKVHFQRHREKY 408 (958)
T ss_pred ccchhhhhHhhcCchhhhhhhhhccCCCCC-eeecccccccccccceeeeeeeccccC
Confidence 346899999999999999999999999855 999999999999999999998887653
No 5
>KOG3623|consensus
Probab=99.75 E-value=7.2e-19 Score=133.56 Aligned_cols=121 Identities=31% Similarity=0.683 Sum_probs=100.2
Q ss_pred CccccCccchhccChHHHHHHHHHHh-CCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceec
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYEC-GKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFIC 126 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~-~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C 126 (177)
....|+.|++.+.+...|+.|++..+ .....|.|.+|...|.....|.+|+..|-...... ..-......+.|+|
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa----~sltqsa~lRKFKC 284 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA----ISLTQSALLRKFKC 284 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc----ccccchhhhccccc
Confidence 44789999999999999999988654 44456999999999999999999998776532211 11122234567999
Q ss_pred CCccccccChhHHHHHHHHhhCCCCCccCCCCcccccchhHHHHHHh
Q psy16578 127 PKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 127 ~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~ 173 (177)
..|+|+|+.+..|..|+|+|.| ++||.|+.|+|+|+.+..+..||-
T Consensus 285 tECgKAFKfKHHLKEHlRIHSG-EKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 285 TECGKAFKFKHHLKEHLRIHSG-EKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred cccchhhhhHHHHHhhheeecC-CCCcCCcccccccccCCccccccc
Confidence 9999999999999999999999 777999999999999999999985
No 6
>KOG1074|consensus
Probab=99.72 E-value=6.1e-18 Score=130.18 Aligned_cols=52 Identities=23% Similarity=0.634 Sum_probs=48.8
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
..|..|++.|.....|..|+++|++ +++|.|.+|++.|..+.+|+.||.+|+
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg-~KPF~C~fC~~aFttrgnLKvHMgtH~ 931 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTG-PKPFFCHFCEEAFTTRGNLKVHMGTHM 931 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCC-CCCccchhhhhhhhhhhhhhhhhcccc
Confidence 4599999999999999999999999 556999999999999999999999886
No 7
>KOG3608|consensus
Probab=99.71 E-value=1.5e-17 Score=117.12 Aligned_cols=107 Identities=24% Similarity=0.622 Sum_probs=53.9
Q ss_pred ccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCC
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPK 128 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~ 128 (177)
+|.|..|.+.|.++..|..||..|..- |+|+.|+-.....+.|.+|++..|. .++||+|..
T Consensus 237 ~fqC~~C~KrFaTeklL~~Hv~rHvn~---ykCplCdmtc~~~ssL~~H~r~rHs----------------~dkpfKCd~ 297 (467)
T KOG3608|consen 237 SFQCAQCFKRFATEKLLKSHVVRHVNC---YKCPLCDMTCSSASSLTTHIRYRHS----------------KDKPFKCDE 297 (467)
T ss_pred chHHHHHHHHHhHHHHHHHHHHHhhhc---ccccccccCCCChHHHHHHHHhhhc----------------cCCCccccc
Confidence 344444444444444444444444322 4444444444444444444444443 456666666
Q ss_pred ccccccChhHHHHHHHHhhCCCCCccCCC--CcccccchhHHHHHHhhhc
Q psy16578 129 CSNRYVYKHNLKQHLKFECGVEPQFKCPY--CDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 129 C~~~f~~~~~l~~H~~~h~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h 176 (177)
|++.|.+.+.|.+|...|. +..|+|.. |.+.|.....|++|++.+|
T Consensus 298 Cd~~c~~esdL~kH~~~HS--~~~y~C~h~~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 298 CDTRCVRESDLAKHVQVHS--KTVYQCEHPDCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred hhhhhccHHHHHHHHHhcc--ccceecCCCCCcHHHHHHHHHHHHHHHhc
Confidence 6666666666666666554 22245544 4444444444444444443
No 8
>KOG3608|consensus
Probab=99.68 E-value=9.5e-17 Score=113.08 Aligned_cols=112 Identities=23% Similarity=0.557 Sum_probs=100.5
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecC
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICP 127 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ 127 (177)
.-|+|++|+......++|..|++..+.+.+||+|..|++.|....+|.+|...|. +..|.|.
T Consensus 262 n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS------------------~~~y~C~ 323 (467)
T KOG3608|consen 262 NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS------------------KTVYQCE 323 (467)
T ss_pred hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc------------------ccceecC
Confidence 3489999999999999999999998888888999999999999999999997542 4569997
Q ss_pred C--ccccccChhHHHHHHHHhhC--CCCCccCCCCcccccchhHHHHHHhhhcC
Q psy16578 128 K--CSNRYVYKHNLKQHLKFECG--VEPQFKCPYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 128 ~--C~~~f~~~~~l~~H~~~h~~--~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
. |..+|.+...+++|++.++. ...+|.|..|++.|++..+|.+|++..|+
T Consensus 324 h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 324 HPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred CCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhc
Confidence 6 99999999999999998873 35579999999999999999999998875
No 9
>KOG3623|consensus
Probab=99.65 E-value=3e-17 Score=124.89 Aligned_cols=78 Identities=26% Similarity=0.585 Sum_probs=72.3
Q ss_pred ceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhCCCCCccCCC
Q psy16578 78 KFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPY 157 (177)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~ 157 (177)
+|.|.+|++.|...+.|.+|.=.|. +.+||+|..|.|+|+.+..|..|+|.|.| ++||+|+.
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHs-----------------GqRPyqC~iCkKAFKHKHHLtEHkRLHSG-EKPfQCdK 955 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHS-----------------GQRPYQCIICKKAFKHKHHLTEHKRLHSG-EKPFQCDK 955 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhc-----------------CCCCcccchhhHhhhhhhhhhhhhhhccC-CCcchhhh
Confidence 6999999999999999999984444 57999999999999999999999999999 77799999
Q ss_pred CcccccchhHHHHHHh
Q psy16578 158 CDKRCKLKGNLMSHIA 173 (177)
Q Consensus 158 C~~~f~~~~~l~~H~~ 173 (177)
|+|+|+.+..+.+||.
T Consensus 956 ClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 956 CLKRFSHSGSYSQHMN 971 (1007)
T ss_pred hhhhcccccchHhhhc
Confidence 9999999999999984
No 10
>KOG3576|consensus
Probab=99.61 E-value=1.2e-16 Score=104.65 Aligned_cols=82 Identities=28% Similarity=0.564 Sum_probs=74.9
Q ss_pred ceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhCCCCCccCCC
Q psy16578 78 KFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPY 157 (177)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~ 157 (177)
.|.|.+|++.|.-...|.+|++-|. .-+.+-|.+||+.|.+.-.|.+|+++|+|.++ |+|..
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kch~-----------------~vkr~lct~cgkgfndtfdlkrh~rthtgvrp-ykc~~ 178 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKCHS-----------------DVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRP-YKCSL 178 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhhcc-----------------HHHHHHHhhccCcccchhhhhhhhccccCccc-cchhh
Confidence 4999999999999999999996554 35789999999999999999999999999555 99999
Q ss_pred CcccccchhHHHHHHhhhcC
Q psy16578 158 CDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 158 C~~~f~~~~~l~~H~~~~h~ 177 (177)
|++.|...-.|..|++..||
T Consensus 179 c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 179 CEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred hhHHHHhhccHHHHHHHHcC
Confidence 99999999999999998886
No 11
>KOG3993|consensus
Probab=99.45 E-value=1.8e-14 Score=103.81 Aligned_cols=130 Identities=22% Similarity=0.410 Sum_probs=99.3
Q ss_pred CCCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCCCCC-------CCc----ccc
Q psy16578 46 GEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAP-------LAP----RSY 114 (177)
Q Consensus 46 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~-------~~~----~~~ 114 (177)
..+.|.|.+|...|.....|.+|...-.-..- |+|++|++.|....+|..|.+.|-...... ... ..-
T Consensus 264 ~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vE-YrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~ 342 (500)
T KOG3993|consen 264 VIGDYICQLCKEKYEDAFALAQHRCPRIVHVE-YRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEV 342 (500)
T ss_pred cHHHHHHHHHHHhhhhHHHHhhccCCeeEEee-ecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhh
Confidence 33459999999999999999999765433334 999999999999999999999887532111 100 000
Q ss_pred -----ccccCCCCceecCCccccccChhHHHHHHHHhhCC----------------------------------------
Q psy16578 115 -----RRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGV---------------------------------------- 149 (177)
Q Consensus 115 -----~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~---------------------------------------- 149 (177)
.-....++.|.|..|++.|.....|++|+.+|+..
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl 422 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVL 422 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccccccccccccee
Confidence 01113456899999999999999999999888653
Q ss_pred ---------------------------------CCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 150 ---------------------------------EPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 150 ---------------------------------~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
+.-|.|.+|.-.|-++.+|.+|+...|
T Consensus 423 ~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 423 YVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred eeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcC
Confidence 114899999999999999999997765
No 12
>PHA00733 hypothetical protein
Probab=99.37 E-value=5.7e-13 Score=83.71 Aligned_cols=84 Identities=20% Similarity=0.390 Sum_probs=65.0
Q ss_pred CceeCCCCccccccchHHHhH--HHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhCCCCCcc
Q psy16578 77 PKFKCPHCNKKCHQKCNLKSH--IALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFK 154 (177)
Q Consensus 77 ~~~~C~~C~~~f~~~~~l~~H--~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~ 154 (177)
+++.|.+|...|.....|..+ +..+. ....+++|.|..|++.|.....|..|++.| ..+|.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~--------------~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h---~~~~~ 101 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLL--------------TSKAVSPYVCPLCLMPFSSSVSLKQHIRYT---EHSKV 101 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhc--------------ccCCCCCccCCCCCCcCCCHHHHHHHHhcC---CcCcc
Confidence 348888888888777777666 22211 112367899999999999999999999876 23599
Q ss_pred CCCCcccccchhHHHHHHhhhcC
Q psy16578 155 CPYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 155 C~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
|.+|++.|....+|.+|++..|+
T Consensus 102 C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 102 CPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCCccCCHHHHHHHHHHhcC
Confidence 99999999999999999998885
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.36 E-value=2e-12 Score=98.52 Aligned_cols=104 Identities=20% Similarity=0.400 Sum_probs=84.4
Q ss_pred CCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceec
Q psy16578 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFIC 126 (177)
Q Consensus 47 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C 126 (177)
.+.+.|..|+..|. ...|..|+..++ .++.|+ ||..+ ....|..|+..+. ..+++.|
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~thC-----------------p~Kpi~C 507 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQASTC-----------------PLRLITC 507 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhccC-----------------CCCceeC
Confidence 34578999999996 678999999986 449999 99755 5688999986655 4689999
Q ss_pred CCcccccc----------ChhHHHHHHHHhhCCCCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 127 PKCSNRYV----------YKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 127 ~~C~~~f~----------~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
.+|++.|. ....|..|.... | .+++.|..|++.+..+ .|..|+-..|
T Consensus 508 ~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G-~rt~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 508 RFCGDMVQAGGSAMDVRDRLRGMSEHESIC-G-SRTAPCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred CCCCCccccCccccchhhhhhhHHHHHHhc-C-CcceEccccCCeeeeh-hHHHHHHHhh
Confidence 99999985 235899999886 5 6669999999999876 6888987766
No 14
>PHA00733 hypothetical protein
Probab=99.21 E-value=1.5e-11 Score=77.29 Aligned_cols=85 Identities=16% Similarity=0.280 Sum_probs=67.5
Q ss_pred CCCCccccCccchhccChHHHHHH--HHHH--hCCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCC
Q psy16578 45 AGEDVFACPKCSKTYLRQYTLNAH--LRYE--CGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQL 120 (177)
Q Consensus 45 ~~~~~~~C~~C~~~f~~~~~l~~H--~~~h--~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~ 120 (177)
..++++.|.+|+..|.....|..+ ++.+ .....||.|+.|++.|.+...|..|+..+
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h------------------- 96 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT------------------- 96 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC-------------------
Confidence 345678999999999887777665 2221 12235699999999999999999998542
Q ss_pred CCceecCCccccccChhHHHHHHHHhhC
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
+.+|.|..|++.|.....|..|+...|+
T Consensus 97 ~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 97 EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 2458999999999999999999998765
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.20 E-value=7.7e-12 Score=65.42 Aligned_cols=44 Identities=20% Similarity=0.558 Sum_probs=39.7
Q ss_pred ceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccchhHHH
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLM 169 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~ 169 (177)
.|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~---k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN---TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC---CcccCCcccceecccceeE
Confidence 5899999999999999999999997 4599999999999877653
No 16
>PHA02768 hypothetical protein; Provisional
Probab=99.02 E-value=1.2e-10 Score=60.92 Aligned_cols=43 Identities=21% Similarity=0.592 Sum_probs=38.6
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHH
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLK 95 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~ 95 (177)
|.|+.||+.|....+|..|++.|. ++|+|..|++.|...+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~---k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN---TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC---CcccCCcccceecccceeE
Confidence 899999999999999999999998 3599999999998776654
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.93 E-value=1.1e-09 Score=83.87 Aligned_cols=103 Identities=17% Similarity=0.452 Sum_probs=76.8
Q ss_pred ccccCccchhccChHHHHHHHHHHhCC------------------CCceeCCCCccccccchHHHhHHHHhcCCCCCCCC
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRYECGK------------------RPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLA 110 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~h~~~------------------~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 110 (177)
...|.-|...... .+|..|...-... ...+.|+.|++.|. ...|..|+..+|
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~-~s~LekH~~~~H-------- 476 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQ-QGEMEKHMKVFH-------- 476 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccc-hHHHHHHHHhcC--------
Confidence 3468888877554 4777777543211 12467899999885 577999987765
Q ss_pred ccccccccCCCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCccccc----------chhHHHHHHhhh
Q psy16578 111 PRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCK----------LKGNLMSHIALK 175 (177)
Q Consensus 111 ~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~----------~~~~l~~H~~~~ 175 (177)
+++.|+ |++.+ .+..|..|+.+|.+ ++++.|.+|++.|. ..+.|..|..+.
T Consensus 477 -----------kpv~Cp-Cg~~~-~R~~L~~H~~thCp-~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 477 -----------EPLQCP-CGVVL-EKEQMVQHQASTCP-LRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred -----------CCccCC-CCCCc-chhHHHhhhhccCC-CCceeCCCCCCccccCccccchhhhhhhHHHHHHhc
Confidence 468999 99765 67899999999988 66699999999985 235899998753
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=98.90 E-value=9.2e-10 Score=49.43 Aligned_cols=26 Identities=42% Similarity=0.982 Sum_probs=22.7
Q ss_pred HHHHHHHHhhCCCCCccCCCCcccccc
Q psy16578 138 NLKQHLKFECGVEPQFKCPYCDKRCKL 164 (177)
Q Consensus 138 ~l~~H~~~h~~~~~~~~C~~C~~~f~~ 164 (177)
+|..|+++|++ +++|.|++|++.|++
T Consensus 1 ~l~~H~~~H~~-~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG-EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS-SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC-CCCCCCCCCcCeeCc
Confidence 48999999999 566999999999974
No 19
>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=98.83 E-value=8.2e-09 Score=55.07 Aligned_cols=52 Identities=31% Similarity=0.621 Sum_probs=42.6
Q ss_pred ceecCCccccccChhHHHHHHHHhhC-CCCCccCCCCcccccchhHHHHHHhhhcC
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECG-VEPQFKCPYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~-~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
.|.|++|++ ..+...|..|....|. +.+.+.|++|...+. .+|.+||..+|+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 489999999 5567889999886554 445699999998655 499999999986
No 20
>KOG3993|consensus
Probab=98.78 E-value=1.1e-09 Score=79.56 Aligned_cols=81 Identities=21% Similarity=0.488 Sum_probs=68.1
Q ss_pred eeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhCC---------
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGV--------- 149 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~--------- 149 (177)
|+|.+|...|.....|.+|...- . .---|+|+.|+|.|.=..+|..|.+.|...
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~R-----------I------V~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~ 330 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPR-----------I------VHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSP 330 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCe-----------e------EEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCC
Confidence 89999999999999999996211 0 112499999999999999999999998541
Q ss_pred -----------------------CCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 150 -----------------------EPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 150 -----------------------~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
.--|.|.+|++.|.+...|+.|+.+||
T Consensus 331 P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 331 PPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred ChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 013999999999999999999999887
No 21
>PHA00732 hypothetical protein
Probab=98.76 E-value=5.3e-09 Score=59.94 Aligned_cols=46 Identities=35% Similarity=0.582 Sum_probs=39.5
Q ss_pred ceecCCccccccChhHHHHHHHH-hhCCCCCccCCCCcccccchhHHHHHHhhh
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKF-ECGVEPQFKCPYCDKRCKLKGNLMSHIALK 175 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 175 (177)
||.|..|++.|.....|..|++. |.+ +.|+.|++.|. +|.+|+.++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~----~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL----TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC----CccCCCCCEeC---Chhhhhccc
Confidence 58999999999999999999985 543 68999999998 588888653
No 22
>PHA00616 hypothetical protein
Probab=98.64 E-value=1.4e-08 Score=50.67 Aligned_cols=26 Identities=19% Similarity=0.492 Sum_probs=21.8
Q ss_pred CccCCCCcccccchhHHHHHHhhhcC
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
+|+|+.||+.|..+++|.+|++.|||
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg 26 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHK 26 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcC
Confidence 48888888888888888888888876
No 23
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.63 E-value=7.2e-08 Score=51.41 Aligned_cols=52 Identities=33% Similarity=0.649 Sum_probs=41.9
Q ss_pred eeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhC
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
|.|+.|++ ..+...|..|....|.. ..+.+.|+.|...+. .+|..|+..+|+
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~---------------~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRS---------------ESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcC---------------CCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 89999999 55667899999888863 345789999998654 499999998764
No 24
>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=98.62 E-value=3.7e-08 Score=44.17 Aligned_cols=26 Identities=38% Similarity=0.947 Sum_probs=22.7
Q ss_pred HHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 64 TLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 64 ~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
+|..|++.|.++++ |.|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~-~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKP-YKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSS-EEESSSSEEESS
T ss_pred CHHHHhhhcCCCCC-CCCCCCcCeeCc
Confidence 58899999998866 999999999863
No 25
>PHA00616 hypothetical protein
Probab=98.58 E-value=2.5e-08 Score=49.75 Aligned_cols=35 Identities=17% Similarity=0.360 Sum_probs=30.9
Q ss_pred ceecCCccccccChhHHHHHHHHhhCCCCCccCCCC
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYC 158 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C 158 (177)
||.|..||+.|...+.|..|++.||++ .+|.|+.=
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~-~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ-NKLTLEYF 35 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC-CccceeEE
Confidence 589999999999999999999999995 55888753
No 26
>PHA00732 hypothetical protein
Probab=98.58 E-value=3.7e-08 Score=56.47 Aligned_cols=49 Identities=35% Similarity=0.664 Sum_probs=40.2
Q ss_pred ccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcC
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHD 103 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 103 (177)
+|.|..|++.|.+..+|..|++.++. ++.|+.|++.|. .+..|+..+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCC
Confidence 47899999999999999999985433 278999999997 58888855443
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.49 E-value=6.3e-08 Score=42.16 Aligned_cols=22 Identities=41% Similarity=0.818 Sum_probs=14.7
Q ss_pred ccCCCCcccccchhHHHHHHhh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
|.|++|++.|++..+|.+|++.
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 4566666666666666666665
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.45 E-value=1.2e-07 Score=41.68 Aligned_cols=24 Identities=38% Similarity=0.854 Sum_probs=16.6
Q ss_pred ccCCCCcccccchhHHHHHHhhhc
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
|.|++|++.|.+...|..|++.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567777777777777777777766
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.37 E-value=1.9e-07 Score=56.41 Aligned_cols=67 Identities=21% Similarity=0.455 Sum_probs=18.7
Q ss_pred eCCCCccccccchHHHhHHHHhcCCCCCCCC-----ccc-cccccCCCCceecCCccccccChhHHHHHHHHh
Q psy16578 80 KCPHCNKKCHQKCNLKSHIALKHDQLLAPLA-----PRS-YRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 80 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~-----~~~-~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
.|..|+..|.+...|..|+...|+....... ... ..........+.|..|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 3777888888888888888777764322000 000 000111123578888888888888888888865
No 30
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.31 E-value=6.2e-07 Score=38.93 Aligned_cols=23 Identities=35% Similarity=0.853 Sum_probs=21.6
Q ss_pred eecCCccccccChhHHHHHHHHh
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
|.|+.|++.|.++..|..|++.|
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 68999999999999999999875
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=98.28 E-value=3.9e-07 Score=41.26 Aligned_cols=25 Identities=24% Similarity=0.387 Sum_probs=17.0
Q ss_pred CccCCCCcccccchhHHHHHHhhhc
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
+|.|..|++.|.+..+|..|++.|+
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 3667777777777777777776665
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.17 E-value=1.6e-06 Score=52.36 Aligned_cols=51 Identities=27% Similarity=0.595 Sum_probs=21.2
Q ss_pred ccCccchhccChHHHHHHHHHHhCCC----------------------CceeCCCCccccccchHHHhHHHHh
Q psy16578 51 ACPKCSKTYLRQYTLNAHLRYECGKR----------------------PKFKCPHCNKKCHQKCNLKSHIALK 101 (177)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~~~h~~~~----------------------~~~~C~~C~~~f~~~~~l~~H~~~~ 101 (177)
+|.+|+..|.+...|..||...|+.. ..+.|..|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 48999999999999999997766421 1489999999999999999999865
No 33
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=98.08 E-value=2.1e-06 Score=37.63 Aligned_cols=24 Identities=38% Similarity=0.794 Sum_probs=17.9
Q ss_pred ccCCCCcccccchhHHHHHHhhhcC
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
|+|..|++..+ ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 67888888887 7788888888875
No 34
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.07 E-value=4.2e-06 Score=36.47 Aligned_cols=24 Identities=33% Similarity=0.798 Sum_probs=20.5
Q ss_pred eecCCccccccChhHHHHHHHHhh
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFEC 147 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~ 147 (177)
|.|..|++.|.+...|..|+.+|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 689999999999999999999875
No 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=98.02 E-value=2.1e-06 Score=43.77 Aligned_cols=32 Identities=25% Similarity=0.526 Sum_probs=14.2
Q ss_pred HhhCCCCCccCCCCcccccchhHHHHHHhhhc
Q psy16578 145 FECGVEPQFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 145 ~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
.+...+.|-.|++|+..+....+|++|+++.|
T Consensus 17 ~~~~S~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 17 SKSQSEQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp CCCTTS--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred HhhccCCCCCCCcchhhccchhhHHHHHHHHh
Confidence 33334444555555555555555555555554
No 36
>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=97.99 E-value=4.4e-06 Score=37.72 Aligned_cols=26 Identities=23% Similarity=0.684 Sum_probs=23.8
Q ss_pred ceecCCccccccChhHHHHHHHHhhC
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
+|.|..|++.|.+...|..|++.|..
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 58999999999999999999998854
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.80 E-value=1.8e-05 Score=35.01 Aligned_cols=23 Identities=35% Similarity=0.733 Sum_probs=18.5
Q ss_pred ccCCCCcccccchhHHHHHHhhh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIALK 175 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~~ 175 (177)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57888888888888888888754
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.79 E-value=1.2e-05 Score=57.09 Aligned_cols=67 Identities=30% Similarity=0.519 Sum_probs=45.7
Q ss_pred CceeCCC--CccccccchHHHhHHHHhcCCCCC--CCCccccccccCCCCceecCCccccccChhHHHHHH
Q psy16578 77 PKFKCPH--CNKKCHQKCNLKSHIALKHDQLLA--PLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHL 143 (177)
Q Consensus 77 ~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~--~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 143 (177)
+||+|++ |.+.++....|+=|+..-|..... ...+.........+|||.|.+|+|++++.-.|.-|+
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 5699988 889999999999997655532211 111111112234568999999999999888887774
No 39
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.67 E-value=2.7e-05 Score=39.80 Aligned_cols=32 Identities=25% Similarity=0.529 Sum_probs=13.8
Q ss_pred HhCCCCceeCCCCccccccchHHHhHHHHhcC
Q psy16578 72 ECGKRPKFKCPHCNKKCHQKCNLKSHIALKHD 103 (177)
Q Consensus 72 h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 103 (177)
+.....|-.|++|+..+.+..+|++|+...|+
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 33333445555555555555555555555554
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.64 E-value=2.6e-05 Score=34.41 Aligned_cols=23 Identities=30% Similarity=0.626 Sum_probs=16.9
Q ss_pred ccCCCCcccccchhHHHHHHhhh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIALK 175 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~~ 175 (177)
|.|.+|++.|++...|..|++.+
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 56777777777777777777653
No 41
>KOG2231|consensus
Probab=97.55 E-value=0.0002 Score=56.49 Aligned_cols=107 Identities=22% Similarity=0.493 Sum_probs=69.3
Q ss_pred cccCccchhcc---------------ChHHHHHHHHHHhCCCCceeCCCCcc---------ccccchHHHhHHHHhcCCC
Q psy16578 50 FACPKCSKTYL---------------RQYTLNAHLRYECGKRPKFKCPHCNK---------KCHQKCNLKSHIALKHDQL 105 (177)
Q Consensus 50 ~~C~~C~~~f~---------------~~~~l~~H~~~h~~~~~~~~C~~C~~---------~f~~~~~l~~H~~~~~~~~ 105 (177)
+.|.+|+..|. ....|+.|+..-|.. +.|.+|-. ...+...|..|++.-..
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 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKL---HLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP-- 174 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhh---hccccccccceeeeeeeehehHHHHHHHHhcCCC--
Confidence 46777776662 566778888665543 55666521 22344566667643221
Q ss_pred CCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCC------cccccchhHHHHHHhhhc
Q psy16578 106 LAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYC------DKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C------~~~f~~~~~l~~H~~~~h 176 (177)
+... -.+--.|.+|...|.....|++|++.+| |.|..| +..|+..+.|..|.|..|
T Consensus 175 ----d~~s------~rGhp~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 175 ----DDES------CRGHPLCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred ----cccc------ccCCccchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 0111 0112479999999999999999998654 556666 356888899999999877
No 42
>KOG1146|consensus
Probab=97.53 E-value=6.4e-05 Score=62.68 Aligned_cols=124 Identities=19% Similarity=0.293 Sum_probs=91.5
Q ss_pred ccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcCCCCCCCCcc--------ccccccCCCC
Q psy16578 51 ACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPR--------SYRRNSQLNG 122 (177)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~--------~~~~~~~~~~ 122 (177)
.|.-|+..+.+...+..|+..-+...+-|+|+.|+..|.....|..|++..|.......+.. .-..-..+.+
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 56677778887777777776654444559999999999999999999999775433311111 0011223457
Q ss_pred ceecCCccccccChhHHHHHHHHh--hCC----------------------------------------CCCccCCCCcc
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFE--CGV----------------------------------------EPQFKCPYCDK 160 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h--~~~----------------------------------------~~~~~C~~C~~ 160 (177)
+|.|..|...+....+|.+|+..- ... ++.+.|.+|++
T Consensus 518 p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~y 597 (1406)
T KOG1146|consen 518 PYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSY 597 (1406)
T ss_pred cccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcc
Confidence 899999999999999999998852 111 34699999999
Q ss_pred cccchhHHHHHHhh
Q psy16578 161 RCKLKGNLMSHIAL 174 (177)
Q Consensus 161 ~f~~~~~l~~H~~~ 174 (177)
.-+-..+|+.||..
T Consensus 598 etniarnlrihmts 611 (1406)
T KOG1146|consen 598 ETNIARNLRIHMTA 611 (1406)
T ss_pred hhhhhhcccccccc
Confidence 99999999999863
No 43
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.47 E-value=4e-05 Score=54.51 Aligned_cols=53 Identities=28% Similarity=0.611 Sum_probs=43.8
Q ss_pred CCceecCC--ccccccChhHHHHHHHHhhC------------------CCCCccCCCCcccccchhHHHHHHh
Q psy16578 121 NGSFICPK--CSNRYVYKHNLKQHLKFECG------------------VEPQFKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 121 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~~------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 173 (177)
++||+|++ |.|.+++.-.|.-|+.--|. +.+||.|.+|+|+++....|+-|..
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 58999975 99999999999999874221 1468999999999999988888764
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.41 E-value=0.00015 Score=31.85 Aligned_cols=24 Identities=29% Similarity=0.782 Sum_probs=21.8
Q ss_pred eecCCccccccChhHHHHHHHHhh
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFEC 147 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~ 147 (177)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999999764
No 45
>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=97.41 E-value=5.2e-05 Score=34.12 Aligned_cols=22 Identities=32% Similarity=0.597 Sum_probs=18.5
Q ss_pred ccCCCCcccccchhHHHHHHhh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
|.|..|++.|++..+|..|++.
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 7888888888888888888864
No 46
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.39 E-value=0.00021 Score=31.07 Aligned_cols=24 Identities=46% Similarity=0.762 Sum_probs=19.7
Q ss_pred eecCCccccccChhHHHHHHHHhhC
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
|.|..|+.... ...|.+|++.|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 68999999998 8899999999864
No 47
>PRK04860 hypothetical protein; Provisional
Probab=97.35 E-value=0.0005 Score=45.07 Aligned_cols=40 Identities=23% Similarity=0.615 Sum_probs=33.8
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccchh
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKG 166 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~ 166 (177)
-+|.|. |+. ....+++|.++|.+ +++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g-~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG-EAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC-CccEECCCCCceeEEec
Confidence 579998 987 67889999999999 55599999999887654
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.21 E-value=0.00027 Score=31.01 Aligned_cols=23 Identities=30% Similarity=0.782 Sum_probs=21.2
Q ss_pred eecCCccccccChhHHHHHHHHh
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
|.|..|++.|.+...|..|++.+
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 68999999999999999999865
No 49
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.93 E-value=0.0014 Score=47.46 Aligned_cols=101 Identities=24% Similarity=0.483 Sum_probs=64.9
Q ss_pred cccCc--cchhccChHHHHHHHHHHhCCCCceeCCCCc---cccccc------hHHHhHHHHhcCCCCCCCCcccccccc
Q psy16578 50 FACPK--CSKTYLRQYTLNAHLRYECGKRPKFKCPHCN---KKCHQK------CNLKSHIALKHDQLLAPLAPRSYRRNS 118 (177)
Q Consensus 50 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~---~~f~~~------~~l~~H~~~~~~~~~~~~~~~~~~~~~ 118 (177)
|.|+. |.........|..|.+..|+. +.|.+|- +.|+.+ ..|+.|...-
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~---~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G----------------- 211 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF---VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGG----------------- 211 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc---EEhHhhhcCcccCccceeeeecccccccccCC-----------------
Confidence 66755 666666667788888877764 7788873 345433 3455453111
Q ss_pred CCCCce----ecCCccccccChhHHHHHHHHhhCCCCCccCCCCc-------ccccchhHHHHHHhhh
Q psy16578 119 QLNGSF----ICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCD-------KRCKLKGNLMSHIALK 175 (177)
Q Consensus 119 ~~~~~~----~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~-------~~f~~~~~l~~H~~~~ 175 (177)
..+.+| .|.+|...|-+-+.|..|++..|. + |.+|+ +.|++...|.+|.+--
T Consensus 212 ~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE--~---ChICD~v~p~~~QYFK~Y~~Le~HF~~~ 274 (493)
T COG5236 212 LEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHE--A---CHICDMVGPIRYQYFKSYEDLEAHFRNA 274 (493)
T ss_pred ccccCcCCCchhhhccceecChHHHHHHHHhhhh--h---hhhhhccCccchhhhhCHHHHHHHhhcC
Confidence 111123 699999999999999999996543 3 44443 3577777888887643
No 50
>KOG2785|consensus
Probab=96.86 E-value=0.0016 Score=47.70 Aligned_cols=53 Identities=17% Similarity=0.266 Sum_probs=46.4
Q ss_pred CceecCCccccccChhHHHHHHHHhhCC----------------------CCCccCCCCc---ccccchhHHHHHHhh
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGV----------------------EPQFKCPYCD---KRCKLKGNLMSHIAL 174 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~----------------------~~~~~C~~C~---~~f~~~~~l~~H~~~ 174 (177)
.|-.|.+|++.+.+-..-..||..+||- ..-|.|..|. +.|.+-.+.+.||+.
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4567999999999999999999999885 2248899998 999999999999974
No 51
>KOG2893|consensus
Probab=96.69 E-value=0.00039 Score=47.65 Aligned_cols=50 Identities=26% Similarity=0.440 Sum_probs=38.6
Q ss_pred CCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccchhHHHHHHhhh
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIALK 175 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 175 (177)
..++| |.+|++.|.+..-|++|++ -+.|+|.+|.+..-+--.|..|--..
T Consensus 8 ~~kpw-cwycnrefddekiliqhqk-----akhfkchichkkl~sgpglsihcmqv 57 (341)
T KOG2893|consen 8 VDKPW-CWYCNREFDDEKILIQHQK-----AKHFKCHICHKKLFSGPGLSIHCMQV 57 (341)
T ss_pred cCCce-eeecccccchhhhhhhhhh-----hccceeeeehhhhccCCCceeehhhh
Confidence 34555 7899999999999999976 34499999998776666777665433
No 52
>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=96.65 E-value=0.00052 Score=30.78 Aligned_cols=21 Identities=33% Similarity=0.706 Sum_probs=14.6
Q ss_pred eeCCCCccccccchHHHhHHH
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIA 99 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~ 99 (177)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 567777777777777777663
No 53
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.55 E-value=0.0022 Score=28.12 Aligned_cols=21 Identities=24% Similarity=0.615 Sum_probs=13.8
Q ss_pred ccCCCCcccccchhHHHHHHhh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
..|+.|++.| ..+.|.+|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4677777777 45567777653
No 54
>KOG1146|consensus
Probab=96.51 E-value=0.00095 Score=56.10 Aligned_cols=54 Identities=24% Similarity=0.509 Sum_probs=46.9
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCC------------------------CCCccCCCCcccccchhHHHHHHhh
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGV------------------------EPQFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~------------------------~~~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
.+.|+|+.|+..|+....|-.||+..|.+ .++|.|..|.+.++...+|.+|+..
T Consensus 463 ~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 463 FKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred cccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 47899999999999999999999983322 3369999999999999999999963
No 55
>PRK04860 hypothetical protein; Provisional
Probab=96.50 E-value=0.0022 Score=42.03 Aligned_cols=39 Identities=26% Similarity=0.569 Sum_probs=32.9
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccc
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQK 91 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 91 (177)
-+|.|. |+. ...+++.|.++|.+..+ |.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~-YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAV-YRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCcc-EECCCCCceeEEe
Confidence 458998 987 56789999999999876 9999999887654
No 56
>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=96.37 E-value=0.017 Score=35.46 Aligned_cols=25 Identities=24% Similarity=0.578 Sum_probs=17.2
Q ss_pred ccC----CCCcccccchhHHHHHHhhhcC
Q psy16578 153 FKC----PYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 153 ~~C----~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
|.| ..|++.+.+...|.+|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 666 6677777777777777776665
No 57
>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=96.28 E-value=0.011 Score=36.30 Aligned_cols=27 Identities=26% Similarity=0.619 Sum_probs=22.3
Q ss_pred Cceec----CCccccccChhHHHHHHHHhhC
Q psy16578 122 GSFIC----PKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 122 ~~~~C----~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
.+|.| ..|+..+.+...+.+|++.+||
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 35888 8898888888899999888765
No 58
>KOG2482|consensus
Probab=96.28 E-value=0.014 Score=42.48 Aligned_cols=127 Identities=23% Similarity=0.373 Sum_probs=84.1
Q ss_pred CccccCccchhccC-hHHHHHHHHHHhCCC---C------------------ceeCCCCccccccchHHHhHHHHhcC-C
Q psy16578 48 DVFACPKCSKTYLR-QYTLNAHLRYECGKR---P------------------KFKCPHCNKKCHQKCNLKSHIALKHD-Q 104 (177)
Q Consensus 48 ~~~~C~~C~~~f~~-~~~l~~H~~~h~~~~---~------------------~~~C~~C~~~f~~~~~l~~H~~~~~~-~ 104 (177)
...+|-.|...+.. ++.+..|+-..|+-. + .+.|-.|.+.|..+..|..||+...- .
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrr 222 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRR 222 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcc
Confidence 34579999765544 566777765443211 0 37899999999999999999976432 1
Q ss_pred CCCC-------------CCcccccc-----------------------ccCCCCc--eecCCccccccChhHHHHHHHHh
Q psy16578 105 LLAP-------------LAPRSYRR-----------------------NSQLNGS--FICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 105 ~~~~-------------~~~~~~~~-----------------------~~~~~~~--~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
+.+. ..++++.. ...+..+ ..|.+|.....+...|..||.+-
T Consensus 223 inPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~v 302 (423)
T KOG2482|consen 223 INPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIV 302 (423)
T ss_pred cCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHH
Confidence 1110 00000000 0001112 58999999999999999999975
Q ss_pred hCC--------------------------CCCccCCCCcccccchhHHHHHHhh
Q psy16578 147 CGV--------------------------EPQFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 147 ~~~--------------------------~~~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
|.- ...-.|..|.-.|.....|..||..
T Consensus 303 He~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e 356 (423)
T KOG2482|consen 303 HEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVE 356 (423)
T ss_pred HHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccc
Confidence 542 2247789999999999999999963
No 59
>KOG4173|consensus
Probab=96.23 E-value=0.0014 Score=43.95 Aligned_cols=49 Identities=24% Similarity=0.448 Sum_probs=23.1
Q ss_pred cccCc--cchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhc
Q psy16578 50 FACPK--CSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKH 102 (177)
Q Consensus 50 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 102 (177)
+.|++ |-..|.....+..|..+-|+ -.|..|.+.|.+...|..|+.+-|
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~H 130 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEWH 130 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHHH
Confidence 44444 44445444444444332221 455555555555555555554444
No 60
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=96.10 E-value=0.0037 Score=29.73 Aligned_cols=21 Identities=19% Similarity=0.474 Sum_probs=16.4
Q ss_pred ccCCCCcccccchhHHHHHHh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~ 173 (177)
|.|.+|+..|.+..++..|+.
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred eEccccCCccCCHHHHHHHHC
Confidence 778888888887777777775
No 61
>KOG2482|consensus
Probab=96.05 E-value=0.023 Score=41.38 Aligned_cols=113 Identities=17% Similarity=0.317 Sum_probs=71.6
Q ss_pred HHHHHHHHHhCCCCceeCCCCcccc-ccchHHHhHHHHhcCCCCCCCCcccccc-----ccCCCCceecCCccccccChh
Q psy16578 64 TLNAHLRYECGKRPKFKCPHCNKKC-HQKCNLKSHIALKHDQLLAPLAPRSYRR-----NSQLNGSFICPKCSNRYVYKH 137 (177)
Q Consensus 64 ~l~~H~~~h~~~~~~~~C~~C~~~f-~~~~~l~~H~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~C~~C~~~f~~~~ 137 (177)
.|.+|++.-.+......|-.|...+ ...+.+..|+-..|+....-...-++-. -...-..+.|.+|.+.|.++-
T Consensus 130 aLeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkn 209 (423)
T KOG2482|consen 130 ALEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKN 209 (423)
T ss_pred HHHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcH
Confidence 3455555444443346799997654 5567788998888875322111111100 000112578999999999999
Q ss_pred HHHHHHHH--hhCCCC-----------------------------------------------------CccCCCCcccc
Q psy16578 138 NLKQHLKF--ECGVEP-----------------------------------------------------QFKCPYCDKRC 162 (177)
Q Consensus 138 ~l~~H~~~--h~~~~~-----------------------------------------------------~~~C~~C~~~f 162 (177)
.|+.||+. |....+ ..+|-.|....
T Consensus 210 tLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~ 289 (423)
T KOG2482|consen 210 TLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFY 289 (423)
T ss_pred HHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccch
Confidence 99999995 322111 14788888888
Q ss_pred cchhHHHHHHhhhc
Q psy16578 163 KLKGNLMSHIALKH 176 (177)
Q Consensus 163 ~~~~~l~~H~~~~h 176 (177)
-+...|..||...|
T Consensus 290 en~~~l~eHmk~vH 303 (423)
T KOG2482|consen 290 ENPVFLFEHMKIVH 303 (423)
T ss_pred hhHHHHHHHHHHHH
Confidence 87888888888776
No 62
>KOG2893|consensus
Probab=95.81 E-value=0.003 Score=43.43 Aligned_cols=49 Identities=27% Similarity=0.407 Sum_probs=40.2
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhcC
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHD 103 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 103 (177)
-.|..|++.|....-|.+|++..| |+|.+|.+...+--.|..|-...|.
T Consensus 11 pwcwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred ceeeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceeehhhhhh
Confidence 369999999999999999998776 9999999987777677777555554
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.64 E-value=0.01 Score=43.19 Aligned_cols=47 Identities=17% Similarity=0.283 Sum_probs=26.9
Q ss_pred ccCccchhccChHHHHHHHHHHhCCCCceeCCCCc----cccccchHHHhHHH
Q psy16578 51 ACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCN----KKCHQKCNLKSHIA 99 (177)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~----~~f~~~~~l~~H~~ 99 (177)
.|..|..-|.....|..|++..|.. .|+|..=+ .-|++..+|..|.+
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE~--ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHEA--CHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhhh--hhhhhccCccchhhhhCHHHHHHHhh
Confidence 4777777777777777777665532 13333222 23666666766663
No 64
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.57 E-value=0.012 Score=27.85 Aligned_cols=25 Identities=28% Similarity=0.618 Sum_probs=21.8
Q ss_pred CceecCCccccccChhHHHHHHHHh
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
.+|.|..|++.|.+...+..|+...
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChH
Confidence 4689999999999999999998753
No 65
>KOG2785|consensus
Probab=95.38 E-value=0.013 Score=43.18 Aligned_cols=129 Identities=17% Similarity=0.189 Sum_probs=75.2
Q ss_pred ccccCccchhccChHHHHHHHHH--HhCC----------------------------------CCceeCCCCccccccch
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRY--ECGK----------------------------------RPKFKCPHCNKKCHQKC 92 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~--h~~~----------------------------------~~~~~C~~C~~~f~~~~ 92 (177)
.|.|.-|...|......+.|+++ |.-. ..++.|..|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 38999999999998888888875 3200 11588999999999999
Q ss_pred HHHhHHHHhcCCCCCCCCc-------cccc-----c-ccCCCCceecCCccccccChhHHHHHHH------Hh-----hC
Q psy16578 93 NLKSHIALKHDQLLAPLAP-------RSYR-----R-NSQLNGSFICPKCSNRYVYKHNLKQHLK------FE-----CG 148 (177)
Q Consensus 93 ~l~~H~~~~~~~~~~~~~~-------~~~~-----~-~~~~~~~~~C~~C~~~f~~~~~l~~H~~------~h-----~~ 148 (177)
....|+...-......... .... . .....++-.+..+............+.. +- ..
T Consensus 83 a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e~ 162 (390)
T KOG2785|consen 83 AHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDED 162 (390)
T ss_pred hHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchhc
Confidence 9999987654321110000 0000 0 0011111012222222222111111111 11 11
Q ss_pred CCCCccCCCCcccccchhHHHHHHhhhcC
Q psy16578 149 VEPQFKCPYCDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 149 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 177 (177)
+..|-.|..|++.+.+-.....||..+||
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~Hg 191 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHG 191 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccC
Confidence 23358899999999999999999999997
No 66
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=94.68 E-value=0.026 Score=29.54 Aligned_cols=31 Identities=26% Similarity=0.650 Sum_probs=24.4
Q ss_pred CCCCCccccCccchhccChHHHHHHHHHHhC
Q psy16578 44 PAGEDVFACPKCSKTYLRQYTLNAHLRYECG 74 (177)
Q Consensus 44 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 74 (177)
-+++..+.|+-|+..|....++.+|+...|+
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 4566678899999999888888888877654
No 67
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=94.58 E-value=0.018 Score=27.08 Aligned_cols=24 Identities=29% Similarity=0.886 Sum_probs=18.2
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCcc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNK 86 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 86 (177)
|.|.+||..+.... .++.|++||.
T Consensus 2 ~~C~~CGy~y~~~~-------------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE-------------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc-------------CCCcCcCCCC
Confidence 68999998766543 4589999985
No 68
>KOG4173|consensus
Probab=94.42 E-value=0.0093 Score=40.14 Aligned_cols=78 Identities=22% Similarity=0.439 Sum_probs=64.1
Q ss_pred ceeCCC--CccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHH----------
Q psy16578 78 KFKCPH--CNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF---------- 145 (177)
Q Consensus 78 ~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~---------- 145 (177)
.|.|++ |-..|.+......|....|+ ..|.+|.+.|.+...|-.|+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~--------------------~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~v 138 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG--------------------NSCSFCKRAFPTGHLLDAHILEWHDSLFQALV 138 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc--------------------chhHHHHHhCCchhhhhHHHHHHHHHHHHHHH
Confidence 478887 67789888889999887776 4899999999999888888763
Q ss_pred hhCCCCCccCCC--CcccccchhHHHHHHhhhc
Q psy16578 146 ECGVEPQFKCPY--CDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 146 h~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h 176 (177)
-.| ...|+|-+ |+-.|.+...-..|+-..|
T Consensus 139 eRG-~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 139 ERG-QDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HcC-ccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 234 55599966 9999999999999997766
No 69
>KOG2186|consensus
Probab=94.34 E-value=0.023 Score=39.59 Aligned_cols=53 Identities=19% Similarity=0.478 Sum_probs=39.6
Q ss_pred eeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHHHHhhCCCC
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEP 151 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 151 (177)
|.|..||....-. .+.+|+...++ ..|.|..|++.|.. ..+..|...-+..++
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn------------------~~fSCIDC~k~F~~-~sYknH~kCITEaQK 56 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN------------------AYFSCIDCGKTFER-VSYKNHTKCITEAQK 56 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC------------------CeeEEeeccccccc-chhhhhhhhcchHHH
Confidence 7899999887765 46779877664 46899999999987 667888775544333
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.88 E-value=0.036 Score=29.02 Aligned_cols=29 Identities=17% Similarity=0.447 Sum_probs=19.7
Q ss_pred CCCceecCCccccccChhHHHHHHHHhhC
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
++.-+.|+.|+..|..+..+.+|...-|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 44456777777777777777777765555
No 71
>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=93.87 E-value=0.029 Score=35.56 Aligned_cols=22 Identities=36% Similarity=0.866 Sum_probs=9.3
Q ss_pred eecCCccccccChhHHHHHHHHhhC
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
..|-.||+.|+. |.+|++.|+|
T Consensus 73 i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-
T ss_pred eEEccCCcccch---HHHHHHHccC
Confidence 455556655543 2555555543
No 72
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.51 E-value=0.013 Score=44.45 Aligned_cols=58 Identities=29% Similarity=0.515 Sum_probs=49.9
Q ss_pred CccccCccchhccChHHHHHHHH--HHhCCC-CceeCC--CCccccccchHHHhHHHHhcCCC
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLR--YECGKR-PKFKCP--HCNKKCHQKCNLKSHIALKHDQL 105 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~~-~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~ 105 (177)
.++.|..|...|.....|..|.+ .|.+.. .++.|+ .|++.|.....+..|...+.+..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSIS 350 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCC
Confidence 35789999999999999999999 676662 559999 79999999999999998877654
No 73
>KOG2186|consensus
Probab=93.20 E-value=0.055 Score=37.76 Aligned_cols=49 Identities=20% Similarity=0.476 Sum_probs=38.6
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKH 102 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 102 (177)
|.|.+||...... .+.+|+-.-++ .. |.|-.|+..|.. .+...|..-..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~-fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AY-FSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-Ce-eEEeeccccccc-chhhhhhhhcc
Confidence 7899999987754 77789877665 35 999999999998 67888875443
No 74
>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=93.17 E-value=0.036 Score=38.84 Aligned_cols=20 Identities=20% Similarity=0.453 Sum_probs=11.9
Q ss_pred CCccCCCCcccccchhHHHH
Q psy16578 151 PQFKCPYCDKRCKLKGNLMS 170 (177)
Q Consensus 151 ~~~~C~~C~~~f~~~~~l~~ 170 (177)
+++.|+.|++...-...|..
T Consensus 208 k~~PCPKCg~et~eTkdLSm 227 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLSM 227 (314)
T ss_pred CCCCCCCCCCccccccccee
Confidence 45777777766555444443
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=92.81 E-value=0.082 Score=32.32 Aligned_cols=15 Identities=27% Similarity=0.913 Sum_probs=10.7
Q ss_pred CceecCCccccccCh
Q psy16578 122 GSFICPKCSNRYVYK 136 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~ 136 (177)
.|..|++||..|...
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 567788888777655
No 76
>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=92.81 E-value=0.071 Score=26.84 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=4.4
Q ss_pred ceecCCccccccC
Q psy16578 123 SFICPKCSNRYVY 135 (177)
Q Consensus 123 ~~~C~~C~~~f~~ 135 (177)
...|..|++.+..
T Consensus 16 ~a~C~~C~~~~~~ 28 (45)
T PF02892_consen 16 KAKCKYCGKVIKY 28 (45)
T ss_dssp -EEETTTTEE---
T ss_pred eEEeCCCCeEEee
Confidence 3445555444433
No 77
>KOG2231|consensus
Probab=92.79 E-value=0.15 Score=40.95 Aligned_cols=47 Identities=28% Similarity=0.563 Sum_probs=31.2
Q ss_pred ccCccchhccChHHHHHHHHHHhCCCCceeCCCC------ccccccchHHHhHHHHhc
Q psy16578 51 ACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHC------NKKCHQKCNLKSHIALKH 102 (177)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C------~~~f~~~~~l~~H~~~~~ 102 (177)
.|..|...|.....|..|++.+| |-|..| +..|.....|..|.+..|
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 57777777777777777777665 556655 234666667777776655
No 78
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.17 E-value=0.024 Score=43.04 Aligned_cols=55 Identities=25% Similarity=0.476 Sum_probs=48.7
Q ss_pred CceecCCccccccChhHHHHHHH--HhhCCC-CCccCC--CCcccccchhHHHHHHhhhc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLK--FECGVE-PQFKCP--YCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~~-~~~~C~--~C~~~f~~~~~l~~H~~~~h 176 (177)
.++.|..|...|.....|..|.+ .|.++. .++.|+ .|++.|.....+.+|...|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccccc
Confidence 36889999999999999999999 687742 679999 79999999999999998775
No 79
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=91.49 E-value=0.23 Score=26.49 Aligned_cols=30 Identities=23% Similarity=0.520 Sum_probs=17.3
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
-.|.-||........ ... |.|+.||+.--.
T Consensus 10 ~~CtSCg~~i~p~e~----------~v~-F~CPnCGe~~I~ 39 (61)
T COG2888 10 PVCTSCGREIAPGET----------AVK-FPCPNCGEVEIY 39 (61)
T ss_pred ceeccCCCEeccCCc----------eeE-eeCCCCCceeee
Confidence 357778765422211 113 999999965433
No 80
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=91.47 E-value=0.03 Score=38.76 Aligned_cols=44 Identities=20% Similarity=0.538 Sum_probs=28.2
Q ss_pred CccccCccchhccChHHHHHHHHHH---------hCCCC-----ceeCCCCccccccc
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYE---------CGKRP-----KFKCPHCNKKCHQK 91 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h---------~~~~~-----~~~C~~C~~~f~~~ 91 (177)
+...|++|+..|....-.....+.- ..... ...|+.||.+|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4578999999999875444443321 11112 24799999987654
No 81
>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=91.25 E-value=0.11 Score=24.54 Aligned_cols=25 Identities=32% Similarity=0.721 Sum_probs=17.7
Q ss_pred ccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcc
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNK 86 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 86 (177)
.|.|.+||..+.... +|..|+.||.
T Consensus 2 ~~~C~~CG~i~~g~~-------------~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGEE-------------APEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECCc-------------CCCcCcCCCC
Confidence 378899987765431 4578999985
No 82
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=90.63 E-value=0.13 Score=32.27 Aligned_cols=21 Identities=29% Similarity=0.586 Sum_probs=11.4
Q ss_pred eecCCccccccChhHHHHHHHHhh
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFEC 147 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~ 147 (177)
..|..+|+.|+ .|.+|+.+|.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~ 97 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHY 97 (148)
T ss_pred EEEeccCcchH---HHHHHHhccc
Confidence 34666666653 3555555553
No 83
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=90.08 E-value=0.23 Score=25.68 Aligned_cols=12 Identities=17% Similarity=0.473 Sum_probs=6.3
Q ss_pred eecCCccccccC
Q psy16578 124 FICPKCSNRYVY 135 (177)
Q Consensus 124 ~~C~~C~~~f~~ 135 (177)
-.|..|++.+..
T Consensus 19 a~C~~C~~~l~~ 30 (50)
T smart00614 19 AKCKYCGKKLSR 30 (50)
T ss_pred EEecCCCCEeee
Confidence 355556555543
No 84
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=90.01 E-value=0.037 Score=38.31 Aligned_cols=45 Identities=22% Similarity=0.603 Sum_probs=28.4
Q ss_pred CCceecCCccccccChhHHHHHHHH---hh-------CCCC----CccCCCCcccccch
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKF---EC-------GVEP----QFKCPYCDKRCKLK 165 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~---h~-------~~~~----~~~C~~C~~~f~~~ 165 (177)
++.+.|++|+..|....-.....+. .. +..+ ...|+.||+.|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4668999999999876433333321 11 1111 26899999987644
No 85
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=89.69 E-value=0.25 Score=24.87 Aligned_cols=28 Identities=18% Similarity=0.647 Sum_probs=20.1
Q ss_pred ccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccc
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKC 88 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 88 (177)
.|.|..||..|... .. .+..|+.||...
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~~-~~irC~~CG~rI 29 (44)
T smart00659 2 IYICGECGRENEIK-----------SK-DVVRCRECGYRI 29 (44)
T ss_pred EEECCCCCCEeecC-----------CC-CceECCCCCceE
Confidence 37899999987744 22 348999998653
No 86
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=89.08 E-value=0.36 Score=24.45 Aligned_cols=12 Identities=25% Similarity=0.980 Sum_probs=9.4
Q ss_pred eeCCCCcccccc
Q psy16578 79 FKCPHCNKKCHQ 90 (177)
Q Consensus 79 ~~C~~C~~~f~~ 90 (177)
|.|+.||..|..
T Consensus 4 y~C~~CG~~~~~ 15 (46)
T PRK00398 4 YKCARCGREVEL 15 (46)
T ss_pred EECCCCCCEEEE
Confidence 889999977644
No 87
>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=88.99 E-value=0.4 Score=21.10 Aligned_cols=20 Identities=25% Similarity=0.622 Sum_probs=15.0
Q ss_pred ccCCCCcccccchhHHHHHHh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~ 173 (177)
..|++|++.+ ....+..|+-
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4688888887 5567788875
No 88
>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=88.22 E-value=0.18 Score=23.09 Aligned_cols=26 Identities=35% Similarity=0.860 Sum_probs=12.7
Q ss_pred ecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccc
Q psy16578 125 ICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRC 162 (177)
Q Consensus 125 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 162 (177)
+|+.|+..+.. ..+.. |.|+.|+..+
T Consensus 4 ~Cp~C~se~~y-----------~D~~~-~vCp~C~~ew 29 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGEL-LVCPECGHEW 29 (30)
T ss_dssp --TTT-----E-----------E-SSS-EEETTTTEEE
T ss_pred CCCCCCCccee-----------ccCCE-EeCCcccccC
Confidence 68888877665 33244 9999998754
No 89
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=88.15 E-value=0.32 Score=23.30 Aligned_cols=34 Identities=18% Similarity=0.504 Sum_probs=23.7
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCccccc
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCK 163 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~ 163 (177)
..|+.|+..|.-...... .. ....+|+.|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~~ip-----~~-g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIP-----PK-GRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCC-----CC-CcEEECCCCCCEeC
Confidence 578999998877765432 12 33489999998773
No 90
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=87.91 E-value=0.47 Score=25.38 Aligned_cols=33 Identities=24% Similarity=0.818 Sum_probs=20.3
Q ss_pred CceecCCccccccCh-hHHHHHHHHhhCCCCCccCCCCccc
Q psy16578 122 GSFICPKCSNRYVYK-HNLKQHLKFECGVEPQFKCPYCDKR 161 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~-~~l~~H~~~h~~~~~~~~C~~C~~~ 161 (177)
-.|.|+.||...-.+ ..-+ .. ..+|.|+.||+.
T Consensus 24 ~~F~CPnCG~~~I~RC~~CR----k~---~~~Y~CP~CGF~ 57 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCR----KQ---SNPYTCPKCGFE 57 (59)
T ss_pred CEeeCCCCCCeeEeechhHH----hc---CCceECCCCCCc
Confidence 358999999763222 1111 11 345999999963
No 91
>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=87.69 E-value=0.4 Score=31.58 Aligned_cols=32 Identities=31% Similarity=0.786 Sum_probs=25.2
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRC 162 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 162 (177)
..-|.|+.|+..|..-..+. . .|.|+.||...
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~-~F~Cp~Cg~~L 138 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------L-NFTCPRCGAML 138 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------c-CCcCCCCCCEe
Confidence 45699999999998777774 1 39999999653
No 92
>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=87.56 E-value=0.45 Score=29.78 Aligned_cols=15 Identities=7% Similarity=0.213 Sum_probs=9.5
Q ss_pred CceecCCccccccCh
Q psy16578 122 GSFICPKCSNRYVYK 136 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~ 136 (177)
.|..|++||..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 456777777666544
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=87.20 E-value=0.45 Score=31.45 Aligned_cols=23 Identities=35% Similarity=0.949 Sum_probs=19.3
Q ss_pred ceecCCccccccChhHHHHHHHHhhCCCCCccCCCCc
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCD 159 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~ 159 (177)
.|.|++||.. +-+ +.|-+|++||
T Consensus 134 ~~vC~vCGy~-------------~~g-e~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEG-EAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccC-CCCCcCCCCC
Confidence 6999999865 446 8889999998
No 94
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=87.17 E-value=0.57 Score=22.54 Aligned_cols=34 Identities=21% Similarity=0.541 Sum_probs=22.3
Q ss_pred eeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCcccccc
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYV 134 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~ 134 (177)
+.|+.|+..|.-...... .......|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~----------------------~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLG----------------------ANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcC----------------------CCCCEEECCCCCCEEE
Confidence 679999988766643321 0223578999998774
No 95
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=87.04 E-value=0.18 Score=28.33 Aligned_cols=40 Identities=18% Similarity=0.288 Sum_probs=24.1
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCC--CCcccccchh
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCP--YCDKRCKLKG 166 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~--~C~~~f~~~~ 166 (177)
+.|+.|+..-.....-..... ..+..++|. .||.+|....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~---~~~~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT---TKERYHQCQNVNCSATFITYE 43 (72)
T ss_pred ccCCCCCCccEEEEChhcChh---hheeeeecCCCCCCCEEEEEE
Confidence 578888866543332222211 226668998 8999887653
No 96
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=86.15 E-value=0.11 Score=33.87 Aligned_cols=14 Identities=29% Similarity=0.439 Sum_probs=10.6
Q ss_pred ccCCCCcccccchh
Q psy16578 153 FKCPYCDKRCKLKG 166 (177)
Q Consensus 153 ~~C~~C~~~f~~~~ 166 (177)
++|+.||++|....
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 78888888887654
No 97
>PF15269 zf-C2H2_7: Zinc-finger
Probab=85.85 E-value=0.55 Score=23.44 Aligned_cols=20 Identities=25% Similarity=0.497 Sum_probs=11.1
Q ss_pred eecCCccccccChhHHHHHH
Q psy16578 124 FICPKCSNRYVYKHNLKQHL 143 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~ 143 (177)
|+|-+|...+..++.|..||
T Consensus 21 ykcfqcpftc~~kshl~nhm 40 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHM 40 (54)
T ss_pred ceeecCCcccchHHHHHHHH
Confidence 45555555555555555554
No 98
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=85.55 E-value=0.59 Score=27.13 Aligned_cols=15 Identities=27% Similarity=0.864 Sum_probs=12.5
Q ss_pred CCCceecCCcccccc
Q psy16578 120 LNGSFICPKCSNRYV 134 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~ 134 (177)
..+.|.|..|+..|.
T Consensus 50 a~GIW~C~kCg~~fA 64 (89)
T COG1997 50 ATGIWKCRKCGAKFA 64 (89)
T ss_pred ccCeEEcCCCCCeec
Confidence 456799999999885
No 99
>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=85.45 E-value=0.62 Score=29.60 Aligned_cols=23 Identities=35% Similarity=0.661 Sum_probs=15.2
Q ss_pred eeCCCCccccccchHHHhHHHHhcCC
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQ 104 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~ 104 (177)
..|-+||+.|+. |.+|+..|||.
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eEEccCCcccch---HHHHHHHccCC
Confidence 679999988876 58899888875
No 100
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=85.29 E-value=0.56 Score=31.54 Aligned_cols=32 Identities=31% Similarity=0.899 Sum_probs=24.4
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRC 162 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 162 (177)
..-|.|+.|+..|..-..+. . .|.|+.||...
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~-~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------Y-GFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------c-CCcCCCCCCCC
Confidence 35699999999998776652 2 39999999643
No 101
>KOG4167|consensus
Probab=84.82 E-value=0.52 Score=38.22 Aligned_cols=30 Identities=23% Similarity=0.615 Sum_probs=25.5
Q ss_pred CCCccccCccchhccChHHHHHHHHHHhCC
Q psy16578 46 GEDVFACPKCSKTYLRQYTLNAHLRYECGK 75 (177)
Q Consensus 46 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 75 (177)
...-|.|.+|++.|....++..||++|.-.
T Consensus 789 ~~giFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 789 PTGIFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred CCceeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 345589999999999999999999999744
No 102
>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=84.68 E-value=0.88 Score=21.15 Aligned_cols=12 Identities=33% Similarity=1.013 Sum_probs=7.9
Q ss_pred CceecCCccccc
Q psy16578 122 GSFICPKCSNRY 133 (177)
Q Consensus 122 ~~~~C~~C~~~f 133 (177)
.+..|+.||...
T Consensus 16 ~~irC~~CG~RI 27 (32)
T PF03604_consen 16 DPIRCPECGHRI 27 (32)
T ss_dssp STSSBSSSS-SE
T ss_pred CcEECCcCCCeE
Confidence 457888888654
No 103
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=84.34 E-value=0.58 Score=30.39 Aligned_cols=37 Identities=24% Similarity=0.671 Sum_probs=22.9
Q ss_pred CCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccc
Q psy16578 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKC 88 (177)
Q Consensus 47 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 88 (177)
...|.|+.|+..|....++.. . . .... |.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~-f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL-L--D-MDGT-FTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh-c--C-CCCc-EECCCCCCEE
Confidence 445888888888875444322 1 1 1223 8888888764
No 104
>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=84.14 E-value=0.74 Score=30.33 Aligned_cols=32 Identities=22% Similarity=0.600 Sum_probs=24.5
Q ss_pred CCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccc
Q psy16578 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKC 88 (177)
Q Consensus 47 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 88 (177)
..-|.|+.|+..|+...++.. . |.|+.||...
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~~---------~-F~Cp~Cg~~L 138 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAMEL---------N-FTCPRCGAML 138 (158)
T ss_pred CCeEECCCCCcEeeHHHHHHc---------C-CcCCCCCCEe
Confidence 345889999998888877741 3 9999999763
No 105
>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=84.06 E-value=0.42 Score=23.74 Aligned_cols=14 Identities=14% Similarity=0.631 Sum_probs=11.3
Q ss_pred eeCCCCccccccch
Q psy16578 79 FKCPHCNKKCHQKC 92 (177)
Q Consensus 79 ~~C~~C~~~f~~~~ 92 (177)
|.|..||..|....
T Consensus 6 y~C~~Cg~~fe~~~ 19 (42)
T PF09723_consen 6 YRCEECGHEFEVLQ 19 (42)
T ss_pred EEeCCCCCEEEEEE
Confidence 88999998886653
No 106
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=83.18 E-value=1.3 Score=21.29 Aligned_cols=34 Identities=21% Similarity=0.573 Sum_probs=22.7
Q ss_pred eeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCcccccc
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYV 134 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~ 134 (177)
..|+.|+..|.-..+-. ....+...|..|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~l----------------------~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKL----------------------PAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHc----------------------ccCCcEEECCCCCcEee
Confidence 57888988887664321 11345689999988774
No 107
>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=83.16 E-value=0.68 Score=32.06 Aligned_cols=25 Identities=16% Similarity=0.458 Sum_probs=14.0
Q ss_pred CCceecCCccccccChhHHHHHHHH
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
+..|.|..|+|.|+-..-.++|+..
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhh
Confidence 3346666666666666666666654
No 108
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=83.12 E-value=0.57 Score=22.84 Aligned_cols=13 Identities=15% Similarity=0.713 Sum_probs=10.5
Q ss_pred eeCCCCccccccc
Q psy16578 79 FKCPHCNKKCHQK 91 (177)
Q Consensus 79 ~~C~~C~~~f~~~ 91 (177)
|.|+.||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (41)
T smart00834 6 YRCEDCGHTFEVL 18 (41)
T ss_pred EEcCCCCCEEEEE
Confidence 7899999888654
No 109
>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=82.85 E-value=1 Score=31.25 Aligned_cols=26 Identities=31% Similarity=0.617 Sum_probs=18.7
Q ss_pred eeCCCCccccccchHHHhHHHHhcCC
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQ 104 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~ 104 (177)
|.|++|++.|...--+..|+...|..
T Consensus 78 ~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 78 WRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred ECCCCCCcccCChHHHHHHHhhcCHH
Confidence 88888888888888888888888864
No 110
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=82.60 E-value=0.77 Score=30.88 Aligned_cols=31 Identities=26% Similarity=0.759 Sum_probs=23.3
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccc
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKC 88 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 88 (177)
.-|.|+.|+..|+...++. .. |.|+.||...
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~-F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YG-FRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cC-CcCCCCCCCC
Confidence 4588999998888877653 13 9999998753
No 111
>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=82.45 E-value=0.63 Score=20.49 Aligned_cols=11 Identities=27% Similarity=0.603 Sum_probs=6.0
Q ss_pred ccCCCCccccc
Q psy16578 153 FKCPYCDKRCK 163 (177)
Q Consensus 153 ~~C~~C~~~f~ 163 (177)
-.|+.||+.|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 34666666553
No 112
>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=81.86 E-value=0.5 Score=24.55 Aligned_cols=30 Identities=23% Similarity=0.790 Sum_probs=20.2
Q ss_pred ceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcc
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDK 160 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 160 (177)
.|.|..|+..|.....+.. ...-.|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~--------~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSD--------DPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecCC--------CCCCCCCCCCC
Confidence 3899999998875432211 23367999985
No 113
>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=81.13 E-value=0.76 Score=27.01 Aligned_cols=15 Identities=27% Similarity=0.895 Sum_probs=12.3
Q ss_pred CCCceecCCcccccc
Q psy16578 120 LNGSFICPKCSNRYV 134 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~ 134 (177)
..+.|.|..|++.|.
T Consensus 50 a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 50 ATGIWKCKKCGKKFA 64 (90)
T ss_dssp ETTEEEETTTTEEEE
T ss_pred eeEEeecCCCCCEEe
Confidence 456799999998885
No 114
>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=79.96 E-value=0.47 Score=21.29 Aligned_cols=21 Identities=29% Similarity=0.615 Sum_probs=10.5
Q ss_pred eecCCccccccChhHHHHHHHH
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
|.|..|++.| .......|-.-
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~C 21 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTSC 21 (28)
T ss_dssp EEETTTTEEE-EGGGTTT----
T ss_pred CeeecCCCCc-CcCCcCCCCcc
Confidence 4677777777 44445555443
No 115
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=79.52 E-value=1.4 Score=22.68 Aligned_cols=11 Identities=27% Similarity=1.141 Sum_probs=9.3
Q ss_pred ceeCCCCcccc
Q psy16578 78 KFKCPHCNKKC 88 (177)
Q Consensus 78 ~~~C~~C~~~f 88 (177)
.|.|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 38999999888
No 116
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=78.50 E-value=1.1 Score=26.31 Aligned_cols=15 Identities=20% Similarity=0.525 Sum_probs=12.3
Q ss_pred CCCceecCCcccccc
Q psy16578 120 LNGSFICPKCSNRYV 134 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~ 134 (177)
..+.|.|..|++.|.
T Consensus 51 a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 51 AVGIWRCKGCKKTVA 65 (90)
T ss_pred eeEEEEcCCCCCEEe
Confidence 457799999998885
No 117
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=78.37 E-value=0.55 Score=38.58 Aligned_cols=12 Identities=25% Similarity=0.631 Sum_probs=9.1
Q ss_pred CCCccCCCCccc
Q psy16578 150 EPQFKCPYCDKR 161 (177)
Q Consensus 150 ~~~~~C~~C~~~ 161 (177)
..|..|+.||-.
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 566899999843
No 118
>KOG3408|consensus
Probab=77.25 E-value=1.2 Score=27.57 Aligned_cols=22 Identities=27% Similarity=0.424 Sum_probs=13.7
Q ss_pred CccCCCCcccccchhHHHHHHh
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~ 173 (177)
.|.|-.|.+-|.+..+|..|.+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHh
Confidence 3666666666666666666655
No 119
>PHA00626 hypothetical protein
Probab=76.49 E-value=1.1 Score=23.68 Aligned_cols=14 Identities=14% Similarity=0.358 Sum_probs=10.9
Q ss_pred CccCCCCcccccch
Q psy16578 152 QFKCPYCDKRCKLK 165 (177)
Q Consensus 152 ~~~C~~C~~~f~~~ 165 (177)
.|.|+.||+.|+..
T Consensus 23 rYkCkdCGY~ft~~ 36 (59)
T PHA00626 23 DYVCCDCGYNDSKD 36 (59)
T ss_pred ceEcCCCCCeechh
Confidence 48898898888754
No 120
>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=76.48 E-value=1.3 Score=26.14 Aligned_cols=15 Identities=27% Similarity=0.877 Sum_probs=12.4
Q ss_pred CCCceecCCcccccc
Q psy16578 120 LNGSFICPKCSNRYV 134 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~ 134 (177)
..+.|.|..|++.|.
T Consensus 50 a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 50 STGIWTCRKCGAKFA 64 (91)
T ss_pred eeEEEEcCCCCCEEe
Confidence 457799999998885
No 121
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=76.19 E-value=1.8 Score=23.06 Aligned_cols=47 Identities=32% Similarity=0.782 Sum_probs=27.6
Q ss_pred CceecCC--ccccccChhHHHHHHHHhhCCCCCccCCC----CcccccchhHHHHH
Q psy16578 122 GSFICPK--CSNRYVYKHNLKQHLKFECGVEPQFKCPY----CDKRCKLKGNLMSH 171 (177)
Q Consensus 122 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~C~~----C~~~f~~~~~l~~H 171 (177)
.+..|+. |...+. +..|..|+...-. ..+..|.+ |+..+... .|.+|
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~-~~~v~C~~~~~GC~~~~~~~-~l~~H 60 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECP-KRPVPCPYSPYGCKERVPRE-DLEEH 60 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTST-TSEEE-SS----S--EEEHH-HHHHC
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCC-CCcEECCCCCCCCCCccchh-HHhCC
Confidence 4578887 545454 6679999986545 44589999 98887754 34443
No 122
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=76.07 E-value=1.6 Score=33.30 Aligned_cols=17 Identities=29% Similarity=0.554 Sum_probs=12.4
Q ss_pred CCceecCCccccccChh
Q psy16578 121 NGSFICPKCSNRYVYKH 137 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~ 137 (177)
.+.|.|+.|+..+....
T Consensus 365 ~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 365 RNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCcccccccccCCccc
Confidence 33789999988876544
No 123
>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=75.80 E-value=1.4 Score=18.97 Aligned_cols=7 Identities=57% Similarity=1.834 Sum_probs=4.7
Q ss_pred eeCCCCc
Q psy16578 79 FKCPHCN 85 (177)
Q Consensus 79 ~~C~~C~ 85 (177)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 6666666
No 124
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=75.43 E-value=5.2 Score=29.85 Aligned_cols=23 Identities=26% Similarity=0.530 Sum_probs=19.8
Q ss_pred ccccCccchhccChHHHHHHHHH
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRY 71 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~ 71 (177)
.+-|..|++.|.....+..|...
T Consensus 238 ~~YC~~C~r~f~~~~VFe~Hl~g 260 (470)
T COG5188 238 KVYCVKCGREFSRSKVFEYHLEG 260 (470)
T ss_pred ceeeHhhhhHhhhhHHHHHHHhh
Confidence 36799999999998899998764
No 125
>PF12907 zf-met2: Zinc-binding
Probab=74.47 E-value=2.1 Score=21.02 Aligned_cols=24 Identities=25% Similarity=0.430 Sum_probs=15.1
Q ss_pred ccCCCCccccc---chhHHHHHHhhhc
Q psy16578 153 FKCPYCDKRCK---LKGNLMSHIALKH 176 (177)
Q Consensus 153 ~~C~~C~~~f~---~~~~l~~H~~~~h 176 (177)
++|.+|...|. +...|..|....|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKH 28 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKH 28 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccC
Confidence 56777875443 3355777776555
No 126
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=73.87 E-value=1.2 Score=23.58 Aligned_cols=41 Identities=15% Similarity=0.307 Sum_probs=24.6
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
.+|.+|++.+.-..+-..-.+........|.|..|......
T Consensus 3 vkC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~RI~~ 43 (56)
T PF09963_consen 3 VKCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKERIRE 43 (56)
T ss_pred eEEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHHHhH
Confidence 47899998776554433333333333345999999765433
No 127
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=72.99 E-value=6.9 Score=19.26 Aligned_cols=24 Identities=25% Similarity=0.516 Sum_probs=16.8
Q ss_pred cccCccchhccC--hHHHHHHHHHHh
Q psy16578 50 FACPKCSKTYLR--QYTLNAHLRYEC 73 (177)
Q Consensus 50 ~~C~~C~~~f~~--~~~l~~H~~~h~ 73 (177)
-.|..||+.|.. ..+-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 579999988776 355666766653
No 128
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=72.56 E-value=1.8 Score=25.52 Aligned_cols=15 Identities=27% Similarity=0.780 Sum_probs=12.3
Q ss_pred CCCceecCCcccccc
Q psy16578 120 LNGSFICPKCSNRYV 134 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~ 134 (177)
..+.|.|..|++.|.
T Consensus 51 a~GIW~C~~C~~~~A 65 (90)
T PRK03976 51 GTGIWECRKCGAKFA 65 (90)
T ss_pred EEEEEEcCCCCCEEe
Confidence 456799999998885
No 129
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.04 E-value=2.3 Score=25.89 Aligned_cols=14 Identities=14% Similarity=0.406 Sum_probs=10.9
Q ss_pred CCceecCCcccccc
Q psy16578 121 NGSFICPKCSNRYV 134 (177)
Q Consensus 121 ~~~~~C~~C~~~f~ 134 (177)
..|..|++||++|.
T Consensus 24 rdPiVsPytG~s~P 37 (129)
T COG4530 24 RDPIVSPYTGKSYP 37 (129)
T ss_pred CCccccCcccccch
Confidence 35788899998883
No 130
>KOG4167|consensus
Probab=71.30 E-value=1.1 Score=36.39 Aligned_cols=24 Identities=21% Similarity=0.290 Sum_probs=20.6
Q ss_pred CccCCCCcccccchhHHHHHHhhh
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIALK 175 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~~~ 175 (177)
-|.|.+|++.|-.-..+..||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 389999999988888888898877
No 131
>PF14353 CpXC: CpXC protein
Probab=70.81 E-value=4.1 Score=25.64 Aligned_cols=40 Identities=30% Similarity=0.796 Sum_probs=23.7
Q ss_pred eecCCccccccCh----------hHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 124 FICPKCSNRYVYK----------HNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 124 ~~C~~C~~~f~~~----------~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
..|+.|+..|... ..|+. ..-.|.--.|.|+.||..|.-.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e--~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKE--KILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHH--HHHcCCcCEEECCCCCCceecC
Confidence 3688888777542 22332 2224444458899998877543
No 132
>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=70.35 E-value=2.1 Score=25.98 Aligned_cols=29 Identities=34% Similarity=0.804 Sum_probs=17.9
Q ss_pred ecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 125 ICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 125 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
.|+.|...|.+.. .. .|.|++|++.++..
T Consensus 4 ~CP~C~seytY~d-----------g~-~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHD-----------GT-QLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEec-----------CC-eeECcccccccccc
Confidence 4777766665542 13 37788887777644
No 133
>KOG4727|consensus
Probab=69.59 E-value=2.4 Score=28.06 Aligned_cols=20 Identities=35% Similarity=0.634 Sum_probs=10.8
Q ss_pred ccCCCCcccccchhHHHHHH
Q psy16578 153 FKCPYCDKRCKLKGNLMSHI 172 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~ 172 (177)
|.|.+|+..|..+.++..|+
T Consensus 76 yyCdVCdcvvKDSinflDHi 95 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHI 95 (193)
T ss_pred eeeeecceeehhhHHHHHHh
Confidence 55555555555555555554
No 134
>KOG3408|consensus
Probab=68.18 E-value=6.6 Score=24.45 Aligned_cols=32 Identities=19% Similarity=0.568 Sum_probs=25.0
Q ss_pred CCCCCCCCccccCccchhccChHHHHHHHHHH
Q psy16578 41 EDKPAGEDVFACPKCSKTYLRQYTLNAHLRYE 72 (177)
Q Consensus 41 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 72 (177)
.....|...|.|-.|.+-|.+...|..|.++.
T Consensus 49 D~dlPG~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 49 DPDLPGGGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CCCCCCCceeehhhhhhhhcchHHHHHHHhcc
Confidence 33445566688999999999999999998764
No 135
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=68.00 E-value=3 Score=24.48 Aligned_cols=13 Identities=15% Similarity=0.559 Sum_probs=11.3
Q ss_pred ceeCCCCcccccc
Q psy16578 78 KFKCPHCNKKCHQ 90 (177)
Q Consensus 78 ~~~C~~C~~~f~~ 90 (177)
|-.|..||+.|..
T Consensus 58 Pa~CkkCGfef~~ 70 (97)
T COG3357 58 PARCKKCGFEFRD 70 (97)
T ss_pred ChhhcccCccccc
Confidence 5789999999976
No 136
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=67.78 E-value=4.2 Score=20.97 Aligned_cols=38 Identities=18% Similarity=0.600 Sum_probs=22.8
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCC-CCCccCCCCc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGV-EPQFKCPYCD 159 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~~~C~~C~ 159 (177)
++.+.|..||..|.....=+.-... .|- ..|-.|..|-
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~fy~e-Kgf~n~p~RC~~CR 40 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQKFYAE-KGFDNEPKRCPSCR 40 (49)
T ss_pred CeeEEcccCCCeEEEehhHHHHHHh-cCCcCCCccCHHHH
Confidence 4678999999888765443333333 221 2346677664
No 137
>PRK10220 hypothetical protein; Provisional
Probab=65.79 E-value=3.3 Score=25.23 Aligned_cols=29 Identities=31% Similarity=0.876 Sum_probs=17.4
Q ss_pred ecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 125 ICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 125 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
.|+.|...|.+.. ...|.|++|++.++..
T Consensus 5 ~CP~C~seytY~d------------~~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 5 HCPKCNSEYTYED------------NGMYICPECAHEWNDA 33 (111)
T ss_pred cCCCCCCcceEcC------------CCeEECCcccCcCCcc
Confidence 4677766654433 2237777777776644
No 138
>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=65.62 E-value=4.4 Score=19.92 Aligned_cols=13 Identities=46% Similarity=1.311 Sum_probs=9.8
Q ss_pred CCceecCCccccc
Q psy16578 121 NGSFICPKCSNRY 133 (177)
Q Consensus 121 ~~~~~C~~C~~~f 133 (177)
.++-.|++|+..|
T Consensus 27 ~~~~~CpYCg~~y 39 (40)
T PF10276_consen 27 PGPVVCPYCGTRY 39 (40)
T ss_dssp TCEEEETTTTEEE
T ss_pred CCeEECCCCCCEE
Confidence 3567889998776
No 139
>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=63.65 E-value=5.1 Score=22.04 Aligned_cols=31 Identities=26% Similarity=0.594 Sum_probs=20.9
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
-.|+.|+..... ......|.|+.||..+...
T Consensus 29 q~C~~CG~~~~~-----------~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 29 QTCPRCGHRNKK-----------RRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred cCccCccccccc-----------ccccceEEcCCCCCEECcH
Confidence 368889876544 1224459999999876654
No 140
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=62.73 E-value=6.8 Score=20.29 Aligned_cols=12 Identities=25% Similarity=0.612 Sum_probs=8.2
Q ss_pred CceecCCccccc
Q psy16578 122 GSFICPKCSNRY 133 (177)
Q Consensus 122 ~~~~C~~C~~~f 133 (177)
..+.|..|+..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 457888887553
No 141
>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=62.64 E-value=2.1 Score=22.65 Aligned_cols=10 Identities=40% Similarity=1.308 Sum_probs=4.9
Q ss_pred eeCCCCcccc
Q psy16578 79 FKCPHCNKKC 88 (177)
Q Consensus 79 ~~C~~C~~~f 88 (177)
|.|+.||..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 4455555443
No 142
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=62.58 E-value=6.7 Score=18.97 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=3.8
Q ss_pred ccCCCCcccc
Q psy16578 153 FKCPYCDKRC 162 (177)
Q Consensus 153 ~~C~~C~~~f 162 (177)
|.|++|..-|
T Consensus 4 yyCdyC~~~~ 13 (38)
T PF06220_consen 4 YYCDYCKKYL 13 (38)
T ss_dssp -B-TTT--B-
T ss_pred eeccccccee
Confidence 7777777777
No 143
>KOG2593|consensus
Probab=62.33 E-value=4.8 Score=30.85 Aligned_cols=37 Identities=32% Similarity=0.749 Sum_probs=22.1
Q ss_pred CCCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcc
Q psy16578 46 GEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNK 86 (177)
Q Consensus 46 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 86 (177)
....|.|+.|.+.|..-.+++- +-.-.+ . |.|..|+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L-~~~~~~--~-F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL-LDNETG--E-FHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHh-hcccCc--e-EEEecCCC
Confidence 3345888888888876554422 111122 2 88888864
No 144
>KOG1280|consensus
Probab=61.97 E-value=7.7 Score=28.90 Aligned_cols=27 Identities=22% Similarity=0.578 Sum_probs=24.0
Q ss_pred ceeCCCCccccccchHHHhHHHHhcCC
Q psy16578 78 KFKCPHCNKKCHQKCNLKSHIALKHDQ 104 (177)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~~~~ 104 (177)
.|.|+.|++.-.+...|..|....|..
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcc
Confidence 489999999988999999999888875
No 145
>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=61.73 E-value=6.6 Score=30.69 Aligned_cols=28 Identities=29% Similarity=0.495 Sum_probs=24.2
Q ss_pred ceeCCCCccccccchHHHhHHHHhcCCC
Q psy16578 78 KFKCPHCNKKCHQKCNLKSHIALKHDQL 105 (177)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 105 (177)
=+.|+.|.+.|.....+..|+...|...
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 3679999999999999999999888653
No 146
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=59.79 E-value=3.1 Score=34.43 Aligned_cols=12 Identities=25% Similarity=0.670 Sum_probs=8.7
Q ss_pred CCceecCCcccc
Q psy16578 121 NGSFICPKCSNR 132 (177)
Q Consensus 121 ~~~~~C~~C~~~ 132 (177)
..|..|+.|+..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 356788888855
No 147
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=58.19 E-value=17 Score=23.08 Aligned_cols=16 Identities=13% Similarity=0.663 Sum_probs=12.2
Q ss_pred CCceecCCccccccCh
Q psy16578 121 NGSFICPKCSNRYVYK 136 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~ 136 (177)
...|.|+.|++.|...
T Consensus 51 ~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccCCcCcceeee
Confidence 4568899999888754
No 148
>PRK04023 DNA polymerase II large subunit; Validated
Probab=57.95 E-value=15 Score=31.63 Aligned_cols=12 Identities=33% Similarity=0.722 Sum_probs=8.3
Q ss_pred CCccccCccchh
Q psy16578 47 EDVFACPKCSKT 58 (177)
Q Consensus 47 ~~~~~C~~C~~~ 58 (177)
.....|+.||..
T Consensus 624 Vg~RfCpsCG~~ 635 (1121)
T PRK04023 624 IGRRKCPSCGKE 635 (1121)
T ss_pred ccCccCCCCCCc
Confidence 344678888876
No 149
>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=57.39 E-value=6 Score=24.53 Aligned_cols=26 Identities=23% Similarity=0.640 Sum_probs=19.1
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDK 160 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 160 (177)
....|..|+..|..... .+.|+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~~-------------~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECEDCSEEVSPEID-------------LYRCPKCHG 94 (115)
T ss_pred cEEEcccCCCEEecCCc-------------CccCcCCcC
Confidence 35789999988765432 378999984
No 150
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=57.13 E-value=10 Score=25.07 Aligned_cols=45 Identities=18% Similarity=0.444 Sum_probs=26.8
Q ss_pred cccCccchhccChHH--HH-----HHHHHHhCCCCceeCCCCccccccchHHHhH
Q psy16578 50 FACPKCSKTYLRQYT--LN-----AHLRYECGKRPKFKCPHCNKKCHQKCNLKSH 97 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~--l~-----~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 97 (177)
-.|+.|+........ .. .+...+. .-|.|+.||+.|+--+.+..=
T Consensus 98 ~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~---~f~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 98 SRCPECNGELEKVSREEVKEKVPEKVYRNYE---EFYRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred ccCcccCCEeccCcHHHHhhccchhhhhccc---ceeECCCCcccccCchHHHHH
Confidence 369999875544322 11 1222222 227799999999887766543
No 151
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.66 E-value=1.5 Score=30.59 Aligned_cols=42 Identities=19% Similarity=0.539 Sum_probs=27.6
Q ss_pred CCCceecCCccccccChhHHHHHHHHhhCC----------CC----CccCCCCccc
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLKFECGV----------EP----QFKCPYCDKR 161 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----------~~----~~~C~~C~~~ 161 (177)
-++.+.|++|+..|.....+..-.++-.+. .+ ...|+.|.+.
T Consensus 16 ~kk~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 16 YKKTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred hhceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 356789999999998766555444443332 11 2579999874
No 152
>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=56.23 E-value=5.2 Score=31.73 Aligned_cols=9 Identities=22% Similarity=0.538 Sum_probs=5.6
Q ss_pred eCCCCcccc
Q psy16578 80 KCPHCNKKC 88 (177)
Q Consensus 80 ~C~~C~~~f 88 (177)
.|..||...
T Consensus 215 ~C~~Cg~~~ 223 (505)
T TIGR00595 215 LCRSCGYIL 223 (505)
T ss_pred EhhhCcCcc
Confidence 577777554
No 153
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=55.95 E-value=4.9 Score=25.73 Aligned_cols=39 Identities=23% Similarity=0.520 Sum_probs=22.4
Q ss_pred CceecCCccccccChh---HHH--HHHHHhhCC---CCCccCCCCcc
Q psy16578 122 GSFICPKCSNRYVYKH---NLK--QHLKFECGV---EPQFKCPYCDK 160 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~---~l~--~H~~~h~~~---~~~~~C~~C~~ 160 (177)
..+.|..|+..|.... .|. .+...|--. ...+.|+.||.
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs 115 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGS 115 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCC
Confidence 5689999998886642 110 011122111 33478999994
No 154
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=55.38 E-value=7.6 Score=24.00 Aligned_cols=26 Identities=23% Similarity=0.524 Sum_probs=18.5
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDK 160 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 160 (177)
..+.|..|+..|.... ..|.|+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~-------------~~~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQ-------------HDAQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCC-------------cCccCcCCCC
Confidence 4578999997775433 2367999983
No 155
>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=55.17 E-value=1.6 Score=22.18 Aligned_cols=38 Identities=16% Similarity=0.359 Sum_probs=19.9
Q ss_pred ecCCccccccChhHHHHHHHHhhCCCCCccCCC--Ccccccch
Q psy16578 125 ICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPY--CDKRCKLK 165 (177)
Q Consensus 125 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~--C~~~f~~~ 165 (177)
.|+.|+.....+.....+.. ..+..|+|.. ||..|...
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~---~~~~Y~qC~N~~Cg~tfv~~ 40 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPL---TRELYCQCTNPECGHTFVAN 40 (47)
T ss_pred CcCCCCCeeEEEEchhhCcc---eEEEEEEECCCcCCCEEEEE
Confidence 36777755544433322211 1245577766 88777643
No 156
>KOG0978|consensus
Probab=53.45 E-value=6.5 Score=32.30 Aligned_cols=49 Identities=20% Similarity=0.314 Sum_probs=29.3
Q ss_pred ceecCCccccccChhH-HHHHHH------HhhCCCCCccCCCCcccccchhHHHHHH
Q psy16578 123 SFICPKCSNRYVYKHN-LKQHLK------FECGVEPQFKCPYCDKRCKLKGNLMSHI 172 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~-l~~H~~------~h~~~~~~~~C~~C~~~f~~~~~l~~H~ 172 (177)
..+|+.|...+++.-- ..-|.- .-.. -+.-+||.|+..|...+-+..|+
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~e-tRqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYE-TRQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHH-HhcCCCCCCCCCCCcccccccCC
Confidence 4679999866655321 111211 1111 23378999999999887766553
No 157
>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=53.42 E-value=4.7 Score=19.03 Aligned_cols=15 Identities=13% Similarity=0.372 Sum_probs=7.3
Q ss_pred eecCCccccccChhH
Q psy16578 124 FICPKCSNRYVYKHN 138 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~ 138 (177)
-.|..|++.|..+..
T Consensus 4 ~~C~eC~~~f~dSyL 18 (34)
T PF01286_consen 4 PKCDECGKPFMDSYL 18 (34)
T ss_dssp EE-TTT--EES-SSC
T ss_pred chHhHhCCHHHHHHH
Confidence 367788888876653
No 158
>KOG2636|consensus
Probab=53.42 E-value=9.6 Score=29.46 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=23.5
Q ss_pred HHhhCCCCCccCCCCc-ccccchhHHHHHHh
Q psy16578 144 KFECGVEPQFKCPYCD-KRCKLKGNLMSHIA 173 (177)
Q Consensus 144 ~~h~~~~~~~~C~~C~-~~f~~~~~l~~H~~ 173 (177)
+.|.- ...|.|.+|| +++.-..++.+|..
T Consensus 394 KLHGL-~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGL-DIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCC-CcccceeeccCccccCcHHHHHHhH
Confidence 44533 6669999999 89999999999985
No 159
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=52.95 E-value=11 Score=20.00 Aligned_cols=10 Identities=40% Similarity=1.212 Sum_probs=7.5
Q ss_pred eeCCCCcccc
Q psy16578 79 FKCPHCNKKC 88 (177)
Q Consensus 79 ~~C~~C~~~f 88 (177)
|.|+.||..+
T Consensus 15 ~~Cp~cGipt 24 (55)
T PF13824_consen 15 FECPDCGIPT 24 (55)
T ss_pred CcCCCCCCcC
Confidence 8888888654
No 160
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=52.93 E-value=26 Score=25.84 Aligned_cols=26 Identities=15% Similarity=0.496 Sum_probs=14.7
Q ss_pred CCceecCCccccccChhHHHHHHHHh
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
...|.|..|...|-.--....|...|
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHh
Confidence 34566666666665555555554444
No 161
>PRK14873 primosome assembly protein PriA; Provisional
Probab=52.26 E-value=3.8 Score=33.68 Aligned_cols=9 Identities=33% Similarity=1.342 Sum_probs=4.8
Q ss_pred ceecCCccc
Q psy16578 123 SFICPKCSN 131 (177)
Q Consensus 123 ~~~C~~C~~ 131 (177)
++.|+.|+.
T Consensus 422 p~~Cp~Cgs 430 (665)
T PRK14873 422 DWRCPRCGS 430 (665)
T ss_pred CccCCCCcC
Confidence 455666653
No 162
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=51.99 E-value=8.4 Score=18.73 Aligned_cols=14 Identities=36% Similarity=0.819 Sum_probs=11.6
Q ss_pred ceeCCCCccccccc
Q psy16578 78 KFKCPHCNKKCHQK 91 (177)
Q Consensus 78 ~~~C~~C~~~f~~~ 91 (177)
||.|..|+..|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 58999999988764
No 163
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=51.48 E-value=2.3 Score=22.14 Aligned_cols=26 Identities=19% Similarity=0.520 Sum_probs=13.4
Q ss_pred CCccccCccchhccChHHHHHHHHHH
Q psy16578 47 EDVFACPKCSKTYLRQYTLNAHLRYE 72 (177)
Q Consensus 47 ~~~~~C~~C~~~f~~~~~l~~H~~~h 72 (177)
...|.|+.|+..|--.-++-.|...|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 45588888888888777776665444
No 164
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=50.31 E-value=11 Score=29.43 Aligned_cols=21 Identities=29% Similarity=0.879 Sum_probs=12.5
Q ss_pred eecCCccccccChhHHHHHHH
Q psy16578 124 FICPKCSNRYVYKHNLKQHLK 144 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~ 144 (177)
|.|+.|.+.|.+...+..|+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~ 78 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHME 78 (466)
T ss_pred eeCCcccceeCCHHHHHHHHH
Confidence 456666666666666666654
No 165
>KOG2071|consensus
Probab=50.22 E-value=12 Score=30.06 Aligned_cols=29 Identities=14% Similarity=0.327 Sum_probs=22.8
Q ss_pred CCCceecCCccccccChhHHHHHHHHhhC
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLKFECG 148 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 148 (177)
...+..|..||.+|........||..|-.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhh
Confidence 35678999999999998877777776643
No 166
>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=50.18 E-value=27 Score=16.33 Aligned_cols=24 Identities=17% Similarity=0.552 Sum_probs=14.8
Q ss_pred eeCCCCccccccchHHHhHHHHhcC
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHD 103 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~ 103 (177)
+.|+.|++.+.. +.+..|+...-+
T Consensus 5 ~~C~nC~R~v~a-~RfA~HLekCmg 28 (33)
T PF08209_consen 5 VECPNCGRPVAA-SRFAPHLEKCMG 28 (33)
T ss_dssp EE-TTTSSEEEG-GGHHHHHHHHTC
T ss_pred EECCCCcCCcch-hhhHHHHHHHHc
Confidence 678888876544 457777755443
No 167
>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=49.29 E-value=2.8 Score=20.07 Aligned_cols=30 Identities=23% Similarity=0.771 Sum_probs=17.6
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCC
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHC 84 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C 84 (177)
..|+.|+.. ..+.+|-....+..+ |.|..|
T Consensus 6 v~CP~C~s~----~~v~k~G~~~~G~qr-yrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQST----EGVKKNGKSPSGHQR-YRCKDC 35 (36)
T ss_pred eeCCCCCCC----CcceeCCCCCCCCEe-EecCcC
Confidence 457777653 124455555555555 888777
No 168
>KOG1842|consensus
Probab=48.97 E-value=9.9 Score=29.40 Aligned_cols=24 Identities=38% Similarity=0.606 Sum_probs=14.5
Q ss_pred cccCccchhccChHHHHHHHHHHh
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYEC 73 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~ 73 (177)
|.|++|...|.....|..|...-|
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhc
Confidence 556666666666666666655444
No 169
>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=48.47 E-value=8.5 Score=19.95 Aligned_cols=12 Identities=17% Similarity=0.584 Sum_probs=9.0
Q ss_pred ccCCCCcccccc
Q psy16578 153 FKCPYCDKRCKL 164 (177)
Q Consensus 153 ~~C~~C~~~f~~ 164 (177)
|+|..||+.+.-
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 788888877653
No 170
>KOG3507|consensus
Probab=48.11 E-value=13 Score=19.88 Aligned_cols=13 Identities=23% Similarity=0.662 Sum_probs=7.5
Q ss_pred CceecCCcccccc
Q psy16578 122 GSFICPKCSNRYV 134 (177)
Q Consensus 122 ~~~~C~~C~~~f~ 134 (177)
..+.|..||.+..
T Consensus 36 D~irCReCG~RIl 48 (62)
T KOG3507|consen 36 DVIRCRECGYRIL 48 (62)
T ss_pred CcEehhhcchHHH
Confidence 4566666665543
No 171
>COG1773 Rubredoxin [Energy production and conversion]
Probab=48.00 E-value=7.7 Score=20.55 Aligned_cols=11 Identities=18% Similarity=0.745 Sum_probs=7.2
Q ss_pred ccCCCCccccc
Q psy16578 153 FKCPYCDKRCK 163 (177)
Q Consensus 153 ~~C~~C~~~f~ 163 (177)
|+|..||+.|.
T Consensus 4 ~~C~~CG~vYd 14 (55)
T COG1773 4 WRCSVCGYVYD 14 (55)
T ss_pred eEecCCceEec
Confidence 66777776653
No 172
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=47.92 E-value=11 Score=20.61 Aligned_cols=29 Identities=21% Similarity=0.552 Sum_probs=13.1
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQK 91 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 91 (177)
-.|.+|++.|.-. ..+ +-|..||..|-..
T Consensus 10 ~~C~~C~~~F~~~------------~rr-hhCr~CG~~vC~~ 38 (69)
T PF01363_consen 10 SNCMICGKKFSLF------------RRR-HHCRNCGRVVCSS 38 (69)
T ss_dssp SB-TTT--B-BSS------------S-E-EE-TTT--EEECC
T ss_pred CcCcCcCCcCCCc------------eee-EccCCCCCEECCc
Confidence 4699999999531 223 7788888776543
No 173
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=47.48 E-value=12 Score=18.19 Aligned_cols=18 Identities=22% Similarity=0.464 Sum_probs=10.5
Q ss_pred eeCCCCccccccchHHHh
Q psy16578 79 FKCPHCNKKCHQKCNLKS 96 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~ 96 (177)
+.|+.|+-.+-....|..
T Consensus 20 d~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EECCCCCeEEccHHHHHH
Confidence 566666666555555543
No 174
>KOG1280|consensus
Probab=47.24 E-value=16 Score=27.36 Aligned_cols=39 Identities=23% Similarity=0.491 Sum_probs=28.1
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCC-CCCccCCCCc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGV-EPQFKCPYCD 159 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-~~~~~C~~C~ 159 (177)
...|.|++|+++=-+...|..|...-|.+ .....|++|+
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 34799999998888888899998865552 2234566664
No 175
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=46.89 E-value=15 Score=19.36 Aligned_cols=12 Identities=50% Similarity=1.068 Sum_probs=8.8
Q ss_pred eeCCCCcccccc
Q psy16578 79 FKCPHCNKKCHQ 90 (177)
Q Consensus 79 ~~C~~C~~~f~~ 90 (177)
.+|..||+.|..
T Consensus 6 ~~C~~Cg~~~~~ 17 (54)
T PF14446_consen 6 CKCPVCGKKFKD 17 (54)
T ss_pred ccChhhCCcccC
Confidence 468888887754
No 176
>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=46.63 E-value=8.5 Score=19.06 Aligned_cols=14 Identities=50% Similarity=0.980 Sum_probs=9.0
Q ss_pred ceeCCCCccccccc
Q psy16578 78 KFKCPHCNKKCHQK 91 (177)
Q Consensus 78 ~~~C~~C~~~f~~~ 91 (177)
||.|..|+..|-..
T Consensus 13 ~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 13 PFKCKHCGKSFCLK 26 (43)
T ss_dssp HEE-TTTS-EE-TT
T ss_pred CeECCCCCcccCcc
Confidence 58999999988664
No 177
>KOG4124|consensus
Probab=45.94 E-value=3 Score=31.00 Aligned_cols=52 Identities=27% Similarity=0.552 Sum_probs=36.4
Q ss_pred CCceecC--CccccccChhHHHHHHHHhhC------------------CCCCccCCCCcccccchhHHHHHH
Q psy16578 121 NGSFICP--KCSNRYVYKHNLKQHLKFECG------------------VEPQFKCPYCDKRCKLKGNLMSHI 172 (177)
Q Consensus 121 ~~~~~C~--~C~~~f~~~~~l~~H~~~h~~------------------~~~~~~C~~C~~~f~~~~~l~~H~ 172 (177)
.++|+|+ .|.+.+.+.-.|..|...-|. ..++|.|++|.+..+....|.-|.
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 4688995 499999887777766543221 156799999998887665554443
No 178
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=45.83 E-value=13 Score=29.10 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=7.2
Q ss_pred ccccCccchhc
Q psy16578 49 VFACPKCSKTY 59 (177)
Q Consensus 49 ~~~C~~C~~~f 59 (177)
.|.|..||..+
T Consensus 7 ~y~C~~Cg~~~ 17 (454)
T TIGR00416 7 KFVCQHCGADS 17 (454)
T ss_pred eEECCcCCCCC
Confidence 47777777543
No 179
>PRK11823 DNA repair protein RadA; Provisional
Probab=45.69 E-value=13 Score=28.99 Aligned_cols=24 Identities=21% Similarity=0.711 Sum_probs=15.5
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcc
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNK 86 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 86 (177)
..|.|..||..+... - ++|+.|+.
T Consensus 6 ~~y~C~~Cg~~~~~~--------------~-g~Cp~C~~ 29 (446)
T PRK11823 6 TAYVCQECGAESPKW--------------L-GRCPECGA 29 (446)
T ss_pred CeEECCcCCCCCccc--------------C-eeCcCCCC
Confidence 348888888654321 2 78888874
No 180
>KOG2907|consensus
Probab=45.27 E-value=9.1 Score=23.52 Aligned_cols=40 Identities=25% Similarity=0.551 Sum_probs=23.0
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccc
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKL 164 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 164 (177)
-+|+.|+-.=..-..|+- +..-.|.-.-|.|+.|++.|.-
T Consensus 75 ~kCpkCghe~m~Y~T~Ql-RSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQL-RSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhhc-ccccCCceEEEEcCccceeeec
Confidence 479999854332222221 1122233445999999999864
No 181
>KOG0320|consensus
Probab=45.22 E-value=15 Score=24.68 Aligned_cols=48 Identities=25% Similarity=0.497 Sum_probs=25.8
Q ss_pred CCCCCCCCccccCccchhccChHHH---HHHHH----HHhCCCCceeCCCCcccc
Q psy16578 41 EDKPAGEDVFACPKCSKTYLRQYTL---NAHLR----YECGKRPKFKCPHCNKKC 88 (177)
Q Consensus 41 ~~~~~~~~~~~C~~C~~~f~~~~~l---~~H~~----~h~~~~~~~~C~~C~~~f 88 (177)
.....++..|.|++|-..|..+... -.|+- .....+..-+|+.|++..
T Consensus 123 v~~~~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI 177 (187)
T KOG0320|consen 123 VDPLRKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKI 177 (187)
T ss_pred ccccccccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence 3344455669999998777665422 11221 111111236799998744
No 182
>KOG1842|consensus
Probab=45.21 E-value=13 Score=28.79 Aligned_cols=28 Identities=29% Similarity=0.456 Sum_probs=24.3
Q ss_pred CceecCCccccccChhHHHHHHHHhhCC
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGV 149 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 149 (177)
..|.|+.|...|.+.+.|..|...-|++
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccc
Confidence 4689999999999999999999876654
No 183
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.77 E-value=12 Score=20.26 Aligned_cols=40 Identities=18% Similarity=0.487 Sum_probs=21.2
Q ss_pred cccCccchh-ccChHHHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 50 FACPKCSKT-YLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 50 ~~C~~C~~~-f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
.+|.+|+.. +.....+.. .+.......-|-|++|......
T Consensus 3 vkCiiCd~v~~iD~rt~~t-KrLrN~PIrtymC~eC~~Rva~ 43 (68)
T COG4896 3 VKCIICDRVDEIDNRTFKT-KRLRNKPIRTYMCPECEHRVAI 43 (68)
T ss_pred ceEEEecceeeecchhHHH-HHhhCCCceeEechhhHhhhch
Confidence 468888754 333333433 2222223334889999755433
No 184
>KOG4727|consensus
Probab=44.53 E-value=15 Score=24.43 Aligned_cols=25 Identities=20% Similarity=0.460 Sum_probs=22.2
Q ss_pred CCCceecCCccccccChhHHHHHHH
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLK 144 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~ 144 (177)
...+|-|.+|+=.|...-++..|+.
T Consensus 72 q~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 72 QKGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred ccCceeeeecceeehhhHHHHHHhc
Confidence 3567999999999999999999976
No 185
>KOG0717|consensus
Probab=44.36 E-value=14 Score=28.81 Aligned_cols=40 Identities=18% Similarity=0.376 Sum_probs=26.3
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccchHHHhHHHHhc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKH 102 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 102 (177)
+-|.+|+++|.+..++..|.... +.-.....|..+|....
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSK-------------KHkenv~eLrqemEEEe 332 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSK-------------KHKENVAELRQEMEEEE 332 (508)
T ss_pred eEEeeccccccchHHHHhhHHHH-------------HHHHHHHHHHHHHHHhh
Confidence 67888888888888888775332 23333455667776653
No 186
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=44.12 E-value=21 Score=21.72 Aligned_cols=28 Identities=18% Similarity=0.405 Sum_probs=22.6
Q ss_pred CCCCCccccCccchhccChHHHHHHHHH
Q psy16578 44 PAGEDVFACPKCSKTYLRQYTLNAHLRY 71 (177)
Q Consensus 44 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 71 (177)
..|-..+-|-.|.+-|.+...|..|.+.
T Consensus 50 lPGlGqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 50 LPGLGQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred CCCCceeeeehhHHHHHHHHHHHHHhcc
Confidence 3445568899999999999999998764
No 187
>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=43.53 E-value=10 Score=19.76 Aligned_cols=13 Identities=23% Similarity=0.741 Sum_probs=7.3
Q ss_pred eCCCCccccccch
Q psy16578 80 KCPHCNKKCHQKC 92 (177)
Q Consensus 80 ~C~~C~~~f~~~~ 92 (177)
.||+|++.|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999999987654
No 188
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.50 E-value=13 Score=23.19 Aligned_cols=27 Identities=19% Similarity=0.364 Sum_probs=18.0
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDK 160 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 160 (177)
-.+.|..|+..|..... ..+.|+.||.
T Consensus 70 ~~~~C~~Cg~~~~~~~~------------~~~~CP~Cgs 96 (117)
T PRK00564 70 VELECKDCSHVFKPNAL------------DYGVCEKCHS 96 (117)
T ss_pred CEEEhhhCCCccccCCc------------cCCcCcCCCC
Confidence 45789999977755422 2135999984
No 189
>KOG0402|consensus
Probab=42.87 E-value=9.7 Score=21.96 Aligned_cols=14 Identities=21% Similarity=0.560 Sum_probs=11.1
Q ss_pred CCceecCCcccccc
Q psy16578 121 NGSFICPKCSNRYV 134 (177)
Q Consensus 121 ~~~~~C~~C~~~f~ 134 (177)
.+.|.|..|.+.+.
T Consensus 52 vGiW~C~~C~kv~a 65 (92)
T KOG0402|consen 52 VGIWKCGSCKKVVA 65 (92)
T ss_pred eeEEecCCccceec
Confidence 46799999988874
No 190
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=42.72 E-value=17 Score=22.54 Aligned_cols=13 Identities=15% Similarity=0.445 Sum_probs=9.5
Q ss_pred ceeCCCCcccccc
Q psy16578 78 KFKCPHCNKKCHQ 90 (177)
Q Consensus 78 ~~~C~~C~~~f~~ 90 (177)
.+.|..||..|..
T Consensus 70 ~~~C~~Cg~~~~~ 82 (114)
T PRK03681 70 ECWCETCQQYVTL 82 (114)
T ss_pred EEEcccCCCeeec
Confidence 3789999976644
No 191
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=42.08 E-value=19 Score=18.83 Aligned_cols=16 Identities=25% Similarity=0.727 Sum_probs=12.0
Q ss_pred cccCccchhccChHHH
Q psy16578 50 FACPKCSKTYLRQYTL 65 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l 65 (177)
+.|..|+..|....+.
T Consensus 29 W~C~~Cgh~w~~~v~~ 44 (55)
T PF14311_consen 29 WKCPKCGHEWKASVND 44 (55)
T ss_pred EECCCCCCeeEccHhh
Confidence 6899998888776443
No 192
>PTZ00448 hypothetical protein; Provisional
Probab=41.79 E-value=20 Score=27.17 Aligned_cols=23 Identities=22% Similarity=0.592 Sum_probs=19.5
Q ss_pred ccccCccchhccChHHHHHHHHH
Q psy16578 49 VFACPKCSKTYLRQYTLNAHLRY 71 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~~l~~H~~~ 71 (177)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 57899999999888888888875
No 193
>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=41.64 E-value=8.7 Score=19.61 Aligned_cols=11 Identities=27% Similarity=0.972 Sum_probs=7.5
Q ss_pred ccCCCCccccc
Q psy16578 153 FKCPYCDKRCK 163 (177)
Q Consensus 153 ~~C~~C~~~f~ 163 (177)
|+|.+|++.+.
T Consensus 2 y~C~~CgyvYd 12 (47)
T PF00301_consen 2 YQCPVCGYVYD 12 (47)
T ss_dssp EEETTTSBEEE
T ss_pred cCCCCCCEEEc
Confidence 67777776654
No 194
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=41.27 E-value=9.1 Score=23.08 Aligned_cols=37 Identities=19% Similarity=0.466 Sum_probs=22.3
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
..-|.|++|+. ....-.+. .+ .....|..||+.+...
T Consensus 19 pt~f~CP~Cge-~~v~v~~~------k~-~~h~~C~~CG~y~~~~ 55 (99)
T PRK14892 19 PKIFECPRCGK-VSISVKIK------KN-IAIITCGNCGLYTEFE 55 (99)
T ss_pred CcEeECCCCCC-eEeeeecC------CC-cceEECCCCCCccCEE
Confidence 35689999993 21111111 13 5558999999876643
No 195
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=41.21 E-value=62 Score=22.27 Aligned_cols=54 Identities=20% Similarity=0.354 Sum_probs=29.6
Q ss_pred CCCCCccccCccchhccChHHH--HHHHHHHh---CCCCceeCCCCccc----cccchHHHhH
Q psy16578 44 PAGEDVFACPKCSKTYLRQYTL--NAHLRYEC---GKRPKFKCPHCNKK----CHQKCNLKSH 97 (177)
Q Consensus 44 ~~~~~~~~C~~C~~~f~~~~~l--~~H~~~h~---~~~~~~~C~~C~~~----f~~~~~l~~H 97 (177)
.....||.|.+|.+.|.+...- ..|...-. .-++.-.|-+||+. |+...+|.+-
T Consensus 191 ~~e~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~km 253 (259)
T COG5152 191 PGEKIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKM 253 (259)
T ss_pred CCCCCceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHH
Confidence 4455789999999988876331 11111100 00112468899875 4444555443
No 196
>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=41.02 E-value=17 Score=21.84 Aligned_cols=14 Identities=21% Similarity=0.636 Sum_probs=11.6
Q ss_pred CceeCCCCcccccc
Q psy16578 77 PKFKCPHCNKKCHQ 90 (177)
Q Consensus 77 ~~~~C~~C~~~f~~ 90 (177)
++++|++||..|.-
T Consensus 78 ~~~rC~eCG~~fkL 91 (97)
T cd00924 78 KPKRCPECGHVFKL 91 (97)
T ss_pred CceeCCCCCcEEEE
Confidence 45999999998864
No 197
>KOG4477|consensus
Probab=40.93 E-value=24 Score=23.78 Aligned_cols=29 Identities=31% Similarity=0.763 Sum_probs=18.5
Q ss_pred cccCCCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCc
Q psy16578 116 RNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCD 159 (177)
Q Consensus 116 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~ 159 (177)
.....++-|-|..| .|.++. +. |.|-+|+
T Consensus 17 kp~~Deg~WdCsvC--TFrNsA------------eA-fkC~vCd 45 (228)
T KOG4477|consen 17 KPNDDEGKWDCSVC--TFRNSA------------EA-FKCFVCD 45 (228)
T ss_pred CCccccCceeeeee--eecchh------------hh-hheeeec
Confidence 33445677889988 444433 33 8888886
No 198
>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=40.59 E-value=18 Score=17.92 Aligned_cols=16 Identities=25% Similarity=0.935 Sum_probs=12.9
Q ss_pred ecCCccccccChhHHH
Q psy16578 125 ICPKCSNRYVYKHNLK 140 (177)
Q Consensus 125 ~C~~C~~~f~~~~~l~ 140 (177)
.|..|++.|..+....
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 7999999998766554
No 199
>KOG2593|consensus
Probab=40.50 E-value=27 Score=27.05 Aligned_cols=35 Identities=23% Similarity=0.779 Sum_probs=22.6
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCD 159 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~ 159 (177)
-..|.|+.|.+.|.....++- .- -..-.|.|..|+
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L---~~-~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQL---LD-NETGEFHCENCG 160 (436)
T ss_pred cccccCCccccchhhhHHHHh---hc-ccCceEEEecCC
Confidence 346889999888877665532 11 112348888886
No 200
>KOG1701|consensus
Probab=40.45 E-value=14 Score=28.50 Aligned_cols=39 Identities=21% Similarity=0.312 Sum_probs=25.7
Q ss_pred ccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 51 ACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 51 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
.|..|++.......-..-|..-....- |.|..|++...-
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~C-FtC~~C~r~L~G 314 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQC-FTCRTCRRQLAG 314 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccc-eehHhhhhhhcc
Confidence 799999887776555454544333334 999999865443
No 201
>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=39.79 E-value=20 Score=17.08 Aligned_cols=12 Identities=25% Similarity=0.916 Sum_probs=7.7
Q ss_pred CCCceecCCccc
Q psy16578 120 LNGSFICPKCSN 131 (177)
Q Consensus 120 ~~~~~~C~~C~~ 131 (177)
.++-|.|..|+-
T Consensus 22 ~dG~~yC~~cG~ 33 (36)
T PF11781_consen 22 DDGFYYCDRCGH 33 (36)
T ss_pred cCCEEEhhhCce
Confidence 456677777763
No 202
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=39.54 E-value=16 Score=18.82 Aligned_cols=25 Identities=24% Similarity=0.895 Sum_probs=16.6
Q ss_pred ecCCccc-cccChhHHHHHHHHhhCCCCCccCCCCccc
Q psy16578 125 ICPKCSN-RYVYKHNLKQHLKFECGVEPQFKCPYCDKR 161 (177)
Q Consensus 125 ~C~~C~~-~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 161 (177)
.|+.|+. +| |..| . ++ +.|..||++
T Consensus 21 ~CPrCG~gvf-----mA~H-----~-dR-~~CGkCgyT 46 (51)
T COG1998 21 FCPRCGPGVF-----MADH-----K-DR-WACGKCGYT 46 (51)
T ss_pred cCCCCCCcch-----hhhc-----C-ce-eEeccccce
Confidence 6888875 33 3333 2 45 899999986
No 203
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=39.31 E-value=15 Score=19.23 Aligned_cols=18 Identities=11% Similarity=0.150 Sum_probs=10.7
Q ss_pred cCCCCceecCCccccccC
Q psy16578 118 SQLNGSFICPKCSNRYVY 135 (177)
Q Consensus 118 ~~~~~~~~C~~C~~~f~~ 135 (177)
......|.|.+|++.+..
T Consensus 30 ~~~~~~~rC~YCe~~~~~ 47 (52)
T PF02748_consen 30 DKEPIKLRCHYCERIITE 47 (52)
T ss_dssp ETTTCEEEETTT--EEEH
T ss_pred eCCCCEEEeeCCCCEecc
Confidence 344566888888877754
No 204
>KOG2807|consensus
Probab=39.20 E-value=77 Score=23.75 Aligned_cols=69 Identities=14% Similarity=0.260 Sum_probs=35.6
Q ss_pred ceeCCCCccccccchHHHhHHHHhcCCCCC---CCCc-------cccccccCCCCceecCCccccccChhHHHHHHHHh
Q psy16578 78 KFKCPHCNKKCHQKCNLKSHIALKHDQLLA---PLAP-------RSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFE 146 (177)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~---~~~~-------~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 146 (177)
|..|+.|+-..-+...|.+-..-.-...+- +... ........+...|.|..|...|-.--....|...|
T Consensus 290 P~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 290 PIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhh
Confidence 478899988887777777654221111000 0000 00012223445677777777766555555554443
No 205
>KOG0717|consensus
Probab=38.95 E-value=19 Score=28.11 Aligned_cols=22 Identities=23% Similarity=0.537 Sum_probs=20.2
Q ss_pred eecCCccccccChhHHHHHHHH
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
+-|..|.+.|.+.-.|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 8899999999999999998875
No 206
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.74 E-value=7.6 Score=21.99 Aligned_cols=33 Identities=30% Similarity=0.731 Sum_probs=22.1
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRC 162 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 162 (177)
-.|.|..|+..| .+.+||. ..+.-.|+.|+-.+
T Consensus 11 Y~Y~c~~cg~~~----dvvq~~~----ddplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRF----DVVQAMT----DDPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHH----HHHHhcc----cCccccChhhChHH
Confidence 358999998776 4555544 24556788887544
No 207
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=38.73 E-value=18 Score=27.58 Aligned_cols=8 Identities=50% Similarity=1.273 Sum_probs=6.2
Q ss_pred eeCCCCcc
Q psy16578 79 FKCPHCNK 86 (177)
Q Consensus 79 ~~C~~C~~ 86 (177)
.+|+.|+.
T Consensus 15 g~cp~c~~ 22 (372)
T cd01121 15 GKCPECGE 22 (372)
T ss_pred EECcCCCC
Confidence 78888875
No 208
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=38.71 E-value=34 Score=22.40 Aligned_cols=36 Identities=22% Similarity=0.707 Sum_probs=24.1
Q ss_pred CCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCccc
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKR 161 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 161 (177)
..-+|.|. |+..|.+ .++|-..-.| + .|.|..|+-.
T Consensus 114 ~~~~Y~C~-C~q~~l~---~RRhn~~~~g-~-~YrC~~C~gk 149 (156)
T COG3091 114 TTYPYRCQ-CQQHYLR---IRRHNTVRRG-E-VYRCGKCGGK 149 (156)
T ss_pred cceeEEee-cCCccch---hhhccccccc-c-eEEeccCCce
Confidence 45689999 9987643 3344444445 5 4999999854
No 209
>KOG2636|consensus
Probab=38.39 E-value=25 Score=27.36 Aligned_cols=27 Identities=11% Similarity=0.274 Sum_probs=17.8
Q ss_pred HhCCCCceeCCCCc-cccccchHHHhHHH
Q psy16578 72 ECGKRPKFKCPHCN-KKCHQKCNLKSHIA 99 (177)
Q Consensus 72 h~~~~~~~~C~~C~-~~f~~~~~l~~H~~ 99 (177)
|.-... |.|.+|| ++++....+.+|..
T Consensus 396 HGL~~e-y~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 396 HGLDIE-YNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred cCCCcc-cceeeccCccccCcHHHHHHhH
Confidence 433434 8888887 66777777777764
No 210
>PLN02294 cytochrome c oxidase subunit Vb
Probab=38.28 E-value=16 Score=24.36 Aligned_cols=15 Identities=33% Similarity=0.946 Sum_probs=11.6
Q ss_pred CCccCCCCcccccch
Q psy16578 151 PQFKCPYCDKRCKLK 165 (177)
Q Consensus 151 ~~~~C~~C~~~f~~~ 165 (177)
+++.|++||..|..+
T Consensus 140 kp~RCpeCG~~fkL~ 154 (174)
T PLN02294 140 KSFECPVCTQYFELE 154 (174)
T ss_pred CceeCCCCCCEEEEE
Confidence 458899999888754
No 211
>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=38.22 E-value=13 Score=22.90 Aligned_cols=26 Identities=23% Similarity=0.668 Sum_probs=16.9
Q ss_pred ceecCCccccccChhHHHHHHHHhhCCCCCccCCCCccc
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKR 161 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 161 (177)
.+.|..|+..|..... . +.|+.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~------------~-~~CP~Cgs~ 95 (113)
T PF01155_consen 70 RARCRDCGHEFEPDEF------------D-FSCPRCGSP 95 (113)
T ss_dssp EEEETTTS-EEECHHC------------C-HH-SSSSSS
T ss_pred cEECCCCCCEEecCCC------------C-CCCcCCcCC
Confidence 4789999998865442 2 559999854
No 212
>PTZ00448 hypothetical protein; Provisional
Probab=37.87 E-value=23 Score=26.81 Aligned_cols=21 Identities=14% Similarity=0.331 Sum_probs=13.7
Q ss_pred ccCCCCcccccchhHHHHHHh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~ 173 (177)
|.|..|+-.|.+....+.|++
T Consensus 315 ~tC~~C~v~F~~~~~qR~H~K 335 (373)
T PTZ00448 315 LLCRKCNIQLMDHNAFKQHYR 335 (373)
T ss_pred ccccccccccCCHHHHHHHhh
Confidence 666666666666666666665
No 213
>KOG1994|consensus
Probab=37.65 E-value=13 Score=25.93 Aligned_cols=22 Identities=27% Similarity=0.617 Sum_probs=19.4
Q ss_pred CCCccCCCCcccccchhHHHHHH
Q psy16578 150 EPQFKCPYCDKRCKLKGNLMSHI 172 (177)
Q Consensus 150 ~~~~~C~~C~~~f~~~~~l~~H~ 172 (177)
+. |.|-.||..|.+...|..|-
T Consensus 238 eh-~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 238 EH-YYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred cc-eEEEEeccccCCHHHHHHhC
Confidence 55 99999999999999998885
No 214
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.10 E-value=9.2 Score=23.95 Aligned_cols=14 Identities=21% Similarity=0.828 Sum_probs=8.2
Q ss_pred ceecCCccccccCh
Q psy16578 123 SFICPKCSNRYVYK 136 (177)
Q Consensus 123 ~~~C~~C~~~f~~~ 136 (177)
|--|..|++.|.+.
T Consensus 68 psfchncgs~fpwt 81 (160)
T COG4306 68 PSFCHNCGSRFPWT 81 (160)
T ss_pred cchhhcCCCCCCcH
Confidence 33466677666553
No 215
>PRK12496 hypothetical protein; Provisional
Probab=37.06 E-value=26 Score=23.29 Aligned_cols=29 Identities=21% Similarity=0.470 Sum_probs=19.2
Q ss_pred ceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccc
Q psy16578 123 SFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKL 164 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 164 (177)
.|.|..|++.|.... .. -.|++||.....
T Consensus 127 ~~~C~gC~~~~~~~~------------~~-~~C~~CG~~~~r 155 (164)
T PRK12496 127 RKVCKGCKKKYPEDY------------PD-DVCEICGSPVKR 155 (164)
T ss_pred eEECCCCCccccCCC------------CC-CcCCCCCChhhh
Confidence 478999998884311 11 459999965443
No 216
>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=35.85 E-value=29 Score=18.01 Aligned_cols=10 Identities=20% Similarity=0.770 Sum_probs=4.8
Q ss_pred ecCCcccccc
Q psy16578 125 ICPKCSNRYV 134 (177)
Q Consensus 125 ~C~~C~~~f~ 134 (177)
.|..|++.|.
T Consensus 4 ~C~~C~~~F~ 13 (57)
T cd00065 4 SCMGCGKPFT 13 (57)
T ss_pred cCcccCcccc
Confidence 3445555554
No 217
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=35.62 E-value=12 Score=25.60 Aligned_cols=24 Identities=21% Similarity=0.516 Sum_probs=0.0
Q ss_pred CCCccCCCCc-ccccchhHHHHHHh
Q psy16578 150 EPQFKCPYCD-KRCKLKGNLMSHIA 173 (177)
Q Consensus 150 ~~~~~C~~C~-~~f~~~~~l~~H~~ 173 (177)
.+.|.|.+|| +.+.-+.++.+|..
T Consensus 99 ~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 99 GVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp -------------------------
T ss_pred CCeeeeEeCCCcceecHHHHHHhcC
Confidence 3449999998 46777777877764
No 218
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=35.14 E-value=4.9 Score=27.41 Aligned_cols=43 Identities=19% Similarity=0.212 Sum_probs=24.7
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCC--CCCccCCCCcccccch
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGV--EPQFKCPYCDKRCKLK 165 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~--~~~~~C~~C~~~f~~~ 165 (177)
+....|+.|+..+.....+.. .-|-|. ...+.|..|||+++.-
T Consensus 12 ~~~~~CPvCg~~l~~~~~~~~--IPyFG~V~i~t~~C~~CgYR~~DV 56 (201)
T COG1779 12 ETRIDCPVCGGTLKAHMYLYD--IPYFGEVLISTGVCERCGYRSTDV 56 (201)
T ss_pred eeeecCCcccceeeEEEeeec--CCccceEEEEEEEccccCCcccce
Confidence 345689999875443332211 112221 2247899999988753
No 219
>PRK04351 hypothetical protein; Provisional
Probab=35.04 E-value=19 Score=23.50 Aligned_cols=34 Identities=24% Similarity=0.712 Sum_probs=22.3
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
-.|.|..|+..+.+.. .+ ...+ |.|..|+-.+.-
T Consensus 111 y~Y~C~~Cg~~~~r~R-------r~-n~~~-yrCg~C~g~L~~ 144 (149)
T PRK04351 111 YLYECQSCGQQYLRKR-------RI-NTKR-YRCGKCRGKLKL 144 (149)
T ss_pred EEEECCCCCCEeeeee-------ec-CCCc-EEeCCCCcEeee
Confidence 4488999997765432 12 2335 999999876543
No 220
>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=34.96 E-value=24 Score=22.90 Aligned_cols=18 Identities=22% Similarity=0.462 Sum_probs=10.5
Q ss_pred ccCCCCcccccchhHHHH
Q psy16578 153 FKCPYCDKRCKLKGNLMS 170 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~ 170 (177)
+.|+.|++.|...++..+
T Consensus 125 ~~C~~C~kiyW~GsH~~~ 142 (147)
T PF01927_consen 125 WRCPGCGKIYWEGSHWRR 142 (147)
T ss_pred EECCCCCCEecccccHHH
Confidence 666666666665554443
No 221
>PRK00420 hypothetical protein; Validated
Probab=34.15 E-value=35 Score=21.14 Aligned_cols=15 Identities=27% Similarity=0.829 Sum_probs=10.8
Q ss_pred CCceecCCccccccC
Q psy16578 121 NGSFICPKCSNRYVY 135 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~ 135 (177)
++...|+.|+....-
T Consensus 38 ~g~~~Cp~Cg~~~~v 52 (112)
T PRK00420 38 DGEVVCPVHGKVYIV 52 (112)
T ss_pred CCceECCCCCCeeee
Confidence 356789999976653
No 222
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=33.83 E-value=27 Score=23.52 Aligned_cols=30 Identities=37% Similarity=1.144 Sum_probs=20.2
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDK 160 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 160 (177)
...|.|+.|...|..-..+ ..+ |.|+.||-
T Consensus 111 ~~~y~C~~~~~r~sfdeA~------~~~----F~Cp~Cg~ 140 (176)
T COG1675 111 NNYYVCPNCHVKYSFDEAM------ELG----FTCPKCGE 140 (176)
T ss_pred CCceeCCCCCCcccHHHHH------HhC----CCCCCCCc
Confidence 4568998887666443332 223 99999984
No 223
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=33.61 E-value=20 Score=26.39 Aligned_cols=33 Identities=15% Similarity=0.396 Sum_probs=22.1
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccch
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKC 92 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~ 92 (177)
.+|+.|+..+..+ .|.. ..+.|+.|+..|.-..
T Consensus 39 ~kc~~C~~~~~~~-~l~~---------~~~vcp~c~~h~rltA 71 (296)
T CHL00174 39 VQCENCYGLNYKK-FLKS---------KMNICEQCGYHLKMSS 71 (296)
T ss_pred eECCCccchhhHH-HHHH---------cCCCCCCCCCCcCCCH
Confidence 3799999876544 2322 1289999998876543
No 224
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=33.60 E-value=29 Score=25.38 Aligned_cols=22 Identities=32% Similarity=0.561 Sum_probs=12.5
Q ss_pred CceecCCccccccChhHHHHHH
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHL 143 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~ 143 (177)
.-|.|..|-+-|.+...|.+|+
T Consensus 47 ~lyiCe~Clky~~~~~~l~~H~ 68 (290)
T PLN03238 47 KLYICEYCLKYMRKKKSLLRHL 68 (290)
T ss_pred eEEEcCCCcchhCCHHHHHHHH
Confidence 3455666666666666655553
No 225
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=33.41 E-value=53 Score=24.11 Aligned_cols=25 Identities=32% Similarity=0.624 Sum_probs=22.2
Q ss_pred CCCccCCCCcccccchhHHHHHHhh
Q psy16578 150 EPQFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 150 ~~~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
...|.|..|-+-|.+...|.+|+..
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~~ 70 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLAK 70 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHHh
Confidence 4459999999999999999999863
No 226
>PF07911 DUF1677: Protein of unknown function (DUF1677); InterPro: IPR012876 The sequences found in this family are all derived from hypothetical plant proteins of unknown function. The region features a number of highly conserved cysteine residues.
Probab=33.34 E-value=28 Score=20.60 Aligned_cols=39 Identities=21% Similarity=0.350 Sum_probs=27.1
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCcccccc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~ 90 (177)
-+|.-||..=.--..+...++....+ + |.|.+|..+.+.
T Consensus 5 akCeCCG~~EECT~~YI~~VR~ry~G-r-WvCGLC~EAVke 43 (91)
T PF07911_consen 5 AKCECCGLTEECTPEYIARVRERYGG-R-WVCGLCSEAVKE 43 (91)
T ss_pred eeecCCCCchhccHHHHHHHHHHhCC-e-ehhhcCHHHHHH
Confidence 46888887666556666777665544 5 999999876543
No 227
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=33.11 E-value=35 Score=30.44 Aligned_cols=28 Identities=25% Similarity=0.790 Sum_probs=16.6
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCccc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKR 161 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 161 (177)
..|.|+.|+....... + . ...|+.|+..
T Consensus 691 ~vy~CPsCGaev~~de---------s--~-a~~CP~CGtp 718 (1337)
T PRK14714 691 PVYVCPDCGAEVPPDE---------S--G-RVECPRCDVE 718 (1337)
T ss_pred CceeCccCCCccCCCc---------c--c-cccCCCCCCc
Confidence 3578888887543210 1 1 2569999843
No 228
>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=33.01 E-value=4.8 Score=19.13 Aligned_cols=10 Identities=20% Similarity=0.913 Sum_probs=4.8
Q ss_pred eeCCCCcccc
Q psy16578 79 FKCPHCNKKC 88 (177)
Q Consensus 79 ~~C~~C~~~f 88 (177)
..|..||-.+
T Consensus 22 isC~~CGPr~ 31 (35)
T PF07503_consen 22 ISCTNCGPRY 31 (35)
T ss_dssp --BTTCC-SC
T ss_pred ccCCCCCCCE
Confidence 5677777554
No 229
>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 COG2879 Uncharacterized small protein [Function unknown]
Probab=32.35 E-value=56 Score=17.84 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=12.3
Q ss_pred ChHHHHHHHHHHhCCCC
Q psy16578 61 RQYTLNAHLRYECGKRP 77 (177)
Q Consensus 61 ~~~~l~~H~~~h~~~~~ 77 (177)
.-.++..||+.+|+.++
T Consensus 24 dYdnYVehmr~~hPd~p 40 (65)
T COG2879 24 DYDNYVEHMRKKHPDKP 40 (65)
T ss_pred cHHHHHHHHHHhCcCCC
Confidence 34677888888887765
No 231
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=32.21 E-value=23 Score=16.96 Aligned_cols=11 Identities=36% Similarity=0.987 Sum_probs=5.9
Q ss_pred ceeCCCCcccc
Q psy16578 78 KFKCPHCNKKC 88 (177)
Q Consensus 78 ~~~C~~C~~~f 88 (177)
-|+|..||...
T Consensus 6 ~YkC~~CGniV 16 (36)
T PF06397_consen 6 FYKCEHCGNIV 16 (36)
T ss_dssp EEE-TTT--EE
T ss_pred EEEccCCCCEE
Confidence 38899998654
No 232
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.86 E-value=28 Score=21.56 Aligned_cols=20 Identities=20% Similarity=0.600 Sum_probs=10.2
Q ss_pred eeCCCCccccccchHHHhHH
Q psy16578 79 FKCPHCNKKCHQKCNLKSHI 98 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~ 98 (177)
|.|+.|...|--.-++-.|-
T Consensus 82 y~C~~C~~~FC~dCD~fiHe 101 (112)
T TIGR00622 82 YVCAVCKNVFCVDCDVFVHE 101 (112)
T ss_pred eeCCCCCCccccccchhhhh
Confidence 55555555555444444443
No 233
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=31.28 E-value=49 Score=17.50 Aligned_cols=18 Identities=22% Similarity=0.429 Sum_probs=13.7
Q ss_pred eeCCCCccccccchHHHh
Q psy16578 79 FKCPHCNKKCHQKCNLKS 96 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~ 96 (177)
+-|-.||..|.+...|..
T Consensus 28 ~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDLER 45 (55)
T ss_pred ceeeeeCCccCCHHHHHh
Confidence 568888888888877753
No 234
>PHA02998 RNA polymerase subunit; Provisional
Probab=31.15 E-value=14 Score=24.75 Aligned_cols=40 Identities=23% Similarity=0.465 Sum_probs=23.5
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCC---CccCCCCcccccch
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEP---QFKCPYCDKRCKLK 165 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~---~~~C~~C~~~f~~~ 165 (177)
....|+.|+..=.....+ ++....|+ -|.|..|++.|...
T Consensus 142 t~v~CPkCg~~~A~f~ql----QTRSADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 142 YNTPCPNCKSKNTTPMMI----QTRAADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred cCCCCCCCCCCceEEEEE----eeccCCCCceEEEEcCCCCCccCCc
Confidence 456899997443332222 22333344 38999999887643
No 235
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=30.95 E-value=39 Score=21.60 Aligned_cols=15 Identities=27% Similarity=0.580 Sum_probs=12.2
Q ss_pred ccCCCCcccccchhH
Q psy16578 153 FKCPYCDKRCKLKGN 167 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~ 167 (177)
-+|+.|..+|+++..
T Consensus 122 pvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 122 PVCPVCKTSFKSSSS 136 (140)
T ss_pred CCCCccccccccccc
Confidence 579999999988753
No 236
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=30.82 E-value=17 Score=26.88 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=7.1
Q ss_pred CccccCccchh
Q psy16578 48 DVFACPKCSKT 58 (177)
Q Consensus 48 ~~~~C~~C~~~ 58 (177)
..-.|++||..
T Consensus 186 ~~~~CPvCGs~ 196 (309)
T PRK03564 186 QRQFCPVCGSM 196 (309)
T ss_pred CCCCCCCCCCc
Confidence 34568888853
No 237
>KOG4118|consensus
Probab=30.74 E-value=28 Score=19.07 Aligned_cols=26 Identities=27% Similarity=0.478 Sum_probs=18.2
Q ss_pred eeCCCCccccccchHHHhHHHHhcCC
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQ 104 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~ 104 (177)
|.|.+|--.......+..|....|..
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk 64 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPK 64 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCC
Confidence 66777776666677777777776664
No 238
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=30.73 E-value=58 Score=24.57 Aligned_cols=16 Identities=19% Similarity=0.914 Sum_probs=11.2
Q ss_pred HhCCCCceeCCCCccc
Q psy16578 72 ECGKRPKFKCPHCNKK 87 (177)
Q Consensus 72 h~~~~~~~~C~~C~~~ 87 (177)
-....+.|+|..||..
T Consensus 348 ~l~~~~~YRC~~CGF~ 363 (389)
T COG2956 348 QLRRKPRYRCQNCGFT 363 (389)
T ss_pred HHhhcCCceecccCCc
Confidence 3444567999999954
No 239
>KOG3214|consensus
Probab=30.67 E-value=26 Score=21.10 Aligned_cols=15 Identities=20% Similarity=0.563 Sum_probs=11.0
Q ss_pred CceecCCccccccCh
Q psy16578 122 GSFICPKCSNRYVYK 136 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~ 136 (177)
+...|..|+.+|...
T Consensus 46 G~~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 46 GKASCRICEESFQTT 60 (109)
T ss_pred ceeeeeehhhhhccc
Confidence 456888888888653
No 240
>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=30.63 E-value=15 Score=23.88 Aligned_cols=33 Identities=24% Similarity=0.756 Sum_probs=21.1
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccc
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCH 89 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~ 89 (177)
-.|.|..|+..+..... . .... |.|..|+..+.
T Consensus 122 ~~~~C~~C~~~~~r~~~------~--~~~~-~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKRHRR------S--KRKR-YRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeeeecc------c--chhh-EECCCCCCEEE
Confidence 45789999987644322 2 1123 89999986553
No 241
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.53 E-value=30 Score=18.76 Aligned_cols=16 Identities=44% Similarity=1.012 Sum_probs=12.0
Q ss_pred CCCceecCCccccccC
Q psy16578 120 LNGSFICPKCSNRYVY 135 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~ 135 (177)
.++-..|++|++.|..
T Consensus 45 ~~gev~CPYC~t~y~l 60 (62)
T COG4391 45 DEGEVVCPYCSTRYRL 60 (62)
T ss_pred CCCcEecCccccEEEe
Confidence 3455789999988863
No 242
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.45 E-value=19 Score=22.63 Aligned_cols=31 Identities=23% Similarity=0.525 Sum_probs=18.7
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCD 159 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~ 159 (177)
..+.| .|+..|.....-..| - ...+.|+.||
T Consensus 69 ~~~~C-~Cg~~~~~~~~~~~~-----~-~~~~~CP~Cg 99 (124)
T PRK00762 69 VEIEC-ECGYEGVVDEDEIDH-----Y-AAVIECPVCG 99 (124)
T ss_pred eeEEe-eCcCcccccccchhc-----c-ccCCcCcCCC
Confidence 45789 999887654311111 0 1236899998
No 243
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.38 E-value=20 Score=18.33 Aligned_cols=19 Identities=16% Similarity=0.359 Sum_probs=13.3
Q ss_pred eeCCCCccccccchHHHhH
Q psy16578 79 FKCPHCNKKCHQKCNLKSH 97 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H 97 (177)
-+|+.|++-|.....+.+-
T Consensus 13 KICpvCqRPFsWRkKW~~c 31 (54)
T COG4338 13 KICPVCQRPFSWRKKWARC 31 (54)
T ss_pred hhhhhhcCchHHHHHHHHH
Confidence 3689999888766555543
No 244
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=30.35 E-value=50 Score=22.52 Aligned_cols=51 Identities=25% Similarity=0.583 Sum_probs=25.4
Q ss_pred ceecCC----ccccccChhHHHHHHHHhhCCCCCccCCC----CcccccchhHHHHHHhhhcC
Q psy16578 123 SFICPK----CSNRYVYKHNLKQHLKFECGVEPQFKCPY----CDKRCKLKGNLMSHIALKHT 177 (177)
Q Consensus 123 ~~~C~~----C~~~f~~~~~l~~H~~~h~~~~~~~~C~~----C~~~f~~~~~l~~H~~~~h~ 177 (177)
.+.|+. |...+.. .....|..... -+|+.|+. |+..=. ...|..|+...|.
T Consensus 14 ~~pC~~~~~GC~~~~~~-~~~~~HE~~C~--~~p~~CP~~~~~C~~~G~-~~~l~~Hl~~~H~ 72 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPY-SEKREHEEECP--FRPCSCPFPGSGCDWQGS-YKELLDHLRDKHS 72 (198)
T ss_dssp -EE-CCGGGT---EE-G-GGHHHHHHT-T--TSEEE-SSSSTT---EEE-CCCHHHHHHHHTT
T ss_pred eecCCCCCCCCcccccc-cChhhHhccCC--CcCCcCCCCCCCccccCC-HHHHHHHHHHHCC
Confidence 366765 7666544 35677776553 33488888 665443 3478888887763
No 245
>KOG3556|consensus
Probab=29.96 E-value=43 Score=26.79 Aligned_cols=12 Identities=17% Similarity=0.387 Sum_probs=7.1
Q ss_pred CCCccccCccch
Q psy16578 46 GEDVFACPKCSK 57 (177)
Q Consensus 46 ~~~~~~C~~C~~ 57 (177)
...+-+|.+||.
T Consensus 555 e~~prQcsicg~ 566 (724)
T KOG3556|consen 555 EVNPRQCSICGL 566 (724)
T ss_pred cCCcceeeeccc
Confidence 344556777764
No 246
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=29.55 E-value=25 Score=25.84 Aligned_cols=33 Identities=27% Similarity=0.694 Sum_probs=21.7
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccch
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKC 92 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~~ 92 (177)
.+|+.|+..+..+ .|... . +.|+.|+..|.-..
T Consensus 28 ~~c~~c~~~~~~~-~l~~~--------~-~vc~~c~~h~rl~a 60 (292)
T PRK05654 28 TKCPSCGQVLYRK-ELEAN--------L-NVCPKCGHHMRISA 60 (292)
T ss_pred eECCCccchhhHH-HHHhc--------C-CCCCCCCCCeeCCH
Confidence 3799999865543 22221 2 78999999886443
No 247
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=29.46 E-value=21 Score=17.39 Aligned_cols=9 Identities=44% Similarity=1.508 Sum_probs=4.7
Q ss_pred eecCCcccc
Q psy16578 124 FICPKCSNR 132 (177)
Q Consensus 124 ~~C~~C~~~ 132 (177)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 455555543
No 248
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.41 E-value=7.6 Score=31.95 Aligned_cols=11 Identities=36% Similarity=1.014 Sum_probs=7.9
Q ss_pred CceecCCcccc
Q psy16578 122 GSFICPKCSNR 132 (177)
Q Consensus 122 ~~~~C~~C~~~ 132 (177)
.|..|+.||-.
T Consensus 172 Qp~aCp~CGP~ 182 (750)
T COG0068 172 QPIACPKCGPH 182 (750)
T ss_pred ccccCcccCCC
Confidence 45689999853
No 249
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=29.22 E-value=26 Score=22.32 Aligned_cols=15 Identities=20% Similarity=0.587 Sum_probs=11.9
Q ss_pred ccccCccchhccChH
Q psy16578 49 VFACPKCSKTYLRQY 63 (177)
Q Consensus 49 ~~~C~~C~~~f~~~~ 63 (177)
|++|..||..|....
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 478999999998753
No 250
>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=29.16 E-value=34 Score=22.02 Aligned_cols=17 Identities=18% Similarity=0.352 Sum_probs=11.6
Q ss_pred CCCCceecCCccccccC
Q psy16578 119 QLNGSFICPKCSNRYVY 135 (177)
Q Consensus 119 ~~~~~~~C~~C~~~f~~ 135 (177)
...-.|.|..||.....
T Consensus 77 ~~nl~~~CE~CG~~I~~ 93 (137)
T TIGR03826 77 FPNLGYPCERCGTSIRE 93 (137)
T ss_pred CCCCcCcccccCCcCCC
Confidence 34556889999876544
No 251
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=29.12 E-value=37 Score=22.91 Aligned_cols=25 Identities=20% Similarity=0.479 Sum_probs=18.6
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCccc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKR 161 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~ 161 (177)
..+.|..|.+.|. .+. -.|++||-.
T Consensus 138 w~~rC~GC~~~f~--------------~~~-~~Cp~CG~~ 162 (177)
T COG1439 138 WRLRCHGCKRIFP--------------EPK-DFCPICGSP 162 (177)
T ss_pred eeEEEecCceecC--------------CCC-CcCCCCCCc
Confidence 3578999999996 133 569999854
No 252
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=29.04 E-value=37 Score=24.87 Aligned_cols=32 Identities=31% Similarity=0.690 Sum_probs=20.5
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
.+|+.|+...-.+. |. +..+.|+.|++-|...
T Consensus 27 ~~c~~c~~~~~~~~-l~---------~~~~vc~~c~~h~rl~ 58 (285)
T TIGR00515 27 TKCPKCGQVLYTKE-LE---------RNLEVCPKCDHHMRMD 58 (285)
T ss_pred eECCCCcchhhHHH-HH---------hhCCCCCCCCCcCcCC
Confidence 47999987653333 21 2238999999877643
No 253
>KOG2071|consensus
Probab=28.85 E-value=35 Score=27.60 Aligned_cols=26 Identities=15% Similarity=0.367 Sum_probs=22.6
Q ss_pred CCCccCCCCcccccchhHHHHHHhhh
Q psy16578 150 EPQFKCPYCDKRCKLKGNLMSHIALK 175 (177)
Q Consensus 150 ~~~~~C~~C~~~f~~~~~l~~H~~~~ 175 (177)
..+-+|..||.+|.+......||-.|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhh
Confidence 55699999999999999988888766
No 254
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=28.68 E-value=38 Score=18.00 Aligned_cols=32 Identities=19% Similarity=0.473 Sum_probs=16.8
Q ss_pred CccccCccchhccChHHHHHHHHHHhCCCCceeCCCC
Q psy16578 48 DVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHC 84 (177)
Q Consensus 48 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C 84 (177)
.|+....|+-.|... ++...+ .......|+.-
T Consensus 23 ~PV~s~~C~H~fek~-aI~~~i----~~~~~~~CPv~ 54 (57)
T PF11789_consen 23 DPVKSKKCGHTFEKE-AILQYI----QRNGSKRCPVA 54 (57)
T ss_dssp SEEEESSS--EEEHH-HHHHHC----TTTS-EE-SCC
T ss_pred CCcCcCCCCCeecHH-HHHHHH----HhcCCCCCCCC
Confidence 456667788888754 555555 22233788873
No 255
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=28.65 E-value=10 Score=22.80 Aligned_cols=12 Identities=17% Similarity=0.692 Sum_probs=8.6
Q ss_pred ceecCCcccccc
Q psy16578 123 SFICPKCSNRYV 134 (177)
Q Consensus 123 ~~~C~~C~~~f~ 134 (177)
...|..|+-+|.
T Consensus 46 ~~~Cg~CGls~e 57 (104)
T COG4888 46 TAVCGNCGLSFE 57 (104)
T ss_pred EEEcccCcceEE
Confidence 457888887774
No 256
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=28.61 E-value=20 Score=28.34 Aligned_cols=19 Identities=16% Similarity=0.247 Sum_probs=14.5
Q ss_pred CCCCCccccCccchhccCh
Q psy16578 44 PAGEDVFACPKCSKTYLRQ 62 (177)
Q Consensus 44 ~~~~~~~~C~~C~~~f~~~ 62 (177)
......|.|..|+..+...
T Consensus 420 ~~~~~~~~c~~c~~~yd~~ 438 (479)
T PRK05452 420 ADLGPRMQCSVCQWIYDPA 438 (479)
T ss_pred cCCCCeEEECCCCeEECCC
Confidence 3455679999999888764
No 257
>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=28.49 E-value=81 Score=20.75 Aligned_cols=39 Identities=15% Similarity=0.404 Sum_probs=20.4
Q ss_pred CceecCCccccccC------hhHHHHHHHH-hhCC----------CCCccCCCCcc
Q psy16578 122 GSFICPKCSNRYVY------KHNLKQHLKF-ECGV----------EPQFKCPYCDK 160 (177)
Q Consensus 122 ~~~~C~~C~~~f~~------~~~l~~H~~~-h~~~----------~~~~~C~~C~~ 160 (177)
.-.+|..|++.|=+ .+.+..|+.. .|.+ +..+.|..||-
T Consensus 13 ~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 13 CVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp CEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred cEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 44689889988843 5677888763 2221 23488988874
No 258
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=27.90 E-value=24 Score=22.82 Aligned_cols=34 Identities=21% Similarity=0.588 Sum_probs=21.7
Q ss_pred CceecCCccccccChhHHHHHHHHhhCCCCCccCCCCccccc
Q psy16578 122 GSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCK 163 (177)
Q Consensus 122 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~ 163 (177)
-.|.|..|+..+.. +.+ +....+ |.|..|+-.+.
T Consensus 111 ~~y~C~~C~~~~~~------~rr-~~~~~~-y~C~~C~g~l~ 144 (146)
T smart00731 111 YPYRCTGCGQRYLR------VRR-SNNVSR-YRCGKCGGKLI 144 (146)
T ss_pred EEEECCCCCCCCce------Ecc-ccCcce-EEcCCCCCEEE
Confidence 47899989977642 211 212144 99999986653
No 259
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=27.65 E-value=53 Score=17.30 Aligned_cols=35 Identities=20% Similarity=0.488 Sum_probs=18.5
Q ss_pred CCCCccccCccchhccChHHHHHHHHHHhCCCCceeCCCCcc
Q psy16578 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNK 86 (177)
Q Consensus 45 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 86 (177)
....+..|..|..-..... ..-.... .|+|+.||.
T Consensus 18 ~~r~aLIC~~C~~hNGla~------~~~~~~i-~y~C~~Cg~ 52 (54)
T PF10058_consen 18 SNRYALICSKCFSHNGLAP------KEEFEEI-QYRCPYCGA 52 (54)
T ss_pred cCceeEECcccchhhcccc------cccCCce-EEEcCCCCC
Confidence 3344567888875433221 1111222 399999984
No 260
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=27.56 E-value=28 Score=17.00 Aligned_cols=11 Identities=27% Similarity=0.984 Sum_probs=6.9
Q ss_pred eeCCCCccccc
Q psy16578 79 FKCPHCNKKCH 89 (177)
Q Consensus 79 ~~C~~C~~~f~ 89 (177)
+.|+.||..+.
T Consensus 33 ~~C~~CGE~~~ 43 (46)
T TIGR03831 33 LVCPQCGEEYL 43 (46)
T ss_pred cccccCCCEee
Confidence 56777776553
No 261
>PRK05978 hypothetical protein; Provisional
Probab=27.55 E-value=19 Score=23.49 Aligned_cols=10 Identities=20% Similarity=0.893 Sum_probs=5.7
Q ss_pred ecCCcccccc
Q psy16578 125 ICPKCSNRYV 134 (177)
Q Consensus 125 ~C~~C~~~f~ 134 (177)
.|..|+..|.
T Consensus 54 ~C~~CG~~~~ 63 (148)
T PRK05978 54 HCAACGEDFT 63 (148)
T ss_pred CccccCCccc
Confidence 5666665554
No 262
>PLN03239 histone acetyltransferase; Provisional
Probab=27.31 E-value=45 Score=25.19 Aligned_cols=25 Identities=12% Similarity=0.168 Sum_probs=22.0
Q ss_pred CCceecCCccccccChhHHHHHHHH
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
+.-|.|.+|.+-|.+...|.+|+..
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~~ 128 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQAK 128 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHHh
Confidence 4579999999999999999999763
No 263
>KOG0782|consensus
Probab=27.04 E-value=15 Score=29.60 Aligned_cols=15 Identities=27% Similarity=0.609 Sum_probs=10.6
Q ss_pred ceecCCccccccChh
Q psy16578 123 SFICPKCSNRYVYKH 137 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~ 137 (177)
...|.+|...|..+-
T Consensus 276 AisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 276 AISCSWCKQAYHLKV 290 (1004)
T ss_pred EEEehHHHHHhhcch
Confidence 357888887776654
No 264
>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=26.97 E-value=86 Score=15.60 Aligned_cols=7 Identities=71% Similarity=2.010 Sum_probs=3.5
Q ss_pred eeCCCCc
Q psy16578 79 FKCPHCN 85 (177)
Q Consensus 79 ~~C~~C~ 85 (177)
+.|+.||
T Consensus 19 ~~CP~Cg 25 (46)
T PF12760_consen 19 FVCPHCG 25 (46)
T ss_pred CCCCCCC
Confidence 4455555
No 265
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=26.95 E-value=43 Score=26.26 Aligned_cols=25 Identities=24% Similarity=0.465 Sum_probs=22.2
Q ss_pred CCceecCCccccccChhHHHHHHHH
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
..-|.|.+|.+-|.....|.+|+..
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~ 220 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKK 220 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhc
Confidence 3468999999999999999999973
No 266
>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=26.92 E-value=15 Score=27.64 Aligned_cols=42 Identities=21% Similarity=0.409 Sum_probs=20.4
Q ss_pred ceecCCccccccChhHHHH---HHH-HhhCCCCCccCCCCcccccc
Q psy16578 123 SFICPKCSNRYVYKHNLKQ---HLK-FECGVEPQFKCPYCDKRCKL 164 (177)
Q Consensus 123 ~~~C~~C~~~f~~~~~l~~---H~~-~h~~~~~~~~C~~C~~~f~~ 164 (177)
.+.|..|.++.-.....-. |-. .|...++-|+|..|++...+
T Consensus 252 av~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~s 297 (344)
T PF09332_consen 252 AVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTIS 297 (344)
T ss_dssp EEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEEE
T ss_pred EEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeeee
Confidence 5789999877655544332 221 23345667999999987554
No 267
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=26.85 E-value=30 Score=26.02 Aligned_cols=21 Identities=14% Similarity=0.336 Sum_probs=15.5
Q ss_pred ccCCCCcccccchhHHHHHHh
Q psy16578 153 FKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 153 ~~C~~C~~~f~~~~~l~~H~~ 173 (177)
+.|..|++-|+....+..|+.
T Consensus 239 ~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 239 VYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred eeeHhhhhHhhhhHHHHHHHh
Confidence 677777777777777777764
No 268
>PTZ00064 histone acetyltransferase; Provisional
Probab=26.51 E-value=49 Score=26.38 Aligned_cols=25 Identities=20% Similarity=0.537 Sum_probs=22.3
Q ss_pred CCceecCCccccccChhHHHHHHHH
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKF 145 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~ 145 (177)
+.-|.|.+|-+-|.....|.+|+..
T Consensus 278 d~LYICEfCLkY~~s~~~l~rH~~~ 302 (552)
T PTZ00064 278 DTLHFCEYCLDFFCFEDELIRHLSR 302 (552)
T ss_pred CeEEEccchhhhhCCHHHHHHHHhc
Confidence 4568999999999999999999884
No 269
>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=26.34 E-value=33 Score=19.07 Aligned_cols=15 Identities=13% Similarity=0.219 Sum_probs=8.9
Q ss_pred CCCceecCCccccccC
Q psy16578 120 LNGSFICPKCSNRYVY 135 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~ 135 (177)
+.+.-+| .||+..+-
T Consensus 17 ~~kTkkC-~CG~~l~v 31 (68)
T PF09082_consen 17 GAKTKKC-VCGKTLKV 31 (68)
T ss_dssp T-SEEEE-TTTEEEE-
T ss_pred CcceeEe-cCCCeeee
Confidence 3455678 88877653
No 270
>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=26.30 E-value=19 Score=21.87 Aligned_cols=35 Identities=29% Similarity=0.605 Sum_probs=17.2
Q ss_pred CceecCCccccc--cChhHHHHHHHHhhCCCCC-ccCCCCc
Q psy16578 122 GSFICPKCSNRY--VYKHNLKQHLKFECGVEPQ-FKCPYCD 159 (177)
Q Consensus 122 ~~~~C~~C~~~f--~~~~~l~~H~~~h~~~~~~-~~C~~C~ 159 (177)
+|-.|++|+..- .+.+.+.-+...+ .+. |.|..|+
T Consensus 1 ~p~~CpYCg~~~~l~~~~~iYg~~~~~---~~~~y~C~~C~ 38 (102)
T PF11672_consen 1 KPIICPYCGGPAELVDGSEIYGHRYDD---GPYLYVCTPCD 38 (102)
T ss_pred CCcccCCCCCeeEEcccchhcCccCCC---CceeEECCCCC
Confidence 356788887432 2223333221111 232 7888886
No 271
>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=25.93 E-value=30 Score=20.79 Aligned_cols=9 Identities=33% Similarity=1.416 Sum_probs=4.3
Q ss_pred eecCCcccc
Q psy16578 124 FICPKCSNR 132 (177)
Q Consensus 124 ~~C~~C~~~ 132 (177)
+.|..|+..
T Consensus 17 ~~C~~C~~~ 25 (104)
T TIGR01384 17 YVCPSCGYE 25 (104)
T ss_pred EECcCCCCc
Confidence 445555443
No 272
>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=25.86 E-value=32 Score=22.12 Aligned_cols=15 Identities=27% Similarity=0.700 Sum_probs=12.1
Q ss_pred CceeCCCCccccccc
Q psy16578 77 PKFKCPHCNKKCHQK 91 (177)
Q Consensus 77 ~~~~C~~C~~~f~~~ 91 (177)
++.+|++||..|.-.
T Consensus 111 ~~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 111 KPQRCPECGQVFKLK 125 (136)
T ss_dssp SEEEETTTEEEEEEE
T ss_pred CccCCCCCCeEEEEE
Confidence 358999999988654
No 273
>PRK12722 transcriptional activator FlhC; Provisional
Probab=25.68 E-value=43 Score=22.88 Aligned_cols=28 Identities=18% Similarity=0.460 Sum_probs=15.2
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCcc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNK 86 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~ 86 (177)
..|..|+..|..... .. ...|.|+.|.-
T Consensus 135 ~~C~~Cgg~fv~~~~--------e~-~~~f~CplC~~ 162 (187)
T PRK12722 135 SSCNCCGGHFVTHAH--------DP-VGSFVCGLCQP 162 (187)
T ss_pred ccCCCCCCCeecccc--------cc-CCCCcCCCCCC
Confidence 357777776664321 11 12377777753
No 274
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=25.17 E-value=18 Score=22.01 Aligned_cols=11 Identities=27% Similarity=0.857 Sum_probs=7.5
Q ss_pred ccCCCCccccc
Q psy16578 153 FKCPYCDKRCK 163 (177)
Q Consensus 153 ~~C~~C~~~f~ 163 (177)
|.|+.|++.++
T Consensus 21 ~~cpec~~ew~ 31 (112)
T COG2824 21 LICPECAHEWN 31 (112)
T ss_pred EeCchhccccc
Confidence 67777776665
No 275
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=25.00 E-value=54 Score=23.45 Aligned_cols=14 Identities=36% Similarity=0.944 Sum_probs=9.4
Q ss_pred CceecCCccccccC
Q psy16578 122 GSFICPKCSNRYVY 135 (177)
Q Consensus 122 ~~~~C~~C~~~f~~ 135 (177)
.-|.|+.|+..|.-
T Consensus 154 aef~C~~C~h~F~G 167 (278)
T PF15135_consen 154 AEFHCPKCRHNFRG 167 (278)
T ss_pred eeeecccccccchh
Confidence 45677777777754
No 276
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=24.99 E-value=51 Score=19.47 Aligned_cols=21 Identities=24% Similarity=0.691 Sum_probs=15.4
Q ss_pred CceeCCCCccccccchHHHhH
Q psy16578 77 PKFKCPHCNKKCHQKCNLKSH 97 (177)
Q Consensus 77 ~~~~C~~C~~~f~~~~~l~~H 97 (177)
+...|+.||..|-+...+..-
T Consensus 34 Pa~~C~~CGe~y~~dev~~eI 54 (89)
T TIGR03829 34 PSISCSHCGMEYQDDTTVKEI 54 (89)
T ss_pred CcccccCCCcEeecHHHHHHH
Confidence 457899999998877655443
No 277
>PLN03239 histone acetyltransferase; Provisional
Probab=24.68 E-value=42 Score=25.32 Aligned_cols=24 Identities=17% Similarity=0.254 Sum_probs=21.3
Q ss_pred CCCccCCCCcccccchhHHHHHHh
Q psy16578 150 EPQFKCPYCDKRCKLKGNLMSHIA 173 (177)
Q Consensus 150 ~~~~~C~~C~~~f~~~~~l~~H~~ 173 (177)
...|.|..|-+-|.+...|.+|+.
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~ 127 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQA 127 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHH
Confidence 345999999999999999999985
No 278
>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=24.63 E-value=34 Score=16.28 Aligned_cols=31 Identities=29% Similarity=0.539 Sum_probs=19.6
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCccccc
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCK 163 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~ 163 (177)
+.|+.|++.|.....- .+..=.|+.||-.+-
T Consensus 2 r~C~~Cg~~Yh~~~~p---------P~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNP---------PKVEGVCDNCGGELV 32 (36)
T ss_dssp EEETTTTEEEETTTB-----------SSTTBCTTTTEBEB
T ss_pred cCcCCCCCccccccCC---------CCCCCccCCCCCeeE
Confidence 5788999888643322 244467888886543
No 279
>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=24.31 E-value=25 Score=16.98 Aligned_cols=10 Identities=30% Similarity=1.308 Sum_probs=6.5
Q ss_pred eecCCccccc
Q psy16578 124 FICPKCSNRY 133 (177)
Q Consensus 124 ~~C~~C~~~f 133 (177)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 6677776654
No 280
>KOG0562|consensus
Probab=23.86 E-value=44 Score=22.30 Aligned_cols=25 Identities=16% Similarity=0.256 Sum_probs=16.1
Q ss_pred CccCCCCcccccchhHHHHHHhhhc
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIALKH 176 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~~~h 176 (177)
...|..|+..-..-..|+.|++.++
T Consensus 153 dLrC~~Cq~~~~~~~kLK~Hl~~~~ 177 (184)
T KOG0562|consen 153 DLRCWRCQTFGPHFPKLKAHLREEY 177 (184)
T ss_pred ceeehhhhhcccccHHHHHHHHHHH
Confidence 3778888733344477777877654
No 281
>PTZ00064 histone acetyltransferase; Provisional
Probab=23.56 E-value=47 Score=26.48 Aligned_cols=23 Identities=22% Similarity=0.482 Sum_probs=21.1
Q ss_pred CccCCCCcccccchhHHHHHHhh
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
.|.|..|-+-|.+...|.+|+..
T Consensus 280 LYICEfCLkY~~s~~~l~rH~~~ 302 (552)
T PTZ00064 280 LHFCEYCLDFFCFEDELIRHLSR 302 (552)
T ss_pred EEEccchhhhhCCHHHHHHHHhc
Confidence 59999999999999999999863
No 282
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=23.53 E-value=44 Score=23.53 Aligned_cols=16 Identities=25% Similarity=0.505 Sum_probs=12.8
Q ss_pred CCCccCCCCcccccch
Q psy16578 150 EPQFKCPYCDKRCKLK 165 (177)
Q Consensus 150 ~~~~~C~~C~~~f~~~ 165 (177)
.++..|++||..|...
T Consensus 179 GkpqRCpECGqVFKLV 194 (268)
T PTZ00043 179 GFLYRCGECDQIFMLV 194 (268)
T ss_pred CCCccCCCCCcEEEEE
Confidence 4569999999988753
No 283
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.45 E-value=70 Score=23.42 Aligned_cols=27 Identities=19% Similarity=0.426 Sum_probs=17.9
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccc
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRC 162 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 162 (177)
+.+|.|+.|...|-. .+-.|+.|+-.|
T Consensus 253 ~~GyvCs~Clsi~C~---------------~p~~C~~Cgt~f 279 (279)
T TIGR00627 253 SIGFVCSVCLSVLCQ---------------YTPICKTCKTAF 279 (279)
T ss_pred cceEECCCccCCcCC---------------CCCCCCCCCCCC
Confidence 456888888766532 224788888665
No 284
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=23.44 E-value=43 Score=26.26 Aligned_cols=25 Identities=28% Similarity=0.473 Sum_probs=22.0
Q ss_pred CCCccCCCCcccccchhHHHHHHhh
Q psy16578 150 EPQFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 150 ~~~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
...|.|..|-+-|.+...|.+|+..
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~ 220 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKK 220 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhc
Confidence 3359999999999999999999863
No 285
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=23.43 E-value=29 Score=25.00 Aligned_cols=37 Identities=30% Similarity=0.597 Sum_probs=25.0
Q ss_pred CCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 121 NGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 121 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
+..-.|+.||........| | + --.|+|+.|--..+-+
T Consensus 218 e~~r~CP~Cg~~W~L~~pl--h-----~-iFdFKCD~CRLVSnls 254 (258)
T PF10071_consen 218 EQARKCPSCGGDWRLKEPL--H-----D-IFDFKCDPCRLVSNLS 254 (258)
T ss_pred hhCCCCCCCCCccccCCch--h-----h-ceeccCCcceeecccc
Confidence 3345899999877666655 2 2 4459999998655433
No 286
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=23.41 E-value=27 Score=24.52 Aligned_cols=22 Identities=14% Similarity=0.368 Sum_probs=0.0
Q ss_pred CccCCCCcccccchhHHHHHHhh
Q psy16578 152 QFKCPYCDKRCKLKGNLMSHIAL 174 (177)
Q Consensus 152 ~~~C~~C~~~f~~~~~l~~H~~~ 174 (177)
...|++||....- +.|..|||+
T Consensus 168 ~~~cPitGe~IP~-~e~~eHmRi 189 (229)
T PF12230_consen 168 MIICPITGEMIPA-DEMDEHMRI 189 (229)
T ss_dssp -----------------------
T ss_pred ccccccccccccc-ccccccccc
Confidence 3667777766553 356666664
No 287
>PRK01343 zinc-binding protein; Provisional
Probab=22.81 E-value=52 Score=17.61 Aligned_cols=12 Identities=33% Similarity=0.742 Sum_probs=6.9
Q ss_pred CccCCCCccccc
Q psy16578 152 QFKCPYCDKRCK 163 (177)
Q Consensus 152 ~~~C~~C~~~f~ 163 (177)
...|++|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 355666666543
No 288
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=22.72 E-value=39 Score=17.69 Aligned_cols=11 Identities=27% Similarity=0.857 Sum_probs=7.4
Q ss_pred eCCCCcccccc
Q psy16578 80 KCPHCNKKCHQ 90 (177)
Q Consensus 80 ~C~~C~~~f~~ 90 (177)
.|+.||..+.-
T Consensus 2 ~CPyCge~~~~ 12 (52)
T PF14255_consen 2 QCPYCGEPIEI 12 (52)
T ss_pred CCCCCCCeeEE
Confidence 58888876543
No 289
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=22.57 E-value=56 Score=15.18 Aligned_cols=14 Identities=14% Similarity=0.503 Sum_probs=9.7
Q ss_pred CCceecCCcccccc
Q psy16578 121 NGSFICPKCSNRYV 134 (177)
Q Consensus 121 ~~~~~C~~C~~~f~ 134 (177)
+..+.|..|+..|.
T Consensus 19 ~~~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 19 DDYEVCIFCGSSFP 32 (33)
T ss_pred CCeEEcccCCcEee
Confidence 34567888887764
No 290
>PRK12860 transcriptional activator FlhC; Provisional
Probab=22.54 E-value=53 Score=22.48 Aligned_cols=12 Identities=17% Similarity=0.717 Sum_probs=7.6
Q ss_pred cccCccchhccC
Q psy16578 50 FACPKCSKTYLR 61 (177)
Q Consensus 50 ~~C~~C~~~f~~ 61 (177)
..|..|+..|..
T Consensus 135 ~~C~~Cgg~fv~ 146 (189)
T PRK12860 135 ARCCRCGGKFVT 146 (189)
T ss_pred ccCCCCCCCeec
Confidence 457777766663
No 291
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=22.29 E-value=75 Score=21.83 Aligned_cols=35 Identities=23% Similarity=0.669 Sum_probs=19.9
Q ss_pred cccCccchhccChHHHHHHHHHH-hCCCCceeCCCCcccccc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYE-CGKRPKFKCPHCNKKCHQ 90 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h-~~~~~~~~C~~C~~~f~~ 90 (177)
+.|+.|+.. . . .|-... .+....+.|..||..+..
T Consensus 7 ~~Cp~Cg~e--e--v--~hEVik~~g~~~lvrC~eCG~V~~~ 42 (201)
T COG1326 7 IECPSCGSE--E--V--SHEVIKERGREPLVRCEECGTVHPA 42 (201)
T ss_pred EECCCCCcc--h--h--hHHHHHhcCCceEEEccCCCcEeec
Confidence 579999921 1 1 122122 233355899999987633
No 292
>PLN02748 tRNA dimethylallyltransferase
Probab=22.10 E-value=59 Score=25.78 Aligned_cols=22 Identities=14% Similarity=0.422 Sum_probs=18.7
Q ss_pred ceeCCCCcc-ccccchHHHhHHH
Q psy16578 78 KFKCPHCNK-KCHQKCNLKSHIA 99 (177)
Q Consensus 78 ~~~C~~C~~-~f~~~~~l~~H~~ 99 (177)
.|.|..|++ .+.....|..|+.
T Consensus 418 ~~~Ce~C~~~~~~G~~eW~~Hlk 440 (468)
T PLN02748 418 QYVCEACGNKVLRGAHEWEQHKQ 440 (468)
T ss_pred cccccCCCCcccCCHHHHHHHhc
Confidence 488999997 7889999999974
No 293
>KOG1940|consensus
Probab=22.06 E-value=97 Score=22.67 Aligned_cols=58 Identities=16% Similarity=0.312 Sum_probs=31.1
Q ss_pred eeCCCCccccccchHHHhHHHHhcCCCCCCCCccccccccCCCCceecCCccccccChhHHHHHH
Q psy16578 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHL 143 (177)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 143 (177)
|.|++|.+ ....+.+-++....-...+.+.-.. ..+....|..|+.....+.....|+
T Consensus 197 y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~------~~~~~i~cndC~~~~~~k~~~l~~k 254 (276)
T KOG1940|consen 197 YTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYK------NKTQDILCNDCGSGTNVKYHILYHK 254 (276)
T ss_pred CCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhh------chhheeeccCCCCCCccceehhhhh
Confidence 88899888 5555555555544443322221111 1122357888887766555554443
No 294
>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=21.99 E-value=48 Score=19.83 Aligned_cols=40 Identities=20% Similarity=0.203 Sum_probs=16.5
Q ss_pred CCCceecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccccch
Q psy16578 120 LNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLK 165 (177)
Q Consensus 120 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 165 (177)
+.+.-.|..|+..+..... .-.+++--|-|+.|.+.|.+-
T Consensus 11 g~ke~~CalCG~tWg~~y~------Ev~G~rLfFCCd~ca~EF~nm 50 (105)
T PF11494_consen 11 GTKEMGCALCGATWGDYYE------EVDGERLFFCCDDCAKEFKNM 50 (105)
T ss_dssp -SGGGS-SS---S---SS-------B-TT--BSSS--SSSS-TTS-
T ss_pred ccccccccccCCcHHHHHH------hhcCCEEEEEcHHHHHHHHHH
Confidence 4566789999988764321 123445557889999888754
No 295
>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=21.78 E-value=40 Score=21.96 Aligned_cols=13 Identities=23% Similarity=0.437 Sum_probs=8.0
Q ss_pred ccCCCCcccccch
Q psy16578 153 FKCPYCDKRCKLK 165 (177)
Q Consensus 153 ~~C~~C~~~f~~~ 165 (177)
-.|..|++.|++.
T Consensus 29 ReC~~C~~RFTTy 41 (147)
T TIGR00244 29 RECLECHERFTTF 41 (147)
T ss_pred ccCCccCCcccee
Confidence 5566666666654
No 296
>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=21.23 E-value=93 Score=15.17 Aligned_cols=13 Identities=31% Similarity=0.999 Sum_probs=7.2
Q ss_pred CCceecCCccccc
Q psy16578 121 NGSFICPKCSNRY 133 (177)
Q Consensus 121 ~~~~~C~~C~~~f 133 (177)
.+.+.|..||...
T Consensus 17 ~g~~vC~~CG~Vl 29 (43)
T PF08271_consen 17 RGELVCPNCGLVL 29 (43)
T ss_dssp TTEEEETTT-BBE
T ss_pred CCeEECCCCCCEe
Confidence 3456777776544
No 297
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=21.06 E-value=39 Score=17.11 Aligned_cols=13 Identities=23% Similarity=0.626 Sum_probs=8.9
Q ss_pred CccCCCCcccccc
Q psy16578 152 QFKCPYCDKRCKL 164 (177)
Q Consensus 152 ~~~C~~C~~~f~~ 164 (177)
.|.|+.|++.+.-
T Consensus 20 ~~vC~~Cg~~~~~ 32 (52)
T smart00661 20 RFVCRKCGYEEPI 32 (52)
T ss_pred EEECCcCCCeEEC
Confidence 3778888876543
No 298
>KOG2747|consensus
Probab=20.95 E-value=51 Score=25.37 Aligned_cols=21 Identities=33% Similarity=0.713 Sum_probs=0.0
Q ss_pred eecCCccccccChhHHHHHHH
Q psy16578 124 FICPKCSNRYVYKHNLKQHLK 144 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~ 144 (177)
|.|.+|.+-+.++..|.+|+.
T Consensus 159 YiCEfCLkY~~s~~~l~rH~~ 179 (396)
T KOG2747|consen 159 YICEFCLKYMKSRTSLQRHLK 179 (396)
T ss_pred EEehHHHhHhchHHHHHHHHH
No 299
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.70 E-value=58 Score=23.97 Aligned_cols=26 Identities=31% Similarity=0.714 Sum_probs=18.0
Q ss_pred cccCccchhccChHHHHHHHHHHhCCCCceeCCCCccccccc
Q psy16578 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQK 91 (177)
Q Consensus 50 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f~~~ 91 (177)
-.|+.||. ...+.|.|+.||..+...
T Consensus 310 ~~C~~cg~----------------~~~r~~~C~~cg~~~~rD 335 (364)
T COG0675 310 KTCPCCGH----------------LSGRLFKCPRCGFVHDRD 335 (364)
T ss_pred ccccccCC----------------ccceeEECCCCCCeehhh
Confidence 36999998 112339999999875544
No 300
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=20.68 E-value=30 Score=18.25 Aligned_cols=12 Identities=25% Similarity=0.769 Sum_probs=8.7
Q ss_pred CCCccCCCCccc
Q psy16578 150 EPQFKCPYCDKR 161 (177)
Q Consensus 150 ~~~~~C~~C~~~ 161 (177)
.-|+.|+.|.+.
T Consensus 26 NfPlyCpKCK~E 37 (55)
T PF14205_consen 26 NFPLYCPKCKQE 37 (55)
T ss_pred cccccCCCCCce
Confidence 556888888754
No 301
>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=20.35 E-value=56 Score=14.58 Aligned_cols=9 Identities=33% Similarity=1.103 Sum_probs=4.7
Q ss_pred ccCCCCccc
Q psy16578 153 FKCPYCDKR 161 (177)
Q Consensus 153 ~~C~~C~~~ 161 (177)
|.|.+|++.
T Consensus 1 ~~C~~C~~~ 9 (30)
T PF03107_consen 1 FWCDVCRRK 9 (30)
T ss_pred CCCCCCCCC
Confidence 355666544
No 302
>PF12773 DZR: Double zinc ribbon
Probab=20.27 E-value=43 Score=16.84 Aligned_cols=27 Identities=22% Similarity=0.559 Sum_probs=16.4
Q ss_pred eecCCccccccChhHHHHHHHHhhCCCCCccCCCCcccc
Q psy16578 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRC 162 (177)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~C~~C~~~f 162 (177)
--|+.|+.... ........|+.|+...
T Consensus 13 ~fC~~CG~~l~------------~~~~~~~~C~~Cg~~~ 39 (50)
T PF12773_consen 13 KFCPHCGTPLP------------PPDQSKKICPNCGAEN 39 (50)
T ss_pred cCChhhcCChh------------hccCCCCCCcCCcCCC
Confidence 46777776655 1123347788888753
No 303
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=20.23 E-value=44 Score=20.22 Aligned_cols=14 Identities=14% Similarity=0.598 Sum_probs=11.2
Q ss_pred ccccCccchhccCh
Q psy16578 49 VFACPKCSKTYLRQ 62 (177)
Q Consensus 49 ~~~C~~C~~~f~~~ 62 (177)
+++|.-||..|..-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 46788899888874
No 304
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=20.03 E-value=52 Score=18.05 Aligned_cols=17 Identities=35% Similarity=1.015 Sum_probs=13.7
Q ss_pred CCCCceecCCccccccC
Q psy16578 119 QLNGSFICPKCSNRYVY 135 (177)
Q Consensus 119 ~~~~~~~C~~C~~~f~~ 135 (177)
..++...|+.|++.|.-
T Consensus 49 i~eg~L~Cp~c~r~YPI 65 (68)
T PF03966_consen 49 IVEGELICPECGREYPI 65 (68)
T ss_dssp TTTTEEEETTTTEEEEE
T ss_pred ccCCEEEcCCCCCEEeC
Confidence 35678999999999864
No 305
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=20.03 E-value=43 Score=14.05 Aligned_cols=6 Identities=50% Similarity=1.630 Sum_probs=3.6
Q ss_pred CCCCcc
Q psy16578 155 CPYCDK 160 (177)
Q Consensus 155 C~~C~~ 160 (177)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 666664
Done!