Query psy16925
Match_columns 166
No_of_seqs 140 out of 2436
Neff 10.4
Searched_HMMs 46136
Date Fri Aug 16 17:12:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16925.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16925hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 2.1E-30 4.5E-35 179.1 3.2 134 16-165 124-260 (279)
2 KOG2462|consensus 99.9 9.7E-25 2.1E-29 151.1 3.8 107 19-140 158-264 (279)
3 KOG3623|consensus 99.8 6.3E-22 1.4E-26 152.1 3.9 68 93-161 896-963 (1007)
4 KOG1074|consensus 99.8 1.4E-21 3E-26 152.1 2.6 65 12-77 343-407 (958)
5 KOG1074|consensus 99.7 2.3E-18 5.1E-23 134.4 3.4 69 22-91 605-680 (958)
6 KOG3623|consensus 99.6 1.5E-16 3.3E-21 122.9 4.6 116 23-141 211-331 (1007)
7 KOG3576|consensus 99.6 1.6E-16 3.4E-21 105.9 3.6 120 16-148 111-241 (267)
8 KOG3576|consensus 99.6 9.3E-17 2E-21 107.0 1.0 95 49-155 115-219 (267)
9 KOG3608|consensus 99.6 2E-15 4.3E-20 108.3 3.4 129 22-153 177-324 (467)
10 KOG3608|consensus 99.5 1.2E-14 2.7E-19 104.3 3.7 126 22-163 237-367 (467)
11 KOG3993|consensus 99.1 9.9E-12 2.2E-16 91.4 0.8 99 16-115 261-380 (500)
12 PLN03086 PRLI-interacting fact 99.1 2.9E-10 6.3E-15 88.2 6.5 117 17-144 448-565 (567)
13 PLN03086 PRLI-interacting fact 99.1 4.5E-11 9.8E-16 92.6 1.7 124 20-163 405-556 (567)
14 PHA00733 hypothetical protein 99.1 1.8E-10 3.8E-15 73.7 4.1 83 48-144 37-124 (128)
15 PHA00733 hypothetical protein 98.9 5.1E-09 1.1E-13 67.0 5.5 83 20-116 38-124 (128)
16 PHA02768 hypothetical protein; 98.9 1.5E-09 3.3E-14 58.0 2.2 42 93-136 7-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.8 2.5E-09 5.3E-14 49.0 1.9 26 106-131 1-26 (26)
18 PHA02768 hypothetical protein; 98.8 3.8E-09 8.2E-14 56.5 1.6 43 22-67 5-47 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.4 2.1E-07 4.4E-12 42.6 2.1 24 38-62 2-25 (26)
20 PHA00616 hypothetical protein 98.3 3.8E-07 8.2E-12 46.5 2.0 33 51-83 1-33 (44)
21 PHA00732 hypothetical protein 98.2 4E-07 8.6E-12 53.2 0.3 42 94-141 4-46 (79)
22 KOG3993|consensus 98.1 5E-07 1.1E-11 67.1 -0.5 83 52-146 268-383 (500)
23 PF05605 zf-Di19: Drought indu 98.0 1.2E-05 2.5E-10 43.6 3.6 50 22-74 2-52 (54)
24 PHA00732 hypothetical protein 97.9 5.2E-06 1.1E-10 48.5 1.4 43 23-71 2-44 (79)
25 PHA00616 hypothetical protein 97.9 1.1E-05 2.4E-10 41.2 2.1 34 22-56 1-34 (44)
26 PF00096 zf-C2H2: Zinc finger, 97.8 5.3E-06 1.2E-10 36.6 0.7 22 120-141 1-22 (23)
27 PF13912 zf-C2H2_6: C2H2-type 97.8 6.7E-06 1.4E-10 37.8 0.8 26 119-144 1-26 (27)
28 PF13894 zf-C2H2_4: C2H2-type 97.8 7.9E-06 1.7E-10 36.2 0.9 24 120-143 1-24 (24)
29 PF00096 zf-C2H2: Zinc finger, 97.8 1.9E-05 4.1E-10 34.8 1.7 20 53-72 2-21 (23)
30 PF05605 zf-Di19: Drought indu 97.5 0.00015 3.3E-09 39.2 3.5 47 94-143 5-53 (54)
31 COG5189 SFP1 Putative transcri 97.4 9.6E-05 2.1E-09 53.4 1.8 44 97-140 357-419 (423)
32 PF12756 zf-C2H2_2: C2H2 type 97.3 0.0002 4.4E-09 43.5 2.9 74 24-115 1-74 (100)
33 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00015 3.4E-09 31.8 1.4 20 24-43 2-21 (24)
34 PF13912 zf-C2H2_6: C2H2-type 97.3 0.00019 4.1E-09 32.8 1.7 24 51-74 1-24 (27)
35 COG5189 SFP1 Putative transcri 97.2 9.5E-05 2E-09 53.5 0.1 49 116-164 346-414 (423)
36 PF12756 zf-C2H2_2: C2H2 type 97.0 0.00036 7.8E-09 42.4 1.3 73 53-142 1-73 (100)
37 PF09237 GAGA: GAGA factor; I 96.9 0.00045 9.7E-09 36.2 1.3 41 39-79 12-52 (54)
38 smart00355 ZnF_C2H2 zinc finge 96.8 0.00059 1.3E-08 30.4 1.2 22 120-141 1-22 (26)
39 PF09237 GAGA: GAGA factor; I 96.7 0.0006 1.3E-08 35.7 0.7 31 114-144 19-49 (54)
40 PF13909 zf-H2C2_5: C2H2-type 96.7 0.00057 1.2E-08 30.3 0.4 24 120-144 1-24 (24)
41 smart00355 ZnF_C2H2 zinc finge 96.6 0.0019 4.1E-08 28.6 2.1 21 53-73 2-22 (26)
42 KOG2231|consensus 96.3 0.0099 2.2E-07 47.9 5.3 105 24-144 117-237 (669)
43 PF12874 zf-met: Zinc-finger o 96.2 0.0021 4.5E-08 28.6 0.7 22 120-141 1-22 (25)
44 PF12874 zf-met: Zinc-finger o 96.0 0.003 6.5E-08 28.1 0.7 21 23-43 1-21 (25)
45 PF12171 zf-C2H2_jaz: Zinc-fin 96.0 0.0037 8E-08 28.5 1.0 22 120-141 2-23 (27)
46 KOG2893|consensus 95.8 0.0044 9.6E-08 43.3 1.2 52 92-147 11-62 (341)
47 PF13909 zf-H2C2_5: C2H2-type 95.7 0.0064 1.4E-07 26.7 1.3 20 23-43 1-20 (24)
48 PRK04860 hypothetical protein; 95.6 0.0093 2E-07 39.7 2.2 29 105-133 129-157 (160)
49 PRK04860 hypothetical protein; 94.8 0.011 2.4E-07 39.4 0.6 37 50-90 118-154 (160)
50 PF13913 zf-C2HC_2: zinc-finge 94.3 0.028 6.1E-07 25.1 1.2 20 120-140 3-22 (25)
51 smart00451 ZnF_U1 U1-like zinc 94.2 0.027 5.9E-07 27.1 1.2 22 22-43 3-24 (35)
52 COG5048 FOG: Zn-finger [Genera 93.4 0.0089 1.9E-07 45.6 -2.3 130 21-151 288-449 (467)
53 KOG1146|consensus 93.0 0.023 5.1E-07 48.8 -0.5 104 23-141 437-540 (1406)
54 TIGR00622 ssl1 transcription f 92.8 0.28 6.1E-06 30.5 4.2 91 49-141 13-103 (112)
55 smart00451 ZnF_U1 U1-like zinc 92.8 0.054 1.2E-06 26.0 0.9 22 119-140 3-24 (35)
56 KOG1146|consensus 90.5 0.053 1.1E-06 46.8 -1.0 96 19-143 1257-1352(1406)
57 COG4049 Uncharacterized protei 89.8 0.11 2.5E-06 27.7 0.3 30 114-143 12-41 (65)
58 cd00350 rubredoxin_like Rubred 89.5 0.27 5.9E-06 23.4 1.4 11 52-62 2-12 (33)
59 PF12907 zf-met2: Zinc-binding 89.1 0.4 8.6E-06 24.0 1.9 29 23-51 2-33 (40)
60 COG4049 Uncharacterized protei 88.2 0.34 7.4E-06 25.9 1.4 25 22-46 17-41 (65)
61 PF09538 FYDLN_acid: Protein o 88.1 0.38 8.3E-06 29.9 1.8 15 118-132 25-39 (108)
62 KOG2893|consensus 86.5 0.23 4.9E-06 35.1 0.2 49 21-74 9-58 (341)
63 PF10571 UPF0547: Uncharacteri 86.4 0.64 1.4E-05 20.9 1.6 11 120-130 15-25 (26)
64 KOG2785|consensus 85.6 2.9 6.4E-05 31.7 5.5 48 93-140 168-241 (390)
65 PF06524 NOA36: NOA36 protein; 84.9 0.55 1.2E-05 33.6 1.4 90 49-141 140-231 (314)
66 COG5048 FOG: Zn-finger [Genera 84.6 0.26 5.6E-06 37.6 -0.3 49 93-141 291-345 (467)
67 cd00729 rubredoxin_SM Rubredox 83.4 0.88 1.9E-05 21.8 1.4 10 118-127 17-26 (34)
68 PF12013 DUF3505: Protein of u 81.7 1.4 3E-05 27.3 2.2 24 120-143 81-108 (109)
69 COG1592 Rubrerythrin [Energy p 81.4 1.1 2.3E-05 30.1 1.7 13 115-127 145-157 (166)
70 PF02892 zf-BED: BED zinc fing 81.2 1 2.3E-05 22.8 1.3 27 117-143 14-44 (45)
71 PF13719 zinc_ribbon_5: zinc-r 80.5 1.2 2.6E-05 21.8 1.3 13 118-130 24-36 (37)
72 KOG2231|consensus 79.9 2.2 4.7E-05 35.0 3.2 76 62-143 125-206 (669)
73 PF13451 zf-trcl: Probable zin 79.8 0.57 1.2E-05 24.6 0.0 15 118-132 3-17 (49)
74 COG2888 Predicted Zn-ribbon RN 78.7 0.39 8.5E-06 26.1 -0.8 10 117-126 48-57 (61)
75 TIGR02300 FYDLN_acid conserved 77.9 2 4.3E-05 27.4 2.0 15 118-132 25-39 (129)
76 smart00614 ZnF_BED BED zinc fi 77.6 1.4 3.1E-05 23.0 1.2 25 120-144 19-48 (50)
77 COG4306 Uncharacterized protei 77.4 0.88 1.9E-05 28.8 0.3 17 146-162 66-82 (160)
78 PF09986 DUF2225: Uncharacteri 77.1 1.7 3.8E-05 30.5 1.8 17 50-66 4-20 (214)
79 PF13717 zinc_ribbon_4: zinc-r 76.5 1 2.3E-05 21.9 0.4 12 53-64 4-15 (36)
80 KOG4173|consensus 76.3 2.9 6.3E-05 29.0 2.6 45 23-71 80-126 (253)
81 PRK14714 DNA polymerase II lar 74.5 1.4 3E-05 38.7 0.8 21 80-100 668-688 (1337)
82 TIGR02098 MJ0042_CXXC MJ0042 f 74.4 1 2.2E-05 22.0 0.0 13 52-64 3-15 (38)
83 smart00659 RPOLCX RNA polymera 74.2 0.29 6.3E-06 25.1 -2.0 11 118-128 18-28 (44)
84 PF05443 ROS_MUCR: ROS/MUCR tr 73.4 1.5 3.2E-05 28.3 0.6 24 93-119 74-97 (132)
85 smart00734 ZnF_Rad18 Rad18-lik 73.0 2.4 5.3E-05 18.9 1.1 20 120-140 2-21 (26)
86 PRK00398 rpoP DNA-directed RNA 72.8 0.33 7.1E-06 25.0 -2.1 11 119-129 21-31 (46)
87 PF15269 zf-C2H2_7: Zinc-finge 71.7 3.1 6.7E-05 21.2 1.4 27 17-43 15-41 (54)
88 PRK14890 putative Zn-ribbon RN 70.7 0.74 1.6E-05 25.1 -1.0 11 117-127 46-56 (59)
89 PF09723 Zn-ribbon_8: Zinc rib 70.6 1.5 3.3E-05 22.1 0.2 11 117-127 24-34 (42)
90 KOG2807|consensus 70.4 8.1 0.00017 28.9 3.8 79 50-141 289-367 (378)
91 PF14353 CpXC: CpXC protein 70.4 0.93 2E-05 28.9 -0.8 22 119-140 38-59 (128)
92 COG5151 SSL1 RNA polymerase II 70.2 4.4 9.6E-05 30.0 2.4 89 50-141 321-410 (421)
93 TIGR00373 conserved hypothetic 69.9 7.1 0.00015 26.0 3.3 33 48-89 106-138 (158)
94 TIGR02605 CxxC_CxxC_SSSS putat 69.5 1.3 2.9E-05 23.3 -0.2 12 52-63 6-17 (52)
95 PRK04023 DNA polymerase II lar 69.5 4.1 8.9E-05 35.1 2.4 9 52-60 627-635 (1121)
96 PF09845 DUF2072: Zn-ribbon co 69.1 3.6 7.7E-05 26.4 1.6 15 51-65 1-15 (131)
97 COG1198 PriA Primosomal protei 68.7 2.3 4.9E-05 35.5 0.8 44 81-127 437-483 (730)
98 KOG2186|consensus 68.2 4.2 9.1E-05 29.2 2.0 47 23-73 4-50 (276)
99 KOG3408|consensus 67.9 7.1 0.00015 24.7 2.7 29 15-43 50-78 (129)
100 smart00531 TFIIE Transcription 67.7 6.4 0.00014 25.8 2.7 37 49-89 97-133 (147)
101 KOG2186|consensus 66.5 3.3 7.2E-05 29.7 1.2 11 120-130 30-40 (276)
102 PF03833 PolC_DP2: DNA polymer 66.5 1.9 4.1E-05 36.3 0.0 20 80-99 656-675 (900)
103 KOG2482|consensus 66.4 11 0.00023 28.5 3.8 20 121-140 336-355 (423)
104 COG5236 Uncharacterized conser 64.6 5.8 0.00013 29.9 2.2 23 121-143 222-244 (493)
105 KOG2593|consensus 63.9 2.7 5.9E-05 32.5 0.4 41 15-59 121-161 (436)
106 PRK06266 transcription initiat 63.8 5.2 0.00011 27.3 1.7 32 49-89 115-146 (178)
107 PF10083 DUF2321: Uncharacteri 63.2 2.1 4.5E-05 28.3 -0.3 17 117-133 66-82 (158)
108 PF12013 DUF3505: Protein of u 62.8 4.2 9E-05 25.1 1.0 93 21-114 10-107 (109)
109 COG5236 Uncharacterized conser 62.5 14 0.00031 27.9 3.9 48 20-72 218-272 (493)
110 PRK14559 putative protein seri 62.1 9.7 0.00021 31.5 3.2 17 82-98 18-34 (645)
111 PF04959 ARS2: Arsenite-resist 61.7 4.1 8.8E-05 28.7 0.9 31 117-147 75-105 (214)
112 COG4957 Predicted transcriptio 60.8 4.4 9.6E-05 26.1 0.9 24 93-119 78-101 (148)
113 KOG4173|consensus 60.0 4.9 0.00011 28.0 1.0 19 121-139 108-126 (253)
114 KOG4167|consensus 59.3 4.8 0.0001 33.4 1.1 27 20-47 790-816 (907)
115 PRK00464 nrdR transcriptional 58.8 2.6 5.7E-05 28.0 -0.4 14 120-133 29-42 (154)
116 PF01363 FYVE: FYVE zinc finge 56.7 3.4 7.3E-05 23.1 -0.1 13 120-132 26-38 (69)
117 PF05191 ADK_lid: Adenylate ki 56.4 4.9 0.00011 19.5 0.4 8 120-127 22-29 (36)
118 KOG0782|consensus 56.0 2.1 4.5E-05 34.4 -1.4 52 105-162 239-290 (1004)
119 PF07754 DUF1610: Domain of un 55.8 4.8 0.0001 17.7 0.3 10 118-127 15-24 (24)
120 COG0068 HypF Hydrogenase matur 53.9 1.7 3.8E-05 35.7 -2.1 17 122-138 154-170 (750)
121 PHA00626 hypothetical protein 53.9 6.3 0.00014 21.2 0.6 15 118-132 22-36 (59)
122 KOG1842|consensus 53.5 9.3 0.0002 29.9 1.7 32 19-50 12-43 (505)
123 PF12773 DZR: Double zinc ribb 53.5 18 0.0004 18.6 2.4 10 119-128 29-38 (50)
124 PRK09678 DNA-binding transcrip 51.5 3.4 7.4E-05 23.6 -0.6 20 116-135 24-45 (72)
125 KOG4727|consensus 51.0 8.3 0.00018 26.0 1.0 26 18-43 71-96 (193)
126 PF10013 DUF2256: Uncharacteri 50.6 3.4 7.4E-05 20.8 -0.6 12 151-162 11-22 (42)
127 smart00834 CxxC_CXXC_SSSS Puta 50.6 6.4 0.00014 19.3 0.3 29 120-156 6-34 (41)
128 PRK04023 DNA polymerase II lar 50.5 16 0.00035 31.8 2.7 23 78-100 625-647 (1121)
129 KOG3408|consensus 50.5 6.9 0.00015 24.7 0.5 25 116-140 54-78 (129)
130 PF07282 OrfB_Zn_ribbon: Putat 50.0 15 0.00032 20.4 1.8 14 117-130 44-57 (69)
131 KOG2482|consensus 49.7 25 0.00053 26.7 3.3 22 120-141 196-217 (423)
132 KOG0696|consensus 48.9 5.1 0.00011 31.4 -0.3 50 107-157 81-130 (683)
133 COG4530 Uncharacterized protei 48.6 12 0.00026 23.2 1.3 13 118-130 25-37 (129)
134 COG1996 RPC10 DNA-directed RNA 48.5 10 0.00022 19.9 0.9 10 52-61 7-16 (49)
135 PF02176 zf-TRAF: TRAF-type zi 47.5 7.5 0.00016 20.8 0.3 27 104-130 23-53 (60)
136 PF08790 zf-LYAR: LYAR-type C2 47.1 6.4 0.00014 18.0 0.0 19 120-139 1-19 (28)
137 PF06524 NOA36: NOA36 protein; 47.1 4.3 9.3E-05 29.3 -0.8 17 50-66 208-224 (314)
138 PF01286 XPA_N: XPA protein N- 46.1 5.3 0.00011 19.2 -0.4 14 151-164 6-19 (34)
139 COG4338 Uncharacterized protei 44.9 8.6 0.00019 20.0 0.3 14 149-162 13-26 (54)
140 PF14446 Prok-RING_1: Prokaryo 44.5 9.4 0.0002 20.5 0.4 9 81-89 7-15 (54)
141 KOG2593|consensus 44.1 30 0.00065 27.0 3.1 40 47-89 124-163 (436)
142 PLN02294 cytochrome c oxidase 43.2 13 0.00027 25.1 0.9 16 117-132 139-154 (174)
143 smart00154 ZnF_AN1 AN1-like Zi 41.1 13 0.00027 18.4 0.5 14 119-132 12-25 (39)
144 KOG2272|consensus 40.8 32 0.00068 24.9 2.6 32 8-39 85-116 (332)
145 PRK03824 hypA hydrogenase nick 40.8 11 0.00024 24.4 0.4 15 50-64 69-83 (135)
146 KOG4124|consensus 40.4 9.4 0.0002 28.9 0.0 25 116-140 395-419 (442)
147 PHA02998 RNA polymerase subuni 40.2 2.2 4.9E-05 28.8 -2.9 16 150-165 173-188 (195)
148 cd00924 Cyt_c_Oxidase_Vb Cytoc 40.1 15 0.00033 22.3 0.9 20 111-131 72-91 (97)
149 smart00064 FYVE Protein presen 40.0 6.9 0.00015 21.7 -0.6 14 118-131 25-38 (68)
150 PF06220 zf-U1: U1 zinc finger 39.8 21 0.00046 17.5 1.2 22 21-42 2-25 (38)
151 TIGR01206 lysW lysine biosynth 39.6 19 0.00042 19.3 1.1 10 120-129 23-32 (54)
152 COG5112 UFD2 U1-like Zn-finger 39.2 22 0.00047 22.0 1.4 29 15-43 48-76 (126)
153 PF03604 DNA_RNApol_7kD: DNA d 38.9 21 0.00045 16.8 1.1 10 119-128 17-26 (32)
154 KOG2907|consensus 38.7 16 0.00034 22.8 0.8 13 119-131 102-114 (116)
155 KOG0978|consensus 38.6 7.7 0.00017 32.2 -0.7 20 118-137 677-696 (698)
156 KOG2785|consensus 38.4 35 0.00076 26.2 2.7 53 21-73 165-242 (390)
157 KOG1842|consensus 38.3 13 0.00028 29.1 0.4 29 119-147 15-43 (505)
158 KOG0782|consensus 37.7 6.9 0.00015 31.7 -1.1 43 63-105 237-290 (1004)
159 PRK00432 30S ribosomal protein 37.5 16 0.00035 19.2 0.6 12 118-129 36-47 (50)
160 COG0068 HypF Hydrogenase matur 37.3 11 0.00023 31.4 -0.1 82 23-130 102-184 (750)
161 PF04423 Rad50_zn_hook: Rad50 37.1 13 0.00028 19.7 0.2 12 121-132 22-33 (54)
162 PRK13130 H/ACA RNA-protein com 36.7 32 0.0007 18.6 1.7 20 81-100 7-26 (56)
163 PF15616 TerY-C: TerY-C metal 36.5 25 0.00054 22.7 1.5 36 81-128 79-114 (131)
164 PF07503 zf-HYPF: HypF finger; 36.3 2 4.3E-05 20.8 -2.7 11 120-130 22-32 (35)
165 PF04780 DUF629: Protein of un 36.0 19 0.00042 28.5 1.1 25 121-145 59-83 (466)
166 smart00504 Ubox Modified RING 35.9 51 0.0011 17.5 2.6 44 81-130 3-46 (63)
167 PF01428 zf-AN1: AN1-like Zinc 35.6 10 0.00022 19.1 -0.3 15 118-132 12-26 (43)
168 PRK14873 primosome assembly pr 35.1 27 0.00059 29.1 1.9 46 53-99 385-430 (665)
169 smart00661 RPOL9 RNA polymeras 35.0 30 0.00066 17.8 1.5 16 119-134 20-35 (52)
170 PRK12496 hypothetical protein; 34.9 25 0.00053 23.6 1.3 10 80-89 128-137 (164)
171 KOG4167|consensus 34.0 13 0.00029 31.0 -0.0 26 119-144 792-817 (907)
172 PF05290 Baculo_IE-1: Baculovi 33.3 53 0.0012 21.3 2.5 19 48-66 77-95 (140)
173 PF13878 zf-C2H2_3: zinc-finge 32.7 31 0.00068 17.2 1.2 21 120-140 14-36 (41)
174 PF04780 DUF629: Protein of un 32.4 28 0.0006 27.7 1.4 27 23-49 58-84 (466)
175 PRK05580 primosome assembly pr 32.0 18 0.0004 30.2 0.5 45 81-128 383-430 (679)
176 TIGR00100 hypA hydrogenase nic 31.5 24 0.00053 22.1 0.8 8 120-127 87-94 (115)
177 KOG1280|consensus 31.4 34 0.00074 26.0 1.7 37 22-58 79-116 (381)
178 PF04959 ARS2: Arsenite-resist 31.3 26 0.00056 24.7 1.0 30 19-48 74-103 (214)
179 COG3364 Zn-ribbon containing p 30.8 27 0.00057 21.5 0.9 15 119-133 2-16 (112)
180 COG2331 Uncharacterized protei 30.5 12 0.00026 21.6 -0.6 8 121-128 35-42 (82)
181 COG4888 Uncharacterized Zn rib 30.5 28 0.00061 21.3 0.9 10 78-87 21-30 (104)
182 PF13824 zf-Mss51: Zinc-finger 30.5 47 0.001 17.9 1.7 16 116-131 11-26 (55)
183 PF10276 zf-CHCC: Zinc-finger 29.7 16 0.00035 18.2 -0.1 12 118-129 28-39 (40)
184 PRK12380 hydrogenase nickel in 29.4 29 0.00063 21.7 1.0 7 120-126 87-93 (113)
185 PF14787 zf-CCHC_5: GAG-polypr 29.3 14 0.0003 18.0 -0.4 11 151-161 5-15 (36)
186 PRK12387 formate hydrogenlyase 28.5 39 0.00086 22.9 1.5 39 118-156 113-160 (180)
187 TIGR00244 transcriptional regu 28.5 43 0.00092 22.1 1.6 12 81-92 30-41 (147)
188 KOG4118|consensus 26.9 75 0.0016 17.8 2.1 26 22-47 38-63 (74)
189 PF08274 PhnA_Zn_Ribbon: PhnA 26.9 26 0.00056 16.3 0.3 9 119-127 19-27 (30)
190 COG1773 Rubredoxin [Energy pro 26.1 29 0.00063 18.7 0.4 16 119-134 3-18 (55)
191 COG1327 Predicted transcriptio 26.0 50 0.0011 21.9 1.6 12 81-92 30-41 (156)
192 PF07975 C1_4: TFIIH C1-like d 26.0 21 0.00046 18.9 -0.1 23 119-141 21-43 (51)
193 COG1571 Predicted DNA-binding 26.0 50 0.0011 25.9 1.8 14 119-132 367-380 (421)
194 smart00440 ZnF_C2C2 C2C2 Zinc 26.0 11 0.00023 18.8 -1.2 10 120-129 29-38 (40)
195 KOG0320|consensus 25.9 20 0.00044 24.4 -0.2 14 50-63 130-143 (187)
196 PF15135 UPF0515: Uncharacteri 25.9 41 0.00089 24.3 1.2 12 50-61 111-122 (278)
197 KOG2636|consensus 25.8 46 0.001 26.2 1.6 28 112-139 394-422 (497)
198 PRK05978 hypothetical protein; 25.0 53 0.0012 21.7 1.6 7 53-59 35-41 (148)
199 PF01215 COX5B: Cytochrome c o 24.5 26 0.00056 22.8 0.1 15 117-131 110-124 (136)
200 PF04438 zf-HIT: HIT zinc fing 24.0 30 0.00065 16.0 0.2 6 82-87 5-10 (30)
201 PRK00762 hypA hydrogenase nick 23.9 36 0.00078 21.7 0.7 8 120-127 93-100 (124)
202 PRK00564 hypA hydrogenase nick 23.9 43 0.00093 21.1 1.0 7 121-127 90-96 (117)
203 PTZ00043 cytochrome c oxidase 23.8 43 0.00093 23.8 1.0 16 116-131 178-193 (268)
204 PF08209 Sgf11: Sgf11 (transcr 23.7 50 0.0011 15.7 1.0 20 120-140 5-24 (33)
205 COG5152 Uncharacterized conser 23.6 29 0.00063 24.1 0.2 46 77-128 194-239 (259)
206 cd00730 rubredoxin Rubredoxin; 23.1 38 0.00082 17.8 0.5 13 120-132 2-14 (50)
207 COG4391 Uncharacterized protei 23.0 21 0.00045 19.7 -0.5 18 16-33 42-59 (62)
208 PF09963 DUF2197: Uncharacteri 22.4 23 0.0005 19.2 -0.4 13 49-61 29-41 (56)
209 PRK14892 putative transcriptio 22.1 66 0.0014 19.7 1.5 12 120-131 43-54 (99)
210 PF15227 zf-C3HC4_4: zinc fing 21.9 42 0.00091 16.7 0.5 6 120-125 37-42 (42)
211 PF09416 UPF1_Zn_bind: RNA hel 21.0 84 0.0018 20.9 1.9 30 77-112 12-41 (152)
212 PF00301 Rubredoxin: Rubredoxi 20.9 36 0.00078 17.6 0.2 15 120-134 2-16 (47)
213 COG1655 Uncharacterized protei 20.7 18 0.00039 25.7 -1.2 29 49-77 17-45 (267)
214 PF08792 A2L_zn_ribbon: A2L zi 20.7 43 0.00093 15.8 0.4 11 120-130 22-32 (33)
No 1
>KOG2462|consensus
Probab=99.96 E-value=2.1e-30 Score=179.13 Aligned_cols=134 Identities=29% Similarity=0.559 Sum_probs=119.2
Q ss_pred cCCCCCccchhhhhhhcCChHHHHHHHHHhhcC---CCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCcccccc
Q psy16925 16 NASTLGKYSLALMVTRFSSRSAVTAHTKAVHLG---ERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKL 92 (166)
Q Consensus 16 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~---~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~ 92 (166)
+....+.|.|..|++.+.+.+.|.+|.+ .|-. .+.+.|..|++.|..-..|..|+++|+ .+++|..||
T Consensus 124 ~~~~~~r~~c~eCgk~ysT~snLsrHkQ-~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCG------ 194 (279)
T KOG2462|consen 124 SAAKHPRYKCPECGKSYSTSSNLSRHKQ-THRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICG------ 194 (279)
T ss_pred ccccCCceeccccccccccccccchhhc-ccccccccccccCCCCCceeeehHHHhhHhhccC--CCccccccc------
Confidence 3445678999999999999999999988 5543 566999999999999999999999996 567777655
Q ss_pred ccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhcchhHHHHHHHhhhhhhhhcccC
Q psy16925 93 SNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEELKLYESSLGKIFLYGKMKN 165 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~c~~~f~~~~~~~ 165 (166)
+.|...|.|+.|+|+|+|||||.|+.|+++|+.+++|+.|+++ |.+..+|.|..|+|.|.-..++|
T Consensus 195 ------KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQT-HS~~K~~qC~~C~KsFsl~SyLn 260 (279)
T KOG2462|consen 195 ------KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQT-HSDVKKHQCPRCGKSFALKSYLN 260 (279)
T ss_pred ------ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHh-hcCCccccCcchhhHHHHHHHHH
Confidence 5568999999999999999999999999999999999999997 77777999999999999888776
No 2
>KOG2462|consensus
Probab=99.90 E-value=9.7e-25 Score=151.12 Aligned_cols=107 Identities=25% Similarity=0.523 Sum_probs=98.9
Q ss_pred CCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCC
Q psy16925 19 TLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCG 98 (166)
Q Consensus 19 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~ 98 (166)
+...+.|++|++.+.+...|..|++ +|+ .+.+|.+||+.|...=.|+-|++.|+||+||.|+.|+
T Consensus 158 s~ka~~C~~C~K~YvSmpALkMHir-TH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~------------ 222 (279)
T KOG2462|consen 158 SKKAFSCKYCGKVYVSMPALKMHIR-THT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCG------------ 222 (279)
T ss_pred ccccccCCCCCceeeehHHHhhHhh-ccC--CCcccccccccccchHHhhcccccccCCCCccCCccc------------
Confidence 3667999999999999999999987 566 7899999999999999999999999999999998755
Q ss_pred CcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhh
Q psy16925 99 WYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 99 ~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~ 140 (166)
++|.+.++|+.|+++|.+.|+|+|..|+|+|+..+.|..|..
T Consensus 223 kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred chhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 556899999999999999999999999999999999999975
No 3
>KOG3623|consensus
Probab=99.84 E-value=6.3e-22 Score=152.13 Aligned_cols=68 Identities=26% Similarity=0.422 Sum_probs=65.1
Q ss_pred ccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhcchhHHHHHHHhhhhhhhh
Q psy16925 93 SNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEELKLYESSLGKIFLYG 161 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~c~~~f~~~ 161 (166)
.|+.|++.|.-.+.|.+|.--|+|.+||+|.+|.++|..+-.|..|+|. |.||.||.|..|||+|...
T Consensus 896 aCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRL-HSGEKPfQCdKClKRFSHS 963 (1007)
T KOG3623|consen 896 ACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRL-HSGEKPFQCDKCLKRFSHS 963 (1007)
T ss_pred hHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhh-ccCCCcchhhhhhhhcccc
Confidence 7888999999999999999999999999999999999999999999996 9999999999999999764
No 4
>KOG1074|consensus
Probab=99.83 E-value=1.4e-21 Score=152.15 Aligned_cols=65 Identities=32% Similarity=0.552 Sum_probs=57.1
Q ss_pred CCcccCCCCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCC
Q psy16925 12 AGFRNASTLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDD 77 (166)
Q Consensus 12 ~~~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~ 77 (166)
....+.....+.+|.+|.+.|.+.+.|+.|++ .|++++||+|.+||..|.++.+|..|...|...
T Consensus 343 v~~~~~~~~~khkCr~CakvfgS~SaLqiHlR-SHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e~ 407 (958)
T KOG1074|consen 343 VEGPSEKPFFKHKCRFCAKVFGSDSALQIHLR-SHTGERPFQCNVCGNRFSTKGNLKVHFQRHREK 407 (958)
T ss_pred cccCCccccccchhhhhHhhcCchhhhhhhhh-ccCCCCCeeecccccccccccceeeeeeecccc
Confidence 34455566778999999999999999999998 799999999999999999999999997766543
No 5
>KOG1074|consensus
Probab=99.72 E-value=2.3e-18 Score=134.40 Aligned_cols=69 Identities=35% Similarity=0.727 Sum_probs=58.7
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCC----CCccCC---cCCccccc
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDD----APWKCD---ICSKKSLK 91 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~----~~~~c~---~C~~~~~~ 91 (166)
.-.|-+|-+..+..+.|+.|++ .|++|+||+|.+||+.|.++.+|..|+-.|... ..+.|+ .|.+.|..
T Consensus 605 PNqCiiC~rVlSC~saLqmHyr-tHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn 680 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYR-THTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTN 680 (958)
T ss_pred ccceeeeeecccchhhhhhhhh-cccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccc
Confidence 3569999999999999999998 899999999999999999999999999888654 345666 66666644
No 6
>KOG3623|consensus
Probab=99.64 E-value=1.5e-16 Score=122.94 Aligned_cols=116 Identities=23% Similarity=0.467 Sum_probs=98.8
Q ss_pred cchhhhhhhcCChHHHHHHHHHhhcC-CCCeecccchhhcCChHHHHHHHhHcCCCCCc----cCCcCCccccccccccC
Q psy16925 23 YSLALMVTRFSSRSAVTAHTKAVHLG-ERPFVCHECGQSFASKGILQEHLTIHSDDAPW----KCDICSKKSLKLSNVSC 97 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~~~h~~-~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~----~c~~C~~~~~~~~c~~c 97 (166)
..|++|...+.....|..|++..|.. +..|.|..|..+|.....|.+|+..|.+-..- .-..+.+. ..|.+|
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRK---FKCtEC 287 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRK---FKCTEC 287 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhcc---cccccc
Confidence 67999999999999999999877654 55599999999999999999999998653332 12223333 478899
Q ss_pred CCcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhh
Q psy16925 98 GWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 98 ~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
+++|+-+..|+.|+|+|.|||||.|+-|++.|+..+++..|+..
T Consensus 288 gKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 288 GKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred chhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 99999999999999999999999999999999999999999863
No 7
>KOG3576|consensus
Probab=99.63 E-value=1.6e-16 Score=105.94 Aligned_cols=120 Identities=23% Similarity=0.409 Sum_probs=100.5
Q ss_pred cCCCCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccc
Q psy16925 16 NASTLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNV 95 (166)
Q Consensus 16 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~ 95 (166)
.+.+...|.|.+|+++|.-.-.|.+|++ .|..-+.+.|..||+.|++...|.+|.++|+|-+||+|..|++.|.
T Consensus 111 sssd~d~ftCrvCgK~F~lQRmlnrh~k-ch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaft----- 184 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRMLNRHLK-CHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFT----- 184 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHHHHHhh-hccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHH-----
Confidence 3444566999999999999999999997 7998899999999999999999999999999999999999887774
Q ss_pred cCCCcCCCchhHHHHhhhhcC-----------CCCcccCcccccccCChhhhhhhhhhcchhHH
Q psy16925 96 SCGWYPDESKDLKNHHNLHTG-----------KRPYTCPWCSRTFANGSNCRSHKRRMHPEELK 148 (166)
Q Consensus 96 ~c~~~f~~~~~l~~H~~~h~~-----------~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 148 (166)
..-.|..|++.-++ ++-|.|..||..-.....+..|+..+|+..-.
T Consensus 185 -------qrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 185 -------QRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred -------hhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 44446677654332 45689999999988899999999998987633
No 8
>KOG3576|consensus
Probab=99.62 E-value=9.3e-17 Score=107.04 Aligned_cols=95 Identities=33% Similarity=0.676 Sum_probs=82.2
Q ss_pred CCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCccccc
Q psy16925 49 ERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRT 128 (166)
Q Consensus 49 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~ 128 (166)
...+.|.+|++.|.-...|.+|+.-|..-+.+.|..||++| .+.-+|+.|.|+|+|.+||+|..|+++
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgf------------ndtfdlkrh~rthtgvrpykc~~c~ka 182 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGF------------NDTFDLKRHTRTHTGVRPYKCSLCEKA 182 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcc------------cchhhhhhhhccccCccccchhhhhHH
Confidence 44599999999999999999999999888888888877766 566779999999999999999999999
Q ss_pred ccCChhhhhhhhhhcchhH----------HHHHHHhh
Q psy16925 129 FANGSNCRSHKRRMHPEEL----------KLYESSLG 155 (166)
Q Consensus 129 f~~~~~l~~H~~~~h~~~~----------~~~c~~c~ 155 (166)
|.+..+|..|++.+|..+. -|.|+.||
T Consensus 183 ftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg 219 (267)
T KOG3576|consen 183 FTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCG 219 (267)
T ss_pred HHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccC
Confidence 9999999999998885432 23377776
No 9
>KOG3608|consensus
Probab=99.56 E-value=2e-15 Score=108.30 Aligned_cols=129 Identities=19% Similarity=0.394 Sum_probs=105.1
Q ss_pred ccchh--hhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcC--CCCCccCCcCCccccc------
Q psy16925 22 KYSLA--LMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHS--DDAPWKCDICSKKSLK------ 91 (166)
Q Consensus 22 ~~~C~--~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~--~~~~~~c~~C~~~~~~------ 91 (166)
.+.|. .|.+.+.++..|..|++ .|++++...|+.||..|.+...|.+|++..+ ...+|.|..|.+.|.+
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r-~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~ 255 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIR-THSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKS 255 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHH-hcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHH
Confidence 35565 89999999999999998 8999999999999999999999999976644 4578999999888865
Q ss_pred --------cccccCCCcCCCchhHHHHhhh-hcCCCCcccCcccccccCChhhhhhhhhhcchhHHHHHHH
Q psy16925 92 --------LSNVSCGWYPDESKDLKNHHNL-HTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEELKLYESS 153 (166)
Q Consensus 92 --------~~c~~c~~~f~~~~~l~~H~~~-h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~ 153 (166)
..|+.|.-.....+.|..|++. |..++||+|..|++.|.+.++|..|... |. +-.|.|+.
T Consensus 256 Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~-HS-~~~y~C~h 324 (467)
T KOG3608|consen 256 HVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQV-HS-KTVYQCEH 324 (467)
T ss_pred HHHHhhhcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHh-cc-ccceecCC
Confidence 3888888888888889888875 6678888888888888888888888763 54 32444444
No 10
>KOG3608|consensus
Probab=99.50 E-value=1.2e-14 Score=104.28 Aligned_cols=126 Identities=25% Similarity=0.500 Sum_probs=79.8
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhH-cCCCCCccCCcCCccccccccccCCCc
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTI-HSDDAPWKCDICSKKSLKLSNVSCGWY 100 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~-h~~~~~~~c~~C~~~~~~~~c~~c~~~ 100 (166)
.|.|..|-++|.++..|..|+. .|.+ -|+|+.|+.+....++|..|++. |..++||+|+.|...+
T Consensus 237 ~fqC~~C~KrFaTeklL~~Hv~-rHvn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c----------- 302 (467)
T KOG3608|consen 237 SFQCAQCFKRFATEKLLKSHVV-RHVN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRC----------- 302 (467)
T ss_pred chHHHHHHHHHhHHHHHHHHHH-Hhhh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhh-----------
Confidence 4666666666666666666654 2332 35666777666666667666543 5666777776655544
Q ss_pred CCCchhHHHHhhhhcCCCCcccCc--ccccccCChhhhhhhhhhcch--hHHHHHHHhhhhhhhhcc
Q psy16925 101 PDESKDLKNHHNLHTGKRPYTCPW--CSRTFANGSNCRSHKRRMHPE--ELKLYESSLGKIFLYGKM 163 (166)
Q Consensus 101 f~~~~~l~~H~~~h~~~~p~~C~~--C~~~f~~~~~l~~H~~~~h~~--~~~~~c~~c~~~f~~~~~ 163 (166)
.+.++|..|...|+ +..|.|.. |..+|.+..++.+|++.+|.| +.+|.|--|.+.|...+.
T Consensus 303 -~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~ 367 (467)
T KOG3608|consen 303 -VRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKS 367 (467)
T ss_pred -ccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchh
Confidence 66667777776665 44567755 777777777777777766644 345556667776665543
No 11
>KOG3993|consensus
Probab=99.14 E-value=9.9e-12 Score=91.35 Aligned_cols=99 Identities=19% Similarity=0.300 Sum_probs=71.1
Q ss_pred cCCCCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCcc---------C----
Q psy16925 16 NASTLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWK---------C---- 82 (166)
Q Consensus 16 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~---------c---- 82 (166)
..+.+|.|+|+.|...|.+...|.+|. ......-.|+|+.|++.|+...+|..|.++|.....-- -
T Consensus 261 i~n~iGdyiCqLCK~kYeD~F~LAQHr-C~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~r 339 (500)
T KOG3993|consen 261 IPNVIGDYICQLCKEKYEDAFALAQHR-CPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETR 339 (500)
T ss_pred CcccHHHHHHHHHHHhhhhHHHHhhcc-CCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhh
Confidence 345678899999999999999999995 35566677999999999999999999999996422100 0
Q ss_pred ------CcCC--ccccccccccCCCcCCCchhHHHHhhhhc
Q psy16925 83 ------DICS--KKSLKLSNVSCGWYPDESKDLKNHHNLHT 115 (166)
Q Consensus 83 ------~~C~--~~~~~~~c~~c~~~f~~~~~l~~H~~~h~ 115 (166)
..-| ..-....|..|++.|.....|+.|+.+|.
T Consensus 340 ae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 340 AEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred hhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 0000 01112367777777777777777766554
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.08 E-value=2.9e-10 Score=88.17 Aligned_cols=117 Identities=17% Similarity=0.319 Sum_probs=73.3
Q ss_pred CCCCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCcccccccccc
Q psy16925 17 ASTLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVS 96 (166)
Q Consensus 17 ~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~ 96 (166)
.....-+.|+.|++.|. ...|..|... +. .++.|+ |+..+ ....|..|+..|.+.+++.|..|+..+.....
T Consensus 448 ~el~~H~~C~~Cgk~f~-~s~LekH~~~-~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~-- 519 (567)
T PLN03086 448 EEAKNHVHCEKCGQAFQ-QGEMEKHMKV-FH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGS-- 519 (567)
T ss_pred cccccCccCCCCCCccc-hHHHHHHHHh-cC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCcc--
Confidence 33344467888888775 5677888763 42 677787 87644 55777778777777888888877765521000
Q ss_pred CCCcC-CCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhcc
Q psy16925 97 CGWYP-DESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 97 c~~~f-~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~ 144 (166)
...+ ...+.|..|.... +.+++.|..||+.+..+ .+..|+..+|.
T Consensus 520 -~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 520 -AMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred -ccchhhhhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 0000 0234577777664 77778888888777655 35677766553
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.07 E-value=4.5e-11 Score=92.57 Aligned_cols=124 Identities=17% Similarity=0.326 Sum_probs=92.8
Q ss_pred CCccchhhhhhhcCChHHHHHHHHHhhcC------------------CCCeecccchhhcCChHHHHHHHhHcCCCCCcc
Q psy16925 20 LGKYSLALMVTRFSSRSAVTAHTKAVHLG------------------ERPFVCHECGQSFASKGILQEHLTIHSDDAPWK 81 (166)
Q Consensus 20 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~~------------------~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~ 81 (166)
.....|..|... .....|..|....-.. +..+.|+.|++.|. ...|..|+..++ .++.
T Consensus 405 ~~~V~C~NC~~~-i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~ 480 (567)
T PLN03086 405 VDTVECRNCKHY-IPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQ 480 (567)
T ss_pred CCeEECCCCCCc-cchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccc-hHHHHHHHHhcC--CCcc
Confidence 445679999885 5556666886522111 24467889999885 577889988764 6778
Q ss_pred CCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccccC----------ChhhhhhhhhhcchhHHHHH
Q psy16925 82 CDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFAN----------GSNCRSHKRRMHPEELKLYE 151 (166)
Q Consensus 82 c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~----------~~~l~~H~~~~h~~~~~~~c 151 (166)
|+ |+..+ ....|..|+.+|..++|+.|+.|++.|.. .+.|..|... -|.+++.|
T Consensus 481 Cp-Cg~~~-------------~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~--CG~rt~~C 544 (567)
T PLN03086 481 CP-CGVVL-------------EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI--CGSRTAPC 544 (567)
T ss_pred CC-CCCCc-------------chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh--cCCcceEc
Confidence 87 76432 45789999999999999999999999852 3478899886 37789999
Q ss_pred HHhhhhhhhhcc
Q psy16925 152 SSLGKIFLYGKM 163 (166)
Q Consensus 152 ~~c~~~f~~~~~ 163 (166)
..||+.|.-+-|
T Consensus 545 ~~Cgk~Vrlrdm 556 (567)
T PLN03086 545 DSCGRSVMLKEM 556 (567)
T ss_pred cccCCeeeehhH
Confidence 999998876554
No 14
>PHA00733 hypothetical protein
Probab=99.06 E-value=1.8e-10 Score=73.69 Aligned_cols=83 Identities=20% Similarity=0.384 Sum_probs=62.3
Q ss_pred CCCCeecccchhhcCChHHHHHH--HhH---cCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCccc
Q psy16925 48 GERPFVCHECGQSFASKGILQEH--LTI---HSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTC 122 (166)
Q Consensus 48 ~~~~~~C~~C~~~f~~~~~l~~h--~~~---h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C 122 (166)
..+++.|.+|...|.....|..+ ... +.+++||.|+.|++. |...+.|..|++.+ +.+|.|
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~------------Fss~s~L~~H~r~h--~~~~~C 102 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMP------------FSSSVSLKQHIRYT--EHSKVC 102 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCc------------CCCHHHHHHHHhcC--CcCccC
Confidence 45678888888888877766655 222 234677888775554 47888888998865 457999
Q ss_pred CcccccccCChhhhhhhhhhcc
Q psy16925 123 PWCSRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 123 ~~C~~~f~~~~~l~~H~~~~h~ 144 (166)
+.|++.|.....|..|+...|.
T Consensus 103 ~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 103 PVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCccCCHHHHHHHHHHhcC
Confidence 9999999999999999887663
No 15
>PHA00733 hypothetical protein
Probab=98.88 E-value=5.1e-09 Score=66.99 Aligned_cols=83 Identities=16% Similarity=0.233 Sum_probs=63.1
Q ss_pred CCccchhhhhhhcCChHHHHHH--HH--HhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccc
Q psy16925 20 LGKYSLALMVTRFSSRSAVTAH--TK--AVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNV 95 (166)
Q Consensus 20 ~~~~~C~~C~~~~~~~~~l~~H--~~--~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~ 95 (166)
.+.+.|.+|...+.....|..+ +. ..+.+.+||.|..|++.|.....|..|++.+ +.++.|..|+
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~Cg--------- 106 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCG--------- 106 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCC---------
Confidence 4568999999988887766665 11 1234578999999999999999999999876 3456776655
Q ss_pred cCCCcCCCchhHHHHhhhhcC
Q psy16925 96 SCGWYPDESKDLKNHHNLHTG 116 (166)
Q Consensus 96 ~c~~~f~~~~~l~~H~~~h~~ 116 (166)
+.|.....|..|+...++
T Consensus 107 ---K~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 107 ---KEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred ---CccCCHHHHHHHHHHhcC
Confidence 555788889999876543
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.86 E-value=1.5e-09 Score=58.00 Aligned_cols=42 Identities=17% Similarity=0.155 Sum_probs=29.0
Q ss_pred ccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhh
Q psy16925 93 SNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCR 136 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~ 136 (166)
.|+.||+.|...+.|..|+++|+ +|++|..|++.|...+.|.
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred CcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 45556666677777777777776 5677777777777666653
No 17
>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=98.82 E-value=2.5e-09 Score=49.03 Aligned_cols=26 Identities=46% Similarity=1.262 Sum_probs=21.6
Q ss_pred hHHHHhhhhcCCCCcccCcccccccC
Q psy16925 106 DLKNHHNLHTGKRPYTCPWCSRTFAN 131 (166)
Q Consensus 106 ~l~~H~~~h~~~~p~~C~~C~~~f~~ 131 (166)
+|..|+++|++++||.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 36788888999999999999988863
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.76 E-value=3.8e-09 Score=56.49 Aligned_cols=43 Identities=14% Similarity=0.232 Sum_probs=31.4
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHH
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGIL 67 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l 67 (166)
.|.|++|++.|+..+.|..|++ .|+ ++++|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r-~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLR-KHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHH-hcC--CcccCCcccceeccccee
Confidence 4778888888888888888876 466 577777777777766554
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.41 E-value=2.1e-07 Score=42.56 Aligned_cols=24 Identities=42% Similarity=1.045 Sum_probs=14.9
Q ss_pred HHHHHHHhhcCCCCeecccchhhcC
Q psy16925 38 VTAHTKAVHLGERPFVCHECGQSFA 62 (166)
Q Consensus 38 l~~H~~~~h~~~~~~~C~~C~~~f~ 62 (166)
|..|++ .|++++||.|+.|++.|.
T Consensus 2 l~~H~~-~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMR-THTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHH-HHSSSSSEEESSSSEEES
T ss_pred HHHHhh-hcCCCCCCCCCCCcCeeC
Confidence 556665 566666666666666654
No 20
>PHA00616 hypothetical protein
Probab=98.32 E-value=3.8e-07 Score=46.50 Aligned_cols=33 Identities=24% Similarity=0.422 Sum_probs=19.0
Q ss_pred CeecccchhhcCChHHHHHHHhHcCCCCCccCC
Q psy16925 51 PFVCHECGQSFASKGILQEHLTIHSDDAPWKCD 83 (166)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~ 83 (166)
||.|+.||+.|.+.++|..|++.|++++++.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 355566666666666666665555555555543
No 21
>PHA00732 hypothetical protein
Probab=98.18 E-value=4e-07 Score=53.15 Aligned_cols=42 Identities=26% Similarity=0.469 Sum_probs=32.1
Q ss_pred cccCCCcCCCchhHHHHhhh-hcCCCCcccCcccccccCChhhhhhhhh
Q psy16925 94 NVSCGWYPDESKDLKNHHNL-HTGKRPYTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 94 c~~c~~~f~~~~~l~~H~~~-h~~~~p~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
|..|++.|.....|..|++. |. ++.|+.|++.|. .+..|.+.
T Consensus 4 C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 4 CPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 55677777889999999874 54 368999999998 46778754
No 22
>KOG3993|consensus
Probab=98.10 E-value=5e-07 Score=67.15 Aligned_cols=83 Identities=18% Similarity=0.447 Sum_probs=61.7
Q ss_pred eecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhc----------------
Q psy16925 52 FVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHT---------------- 115 (166)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~---------------- 115 (166)
|.|+.|...|.+...|.+|.-.......|+|+.|++.| .-..+|..|.|=|.
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVF------------sCPANLASHRRWHKPR~eaa~a~~~P~k~~ 335 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVF------------SCPANLASHRRWHKPRPEAAKAGSPPPKQA 335 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccc------------cCchhhhhhhcccCCchhhhhcCCCChhhh
Confidence 89999999999999999985444444567777766665 44555555554332
Q ss_pred -----------------CCCCcccCcccccccCChhhhhhhhhhcchh
Q psy16925 116 -----------------GKRPYTCPWCSRTFANGSNCRSHKRRMHPEE 146 (166)
Q Consensus 116 -----------------~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~ 146 (166)
.+.-|.|..|++.|.+...|+.|+..||..+
T Consensus 336 ~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 336 VETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 1224899999999999999999998877654
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=97.98 E-value=1.2e-05 Score=43.60 Aligned_cols=50 Identities=22% Similarity=0.326 Sum_probs=38.2
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhcCC-CCeecccchhhcCChHHHHHHHhHc
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHLGE-RPFVCHECGQSFASKGILQEHLTIH 74 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~-~~~~C~~C~~~f~~~~~l~~h~~~h 74 (166)
.|.|++|++ --+...|..|....|..+ +.+.|++|...+. .+|..|+..+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHh
Confidence 478999999 566788999988778765 4688999988654 3788887654
No 24
>PHA00732 hypothetical protein
Probab=97.90 E-value=5.2e-06 Score=48.47 Aligned_cols=43 Identities=19% Similarity=0.336 Sum_probs=22.3
Q ss_pred cchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHH
Q psy16925 23 YSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHL 71 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~ 71 (166)
|.|..|++.|.+...|..|++..|. ++.|+.|++.|. .+..|+
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~ 44 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHF 44 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhh
Confidence 4556666666666666665542233 234555555554 344444
No 25
>PHA00616 hypothetical protein
Probab=97.87 E-value=1.1e-05 Score=41.16 Aligned_cols=34 Identities=12% Similarity=0.029 Sum_probs=30.2
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhcCCCCeeccc
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHE 56 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~ 56 (166)
.|.|..|++.|..+.+|..|++ .|++++++.|..
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r-~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLL-SVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHH-HhcCCCccceeE
Confidence 3789999999999999999997 688889988764
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.85 E-value=5.3e-06 Score=36.59 Aligned_cols=22 Identities=45% Similarity=1.062 Sum_probs=18.5
Q ss_pred cccCcccccccCChhhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
|.|+.|++.|.....|..|++.
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 5788888888888888888875
No 27
>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=97.83 E-value=6.7e-06 Score=37.80 Aligned_cols=26 Identities=38% Similarity=0.739 Sum_probs=22.3
Q ss_pred CcccCcccccccCChhhhhhhhhhcc
Q psy16925 119 PYTCPWCSRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~l~~H~~~~h~ 144 (166)
||.|..|++.|.....|..|++.++.
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 58899999999999999999887654
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=97.81 E-value=7.9e-06 Score=36.23 Aligned_cols=24 Identities=38% Similarity=0.902 Sum_probs=18.2
Q ss_pred cccCcccccccCChhhhhhhhhhc
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRRMH 143 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~~h 143 (166)
|.|+.|++.|.....|..|++.+|
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 578888888888888888888765
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.76 E-value=1.9e-05 Score=34.77 Aligned_cols=20 Identities=45% Similarity=0.889 Sum_probs=9.9
Q ss_pred ecccchhhcCChHHHHHHHh
Q psy16925 53 VCHECGQSFASKGILQEHLT 72 (166)
Q Consensus 53 ~C~~C~~~f~~~~~l~~h~~ 72 (166)
.|+.|++.|.....|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 44455555555555555544
No 30
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.53 E-value=0.00015 Score=39.18 Aligned_cols=47 Identities=26% Similarity=0.408 Sum_probs=32.1
Q ss_pred cccCCCcCCCchhHHHHhhh-hcCC-CCcccCcccccccCChhhhhhhhhhc
Q psy16925 94 NVSCGWYPDESKDLKNHHNL-HTGK-RPYTCPWCSRTFANGSNCRSHKRRMH 143 (166)
Q Consensus 94 c~~c~~~f~~~~~l~~H~~~-h~~~-~p~~C~~C~~~f~~~~~l~~H~~~~h 143 (166)
||.|++ -.+...|..|... |..+ +.+.||+|...+. .+|..|+...|
T Consensus 5 CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 5 CPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 344444 2456779999765 4443 4689999988654 48889988766
No 31
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.37 E-value=9.6e-05 Score=53.44 Aligned_cols=44 Identities=23% Similarity=0.500 Sum_probs=30.5
Q ss_pred CCCcCCCchhHHHHhhhhc-------------------CCCCcccCcccccccCChhhhhhhh
Q psy16925 97 CGWYPDESKDLKNHHNLHT-------------------GKRPYTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 97 c~~~f~~~~~l~~H~~~h~-------------------~~~p~~C~~C~~~f~~~~~l~~H~~ 140 (166)
|++.+++...|+-|+..-+ ..|||+|++|++.|.....|..|..
T Consensus 357 C~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 357 CNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred chhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 6666666666666543211 3578889889988888888888865
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.34 E-value=0.0002 Score=43.52 Aligned_cols=74 Identities=18% Similarity=0.192 Sum_probs=16.1
Q ss_pred chhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCC
Q psy16925 24 SLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDE 103 (166)
Q Consensus 24 ~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~ 103 (166)
.|..|+..|.+...|..|+...|.-..+ ....+.....+....+.. ....+.|.. |++.|.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-----~~~~l~~~~~~~~~~~~~-~~~~~~C~~------------C~~~f~s 62 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-----DQKYLVDPNRLLNYLRKK-VKESFRCPY------------CNKTFRS 62 (100)
T ss_dssp ------------------------------------------------------SSEEBSS------------SS-EESS
T ss_pred Cccccccccccccccccccccccccccc-----cccccccccccccccccc-cCCCCCCCc------------cCCCCcC
Confidence 4899999999999999999877764433 111111222233222211 112455555 4444578
Q ss_pred chhHHHHhhhhc
Q psy16925 104 SKDLKNHHNLHT 115 (166)
Q Consensus 104 ~~~l~~H~~~h~ 115 (166)
...|..|++.+.
T Consensus 63 ~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 63 REALQEHMRSKH 74 (100)
T ss_dssp HHHHHHHHHHTT
T ss_pred HHHHHHHHcCcc
Confidence 888888888653
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.27 E-value=0.00015 Score=31.84 Aligned_cols=20 Identities=20% Similarity=0.350 Sum_probs=9.3
Q ss_pred chhhhhhhcCChHHHHHHHH
Q psy16925 24 SLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 24 ~C~~C~~~~~~~~~l~~H~~ 43 (166)
.|++|+..|.+...|..|+.
T Consensus 2 ~C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 2 QCPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp E-SSTS-EESSHHHHHHHHH
T ss_pred CCcCCCCcCCcHHHHHHHHH
Confidence 45555555555555555544
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.27 E-value=0.00019 Score=32.79 Aligned_cols=24 Identities=50% Similarity=1.028 Sum_probs=13.3
Q ss_pred CeecccchhhcCChHHHHHHHhHc
Q psy16925 51 PFVCHECGQSFASKGILQEHLTIH 74 (166)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~h~~~h 74 (166)
||.|..|++.|.+...|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 355555555555555555555443
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.18 E-value=9.5e-05 Score=53.49 Aligned_cols=49 Identities=18% Similarity=0.343 Sum_probs=40.3
Q ss_pred CCCCcccCc--ccccccCChhhhhhhhhhc------------------chhHHHHHHHhhhhhhhhccc
Q psy16925 116 GKRPYTCPW--CSRTFANGSNCRSHKRRMH------------------PEELKLYESSLGKIFLYGKMK 164 (166)
Q Consensus 116 ~~~p~~C~~--C~~~f~~~~~l~~H~~~~h------------------~~~~~~~c~~c~~~f~~~~~~ 164 (166)
+++||+|++ |.+.|.....|..|+...| .++.||.|+.|+|+++.-+++
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGL 414 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGL 414 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccc
Confidence 369999977 9999999999999988666 233799999999999765543
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.97 E-value=0.00036 Score=42.41 Aligned_cols=73 Identities=23% Similarity=0.368 Sum_probs=21.6
Q ss_pred ecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccccCC
Q psy16925 53 VCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANG 132 (166)
Q Consensus 53 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~ 132 (166)
.|..|+..|.....|..|+....+-..-.... +.....+..+++. ....++.|..|++.|...
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~----------------l~~~~~~~~~~~~-~~~~~~~C~~C~~~f~s~ 63 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKY----------------LVDPNRLLNYLRK-KVKESFRCPYCNKTFRSR 63 (100)
T ss_dssp -----------------------------------------------------------------SSEEBSSSS-EESSH
T ss_pred Cccccccccccccccccccccccccccccccc----------------ccccccccccccc-ccCCCCCCCccCCCCcCH
Confidence 48899999999999999987665432110000 0122223333322 122369999999999999
Q ss_pred hhhhhhhhhh
Q psy16925 133 SNCRSHKRRM 142 (166)
Q Consensus 133 ~~l~~H~~~~ 142 (166)
..|..|++.+
T Consensus 64 ~~l~~Hm~~~ 73 (100)
T PF12756_consen 64 EALQEHMRSK 73 (100)
T ss_dssp HHHHHHHHHT
T ss_pred HHHHHHHcCc
Confidence 9999999854
No 37
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.94 E-value=0.00045 Score=36.16 Aligned_cols=41 Identities=29% Similarity=0.483 Sum_probs=23.3
Q ss_pred HHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCC
Q psy16925 39 TAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAP 79 (166)
Q Consensus 39 ~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~ 79 (166)
..+.+.....+.|.+|++|+..+.+..+|.+|+....+.+|
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 33444345567788899999999999999999877655554
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.85 E-value=0.00059 Score=30.38 Aligned_cols=22 Identities=36% Similarity=0.845 Sum_probs=18.7
Q ss_pred cccCcccccccCChhhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
|.|+.|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 5788899999999999998874
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=96.72 E-value=0.0006 Score=35.67 Aligned_cols=31 Identities=29% Similarity=0.537 Sum_probs=21.9
Q ss_pred hcCCCCcccCcccccccCChhhhhhhhhhcc
Q psy16925 114 HTGKRPYTCPWCSRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 114 h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~ 144 (166)
...+.|-.||+|+..+....+|++|+...|.
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 3457789999999999999999999987674
No 40
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.69 E-value=0.00057 Score=30.26 Aligned_cols=24 Identities=46% Similarity=0.944 Sum_probs=17.2
Q ss_pred cccCcccccccCChhhhhhhhhhcc
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~~h~ 144 (166)
|+|+.|+.... ...|..|++.+|+
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 57888888877 7788888887663
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.63 E-value=0.0019 Score=28.63 Aligned_cols=21 Identities=48% Similarity=0.941 Sum_probs=10.4
Q ss_pred ecccchhhcCChHHHHHHHhH
Q psy16925 53 VCHECGQSFASKGILQEHLTI 73 (166)
Q Consensus 53 ~C~~C~~~f~~~~~l~~h~~~ 73 (166)
.|..|++.|.....|..|++.
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHH
Confidence 344555555555555555443
No 42
>KOG2231|consensus
Probab=96.27 E-value=0.0099 Score=47.86 Aligned_cols=105 Identities=17% Similarity=0.234 Sum_probs=66.2
Q ss_pred chhhhhhhcCChHHHHHHHHHhhcCCCCeecccch---------hhcCChHHHHHHHhHcCCCCCccCCcCCccccc-cc
Q psy16925 24 SLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECG---------QSFASKGILQEHLTIHSDDAPWKCDICSKKSLK-LS 93 (166)
Q Consensus 24 ~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~---------~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~-~~ 93 (166)
.|..| -.|.+...|..|+...|.. +.|.+|- ...-+...|..|++.-.. +.+.+.. ..
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~~---~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~--------d~~s~rGhp~ 184 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHKL---HLCSLCLQNLKIFINERKLYTRAELNLHLMFGDP--------DDESCRGHPL 184 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhhh---hccccccccceeeeeeeehehHHHHHHHHhcCCC--------ccccccCCcc
Confidence 45555 4556888999998755542 3333333 222334566666553221 3333433 56
Q ss_pred cccCCCcCCCchhHHHHhhhhcCCCCcccCcc------cccccCChhhhhhhhhhcc
Q psy16925 94 NVSCGWYPDESKDLKNHHNLHTGKRPYTCPWC------SRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 94 c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C------~~~f~~~~~l~~H~~~~h~ 144 (166)
|..|...|.....+..|++.++ |.|..| +..|.....|..|.+..|.
T Consensus 185 C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred chhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 7778888888888999988654 455555 3457788889999888774
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.16 E-value=0.0021 Score=28.62 Aligned_cols=22 Identities=27% Similarity=0.766 Sum_probs=17.6
Q ss_pred cccCcccccccCChhhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
|.|..|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4688888888888888888763
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.97 E-value=0.003 Score=28.09 Aligned_cols=21 Identities=19% Similarity=0.376 Sum_probs=11.9
Q ss_pred cchhhhhhhcCChHHHHHHHH
Q psy16925 23 YSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~ 43 (166)
|.|.+|...|.+...+..|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555556666655555554
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=95.96 E-value=0.0037 Score=28.47 Aligned_cols=22 Identities=18% Similarity=0.629 Sum_probs=19.3
Q ss_pred cccCcccccccCChhhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
|.|..|++.|.+...|..|++.
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 7899999999999999999863
No 46
>KOG2893|consensus
Probab=95.77 E-value=0.0044 Score=43.33 Aligned_cols=52 Identities=21% Similarity=0.382 Sum_probs=41.0
Q ss_pred cccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhcchhH
Q psy16925 92 LSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEEL 147 (166)
Q Consensus 92 ~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 147 (166)
..|..|++.|.+...|++|++ .+.|+|.+|.+..-+...|..|-..+|.+.+
T Consensus 11 pwcwycnrefddekiliqhqk----akhfkchichkkl~sgpglsihcmqvhketi 62 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIHCMQVHKETI 62 (341)
T ss_pred ceeeecccccchhhhhhhhhh----hccceeeeehhhhccCCCceeehhhhhhhhh
Confidence 356778999999999999876 3459999999887778888888766776543
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.72 E-value=0.0064 Score=26.74 Aligned_cols=20 Identities=25% Similarity=0.245 Sum_probs=9.3
Q ss_pred cchhhhhhhcCChHHHHHHHH
Q psy16925 23 YSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~ 43 (166)
|.|+.|+.... ...|..|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~ 20 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLK 20 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHH
Confidence 34555555544 555555554
No 48
>PRK04860 hypothetical protein; Provisional
Probab=95.61 E-value=0.0093 Score=39.72 Aligned_cols=29 Identities=21% Similarity=0.517 Sum_probs=24.2
Q ss_pred hhHHHHhhhhcCCCCcccCcccccccCCh
Q psy16925 105 KDLKNHHNLHTGKRPYTCPWCSRTFANGS 133 (166)
Q Consensus 105 ~~l~~H~~~h~~~~p~~C~~C~~~f~~~~ 133 (166)
..+..|.++++++++|.|..|+..|....
T Consensus 129 ~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 129 LTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred CHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 35788999999999999999998887554
No 49
>PRK04860 hypothetical protein; Provisional
Probab=94.78 E-value=0.011 Score=39.41 Aligned_cols=37 Identities=19% Similarity=0.608 Sum_probs=26.4
Q ss_pred CCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCcccc
Q psy16925 50 RPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSL 90 (166)
Q Consensus 50 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~ 90 (166)
-+|.|. |+. ....+.+|.++|+++++|.|..|+..+.
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 357776 776 5566777777888878888877776653
No 50
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.26 E-value=0.028 Score=25.07 Aligned_cols=20 Identities=35% Similarity=0.865 Sum_probs=13.2
Q ss_pred cccCcccccccCChhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~ 140 (166)
..|+.||+.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4677777777 4555666654
No 51
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.21 E-value=0.027 Score=27.08 Aligned_cols=22 Identities=27% Similarity=0.353 Sum_probs=13.6
Q ss_pred ccchhhhhhhcCChHHHHHHHH
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~ 43 (166)
.|.|++|...|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4566666666666666666654
No 52
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.36 E-value=0.0089 Score=45.65 Aligned_cols=130 Identities=28% Similarity=0.390 Sum_probs=89.5
Q ss_pred CccchhhhhhhcCChHHHHHHHHH-hhcCC--CCeecc--cchhhcCChHHHHHHHhHcCCCCCccCCc--CCcccccc-
Q psy16925 21 GKYSLALMVTRFSSRSAVTAHTKA-VHLGE--RPFVCH--ECGQSFASKGILQEHLTIHSDDAPWKCDI--CSKKSLKL- 92 (166)
Q Consensus 21 ~~~~C~~C~~~~~~~~~l~~H~~~-~h~~~--~~~~C~--~C~~~f~~~~~l~~h~~~h~~~~~~~c~~--C~~~~~~~- 92 (166)
..+.|..|...|+....+..|... .|..+ +++.|+ .|++.|.....+..|...|....+..+.. +...+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 368899999999999999999875 68999 999999 79999999999999988888766554432 22222111
Q ss_pred ----------------------ccccCCCcCCCchhHHHHhhhhcCCC--CcccCcccccccCChhhhhhhhhhcchhHH
Q psy16925 93 ----------------------SNVSCGWYPDESKDLKNHHNLHTGKR--PYTCPWCSRTFANGSNCRSHKRRMHPEELK 148 (166)
Q Consensus 93 ----------------------~c~~c~~~f~~~~~l~~H~~~h~~~~--p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 148 (166)
.-..|...+.....+..|...+.... .+.+..|...|.....+..|++. |....+
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 446 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKI-HTNHAP 446 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccc-cccCCc
Confidence 11124444445555555555555444 35668888888888888888775 433334
Q ss_pred HHH
Q psy16925 149 LYE 151 (166)
Q Consensus 149 ~~c 151 (166)
..+
T Consensus 447 ~~~ 449 (467)
T COG5048 447 LLC 449 (467)
T ss_pred eee
Confidence 333
No 53
>KOG1146|consensus
Probab=92.96 E-value=0.023 Score=48.81 Aligned_cols=104 Identities=15% Similarity=0.283 Sum_probs=69.0
Q ss_pred cchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCC
Q psy16925 23 YSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPD 102 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~ 102 (166)
-.|.-+.-.+.....+..|+...++..+.++|+.|++.|.....|..|++.-+.+-.- ..|..+-
T Consensus 437 ~e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~gq------------- 501 (1406)
T KOG1146|consen 437 VELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKAGQ------------- 501 (1406)
T ss_pred ccccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhHhcc-------------
Confidence 3455566677777777777776777788899999999999999999998874433211 2221100
Q ss_pred CchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhh
Q psy16925 103 ESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 103 ~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
+.-.+..-...-.+.+||.|..|..++....+|..|+..
T Consensus 502 ~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 502 NHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccccccccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 000000001112346789999999999999999999873
No 54
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.84 E-value=0.28 Score=30.55 Aligned_cols=91 Identities=13% Similarity=0.114 Sum_probs=50.0
Q ss_pred CCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCccccc
Q psy16925 49 ERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRT 128 (166)
Q Consensus 49 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~ 128 (166)
+.|..|+.|+-+.-...+|.+....--+-.+|.=....+...+..|-.|...|........ ..-.....|+|+.|...
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCCCc
Confidence 4566788888777777777654322222233321111122222345566666654321100 00122346999999999
Q ss_pred ccCChhhhhhhhh
Q psy16925 129 FANGSNCRSHKRR 141 (166)
Q Consensus 129 f~~~~~l~~H~~~ 141 (166)
|-...+.-.|...
T Consensus 91 FC~dCD~fiHe~L 103 (112)
T TIGR00622 91 FCVDCDVFVHESL 103 (112)
T ss_pred cccccchhhhhhc
Confidence 9988888888765
No 55
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=92.81 E-value=0.054 Score=26.00 Aligned_cols=22 Identities=23% Similarity=0.620 Sum_probs=19.1
Q ss_pred CcccCcccccccCChhhhhhhh
Q psy16925 119 PYTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~l~~H~~ 140 (166)
+|.|..|+..|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5789999999998888888876
No 56
>KOG1146|consensus
Probab=90.49 E-value=0.053 Score=46.80 Aligned_cols=96 Identities=11% Similarity=0.124 Sum_probs=60.9
Q ss_pred CCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCC
Q psy16925 19 TLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCG 98 (166)
Q Consensus 19 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~ 98 (166)
..|.+.|..|++.+.....+. ++- ...+|.|..|...|..+..|..|++.- ..
T Consensus 1257 ~sGe~~c~~~~~~~~~~~~~~-~l~----~~~~~~~~~~~~~~~~~~~l~~~~~k~--------~~-------------- 1309 (1406)
T KOG1146|consen 1257 ASGEGECGAVDELLTPSFGIS-TLD----VTHRYLCRQCKMAFDGEAPLTAHQRKF--------CF-------------- 1309 (1406)
T ss_pred CCCcchhhhccccccCcccee-ecc----cchhHHHHHHHhhhcchhHHHHHHHHH--------Hh--------------
Confidence 357789999999888888776 543 355688999999999999998887321 00
Q ss_pred CcCCCchhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhc
Q psy16925 99 WYPDESKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMH 143 (166)
Q Consensus 99 ~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h 143 (166)
.+........+.-.+..-.+| |..|...|+....|+.|++..+
T Consensus 1310 -~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~~~ 1352 (1406)
T KOG1146|consen 1310 -AGRGSGGSMPPPLRVPDCTYH-CLACEVLLSGREALQIHMRSSA 1352 (1406)
T ss_pred -ccCccccCCCCcccCcccccc-chHHHhhcchhHHHHHHHHHhh
Confidence 001111122222223334445 7777777777777777776443
No 57
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.79 E-value=0.11 Score=27.73 Aligned_cols=30 Identities=23% Similarity=0.556 Sum_probs=23.2
Q ss_pred hcCCCCcccCcccccccCChhhhhhhhhhc
Q psy16925 114 HTGKRPYTCPWCSRTFANGSNCRSHKRRMH 143 (166)
Q Consensus 114 h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h 143 (166)
-.||.-+.||.|+..|...-+..+|....|
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 345666889999999988888888876555
No 58
>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=89.45 E-value=0.27 Score=23.42 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=6.2
Q ss_pred eecccchhhcC
Q psy16925 52 FVCHECGQSFA 62 (166)
Q Consensus 52 ~~C~~C~~~f~ 62 (166)
+.|..||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 45666665543
No 59
>PF12907 zf-met2: Zinc-binding
Probab=89.10 E-value=0.4 Score=24.01 Aligned_cols=29 Identities=7% Similarity=0.060 Sum_probs=19.7
Q ss_pred cchhhhhh---hcCChHHHHHHHHHhhcCCCC
Q psy16925 23 YSLALMVT---RFSSRSAVTAHTKAVHLGERP 51 (166)
Q Consensus 23 ~~C~~C~~---~~~~~~~l~~H~~~~h~~~~~ 51 (166)
+.|.+|.. ...+...|..|..+.|....+
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~ 33 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTF 33 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCH
Confidence 67888884 445556788888766665433
No 60
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.18 E-value=0.34 Score=25.94 Aligned_cols=25 Identities=16% Similarity=0.103 Sum_probs=14.6
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhh
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVH 46 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h 46 (166)
-+.|+-|+..|....++.+|+...|
T Consensus 17 ~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 17 FLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred eeeCCchhHHHHHhHHHHHHhhHHh
Confidence 3556666666666666666655443
No 61
>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=88.07 E-value=0.38 Score=29.87 Aligned_cols=15 Identities=33% Similarity=0.875 Sum_probs=11.7
Q ss_pred CCcccCcccccccCC
Q psy16925 118 RPYTCPWCSRTFANG 132 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~ 132 (166)
.|..||.||..|...
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 577888888888766
No 62
>KOG2893|consensus
Probab=86.46 E-value=0.23 Score=35.06 Aligned_cols=49 Identities=27% Similarity=0.387 Sum_probs=36.6
Q ss_pred CccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHH-HhHc
Q psy16925 21 GKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEH-LTIH 74 (166)
Q Consensus 21 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h-~~~h 74 (166)
.+-+|=+|...|.+...|..|.++ +-|+|.+|.+...+.-.|..| ++.|
T Consensus 9 ~kpwcwycnrefddekiliqhqka-----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 9 DKPWCWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred CCceeeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCceeehhhhh
Confidence 456788999999999999888663 457899998877766666666 3444
No 63
>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=86.45 E-value=0.64 Score=20.88 Aligned_cols=11 Identities=36% Similarity=0.942 Sum_probs=6.7
Q ss_pred cccCccccccc
Q psy16925 120 YTCPWCSRTFA 130 (166)
Q Consensus 120 ~~C~~C~~~f~ 130 (166)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 35666766664
No 64
>KOG2785|consensus
Probab=85.58 E-value=2.9 Score=31.73 Aligned_cols=48 Identities=23% Similarity=0.449 Sum_probs=36.5
Q ss_pred ccccCCCcCCCchhHHHHhhhhcCC-CC----------------------cccCccc---ccccCChhhhhhhh
Q psy16925 93 SNVSCGWYPDESKDLKNHHNLHTGK-RP----------------------YTCPWCS---RTFANGSNCRSHKR 140 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~~h~~~-~p----------------------~~C~~C~---~~f~~~~~l~~H~~ 140 (166)
.|.-|+..+.+-.....|+..+++- .| +.|-.|+ +.|......+.||.
T Consensus 168 ~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 168 DCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred ceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 5677888888888888898776642 12 5677777 88888888888886
No 65
>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=84.92 E-value=0.55 Score=33.63 Aligned_cols=90 Identities=18% Similarity=0.334 Sum_probs=50.7
Q ss_pred CCCeecccchhhcCChHHHHHHHhHc--CCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCccc
Q psy16925 49 ERPFVCHECGQSFASKGILQEHLTIH--SDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCS 126 (166)
Q Consensus 49 ~~~~~C~~C~~~f~~~~~l~~h~~~h--~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~ 126 (166)
.+.|.|..|..... +...-.||..- .....|+|.-|.+ +.+.+|+.|..-|-.......-.+ -...+|+.||.|+
T Consensus 140 Grif~CsfC~~flC-EDDQFEHQAsCQvLe~E~~KC~SCNr-lGq~sCLRCK~cfCddHvrrKg~k-y~k~k~~PCPKCg 216 (314)
T PF06524_consen 140 GRIFKCSFCDNFLC-EDDQFEHQASCQVLESETFKCQSCNR-LGQYSCLRCKICFCDDHVRRKGFK-YEKGKPIPCPKCG 216 (314)
T ss_pred CeEEEeecCCCeee-ccchhhhhhhhhhhhccccccccccc-ccchhhhheeeeehhhhhhhcccc-cccCCCCCCCCCC
Confidence 45578888774333 33333454331 2234577777765 345567666666554321111111 1234789999999
Q ss_pred ccccCChhhhhhhhh
Q psy16925 127 RTFANGSNCRSHKRR 141 (166)
Q Consensus 127 ~~f~~~~~l~~H~~~ 141 (166)
........|...-+.
T Consensus 217 ~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 217 YETQETKDLSMSTRS 231 (314)
T ss_pred Ccccccccceeeeec
Confidence 988777777655554
No 66
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=84.59 E-value=0.26 Score=37.61 Aligned_cols=49 Identities=24% Similarity=0.583 Sum_probs=36.3
Q ss_pred ccccCCCcCCCchhHHHHhh--hhcCC--CCcccC--cccccccCChhhhhhhhh
Q psy16925 93 SNVSCGWYPDESKDLKNHHN--LHTGK--RPYTCP--WCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~--~h~~~--~p~~C~--~C~~~f~~~~~l~~H~~~ 141 (166)
.+..|...|.....+..|.+ .|.++ +|+.|+ .|++.|.+...+..|...
T Consensus 291 ~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~ 345 (467)
T COG5048 291 KSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL 345 (467)
T ss_pred CCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccc
Confidence 34456677777777777877 67777 788887 688888888777777665
No 67
>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=83.45 E-value=0.88 Score=21.84 Aligned_cols=10 Identities=40% Similarity=1.099 Sum_probs=6.8
Q ss_pred CCcccCcccc
Q psy16925 118 RPYTCPWCSR 127 (166)
Q Consensus 118 ~p~~C~~C~~ 127 (166)
.|-.||.|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4567888775
No 68
>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=81.73 E-value=1.4 Score=27.30 Aligned_cols=24 Identities=33% Similarity=0.706 Sum_probs=20.6
Q ss_pred ccc----CcccccccCChhhhhhhhhhc
Q psy16925 120 YTC----PWCSRTFANGSNCRSHKRRMH 143 (166)
Q Consensus 120 ~~C----~~C~~~f~~~~~l~~H~~~~h 143 (166)
|.| +.|++.......+..|++.+|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 788 889988888888899988766
No 69
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=81.45 E-value=1.1 Score=30.13 Aligned_cols=13 Identities=38% Similarity=1.040 Sum_probs=9.7
Q ss_pred cCCCCcccCcccc
Q psy16925 115 TGKRPYTCPWCSR 127 (166)
Q Consensus 115 ~~~~p~~C~~C~~ 127 (166)
-++.|-+||+||.
T Consensus 145 ~ge~P~~CPiCga 157 (166)
T COG1592 145 EGEAPEVCPICGA 157 (166)
T ss_pred cCCCCCcCCCCCC
Confidence 4467888999983
No 70
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=81.25 E-value=1 Score=22.82 Aligned_cols=27 Identities=26% Similarity=0.640 Sum_probs=16.5
Q ss_pred CCCcccCcccccccC----Chhhhhhhhhhc
Q psy16925 117 KRPYTCPWCSRTFAN----GSNCRSHKRRMH 143 (166)
Q Consensus 117 ~~p~~C~~C~~~f~~----~~~l~~H~~~~h 143 (166)
..-..|..|++.+.. .+.|..|++..|
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 344678888887765 477888885545
No 71
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=80.45 E-value=1.2 Score=21.76 Aligned_cols=13 Identities=38% Similarity=0.956 Sum_probs=8.1
Q ss_pred CCcccCccccccc
Q psy16925 118 RPYTCPWCSRTFA 130 (166)
Q Consensus 118 ~p~~C~~C~~~f~ 130 (166)
...+|+.|+..|.
T Consensus 24 ~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 24 RKVRCPKCGHVFR 36 (37)
T ss_pred cEEECCCCCcEee
Confidence 3467777776653
No 72
>KOG2231|consensus
Probab=79.91 E-value=2.2 Score=35.05 Aligned_cols=76 Identities=18% Similarity=0.266 Sum_probs=47.8
Q ss_pred CChHHHHHHH-hHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcC-CC----CcccCcccccccCChhh
Q psy16925 62 ASKGILQEHL-TIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTG-KR----PYTCPWCSRTFANGSNC 135 (166)
Q Consensus 62 ~~~~~l~~h~-~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~-~~----p~~C~~C~~~f~~~~~l 135 (166)
.....|..|+ ..|. .+.|..|....... ++-........|..|+..... ++ ...|..|...|.....|
T Consensus 125 ~s~~~Lk~H~~~~H~---~~~c~lC~~~~kif---~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el 198 (669)
T KOG2231|consen 125 KSVENLKNHMRDQHK---LHLCSLCLQNLKIF---INERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDEL 198 (669)
T ss_pred hHHHHHHHHHHHhhh---hhccccccccceee---eeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHH
Confidence 3667888887 4453 34455554332111 123333456778888765332 22 24689999999999999
Q ss_pred hhhhhhhc
Q psy16925 136 RSHKRRMH 143 (166)
Q Consensus 136 ~~H~~~~h 143 (166)
..|++..|
T Consensus 199 ~rH~~~~h 206 (669)
T KOG2231|consen 199 YRHLRFDH 206 (669)
T ss_pred HHhhccce
Confidence 99998766
No 73
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=79.83 E-value=0.57 Score=24.57 Aligned_cols=15 Identities=27% Similarity=0.559 Sum_probs=7.5
Q ss_pred CCcccCcccccccCC
Q psy16925 118 RPYTCPWCSRTFANG 132 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~ 132 (166)
+++.|..||..|...
T Consensus 3 k~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFT 17 (49)
T ss_pred eeEEcccCCCeEEEe
Confidence 344555555555443
No 74
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=78.70 E-value=0.39 Score=26.11 Aligned_cols=10 Identities=50% Similarity=1.395 Sum_probs=6.9
Q ss_pred CCCcccCccc
Q psy16925 117 KRPYTCPWCS 126 (166)
Q Consensus 117 ~~p~~C~~C~ 126 (166)
..+|.|+.||
T Consensus 48 g~~Y~Cp~CG 57 (61)
T COG2888 48 GNPYRCPKCG 57 (61)
T ss_pred CCceECCCcC
Confidence 4567777776
No 75
>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=77.94 E-value=2 Score=27.41 Aligned_cols=15 Identities=27% Similarity=0.618 Sum_probs=10.9
Q ss_pred CCcccCcccccccCC
Q psy16925 118 RPYTCPWCSRTFANG 132 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~ 132 (166)
.|..||.||..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 467888888877655
No 76
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=77.62 E-value=1.4 Score=23.02 Aligned_cols=25 Identities=40% Similarity=0.878 Sum_probs=16.5
Q ss_pred cccCcccccccCC-----hhhhhhhhhhcc
Q psy16925 120 YTCPWCSRTFANG-----SNCRSHKRRMHP 144 (166)
Q Consensus 120 ~~C~~C~~~f~~~-----~~l~~H~~~~h~ 144 (166)
-.|..|++.++.. +.|.+|+...|+
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 3677777776544 578888775454
No 77
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.36 E-value=0.88 Score=28.78 Aligned_cols=17 Identities=18% Similarity=0.258 Sum_probs=9.4
Q ss_pred hHHHHHHHhhhhhhhhc
Q psy16925 146 ELKLYESSLGKIFLYGK 162 (166)
Q Consensus 146 ~~~~~c~~c~~~f~~~~ 162 (166)
+.|.+|--||+.|-|.+
T Consensus 66 e~psfchncgs~fpwte 82 (160)
T COG4306 66 EPPSFCHNCGSRFPWTE 82 (160)
T ss_pred CCcchhhcCCCCCCcHH
Confidence 44555666666665543
No 78
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.10 E-value=1.7 Score=30.48 Aligned_cols=17 Identities=29% Similarity=0.876 Sum_probs=11.0
Q ss_pred CCeecccchhhcCChHH
Q psy16925 50 RPFVCHECGQSFASKGI 66 (166)
Q Consensus 50 ~~~~C~~C~~~f~~~~~ 66 (166)
+...|++|+..|..+.-
T Consensus 4 k~~~CPvC~~~F~~~~v 20 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKV 20 (214)
T ss_pred CceECCCCCCeeeeeEE
Confidence 45667777777766543
No 79
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=76.50 E-value=1 Score=21.88 Aligned_cols=12 Identities=17% Similarity=0.708 Sum_probs=5.7
Q ss_pred ecccchhhcCCh
Q psy16925 53 VCHECGQSFASK 64 (166)
Q Consensus 53 ~C~~C~~~f~~~ 64 (166)
.|+.|+..|.-.
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 355555555433
No 80
>KOG4173|consensus
Probab=76.26 E-value=2.9 Score=29.01 Aligned_cols=45 Identities=18% Similarity=0.369 Sum_probs=23.6
Q ss_pred cchh--hhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHH
Q psy16925 23 YSLA--LMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHL 71 (166)
Q Consensus 23 ~~C~--~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~ 71 (166)
|.|+ -|...|....++..|....|+ -.|..|.+.|.+...|..|+
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI 126 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHI 126 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHH
Confidence 4444 345555555555555543333 24666666666655555554
No 81
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=74.49 E-value=1.4 Score=38.68 Aligned_cols=21 Identities=19% Similarity=0.510 Sum_probs=14.5
Q ss_pred ccCCcCCccccccccccCCCc
Q psy16925 80 WKCDICSKKSLKLSNVSCGWY 100 (166)
Q Consensus 80 ~~c~~C~~~~~~~~c~~c~~~ 100 (166)
+.|+.||..-....|+.||..
T Consensus 668 rkCPkCG~~t~~~fCP~CGs~ 688 (1337)
T PRK14714 668 RRCPSCGTETYENRCPDCGTH 688 (1337)
T ss_pred EECCCCCCccccccCcccCCc
Confidence 578888865555677777754
No 82
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=74.38 E-value=1 Score=21.97 Aligned_cols=13 Identities=31% Similarity=0.695 Sum_probs=7.2
Q ss_pred eecccchhhcCCh
Q psy16925 52 FVCHECGQSFASK 64 (166)
Q Consensus 52 ~~C~~C~~~f~~~ 64 (166)
+.|+.|+..|.-.
T Consensus 3 ~~CP~C~~~~~v~ 15 (38)
T TIGR02098 3 IQCPNCKTSFRVV 15 (38)
T ss_pred EECCCCCCEEEeC
Confidence 3566666665544
No 83
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=74.20 E-value=0.29 Score=25.08 Aligned_cols=11 Identities=18% Similarity=0.389 Sum_probs=6.6
Q ss_pred CCcccCccccc
Q psy16925 118 RPYTCPWCSRT 128 (166)
Q Consensus 118 ~p~~C~~C~~~ 128 (166)
.+..|+.||..
T Consensus 18 ~~irC~~CG~r 28 (44)
T smart00659 18 DVVRCRECGYR 28 (44)
T ss_pred CceECCCCCce
Confidence 34667777653
No 84
>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=73.45 E-value=1.5 Score=28.30 Aligned_cols=24 Identities=33% Similarity=0.497 Sum_probs=14.4
Q ss_pred ccccCCCcCCCchhHHHHhhhhcCCCC
Q psy16925 93 SNVSCGWYPDESKDLKNHHNLHTGKRP 119 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~~h~~~~p 119 (166)
.|.+||+.|.. |..|++.|+|..|
T Consensus 74 ~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 74 ICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp E-TBT--EESB---HHHHHHHTT-S-H
T ss_pred EEccCCcccch---HHHHHHHccCCCH
Confidence 66677777775 7899999976544
No 85
>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=72.97 E-value=2.4 Score=18.91 Aligned_cols=20 Identities=30% Similarity=0.501 Sum_probs=12.7
Q ss_pred cccCcccccccCChhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~ 140 (166)
..||.|++.+ ....+..|+-
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3678888777 4455566653
No 86
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=72.77 E-value=0.33 Score=25.02 Aligned_cols=11 Identities=27% Similarity=0.945 Sum_probs=7.0
Q ss_pred CcccCcccccc
Q psy16925 119 PYTCPWCSRTF 129 (166)
Q Consensus 119 p~~C~~C~~~f 129 (166)
...|+.||..+
T Consensus 21 ~~~Cp~CG~~~ 31 (46)
T PRK00398 21 GVRCPYCGYRI 31 (46)
T ss_pred ceECCCCCCeE
Confidence 46777777544
No 87
>PF15269 zf-C2H2_7: Zinc-finger
Probab=71.65 E-value=3.1 Score=21.23 Aligned_cols=27 Identities=19% Similarity=0.079 Sum_probs=20.8
Q ss_pred CCCCCccchhhhhhhcCChHHHHHHHH
Q psy16925 17 ASTLGKYSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 17 ~~~~~~~~C~~C~~~~~~~~~l~~H~~ 43 (166)
.+..-+|+|-.|+.+..-+++|-.|++
T Consensus 15 ~gkp~~ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 15 PGKPFKYKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred CCCCccceeecCCcccchHHHHHHHHH
Confidence 344456888888888888888888876
No 88
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=70.67 E-value=0.74 Score=25.09 Aligned_cols=11 Identities=55% Similarity=1.289 Sum_probs=7.0
Q ss_pred CCCcccCcccc
Q psy16925 117 KRPYTCPWCSR 127 (166)
Q Consensus 117 ~~p~~C~~C~~ 127 (166)
..+|.|+.||.
T Consensus 46 ~~~Y~CP~CGF 56 (59)
T PRK14890 46 SNPYTCPKCGF 56 (59)
T ss_pred CCceECCCCCC
Confidence 35677777763
No 89
>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=70.64 E-value=1.5 Score=22.08 Aligned_cols=11 Identities=36% Similarity=1.008 Sum_probs=7.0
Q ss_pred CCCcccCcccc
Q psy16925 117 KRPYTCPWCSR 127 (166)
Q Consensus 117 ~~p~~C~~C~~ 127 (166)
..+..|+.||.
T Consensus 24 ~~~~~CP~Cg~ 34 (42)
T PF09723_consen 24 DDPVPCPECGS 34 (42)
T ss_pred CCCCcCCCCCC
Confidence 34567777775
No 90
>KOG2807|consensus
Probab=70.43 E-value=8.1 Score=28.91 Aligned_cols=79 Identities=15% Similarity=0.161 Sum_probs=45.7
Q ss_pred CCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCcccccc
Q psy16925 50 RPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTF 129 (166)
Q Consensus 50 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f 129 (166)
.|-.|+.|+-+.-...+|.+-...-.+-++|.=..-...+....|-.|+... .+...|.|+.|...|
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~-------------~~~~~y~C~~Ck~~F 355 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGEL-------------LSSGRYRCESCKNVF 355 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeecccc-------------CCCCcEEchhcccee
Confidence 4667888988888888887654433344444322222222222233442111 122348999999999
Q ss_pred cCChhhhhhhhh
Q psy16925 130 ANGSNCRSHKRR 141 (166)
Q Consensus 130 ~~~~~l~~H~~~ 141 (166)
-...+.-.|...
T Consensus 356 CldCDv~iHesL 367 (378)
T KOG2807|consen 356 CLDCDVFIHESL 367 (378)
T ss_pred eccchHHHHhhh
Confidence 888887777664
No 91
>PF14353 CpXC: CpXC protein
Probab=70.36 E-value=0.93 Score=28.95 Aligned_cols=22 Identities=27% Similarity=0.549 Sum_probs=17.0
Q ss_pred CcccCcccccccCChhhhhhhh
Q psy16925 119 PYTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~l~~H~~ 140 (166)
.+.||.||..|.-...+..|..
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred EEECCCCCCceecCCCEEEEcC
Confidence 4789999999887776666654
No 92
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=70.17 E-value=4.4 Score=30.01 Aligned_cols=89 Identities=15% Similarity=0.163 Sum_probs=45.7
Q ss_pred CCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcCCCchhHHHHhh-hhcCCCCcccCccccc
Q psy16925 50 RPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHN-LHTGKRPYTCPWCSRT 128 (166)
Q Consensus 50 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~-~h~~~~p~~C~~C~~~ 128 (166)
.|..|+.|....-...+|.+....-.+-++|.=..-+..+.+..|-.|--.|.-.. .|.. .-+....|.|+.|...
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~---~~~~~~~~ss~rY~Ce~CK~~ 397 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPP---VSPFDESTSSGRYQCELCKST 397 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCC---CCcccccccccceechhhhhh
Confidence 35567777766655555554333223334443222333344444444444333211 1111 1122345999999999
Q ss_pred ccCChhhhhhhhh
Q psy16925 129 FANGSNCRSHKRR 141 (166)
Q Consensus 129 f~~~~~l~~H~~~ 141 (166)
|-...+.-.|...
T Consensus 398 FC~dCdvfiHe~L 410 (421)
T COG5151 398 FCSDCDVFIHETL 410 (421)
T ss_pred hhhhhHHHHHHHH
Confidence 9888777777553
No 93
>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=69.94 E-value=7.1 Score=26.02 Aligned_cols=33 Identities=15% Similarity=0.396 Sum_probs=21.7
Q ss_pred CCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccc
Q psy16925 48 GERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKS 89 (166)
Q Consensus 48 ~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~ 89 (166)
+..-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 345578888887777665553 257777777554
No 94
>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=69.53 E-value=1.3 Score=23.26 Aligned_cols=12 Identities=33% Similarity=1.093 Sum_probs=7.9
Q ss_pred eecccchhhcCC
Q psy16925 52 FVCHECGQSFAS 63 (166)
Q Consensus 52 ~~C~~C~~~f~~ 63 (166)
|.|..|+..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 667777766653
No 95
>PRK04023 DNA polymerase II large subunit; Validated
Probab=69.51 E-value=4.1 Score=35.10 Aligned_cols=9 Identities=33% Similarity=0.944 Sum_probs=4.9
Q ss_pred eecccchhh
Q psy16925 52 FVCHECGQS 60 (166)
Q Consensus 52 ~~C~~C~~~ 60 (166)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 456666554
No 96
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=69.07 E-value=3.6 Score=26.42 Aligned_cols=15 Identities=33% Similarity=0.973 Sum_probs=9.6
Q ss_pred CeecccchhhcCChH
Q psy16925 51 PFVCHECGQSFASKG 65 (166)
Q Consensus 51 ~~~C~~C~~~f~~~~ 65 (166)
|++|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 456777777776543
No 97
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=68.66 E-value=2.3 Score=35.52 Aligned_cols=44 Identities=20% Similarity=0.330 Sum_probs=21.5
Q ss_pred cCCcCCccccccccccCCCcCCC---chhHHHHhhhhcCCCCcccCcccc
Q psy16925 81 KCDICSKKSLKLSNVSCGWYPDE---SKDLKNHHNLHTGKRPYTCPWCSR 127 (166)
Q Consensus 81 ~c~~C~~~~~~~~c~~c~~~f~~---~~~l~~H~~~h~~~~p~~C~~C~~ 127 (166)
.|..||..+ .|+.|+-.+.- ...|.-|..-+....|..|+.||.
T Consensus 437 ~C~~Cg~v~---~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs 483 (730)
T COG1198 437 LCRDCGYIA---ECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGS 483 (730)
T ss_pred ecccCCCcc---cCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCC
Confidence 466666554 45555543221 122223333334456777777774
No 98
>KOG2186|consensus
Probab=68.20 E-value=4.2 Score=29.17 Aligned_cols=47 Identities=17% Similarity=0.378 Sum_probs=34.4
Q ss_pred cchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHHHHHHhH
Q psy16925 23 YSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGILQEHLTI 73 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~ 73 (166)
|.|..|+... .++.+..|+.. ..+ .-|.|-.|+..|.. .....|..-
T Consensus 4 FtCnvCgEsv-KKp~vekH~sr-Crn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESV-KKPQVEKHMSR-CRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhhhhhhc-cccchHHHHHh-ccC-CeeEEeeccccccc-chhhhhhhh
Confidence 7899999974 55667779764 333 56899999999988 556666543
No 99
>KOG3408|consensus
Probab=67.88 E-value=7.1 Score=24.69 Aligned_cols=29 Identities=17% Similarity=0.180 Sum_probs=19.8
Q ss_pred ccCCCCCccchhhhhhhcCChHHHHHHHH
Q psy16925 15 RNASTLGKYSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 15 ~~~~~~~~~~C~~C~~~~~~~~~l~~H~~ 43 (166)
.+....|.|-|-+|..-|.+...|..|.+
T Consensus 50 ~dlPG~GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 50 PDLPGGGQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred CCCCCCceeehhhhhhhhcchHHHHHHHh
Confidence 34455566777777777777777777765
No 100
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.74 E-value=6.4 Score=25.82 Aligned_cols=37 Identities=16% Similarity=0.439 Sum_probs=20.0
Q ss_pred CCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccc
Q psy16925 49 ERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKS 89 (166)
Q Consensus 49 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~ 89 (166)
...|.|+.|+..|.....+.. .. .+..|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEE
Confidence 345778888877764332221 01 13347777776544
No 101
>KOG2186|consensus
Probab=66.49 E-value=3.3 Score=29.67 Aligned_cols=11 Identities=36% Similarity=1.042 Sum_probs=4.7
Q ss_pred cccCccccccc
Q psy16925 120 YTCPWCSRTFA 130 (166)
Q Consensus 120 ~~C~~C~~~f~ 130 (166)
|.|-.|++.|.
T Consensus 30 fSCIDC~k~F~ 40 (276)
T KOG2186|consen 30 FSCIDCGKTFE 40 (276)
T ss_pred eEEeecccccc
Confidence 34444444443
No 102
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=66.47 E-value=1.9 Score=36.25 Aligned_cols=20 Identities=25% Similarity=0.595 Sum_probs=0.0
Q ss_pred ccCCcCCccccccccccCCC
Q psy16925 80 WKCDICSKKSLKLSNVSCGW 99 (166)
Q Consensus 80 ~~c~~C~~~~~~~~c~~c~~ 99 (166)
..|+.|+..-....|+.||.
T Consensus 656 r~Cp~Cg~~t~~~~Cp~CG~ 675 (900)
T PF03833_consen 656 RRCPKCGKETFYNRCPECGS 675 (900)
T ss_dssp --------------------
T ss_pred ccCcccCCcchhhcCcccCC
Confidence 46777777666667777773
No 103
>KOG2482|consensus
Probab=66.45 E-value=11 Score=28.48 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=14.8
Q ss_pred ccCcccccccCChhhhhhhh
Q psy16925 121 TCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 121 ~C~~C~~~f~~~~~l~~H~~ 140 (166)
.|-.|...|.....|..|+.
T Consensus 336 ~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 336 RCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred ccccccccccCcchhhhhcc
Confidence 46677777888888877764
No 104
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=64.59 E-value=5.8 Score=29.91 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=13.2
Q ss_pred ccCcccccccCChhhhhhhhhhc
Q psy16925 121 TCPWCSRTFANGSNCRSHKRRMH 143 (166)
Q Consensus 121 ~C~~C~~~f~~~~~l~~H~~~~h 143 (166)
.|..|...|..-..|..|.+..|
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H 244 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH 244 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh
Confidence 45556666666666666665433
No 105
>KOG2593|consensus
Probab=63.92 E-value=2.7 Score=32.47 Aligned_cols=41 Identities=20% Similarity=0.412 Sum_probs=23.3
Q ss_pred ccCCCCCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchh
Q psy16925 15 RNASTLGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQ 59 (166)
Q Consensus 15 ~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~ 59 (166)
++.+....|.|+.|.+.|+....+..- -.....|.|..|+.
T Consensus 121 ~d~t~~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 121 RDDTNVAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGG 161 (436)
T ss_pred hhccccccccCCccccchhhhHHHHhh----cccCceEEEecCCC
Confidence 445555557777777776666655421 22244566666663
No 106
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=63.83 E-value=5.2 Score=27.27 Aligned_cols=32 Identities=19% Similarity=0.532 Sum_probs=20.2
Q ss_pred CCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccc
Q psy16925 49 ERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKS 89 (166)
Q Consensus 49 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~ 89 (166)
..-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 34577888887776655432 356777777554
No 107
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=63.24 E-value=2.1 Score=28.29 Aligned_cols=17 Identities=18% Similarity=0.526 Sum_probs=10.0
Q ss_pred CCCcccCcccccccCCh
Q psy16925 117 KRPYTCPWCSRTFANGS 133 (166)
Q Consensus 117 ~~p~~C~~C~~~f~~~~ 133 (166)
+.|.-|..||+.|++..
T Consensus 66 ~~PsYC~~CGkpyPWt~ 82 (158)
T PF10083_consen 66 EAPSYCHNCGKPYPWTE 82 (158)
T ss_pred CCChhHHhCCCCCchHH
Confidence 35556666666666543
No 108
>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=62.80 E-value=4.2 Score=25.13 Aligned_cols=93 Identities=11% Similarity=-0.006 Sum_probs=45.0
Q ss_pred CccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchhhcCChHHH-HHHHhHcCCCCCccCCcCCcccccccc----c
Q psy16925 21 GKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQSFASKGIL-QEHLTIHSDDAPWKCDICSKKSLKLSN----V 95 (166)
Q Consensus 21 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~~f~~~~~l-~~h~~~h~~~~~~~c~~C~~~~~~~~c----~ 95 (166)
.-..|..|...... ..+..|++..|.......-..=.+.+..-..| ........+..+..-..-...+....| .
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~ 88 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPP 88 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCC
Confidence 34679999988776 88889988555433221111000111000000 000000000100000001122233467 7
Q ss_pred cCCCcCCCchhHHHHhhhh
Q psy16925 96 SCGWYPDESKDLKNHHNLH 114 (166)
Q Consensus 96 ~c~~~f~~~~~l~~H~~~h 114 (166)
.|+....+...+..|.+.+
T Consensus 89 ~C~y~~~~~~~m~~H~~~~ 107 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWRKE 107 (109)
T ss_pred CCCcEeccHHHHHHHHHHh
Confidence 8888889999999998765
No 109
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.47 E-value=14 Score=27.89 Aligned_cols=48 Identities=23% Similarity=0.340 Sum_probs=32.5
Q ss_pred CCccchhhhhhhcCChHHHHHHHHHhhcCCCCeecccchh-------hcCChHHHHHHHh
Q psy16925 20 LGKYSLALMVTRFSSRSAVTAHTKAVHLGERPFVCHECGQ-------SFASKGILQEHLT 72 (166)
Q Consensus 20 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~~~C~~C~~-------~f~~~~~l~~h~~ 72 (166)
.|-..|..|...|=+...|..|.+..|. .|.+|++ -|.+...|.+|.+
T Consensus 218 KGHP~C~FC~~~FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~ 272 (493)
T COG5236 218 KGHPLCIFCKIYFYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFR 272 (493)
T ss_pred CCCchhhhccceecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhh
Confidence 3456799999999999999999885543 3445543 2555566666643
No 110
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=62.14 E-value=9.7 Score=31.52 Aligned_cols=17 Identities=24% Similarity=0.640 Sum_probs=7.2
Q ss_pred CCcCCccccccccccCC
Q psy16925 82 CDICSKKSLKLSNVSCG 98 (166)
Q Consensus 82 c~~C~~~~~~~~c~~c~ 98 (166)
|+.||..+....|+.||
T Consensus 18 C~~CG~~l~~~~Cp~CG 34 (645)
T PRK14559 18 CQKCGTSLTHKPCPQCG 34 (645)
T ss_pred ccccCCCCCCCcCCCCC
Confidence 44444444333444444
No 111
>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=61.75 E-value=4.1 Score=28.66 Aligned_cols=31 Identities=29% Similarity=0.678 Sum_probs=22.1
Q ss_pred CCCcccCcccccccCChhhhhhhhhhcchhH
Q psy16925 117 KRPYTCPWCSRTFANGSNCRSHKRRMHPEEL 147 (166)
Q Consensus 117 ~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 147 (166)
+..|.|++|+|.|.-..-+..|+..-|++..
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~v 105 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEKV 105 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHHH
Confidence 3358899999999988888899888887653
No 112
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.81 E-value=4.4 Score=26.08 Aligned_cols=24 Identities=29% Similarity=0.278 Sum_probs=19.6
Q ss_pred ccccCCCcCCCchhHHHHhhhhcCCCC
Q psy16925 93 SNVSCGWYPDESKDLKNHHNLHTGKRP 119 (166)
Q Consensus 93 ~c~~c~~~f~~~~~l~~H~~~h~~~~p 119 (166)
.|.++|+.|.+ |++|+.+|.+.-|
T Consensus 78 icLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 78 ICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEeccCcchHH---HHHHHhcccCCCH
Confidence 77888888876 9999999887655
No 113
>KOG4173|consensus
Probab=59.96 E-value=4.9 Score=27.96 Aligned_cols=19 Identities=32% Similarity=0.847 Sum_probs=9.1
Q ss_pred ccCcccccccCChhhhhhh
Q psy16925 121 TCPWCSRTFANGSNCRSHK 139 (166)
Q Consensus 121 ~C~~C~~~f~~~~~l~~H~ 139 (166)
.|..|.+.|++.-.|..|+
T Consensus 108 sCs~C~r~~Pt~hLLd~HI 126 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHI 126 (253)
T ss_pred hhHHHHHhCCchhhhhHHH
Confidence 4445555555444444443
No 114
>KOG4167|consensus
Probab=59.34 E-value=4.8 Score=33.38 Aligned_cols=27 Identities=22% Similarity=0.176 Sum_probs=23.6
Q ss_pred CCccchhhhhhhcCChHHHHHHHHHhhc
Q psy16925 20 LGKYSLALMVTRFSSRSAVTAHTKAVHL 47 (166)
Q Consensus 20 ~~~~~C~~C~~~~~~~~~l~~H~~~~h~ 47 (166)
.+.|.|.+|++.|.....+..||+ .|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK-~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMK-THR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHH-HHH
Confidence 577999999999999999999998 454
No 115
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=58.80 E-value=2.6 Score=27.99 Aligned_cols=14 Identities=21% Similarity=0.505 Sum_probs=8.8
Q ss_pred cccCcccccccCCh
Q psy16925 120 YTCPWCSRTFANGS 133 (166)
Q Consensus 120 ~~C~~C~~~f~~~~ 133 (166)
++|+.||+.|....
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 56667777666543
No 116
>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=56.70 E-value=3.4 Score=23.08 Aligned_cols=13 Identities=23% Similarity=0.590 Sum_probs=5.8
Q ss_pred cccCcccccccCC
Q psy16925 120 YTCPWCSRTFANG 132 (166)
Q Consensus 120 ~~C~~C~~~f~~~ 132 (166)
+-|..||..|-..
T Consensus 26 hhCr~CG~~vC~~ 38 (69)
T PF01363_consen 26 HHCRNCGRVVCSS 38 (69)
T ss_dssp EE-TTT--EEECC
T ss_pred EccCCCCCEECCc
Confidence 5666777666443
No 117
>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=56.37 E-value=4.9 Score=19.53 Aligned_cols=8 Identities=25% Similarity=0.588 Sum_probs=3.9
Q ss_pred cccCcccc
Q psy16925 120 YTCPWCSR 127 (166)
Q Consensus 120 ~~C~~C~~ 127 (166)
-.|..||-
T Consensus 22 ~~Cd~cg~ 29 (36)
T PF05191_consen 22 GVCDNCGG 29 (36)
T ss_dssp TBCTTTTE
T ss_pred CccCCCCC
Confidence 34555554
No 118
>KOG0782|consensus
Probab=56.01 E-value=2.1 Score=34.44 Aligned_cols=52 Identities=15% Similarity=0.203 Sum_probs=34.7
Q ss_pred hhHHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhcchhHHHHHHHhhhhhhhhc
Q psy16925 105 KDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEELKLYESSLGKIFLYGK 162 (166)
Q Consensus 105 ~~l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~c~~~f~~~~ 162 (166)
+.+..|.-.|..-..=+|..|+++|.++-.+ |-.+.....|+||...|-.+.
T Consensus 239 ~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 239 SGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccchHHhHhhHhhhccccchhhhhhhhheee------ccccEEEEEehHHHHHhhcch
Confidence 4566666666554446899999999877544 223334566999988876543
No 119
>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=55.81 E-value=4.8 Score=17.69 Aligned_cols=10 Identities=40% Similarity=1.165 Sum_probs=6.4
Q ss_pred CCcccCcccc
Q psy16925 118 RPYTCPWCSR 127 (166)
Q Consensus 118 ~p~~C~~C~~ 127 (166)
.+|.||.||.
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3577777763
No 120
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=53.92 E-value=1.7 Score=35.72 Aligned_cols=17 Identities=35% Similarity=0.980 Sum_probs=7.7
Q ss_pred cCcccccccCChhhhhh
Q psy16925 122 CPWCSRTFANGSNCRSH 138 (166)
Q Consensus 122 C~~C~~~f~~~~~l~~H 138 (166)
|+.|.+.|....+.+-|
T Consensus 154 C~~C~~EY~dP~nRRfH 170 (750)
T COG0068 154 CPFCDKEYKDPLNRRFH 170 (750)
T ss_pred CHHHHHHhcCccccccc
Confidence 44454444444443333
No 121
>PHA00626 hypothetical protein
Probab=53.91 E-value=6.3 Score=21.23 Aligned_cols=15 Identities=20% Similarity=0.403 Sum_probs=12.2
Q ss_pred CCcccCcccccccCC
Q psy16925 118 RPYTCPWCSRTFANG 132 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~ 132 (166)
..|+|+.||..|+..
T Consensus 22 nrYkCkdCGY~ft~~ 36 (59)
T PHA00626 22 DDYVCCDCGYNDSKD 36 (59)
T ss_pred cceEcCCCCCeechh
Confidence 469999999988743
No 122
>KOG1842|consensus
Probab=53.52 E-value=9.3 Score=29.85 Aligned_cols=32 Identities=19% Similarity=0.283 Sum_probs=28.3
Q ss_pred CCCccchhhhhhhcCChHHHHHHHHHhhcCCC
Q psy16925 19 TLGKYSLALMVTRFSSRSAVTAHTKAVHLGER 50 (166)
Q Consensus 19 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~~~ 50 (166)
....|.|++|...|.....|..|+...|.++.
T Consensus 12 i~egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 12 ILEGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hhhcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 35569999999999999999999998898764
No 123
>PF12773 DZR: Double zinc ribbon
Probab=53.48 E-value=18 Score=18.55 Aligned_cols=10 Identities=30% Similarity=0.780 Sum_probs=6.5
Q ss_pred CcccCccccc
Q psy16925 119 PYTCPWCSRT 128 (166)
Q Consensus 119 p~~C~~C~~~ 128 (166)
...|+.|+..
T Consensus 29 ~~~C~~Cg~~ 38 (50)
T PF12773_consen 29 KKICPNCGAE 38 (50)
T ss_pred CCCCcCCcCC
Confidence 4567777764
No 124
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=51.51 E-value=3.4 Score=23.63 Aligned_cols=20 Identities=30% Similarity=0.444 Sum_probs=13.3
Q ss_pred CCCCcccC--cccccccCChhh
Q psy16925 116 GKRPYTCP--WCSRTFANGSNC 135 (166)
Q Consensus 116 ~~~p~~C~--~C~~~f~~~~~l 135 (166)
.+.-++|. .||..|.....+
T Consensus 24 ~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 24 KERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred heeeeecCCCCCCCEEEEEEEE
Confidence 34556786 888888765543
No 125
>KOG4727|consensus
Probab=50.97 E-value=8.3 Score=25.97 Aligned_cols=26 Identities=15% Similarity=0.109 Sum_probs=20.7
Q ss_pred CCCCccchhhhhhhcCChHHHHHHHH
Q psy16925 18 STLGKYSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 18 ~~~~~~~C~~C~~~~~~~~~l~~H~~ 43 (166)
+..+.|-|.+|+..+.+.-.+..|+.
T Consensus 71 sq~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 71 SQKGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cccCceeeeecceeehhhHHHHHHhc
Confidence 34456889999999999888888875
No 126
>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=50.58 E-value=3.4 Score=20.83 Aligned_cols=12 Identities=25% Similarity=0.379 Sum_probs=6.7
Q ss_pred HHHhhhhhhhhc
Q psy16925 151 ESSLGKIFLYGK 162 (166)
Q Consensus 151 c~~c~~~f~~~~ 162 (166)
|..||+-|.+.+
T Consensus 11 C~~C~rpf~WRK 22 (42)
T PF10013_consen 11 CPVCGRPFTWRK 22 (42)
T ss_pred CcccCCcchHHH
Confidence 555555555544
No 127
>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=50.56 E-value=6.4 Score=19.26 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=18.7
Q ss_pred cccCcccccccCChhhhhhhhhhcchhHHHHHHHhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRRMHPEELKLYESSLGK 156 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~c~~ 156 (166)
|+|+.||..|........ .....|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~--------~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD--------DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC--------CCCCCCCCCCC
Confidence 789999998875433211 22455888886
No 128
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.51 E-value=16 Score=31.81 Aligned_cols=23 Identities=26% Similarity=0.458 Sum_probs=18.9
Q ss_pred CCccCCcCCccccccccccCCCc
Q psy16925 78 APWKCDICSKKSLKLSNVSCGWY 100 (166)
Q Consensus 78 ~~~~c~~C~~~~~~~~c~~c~~~ 100 (166)
....|+.||.......|+.||..
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~ 647 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTH 647 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCC
Confidence 34689999988888899999975
No 129
>KOG3408|consensus
Probab=50.51 E-value=6.9 Score=24.72 Aligned_cols=25 Identities=24% Similarity=0.591 Sum_probs=20.2
Q ss_pred CCCCcccCcccccccCChhhhhhhh
Q psy16925 116 GKRPYTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 116 ~~~p~~C~~C~~~f~~~~~l~~H~~ 140 (166)
|...|.|-.|.+-|.+...|..|.+
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHh
Confidence 3445888899999999999988876
No 130
>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=50.02 E-value=15 Score=20.42 Aligned_cols=14 Identities=36% Similarity=0.828 Sum_probs=9.7
Q ss_pred CCCcccCccccccc
Q psy16925 117 KRPYTCPWCSRTFA 130 (166)
Q Consensus 117 ~~p~~C~~C~~~f~ 130 (166)
.+.|.|+.||..+.
T Consensus 44 ~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 44 GRVFTCPNCGFEMD 57 (69)
T ss_pred cceEEcCCCCCEEC
Confidence 44588888887643
No 131
>KOG2482|consensus
Probab=49.74 E-value=25 Score=26.68 Aligned_cols=22 Identities=23% Similarity=0.745 Sum_probs=20.3
Q ss_pred cccCcccccccCChhhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
+.|-.|.+.|..+..|..||+.
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 7899999999999999999973
No 132
>KOG0696|consensus
Probab=48.89 E-value=5.1 Score=31.38 Aligned_cols=50 Identities=16% Similarity=0.279 Sum_probs=29.7
Q ss_pred HHHHhhhhcCCCCcccCcccccccCChhhhhhhhhhcchhHHHHHHHhhhh
Q psy16925 107 LKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEELKLYESSLGKI 157 (166)
Q Consensus 107 l~~H~~~h~~~~p~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~c~~~ 157 (166)
+..|.+-|.- ..|.||--++.+..-.....|.-..|+=..|..|..||..
T Consensus 81 fvvHkrChef-VtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCGsL 130 (683)
T KOG0696|consen 81 FVVHKRCHEF-VTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCGSL 130 (683)
T ss_pred ehhhhhhcce-EEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHHHH
Confidence 3445554432 2366666666666666666666556665666667777643
No 133
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.63 E-value=12 Score=23.22 Aligned_cols=13 Identities=15% Similarity=0.715 Sum_probs=10.9
Q ss_pred CCcccCccccccc
Q psy16925 118 RPYTCPWCSRTFA 130 (166)
Q Consensus 118 ~p~~C~~C~~~f~ 130 (166)
.|..||.||++|+
T Consensus 25 dPiVsPytG~s~P 37 (129)
T COG4530 25 DPIVSPYTGKSYP 37 (129)
T ss_pred CccccCcccccch
Confidence 5788999999984
No 134
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=48.51 E-value=10 Score=19.93 Aligned_cols=10 Identities=30% Similarity=1.145 Sum_probs=5.3
Q ss_pred eecccchhhc
Q psy16925 52 FVCHECGQSF 61 (166)
Q Consensus 52 ~~C~~C~~~f 61 (166)
|.|..|++.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 5555555554
No 135
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=47.49 E-value=7.5 Score=20.85 Aligned_cols=27 Identities=33% Similarity=0.773 Sum_probs=16.2
Q ss_pred chhHHHHhhhhcCCCCcccCc----cccccc
Q psy16925 104 SKDLKNHHNLHTGKRPYTCPW----CSRTFA 130 (166)
Q Consensus 104 ~~~l~~H~~~h~~~~p~~C~~----C~~~f~ 130 (166)
...|..|+...-..++..|+. |+..+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 345777877666666777877 766554
No 136
>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=47.10 E-value=6.4 Score=18.00 Aligned_cols=19 Identities=37% Similarity=0.910 Sum_probs=10.2
Q ss_pred cccCcccccccCChhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHK 139 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~ 139 (166)
|.|-.|++.|. ......|-
T Consensus 1 ~sCiDC~~~F~-~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDFD-GDSYKSHT 19 (28)
T ss_dssp EEETTTTEEEE-GGGTTT--
T ss_pred CeeecCCCCcC-cCCcCCCC
Confidence 45777888873 33444553
No 137
>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=47.06 E-value=4.3 Score=29.29 Aligned_cols=17 Identities=24% Similarity=0.602 Sum_probs=7.1
Q ss_pred CCeecccchhhcCChHH
Q psy16925 50 RPFVCHECGQSFASKGI 66 (166)
Q Consensus 50 ~~~~C~~C~~~f~~~~~ 66 (166)
+++.|+.|+........
T Consensus 208 k~~PCPKCg~et~eTkd 224 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKD 224 (314)
T ss_pred CCCCCCCCCCccccccc
Confidence 34444444444333333
No 138
>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=46.14 E-value=5.3 Score=19.21 Aligned_cols=14 Identities=21% Similarity=0.226 Sum_probs=4.8
Q ss_pred HHHhhhhhhhhccc
Q psy16925 151 ESSLGKIFLYGKMK 164 (166)
Q Consensus 151 c~~c~~~f~~~~~~ 164 (166)
|.+||+.|..+-|.
T Consensus 6 C~eC~~~f~dSyL~ 19 (34)
T PF01286_consen 6 CDECGKPFMDSYLL 19 (34)
T ss_dssp -TTT--EES-SSCC
T ss_pred HhHhCCHHHHHHHH
Confidence 44555555544443
No 139
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.87 E-value=8.6 Score=19.96 Aligned_cols=14 Identities=14% Similarity=0.059 Sum_probs=9.6
Q ss_pred HHHHHhhhhhhhhc
Q psy16925 149 LYESSLGKIFLYGK 162 (166)
Q Consensus 149 ~~c~~c~~~f~~~~ 162 (166)
..|+.|++-|.|.+
T Consensus 13 KICpvCqRPFsWRk 26 (54)
T COG4338 13 KICPVCQRPFSWRK 26 (54)
T ss_pred hhhhhhcCchHHHH
Confidence 34777777777765
No 140
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=44.53 E-value=9.4 Score=20.49 Aligned_cols=9 Identities=56% Similarity=1.206 Sum_probs=4.1
Q ss_pred cCCcCCccc
Q psy16925 81 KCDICSKKS 89 (166)
Q Consensus 81 ~c~~C~~~~ 89 (166)
.|+.|+..|
T Consensus 7 ~C~~Cg~~~ 15 (54)
T PF14446_consen 7 KCPVCGKKF 15 (54)
T ss_pred cChhhCCcc
Confidence 344444444
No 141
>KOG2593|consensus
Probab=44.13 E-value=30 Score=27.05 Aligned_cols=40 Identities=15% Similarity=0.489 Sum_probs=27.8
Q ss_pred cCCCCeecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccc
Q psy16925 47 LGERPFVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKS 89 (166)
Q Consensus 47 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~ 89 (166)
+....|.|+.|.+.|+.-.. -+..-..+..|.|..|+...
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea---~~L~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEA---LQLLDNETGEFHCENCGGEL 163 (436)
T ss_pred cccccccCCccccchhhhHH---HHhhcccCceEEEecCCCch
Confidence 44567999999999965443 33334445678999998655
No 142
>PLN02294 cytochrome c oxidase subunit Vb
Probab=43.24 E-value=13 Score=25.14 Aligned_cols=16 Identities=25% Similarity=0.818 Sum_probs=13.1
Q ss_pred CCCcccCcccccccCC
Q psy16925 117 KRPYTCPWCSRTFANG 132 (166)
Q Consensus 117 ~~p~~C~~C~~~f~~~ 132 (166)
.+|++|++||..|...
T Consensus 139 Gkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 139 GKSFECPVCTQYFELE 154 (174)
T ss_pred CCceeCCCCCCEEEEE
Confidence 4689999999998643
No 143
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=41.10 E-value=13 Score=18.41 Aligned_cols=14 Identities=21% Similarity=0.748 Sum_probs=11.5
Q ss_pred CcccCcccccccCC
Q psy16925 119 PYTCPWCSRTFANG 132 (166)
Q Consensus 119 p~~C~~C~~~f~~~ 132 (166)
|+.|..|+..|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78999999888644
No 144
>KOG2272|consensus
Probab=40.80 E-value=32 Score=24.93 Aligned_cols=32 Identities=9% Similarity=0.072 Sum_probs=18.1
Q ss_pred ccccCCcccCCCCCccchhhhhhhcCChHHHH
Q psy16925 8 GIRAAGFRNASTLGKYSLALMVTRFSSRSAVT 39 (166)
Q Consensus 8 ~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~ 39 (166)
|.....+.++--..=|.|++|.+...+...+.
T Consensus 85 GrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~r 116 (332)
T KOG2272|consen 85 GRVIKAMNNSWHPACFRCDLCNKHLADQGFYR 116 (332)
T ss_pred hHHHHhhccccCcccchhHHHHHHHhhhhhHh
Confidence 33444455555556677777776655555443
No 145
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=40.79 E-value=11 Score=24.43 Aligned_cols=15 Identities=27% Similarity=0.793 Sum_probs=10.4
Q ss_pred CCeecccchhhcCCh
Q psy16925 50 RPFVCHECGQSFASK 64 (166)
Q Consensus 50 ~~~~C~~C~~~f~~~ 64 (166)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 347788888777654
No 146
>KOG4124|consensus
Probab=40.41 E-value=9.4 Score=28.85 Aligned_cols=25 Identities=28% Similarity=0.743 Sum_probs=19.3
Q ss_pred CCCCcccCcccccccCChhhhhhhh
Q psy16925 116 GKRPYTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 116 ~~~p~~C~~C~~~f~~~~~l~~H~~ 140 (166)
..|||+|++|.+.+.....|.-|..
T Consensus 395 ~nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 395 ENKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred ccCcccChhhhhhhccCCCCCceee
Confidence 3678999999999887777766643
No 147
>PHA02998 RNA polymerase subunit; Provisional
Probab=40.15 E-value=2.2 Score=28.80 Aligned_cols=16 Identities=19% Similarity=0.073 Sum_probs=9.7
Q ss_pred HHHHhhhhhhhhcccC
Q psy16925 150 YESSLGKIFLYGKMKN 165 (166)
Q Consensus 150 ~c~~c~~~f~~~~~~~ 165 (166)
.|..||..|..++.++
T Consensus 173 kC~~CG~~wkppkf~~ 188 (195)
T PHA02998 173 ACRDCKKHFKPPKFRD 188 (195)
T ss_pred EcCCCCCccCCccccc
Confidence 3666666666665543
No 148
>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=40.10 E-value=15 Score=22.34 Aligned_cols=20 Identities=35% Similarity=0.752 Sum_probs=15.0
Q ss_pred hhhhcCCCCcccCcccccccC
Q psy16925 111 HNLHTGKRPYTCPWCSRTFAN 131 (166)
Q Consensus 111 ~~~h~~~~p~~C~~C~~~f~~ 131 (166)
+..+.+ +|++|++||..|..
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEE
Confidence 344555 79999999998863
No 149
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=39.75 E-value=21 Score=17.50 Aligned_cols=22 Identities=14% Similarity=0.140 Sum_probs=8.0
Q ss_pred CccchhhhhhhcCChH--HHHHHH
Q psy16925 21 GKYSLALMVTRFSSRS--AVTAHT 42 (166)
Q Consensus 21 ~~~~C~~C~~~~~~~~--~l~~H~ 42 (166)
..|.|++|...+...+ .-..|.
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT
T ss_pred cCeecccccceecCCChHHHHHhh
Confidence 3578888888883333 334443
No 151
>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=39.64 E-value=19 Score=19.30 Aligned_cols=10 Identities=20% Similarity=0.601 Sum_probs=6.0
Q ss_pred cccCcccccc
Q psy16925 120 YTCPWCSRTF 129 (166)
Q Consensus 120 ~~C~~C~~~f 129 (166)
..|+.||..+
T Consensus 23 V~Cp~CGael 32 (54)
T TIGR01206 23 VICDECGAEL 32 (54)
T ss_pred EeCCCCCCEE
Confidence 4666666544
No 152
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=39.24 E-value=22 Score=21.95 Aligned_cols=29 Identities=21% Similarity=0.212 Sum_probs=23.0
Q ss_pred ccCCCCCccchhhhhhhcCChHHHHHHHH
Q psy16925 15 RNASTLGKYSLALMVTRFSSRSAVTAHTK 43 (166)
Q Consensus 15 ~~~~~~~~~~C~~C~~~~~~~~~l~~H~~ 43 (166)
++....|.+-|-+|..-|.+...|..|.+
T Consensus 48 p~lPGlGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 48 PELPGLGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CCCCCCceeeeehhHHHHHHHHHHHHHhc
Confidence 34556677889999999999999988865
No 153
>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=38.91 E-value=21 Score=16.83 Aligned_cols=10 Identities=40% Similarity=1.125 Sum_probs=5.5
Q ss_pred CcccCccccc
Q psy16925 119 PYTCPWCSRT 128 (166)
Q Consensus 119 p~~C~~C~~~ 128 (166)
+..|+.||..
T Consensus 17 ~irC~~CG~R 26 (32)
T PF03604_consen 17 PIRCPECGHR 26 (32)
T ss_dssp TSSBSSSS-S
T ss_pred cEECCcCCCe
Confidence 4566666643
No 154
>KOG2907|consensus
Probab=38.72 E-value=16 Score=22.84 Aligned_cols=13 Identities=46% Similarity=1.037 Sum_probs=9.0
Q ss_pred CcccCcccccccC
Q psy16925 119 PYTCPWCSRTFAN 131 (166)
Q Consensus 119 p~~C~~C~~~f~~ 131 (166)
-|.|+.|++.|..
T Consensus 102 FYTC~kC~~k~~e 114 (116)
T KOG2907|consen 102 FYTCPKCKYKFTE 114 (116)
T ss_pred EEEcCccceeeec
Confidence 3678888777654
No 155
>KOG0978|consensus
Probab=38.64 E-value=7.7 Score=32.20 Aligned_cols=20 Identities=30% Similarity=0.639 Sum_probs=13.1
Q ss_pred CCcccCcccccccCChhhhh
Q psy16925 118 RPYTCPWCSRTFANGSNCRS 137 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~~~l~~ 137 (166)
+.-+||.|+.+|....-+..
T Consensus 677 RqRKCP~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRI 696 (698)
T ss_pred hcCCCCCCCCCCCccccccc
Confidence 34578888888876654433
No 156
>KOG2785|consensus
Probab=38.41 E-value=35 Score=26.23 Aligned_cols=53 Identities=17% Similarity=0.115 Sum_probs=41.7
Q ss_pred CccchhhhhhhcCChHHHHHHHHHhhcCC----------------------CCeecccch---hhcCChHHHHHHHhH
Q psy16925 21 GKYSLALMVTRFSSRSAVTAHTKAVHLGE----------------------RPFVCHECG---QSFASKGILQEHLTI 73 (166)
Q Consensus 21 ~~~~C~~C~~~~~~~~~l~~H~~~~h~~~----------------------~~~~C~~C~---~~f~~~~~l~~h~~~ 73 (166)
.+-.|..|+..+.+...-..||...|.-- ..+.|-.|+ ..|..-.....||..
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 34779999999999999999998666421 236787788 888888888888765
No 157
>KOG1842|consensus
Probab=38.25 E-value=13 Score=29.12 Aligned_cols=29 Identities=31% Similarity=0.399 Sum_probs=22.5
Q ss_pred CcccCcccccccCChhhhhhhhhhcchhH
Q psy16925 119 PYTCPWCSRTFANGSNCRSHKRRMHPEEL 147 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 147 (166)
-|.||+|...|.....|..|.-.-|.++.
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 47888888888888888888877776553
No 158
>KOG0782|consensus
Probab=37.72 E-value=6.9 Score=31.67 Aligned_cols=43 Identities=19% Similarity=0.171 Sum_probs=30.3
Q ss_pred ChHHHHHHHhHcCCCCCccCCcCCcccccc-----------ccccCCCcCCCch
Q psy16925 63 SKGILQEHLTIHSDDAPWKCDICSKKSLKL-----------SNVSCGWYPDESK 105 (166)
Q Consensus 63 ~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~-----------~c~~c~~~f~~~~ 105 (166)
.++.+.+|-..|.....-+|..|+++|.+. +|.+|.+.|-.+.
T Consensus 237 rE~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~FhsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 237 RESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFFHSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccccchHHhHhhHhhhccccchhhhhhhhheeeccccEEEEEehHHHHHhhcch
Confidence 344677777777665566899999998664 7777777766554
No 159
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=37.53 E-value=16 Score=19.20 Aligned_cols=12 Identities=25% Similarity=0.493 Sum_probs=8.2
Q ss_pred CCcccCcccccc
Q psy16925 118 RPYTCPWCSRTF 129 (166)
Q Consensus 118 ~p~~C~~C~~~f 129 (166)
..+.|..||..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 347788887654
No 160
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=37.27 E-value=11 Score=31.44 Aligned_cols=82 Identities=16% Similarity=0.277 Sum_probs=40.6
Q ss_pred cchhhhhhhcCChHHHHHHHHHhhcCCCC-eecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCCcC
Q psy16925 23 YSLALMVTRFSSRSAVTAHTKAVHLGERP-FVCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGWYP 101 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~~~h~~~~~-~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~~f 101 (166)
-.|+.|-+-+.+..+-..+. | -.|+.||-+|+-...|.-- |.++.=..| ..|+.|.+.+
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~Y--------PF~~CT~CGPRfTIi~alPYD-R~nTsM~~F-----------~lC~~C~~EY 161 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYLY--------PFINCTNCGPRFTIIEALPYD-RENTSMADF-----------PLCPFCDKEY 161 (750)
T ss_pred hhhHHHHHHhcCCCCcceec--------cccccCCCCcceeeeccCCCC-cccCccccC-----------cCCHHHHHHh
Confidence 45777766555444332211 2 2477777777655443211 111111111 1344455555
Q ss_pred CCchhHHHHhhhhcCCCCcccCccccccc
Q psy16925 102 DESKDLKNHHNLHTGKRPYTCPWCSRTFA 130 (166)
Q Consensus 102 ~~~~~l~~H~~~h~~~~p~~C~~C~~~f~ 130 (166)
.+..+ .|.| .+|..|+.||....
T Consensus 162 ~dP~n----RRfH--AQp~aCp~CGP~~~ 184 (750)
T COG0068 162 KDPLN----RRFH--AQPIACPKCGPHLF 184 (750)
T ss_pred cCccc----cccc--cccccCcccCCCeE
Confidence 55544 2334 45789999997543
No 161
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=37.13 E-value=13 Score=19.71 Aligned_cols=12 Identities=33% Similarity=1.010 Sum_probs=6.4
Q ss_pred ccCcccccccCC
Q psy16925 121 TCPWCSRTFANG 132 (166)
Q Consensus 121 ~C~~C~~~f~~~ 132 (166)
.||+|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999988753
No 162
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=36.67 E-value=32 Score=18.59 Aligned_cols=20 Identities=35% Similarity=0.526 Sum_probs=11.8
Q ss_pred cCCcCCccccccccccCCCc
Q psy16925 81 KCDICSKKSLKLSNVSCGWY 100 (166)
Q Consensus 81 ~c~~C~~~~~~~~c~~c~~~ 100 (166)
.|+.|+.-.....|+.||..
T Consensus 7 ~C~~CgvYTLk~~CP~CG~~ 26 (56)
T PRK13130 7 KCPKCGVYTLKEICPVCGGK 26 (56)
T ss_pred ECCCCCCEEccccCcCCCCC
Confidence 56666655545566666644
No 163
>PF15616 TerY-C: TerY-C metal binding domain
Probab=36.50 E-value=25 Score=22.73 Aligned_cols=36 Identities=28% Similarity=0.646 Sum_probs=21.7
Q ss_pred cCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCccccc
Q psy16925 81 KCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRT 128 (166)
Q Consensus 81 ~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~ 128 (166)
-|+.||..+-...| .|++.|-- .++....||.|+..
T Consensus 79 gCP~CGn~~~fa~C-~CGkl~Ci-----------~g~~~~~CPwCg~~ 114 (131)
T PF15616_consen 79 GCPHCGNQYAFAVC-GCGKLFCI-----------DGEGEVTCPWCGNE 114 (131)
T ss_pred CCCCCcChhcEEEe-cCCCEEEe-----------CCCCCEECCCCCCe
Confidence 57777776655555 56665432 22334678888764
No 164
>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=36.34 E-value=2 Score=20.83 Aligned_cols=11 Identities=18% Similarity=0.782 Sum_probs=4.7
Q ss_pred cccCccccccc
Q psy16925 120 YTCPWCSRTFA 130 (166)
Q Consensus 120 ~~C~~C~~~f~ 130 (166)
..|..||-.++
T Consensus 22 isC~~CGPr~~ 32 (35)
T PF07503_consen 22 ISCTNCGPRYS 32 (35)
T ss_dssp --BTTCC-SCC
T ss_pred ccCCCCCCCEE
Confidence 46666665543
No 165
>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=36.04 E-value=19 Score=28.50 Aligned_cols=25 Identities=40% Similarity=0.998 Sum_probs=14.0
Q ss_pred ccCcccccccCChhhhhhhhhhcch
Q psy16925 121 TCPWCSRTFANGSNCRSHKRRMHPE 145 (166)
Q Consensus 121 ~C~~C~~~f~~~~~l~~H~~~~h~~ 145 (166)
.|+.|.+.|.....+..|+...|.+
T Consensus 59 iCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 59 ICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eCCcccceeCCHHHHHHHHHHhhhh
Confidence 4555555566655566665544544
No 166
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=35.91 E-value=51 Score=17.53 Aligned_cols=44 Identities=11% Similarity=0.064 Sum_probs=21.8
Q ss_pred cCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCccccccc
Q psy16925 81 KCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRTFA 130 (166)
Q Consensus 81 ~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~f~ 130 (166)
.|+.|+..+.......||..|.. ..+..++.. ...||.|+..+.
T Consensus 3 ~Cpi~~~~~~~Pv~~~~G~v~~~-~~i~~~~~~-----~~~cP~~~~~~~ 46 (63)
T smart00504 3 LCPISLEVMKDPVILPSGQTYER-RAIEKWLLS-----HGTDPVTGQPLT 46 (63)
T ss_pred CCcCCCCcCCCCEECCCCCEEeH-HHHHHHHHH-----CCCCCCCcCCCC
Confidence 34444444443333334444333 334444443 247888887764
No 167
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=35.55 E-value=10 Score=19.06 Aligned_cols=15 Identities=27% Similarity=0.893 Sum_probs=9.5
Q ss_pred CCcccCcccccccCC
Q psy16925 118 RPYTCPWCSRTFANG 132 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~ 132 (166)
.|+.|+.|+..|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 478999999988654
No 168
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.15 E-value=27 Score=29.15 Aligned_cols=46 Identities=17% Similarity=0.403 Sum_probs=22.0
Q ss_pred ecccchhhcCChHHHHHHHhHcCCCCCccCCcCCccccccccccCCC
Q psy16925 53 VCHECGQSFASKGILQEHLTIHSDDAPWKCDICSKKSLKLSNVSCGW 99 (166)
Q Consensus 53 ~C~~C~~~f~~~~~l~~h~~~h~~~~~~~c~~C~~~~~~~~c~~c~~ 99 (166)
.|..||+......- ...+..|.......|..||.......|+.|+.
T Consensus 385 ~C~~Cg~~~~C~~C-~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs 430 (665)
T PRK14873 385 ACARCRTPARCRHC-TGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGS 430 (665)
T ss_pred EhhhCcCeeECCCC-CCceeEecCCCeeECCCCcCCCcCccCCCCcC
Confidence 56666665543310 00112233344566777765444445555553
No 169
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=34.95 E-value=30 Score=17.79 Aligned_cols=16 Identities=13% Similarity=0.316 Sum_probs=11.9
Q ss_pred CcccCcccccccCChh
Q psy16925 119 PYTCPWCSRTFANGSN 134 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~ 134 (166)
.+.|+.||..+.....
T Consensus 20 ~~vC~~Cg~~~~~~~~ 35 (52)
T smart00661 20 RFVCRKCGYEEPIEQK 35 (52)
T ss_pred EEECCcCCCeEECCCc
Confidence 5789999987765544
No 170
>PRK12496 hypothetical protein; Provisional
Probab=34.85 E-value=25 Score=23.65 Aligned_cols=10 Identities=40% Similarity=0.614 Sum_probs=6.5
Q ss_pred ccCCcCCccc
Q psy16925 80 WKCDICSKKS 89 (166)
Q Consensus 80 ~~c~~C~~~~ 89 (166)
+.|..|++.|
T Consensus 128 ~~C~gC~~~~ 137 (164)
T PRK12496 128 KVCKGCKKKY 137 (164)
T ss_pred EECCCCCccc
Confidence 5577776666
No 171
>KOG4167|consensus
Probab=33.98 E-value=13 Score=30.97 Aligned_cols=26 Identities=15% Similarity=0.397 Sum_probs=21.5
Q ss_pred CcccCcccccccCChhhhhhhhhhcc
Q psy16925 119 PYTCPWCSRTFANGSNCRSHKRRMHP 144 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~l~~H~~~~h~ 144 (166)
-|-|.+|++.|..--++..|++.|-.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 37899999999988888999987543
No 172
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=33.28 E-value=53 Score=21.30 Aligned_cols=19 Identities=16% Similarity=0.489 Sum_probs=12.5
Q ss_pred CCCCeecccchhhcCChHH
Q psy16925 48 GERPFVCHECGQSFASKGI 66 (166)
Q Consensus 48 ~~~~~~C~~C~~~f~~~~~ 66 (166)
..+.|.|.+|..+...+..
T Consensus 77 d~~lYeCnIC~etS~ee~F 95 (140)
T PF05290_consen 77 DPKLYECNICKETSAEERF 95 (140)
T ss_pred CCCceeccCcccccchhhc
Confidence 4566888888777655443
No 173
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=32.69 E-value=31 Score=17.16 Aligned_cols=21 Identities=33% Similarity=0.776 Sum_probs=12.7
Q ss_pred cccCcccccccCC--hhhhhhhh
Q psy16925 120 YTCPWCSRTFANG--SNCRSHKR 140 (166)
Q Consensus 120 ~~C~~C~~~f~~~--~~l~~H~~ 140 (166)
..|+.||-.|... .+-..|.+
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~ 36 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKK 36 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHH
Confidence 5788888777643 33345544
No 174
>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=32.40 E-value=28 Score=27.68 Aligned_cols=27 Identities=15% Similarity=0.223 Sum_probs=24.2
Q ss_pred cchhhhhhhcCChHHHHHHHHHhhcCC
Q psy16925 23 YSLALMVTRFSSRSAVTAHTKAVHLGE 49 (166)
Q Consensus 23 ~~C~~C~~~~~~~~~l~~H~~~~h~~~ 49 (166)
+.|+.|.+.|.+...+..|+...|.+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 679999999999999999999888764
No 175
>PRK05580 primosome assembly protein PriA; Validated
Probab=32.01 E-value=18 Score=30.15 Aligned_cols=45 Identities=24% Similarity=0.385 Sum_probs=22.3
Q ss_pred cCCcCCccccccccccCCCcCC---CchhHHHHhhhhcCCCCcccCccccc
Q psy16925 81 KCDICSKKSLKLSNVSCGWYPD---ESKDLKNHHNLHTGKRPYTCPWCSRT 128 (166)
Q Consensus 81 ~c~~C~~~~~~~~c~~c~~~f~---~~~~l~~H~~~h~~~~p~~C~~C~~~ 128 (166)
.|..|+... .|+.|+-.+. ....+.-|..-.....|..|+.||..
T Consensus 383 ~C~~Cg~~~---~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 383 LCRDCGWVA---ECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred EhhhCcCcc---CCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 566666554 4555654432 12222233333334456677777654
No 176
>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=31.45 E-value=24 Score=22.10 Aligned_cols=8 Identities=50% Similarity=1.394 Sum_probs=5.3
Q ss_pred cccCcccc
Q psy16925 120 YTCPWCSR 127 (166)
Q Consensus 120 ~~C~~C~~ 127 (166)
+.||.||.
T Consensus 87 ~~CP~Cgs 94 (115)
T TIGR00100 87 YRCPKCHG 94 (115)
T ss_pred ccCcCCcC
Confidence 56777764
No 177
>KOG1280|consensus
Probab=31.36 E-value=34 Score=25.96 Aligned_cols=37 Identities=11% Similarity=0.193 Sum_probs=26.2
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhcCCCC-eecccch
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHLGERP-FVCHECG 58 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~~~~~-~~C~~C~ 58 (166)
-|.|++|+..=-+...+..|+...|..-.+ ..|+.|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 488888888888888888888877764332 3455555
No 178
>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=31.34 E-value=26 Score=24.73 Aligned_cols=30 Identities=20% Similarity=0.127 Sum_probs=21.8
Q ss_pred CCCccchhhhhhhcCChHHHHHHHHHhhcC
Q psy16925 19 TLGKYSLALMVTRFSSRSAVTAHTKAVHLG 48 (166)
Q Consensus 19 ~~~~~~C~~C~~~~~~~~~l~~H~~~~h~~ 48 (166)
...+|.|..|.+.|.-..-...|+...|..
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 345699999999999999999998876653
No 179
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=30.84 E-value=27 Score=21.45 Aligned_cols=15 Identities=40% Similarity=1.008 Sum_probs=10.3
Q ss_pred CcccCcccccccCCh
Q psy16925 119 PYTCPWCSRTFANGS 133 (166)
Q Consensus 119 p~~C~~C~~~f~~~~ 133 (166)
|+.|..||..|...+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 567777777777643
No 180
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.51 E-value=12 Score=21.56 Aligned_cols=8 Identities=38% Similarity=0.846 Sum_probs=4.8
Q ss_pred ccCccccc
Q psy16925 121 TCPWCSRT 128 (166)
Q Consensus 121 ~C~~C~~~ 128 (166)
.|+.|+-.
T Consensus 35 ~ce~c~a~ 42 (82)
T COG2331 35 TCEECGAR 42 (82)
T ss_pred cChhhChH
Confidence 56666643
No 181
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=30.51 E-value=28 Score=21.29 Aligned_cols=10 Identities=20% Similarity=0.810 Sum_probs=5.4
Q ss_pred CCccCCcCCc
Q psy16925 78 APWKCDICSK 87 (166)
Q Consensus 78 ~~~~c~~C~~ 87 (166)
+.|.|+.|+.
T Consensus 21 k~FtCp~Cgh 30 (104)
T COG4888 21 KTFTCPRCGH 30 (104)
T ss_pred ceEecCccCC
Confidence 4455666554
No 182
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=30.48 E-value=47 Score=17.90 Aligned_cols=16 Identities=19% Similarity=0.457 Sum_probs=11.0
Q ss_pred CCCCcccCcccccccC
Q psy16925 116 GKRPYTCPWCSRTFAN 131 (166)
Q Consensus 116 ~~~p~~C~~C~~~f~~ 131 (166)
+...|.|+.||..+--
T Consensus 11 ~~v~~~Cp~cGipthc 26 (55)
T PF13824_consen 11 AHVNFECPDCGIPTHC 26 (55)
T ss_pred cccCCcCCCCCCcCcc
Confidence 3456899999876543
No 183
>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=29.69 E-value=16 Score=18.24 Aligned_cols=12 Identities=33% Similarity=1.256 Sum_probs=8.9
Q ss_pred CCcccCcccccc
Q psy16925 118 RPYTCPWCSRTF 129 (166)
Q Consensus 118 ~p~~C~~C~~~f 129 (166)
++..|+.|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 357888888776
No 184
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=29.45 E-value=29 Score=21.67 Aligned_cols=7 Identities=43% Similarity=1.303 Sum_probs=4.6
Q ss_pred cccCccc
Q psy16925 120 YTCPWCS 126 (166)
Q Consensus 120 ~~C~~C~ 126 (166)
+.||.||
T Consensus 87 ~~CP~Cg 93 (113)
T PRK12380 87 AQCPHCH 93 (113)
T ss_pred ccCcCCC
Confidence 4577776
No 185
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=29.29 E-value=14 Score=17.96 Aligned_cols=11 Identities=27% Similarity=0.326 Sum_probs=4.4
Q ss_pred HHHhhhhhhhh
Q psy16925 151 ESSLGKIFLYG 161 (166)
Q Consensus 151 c~~c~~~f~~~ 161 (166)
|+.|+|.|-|+
T Consensus 5 CprC~kg~Hwa 15 (36)
T PF14787_consen 5 CPRCGKGFHWA 15 (36)
T ss_dssp -TTTSSSCS-T
T ss_pred CcccCCCcchh
Confidence 44555554443
No 186
>PRK12387 formate hydrogenlyase complex iron-sulfur subunit; Provisional
Probab=28.48 E-value=39 Score=22.90 Aligned_cols=39 Identities=15% Similarity=0.113 Sum_probs=23.1
Q ss_pred CCcccCcccccccCChhhhhhh---hhhc------chhHHHHHHHhhh
Q psy16925 118 RPYTCPWCSRTFANGSNCRSHK---RRMH------PEELKLYESSLGK 156 (166)
Q Consensus 118 ~p~~C~~C~~~f~~~~~l~~H~---~~~h------~~~~~~~c~~c~~ 156 (166)
.++.|..||+.|.....+..-. ..+. ..+....|+.|.+
T Consensus 113 ~~~~C~~CG~~f~~~~~i~~~~~~l~~~~~~~~~~~~~~~~~C~~Cr~ 160 (180)
T PRK12387 113 ALCNCRVCGRPFAVQKEIDYAIALLKHNGDSRAENHRESFETCPECKR 160 (180)
T ss_pred CcccchhhCCccccHHHHHHHHHHHhhccchhHHHHHHHHhhCHHHhc
Confidence 4679999999998765443221 1110 1233455888876
No 187
>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=28.46 E-value=43 Score=22.12 Aligned_cols=12 Identities=17% Similarity=0.534 Sum_probs=5.8
Q ss_pred cCCcCCcccccc
Q psy16925 81 KCDICSKKSLKL 92 (166)
Q Consensus 81 ~c~~C~~~~~~~ 92 (166)
.|..|++.|.+.
T Consensus 30 eC~~C~~RFTTy 41 (147)
T TIGR00244 30 ECLECHERFTTF 41 (147)
T ss_pred cCCccCCcccee
Confidence 455555555443
No 188
>KOG4118|consensus
Probab=26.88 E-value=75 Score=17.76 Aligned_cols=26 Identities=8% Similarity=0.138 Sum_probs=15.2
Q ss_pred ccchhhhhhhcCChHHHHHHHHHhhc
Q psy16925 22 KYSLALMVTRFSSRSAVTAHTKAVHL 47 (166)
Q Consensus 22 ~~~C~~C~~~~~~~~~l~~H~~~~h~ 47 (166)
.|.|..|.-...+...+..|....|.
T Consensus 38 ~~kCtVC~~~mpdpktfkqhfe~kHp 63 (74)
T KOG4118|consen 38 HHKCTVCMVQMPDPKTFKQHFENKHP 63 (74)
T ss_pred HhhhHhhHhhCCCCchHHHHHhhcCC
Confidence 35666666666666666666554443
No 189
>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=26.85 E-value=26 Score=16.28 Aligned_cols=9 Identities=33% Similarity=0.925 Sum_probs=5.4
Q ss_pred CcccCcccc
Q psy16925 119 PYTCPWCSR 127 (166)
Q Consensus 119 p~~C~~C~~ 127 (166)
.+.|+.|+.
T Consensus 19 ~~vCp~C~~ 27 (30)
T PF08274_consen 19 LLVCPECGH 27 (30)
T ss_dssp SEEETTTTE
T ss_pred EEeCCcccc
Confidence 366666654
No 190
>COG1773 Rubredoxin [Energy production and conversion]
Probab=26.09 E-value=29 Score=18.70 Aligned_cols=16 Identities=13% Similarity=0.542 Sum_probs=12.1
Q ss_pred CcccCcccccccCChh
Q psy16925 119 PYTCPWCSRTFANGSN 134 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~ 134 (166)
.|+|..||..|.....
T Consensus 3 ~~~C~~CG~vYd~e~G 18 (55)
T COG1773 3 RWRCSVCGYVYDPEKG 18 (55)
T ss_pred ceEecCCceEeccccC
Confidence 4789999998875543
No 191
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=26.04 E-value=50 Score=21.93 Aligned_cols=12 Identities=17% Similarity=0.551 Sum_probs=6.6
Q ss_pred cCCcCCcccccc
Q psy16925 81 KCDICSKKSLKL 92 (166)
Q Consensus 81 ~c~~C~~~~~~~ 92 (166)
.|..|+..|.+.
T Consensus 30 eC~~C~~RFTTf 41 (156)
T COG1327 30 ECLECGERFTTF 41 (156)
T ss_pred cccccccccchh
Confidence 456666555543
No 192
>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=26.03 E-value=21 Score=18.89 Aligned_cols=23 Identities=26% Similarity=0.592 Sum_probs=11.6
Q ss_pred CcccCcccccccCChhhhhhhhh
Q psy16925 119 PYTCPWCSRTFANGSNCRSHKRR 141 (166)
Q Consensus 119 p~~C~~C~~~f~~~~~l~~H~~~ 141 (166)
.|+|+.|+..|-..-+.-.|...
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~L 43 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHETL 43 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTTS
T ss_pred eEECCCCCCccccCcChhhhccc
Confidence 47777777777666666666554
No 193
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=25.99 E-value=50 Score=25.91 Aligned_cols=14 Identities=14% Similarity=0.456 Sum_probs=10.2
Q ss_pred CcccCcccccccCC
Q psy16925 119 PYTCPWCSRTFANG 132 (166)
Q Consensus 119 p~~C~~C~~~f~~~ 132 (166)
-|+|+.||..+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 58888888776644
No 194
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=25.95 E-value=11 Score=18.77 Aligned_cols=10 Identities=30% Similarity=1.059 Sum_probs=6.7
Q ss_pred cccCcccccc
Q psy16925 120 YTCPWCSRTF 129 (166)
Q Consensus 120 ~~C~~C~~~f 129 (166)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 6777777654
No 195
>KOG0320|consensus
Probab=25.88 E-value=20 Score=24.39 Aligned_cols=14 Identities=21% Similarity=0.520 Sum_probs=8.8
Q ss_pred CCeecccchhhcCC
Q psy16925 50 RPFVCHECGQSFAS 63 (166)
Q Consensus 50 ~~~~C~~C~~~f~~ 63 (166)
..|.|++|...+..
T Consensus 130 ~~~~CPiCl~~~se 143 (187)
T KOG0320|consen 130 GTYKCPICLDSVSE 143 (187)
T ss_pred cccCCCceecchhh
Confidence 34777777766644
No 196
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=25.86 E-value=41 Score=24.30 Aligned_cols=12 Identities=33% Similarity=1.057 Sum_probs=7.0
Q ss_pred CCeecccchhhc
Q psy16925 50 RPFVCHECGQSF 61 (166)
Q Consensus 50 ~~~~C~~C~~~f 61 (166)
..|.|..|....
T Consensus 111 rqFaC~~Cd~~W 122 (278)
T PF15135_consen 111 RQFACSSCDHMW 122 (278)
T ss_pred eeeeccccchHH
Confidence 446677666443
No 197
>KOG2636|consensus
Probab=25.75 E-value=46 Score=26.23 Aligned_cols=28 Identities=21% Similarity=0.427 Sum_probs=22.6
Q ss_pred hhhcCCCCcccCccc-ccccCChhhhhhh
Q psy16925 112 NLHTGKRPYTCPWCS-RTFANGSNCRSHK 139 (166)
Q Consensus 112 ~~h~~~~p~~C~~C~-~~f~~~~~l~~H~ 139 (166)
+.|.-...|.|.+|| +++.-.-.+.+|.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHh
Confidence 346667789999999 8888888888885
No 198
>PRK05978 hypothetical protein; Provisional
Probab=24.97 E-value=53 Score=21.73 Aligned_cols=7 Identities=43% Similarity=1.341 Sum_probs=3.1
Q ss_pred ecccchh
Q psy16925 53 VCHECGQ 59 (166)
Q Consensus 53 ~C~~C~~ 59 (166)
+|+.|++
T Consensus 35 rCP~CG~ 41 (148)
T PRK05978 35 RCPACGE 41 (148)
T ss_pred cCCCCCC
Confidence 3444443
No 199
>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=24.54 E-value=26 Score=22.81 Aligned_cols=15 Identities=33% Similarity=0.869 Sum_probs=12.5
Q ss_pred CCCcccCcccccccC
Q psy16925 117 KRPYTCPWCSRTFAN 131 (166)
Q Consensus 117 ~~p~~C~~C~~~f~~ 131 (166)
.+|.+|++||..|..
T Consensus 110 g~~~RCpeCG~~fkL 124 (136)
T PF01215_consen 110 GKPQRCPECGQVFKL 124 (136)
T ss_dssp TSEEEETTTEEEEEE
T ss_pred CCccCCCCCCeEEEE
Confidence 458999999999864
No 200
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=24.03 E-value=30 Score=15.97 Aligned_cols=6 Identities=33% Similarity=1.542 Sum_probs=2.4
Q ss_pred CCcCCc
Q psy16925 82 CDICSK 87 (166)
Q Consensus 82 c~~C~~ 87 (166)
|.+|+.
T Consensus 5 C~vC~~ 10 (30)
T PF04438_consen 5 CSVCGN 10 (30)
T ss_dssp ETSSSS
T ss_pred CccCcC
Confidence 334443
No 201
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.93 E-value=36 Score=21.66 Aligned_cols=8 Identities=38% Similarity=1.161 Sum_probs=5.3
Q ss_pred cccCcccc
Q psy16925 120 YTCPWCSR 127 (166)
Q Consensus 120 ~~C~~C~~ 127 (166)
+.||.||.
T Consensus 93 ~~CP~Cgs 100 (124)
T PRK00762 93 IECPVCGN 100 (124)
T ss_pred CcCcCCCC
Confidence 46777773
No 202
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.92 E-value=43 Score=21.07 Aligned_cols=7 Identities=29% Similarity=0.885 Sum_probs=4.4
Q ss_pred ccCcccc
Q psy16925 121 TCPWCSR 127 (166)
Q Consensus 121 ~C~~C~~ 127 (166)
.||.||.
T Consensus 90 ~CP~Cgs 96 (117)
T PRK00564 90 VCEKCHS 96 (117)
T ss_pred cCcCCCC
Confidence 3777764
No 203
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=23.77 E-value=43 Score=23.85 Aligned_cols=16 Identities=25% Similarity=0.459 Sum_probs=13.1
Q ss_pred CCCCcccCcccccccC
Q psy16925 116 GKRPYTCPWCSRTFAN 131 (166)
Q Consensus 116 ~~~p~~C~~C~~~f~~ 131 (166)
..++.+|++||..|..
T Consensus 178 EGkpqRCpECGqVFKL 193 (268)
T PTZ00043 178 EGFLYRCGECDQIFML 193 (268)
T ss_pred CCCCccCCCCCcEEEE
Confidence 4558999999999874
No 204
>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=23.75 E-value=50 Score=15.70 Aligned_cols=20 Identities=35% Similarity=0.664 Sum_probs=11.5
Q ss_pred cccCcccccccCChhhhhhhh
Q psy16925 120 YTCPWCSRTFANGSNCRSHKR 140 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~l~~H~~ 140 (166)
+.|+.|++... .+.+..|+.
T Consensus 5 ~~C~nC~R~v~-a~RfA~HLe 24 (33)
T PF08209_consen 5 VECPNCGRPVA-ASRFAPHLE 24 (33)
T ss_dssp EE-TTTSSEEE-GGGHHHHHH
T ss_pred EECCCCcCCcc-hhhhHHHHH
Confidence 57777877654 344556654
No 205
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=23.64 E-value=29 Score=24.10 Aligned_cols=46 Identities=20% Similarity=0.432 Sum_probs=28.5
Q ss_pred CCCccCCcCCccccccccccCCCcCCCchhHHHHhhhhcCCCCcccCccccc
Q psy16925 77 DAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHNLHTGKRPYTCPWCSRT 128 (166)
Q Consensus 77 ~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~~h~~~~p~~C~~C~~~ 128 (166)
+.||.|..|-+.|....-..||-.|-..-....- .+.-.|.+||+.
T Consensus 194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y------~kg~~C~~Cgk~ 239 (259)
T COG5152 194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKY------QKGDECGVCGKA 239 (259)
T ss_pred CCceeehhchhhccchhhhhcchhHHHHHHHHHh------ccCCcceecchh
Confidence 4678888888888776666677666544332221 122467888775
No 206
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=23.08 E-value=38 Score=17.81 Aligned_cols=13 Identities=23% Similarity=0.779 Sum_probs=10.7
Q ss_pred cccCcccccccCC
Q psy16925 120 YTCPWCSRTFANG 132 (166)
Q Consensus 120 ~~C~~C~~~f~~~ 132 (166)
|+|..||+.|...
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 7899999988754
No 207
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.99 E-value=21 Score=19.66 Aligned_cols=18 Identities=17% Similarity=0.257 Sum_probs=11.4
Q ss_pred cCCCCCccchhhhhhhcC
Q psy16925 16 NASTLGKYSLALMVTRFS 33 (166)
Q Consensus 16 ~~~~~~~~~C~~C~~~~~ 33 (166)
+.+..+...|++|+..|+
T Consensus 42 ~mg~~gev~CPYC~t~y~ 59 (62)
T COG4391 42 DMGDEGEVVCPYCSTRYR 59 (62)
T ss_pred EcCCCCcEecCccccEEE
Confidence 345556677777776664
No 208
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=22.37 E-value=23 Score=19.16 Aligned_cols=13 Identities=23% Similarity=0.848 Sum_probs=7.3
Q ss_pred CCCeecccchhhc
Q psy16925 49 ERPFVCHECGQSF 61 (166)
Q Consensus 49 ~~~~~C~~C~~~f 61 (166)
-..|.|..|....
T Consensus 29 i~tYmC~eC~~RI 41 (56)
T PF09963_consen 29 IHTYMCDECKERI 41 (56)
T ss_pred CcceeChhHHHHH
Confidence 3346676666543
No 209
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=22.08 E-value=66 Score=19.69 Aligned_cols=12 Identities=25% Similarity=0.296 Sum_probs=6.6
Q ss_pred cccCcccccccC
Q psy16925 120 YTCPWCSRTFAN 131 (166)
Q Consensus 120 ~~C~~C~~~f~~ 131 (166)
..|+.||..+..
T Consensus 43 ~~C~~CG~y~~~ 54 (99)
T PRK14892 43 ITCGNCGLYTEF 54 (99)
T ss_pred EECCCCCCccCE
Confidence 456666655443
No 210
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=21.90 E-value=42 Score=16.68 Aligned_cols=6 Identities=50% Similarity=1.824 Sum_probs=1.6
Q ss_pred cccCcc
Q psy16925 120 YTCPWC 125 (166)
Q Consensus 120 ~~C~~C 125 (166)
+.|++|
T Consensus 37 ~~CP~C 42 (42)
T PF15227_consen 37 FSCPEC 42 (42)
T ss_dssp ---SSS
T ss_pred CCCcCC
Confidence 556554
No 211
>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=21.02 E-value=84 Score=20.93 Aligned_cols=30 Identities=23% Similarity=0.329 Sum_probs=15.8
Q ss_pred CCCccCCcCCccccccccccCCCcCCCchhHHHHhh
Q psy16925 77 DAPWKCDICSKKSLKLSNVSCGWYPDESKDLKNHHN 112 (166)
Q Consensus 77 ~~~~~c~~C~~~~~~~~c~~c~~~f~~~~~l~~H~~ 112 (166)
.-.-+|..|++.|.. |+.-...+.+..|+.
T Consensus 12 ~~vv~C~~c~kWFCN------g~~~~s~SHIv~HLv 41 (152)
T PF09416_consen 12 SCVVKCNTCNKWFCN------GRGNTSGSHIVNHLV 41 (152)
T ss_dssp CCEEEETTTTEEEES--------TTSSS-HHHHHHH
T ss_pred ccEeEcCCCCcEeec------CCCCCcccHHHHHHH
Confidence 344567777777732 222235666777753
No 212
>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=20.87 E-value=36 Score=17.64 Aligned_cols=15 Identities=27% Similarity=0.844 Sum_probs=11.6
Q ss_pred cccCcccccccCChh
Q psy16925 120 YTCPWCSRTFANGSN 134 (166)
Q Consensus 120 ~~C~~C~~~f~~~~~ 134 (166)
|+|..|+..+.....
T Consensus 2 y~C~~CgyvYd~~~G 16 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKG 16 (47)
T ss_dssp EEETTTSBEEETTTB
T ss_pred cCCCCCCEEEcCCcC
Confidence 789999988876544
No 213
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.75 E-value=18 Score=25.74 Aligned_cols=29 Identities=17% Similarity=0.472 Sum_probs=19.3
Q ss_pred CCCeecccchhhcCChHHHHHHHhHcCCC
Q psy16925 49 ERPFVCHECGQSFASKGILQEHLTIHSDD 77 (166)
Q Consensus 49 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~ 77 (166)
++...|++|+..|..+.-+..-+++-.++
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiagD 45 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAGD 45 (267)
T ss_pred hceeccCcccchhhhhheeccceeEeccc
Confidence 55678999998887766555555554443
No 214
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=20.69 E-value=43 Score=15.85 Aligned_cols=11 Identities=27% Similarity=0.918 Sum_probs=7.5
Q ss_pred cccCccccccc
Q psy16925 120 YTCPWCSRTFA 130 (166)
Q Consensus 120 ~~C~~C~~~f~ 130 (166)
+.|..|+.+|.
T Consensus 22 ~~C~~Cg~~~~ 32 (33)
T PF08792_consen 22 EVCIFCGSSFP 32 (33)
T ss_pred EEcccCCcEee
Confidence 56777777664
Done!