Query psy17050
Match_columns 295
No_of_seqs 352 out of 2969
Neff 9.8
Searched_HMMs 46136
Date Fri Aug 16 20:33:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17050.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17050hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 9.2E-31 2E-35 210.9 6.4 139 22-170 127-265 (279)
2 KOG2462|consensus 99.9 8.6E-29 1.9E-33 199.5 4.7 139 55-204 127-268 (279)
3 KOG1074|consensus 99.9 5.8E-24 1.3E-28 193.2 3.9 115 87-203 606-733 (958)
4 KOG3608|consensus 99.9 2.4E-22 5.1E-27 166.5 5.5 172 21-204 203-377 (467)
5 KOG3623|consensus 99.8 7.1E-22 1.5E-26 177.1 5.1 81 114-203 894-974 (1007)
6 KOG3608|consensus 99.8 4.5E-21 9.7E-26 159.0 6.4 164 26-205 178-347 (467)
7 KOG1074|consensus 99.8 5E-21 1.1E-25 174.3 2.2 85 115-205 606-694 (958)
8 KOG3576|consensus 99.8 2.6E-20 5.6E-25 143.3 3.3 122 55-176 114-240 (267)
9 KOG3576|consensus 99.8 1.9E-19 4.1E-24 138.6 5.3 123 12-139 104-237 (267)
10 KOG3623|consensus 99.6 4.6E-16 1E-20 140.2 3.4 112 23-137 208-332 (1007)
11 PLN03086 PRLI-interacting fact 99.4 2.3E-12 5E-17 117.0 9.3 144 23-199 405-560 (567)
12 PLN03086 PRLI-interacting fact 99.4 9E-13 1.9E-17 119.6 6.2 120 26-173 434-565 (567)
13 PHA00733 hypothetical protein 99.2 2E-11 4.3E-16 91.0 4.7 83 55-139 37-124 (128)
14 PHA00733 hypothetical protein 99.1 4.9E-11 1.1E-15 88.9 4.9 96 70-173 24-124 (128)
15 KOG3993|consensus 99.1 1.7E-11 3.8E-16 104.8 -1.1 175 25-207 267-486 (500)
16 KOG3993|consensus 99.0 7.1E-11 1.5E-15 101.1 -0.8 145 59-207 268-458 (500)
17 PHA02768 hypothetical protein; 98.8 1.9E-09 4E-14 66.4 2.0 38 59-98 6-43 (55)
18 PHA02768 hypothetical protein; 98.8 2E-09 4.4E-14 66.2 1.3 41 115-163 6-46 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.5 4.9E-08 1.1E-12 51.3 2.0 24 74-97 2-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 5.6E-08 1.2E-12 51.1 1.6 24 102-125 2-25 (26)
21 PHA00616 hypothetical protein 98.4 1.9E-07 4.2E-12 54.7 1.8 33 59-91 2-34 (44)
22 PF05605 zf-Di19: Drought indu 98.4 6.5E-07 1.4E-11 56.2 4.4 51 115-172 3-53 (54)
23 PHA00732 hypothetical protein 98.3 4.1E-07 9E-12 61.5 2.4 22 115-136 2-23 (79)
24 PF05605 zf-Di19: Drought indu 98.3 1.6E-06 3.5E-11 54.4 4.5 52 25-82 2-53 (54)
25 PHA00732 hypothetical protein 98.3 6.6E-07 1.4E-11 60.5 2.7 47 25-81 1-47 (79)
26 PHA00616 hypothetical protein 98.3 5.6E-07 1.2E-11 52.7 1.9 24 115-138 2-25 (44)
27 COG5189 SFP1 Putative transcri 98.0 1.5E-06 3.2E-11 72.3 0.7 58 112-169 347-419 (423)
28 KOG2231|consensus 97.9 2.1E-05 4.5E-10 73.1 6.7 91 37-138 126-236 (669)
29 PF00096 zf-C2H2: Zinc finger, 97.9 8.5E-06 1.8E-10 41.4 2.1 22 149-170 1-22 (23)
30 PF12756 zf-C2H2_2: C2H2 type 97.9 1.1E-05 2.4E-10 57.6 2.8 73 88-171 1-73 (100)
31 PF00096 zf-C2H2: Zinc finger, 97.8 1.1E-05 2.4E-10 41.0 1.9 22 26-47 1-22 (23)
32 PF12756 zf-C2H2_2: C2H2 type 97.8 1.5E-05 3.3E-10 56.9 2.2 24 114-137 50-73 (100)
33 PF13894 zf-C2H2_4: C2H2-type 97.7 2.7E-05 5.8E-10 39.8 2.4 23 149-171 1-23 (24)
34 COG5189 SFP1 Putative transcri 97.7 7.7E-06 1.7E-10 68.2 -0.1 53 84-136 347-420 (423)
35 PF13894 zf-C2H2_4: C2H2-type 97.7 3.3E-05 7.2E-10 39.4 2.2 23 26-48 1-23 (24)
36 KOG2231|consensus 97.7 8.7E-05 1.9E-09 69.1 6.3 100 61-173 118-237 (669)
37 COG5236 Uncharacterized conser 97.6 0.0001 2.2E-09 62.4 4.5 130 25-175 151-308 (493)
38 PF13912 zf-C2H2_6: C2H2-type 97.5 5.9E-05 1.3E-09 39.9 2.0 25 148-172 1-25 (27)
39 PF13912 zf-C2H2_6: C2H2-type 97.4 7.8E-05 1.7E-09 39.4 1.7 25 25-49 1-25 (27)
40 KOG1146|consensus 97.4 0.00019 4E-09 70.8 5.2 115 23-137 463-641 (1406)
41 PF09237 GAGA: GAGA factor; I 97.1 0.00031 6.7E-09 42.1 1.7 20 60-79 26-45 (54)
42 KOG2482|consensus 97.0 0.0014 3E-08 55.6 5.1 55 149-203 280-358 (423)
43 PF09237 GAGA: GAGA factor; I 96.9 0.00091 2E-08 40.2 2.5 28 85-112 23-50 (54)
44 KOG4173|consensus 96.9 0.00061 1.3E-08 53.5 2.3 85 86-173 79-171 (253)
45 smart00355 ZnF_C2H2 zinc finge 96.8 0.00094 2E-08 34.4 2.2 24 149-172 1-24 (26)
46 COG5236 Uncharacterized conser 96.8 0.0012 2.5E-08 56.1 3.3 129 59-201 152-303 (493)
47 PF13909 zf-H2C2_5: C2H2-type 96.8 0.0011 2.4E-08 33.8 2.1 23 149-172 1-23 (24)
48 smart00355 ZnF_C2H2 zinc finge 96.7 0.0014 3.1E-08 33.7 2.3 22 60-81 2-23 (26)
49 PF12874 zf-met: Zinc-finger o 96.6 0.0013 2.7E-08 33.9 1.5 21 26-46 1-21 (25)
50 KOG2482|consensus 96.6 0.0037 8E-08 53.1 5.0 145 24-171 143-357 (423)
51 PF12874 zf-met: Zinc-finger o 96.6 0.0017 3.8E-08 33.4 1.8 22 149-170 1-22 (25)
52 PF13909 zf-H2C2_5: C2H2-type 96.5 0.002 4.4E-08 32.8 2.0 9 27-35 2-10 (24)
53 KOG2785|consensus 96.5 0.0083 1.8E-07 52.0 6.6 56 25-80 3-90 (390)
54 KOG2785|consensus 96.2 0.01 2.2E-07 51.4 5.4 56 115-170 167-242 (390)
55 COG5048 FOG: Zn-finger [Genera 96.0 0.0015 3.2E-08 59.3 -0.4 60 58-117 289-354 (467)
56 PRK04860 hypothetical protein; 96.0 0.0032 6.9E-08 48.8 1.4 37 86-126 119-155 (160)
57 COG5048 FOG: Zn-finger [Genera 96.0 0.0014 3.1E-08 59.4 -0.8 142 24-174 288-444 (467)
58 KOG1146|consensus 95.9 0.0023 4.9E-08 63.6 0.3 79 92-170 442-540 (1406)
59 PRK04860 hypothetical protein; 95.7 0.0054 1.2E-07 47.5 1.5 39 113-161 118-156 (160)
60 PF12171 zf-C2H2_jaz: Zinc-fin 95.7 0.0031 6.7E-08 33.2 0.1 22 149-170 2-23 (27)
61 PF12171 zf-C2H2_jaz: Zinc-fin 95.6 0.0027 5.9E-08 33.4 -0.3 21 26-46 2-22 (27)
62 TIGR00622 ssl1 transcription f 95.4 0.037 8E-07 39.8 4.8 49 116-172 57-105 (112)
63 KOG2893|consensus 94.9 0.0069 1.5E-07 48.9 -0.2 42 27-77 12-53 (341)
64 KOG2893|consensus 94.8 0.0054 1.2E-07 49.5 -0.8 47 113-170 10-56 (341)
65 KOG4173|consensus 94.4 0.028 6E-07 44.5 2.2 79 57-138 78-170 (253)
66 PF13913 zf-C2HC_2: zinc-finge 93.9 0.053 1.2E-06 27.8 2.0 19 60-79 4-22 (25)
67 PF13913 zf-C2HC_2: zinc-finge 93.9 0.059 1.3E-06 27.7 2.1 20 149-169 3-22 (25)
68 smart00451 ZnF_U1 U1-like zinc 93.5 0.057 1.2E-06 30.1 1.8 23 25-47 3-25 (35)
69 PF12013 DUF3505: Protein of u 93.4 0.14 3.1E-06 37.0 4.2 26 148-173 80-109 (109)
70 smart00451 ZnF_U1 U1-like zinc 93.1 0.096 2.1E-06 29.1 2.3 23 148-170 3-25 (35)
71 TIGR00622 ssl1 transcription f 92.8 0.13 2.8E-06 37.0 3.1 24 114-137 81-104 (112)
72 COG4049 Uncharacterized protei 92.7 0.075 1.6E-06 32.6 1.5 29 21-49 13-41 (65)
73 PF12013 DUF3505: Protein of u 92.0 0.27 6E-06 35.5 4.2 25 114-138 80-108 (109)
74 cd00350 rubredoxin_like Rubred 91.6 0.082 1.8E-06 29.2 0.8 9 60-68 3-11 (33)
75 COG4049 Uncharacterized protei 90.7 0.13 2.7E-06 31.6 1.0 29 145-173 14-42 (65)
76 KOG2186|consensus 89.2 0.21 4.5E-06 41.0 1.5 49 26-82 4-52 (276)
77 KOG2186|consensus 88.8 0.26 5.7E-06 40.5 1.8 49 58-109 3-51 (276)
78 KOG4124|consensus 88.3 0.049 1.1E-06 46.6 -2.7 58 112-169 347-419 (442)
79 TIGR02098 MJ0042_CXXC MJ0042 f 86.1 0.28 6E-06 27.9 0.4 34 26-69 3-36 (38)
80 PF09538 FYDLN_acid: Protein o 86.0 0.68 1.5E-05 33.3 2.4 13 86-98 26-38 (108)
81 KOG4124|consensus 85.8 0.1 2.3E-06 44.7 -2.1 61 145-205 346-424 (442)
82 PF09538 FYDLN_acid: Protein o 85.7 0.4 8.7E-06 34.5 1.1 30 115-161 10-39 (108)
83 COG5151 SSL1 RNA polymerase II 84.9 1 2.2E-05 38.3 3.2 93 57-171 307-411 (421)
84 KOG4167|consensus 84.6 0.69 1.5E-05 43.9 2.4 30 20-49 787-816 (907)
85 cd00729 rubredoxin_SM Rubredox 83.7 0.48 1E-05 26.3 0.6 10 87-96 3-12 (34)
86 PF13717 zinc_ribbon_4: zinc-r 83.1 0.61 1.3E-05 26.3 0.9 33 26-68 3-35 (36)
87 PF09986 DUF2225: Uncharacteri 82.7 0.21 4.6E-06 40.9 -1.6 13 115-127 49-61 (214)
88 PF13719 zinc_ribbon_5: zinc-r 81.2 0.74 1.6E-05 26.1 0.8 34 26-69 3-36 (37)
89 PF05443 ROS_MUCR: ROS/MUCR tr 80.7 1.7 3.6E-05 32.6 2.7 29 21-52 68-96 (132)
90 COG2888 Predicted Zn-ribbon RN 80.0 2.1 4.5E-05 26.9 2.5 8 86-93 50-57 (61)
91 PF15269 zf-C2H2_7: Zinc-finge 79.5 4.7 0.0001 23.6 3.7 30 19-48 14-43 (54)
92 PF09986 DUF2225: Uncharacteri 78.4 0.31 6.8E-06 39.9 -1.9 47 146-192 3-61 (214)
93 smart00531 TFIIE Transcription 78.2 1.7 3.6E-05 33.4 2.1 39 55-97 96-134 (147)
94 KOG2807|consensus 78.2 4.5 9.7E-05 34.8 4.8 27 145-171 342-368 (378)
95 PF02892 zf-BED: BED zinc fing 78.0 2.5 5.4E-05 24.9 2.4 25 145-169 13-41 (45)
96 KOG2807|consensus 77.8 3.4 7.4E-05 35.5 3.9 26 113-138 344-369 (378)
97 TIGR00373 conserved hypothetic 75.7 2.4 5.1E-05 33.0 2.4 17 86-102 109-125 (158)
98 COG1592 Rubrerythrin [Energy p 75.7 1.4 3.1E-05 34.3 1.1 23 86-121 134-156 (166)
99 PF06524 NOA36: NOA36 protein; 75.7 1.1 2.4E-05 37.1 0.5 38 132-171 195-232 (314)
100 TIGR02300 FYDLN_acid conserved 74.1 1.6 3.6E-05 32.0 1.1 30 115-161 10-39 (129)
101 PF05290 Baculo_IE-1: Baculovi 73.7 1.6 3.4E-05 32.4 0.9 18 83-100 77-94 (140)
102 PRK00398 rpoP DNA-directed RNA 73.4 2.4 5.1E-05 25.2 1.5 11 25-35 3-13 (46)
103 COG2331 Uncharacterized protei 72.6 1.5 3.3E-05 28.9 0.5 33 24-68 11-43 (82)
104 COG1198 PriA Primosomal protei 72.4 1.8 4E-05 42.0 1.2 9 60-68 437-445 (730)
105 KOG4377|consensus 72.1 1.5 3.3E-05 38.7 0.6 26 184-209 408-433 (480)
106 PRK00464 nrdR transcriptional 71.7 0.66 1.4E-05 35.8 -1.5 16 149-164 29-44 (154)
107 COG5151 SSL1 RNA polymerase II 71.2 3.8 8.2E-05 34.9 2.7 79 57-138 321-412 (421)
108 COG1592 Rubrerythrin [Energy p 71.2 2.5 5.4E-05 32.9 1.5 26 56-94 132-157 (166)
109 PRK14890 putative Zn-ribbon RN 70.7 5.4 0.00012 25.1 2.6 10 85-94 47-56 (59)
110 PRK06266 transcription initiat 70.6 3.2 6.9E-05 32.9 2.1 15 114-128 117-131 (178)
111 smart00614 ZnF_BED BED zinc fi 70.1 4 8.6E-05 24.7 2.0 22 148-169 18-44 (50)
112 PF04959 ARS2: Arsenite-resist 70.0 3.7 8.1E-05 33.5 2.4 30 145-174 74-103 (214)
113 smart00734 ZnF_Rad18 Rad18-lik 69.6 4.6 9.9E-05 20.8 1.8 19 150-169 3-21 (26)
114 PF15269 zf-C2H2_7: Zinc-finge 69.1 3.9 8.5E-05 23.9 1.6 25 147-171 19-43 (54)
115 smart00531 TFIIE Transcription 69.1 6.1 0.00013 30.2 3.3 12 86-97 99-110 (147)
116 PF01927 Mut7-C: Mut7-C RNAse 68.8 2.9 6.4E-05 32.0 1.5 12 87-98 125-136 (147)
117 KOG2272|consensus 68.7 2 4.3E-05 35.4 0.5 74 24-99 98-176 (332)
118 TIGR00373 conserved hypothetic 68.5 2.8 6.2E-05 32.5 1.3 34 55-97 106-139 (158)
119 smart00659 RPOLCX RNA polymera 68.5 2.7 5.9E-05 24.8 1.0 10 26-35 3-12 (44)
120 TIGR02605 CxxC_CxxC_SSSS putat 67.6 1.2 2.6E-05 27.3 -0.8 10 26-35 6-15 (52)
121 COG4957 Predicted transcriptio 66.8 11 0.00025 27.9 4.0 28 22-52 73-100 (148)
122 smart00834 CxxC_CXXC_SSSS Puta 65.6 1.3 2.8E-05 25.5 -0.9 10 26-35 6-15 (41)
123 PRK06266 transcription initiat 65.6 3.4 7.3E-05 32.8 1.2 17 85-101 116-132 (178)
124 cd00730 rubredoxin Rubredoxin; 64.4 1.2 2.6E-05 27.2 -1.1 11 26-36 2-12 (50)
125 COG5188 PRP9 Splicing factor 3 63.2 6.1 0.00013 34.4 2.4 25 146-170 372-397 (470)
126 PF02176 zf-TRAF: TRAF-type zi 62.5 2.7 5.8E-05 26.4 0.2 19 73-91 25-43 (60)
127 PF05443 ROS_MUCR: ROS/MUCR tr 62.2 5.8 0.00012 29.7 1.9 28 146-176 70-97 (132)
128 PF14353 CpXC: CpXC protein 62.1 6.1 0.00013 29.3 2.1 14 148-161 38-51 (128)
129 KOG2593|consensus 60.6 5 0.00011 36.0 1.5 39 55-96 125-163 (436)
130 COG1997 RPL43A Ribosomal prote 60.5 3.5 7.7E-05 28.1 0.4 13 147-159 52-64 (89)
131 PF06524 NOA36: NOA36 protein; 60.4 2.5 5.5E-05 35.0 -0.3 27 111-137 206-232 (314)
132 PF04959 ARS2: Arsenite-resist 60.2 5.1 0.00011 32.7 1.4 28 111-138 74-101 (214)
133 KOG2593|consensus 58.3 8.4 0.00018 34.6 2.5 39 111-158 125-163 (436)
134 TIGR01206 lysW lysine biosynth 57.5 6.7 0.00014 24.3 1.3 10 26-35 3-12 (54)
135 PRK04023 DNA polymerase II lar 57.5 8.2 0.00018 38.6 2.5 9 115-123 664-672 (1121)
136 COG1996 RPC10 DNA-directed RNA 56.3 7 0.00015 23.7 1.2 13 146-158 4-16 (49)
137 KOG4167|consensus 55.8 3.8 8.3E-05 39.1 0.0 26 85-110 791-816 (907)
138 COG5188 PRP9 Splicing factor 3 55.2 10 0.00022 33.1 2.4 23 178-200 373-396 (470)
139 PF10571 UPF0547: Uncharacteri 54.5 6.7 0.00014 20.2 0.8 8 151-158 17-24 (26)
140 PF13878 zf-C2H2_3: zinc-finge 52.9 16 0.00034 21.2 2.3 23 59-81 14-38 (41)
141 PRK04023 DNA polymerase II lar 52.3 12 0.00026 37.6 2.6 51 57-160 625-675 (1121)
142 PF08274 PhnA_Zn_Ribbon: PhnA 51.9 7.3 0.00016 20.9 0.7 10 146-155 17-26 (30)
143 PF05570 DUF765: Circovirus pr 50.3 10 0.00022 19.2 1.0 22 1-22 1-22 (29)
144 PF03604 DNA_RNApol_7kD: DNA d 49.7 5.6 0.00012 21.7 0.1 9 60-68 2-10 (32)
145 COG3357 Predicted transcriptio 49.4 8.4 0.00018 26.5 0.9 14 85-98 57-70 (97)
146 PRK14714 DNA polymerase II lar 48.6 16 0.00034 37.7 2.9 9 87-95 693-701 (1337)
147 KOG3408|consensus 47.9 18 0.00039 26.4 2.3 27 21-47 53-79 (129)
148 PF12760 Zn_Tnp_IS1595: Transp 47.1 14 0.00029 21.9 1.5 7 59-65 19-25 (46)
149 KOG3408|consensus 46.2 15 0.00033 26.8 1.8 26 112-137 55-80 (129)
150 COG4957 Predicted transcriptio 45.8 17 0.00036 27.1 2.0 25 149-176 77-101 (148)
151 PF12907 zf-met2: Zinc-binding 45.7 21 0.00046 20.6 2.0 24 26-49 2-28 (40)
152 COG1656 Uncharacterized conser 45.6 14 0.00031 28.6 1.7 16 58-73 130-145 (165)
153 PF13821 DUF4187: Domain of un 45.0 27 0.00059 21.7 2.6 30 128-167 17-46 (55)
154 PTZ00064 histone acetyltransfe 44.9 26 0.00056 32.4 3.4 42 21-62 276-317 (552)
155 PF07754 DUF1610: Domain of un 43.0 18 0.00039 18.3 1.3 8 25-32 16-23 (24)
156 PLN03238 probable histone acet 42.8 30 0.00064 29.6 3.3 39 22-60 45-83 (290)
157 PHA00626 hypothetical protein 42.7 15 0.00034 22.7 1.2 15 146-160 21-35 (59)
158 PRK03824 hypA hydrogenase nick 42.3 7.7 0.00017 29.2 -0.2 12 58-69 70-81 (135)
159 KOG4377|consensus 41.9 8.8 0.00019 34.2 0.1 112 55-173 268-428 (480)
160 COG1655 Uncharacterized protei 41.3 5.6 0.00012 32.5 -1.1 15 57-71 18-32 (267)
161 COG4530 Uncharacterized protei 41.2 14 0.00031 26.3 1.0 14 145-158 23-36 (129)
162 PF01780 Ribosomal_L37ae: Ribo 41.1 5.5 0.00012 27.5 -1.0 32 57-98 34-65 (90)
163 PLN00104 MYST -like histone ac 40.9 29 0.00063 31.7 3.1 41 23-63 196-236 (450)
164 COG1571 Predicted DNA-binding 40.7 14 0.00031 33.3 1.2 17 146-162 365-381 (421)
165 PF07975 C1_4: TFIIH C1-like d 39.7 7.4 0.00016 23.8 -0.5 26 23-48 19-44 (51)
166 PF09332 Mcm10: Mcm10 replicat 39.4 3.8 8.2E-05 36.0 -2.5 13 26-38 253-265 (344)
167 smart00154 ZnF_AN1 AN1-like Zi 38.2 15 0.00032 21.0 0.6 13 25-37 12-24 (39)
168 PF04780 DUF629: Protein of un 38.0 22 0.00049 32.6 2.0 28 113-140 56-83 (466)
169 PF09723 Zn-ribbon_8: Zinc rib 37.4 14 0.00029 21.5 0.4 13 25-37 5-17 (42)
170 PF15135 UPF0515: Uncharacteri 37.3 23 0.00049 29.5 1.7 12 114-125 155-166 (278)
171 COG0068 HypF Hydrogenase matur 37.1 5.6 0.00012 38.1 -1.9 59 88-158 125-183 (750)
172 PRK12380 hydrogenase nickel in 37.1 19 0.0004 26.2 1.1 11 59-69 71-81 (113)
173 KOG1280|consensus 37.0 30 0.00064 30.3 2.5 28 113-140 78-105 (381)
174 PF14446 Prok-RING_1: Prokaryo 36.3 11 0.00023 23.4 -0.2 9 61-69 8-16 (54)
175 PLN03239 histone acetyltransfe 35.1 39 0.00085 29.8 2.9 40 23-62 104-146 (351)
176 PTZ00255 60S ribosomal protein 35.0 13 0.00028 25.7 0.0 32 57-98 35-66 (90)
177 PF13453 zf-TFIIB: Transcripti 34.9 15 0.00033 21.1 0.3 7 61-67 22-28 (41)
178 KOG0717|consensus 33.8 24 0.00052 32.2 1.5 22 26-47 293-314 (508)
179 PF01363 FYVE: FYVE zinc finge 33.8 19 0.0004 23.3 0.6 29 58-98 9-37 (69)
180 TIGR00280 L37a ribosomal prote 33.2 13 0.00028 25.8 -0.2 32 57-98 34-65 (91)
181 PF04216 FdhE: Protein involve 33.0 1.9 4.1E-05 37.2 -5.4 13 84-96 195-207 (290)
182 PRK14559 putative protein seri 32.5 36 0.00079 32.9 2.6 12 116-127 43-54 (645)
183 COG1571 Predicted DNA-binding 32.5 22 0.00047 32.2 1.0 31 150-194 352-382 (421)
184 COG3091 SprT Zn-dependent meta 32.2 20 0.00043 27.4 0.6 36 22-67 114-149 (156)
185 COG4888 Uncharacterized Zn rib 32.2 8.9 0.00019 26.9 -1.1 40 21-69 18-57 (104)
186 PF08271 TF_Zn_Ribbon: TFIIB z 31.9 21 0.00046 20.7 0.6 10 58-67 19-28 (43)
187 TIGR00515 accD acetyl-CoA carb 31.6 25 0.00055 30.2 1.2 11 59-69 46-56 (285)
188 KOG2747|consensus 31.5 46 0.001 29.9 2.8 37 23-59 156-192 (396)
189 KOG1280|consensus 31.1 42 0.00092 29.4 2.5 41 145-186 76-116 (381)
190 COG1198 PriA Primosomal protei 30.8 12 0.00026 36.6 -0.9 11 57-67 443-453 (730)
191 PRK03564 formate dehydrogenase 30.7 15 0.00033 31.8 -0.2 15 146-160 250-264 (309)
192 TIGR00100 hypA hydrogenase nic 30.2 20 0.00044 26.1 0.4 11 59-69 71-81 (115)
193 PF07649 C1_3: C1-like domain; 30.1 24 0.00051 18.6 0.5 10 57-66 14-23 (30)
194 PF04780 DUF629: Protein of un 29.9 41 0.00088 31.0 2.3 26 148-173 57-82 (466)
195 KOG2636|consensus 29.8 36 0.00078 30.9 1.9 46 18-74 242-287 (497)
196 KOG1842|consensus 29.7 29 0.00063 31.4 1.3 26 148-173 15-40 (505)
197 PF10276 zf-CHCC: Zinc-finger 29.7 23 0.00049 20.4 0.4 11 25-35 29-39 (40)
198 PF03107 C1_2: C1 domain; Int 29.3 32 0.0007 18.2 1.0 8 58-65 15-22 (30)
199 PRK00564 hypA hydrogenase nick 29.2 30 0.00065 25.3 1.2 11 59-69 72-82 (117)
200 KOG2907|consensus 29.0 37 0.0008 24.5 1.5 13 58-70 102-114 (116)
201 PF07282 OrfB_Zn_ribbon: Putat 29.0 27 0.00058 22.5 0.8 9 87-95 47-55 (69)
202 COG1773 Rubredoxin [Energy pro 28.8 23 0.0005 22.0 0.4 12 25-36 3-14 (55)
203 PF05495 zf-CHY: CHY zinc fing 28.6 6.1 0.00013 26.0 -2.4 7 115-121 62-68 (71)
204 PRK14873 primosome assembly pr 28.3 26 0.00057 34.1 0.9 44 60-123 385-431 (665)
205 PF08790 zf-LYAR: LYAR-type C2 28.1 9.6 0.00021 20.1 -1.2 18 149-167 1-18 (28)
206 TIGR01562 FdhE formate dehydro 28.0 22 0.00049 30.8 0.3 16 145-160 249-264 (305)
207 PF14311 DUF4379: Domain of un 27.8 34 0.00073 21.0 1.0 12 59-70 29-40 (55)
208 KOG4727|consensus 27.4 48 0.001 25.9 2.0 26 21-46 71-96 (193)
209 PF01428 zf-AN1: AN1-like Zinc 27.3 22 0.00048 20.7 0.1 14 24-37 12-25 (43)
210 CHL00174 accD acetyl-CoA carbo 27.2 32 0.00068 29.7 1.1 34 55-97 35-68 (296)
211 PRK03976 rpl37ae 50S ribosomal 27.2 17 0.00038 25.1 -0.4 32 57-98 35-66 (90)
212 cd00065 FYVE FYVE domain; Zinc 26.9 40 0.00087 20.6 1.3 9 61-69 5-13 (57)
213 cd00924 Cyt_c_Oxidase_Vb Cytoc 26.6 30 0.00065 24.4 0.7 13 24-36 78-90 (97)
214 COG5112 UFD2 U1-like Zn-finger 26.6 52 0.0011 23.4 1.9 24 23-46 53-76 (126)
215 PF03833 PolC_DP2: DNA polymer 26.5 22 0.00047 35.1 0.0 11 57-67 654-664 (900)
216 PF08209 Sgf11: Sgf11 (transcr 26.3 34 0.00073 18.8 0.7 24 24-48 3-26 (33)
217 PRK05452 anaerobic nitric oxid 26.3 19 0.00041 33.5 -0.4 18 20-37 420-437 (479)
218 KOG1994|consensus 26.0 64 0.0014 26.5 2.5 21 147-167 238-258 (268)
219 PLN02294 cytochrome c oxidase 25.8 31 0.00067 26.9 0.7 14 23-36 139-152 (174)
220 PF13824 zf-Mss51: Zinc-finger 25.3 47 0.001 20.7 1.3 12 57-68 13-24 (55)
221 PF06397 Desulfoferrod_N: Desu 25.2 30 0.00065 19.4 0.4 13 23-35 4-16 (36)
222 PF13451 zf-trcl: Probable zin 25.1 33 0.00071 20.8 0.6 12 24-35 3-14 (49)
223 smart00661 RPOL9 RNA polymeras 24.9 34 0.00075 20.5 0.7 8 87-94 21-28 (52)
224 KOG0696|consensus 24.7 20 0.00044 32.5 -0.5 35 87-121 93-128 (683)
225 KOG1842|consensus 24.6 53 0.0011 29.9 2.0 27 114-140 15-41 (505)
226 PRK03681 hypA hydrogenase nick 24.5 43 0.00093 24.3 1.2 11 59-69 71-81 (114)
227 PF00301 Rubredoxin: Rubredoxi 23.8 37 0.00079 20.4 0.6 40 148-188 1-43 (47)
228 PTZ00448 hypothetical protein; 23.6 52 0.0011 29.2 1.8 24 25-48 314-337 (373)
229 PRK00432 30S ribosomal protein 23.6 30 0.00065 21.0 0.2 11 86-96 37-47 (50)
230 smart00440 ZnF_C2C2 C2C2 Zinc 23.4 7.4 0.00016 22.4 -2.4 8 149-156 29-36 (40)
231 KOG2071|consensus 23.4 50 0.0011 31.2 1.7 30 145-174 415-444 (579)
232 KOG0717|consensus 23.4 76 0.0017 29.1 2.8 25 24-48 459-483 (508)
233 PRK05654 acetyl-CoA carboxylas 23.2 39 0.00085 29.2 0.9 14 59-72 47-60 (292)
234 smart00064 FYVE Protein presen 22.5 61 0.0013 20.7 1.6 10 60-69 12-21 (68)
235 PRK10220 hypothetical protein; 22.0 52 0.0011 23.6 1.2 12 148-159 20-31 (111)
236 PF01155 HypA: Hydrogenase exp 22.0 28 0.0006 25.3 -0.2 10 60-69 72-81 (113)
237 TIGR00686 phnA alkylphosphonat 21.8 39 0.00086 24.2 0.6 10 149-158 20-29 (109)
238 PF10537 WAC_Acf1_DNA_bd: ATP- 21.7 1.1E+02 0.0024 21.7 2.9 38 24-67 2-39 (102)
239 KOG1729|consensus 21.4 53 0.0012 28.2 1.4 10 57-66 167-176 (288)
240 KOG1994|consensus 21.4 50 0.0011 27.1 1.1 20 58-77 239-258 (268)
241 COG4391 Uncharacterized protei 21.2 55 0.0012 20.8 1.0 13 57-69 47-59 (62)
242 KOG4317|consensus 21.1 23 0.0005 30.5 -0.8 19 59-77 20-38 (383)
243 KOG0782|consensus 21.0 25 0.00055 32.9 -0.7 52 100-162 239-290 (1004)
244 KOG0782|consensus 20.6 17 0.00038 33.9 -1.8 50 73-128 240-290 (1004)
245 KOG2071|consensus 20.5 55 0.0012 30.9 1.4 15 146-160 511-525 (579)
246 PF11789 zf-Nse: Zinc-finger o 20.5 65 0.0014 20.1 1.3 11 25-35 24-34 (57)
247 COG1327 Predicted transcriptio 20.4 21 0.00045 27.3 -1.1 11 88-98 30-40 (156)
248 PF04423 Rad50_zn_hook: Rad50 20.2 40 0.00087 20.6 0.3 19 150-168 22-42 (54)
No 1
>KOG2462|consensus
Probab=99.96 E-value=9.2e-31 Score=210.90 Aligned_cols=139 Identities=35% Similarity=0.685 Sum_probs=125.6
Q ss_pred CCCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHh
Q psy17050 22 SPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGT 101 (295)
Q Consensus 22 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 101 (295)
....|+|+.||+.+.+...|..|.+.|.... ..+.+.|.+|++.|.+...|+.|+++|+ .+++|.+||+.|...+.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~--s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWL 202 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLD--SKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWL 202 (279)
T ss_pred cCCceeccccccccccccccchhhccccccc--ccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHH
Confidence 4567999999999999999999999997554 4678899999999999999999999997 56899999999999999
Q ss_pred HHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhh
Q psy17050 102 LRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 102 L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 170 (295)
|+-|+++|+|||||.|+.|+++|.++++|+.||++|- +.+.|+|..|+|.|...+.|.+|...
T Consensus 203 LQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS------~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 203 LQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHS------DVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred hhcccccccCCCCccCCcccchhcchHHHHHHHHhhc------CCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999996 88899999999999999999999754
No 2
>KOG2462|consensus
Probab=99.95 E-value=8.6e-29 Score=199.53 Aligned_cols=139 Identities=31% Similarity=0.661 Sum_probs=128.8
Q ss_pred CCccccccccccccCChHHHHHHHHHhcC---CCCcccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHH
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIHQRIHTG---ERPYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLR 131 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 131 (295)
....|+|+.||+.+.+..+|.+|.++|.. .+.+.|.+|++.|.+...|+.|+++|. -+++|.+||+.|.+.+.|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhh
Confidence 34568999999999999999999999864 577999999999999999999999997 6899999999999999999
Q ss_pred HHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhccCCCCcCCCCCCCCccchhhhhccCCCCCCCCC
Q psy17050 132 EHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHSDENTAKNRVVPTAPRKYKRRRKLLPHEGDGFP 204 (295)
Q Consensus 132 ~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 204 (295)
.|+|+|+ |++||.|+.|++.|.++++|+.||++|.+. +.+.|..|++.|.++..|..|....-.
T Consensus 205 GHiRTHT------GEKPF~C~hC~kAFADRSNLRAHmQTHS~~---K~~qC~~C~KsFsl~SyLnKH~ES~C~ 268 (279)
T KOG2462|consen 205 GHIRTHT------GEKPFSCPHCGKAFADRSNLRAHMQTHSDV---KKHQCPRCGKSFALKSYLNKHSESACL 268 (279)
T ss_pred ccccccc------CCCCccCCcccchhcchHHHHHHHHhhcCC---ccccCcchhhHHHHHHHHHHhhhhccc
Confidence 9999997 999999999999999999999999999987 578899999999999999999876543
No 3
>KOG1074|consensus
Probab=99.89 E-value=5.8e-24 Score=193.23 Aligned_cols=115 Identities=23% Similarity=0.524 Sum_probs=98.6
Q ss_pred cccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecC---cCccccCCHHH
Q psy17050 87 YSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECK---VCGCMLSSSPE 163 (295)
Q Consensus 87 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~---~C~~~f~~~~~ 163 (295)
.+|-+|.++..-.+.|+.|+++|+|++||+|++||++|.++.+|+.|+-.|-..+.. .-.|.|+ +|-+.|...-.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~--R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPA--RVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccc--cccccCCchhhhccccccccc
Confidence 789999999999999999999999999999999999999999999999988532221 1468999 99999999999
Q ss_pred HHHHHhhccCC----------CCcCCCCCCCCccchhhhhccCCCCCCCC
Q psy17050 164 LCQHLVQHSDE----------NTAKNRVVPTAPRKYKRRRKLLPHEGDGF 203 (295)
Q Consensus 164 L~~H~~~h~~~----------~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 203 (295)
|..|+++|.+. ......+|..|.+.|.....+..++-.+-
T Consensus 684 lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~ 733 (958)
T KOG1074|consen 684 LPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQP 733 (958)
T ss_pred ccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccC
Confidence 99999999743 22345779999999988888888887774
No 4
>KOG3608|consensus
Probab=99.86 E-value=2.4e-22 Score=166.55 Aligned_cols=172 Identities=21% Similarity=0.433 Sum_probs=122.2
Q ss_pred CCCCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChH
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGG 100 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 100 (295)
+++|..-|+.||..|.++.-|..|++.-.. ....+|.|..|.+.|.+...|+.|+..|-. -|+|+.|+-+....+
T Consensus 203 s~eKvvACp~Cg~~F~~~tkl~DH~rRqt~---l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc~~~s 277 (467)
T KOG3608|consen 203 SNEKVVACPHCGELFRTKTKLFDHLRRQTE---LNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCDMTCSSAS 277 (467)
T ss_pred CCCeEEecchHHHHhccccHHHHHHHhhhh---hcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccccCCCChH
Confidence 444555555555555555555555544322 123456666666666666666666666542 377777777777777
Q ss_pred hHHHHHHH-hCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCc--CccccCCHHHHHHHHhhccCCCCc
Q psy17050 101 TLRKHERV-HTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKV--CGCMLSSSPELCQHLVQHSDENTA 177 (295)
Q Consensus 101 ~L~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~ 177 (295)
.|..|++. |...+||+|..|++.|.+.+.|..|...| .+..|+|.. |...|.+...|++|++.++.....
T Consensus 278 sL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~H-------S~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np 350 (467)
T KOG3608|consen 278 SLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVH-------SKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNP 350 (467)
T ss_pred HHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhc-------cccceecCCCCCcHHHHHHHHHHHHHHHhccCCCC
Confidence 88888764 66678888888888888888888888876 567788888 888888888888888877744444
Q ss_pred CCCCCCCCccchhhhhccCCCCCCCCC
Q psy17050 178 KNRVVPTAPRKYKRRRKLLPHEGDGFP 204 (295)
Q Consensus 178 ~~~~C~~C~~~f~~~~~l~~H~~~~~~ 204 (295)
..|.|..|.+.|++-.+|..|+...|.
T Consensus 351 ~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 351 ILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred CceeeecchhhhccchhHHHHHHHhhc
Confidence 678899999999999999888876664
No 5
>KOG3623|consensus
Probab=99.85 E-value=7.1e-22 Score=177.07 Aligned_cols=81 Identities=22% Similarity=0.470 Sum_probs=75.2
Q ss_pred cccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhccCCCCcCCCCCCCCccchhhhh
Q psy17050 114 PYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHSDENTAKNRVVPTAPRKYKRRR 193 (295)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~C~~C~~~f~~~~ 193 (295)
+|.|..|++.|...+.|.+|.-.|. |.++|+|.+|.+.|+.+..|..|+|.|.|+++ |+|..|+++|.-..
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHs------GqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKP---fQCdKClKRFSHSG 964 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHS------GQRPYQCIICKKAFKHKHHLTEHKRLHSGEKP---FQCDKCLKRFSHSG 964 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhc------CCCCcccchhhHhhhhhhhhhhhhhhccCCCc---chhhhhhhhccccc
Confidence 4999999999999999999999996 99999999999999999999999999999955 66888999999999
Q ss_pred ccCCCCCCCC
Q psy17050 194 KLLPHEGDGF 203 (295)
Q Consensus 194 ~l~~H~~~~~ 203 (295)
.+-.||..-+
T Consensus 965 SYSQHMNHRY 974 (1007)
T KOG3623|consen 965 SYSQHMNHRY 974 (1007)
T ss_pred chHhhhccch
Confidence 9999997655
No 6
>KOG3608|consensus
Probab=99.83 E-value=4.5e-21 Score=159.02 Aligned_cols=164 Identities=23% Similarity=0.463 Sum_probs=147.1
Q ss_pred eec--ccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHh--cCCCCcccccchhccCChHh
Q psy17050 26 HMC--EDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIH--TGERPYSCRYCYKAFADGGT 101 (295)
Q Consensus 26 ~~C--~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~ 101 (295)
+.| ..|-+.|.++..|+.|++.| .+++...|+.||..|.++..|-.|++.- ....+|.|..|.+.|.+...
T Consensus 178 ~~C~W~~Ct~~~~~k~~LreH~r~H-----s~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTekl 252 (467)
T KOG3608|consen 178 TMCNWAMCTKHMGNKYRLREHIRTH-----SNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKL 252 (467)
T ss_pred eeccchhhhhhhccHHHHHHHHHhc-----CCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHH
Confidence 455 55999999999999999999 4889999999999999999999998644 45678999999999999999
Q ss_pred HHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhccCCCCcCCCC
Q psy17050 102 LRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHSDENTAKNRV 181 (295)
Q Consensus 102 L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~ 181 (295)
|..|+..|- .-|+|+.|+......+.|..|++..|. .+++|+|..|.+.|.+.++|.+|...|.+ ..+.
T Consensus 253 L~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs-----~dkpfKCd~Cd~~c~~esdL~kH~~~HS~----~~y~ 321 (467)
T KOG3608|consen 253 LKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHS-----KDKPFKCDECDTRCVRESDLAKHVQVHSK----TVYQ 321 (467)
T ss_pred HHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhc-----cCCCccccchhhhhccHHHHHHHHHhccc----ccee
Confidence 999999986 569999999999999999999999984 79999999999999999999999998873 3455
Q ss_pred CCC--CccchhhhhccCCCCCCCCCC
Q psy17050 182 VPT--APRKYKRRRKLLPHEGDGFPD 205 (295)
Q Consensus 182 C~~--C~~~f~~~~~l~~H~~~~~~~ 205 (295)
|.. |..++++...|..|++.++..
T Consensus 322 C~h~~C~~s~r~~~q~~~H~~evhEg 347 (467)
T KOG3608|consen 322 CEHPDCHYSVRTYTQMRRHFLEVHEG 347 (467)
T ss_pred cCCCCCcHHHHHHHHHHHHHHHhccC
Confidence 655 999999999999999988843
No 7
>KOG1074|consensus
Probab=99.81 E-value=5e-21 Score=174.33 Aligned_cols=85 Identities=25% Similarity=0.467 Sum_probs=77.5
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhccCCCCc-CCCCCC---CCccchh
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHSDENTA-KNRVVP---TAPRKYK 190 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~-~~~~C~---~C~~~f~ 190 (295)
..|-+|-+...-++.|+-|.++|. |+++|+|.+||+.|.++.+|+.||-.|...-+. ..+.|+ +|.++|.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHt------GERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHT------GERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFT 679 (958)
T ss_pred cceeeeeecccchhhhhhhhhccc------CcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccc
Confidence 689999999999999999999997 999999999999999999999999999765444 467899 9999999
Q ss_pred hhhccCCCCCCCCCC
Q psy17050 191 RRRKLLPHEGDGFPD 205 (295)
Q Consensus 191 ~~~~l~~H~~~~~~~ 205 (295)
....|..|++.|...
T Consensus 680 n~V~lpQhIriH~~~ 694 (958)
T KOG1074|consen 680 NAVTLPQHIRIHLGG 694 (958)
T ss_pred ccccccceEEeecCC
Confidence 999999999998844
No 8
>KOG3576|consensus
Probab=99.79 E-value=2.6e-20 Score=143.31 Aligned_cols=122 Identities=31% Similarity=0.619 Sum_probs=111.0
Q ss_pred CCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHH
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHI 134 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 134 (295)
+...|.|.+|++.|.-...|.+|++-|...+.+-|..||+.|...-+|++|+++|+|.+||+|..|++.|..+..|..|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHH
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCC-----CCCCcceecCcCccccCCHHHHHHHHhhccCCCC
Q psy17050 135 RAHHSGPE-----SKGATTFECKVCGCMLSSSPELCQHLVQHSDENT 176 (295)
Q Consensus 135 ~~~h~~~~-----~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 176 (295)
+..|+... ....+.|.|..||.+-.....+..|++.|+...+
T Consensus 194 ~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 194 KKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 99887432 2456789999999999999999999999987654
No 9
>KOG3576|consensus
Probab=99.78 E-value=1.9e-19 Score=138.58 Aligned_cols=123 Identities=33% Similarity=0.589 Sum_probs=109.4
Q ss_pred CCCCCCCCCCCCCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhcCCCCccccc
Q psy17050 12 RPAASKGPPASPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRY 91 (295)
Q Consensus 12 ~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 91 (295)
.+.+-.+..++...|.|.+|++.|.-...|..|++.|. ..+.|-|..||+.|....+|++|+++|++.+||+|..
T Consensus 104 s~k~t~gsssd~d~ftCrvCgK~F~lQRmlnrh~kch~-----~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~ 178 (267)
T KOG3576|consen 104 SPKSTIGSSSDQDSFTCRVCGKKFGLQRMLNRHLKCHS-----DVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSL 178 (267)
T ss_pred CCcccccCCCCCCeeeeehhhhhhhHHHHHHHHhhhcc-----HHHHHHHhhccCcccchhhhhhhhccccCccccchhh
Confidence 33344445556778999999999999999999999995 6788999999999999999999999999999999999
Q ss_pred chhccCChHhHHHHHHHhCC-----------CCcccCcchhhhcCCHHHHHHHHHHhcC
Q psy17050 92 CYKAFADGGTLRKHERVHTG-----------EKPYVCPICSKAFNQRVVLREHIRAHHS 139 (295)
Q Consensus 92 C~~~f~~~~~L~~H~~~h~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 139 (295)
|++.|...-.|..|++.-|| .+.|+|..||+.-.....+..|+..+|.
T Consensus 179 c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 179 CEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred hhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 99999999999999886555 4569999999999999999999999984
No 10
>KOG3623|consensus
Probab=99.59 E-value=4.6e-16 Score=140.17 Aligned_cols=112 Identities=30% Similarity=0.558 Sum_probs=93.2
Q ss_pred CCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhcCC-------------CCccc
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGE-------------RPYSC 89 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-------------~~~~C 89 (295)
.....|++|++.+..-..|+.|++.-|.. .+..|.|..|.++|..+..|.+||.+|..- +.|+|
T Consensus 208 sqlltcpycdrgykrltslkeHikyrhek---ne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKC 284 (1007)
T KOG3623|consen 208 SQLLTCPYCDRGYKRLTSLKEHIKYRHEK---NEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKC 284 (1007)
T ss_pred hhhhcchhHHHHHHHHHHHHHHHHHHHhh---CCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccc
Confidence 45678999999999999999999876642 445789999999999999999999988532 44888
Q ss_pred ccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHh
Q psy17050 90 RYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAH 137 (295)
Q Consensus 90 ~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 137 (295)
..|++.|+.+..|+.|+++|.|++||.|+.|++.|.....+..||...
T Consensus 285 tECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 285 TECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred cccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccccc
Confidence 888888888888888888888888888888888888888888887553
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.36 E-value=2.3e-12 Score=116.95 Aligned_cols=144 Identities=20% Similarity=0.443 Sum_probs=93.7
Q ss_pred CCceecccchhhccCHHHHHHHHHhcccccCCCCccccccc--cccccCChHHHHHHHHHhcCCCCcccccchhccCChH
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHD--CGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGG 100 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 100 (295)
...-.|..|.... ....|..|..... -..-.|+. |+..|. +..+..| +.|+.|++.|. ..
T Consensus 405 ~~~V~C~NC~~~i-~l~~l~lHe~~C~------r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s 466 (567)
T PLN03086 405 VDTVECRNCKHYI-PSRSIALHEAYCS------RHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QG 466 (567)
T ss_pred CCeEECCCCCCcc-chhHHHHHHhhCC------CcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hH
Confidence 3455799999987 5567778987652 23345763 777773 3344444 57888887774 56
Q ss_pred hHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccC----------CHHHHHHHHhh
Q psy17050 101 TLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLS----------SSPELCQHLVQ 170 (295)
Q Consensus 101 ~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~----------~~~~L~~H~~~ 170 (295)
.|..|+..+| +++.|+ |++.+ .+..|..|+.+|. ..+++.|.+|++.|. ....|..|...
T Consensus 467 ~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thC------p~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 467 EMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTC------PLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred HHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccC------CCCceeCCCCCCccccCccccchhhhhhhHHHHHHh
Confidence 6788877765 677887 87644 5577777877765 677788888887774 13466677666
Q ss_pred ccCCCCcCCCCCCCCccchhhhhccCCCC
Q psy17050 171 HSDENTAKNRVVPTAPRKYKRRRKLLPHE 199 (295)
Q Consensus 171 h~~~~~~~~~~C~~C~~~f~~~~~l~~H~ 199 (295)
+ +. +.+.|..|++.+..+ .|..|+
T Consensus 537 C-G~---rt~~C~~Cgk~Vrlr-dm~~H~ 560 (567)
T PLN03086 537 C-GS---RTAPCDSCGRSVMLK-EMDIHQ 560 (567)
T ss_pred c-CC---cceEccccCCeeeeh-hHHHHH
Confidence 4 33 456677777665433 333443
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.36 E-value=9e-13 Score=119.60 Aligned_cols=120 Identities=20% Similarity=0.471 Sum_probs=97.0
Q ss_pred eeccc--chhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHH
Q psy17050 26 HMCED--CGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLR 103 (295)
Q Consensus 26 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~ 103 (295)
-.|+. |+..| .+..+..| +.|+.|++.|. ...|..|+.+|+ +++.|+ |++.+ .+..|.
T Consensus 434 V~Cp~~~Cg~v~-~r~el~~H--------------~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~ 493 (567)
T PLN03086 434 VVCPHDGCGIVL-RVEEAKNH--------------VHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMV 493 (567)
T ss_pred eeCCccccccee-eccccccC--------------ccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHH
Confidence 45764 88887 33344444 46999999996 678999999986 789999 99765 679999
Q ss_pred HHHHHhCCCCcccCcchhhhcC----------CHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhccC
Q psy17050 104 KHERVHTGEKPYVCPICSKAFN----------QRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 104 ~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 173 (295)
.|+..|.+.+++.|.+|++.|. ....|..|...+ +.+++.|..||+.+..+ .|..|+...|.
T Consensus 494 ~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-------G~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 494 QHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-------GSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred hhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-------CCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 9999999999999999999985 245899999886 78999999999988654 67788766543
No 13
>PHA00733 hypothetical protein
Probab=99.19 E-value=2e-11 Score=91.00 Aligned_cols=83 Identities=20% Similarity=0.389 Sum_probs=59.1
Q ss_pred CCccccccccccccCChHHHHHH--H---HHhcCCCCcccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHH
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIH--Q---RIHTGERPYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVV 129 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~ 129 (295)
..+.+.|.+|+..|.....|..| + ..+++.++|.|..|++.|.+...|..|++.| +.+|.|..|++.|.....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 45667777777777666655554 1 1234467788888888888888888887765 346788888888888888
Q ss_pred HHHHHHHhcC
Q psy17050 130 LREHIRAHHS 139 (295)
Q Consensus 130 l~~H~~~~h~ 139 (295)
|..|+...|.
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 8888887773
No 14
>PHA00733 hypothetical protein
Probab=99.15 E-value=4.9e-11 Score=88.90 Aligned_cols=96 Identities=19% Similarity=0.369 Sum_probs=76.0
Q ss_pred ChHHHHHHHHHhcCCCCcccccchhccCChHhHHHH--HH---HhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCC
Q psy17050 70 SRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKH--ER---VHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESK 144 (295)
Q Consensus 70 ~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H--~~---~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 144 (295)
+...|..+-..-...+++.|.+|...|.....|..| +. .+++.++|.|+.|++.|.+...|..|++.+.
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~------ 97 (128)
T PHA00733 24 TLEELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTE------ 97 (128)
T ss_pred CHHHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCC------
Confidence 345555544444456789999999999887777666 22 3345789999999999999999999998752
Q ss_pred CCcceecCcCccccCCHHHHHHHHhhccC
Q psy17050 145 GATTFECKVCGCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 173 (295)
.+|.|..|++.|.....|..|+...|+
T Consensus 98 --~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 98 --HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred --cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 358999999999999999999988776
No 15
>KOG3993|consensus
Probab=99.05 E-value=1.7e-11 Score=104.76 Aligned_cols=175 Identities=21% Similarity=0.267 Sum_probs=99.6
Q ss_pred ceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhcCCCCccc---ccchhccCChHh
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSC---RYCYKAFADGGT 101 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C---~~C~~~f~~~~~ 101 (295)
.|.|.+|...|.+...|.+|..... --.-|+|+.|+++|..-.+|..|.+.|.....-.= +-=.....+...
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RI-----V~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae 341 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRI-----VHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAE 341 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCee-----EEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhh
Confidence 3889999999999999998865331 12468899999999999999999888753211000 000000000000
Q ss_pred HHHHHHH--hCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCC-----------------------------------
Q psy17050 102 LRKHERV--HTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESK----------------------------------- 144 (295)
Q Consensus 102 L~~H~~~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~----------------------------------- 144 (295)
.+.-.+. ...+..|.|.+|++.|.+...|+.|+.+|+......
T Consensus 342 ~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~v 421 (500)
T KOG3993|consen 342 VQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEV 421 (500)
T ss_pred hhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccce
Confidence 0000000 011224566666666666666666655555321110
Q ss_pred -----CCcceecCcCccccCCHHHHHHHHhhccCCCCcCCCCCCCCccchhhhhccCCCCCCCCCCCC
Q psy17050 145 -----GATTFECKVCGCMLSSSPELCQHLVQHSDENTAKNRVVPTAPRKYKRRRKLLPHEGDGFPDTD 207 (295)
Q Consensus 145 -----~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 207 (295)
......|+.|+-.+.++..--.|.+.-..+ ..+.|.+|...|.+...|.+|+...|+.+.
T Consensus 422 l~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~---q~f~~ky~~atfyss~~ltrhin~~Hpse~ 486 (500)
T KOG3993|consen 422 LYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAE---QGFTCKYCPATFYSSPGLTRHINKCHPSEL 486 (500)
T ss_pred eeeeccccccCCCCCCCCcccCCCCCccccccchh---hccccccchHhhhcCcchHhHhhhcChHHh
Confidence 111244777887776655544444332222 456677888888888888888888876543
No 16
>KOG3993|consensus
Probab=98.97 E-value=7.1e-11 Score=101.07 Aligned_cols=145 Identities=20% Similarity=0.312 Sum_probs=83.0
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhCCCCccc---CcchhhhcCCHHHHHHHHH
Q psy17050 59 FPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHTGEKPYV---CPICSKAFNQRVVLREHIR 135 (295)
Q Consensus 59 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~---C~~C~~~f~~~~~l~~H~~ 135 (295)
|.|..|...|.....|.+|.....-...|+|+.|++.|.-..+|..|.+.|....--. =+-=.....+....+.--+
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 6677777777777777777543333344777777777777777777777664321000 0000000011111111101
Q ss_pred HhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhccCCCC---------------------------------------
Q psy17050 136 AHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHSDENT--------------------------------------- 176 (295)
Q Consensus 136 ~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~--------------------------------------- 176 (295)
++.. ..+..|.|..|++.|.+...|+.|..+|+....
T Consensus 348 ---sg~d-ss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~ 423 (500)
T KOG3993|consen 348 ---SGDD-SSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLY 423 (500)
T ss_pred ---cCCc-ccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceee
Confidence 1111 233479999999999999999999888864311
Q ss_pred ----cCCCCCCCCccchhhhhccCCCCCCCCCCCC
Q psy17050 177 ----AKNRVVPTAPRKYKRRRKLLPHEGDGFPDTD 207 (295)
Q Consensus 177 ----~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 207 (295)
.....|+.|+..+..+..--.+.+.++..-.
T Consensus 424 ~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~ 458 (500)
T KOG3993|consen 424 VAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQG 458 (500)
T ss_pred eeccccccCCCCCCCCcccCCCCCccccccchhhc
Confidence 2234477888777777776666665554433
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.82 E-value=1.9e-09 Score=66.38 Aligned_cols=38 Identities=24% Similarity=0.459 Sum_probs=17.1
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 59 FPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 59 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
|+|+.||+.|.....|..||++|+ ++|+|..|++.|..
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~ 43 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLR 43 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecc
Confidence 344444444444444444444444 34444444444443
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.78 E-value=2e-09 Score=66.20 Aligned_cols=41 Identities=29% Similarity=0.651 Sum_probs=20.3
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHH
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPE 163 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~ 163 (295)
|.|+.||+.|.....|..|+++|+ ++|+|..|++.|...+.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--------k~~kc~~C~k~f~~~s~ 46 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--------TNLKLSNCKRISLRTGE 46 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--------CcccCCcccceecccce
Confidence 445555555555555555555542 34455555555544443
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=98.54 E-value=4.9e-08 Score=51.29 Aligned_cols=24 Identities=54% Similarity=1.135 Sum_probs=12.9
Q ss_pred HHHHHHHhcCCCCcccccchhccC
Q psy17050 74 QQIHQRIHTGERPYSCRYCYKAFA 97 (295)
Q Consensus 74 l~~H~~~h~~~~~~~C~~C~~~f~ 97 (295)
|..||++|+++++|.|++|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 455555555555555555555553
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.50 E-value=5.6e-08 Score=51.09 Aligned_cols=24 Identities=67% Similarity=1.362 Sum_probs=13.7
Q ss_pred HHHHHHHhCCCCcccCcchhhhcC
Q psy17050 102 LRKHERVHTGEKPYVCPICSKAFN 125 (295)
Q Consensus 102 L~~H~~~h~~~~~~~C~~C~~~f~ 125 (295)
|.+|++.|+++++|.|+.|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 455555555555555555555554
No 21
>PHA00616 hypothetical protein
Probab=98.37 E-value=1.9e-07 Score=54.66 Aligned_cols=33 Identities=18% Similarity=0.420 Sum_probs=19.2
Q ss_pred ccccccccccCChHHHHHHHHHhcCCCCccccc
Q psy17050 59 FPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRY 91 (295)
Q Consensus 59 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 91 (295)
|+|..||+.|..+..|..|++.|++++++.|..
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 555556655555555556655555555555544
No 22
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.37 E-value=6.5e-07 Score=56.24 Aligned_cols=51 Identities=25% Similarity=0.565 Sum_probs=24.6
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhcc
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHS 172 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 172 (295)
|.|++|++ ..+...|..|....|.. ..+.+.|++|...+. ..|..|+..+|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~----~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRS----ESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcC----CCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 45555555 33444555555555432 223455555555433 25555555443
No 23
>PHA00732 hypothetical protein
Probab=98.30 E-value=4.1e-07 Score=61.51 Aligned_cols=22 Identities=32% Similarity=0.712 Sum_probs=11.4
Q ss_pred ccCcchhhhcCCHHHHHHHHHH
Q psy17050 115 YVCPICSKAFNQRVVLREHIRA 136 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~ 136 (295)
|.|..|++.|.+...|..|++.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~ 23 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARR 23 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhc
Confidence 4455555555555555555543
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.27 E-value=1.6e-06 Score=54.44 Aligned_cols=52 Identities=19% Similarity=0.362 Sum_probs=31.5
Q ss_pred ceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhc
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHT 82 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 82 (295)
.|.|++|++. .+...|..|....|.. +.+.+.|++|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~---~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRS---ESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcC---CCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 4677777773 4566777776665532 234567777776543 36666666554
No 25
>PHA00732 hypothetical protein
Probab=98.25 E-value=6.6e-07 Score=60.55 Aligned_cols=47 Identities=21% Similarity=0.350 Sum_probs=25.8
Q ss_pred ceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHh
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIH 81 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 81 (295)
+|.|..|++.|.+...|..|++.+| .++.|+.|++.|. .|..|+..+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H-------~~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNH-------TLTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhccc-------CCCccCCCCCEeC---Chhhhhccc
Confidence 3556666666666666666665322 1235666666665 355555443
No 26
>PHA00616 hypothetical protein
Probab=98.25 E-value=5.6e-07 Score=52.73 Aligned_cols=24 Identities=29% Similarity=0.635 Sum_probs=12.4
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhc
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHH 138 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h 138 (295)
|+|+.||+.|...+.|..|++.||
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~h 25 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVH 25 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhc
Confidence 445555555555555555555554
No 27
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.02 E-value=1.5e-06 Score=72.33 Aligned_cols=58 Identities=28% Similarity=0.575 Sum_probs=48.7
Q ss_pred CCcccCcc--hhhhcCCHHHHHHHHHHhcCCCC-------------CCCCcceecCcCccccCCHHHHHHHHh
Q psy17050 112 EKPYVCPI--CSKAFNQRVVLREHIRAHHSGPE-------------SKGATTFECKVCGCMLSSSPELCQHLV 169 (295)
Q Consensus 112 ~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~-------------~~~~~~~~C~~C~~~f~~~~~L~~H~~ 169 (295)
++||+|++ |.+.|++...|+.|+...|..+. +...+||+|++|++.|++...|+.|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 58999998 99999999999999988774321 245689999999999999999999853
No 28
>KOG2231|consensus
Probab=97.94 E-value=2.1e-05 Score=73.14 Aligned_cols=91 Identities=23% Similarity=0.488 Sum_probs=60.5
Q ss_pred CHHHHHHHHHhcccccCCCCccccccccc---------cccCChHHHHHHHHHhcC-CC----CcccccchhccCChHhH
Q psy17050 37 DRQSLLVHKARHDVIRTERGRIFPCHDCG---------KTFNSRSSQQIHQRIHTG-ER----PYSCRYCYKAFADGGTL 102 (295)
Q Consensus 37 ~~~~l~~H~~~h~~~~~~~~~~~~C~~C~---------~~f~~~~~l~~H~~~h~~-~~----~~~C~~C~~~f~~~~~L 102 (295)
....|+.|+..-| +.+.|.+|- ....+...|..|++.-.. ++ .-.|..|...|.....|
T Consensus 126 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 126 SVENLKNHMRDQH-------KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDEL 198 (669)
T ss_pred HHHHHHHHHHHhh-------hhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHH
Confidence 6778888885443 334454442 223345677777764222 21 24688888888888888
Q ss_pred HHHHHHhCCCCcccCcch------hhhcCCHHHHHHHHHHhc
Q psy17050 103 RKHERVHTGEKPYVCPIC------SKAFNQRVVLREHIRAHH 138 (295)
Q Consensus 103 ~~H~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~~h 138 (295)
.+|++.+| |.|.+| +..|.....|..|.+.+|
T Consensus 199 ~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 199 YRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred HHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 88888776 456666 455777788888888887
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=97.90 E-value=8.5e-06 Score=41.39 Aligned_cols=22 Identities=32% Similarity=0.803 Sum_probs=13.7
Q ss_pred eecCcCccccCCHHHHHHHHhh
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~ 170 (295)
|.|+.|++.|.+...|..|++.
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 4566666666666666666654
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.85 E-value=1.1e-05 Score=57.59 Aligned_cols=73 Identities=22% Similarity=0.406 Sum_probs=17.1
Q ss_pred ccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHH
Q psy17050 88 SCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQH 167 (295)
Q Consensus 88 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H 167 (295)
+|.+|+..|.+...|..|+...|+-. .+ ....+.....+..+++.. -...+.|..|++.|.+...|..|
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~---~~-~~~~l~~~~~~~~~~~~~-------~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD---IP-DQKYLVDPNRLLNYLRKK-------VKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Cccccccccccccccccccccccccc---cc-cccccccccccccccccc-------cCCCCCCCccCCCCcCHHHHHHH
Confidence 36666666666666666665544321 11 111122333333443332 12357777777777777777777
Q ss_pred Hhhc
Q psy17050 168 LVQH 171 (295)
Q Consensus 168 ~~~h 171 (295)
|+.+
T Consensus 70 m~~~ 73 (100)
T PF12756_consen 70 MRSK 73 (100)
T ss_dssp HHHT
T ss_pred HcCc
Confidence 7754
No 31
>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=1.1e-05 Score=40.96 Aligned_cols=22 Identities=27% Similarity=0.573 Sum_probs=11.1
Q ss_pred eecccchhhccCHHHHHHHHHh
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKAR 47 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~ 47 (295)
|+|+.|++.|.+...|..|++.
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 4455555555555555555443
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.76 E-value=1.5e-05 Score=56.87 Aligned_cols=24 Identities=42% Similarity=1.006 Sum_probs=13.5
Q ss_pred cccCcchhhhcCCHHHHHHHHHHh
Q psy17050 114 PYVCPICSKAFNQRVVLREHIRAH 137 (295)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~~ 137 (295)
.+.|..|++.|.+...|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 455666666666666666666543
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=97.74 E-value=2.7e-05 Score=39.80 Aligned_cols=23 Identities=43% Similarity=0.898 Sum_probs=12.2
Q ss_pred eecCcCccccCCHHHHHHHHhhc
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQH 171 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~h 171 (295)
|.|++|++.|.+...|..|+.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45566666666666666665554
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.70 E-value=7.7e-06 Score=68.19 Aligned_cols=53 Identities=28% Similarity=0.648 Sum_probs=39.5
Q ss_pred CCCccccc--chhccCChHhHHHHHHHhC-------------------CCCcccCcchhhhcCCHHHHHHHHHH
Q psy17050 84 ERPYSCRY--CYKAFADGGTLRKHERVHT-------------------GEKPYVCPICSKAFNQRVVLREHIRA 136 (295)
Q Consensus 84 ~~~~~C~~--C~~~f~~~~~L~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~~ 136 (295)
++||+|++ |.+.+++...|+.|+..-| ..+||+|++|++.|++...|+.|+.-
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccc
Confidence 36777776 7777777777777765322 25789999999999999999988653
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.68 E-value=3.3e-05 Score=39.43 Aligned_cols=23 Identities=26% Similarity=0.621 Sum_probs=10.6
Q ss_pred eecccchhhccCHHHHHHHHHhc
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKARH 48 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~h 48 (295)
|.|++|++.|.+...|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 34555555555555555555443
No 36
>KOG2231|consensus
Probab=97.68 E-value=8.7e-05 Score=69.11 Aligned_cols=100 Identities=21% Similarity=0.387 Sum_probs=71.4
Q ss_pred ccccccccCChHHHHHHHHHhcCCCCcccccch---------hccCChHhHHHHHHHhCC-CC----cccCcchhhhcCC
Q psy17050 61 CHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCY---------KAFADGGTLRKHERVHTG-EK----PYVCPICSKAFNQ 126 (295)
Q Consensus 61 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---------~~f~~~~~L~~H~~~h~~-~~----~~~C~~C~~~f~~ 126 (295)
|..| ..|.+...|+.|+..-|+ .+.|.+|- ....+...|..|++.-.. ++ --.|..|...|..
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld 194 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLD 194 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhcc
Confidence 4445 445588899999954432 24455443 233456788888774322 22 2469999999999
Q ss_pred HHHHHHHHHHhcCCCCCCCCcceecCcC------ccccCCHHHHHHHHhhccC
Q psy17050 127 RVVLREHIRAHHSGPESKGATTFECKVC------GCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 127 ~~~l~~H~~~~h~~~~~~~~~~~~C~~C------~~~f~~~~~L~~H~~~h~~ 173 (295)
...|.+|++.+| |.|.+| +.-|.....|..|.+.+|-
T Consensus 195 ~~el~rH~~~~h----------~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 195 DDELYRHLRFDH----------EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred HHHHHHhhccce----------eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 999999999988 677777 4567788899999998774
No 37
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.56 E-value=0.0001 Score=62.40 Aligned_cols=130 Identities=28% Similarity=0.510 Sum_probs=92.3
Q ss_pred ceeccc--chhhccCHHHHHHHHHhcccccCCCCccccccccc---cccC------ChHHHHHHHHHhcCCCCc----cc
Q psy17050 25 SHMCED--CGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCG---KTFN------SRSSQQIHQRIHTGERPY----SC 89 (295)
Q Consensus 25 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~---~~f~------~~~~l~~H~~~h~~~~~~----~C 89 (295)
.|.|+. |.........|..|.+..| ..+-|.+|- +.|. ++..|+.|...-..+..| .|
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H-------~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C 223 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQH-------GFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLC 223 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhc-------CcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchh
Confidence 377865 6666666778999988765 234566663 2332 345677776544333223 59
Q ss_pred ccchhccCChHhHHHHHHHhCCCCcccCcchhh-------hcCCHHHHHHHHHHhcCCCCCCCCcceecCc--C----cc
Q psy17050 90 RYCYKAFADGGTLRKHERVHTGEKPYVCPICSK-------AFNQRVVLREHIRAHHSGPESKGATTFECKV--C----GC 156 (295)
Q Consensus 90 ~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~--C----~~ 156 (295)
..|...|.+...|..|++..| + +|.+|++ .|.+...|..|.+..| |.|.+ | -.
T Consensus 224 ~FC~~~FYdDDEL~~HcR~~H-E---~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----------y~ct~qtc~~~k~~ 289 (493)
T COG5236 224 IFCKIYFYDDDELRRHCRLRH-E---ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----------YCCTFQTCRVGKCY 289 (493)
T ss_pred hhccceecChHHHHHHHHhhh-h---hhhhhhccCccchhhhhCHHHHHHHhhcCc----------eEEEEEEEecCcEE
Confidence 999999999999999999766 3 4666654 4888899999998776 77765 4 24
Q ss_pred ccCCHHHHHHHHhhccCCC
Q psy17050 157 MLSSSPELCQHLVQHSDEN 175 (295)
Q Consensus 157 ~f~~~~~L~~H~~~h~~~~ 175 (295)
+|...-.|..|+...|+..
T Consensus 290 vf~~~~el~~h~~~~h~~~ 308 (493)
T COG5236 290 VFPYHTELLEHLTRFHKVN 308 (493)
T ss_pred EeccHHHHHHHHHHHhhcc
Confidence 7899999999998766643
No 38
>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=97.55 E-value=5.9e-05 Score=39.87 Aligned_cols=25 Identities=40% Similarity=0.692 Sum_probs=18.5
Q ss_pred ceecCcCccccCCHHHHHHHHhhcc
Q psy17050 148 TFECKVCGCMLSSSPELCQHLVQHS 172 (295)
Q Consensus 148 ~~~C~~C~~~f~~~~~L~~H~~~h~ 172 (295)
+|.|..|++.|.+...|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4677777777777777777777664
No 39
>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=97.45 E-value=7.8e-05 Score=39.40 Aligned_cols=25 Identities=28% Similarity=0.626 Sum_probs=17.1
Q ss_pred ceecccchhhccCHHHHHHHHHhcc
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKARHD 49 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~h~ 49 (295)
+|+|..|++.|.+...|..|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 4667777777777777777776653
No 40
>KOG1146|consensus
Probab=97.43 E-value=0.00019 Score=70.83 Aligned_cols=115 Identities=18% Similarity=0.268 Sum_probs=82.0
Q ss_pred CCceecccchhhccCHHHHHHHHHhcccc--------------------cCCCCccccccccccccCChHHHHHHHHHh-
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKARHDVI--------------------RTERGRIFPCHDCGKTFNSRSSQQIHQRIH- 81 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~--------------------~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h- 81 (295)
.+.|+|+.|+..|+....|..||+..|.. ...++++|.|..|...+..+..|.+|++.-
T Consensus 463 ~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~~ 542 (1406)
T KOG1146|consen 463 FKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSDL 542 (1406)
T ss_pred cccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHHh
Confidence 36799999999999999999999983311 123457899999999999999999998632
Q ss_pred -cC-----------------------------------------CCCcccccchhccCChHhHHHHHHH-hCCCCcccCc
Q psy17050 82 -TG-----------------------------------------ERPYSCRYCYKAFADGGTLRKHERV-HTGEKPYVCP 118 (295)
Q Consensus 82 -~~-----------------------------------------~~~~~C~~C~~~f~~~~~L~~H~~~-h~~~~~~~C~ 118 (295)
.. .-.|.|.+|++.-....+|+-|+.. ++...+..|.
T Consensus 543 h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~p~~~L 622 (1406)
T KOG1146|consen 543 HRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVL 622 (1406)
T ss_pred hHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCChHHHh
Confidence 10 0128899999888888888888774 4433335566
Q ss_pred chhhhcCCHHHHHHHHHHh
Q psy17050 119 ICSKAFNQRVVLREHIRAH 137 (295)
Q Consensus 119 ~C~~~f~~~~~l~~H~~~~ 137 (295)
.|+..+.....+..+.+.+
T Consensus 623 q~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 623 QQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred hhcchhhccccccCcCCCC
Confidence 6665555555555554444
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.09 E-value=0.00031 Score=42.14 Aligned_cols=20 Identities=20% Similarity=0.479 Sum_probs=6.4
Q ss_pred cccccccccCChHHHHHHHH
Q psy17050 60 PCHDCGKTFNSRSSQQIHQR 79 (295)
Q Consensus 60 ~C~~C~~~f~~~~~l~~H~~ 79 (295)
.|++|+..+....+|++|+.
T Consensus 26 tCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 26 TCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp E-TTT--EESSHHHHHHHHH
T ss_pred CCCcchhhccchhhHHHHHH
Confidence 33333333333333333333
No 42
>KOG2482|consensus
Probab=96.96 E-value=0.0014 Score=55.59 Aligned_cols=55 Identities=15% Similarity=0.185 Sum_probs=39.8
Q ss_pred eecCcCccccCCHHHHHHHHhhccCCC------------------------CcCCCCCCCCccchhhhhccCCCCCCCC
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQHSDEN------------------------TAKNRVVPTAPRKYKRRRKLLPHEGDGF 203 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~h~~~~------------------------~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 203 (295)
..|-+|.....+...|..||+.-|... ......|-.|...|.....|..|+-.+.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k 358 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDK 358 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccccc
Confidence 578888888888888888887654321 1234567788889999999998886543
No 43
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.90 E-value=0.00091 Score=40.18 Aligned_cols=28 Identities=21% Similarity=0.490 Sum_probs=11.3
Q ss_pred CCcccccchhccCChHhHHHHHHHhCCC
Q psy17050 85 RPYSCRYCYKAFADGGTLRKHERVHTGE 112 (295)
Q Consensus 85 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 112 (295)
.|..|++|+..+....+|++|+..+|+.
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 3444555555555555555555444443
No 44
>KOG4173|consensus
Probab=96.89 E-value=0.00061 Score=53.51 Aligned_cols=85 Identities=22% Similarity=0.551 Sum_probs=63.5
Q ss_pred Cccccc--chhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCC----CCCCCCcceecCc--Cccc
Q psy17050 86 PYSCRY--CYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSG----PESKGATTFECKV--CGCM 157 (295)
Q Consensus 86 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~----~~~~~~~~~~C~~--C~~~ 157 (295)
.|.|++ |-..|.+......|...-|+. .|..|.+.|.+...|-.|+..-|.. ....|.-+|+|-+ |+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 467777 777888877777777665543 5888888888888888888776631 1223567899976 9999
Q ss_pred cCCHHHHHHHHhhccC
Q psy17050 158 LSSSPELCQHLVQHSD 173 (295)
Q Consensus 158 f~~~~~L~~H~~~h~~ 173 (295)
|.+......|+..-|.
T Consensus 156 FkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhhhhhhhhHHHHhcc
Confidence 9999999999866443
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.85 E-value=0.00094 Score=34.41 Aligned_cols=24 Identities=29% Similarity=0.729 Sum_probs=18.1
Q ss_pred eecCcCccccCCHHHHHHHHhhcc
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQHS 172 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~h~ 172 (295)
|.|..|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 467788888888888888877653
No 46
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.79 E-value=0.0012 Score=56.14 Aligned_cols=129 Identities=24% Similarity=0.392 Sum_probs=83.3
Q ss_pred ccccc--cccccCChHHHHHHHHHhcCCCCcccccchh---ccC------ChHhHHHHHHHhCCCCc----ccCcchhhh
Q psy17050 59 FPCHD--CGKTFNSRSSQQIHQRIHTGERPYSCRYCYK---AFA------DGGTLRKHERVHTGEKP----YVCPICSKA 123 (295)
Q Consensus 59 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---~f~------~~~~L~~H~~~h~~~~~----~~C~~C~~~ 123 (295)
|.|+. |..+......|+.|.+..|+. +.|.+|-. .|. +...|..|...-..+.. -.|.+|...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 67875 777777788899999876654 67777643 333 34556666553332222 369999999
Q ss_pred cCCHHHHHHHHHHhcCCCCCCCCcceecCcCcc-------ccCCHHHHHHHHhhccCCCCcCCCCCCCC-ccchhhhhcc
Q psy17050 124 FNQRVVLREHIRAHHSGPESKGATTFECKVCGC-------MLSSSPELCQHLVQHSDENTAKNRVVPTA-PRKYKRRRKL 195 (295)
Q Consensus 124 f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~-------~f~~~~~L~~H~~~h~~~~~~~~~~C~~C-~~~f~~~~~l 195 (295)
|.+...|..|++..| ++ |.+|.+ -|++..+|..|.+.-|---.. ..|..- -..|.....|
T Consensus 230 FYdDDEL~~HcR~~H-------E~---ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct~--qtc~~~k~~vf~~~~el 297 (493)
T COG5236 230 FYDDDELRRHCRLRH-------EA---CHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCTF--QTCRVGKCYVFPYHTEL 297 (493)
T ss_pred ecChHHHHHHHHhhh-------hh---hhhhhccCccchhhhhCHHHHHHHhhcCceEEEE--EEEecCcEEEeccHHHH
Confidence 999999999999987 34 555554 488899999998764321110 011111 1356666666
Q ss_pred CCCCCC
Q psy17050 196 LPHEGD 201 (295)
Q Consensus 196 ~~H~~~ 201 (295)
+.|+..
T Consensus 298 ~~h~~~ 303 (493)
T COG5236 298 LEHLTR 303 (493)
T ss_pred HHHHHH
Confidence 666643
No 47
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.78 E-value=0.0011 Score=33.78 Aligned_cols=23 Identities=30% Similarity=0.664 Sum_probs=10.9
Q ss_pred eecCcCccccCCHHHHHHHHhhcc
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQHS 172 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~h~ 172 (295)
|+|+.|+.... ...|..|++.||
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 44555555554 555555555443
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.72 E-value=0.0014 Score=33.69 Aligned_cols=22 Identities=45% Similarity=0.936 Sum_probs=11.1
Q ss_pred cccccccccCChHHHHHHHHHh
Q psy17050 60 PCHDCGKTFNSRSSQQIHQRIH 81 (295)
Q Consensus 60 ~C~~C~~~f~~~~~l~~H~~~h 81 (295)
.|..|++.|.+...|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4555555555555555555433
No 49
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.61 E-value=0.0013 Score=33.91 Aligned_cols=21 Identities=24% Similarity=0.518 Sum_probs=12.7
Q ss_pred eecccchhhccCHHHHHHHHH
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKA 46 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~ 46 (295)
|.|.+|++.|.+...|..|++
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 456666666666666666654
No 50
>KOG2482|consensus
Probab=96.60 E-value=0.0037 Score=53.11 Aligned_cols=145 Identities=23% Similarity=0.339 Sum_probs=91.0
Q ss_pred Cceecccchhhc-cCHHHHHHHHHhcccccCCC-----------------CccccccccccccCChHHHHHHHHH--hcC
Q psy17050 24 ASHMCEDCGEEY-WDRQSLLVHKARHDVIRTER-----------------GRIFPCHDCGKTFNSRSSQQIHQRI--HTG 83 (295)
Q Consensus 24 ~~~~C~~C~~~f-~~~~~l~~H~~~h~~~~~~~-----------------~~~~~C~~C~~~f~~~~~l~~H~~~--h~~ 83 (295)
..-+|-.|+..+ .++..+..|+...|+...+. -..+.|-.|.+.|+.+..|+.||+. |-.
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrr 222 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRR 222 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcc
Confidence 456799998766 56677888877655443211 1236799999999999999999965 322
Q ss_pred CCC--------cccccchhccCChHhHHHHHHH----h--C-------------CCCc--ccCcchhhhcCCHHHHHHHH
Q psy17050 84 ERP--------YSCRYCYKAFADGGTLRKHERV----H--T-------------GEKP--YVCPICSKAFNQRVVLREHI 134 (295)
Q Consensus 84 ~~~--------~~C~~C~~~f~~~~~L~~H~~~----h--~-------------~~~~--~~C~~C~~~f~~~~~l~~H~ 134 (295)
..| |.=++ .-..+++...|... - . +..+ .+|-+|...+.+...|..||
T Consensus 223 inPknreYDkfyiINY---~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHm 299 (423)
T KOG2482|consen 223 INPKNREYDKFYIINY---LEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHM 299 (423)
T ss_pred cCCCccccceEEEEeH---hhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHH
Confidence 211 11111 00111122222111 1 1 1122 58999999999999999999
Q ss_pred HHhcCCCC---------------------CCCCcceecCcCccccCCHHHHHHHHhhc
Q psy17050 135 RAHHSGPE---------------------SKGATTFECKVCGCMLSSSPELCQHLVQH 171 (295)
Q Consensus 135 ~~~h~~~~---------------------~~~~~~~~C~~C~~~f~~~~~L~~H~~~h 171 (295)
...|.-.- ......-.|..|.-.|.....|..||..+
T Consensus 300 k~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 300 KIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 98874210 01223456889999999999999999754
No 51
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.55 E-value=0.0017 Score=33.37 Aligned_cols=22 Identities=41% Similarity=0.693 Sum_probs=15.7
Q ss_pred eecCcCccccCCHHHHHHHHhh
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~ 170 (295)
|.|.+|++.|.+...|..|++.
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 5677777777777777777654
No 52
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.53 E-value=0.002 Score=32.77 Aligned_cols=9 Identities=22% Similarity=0.648 Sum_probs=2.6
Q ss_pred ecccchhhc
Q psy17050 27 MCEDCGEEY 35 (295)
Q Consensus 27 ~C~~C~~~f 35 (295)
+|+.|+...
T Consensus 2 ~C~~C~y~t 10 (24)
T PF13909_consen 2 KCPHCSYST 10 (24)
T ss_dssp E-SSSS-EE
T ss_pred CCCCCCCcC
Confidence 333333333
No 53
>KOG2785|consensus
Probab=96.50 E-value=0.0083 Score=51.96 Aligned_cols=56 Identities=21% Similarity=0.439 Sum_probs=39.9
Q ss_pred ceecccchhhccCHHHHHHHHHhc-cccc-------------------------------CCCCccccccccccccCChH
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKARH-DVIR-------------------------------TERGRIFPCHDCGKTFNSRS 72 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~h-~~~~-------------------------------~~~~~~~~C~~C~~~f~~~~ 72 (295)
.|+|.-|...|.+...-+.|+++. |... ...+-++.|..|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 589999999999998889998742 2100 12234567888888888877
Q ss_pred HHHHHHHH
Q psy17050 73 SQQIHQRI 80 (295)
Q Consensus 73 ~l~~H~~~ 80 (295)
....|+..
T Consensus 83 a~~~hl~S 90 (390)
T KOG2785|consen 83 AHENHLKS 90 (390)
T ss_pred hHHHHHHH
Confidence 77777653
No 54
>KOG2785|consensus
Probab=96.19 E-value=0.01 Score=51.44 Aligned_cols=56 Identities=21% Similarity=0.237 Sum_probs=36.9
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhcCCCCC-----------------CCCcceecCcCc---cccCCHHHHHHHHhh
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHHSGPES-----------------KGATTFECKVCG---CMLSSSPELCQHLVQ 170 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-----------------~~~~~~~C~~C~---~~f~~~~~L~~H~~~ 170 (295)
-.|-+|+..|.+...-..||..+|+-... .-..-|.|-+|+ +.|.+....+.||..
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 45666666666666666666666642111 012347898998 999999999999975
No 55
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.02 E-value=0.0015 Score=59.28 Aligned_cols=60 Identities=32% Similarity=0.593 Sum_probs=32.1
Q ss_pred cccccccccccCChHHHHHHHH--HhcCC--CCcccc--cchhccCChHhHHHHHHHhCCCCcccC
Q psy17050 58 IFPCHDCGKTFNSRSSQQIHQR--IHTGE--RPYSCR--YCYKAFADGGTLRKHERVHTGEKPYVC 117 (295)
Q Consensus 58 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~C 117 (295)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.|
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 4455555555555555555555 45555 555555 455555555555555555554444444
No 56
>PRK04860 hypothetical protein; Provisional
Probab=95.99 E-value=0.0032 Score=48.81 Aligned_cols=37 Identities=38% Similarity=0.836 Sum_probs=27.2
Q ss_pred CcccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCC
Q psy17050 86 PYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQ 126 (295)
Q Consensus 86 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~ 126 (295)
+|.|. |+. ....+.+|.++|.++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 47786 776 55667778888887778888888777654
No 57
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.97 E-value=0.0014 Score=59.42 Aligned_cols=142 Identities=19% Similarity=0.255 Sum_probs=86.5
Q ss_pred CceecccchhhccCHHHHHHHHH--hcccccCCCC--cccccc--ccccccCChHHHHHHHHHhcCCCCccccc--chhc
Q psy17050 24 ASHMCEDCGEEYWDRQSLLVHKA--RHDVIRTERG--RIFPCH--DCGKTFNSRSSQQIHQRIHTGERPYSCRY--CYKA 95 (295)
Q Consensus 24 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~~~~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~ 95 (295)
..+.|..|...|.....|..|.. .|. ++ +++.|+ .|++.|.....+..|...|.+..++.|.. |...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-----~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-----GESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSK 362 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-----cccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccc
Confidence 46778888888888788888877 453 45 677777 68888887777888887777777766655 3333
Q ss_pred cCChHhHH-----HHHHHhCCCCcccCcc--hhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHH
Q psy17050 96 FADGGTLR-----KHERVHTGEKPYVCPI--CSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHL 168 (295)
Q Consensus 96 f~~~~~L~-----~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~ 168 (295)
+.....-. .....-.....+.+.. |...+.....+..|...+-.. +...+.+..|...|.....+..|+
T Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~ 438 (467)
T COG5048 363 FSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSF----RPYNCKNPPCSKSFNRHYNLIPHK 438 (467)
T ss_pred cccccCCCCccchhhccCccCCccccccccchhhhhcccccccccccccccc----CCcCCCCCcchhhccCcccccccc
Confidence 33322211 1111111223344433 666666666666666655421 223456666777777777777777
Q ss_pred hhccCC
Q psy17050 169 VQHSDE 174 (295)
Q Consensus 169 ~~h~~~ 174 (295)
+.|...
T Consensus 439 ~~~~~~ 444 (467)
T COG5048 439 KIHTNH 444 (467)
T ss_pred cccccC
Confidence 766553
No 58
>KOG1146|consensus
Probab=95.92 E-value=0.0023 Score=63.57 Aligned_cols=79 Identities=20% Similarity=0.395 Sum_probs=49.0
Q ss_pred chhccCChHhHHHHHH-HhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCC-------------------CCCcceec
Q psy17050 92 CYKAFADGGTLRKHER-VHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPES-------------------KGATTFEC 151 (295)
Q Consensus 92 C~~~f~~~~~L~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~-------------------~~~~~~~C 151 (295)
|+..+.....+..|+. .+.-.+.|+|+.|+..|+....|-.|+|..|..... -+.++|.|
T Consensus 442 ~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C 521 (1406)
T KOG1146|consen 442 AEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPC 521 (1406)
T ss_pred hhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccc
Confidence 4444444555555533 244446678888888888888888888875543211 13345777
Q ss_pred CcCccccCCHHHHHHHHhh
Q psy17050 152 KVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 152 ~~C~~~f~~~~~L~~H~~~ 170 (295)
..|...+.....|.+|+..
T Consensus 522 ~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 522 RACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred eeeeeeeecchHHHHHHHH
Confidence 7777777777777777654
No 59
>PRK04860 hypothetical protein; Provisional
Probab=95.68 E-value=0.0054 Score=47.53 Aligned_cols=39 Identities=31% Similarity=0.783 Sum_probs=32.6
Q ss_pred CcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCH
Q psy17050 113 KPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSS 161 (295)
Q Consensus 113 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~ 161 (295)
-+|.|. |+. ....++.|.+++. ++++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~------g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVR------GEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhc------CCccEECCCCCceeEEe
Confidence 369998 987 6667889999996 88899999999988754
No 60
>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=95.66 E-value=0.0031 Score=33.15 Aligned_cols=22 Identities=36% Similarity=0.661 Sum_probs=15.1
Q ss_pred eecCcCccccCCHHHHHHHHhh
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~ 170 (295)
|.|..|++.|.+...|..|++.
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 5677777777777777776654
No 61
>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=95.58 E-value=0.0027 Score=33.39 Aligned_cols=21 Identities=19% Similarity=0.507 Sum_probs=14.3
Q ss_pred eecccchhhccCHHHHHHHHH
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKA 46 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~ 46 (295)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 567777777777777766654
No 62
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.39 E-value=0.037 Score=39.80 Aligned_cols=49 Identities=22% Similarity=0.371 Sum_probs=33.3
Q ss_pred cCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhcc
Q psy17050 116 VCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQHS 172 (295)
Q Consensus 116 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 172 (295)
.|--|...|....... ..+......|+|+.|...|-..-+...|...|.
T Consensus 57 ~C~~C~~~f~~~~~~~--------~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSP--------FDELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcCCCCCCccccc--------ccccccccceeCCCCCCccccccchhhhhhccC
Confidence 4888888887643110 001124557999999999988888888877764
No 63
>KOG2893|consensus
Probab=94.87 E-value=0.0069 Score=48.92 Aligned_cols=42 Identities=33% Similarity=0.630 Sum_probs=22.4
Q ss_pred ecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHH
Q psy17050 27 MCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIH 77 (295)
Q Consensus 27 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H 77 (295)
.|-+|++.|.....|.+|++. +.|+|.+|.+..-+...|..|
T Consensus 12 wcwycnrefddekiliqhqka---------khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA---------KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeeecccccchhhhhhhhhhh---------ccceeeeehhhhccCCCceee
Confidence 455566666555555555543 235555555554444445444
No 64
>KOG2893|consensus
Probab=94.85 E-value=0.0054 Score=49.51 Aligned_cols=47 Identities=38% Similarity=0.834 Sum_probs=38.2
Q ss_pred CcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhh
Q psy17050 113 KPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 113 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 170 (295)
++| |.+|++.|.....|.+|++..| |+|.+|.+..-+-..|..|-..
T Consensus 10 kpw-cwycnrefddekiliqhqkakh----------fkchichkkl~sgpglsihcmq 56 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKAKH----------FKCHICHKKLFSGPGLSIHCMQ 56 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhhcc----------ceeeeehhhhccCCCceeehhh
Confidence 444 8899999999999999988776 8899999888887788777443
No 65
>KOG4173|consensus
Probab=94.40 E-value=0.028 Score=44.46 Aligned_cols=79 Identities=27% Similarity=0.596 Sum_probs=65.7
Q ss_pred ccccccc--cccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhC----------CCCcccCcc--hhh
Q psy17050 57 RIFPCHD--CGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHT----------GEKPYVCPI--CSK 122 (295)
Q Consensus 57 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~----------~~~~~~C~~--C~~ 122 (295)
..|.|++ |...|.+...+..|..+-|+ ..|..|.+.|.+...|..|+...| |.-.|.|-. |+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4577887 88899998888888766554 489999999999999999987543 455799965 999
Q ss_pred hcCCHHHHHHHHHHhc
Q psy17050 123 AFNQRVVLREHIRAHH 138 (295)
Q Consensus 123 ~f~~~~~l~~H~~~~h 138 (295)
.|.+...-..|+-.-|
T Consensus 155 KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhhHHHHhc
Confidence 9999999999998877
No 66
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.94 E-value=0.053 Score=27.83 Aligned_cols=19 Identities=32% Similarity=0.891 Sum_probs=9.7
Q ss_pred cccccccccCChHHHHHHHH
Q psy17050 60 PCHDCGKTFNSRSSQQIHQR 79 (295)
Q Consensus 60 ~C~~C~~~f~~~~~l~~H~~ 79 (295)
.|+.||+.| ....|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 3444555543
No 67
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.87 E-value=0.059 Score=27.68 Aligned_cols=20 Identities=25% Similarity=0.585 Sum_probs=12.0
Q ss_pred eecCcCccccCCHHHHHHHHh
Q psy17050 149 FECKVCGCMLSSSPELCQHLV 169 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~ 169 (295)
..|+.||+.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3466666666 5555666654
No 68
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.50 E-value=0.057 Score=30.06 Aligned_cols=23 Identities=22% Similarity=0.397 Sum_probs=17.3
Q ss_pred ceecccchhhccCHHHHHHHHHh
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKAR 47 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~ 47 (295)
.|.|.+|++.|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888877777777653
No 69
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.36 E-value=0.14 Score=37.00 Aligned_cols=26 Identities=19% Similarity=0.523 Sum_probs=23.3
Q ss_pred ceec----CcCccccCCHHHHHHHHhhccC
Q psy17050 148 TFEC----KVCGCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 148 ~~~C----~~C~~~f~~~~~L~~H~~~h~~ 173 (295)
-|.| ..|+..+.+...+..|++.+|+
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 4899 9999999999999999998875
No 70
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.06 E-value=0.096 Score=29.10 Aligned_cols=23 Identities=26% Similarity=0.561 Sum_probs=19.3
Q ss_pred ceecCcCccccCCHHHHHHHHhh
Q psy17050 148 TFECKVCGCMLSSSPELCQHLVQ 170 (295)
Q Consensus 148 ~~~C~~C~~~f~~~~~L~~H~~~ 170 (295)
.|.|.+|++.|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47899999999988888888764
No 71
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.77 E-value=0.13 Score=37.04 Aligned_cols=24 Identities=29% Similarity=0.595 Sum_probs=13.3
Q ss_pred cccCcchhhhcCCHHHHHHHHHHh
Q psy17050 114 PYVCPICSKAFNQRVVLREHIRAH 137 (295)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~~ 137 (295)
.|.|+.|...|-..-++-.|...|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 455666666655555555555444
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.69 E-value=0.075 Score=32.55 Aligned_cols=29 Identities=17% Similarity=0.405 Sum_probs=19.7
Q ss_pred CCCCceecccchhhccCHHHHHHHHHhcc
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKARHD 49 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 49 (295)
.++.-++|+-||+.|.....+..|....|
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 45556677777777777777777766554
No 73
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=92.03 E-value=0.27 Score=35.53 Aligned_cols=25 Identities=32% Similarity=0.707 Sum_probs=20.2
Q ss_pred cccC----cchhhhcCCHHHHHHHHHHhc
Q psy17050 114 PYVC----PICSKAFNQRVVLREHIRAHH 138 (295)
Q Consensus 114 ~~~C----~~C~~~f~~~~~l~~H~~~~h 138 (295)
.|.| ..|++.+.+...+..|++.+|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 3778 788888888888888888877
No 74
>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=91.56 E-value=0.082 Score=29.17 Aligned_cols=9 Identities=33% Similarity=0.970 Sum_probs=3.9
Q ss_pred ccccccccc
Q psy17050 60 PCHDCGKTF 68 (295)
Q Consensus 60 ~C~~C~~~f 68 (295)
.|..||..+
T Consensus 3 ~C~~CGy~y 11 (33)
T cd00350 3 VCPVCGYIY 11 (33)
T ss_pred ECCCCCCEE
Confidence 344444443
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.70 E-value=0.13 Score=31.60 Aligned_cols=29 Identities=17% Similarity=0.512 Sum_probs=20.6
Q ss_pred CCcceecCcCccccCCHHHHHHHHhhccC
Q psy17050 145 GATTFECKVCGCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 173 (295)
++--+.|+-|+..|....++.+|.+.-|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 55667777777777777777777766544
No 76
>KOG2186|consensus
Probab=89.22 E-value=0.21 Score=41.05 Aligned_cols=49 Identities=35% Similarity=0.633 Sum_probs=32.8
Q ss_pred eecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHHHHHHHHhc
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHT 82 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 82 (295)
|.|..||.... ...+..|+...+ +..|.|-.|+..|.. ..++.|..--+
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCr------n~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCR------NAYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhcc------CCeeEEeeccccccc-chhhhhhhhcc
Confidence 67888887764 345666777763 366778888888876 66777754433
No 77
>KOG2186|consensus
Probab=88.76 E-value=0.26 Score=40.47 Aligned_cols=49 Identities=22% Similarity=0.533 Sum_probs=40.5
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHh
Q psy17050 58 IFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVH 109 (295)
Q Consensus 58 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 109 (295)
.|.|..||.... +..+.+|+-..++ .-|.|-.|+..|.. .....|..--
T Consensus 3 ~FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 3 FFTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred EEehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhc
Confidence 589999999887 5678889988887 66999999999988 6678886533
No 78
>KOG4124|consensus
Probab=88.35 E-value=0.049 Score=46.62 Aligned_cols=58 Identities=29% Similarity=0.591 Sum_probs=44.9
Q ss_pred CCcccCcc--hhhhcCCHHHHHHHHHHhcCCCC-------------CCCCcceecCcCccccCCHHHHHHHHh
Q psy17050 112 EKPYVCPI--CSKAFNQRVVLREHIRAHHSGPE-------------SKGATTFECKVCGCMLSSSPELCQHLV 169 (295)
Q Consensus 112 ~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~-------------~~~~~~~~C~~C~~~f~~~~~L~~H~~ 169 (295)
.++|+|+. |.+.++....|..|....|-.+. ....++|+|++|.+.++....|..|..
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceee
Confidence 46789976 99999999999999877664322 134578999999999998888877743
No 79
>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=86.12 E-value=0.28 Score=27.91 Aligned_cols=34 Identities=24% Similarity=0.548 Sum_probs=18.5
Q ss_pred eecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccC
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFN 69 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~ 69 (295)
+.|+.|+..|.-...... ..+....|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~----------~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLG----------ANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcC----------CCCCEEECCCCCCEEE
Confidence 567777777644433221 1223566777776653
No 80
>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=86.04 E-value=0.68 Score=33.34 Aligned_cols=13 Identities=31% Similarity=0.733 Sum_probs=6.6
Q ss_pred CcccccchhccCC
Q psy17050 86 PYSCRYCYKAFAD 98 (295)
Q Consensus 86 ~~~C~~C~~~f~~ 98 (295)
|..|+.||..|.-
T Consensus 26 PivCP~CG~~~~~ 38 (108)
T PF09538_consen 26 PIVCPKCGTEFPP 38 (108)
T ss_pred CccCCCCCCccCc
Confidence 4455555555543
No 81
>KOG4124|consensus
Probab=85.79 E-value=0.1 Score=44.71 Aligned_cols=61 Identities=16% Similarity=0.220 Sum_probs=45.4
Q ss_pred CCcceecCc--CccccCCHHHHHHHHhhccCC----------------CCcCCCCCCCCccchhhhhccCCCCCCCCCC
Q psy17050 145 GATTFECKV--CGCMLSSSPELCQHLVQHSDE----------------NTAKNRVVPTAPRKYKRRRKLLPHEGDGFPD 205 (295)
Q Consensus 145 ~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~----------------~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 205 (295)
..++|+|++ |.+.++...+|..|...-|.. ...+.+.|+.|.+.++....|..|....+-+
T Consensus 346 ~~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~~~~~ 424 (442)
T KOG4124|consen 346 VDKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTHSHLQ 424 (442)
T ss_pred ecCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeehhhhh
Confidence 356799977 999999999999987653322 1246788999999999888888776655543
No 82
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=85.72 E-value=0.4 Score=34.54 Aligned_cols=30 Identities=23% Similarity=0.644 Sum_probs=18.7
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCH
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSS 161 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~ 161 (295)
..|+.||..|... +..|..|+.||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------------CCCCccCCCCCCccCcc
Confidence 4577777776643 34566677777777544
No 83
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=84.90 E-value=1 Score=38.30 Aligned_cols=93 Identities=24% Similarity=0.423 Sum_probs=52.5
Q ss_pred ccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhCC-----CCc-------ccCcchhhhc
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHTG-----EKP-------YVCPICSKAF 124 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~-----~~~-------~~C~~C~~~f 124 (295)
..|.|+.|.....+ -|..|+.|.........|.+-...--. ++| -.|-.|.-.|
T Consensus 307 gGy~CP~CktkVCs--------------LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~f 372 (421)
T COG5151 307 GGYECPVCKTKVCS--------------LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPF 372 (421)
T ss_pred CceeCCcccceeec--------------CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCC
Confidence 34667777544332 346777777665544444332211101 111 2366676666
Q ss_pred CCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhc
Q psy17050 125 NQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQH 171 (295)
Q Consensus 125 ~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h 171 (295)
.-... +...+......|+|+.|...|-..-+...|...|
T Consensus 373 p~~~~--------~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 373 PKPPV--------SPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred CCCCC--------CcccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 54321 2233334556799999999998888888887776
No 84
>KOG4167|consensus
Probab=84.63 E-value=0.69 Score=43.85 Aligned_cols=30 Identities=20% Similarity=0.485 Sum_probs=24.8
Q ss_pred CCCCCceecccchhhccCHHHHHHHHHhcc
Q psy17050 20 PASPASHMCEDCGEEYWDRQSLLVHKARHD 49 (295)
Q Consensus 20 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 49 (295)
+....-|.|.+|++.|.....+..||++|.
T Consensus 787 ~~~~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 787 TDPTGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CCCCceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 334567999999999999999999999884
No 85
>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=83.68 E-value=0.48 Score=26.30 Aligned_cols=10 Identities=20% Similarity=0.570 Sum_probs=4.4
Q ss_pred cccccchhcc
Q psy17050 87 YSCRYCYKAF 96 (295)
Q Consensus 87 ~~C~~C~~~f 96 (295)
|.|..||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 3444444443
No 86
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=83.08 E-value=0.61 Score=26.25 Aligned_cols=33 Identities=27% Similarity=0.703 Sum_probs=18.6
Q ss_pred eecccchhhccCHHHHHHHHHhcccccCCCCcccccccccccc
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTF 68 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f 68 (295)
..|+.|+..|.-...... ..+...+|..|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~ip----------~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIP----------PKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHCC----------CCCcEEECCCCCCEe
Confidence 457777777644433211 234556677777665
No 87
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.71 E-value=0.21 Score=40.92 Aligned_cols=13 Identities=38% Similarity=0.853 Sum_probs=9.0
Q ss_pred ccCcchhhhcCCH
Q psy17050 115 YVCPICSKAFNQR 127 (295)
Q Consensus 115 ~~C~~C~~~f~~~ 127 (295)
.+|+.||++|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 4788888776643
No 88
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=81.22 E-value=0.74 Score=26.08 Aligned_cols=34 Identities=26% Similarity=0.654 Sum_probs=18.4
Q ss_pred eecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccC
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFN 69 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~ 69 (295)
..|+.|+..|.-...-.. .++...+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~l~----------~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLP----------AGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcc----------cCCcEEECCCCCcEee
Confidence 357777777644332111 1344566777776663
No 89
>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=80.69 E-value=1.7 Score=32.58 Aligned_cols=29 Identities=24% Similarity=0.559 Sum_probs=16.5
Q ss_pred CCCCceecccchhhccCHHHHHHHHHhccccc
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKARHDVIR 52 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 52 (295)
-.+....|-+||+.|+. |..|+..||+..
T Consensus 68 I~~d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 68 ITPDYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp B-SS-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred cccCeeEEccCCcccch---HHHHHHHccCCC
Confidence 34556779999998854 588888887553
No 90
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=80.03 E-value=2.1 Score=26.87 Aligned_cols=8 Identities=50% Similarity=1.298 Sum_probs=4.0
Q ss_pred Ccccccch
Q psy17050 86 PYSCRYCY 93 (295)
Q Consensus 86 ~~~C~~C~ 93 (295)
+|.|+.||
T Consensus 50 ~Y~Cp~CG 57 (61)
T COG2888 50 PYRCPKCG 57 (61)
T ss_pred ceECCCcC
Confidence 35555554
No 91
>PF15269 zf-C2H2_7: Zinc-finger
Probab=79.49 E-value=4.7 Score=23.61 Aligned_cols=30 Identities=23% Similarity=0.438 Sum_probs=21.2
Q ss_pred CCCCCCceecccchhhccCHHHHHHHHHhc
Q psy17050 19 PPASPASHMCEDCGEEYWDRQSLLVHKARH 48 (295)
Q Consensus 19 ~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 48 (295)
++...-.|+|-.|..+...+++|..||+.-
T Consensus 14 p~gkp~~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 14 PPGKPFKYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred CCCCCccceeecCCcccchHHHHHHHHHHH
Confidence 334445677888888888888888888653
No 92
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.40 E-value=0.31 Score=39.92 Aligned_cols=47 Identities=15% Similarity=0.192 Sum_probs=29.3
Q ss_pred CcceecCcCccccCCHHHHHHHHhh-cc---------CCCC--cCCCCCCCCccchhhh
Q psy17050 146 ATTFECKVCGCMLSSSPELCQHLVQ-HS---------DENT--AKNRVVPTAPRKYKRR 192 (295)
Q Consensus 146 ~~~~~C~~C~~~f~~~~~L~~H~~~-h~---------~~~~--~~~~~C~~C~~~f~~~ 192 (295)
++.+.|++|++.|.....+....+. .. +.+| +.-.+||.|+..+...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 4567888888888777665555443 11 1122 4557799999876443
No 93
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=78.21 E-value=1.7 Score=33.35 Aligned_cols=39 Identities=13% Similarity=0.538 Sum_probs=25.8
Q ss_pred CCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccC
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFA 97 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 97 (295)
....|.|+.|+..|.....+.. .. ....|.|+.||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEEE
Confidence 4567899999988885443322 11 234499999998653
No 94
>KOG2807|consensus
Probab=78.20 E-value=4.5 Score=34.81 Aligned_cols=27 Identities=15% Similarity=0.413 Sum_probs=21.5
Q ss_pred CCcceecCcCccccCCHHHHHHHHhhc
Q psy17050 145 GATTFECKVCGCMLSSSPELCQHLVQH 171 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~~~L~~H~~~h 171 (295)
+...|.|..|...|-.--+...|-..|
T Consensus 342 ~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 342 SSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCCcEEchhccceeeccchHHHHhhhh
Confidence 445699999999998888888887666
No 95
>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=78.01 E-value=2.5 Score=24.85 Aligned_cols=25 Identities=32% Similarity=0.598 Sum_probs=13.2
Q ss_pred CCcceecCcCccccCCH----HHHHHHHh
Q psy17050 145 GATTFECKVCGCMLSSS----PELCQHLV 169 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~----~~L~~H~~ 169 (295)
+.....|.+|++.+... ..|..|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 34556777777777653 56777764
No 96
>KOG2807|consensus
Probab=77.78 E-value=3.4 Score=35.52 Aligned_cols=26 Identities=23% Similarity=0.397 Sum_probs=21.2
Q ss_pred CcccCcchhhhcCCHHHHHHHHHHhc
Q psy17050 113 KPYVCPICSKAFNQRVVLREHIRAHH 138 (295)
Q Consensus 113 ~~~~C~~C~~~f~~~~~l~~H~~~~h 138 (295)
..|.|..|...|-..-+...|-..|.
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhhc
Confidence 45889999999988888888877774
No 97
>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=75.75 E-value=2.4 Score=32.97 Aligned_cols=17 Identities=12% Similarity=0.219 Sum_probs=7.6
Q ss_pred CcccccchhccCChHhH
Q psy17050 86 PYSCRYCYKAFADGGTL 102 (295)
Q Consensus 86 ~~~C~~C~~~f~~~~~L 102 (295)
-|.|+.|+..|+....+
T Consensus 109 ~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAM 125 (158)
T ss_pred eEECCCCCcEeeHHHHH
Confidence 34444444444444433
No 98
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=75.72 E-value=1.4 Score=34.27 Aligned_cols=23 Identities=43% Similarity=1.011 Sum_probs=13.9
Q ss_pred CcccccchhccCChHhHHHHHHHhCCCCcccCcchh
Q psy17050 86 PYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICS 121 (295)
Q Consensus 86 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~ 121 (295)
.|.|++||+.+. ++-|-+||+||
T Consensus 134 ~~vC~vCGy~~~-------------ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTHE-------------GEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCccc-------------CCCCCcCCCCC
Confidence 466777765542 34566677776
No 99
>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=75.70 E-value=1.1 Score=37.10 Aligned_cols=38 Identities=18% Similarity=0.376 Sum_probs=24.6
Q ss_pred HHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHHHhhc
Q psy17050 132 EHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQHLVQH 171 (295)
Q Consensus 132 ~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h 171 (295)
.|.+...-.. ...+++.|+.|+.....-..|..-.++|
T Consensus 195 dHvrrKg~ky--~k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 195 DHVRRKGFKY--EKGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred hhhhhccccc--ccCCCCCCCCCCCcccccccceeeeecc
Confidence 4666543211 2447889999999888777776655555
No 100
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=74.12 E-value=1.6 Score=32.02 Aligned_cols=30 Identities=13% Similarity=0.229 Sum_probs=18.6
Q ss_pred ccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCH
Q psy17050 115 YVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSS 161 (295)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~ 161 (295)
..|+.||+.|... +..|..|+.||..|.-.
T Consensus 10 r~Cp~cg~kFYDL-----------------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc-----------------CCCCccCCCcCCccCcc
Confidence 4577777766542 34566677777776544
No 101
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=73.65 E-value=1.6 Score=32.36 Aligned_cols=18 Identities=22% Similarity=0.571 Sum_probs=10.1
Q ss_pred CCCCcccccchhccCChH
Q psy17050 83 GERPYSCRYCYKAFADGG 100 (295)
Q Consensus 83 ~~~~~~C~~C~~~f~~~~ 100 (295)
..+.|.|.+|..+.....
T Consensus 77 d~~lYeCnIC~etS~ee~ 94 (140)
T PF05290_consen 77 DPKLYECNICKETSAEER 94 (140)
T ss_pred CCCceeccCcccccchhh
Confidence 345566666666554433
No 102
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=73.44 E-value=2.4 Score=25.24 Aligned_cols=11 Identities=36% Similarity=0.872 Sum_probs=6.4
Q ss_pred ceecccchhhc
Q psy17050 25 SHMCEDCGEEY 35 (295)
Q Consensus 25 ~~~C~~C~~~f 35 (295)
.|+|+.||..|
T Consensus 3 ~y~C~~CG~~~ 13 (46)
T PRK00398 3 EYKCARCGREV 13 (46)
T ss_pred EEECCCCCCEE
Confidence 45666666655
No 103
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.64 E-value=1.5 Score=28.91 Aligned_cols=33 Identities=21% Similarity=0.698 Sum_probs=21.7
Q ss_pred CceecccchhhccCHHHHHHHHHhcccccCCCCcccccccccccc
Q psy17050 24 ASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTF 68 (295)
Q Consensus 24 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f 68 (295)
-.|+|..|+..| .+.+||.. ...-.|+.|+..+
T Consensus 11 Y~Y~c~~cg~~~----dvvq~~~d--------dplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRF----DVVQAMTD--------DPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHH----HHHHhccc--------CccccChhhChHH
Confidence 368888888776 66677652 2344588887644
No 104
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=72.36 E-value=1.8 Score=41.97 Aligned_cols=9 Identities=44% Similarity=1.021 Sum_probs=6.1
Q ss_pred ccccccccc
Q psy17050 60 PCHDCGKTF 68 (295)
Q Consensus 60 ~C~~C~~~f 68 (295)
.|..||..+
T Consensus 437 ~C~~Cg~v~ 445 (730)
T COG1198 437 LCRDCGYIA 445 (730)
T ss_pred ecccCCCcc
Confidence 477777664
No 105
>KOG4377|consensus
Probab=72.11 E-value=1.5 Score=38.74 Aligned_cols=26 Identities=4% Similarity=0.033 Sum_probs=20.3
Q ss_pred CCccchhhhhccCCCCCCCCCCCCCc
Q psy17050 184 TAPRKYKRRRKLLPHEGDGFPDTDDD 209 (295)
Q Consensus 184 ~C~~~f~~~~~l~~H~~~~~~~~~~~ 209 (295)
.|+..+..-+.+..|.+.|...+..+
T Consensus 408 Gc~~tl~s~sqm~shkrkheRqeqge 433 (480)
T KOG4377|consen 408 GCEATLYSVSQMASHKRKHERQEQGE 433 (480)
T ss_pred CCceEEEehhhhhhhhhhhhhhhhcc
Confidence 67888888899999999887764433
No 106
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=71.74 E-value=0.66 Score=35.75 Aligned_cols=16 Identities=25% Similarity=0.571 Sum_probs=9.6
Q ss_pred eecCcCccccCCHHHH
Q psy17050 149 FECKVCGCMLSSSPEL 164 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L 164 (295)
++|+.||+.|.+...+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 6666666666654443
No 107
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=71.17 E-value=3.8 Score=34.94 Aligned_cols=79 Identities=16% Similarity=0.255 Sum_probs=44.3
Q ss_pred ccccccccccccCChHHHHHHHHH----------h--cCCCCcccccchhccCChHhHHHHHH-HhCCCCcccCcchhhh
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRI----------H--TGERPYSCRYCYKAFADGGTLRKHER-VHTGEKPYVCPICSKA 123 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~----------h--~~~~~~~C~~C~~~f~~~~~L~~H~~-~h~~~~~~~C~~C~~~ 123 (295)
-|..|+.|....-...+|.+-..- - ...+.-.|-.|.-.|..... |.- .-+....|.|+.|...
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~---~~~~~~~ss~rY~Ce~CK~~ 397 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPV---SPFDESTSSGRYQCELCKST 397 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCC---Ccccccccccceechhhhhh
Confidence 466788887665544444332110 0 01122347777766654321 111 1122346889999888
Q ss_pred cCCHHHHHHHHHHhc
Q psy17050 124 FNQRVVLREHIRAHH 138 (295)
Q Consensus 124 f~~~~~l~~H~~~~h 138 (295)
|-.......|-..|-
T Consensus 398 FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 398 FCSDCDVFIHETLHF 412 (421)
T ss_pred hhhhhHHHHHHHHhh
Confidence 888888888877763
No 108
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=71.16 E-value=2.5 Score=32.93 Aligned_cols=26 Identities=38% Similarity=0.916 Sum_probs=19.0
Q ss_pred CccccccccccccCChHHHHHHHHHhcCCCCcccccchh
Q psy17050 56 GRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYK 94 (295)
Q Consensus 56 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 94 (295)
++.|.|++||..+. ++-|-+|++||.
T Consensus 132 ~~~~vC~vCGy~~~-------------ge~P~~CPiCga 157 (166)
T COG1592 132 GKVWVCPVCGYTHE-------------GEAPEVCPICGA 157 (166)
T ss_pred CCEEEcCCCCCccc-------------CCCCCcCCCCCC
Confidence 34788888888875 345778888873
No 109
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=70.67 E-value=5.4 Score=25.09 Aligned_cols=10 Identities=40% Similarity=0.996 Sum_probs=5.2
Q ss_pred CCcccccchh
Q psy17050 85 RPYSCRYCYK 94 (295)
Q Consensus 85 ~~~~C~~C~~ 94 (295)
.+|.|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 3455555553
No 110
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=70.60 E-value=3.2 Score=32.93 Aligned_cols=15 Identities=27% Similarity=0.645 Sum_probs=6.6
Q ss_pred cccCcchhhhcCCHH
Q psy17050 114 PYVCPICSKAFNQRV 128 (295)
Q Consensus 114 ~~~C~~C~~~f~~~~ 128 (295)
-|.|+.|+..|+...
T Consensus 117 ~Y~Cp~C~~rytf~e 131 (178)
T PRK06266 117 FFFCPNCHIRFTFDE 131 (178)
T ss_pred EEECCCCCcEEeHHH
Confidence 344444444444433
No 111
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=70.09 E-value=4 Score=24.75 Aligned_cols=22 Identities=45% Similarity=0.712 Sum_probs=13.7
Q ss_pred ceecCcCccccCCH-----HHHHHHHh
Q psy17050 148 TFECKVCGCMLSSS-----PELCQHLV 169 (295)
Q Consensus 148 ~~~C~~C~~~f~~~-----~~L~~H~~ 169 (295)
.-.|..|++.+... +.|.+|++
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 34677777766544 46666666
No 112
>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=70.03 E-value=3.7 Score=33.49 Aligned_cols=30 Identities=17% Similarity=0.528 Sum_probs=20.5
Q ss_pred CCcceecCcCccccCCHHHHHHHHhhccCC
Q psy17050 145 GATTFECKVCGCMLSSSPELCQHLVQHSDE 174 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 174 (295)
.+..|.|+.|+|.|+...-+..|+...|.+
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 455688888888888888888888765544
No 113
>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=69.63 E-value=4.6 Score=20.82 Aligned_cols=19 Identities=26% Similarity=0.441 Sum_probs=13.4
Q ss_pred ecCcCccccCCHHHHHHHHh
Q psy17050 150 ECKVCGCMLSSSPELCQHLV 169 (295)
Q Consensus 150 ~C~~C~~~f~~~~~L~~H~~ 169 (295)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 588888887 5566677765
No 114
>PF15269 zf-C2H2_7: Zinc-finger
Probab=69.13 E-value=3.9 Score=23.93 Aligned_cols=25 Identities=16% Similarity=0.388 Sum_probs=20.8
Q ss_pred cceecCcCccccCCHHHHHHHHhhc
Q psy17050 147 TTFECKVCGCMLSSSPELCQHLVQH 171 (295)
Q Consensus 147 ~~~~C~~C~~~f~~~~~L~~H~~~h 171 (295)
-.|+|-.|...+.-++.|..||+-.
T Consensus 19 ~~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 19 FKYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred ccceeecCCcccchHHHHHHHHHHH
Confidence 3588999999999999999998753
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=69.13 E-value=6.1 Score=30.23 Aligned_cols=12 Identities=25% Similarity=0.811 Sum_probs=5.8
Q ss_pred CcccccchhccC
Q psy17050 86 PYSCRYCYKAFA 97 (295)
Q Consensus 86 ~~~C~~C~~~f~ 97 (295)
-|.|+.|+..|.
T Consensus 99 ~Y~Cp~C~~~y~ 110 (147)
T smart00531 99 YYKCPNCQSKYT 110 (147)
T ss_pred EEECcCCCCEee
Confidence 344555554444
No 116
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=68.78 E-value=2.9 Score=31.97 Aligned_cols=12 Identities=25% Similarity=0.683 Sum_probs=6.7
Q ss_pred cccccchhccCC
Q psy17050 87 YSCRYCYKAFAD 98 (295)
Q Consensus 87 ~~C~~C~~~f~~ 98 (295)
+.|+.|++.|..
T Consensus 125 ~~C~~C~kiyW~ 136 (147)
T PF01927_consen 125 WRCPGCGKIYWE 136 (147)
T ss_pred EECCCCCCEecc
Confidence 556666655543
No 117
>KOG2272|consensus
Probab=68.70 E-value=2 Score=35.41 Aligned_cols=74 Identities=12% Similarity=0.286 Sum_probs=37.5
Q ss_pred CceecccchhhccCHHHHHHHHHh-----cccccCCCCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 24 ASHMCEDCGEEYWDRQSLLVHKAR-----HDVIRTERGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 24 ~~~~C~~C~~~f~~~~~l~~H~~~-----h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
.-|.|.+|++...+...++..-+. +...+..+...|.|..|...... ..|.---..-+ .-.|+|..|++...+
T Consensus 98 ~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~-~~l~fr~d~yH-~yHFkCt~C~keL~s 175 (332)
T KOG2272|consen 98 ACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE-QPLTFRGDPYH-PYHFKCTTCGKELTS 175 (332)
T ss_pred ccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc-ccccccCCCCC-ccceecccccccccc
Confidence 458889998888877777654221 11111223346677766543332 11111000011 122778888877665
Q ss_pred h
Q psy17050 99 G 99 (295)
Q Consensus 99 ~ 99 (295)
.
T Consensus 176 d 176 (332)
T KOG2272|consen 176 D 176 (332)
T ss_pred h
Confidence 4
No 118
>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=68.52 E-value=2.8 Score=32.51 Aligned_cols=34 Identities=15% Similarity=0.389 Sum_probs=26.5
Q ss_pred CCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccC
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFA 97 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 97 (295)
...-|.|+.|+..|.....+. ..|.|+.||....
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 556789999999988777764 2599999997653
No 119
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=68.46 E-value=2.7 Score=24.81 Aligned_cols=10 Identities=40% Similarity=1.145 Sum_probs=4.6
Q ss_pred eecccchhhc
Q psy17050 26 HMCEDCGEEY 35 (295)
Q Consensus 26 ~~C~~C~~~f 35 (295)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 4444444444
No 120
>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=67.60 E-value=1.2 Score=27.27 Aligned_cols=10 Identities=30% Similarity=1.039 Sum_probs=4.6
Q ss_pred eecccchhhc
Q psy17050 26 HMCEDCGEEY 35 (295)
Q Consensus 26 ~~C~~C~~~f 35 (295)
|+|..||..|
T Consensus 6 y~C~~Cg~~f 15 (52)
T TIGR02605 6 YRCTACGHRF 15 (52)
T ss_pred EEeCCCCCEe
Confidence 4444444444
No 121
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=66.77 E-value=11 Score=27.95 Aligned_cols=28 Identities=25% Similarity=0.476 Sum_probs=21.5
Q ss_pred CCCceecccchhhccCHHHHHHHHHhccccc
Q psy17050 22 SPASHMCEDCGEEYWDRQSLLVHKARHDVIR 52 (295)
Q Consensus 22 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 52 (295)
...-..|-++|+.| ..|++|+.+|++..
T Consensus 73 tpD~IicLEDGkkf---KSLKRHL~t~~gmT 100 (148)
T COG4957 73 TPDYIICLEDGKKF---KSLKRHLTTHYGLT 100 (148)
T ss_pred CCCeEEEeccCcch---HHHHHHHhcccCCC
Confidence 33446799999999 57999999987553
No 122
>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=65.62 E-value=1.3 Score=25.46 Aligned_cols=10 Identities=50% Similarity=1.311 Sum_probs=4.6
Q ss_pred eecccchhhc
Q psy17050 26 HMCEDCGEEY 35 (295)
Q Consensus 26 ~~C~~C~~~f 35 (295)
|+|..||..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 4444444444
No 123
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=65.61 E-value=3.4 Score=32.81 Aligned_cols=17 Identities=18% Similarity=0.307 Sum_probs=8.0
Q ss_pred CCcccccchhccCChHh
Q psy17050 85 RPYSCRYCYKAFADGGT 101 (295)
Q Consensus 85 ~~~~C~~C~~~f~~~~~ 101 (295)
.-|.|+.|+..|+....
T Consensus 116 ~~Y~Cp~C~~rytf~eA 132 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEA 132 (178)
T ss_pred CEEECCCCCcEEeHHHH
Confidence 33555555555544433
No 124
>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=64.43 E-value=1.2 Score=27.15 Aligned_cols=11 Identities=36% Similarity=0.583 Sum_probs=6.4
Q ss_pred eecccchhhcc
Q psy17050 26 HMCEDCGEEYW 36 (295)
Q Consensus 26 ~~C~~C~~~f~ 36 (295)
|+|..||..|.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 55666666553
No 125
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=63.24 E-value=6.1 Score=34.36 Aligned_cols=25 Identities=24% Similarity=0.676 Sum_probs=18.2
Q ss_pred CcceecCcCc-cccCCHHHHHHHHhh
Q psy17050 146 ATTFECKVCG-CMLSSSPELCQHLVQ 170 (295)
Q Consensus 146 ~~~~~C~~C~-~~f~~~~~L~~H~~~ 170 (295)
.+-|.|.+|| +++.....+.+|...
T Consensus 372 d~ef~CEICgNyvy~GR~~FdrHF~E 397 (470)
T COG5188 372 DIEFECEICGNYVYYGRDRFDRHFEE 397 (470)
T ss_pred CcceeeeecccccccchHHHHhhhhh
Confidence 4458888887 777777778777643
No 126
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=62.48 E-value=2.7 Score=26.40 Aligned_cols=19 Identities=26% Similarity=0.478 Sum_probs=7.7
Q ss_pred HHHHHHHHhcCCCCccccc
Q psy17050 73 SQQIHQRIHTGERPYSCRY 91 (295)
Q Consensus 73 ~l~~H~~~h~~~~~~~C~~ 91 (295)
.|..|+...-...+..|.+
T Consensus 25 ~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 25 ELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHccCCCCcEECCC
Confidence 4444444333333444444
No 127
>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=62.19 E-value=5.8 Score=29.72 Aligned_cols=28 Identities=21% Similarity=0.358 Sum_probs=16.8
Q ss_pred CcceecCcCccccCCHHHHHHHHhhccCCCC
Q psy17050 146 ATTFECKVCGCMLSSSPELCQHLVQHSDENT 176 (295)
Q Consensus 146 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 176 (295)
+....|-.||+.|+.. .+|++.||+-.+
T Consensus 70 ~d~i~clecGk~~k~L---krHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFKTL---KRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EESBH---HHHHHHTT-S-H
T ss_pred cCeeEEccCCcccchH---HHHHHHccCCCH
Confidence 3447799999999764 889999987643
No 128
>PF14353 CpXC: CpXC protein
Probab=62.06 E-value=6.1 Score=29.33 Aligned_cols=14 Identities=29% Similarity=0.800 Sum_probs=7.0
Q ss_pred ceecCcCccccCCH
Q psy17050 148 TFECKVCGCMLSSS 161 (295)
Q Consensus 148 ~~~C~~C~~~f~~~ 161 (295)
.|.|+.||..|.-.
T Consensus 38 ~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 38 SFTCPSCGHKFRLE 51 (128)
T ss_pred EEECCCCCCceecC
Confidence 45555555555433
No 129
>KOG2593|consensus
Probab=60.62 E-value=5 Score=35.97 Aligned_cols=39 Identities=18% Similarity=0.450 Sum_probs=25.9
Q ss_pred CCccccccccccccCChHHHHHHHHHhcCCCCcccccchhcc
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAF 96 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 96 (295)
....|.|+.|.+.|.....++ ..-.....|.|..|+-..
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGEL 163 (436)
T ss_pred ccccccCCccccchhhhHHHH---hhcccCceEEEecCCCch
Confidence 446789999999887655443 233334558999887643
No 130
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=60.45 E-value=3.5 Score=28.09 Aligned_cols=13 Identities=23% Similarity=0.920 Sum_probs=6.6
Q ss_pred cceecCcCccccC
Q psy17050 147 TTFECKVCGCMLS 159 (295)
Q Consensus 147 ~~~~C~~C~~~f~ 159 (295)
..+.|..|+..|.
T Consensus 52 GIW~C~kCg~~fA 64 (89)
T COG1997 52 GIWKCRKCGAKFA 64 (89)
T ss_pred CeEEcCCCCCeec
Confidence 3455555555553
No 131
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=60.42 E-value=2.5 Score=35.04 Aligned_cols=27 Identities=30% Similarity=0.512 Sum_probs=19.5
Q ss_pred CCCcccCcchhhhcCCHHHHHHHHHHh
Q psy17050 111 GEKPYVCPICSKAFNQRVVLREHIRAH 137 (295)
Q Consensus 111 ~~~~~~C~~C~~~f~~~~~l~~H~~~~ 137 (295)
..+++.|+.|++....-..|.--.++|
T Consensus 206 k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 206 KGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred cCCCCCCCCCCCcccccccceeeeecc
Confidence 347899999998877766665544444
No 132
>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=60.21 E-value=5.1 Score=32.70 Aligned_cols=28 Identities=36% Similarity=0.790 Sum_probs=21.3
Q ss_pred CCCcccCcchhhhcCCHHHHHHHHHHhc
Q psy17050 111 GEKPYVCPICSKAFNQRVVLREHIRAHH 138 (295)
Q Consensus 111 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h 138 (295)
.+..|.|+.|++.|.-..-++.|+...|
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 3456899999999999999999999888
No 133
>KOG2593|consensus
Probab=58.32 E-value=8.4 Score=34.61 Aligned_cols=39 Identities=31% Similarity=0.617 Sum_probs=25.0
Q ss_pred CCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCcccc
Q psy17050 111 GEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCML 158 (295)
Q Consensus 111 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f 158 (295)
....|+|+.|++.|+....++-=-. ..-.|.|..|+-..
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~~~---------~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLLDN---------ETGEFHCENCGGEL 163 (436)
T ss_pred ccccccCCccccchhhhHHHHhhcc---------cCceEEEecCCCch
Confidence 3456888888888887766532111 23468888886543
No 134
>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=57.51 E-value=6.7 Score=24.33 Aligned_cols=10 Identities=50% Similarity=1.152 Sum_probs=6.8
Q ss_pred eecccchhhc
Q psy17050 26 HMCEDCGEEY 35 (295)
Q Consensus 26 ~~C~~C~~~f 35 (295)
|+|+.||..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 5677777755
No 135
>PRK04023 DNA polymerase II large subunit; Validated
Probab=57.45 E-value=8.2 Score=38.62 Aligned_cols=9 Identities=22% Similarity=0.696 Sum_probs=5.2
Q ss_pred ccCcchhhh
Q psy17050 115 YVCPICSKA 123 (295)
Q Consensus 115 ~~C~~C~~~ 123 (295)
+.|+.|+..
T Consensus 664 y~CPKCG~E 672 (1121)
T PRK04023 664 DECEKCGRE 672 (1121)
T ss_pred CcCCCCCCC
Confidence 556666544
No 136
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=56.30 E-value=7 Score=23.65 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=9.1
Q ss_pred CcceecCcCcccc
Q psy17050 146 ATTFECKVCGCML 158 (295)
Q Consensus 146 ~~~~~C~~C~~~f 158 (295)
...|.|..||+.|
T Consensus 4 ~~~Y~C~~Cg~~~ 16 (49)
T COG1996 4 MMEYKCARCGREV 16 (49)
T ss_pred eEEEEhhhcCCee
Confidence 3457777777777
No 137
>KOG4167|consensus
Probab=55.79 E-value=3.8 Score=39.13 Aligned_cols=26 Identities=27% Similarity=0.482 Sum_probs=18.7
Q ss_pred CCcccccchhccCChHhHHHHHHHhC
Q psy17050 85 RPYSCRYCYKAFADGGTLRKHERVHT 110 (295)
Q Consensus 85 ~~~~C~~C~~~f~~~~~L~~H~~~h~ 110 (295)
..|.|..|++.|.....+..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 34777777777777777777777775
No 138
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=55.17 E-value=10 Score=33.06 Aligned_cols=23 Identities=13% Similarity=-0.024 Sum_probs=17.7
Q ss_pred CCCCCCCCc-cchhhhhccCCCCC
Q psy17050 178 KNRVVPTAP-RKYKRRRKLLPHEG 200 (295)
Q Consensus 178 ~~~~C~~C~-~~f~~~~~l~~H~~ 200 (295)
..+.|..|+ +.+.-+..+.+|-.
T Consensus 373 ~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 373 IEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred cceeeeecccccccchHHHHhhhh
Confidence 457799998 77877888877764
No 139
>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=54.47 E-value=6.7 Score=20.24 Aligned_cols=8 Identities=38% Similarity=1.061 Sum_probs=4.3
Q ss_pred cCcCcccc
Q psy17050 151 CKVCGCML 158 (295)
Q Consensus 151 C~~C~~~f 158 (295)
|+.||..|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 55555555
No 140
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=52.88 E-value=16 Score=21.16 Aligned_cols=23 Identities=26% Similarity=0.771 Sum_probs=12.9
Q ss_pred ccccccccccC--ChHHHHHHHHHh
Q psy17050 59 FPCHDCGKTFN--SRSSQQIHQRIH 81 (295)
Q Consensus 59 ~~C~~C~~~f~--~~~~l~~H~~~h 81 (295)
-.|+.||..|. ...+-..|.+.|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 35667766654 334455565555
No 141
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.27 E-value=12 Score=37.56 Aligned_cols=51 Identities=29% Similarity=0.602 Sum_probs=34.6
Q ss_pred ccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHH
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRA 136 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 136 (295)
....|+.||... ..+.|+.||.. ....+.|+.|+.
T Consensus 625 g~RfCpsCG~~t----------------~~frCP~CG~~---------------Te~i~fCP~CG~-------------- 659 (1121)
T PRK04023 625 GRRKCPSCGKET----------------FYRRCPFCGTH---------------TEPVYRCPRCGI-------------- 659 (1121)
T ss_pred cCccCCCCCCcC----------------CcccCCCCCCC---------------CCcceeCccccC--------------
Confidence 455799998873 23789999876 245578999932
Q ss_pred hcCCCCCCCCcceecCcCccccCC
Q psy17050 137 HHSGPESKGATTFECKVCGCMLSS 160 (295)
Q Consensus 137 ~h~~~~~~~~~~~~C~~C~~~f~~ 160 (295)
....+.|+.|+..-..
T Consensus 660 --------~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 660 --------EVEEDECEKCGREPTP 675 (1121)
T ss_pred --------cCCCCcCCCCCCCCCc
Confidence 2234779999876643
No 142
>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=51.94 E-value=7.3 Score=20.90 Aligned_cols=10 Identities=30% Similarity=0.876 Sum_probs=4.9
Q ss_pred CcceecCcCc
Q psy17050 146 ATTFECKVCG 155 (295)
Q Consensus 146 ~~~~~C~~C~ 155 (295)
...|.|+.|+
T Consensus 17 ~~~~vCp~C~ 26 (30)
T PF08274_consen 17 GELLVCPECG 26 (30)
T ss_dssp SSSEEETTTT
T ss_pred CCEEeCCccc
Confidence 3445555554
No 143
>PF05570 DUF765: Circovirus protein of unknown function (DUF765); InterPro: IPR008484 This family consists of several short (27-30aa) porcine and bovine circovirus ORF6 proteins of unknown function.
Probab=50.30 E-value=10 Score=19.21 Aligned_cols=22 Identities=27% Similarity=0.351 Sum_probs=15.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC
Q psy17050 1 MAFHKPTASAARPAASKGPPAS 22 (295)
Q Consensus 1 ~~~~~p~~~~~~~~~~~~~~~~ 22 (295)
||..+|-.+++.-.++..+.+.
T Consensus 1 masstpaspapsdils~~pqs~ 22 (29)
T PF05570_consen 1 MASSTPASPAPSDILSSKPQSK 22 (29)
T ss_pred CCcCCCCCCCcHHHHhcCcccc
Confidence 8889998888765555555443
No 144
>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=49.72 E-value=5.6 Score=21.68 Aligned_cols=9 Identities=33% Similarity=1.032 Sum_probs=4.1
Q ss_pred ccccccccc
Q psy17050 60 PCHDCGKTF 68 (295)
Q Consensus 60 ~C~~C~~~f 68 (295)
.|..|+..+
T Consensus 2 ~C~~Cg~~~ 10 (32)
T PF03604_consen 2 ICGECGAEV 10 (32)
T ss_dssp BESSSSSSE
T ss_pred CCCcCCCee
Confidence 344444444
No 145
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=49.44 E-value=8.4 Score=26.47 Aligned_cols=14 Identities=43% Similarity=0.887 Sum_probs=7.7
Q ss_pred CCcccccchhccCC
Q psy17050 85 RPYSCRYCYKAFAD 98 (295)
Q Consensus 85 ~~~~C~~C~~~f~~ 98 (295)
+|-.|..||+.|.+
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34556666666544
No 146
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=48.58 E-value=16 Score=37.69 Aligned_cols=9 Identities=33% Similarity=0.803 Sum_probs=4.8
Q ss_pred cccccchhc
Q psy17050 87 YSCRYCYKA 95 (295)
Q Consensus 87 ~~C~~C~~~ 95 (295)
|.|+.|+..
T Consensus 693 y~CPsCGae 701 (1337)
T PRK14714 693 YVCPDCGAE 701 (1337)
T ss_pred eeCccCCCc
Confidence 455555554
No 147
>KOG3408|consensus
Probab=47.91 E-value=18 Score=26.43 Aligned_cols=27 Identities=19% Similarity=0.429 Sum_probs=21.1
Q ss_pred CCCCceecccchhhccCHHHHHHHHHh
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKAR 47 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~~ 47 (295)
+|-..|-|-.|.+.|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 344568888888888888888888764
No 148
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=47.10 E-value=14 Score=21.93 Aligned_cols=7 Identities=57% Similarity=1.621 Sum_probs=3.2
Q ss_pred ccccccc
Q psy17050 59 FPCHDCG 65 (295)
Q Consensus 59 ~~C~~C~ 65 (295)
+.|+.||
T Consensus 19 ~~CP~Cg 25 (46)
T PF12760_consen 19 FVCPHCG 25 (46)
T ss_pred CCCCCCC
Confidence 3344444
No 149
>KOG3408|consensus
Probab=46.24 E-value=15 Score=26.80 Aligned_cols=26 Identities=19% Similarity=0.534 Sum_probs=19.2
Q ss_pred CCcccCcchhhhcCCHHHHHHHHHHh
Q psy17050 112 EKPYVCPICSKAFNQRVVLREHIRAH 137 (295)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~l~~H~~~~ 137 (295)
...|-|-.|.+-|.+...|..|.++.
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhcc
Confidence 34577888888888888888887764
No 150
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=45.79 E-value=17 Score=27.13 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=20.8
Q ss_pred eecCcCccccCCHHHHHHHHhhccCCCC
Q psy17050 149 FECKVCGCMLSSSPELCQHLVQHSDENT 176 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~ 176 (295)
..|-.+|+.|+ .|++|+.+|++-.+
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCH
Confidence 67999999995 68999999987644
No 151
>PF12907 zf-met2: Zinc-binding
Probab=45.65 E-value=21 Score=20.56 Aligned_cols=24 Identities=17% Similarity=0.451 Sum_probs=14.8
Q ss_pred eecccchhhc---cCHHHHHHHHHhcc
Q psy17050 26 HMCEDCGEEY---WDRQSLLVHKARHD 49 (295)
Q Consensus 26 ~~C~~C~~~f---~~~~~l~~H~~~h~ 49 (295)
++|.+|-..| .+...|..|...-|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKH 28 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKH 28 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccC
Confidence 5677777444 45566777766544
No 152
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=45.64 E-value=14 Score=28.65 Aligned_cols=16 Identities=31% Similarity=0.821 Sum_probs=7.5
Q ss_pred cccccccccccCChHH
Q psy17050 58 IFPCHDCGKTFNSRSS 73 (295)
Q Consensus 58 ~~~C~~C~~~f~~~~~ 73 (295)
-|.|+.||+.|.-.++
T Consensus 130 f~~C~~CgkiYW~GsH 145 (165)
T COG1656 130 FYRCPKCGKIYWKGSH 145 (165)
T ss_pred eeECCCCcccccCchH
Confidence 3445555555544333
No 153
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=45.04 E-value=27 Score=21.71 Aligned_cols=30 Identities=23% Similarity=0.359 Sum_probs=19.1
Q ss_pred HHHHHHHHHhcCCCCCCCCcceecCcCccccCCHHHHHHH
Q psy17050 128 VVLREHIRAHHSGPESKGATTFECKVCGCMLSSSPELCQH 167 (295)
Q Consensus 128 ~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~L~~H 167 (295)
..|...+|..| +-|-+||..|.+...|..+
T Consensus 17 ~~l~~YLR~~~----------~YC~~Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 17 DKLLSYLREEH----------NYCFWCGTKYDDEEDLERN 46 (55)
T ss_pred HHHHHHHHhhC----------ceeeeeCCccCCHHHHHhC
Confidence 34455556555 5677777777777776543
No 154
>PTZ00064 histone acetyltransferase; Provisional
Probab=44.93 E-value=26 Score=32.39 Aligned_cols=42 Identities=19% Similarity=0.340 Sum_probs=32.0
Q ss_pred CCCCceecccchhhccCHHHHHHHHHhcccccCCCCcccccc
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCH 62 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~ 62 (295)
.-...|.|..|-+.|.+...|..|+.......++|...|.+.
T Consensus 276 ~~d~LYICEfCLkY~~s~~~l~rH~~~C~~rhPPG~EIYR~~ 317 (552)
T PTZ00064 276 NVDTLHFCEYCLDFFCFEDELIRHLSRCQLRHPPGNEIYRKD 317 (552)
T ss_pred CCCeEEEccchhhhhCCHHHHHHHHhcCCCCCCCCCeEEEeC
Confidence 345689999999999999999999886544445676777654
No 155
>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=42.98 E-value=18 Score=18.28 Aligned_cols=8 Identities=38% Similarity=1.215 Sum_probs=4.3
Q ss_pred ceecccch
Q psy17050 25 SHMCEDCG 32 (295)
Q Consensus 25 ~~~C~~C~ 32 (295)
.|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555554
No 156
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=42.83 E-value=30 Score=29.58 Aligned_cols=39 Identities=28% Similarity=0.457 Sum_probs=30.6
Q ss_pred CCCceecccchhhccCHHHHHHHHHhcccccCCCCcccc
Q psy17050 22 SPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFP 60 (295)
Q Consensus 22 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~ 60 (295)
....|.|..|-+.|.+...|..|+.......++|...|.
T Consensus 45 ~~~lyiCe~Clky~~~~~~l~~H~~~C~~r~PPG~eIYr 83 (290)
T PLN03238 45 CTKLYICEYCLKYMRKKKSLLRHLAKCDIRQPPGGGIYG 83 (290)
T ss_pred CCeEEEcCCCcchhCCHHHHHHHHHhCCCCCCCcCEeEe
Confidence 367899999999999999999998865444456666775
No 157
>PHA00626 hypothetical protein
Probab=42.65 E-value=15 Score=22.73 Aligned_cols=15 Identities=27% Similarity=0.530 Sum_probs=12.5
Q ss_pred CcceecCcCccccCC
Q psy17050 146 ATTFECKVCGCMLSS 160 (295)
Q Consensus 146 ~~~~~C~~C~~~f~~ 160 (295)
...|.|+.||..|+.
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 467999999999964
No 158
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=42.30 E-value=7.7 Score=29.21 Aligned_cols=12 Identities=25% Similarity=1.168 Sum_probs=6.7
Q ss_pred cccccccccccC
Q psy17050 58 IFPCHDCGKTFN 69 (295)
Q Consensus 58 ~~~C~~C~~~f~ 69 (295)
.+.|..||..|.
T Consensus 70 ~~~C~~CG~~~~ 81 (135)
T PRK03824 70 VLKCRNCGNEWS 81 (135)
T ss_pred EEECCCCCCEEe
Confidence 355666665554
No 159
>KOG4377|consensus
Probab=41.94 E-value=8.8 Score=34.15 Aligned_cols=112 Identities=21% Similarity=0.378 Sum_probs=67.0
Q ss_pred CCccccc--cccccccCChHHHHHHHHHhcCCC------------Cccccc--chhccCChHhHHHHHHHhCCC------
Q psy17050 55 RGRIFPC--HDCGKTFNSRSSQQIHQRIHTGER------------PYSCRY--CYKAFADGGTLRKHERVHTGE------ 112 (295)
Q Consensus 55 ~~~~~~C--~~C~~~f~~~~~l~~H~~~h~~~~------------~~~C~~--C~~~f~~~~~L~~H~~~h~~~------ 112 (295)
+...|.| +.|+..+.++.++.+|...|.... .|.|.. |.+ +-++...|-..|+..
T Consensus 268 ~rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfr 344 (480)
T KOG4377|consen 268 GREHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFR 344 (480)
T ss_pred cchhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCcee
Confidence 3455777 469988888899999988875432 256643 777 444555665555421
Q ss_pred -CcccCcchh--hhcCCHHHHHHHHHHhcCCCC--C--------------------CCCcceecCc--CccccCCHHHHH
Q psy17050 113 -KPYVCPICS--KAFNQRVVLREHIRAHHSGPE--S--------------------KGATTFECKV--CGCMLSSSPELC 165 (295)
Q Consensus 113 -~~~~C~~C~--~~f~~~~~l~~H~~~~h~~~~--~--------------------~~~~~~~C~~--C~~~f~~~~~L~ 165 (295)
.-|.|..|+ ..|. ...|...|-.... . ..-..|-|.. |+..+.+.+.+.
T Consensus 345 rthfhC~r~gCTdtfK----~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~ 420 (480)
T KOG4377|consen 345 RTHFHCQRIGCTDTFK----DSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMA 420 (480)
T ss_pred cceeEEeccCCccccc----cccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhh
Confidence 236787766 4444 2233322221000 0 0011255655 899999999999
Q ss_pred HHHhhccC
Q psy17050 166 QHLVQHSD 173 (295)
Q Consensus 166 ~H~~~h~~ 173 (295)
.|.+.|..
T Consensus 421 shkrkheR 428 (480)
T KOG4377|consen 421 SHKRKHER 428 (480)
T ss_pred hhhhhhhh
Confidence 99988854
No 160
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.28 E-value=5.6 Score=32.49 Aligned_cols=15 Identities=20% Similarity=0.678 Sum_probs=8.2
Q ss_pred ccccccccccccCCh
Q psy17050 57 RIFPCHDCGKTFNSR 71 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~ 71 (295)
+.+.|++|+..|...
T Consensus 18 k~ieCPvC~tkFkke 32 (267)
T COG1655 18 KTIECPVCNTKFKKE 32 (267)
T ss_pred ceeccCcccchhhhh
Confidence 345566666665543
No 161
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.22 E-value=14 Score=26.35 Aligned_cols=14 Identities=7% Similarity=-0.014 Sum_probs=9.5
Q ss_pred CCcceecCcCcccc
Q psy17050 145 GATTFECKVCGCML 158 (295)
Q Consensus 145 ~~~~~~C~~C~~~f 158 (295)
+..|..|+.||++|
T Consensus 23 NrdPiVsPytG~s~ 36 (129)
T COG4530 23 NRDPIVSPYTGKSY 36 (129)
T ss_pred CCCccccCcccccc
Confidence 44566777777777
No 162
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=41.13 E-value=5.5 Score=27.53 Aligned_cols=32 Identities=34% Similarity=0.676 Sum_probs=18.1
Q ss_pred ccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
..|.|++|++.--.. .....|.|..|++.|..
T Consensus 34 ~ky~Cp~Cgk~~vkR----------~a~GIW~C~~C~~~~AG 65 (90)
T PF01780_consen 34 AKYTCPFCGKTSVKR----------VATGIWKCKKCGKKFAG 65 (90)
T ss_dssp S-BEESSSSSSEEEE----------EETTEEEETTTTEEEE-
T ss_pred CCCcCCCCCCceeEE----------eeeEEeecCCCCCEEeC
Confidence 467788888653211 11234788888877643
No 163
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=40.85 E-value=29 Score=31.73 Aligned_cols=41 Identities=17% Similarity=0.236 Sum_probs=30.9
Q ss_pred CCceecccchhhccCHHHHHHHHHhcccccCCCCccccccc
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHD 63 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~ 63 (295)
...|.|..|-+.|.+...|..|+.......++|...|....
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~C~~~~PPG~eIYr~~~ 236 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKKCDLKHPPGDEIYRHPT 236 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhcCCCCCCCcCeEEEcCC
Confidence 45789999999999999999998755444456767777643
No 164
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=40.73 E-value=14 Score=33.30 Aligned_cols=17 Identities=29% Similarity=0.649 Sum_probs=11.2
Q ss_pred CcceecCcCccccCCHH
Q psy17050 146 ATTFECKVCGCMLSSSP 162 (295)
Q Consensus 146 ~~~~~C~~C~~~f~~~~ 162 (295)
..-|+|+.|+..+....
T Consensus 365 ~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 365 RNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCcccccccccCCccc
Confidence 33677777777776553
No 165
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=39.73 E-value=7.4 Score=23.80 Aligned_cols=26 Identities=15% Similarity=0.478 Sum_probs=11.4
Q ss_pred CCceecccchhhccCHHHHHHHHHhc
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKARH 48 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~h 48 (295)
...|+|+.|+..|=..=++..|..-|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 35677777777775555555554433
No 166
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=39.42 E-value=3.8 Score=36.00 Aligned_cols=13 Identities=15% Similarity=0.503 Sum_probs=4.9
Q ss_pred eecccchhhccCH
Q psy17050 26 HMCEDCGEEYWDR 38 (295)
Q Consensus 26 ~~C~~C~~~f~~~ 38 (295)
+.|..|.+++...
T Consensus 253 v~C~~C~yt~~~~ 265 (344)
T PF09332_consen 253 VTCKQCKYTAFKP 265 (344)
T ss_dssp EEETTT--EESS-
T ss_pred EEcCCCCCcccCc
Confidence 4555555544333
No 167
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=38.17 E-value=15 Score=20.98 Aligned_cols=13 Identities=23% Similarity=0.810 Sum_probs=10.1
Q ss_pred ceecccchhhccC
Q psy17050 25 SHMCEDCGEEYWD 37 (295)
Q Consensus 25 ~~~C~~C~~~f~~ 37 (295)
+|+|..|++.|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7888888888844
No 168
>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=38.01 E-value=22 Score=32.64 Aligned_cols=28 Identities=29% Similarity=0.680 Sum_probs=23.8
Q ss_pred CcccCcchhhhcCCHHHHHHHHHHhcCC
Q psy17050 113 KPYVCPICSKAFNQRVVLREHIRAHHSG 140 (295)
Q Consensus 113 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 140 (295)
+-+.|+.|.+.|.+...+..|+...|.+
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 3478999999999999999999987754
No 169
>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=37.36 E-value=14 Score=21.48 Aligned_cols=13 Identities=38% Similarity=0.874 Sum_probs=9.2
Q ss_pred ceecccchhhccC
Q psy17050 25 SHMCEDCGEEYWD 37 (295)
Q Consensus 25 ~~~C~~C~~~f~~ 37 (295)
.|+|..||..|..
T Consensus 5 ey~C~~Cg~~fe~ 17 (42)
T PF09723_consen 5 EYRCEECGHEFEV 17 (42)
T ss_pred EEEeCCCCCEEEE
Confidence 4778888877743
No 170
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=37.32 E-value=23 Score=29.45 Aligned_cols=12 Identities=33% Similarity=1.068 Sum_probs=7.0
Q ss_pred cccCcchhhhcC
Q psy17050 114 PYVCPICSKAFN 125 (295)
Q Consensus 114 ~~~C~~C~~~f~ 125 (295)
-|.|+.|+..|.
T Consensus 155 ef~C~~C~h~F~ 166 (278)
T PF15135_consen 155 EFHCPKCRHNFR 166 (278)
T ss_pred eeecccccccch
Confidence 356666666555
No 171
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=37.13 E-value=5.6 Score=38.12 Aligned_cols=59 Identities=24% Similarity=0.464 Sum_probs=37.5
Q ss_pred ccccchhccCChHhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCcccc
Q psy17050 88 SCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCML 158 (295)
Q Consensus 88 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f 158 (295)
.|..||-+|+....|-.-....+-..---|+.|.+.|.+..+-+.|. .+..|+.||-..
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHA------------Qp~aCp~CGP~~ 183 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHA------------QPIACPKCGPHL 183 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccccccc------------ccccCcccCCCe
Confidence 48888888877666654433222112235999999988887744443 345699998644
No 172
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=37.05 E-value=19 Score=26.20 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=5.3
Q ss_pred ccccccccccC
Q psy17050 59 FPCHDCGKTFN 69 (295)
Q Consensus 59 ~~C~~C~~~f~ 69 (295)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PRK12380 71 AWCWDCSQVVE 81 (113)
T ss_pred EEcccCCCEEe
Confidence 34555554443
No 173
>KOG1280|consensus
Probab=37.00 E-value=30 Score=30.28 Aligned_cols=28 Identities=18% Similarity=0.463 Sum_probs=22.2
Q ss_pred CcccCcchhhhcCCHHHHHHHHHHhcCC
Q psy17050 113 KPYVCPICSKAFNQRVVLREHIRAHHSG 140 (295)
Q Consensus 113 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 140 (295)
..|.|++|+..=.+...|..|....|..
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcc
Confidence 4688888888888888888888887743
No 174
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=36.30 E-value=11 Score=23.38 Aligned_cols=9 Identities=56% Similarity=1.357 Sum_probs=4.3
Q ss_pred ccccccccC
Q psy17050 61 CHDCGKTFN 69 (295)
Q Consensus 61 C~~C~~~f~ 69 (295)
|..|+..|.
T Consensus 8 C~~Cg~~~~ 16 (54)
T PF14446_consen 8 CPVCGKKFK 16 (54)
T ss_pred ChhhCCccc
Confidence 444444443
No 175
>PLN03239 histone acetyltransferase; Provisional
Probab=35.11 E-value=39 Score=29.76 Aligned_cols=40 Identities=18% Similarity=0.264 Sum_probs=27.5
Q ss_pred CCceecccchhhccCHHHHHHHHHh---cccccCCCCcccccc
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKAR---HDVIRTERGRIFPCH 62 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~---h~~~~~~~~~~~~C~ 62 (295)
+..|.|..|-+.|.+...|..|+.. .....++|...|...
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~~~~~c~~~~PPG~eIYR~~ 146 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQAKELPKERRHPPGNEIYRCG 146 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHHhhccccCcCCCCCeEEEeC
Confidence 4678888888888888888888754 222224566667654
No 176
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=35.00 E-value=13 Score=25.75 Aligned_cols=32 Identities=28% Similarity=0.529 Sum_probs=19.3
Q ss_pred ccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
..|.|++|++.--.. .....|.|..|++.|.-
T Consensus 35 a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 35 AKYFCPFCGKHAVKR----------QAVGIWRCKGCKKTVAG 66 (90)
T ss_pred CCccCCCCCCCceee----------eeeEEEEcCCCCCEEeC
Confidence 567888887532111 12245788888887754
No 177
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=34.90 E-value=15 Score=21.08 Aligned_cols=7 Identities=43% Similarity=1.298 Sum_probs=2.6
Q ss_pred ccccccc
Q psy17050 61 CHDCGKT 67 (295)
Q Consensus 61 C~~C~~~ 67 (295)
|+.|+-.
T Consensus 22 C~~C~G~ 28 (41)
T PF13453_consen 22 CPSCGGI 28 (41)
T ss_pred CCCCCeE
Confidence 3333333
No 178
>KOG0717|consensus
Probab=33.82 E-value=24 Score=32.15 Aligned_cols=22 Identities=18% Similarity=0.433 Sum_probs=19.9
Q ss_pred eecccchhhccCHHHHHHHHHh
Q psy17050 26 HMCEDCGEEYWDRQSLLVHKAR 47 (295)
Q Consensus 26 ~~C~~C~~~f~~~~~l~~H~~~ 47 (295)
+-|.+|++.|.+...|..|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 8899999999999999999764
No 179
>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=33.77 E-value=19 Score=23.29 Aligned_cols=29 Identities=31% Similarity=0.597 Sum_probs=11.1
Q ss_pred cccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 58 IFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 58 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
.-.|..|++.|.. ..+.+.|..||..|-.
T Consensus 9 ~~~C~~C~~~F~~------------~~rrhhCr~CG~~vC~ 37 (69)
T PF01363_consen 9 ASNCMICGKKFSL------------FRRRHHCRNCGRVVCS 37 (69)
T ss_dssp -SB-TTT--B-BS------------SS-EEE-TTT--EEEC
T ss_pred CCcCcCcCCcCCC------------ceeeEccCCCCCEECC
Confidence 3457777777742 1334567777766543
No 180
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=33.23 E-value=13 Score=25.80 Aligned_cols=32 Identities=31% Similarity=0.623 Sum_probs=18.6
Q ss_pred ccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
..|.|++|++.--.. .....|.|..|++.|.-
T Consensus 34 a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AG 65 (91)
T TIGR00280 34 AKYVCPFCGKKTVKR----------GSTGIWTCRKCGAKFAG 65 (91)
T ss_pred cCccCCCCCCCceEE----------EeeEEEEcCCCCCEEeC
Confidence 467788887542110 12234788888887754
No 181
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=32.99 E-value=1.9 Score=37.16 Aligned_cols=13 Identities=23% Similarity=0.644 Sum_probs=5.3
Q ss_pred CCCcccccchhcc
Q psy17050 84 ERPYSCRYCYKAF 96 (295)
Q Consensus 84 ~~~~~C~~C~~~f 96 (295)
.+-..|..|+..+
T Consensus 195 ~R~L~Cs~C~t~W 207 (290)
T PF04216_consen 195 KRYLHCSLCGTEW 207 (290)
T ss_dssp EEEEEETTT--EE
T ss_pred cEEEEcCCCCCee
Confidence 3444555555443
No 182
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=32.52 E-value=36 Score=32.91 Aligned_cols=12 Identities=25% Similarity=0.600 Sum_probs=8.0
Q ss_pred cCcchhhhcCCH
Q psy17050 116 VCPICSKAFNQR 127 (295)
Q Consensus 116 ~C~~C~~~f~~~ 127 (295)
.|+.||......
T Consensus 43 fC~~CG~~~~~~ 54 (645)
T PRK14559 43 HCPNCGAETGTI 54 (645)
T ss_pred cccccCCcccch
Confidence 577777766654
No 183
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=32.47 E-value=22 Score=32.17 Aligned_cols=31 Identities=13% Similarity=0.214 Sum_probs=19.9
Q ss_pred ecCcCccccCCHHHHHHHHhhccCCCCcCCCCCCCCccchhhhhc
Q psy17050 150 ECKVCGCMLSSSPELCQHLVQHSDENTAKNRVVPTAPRKYKRRRK 194 (295)
Q Consensus 150 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~C~~C~~~f~~~~~ 194 (295)
.|+.||.+..+... ..|.|+.|++.+.....
T Consensus 352 ~Cp~Cg~~m~S~G~--------------~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPRCGGRMKSAGR--------------NGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCccCCchhhcCC--------------CCcccccccccCCcccc
Confidence 48888887777632 14667777777655443
No 184
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=32.18 E-value=20 Score=27.41 Aligned_cols=36 Identities=19% Similarity=0.570 Sum_probs=20.0
Q ss_pred CCCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccc
Q psy17050 22 SPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKT 67 (295)
Q Consensus 22 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~ 67 (295)
..-+|.|. |+..|.+. +.|-..- .++ .|.|..|+..
T Consensus 114 ~~~~Y~C~-C~q~~l~~---RRhn~~~-----~g~-~YrC~~C~gk 149 (156)
T COG3091 114 TTYPYRCQ-CQQHYLRI---RRHNTVR-----RGE-VYRCGKCGGK 149 (156)
T ss_pred cceeEEee-cCCccchh---hhccccc-----ccc-eEEeccCCce
Confidence 34567888 88776432 2222221 133 7888888754
No 185
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=32.18 E-value=8.9 Score=26.92 Aligned_cols=40 Identities=25% Similarity=0.536 Sum_probs=21.8
Q ss_pred CCCCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccC
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFN 69 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~ 69 (295)
.-++.|.|+.||..-...-.+. .........|..||..|.
T Consensus 18 ~L~k~FtCp~Cghe~vs~ctvk---------k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 18 VLPKTFTCPRCGHEKVSSCTVK---------KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred cCCceEecCccCCeeeeEEEEE---------ecCceeEEEcccCcceEE
Confidence 3467788888877543322211 112334456777776664
No 186
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=31.86 E-value=21 Score=20.68 Aligned_cols=10 Identities=30% Similarity=0.870 Sum_probs=4.8
Q ss_pred cccccccccc
Q psy17050 58 IFPCHDCGKT 67 (295)
Q Consensus 58 ~~~C~~C~~~ 67 (295)
.+.|..||..
T Consensus 19 ~~vC~~CG~V 28 (43)
T PF08271_consen 19 ELVCPNCGLV 28 (43)
T ss_dssp EEEETTT-BB
T ss_pred eEECCCCCCE
Confidence 3456666544
No 187
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=31.63 E-value=25 Score=30.19 Aligned_cols=11 Identities=18% Similarity=0.576 Sum_probs=6.1
Q ss_pred ccccccccccC
Q psy17050 59 FPCHDCGKTFN 69 (295)
Q Consensus 59 ~~C~~C~~~f~ 69 (295)
+.|+.|+.-|.
T Consensus 46 ~vc~~c~~h~r 56 (285)
T TIGR00515 46 EVCPKCDHHMR 56 (285)
T ss_pred CCCCCCCCcCc
Confidence 44666665554
No 188
>KOG2747|consensus
Probab=31.49 E-value=46 Score=29.85 Aligned_cols=37 Identities=22% Similarity=0.284 Sum_probs=23.1
Q ss_pred CCceecccchhhccCHHHHHHHHHhcccccCCCCccc
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIF 59 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~ 59 (295)
.+.|.|..|-+.+.++..|..|+.......++|...|
T Consensus 156 ~~lYiCEfCLkY~~s~~~l~rH~~kC~~rhPPG~EIY 192 (396)
T KOG2747|consen 156 DKLYICEFCLKYMKSRTSLQRHLKKCKLRHPPGNEIY 192 (396)
T ss_pred CeEEEehHHHhHhchHHHHHHHHHhcCCCCCCcceee
Confidence 4567777777777777777777766543333444333
No 189
>KOG1280|consensus
Probab=31.07 E-value=42 Score=29.35 Aligned_cols=41 Identities=20% Similarity=0.483 Sum_probs=31.4
Q ss_pred CCcceecCcCccccCCHHHHHHHHhhccCCCCcCCCCCCCCc
Q psy17050 145 GATTFECKVCGCMLSSSPELCQHLVQHSDENTAKNRVVPTAP 186 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~C~~C~ 186 (295)
.+..|.|++|++.=.+...|..|....|.+-. -...|+.|.
T Consensus 76 ~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~-~~~icp~c~ 116 (381)
T KOG1280|consen 76 DPQSFTCPYCGIMGFTERQFGTHVLSQHPEAS-TSVICPLCA 116 (381)
T ss_pred ccccccCCcccccccchhHHHHHhhhcCcccC-cceeeeccc
Confidence 44579999999999999999999887766544 445566554
No 190
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.76 E-value=12 Score=36.59 Aligned_cols=11 Identities=27% Similarity=0.721 Sum_probs=7.2
Q ss_pred ccccccccccc
Q psy17050 57 RIFPCHDCGKT 67 (295)
Q Consensus 57 ~~~~C~~C~~~ 67 (295)
..++|+.|+..
T Consensus 443 ~v~~Cp~Cd~~ 453 (730)
T COG1198 443 YIAECPNCDSP 453 (730)
T ss_pred CcccCCCCCcc
Confidence 45667777755
No 191
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=30.69 E-value=15 Score=31.84 Aligned_cols=15 Identities=27% Similarity=0.541 Sum_probs=8.1
Q ss_pred CcceecCcCccccCC
Q psy17050 146 ATTFECKVCGCMLSS 160 (295)
Q Consensus 146 ~~~~~C~~C~~~f~~ 160 (295)
.+...|..|+.-++.
T Consensus 250 ~r~e~C~~C~~YlK~ 264 (309)
T PRK03564 250 VKAESCGDCGTYLKI 264 (309)
T ss_pred eEeeeccccccccee
Confidence 345566666654443
No 192
>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=30.16 E-value=20 Score=26.12 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=5.8
Q ss_pred ccccccccccC
Q psy17050 59 FPCHDCGKTFN 69 (295)
Q Consensus 59 ~~C~~C~~~f~ 69 (295)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 44555555554
No 193
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=30.07 E-value=24 Score=18.62 Aligned_cols=10 Identities=20% Similarity=0.863 Sum_probs=3.2
Q ss_pred cccccccccc
Q psy17050 57 RIFPCHDCGK 66 (295)
Q Consensus 57 ~~~~C~~C~~ 66 (295)
..|.|..|+.
T Consensus 14 ~~Y~C~~Cdf 23 (30)
T PF07649_consen 14 WFYRCSECDF 23 (30)
T ss_dssp -EEE-TTT--
T ss_pred ceEECccCCC
Confidence 3455555544
No 194
>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=29.88 E-value=41 Score=31.03 Aligned_cols=26 Identities=19% Similarity=0.349 Sum_probs=22.5
Q ss_pred ceecCcCccccCCHHHHHHHHhhccC
Q psy17050 148 TFECKVCGCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 148 ~~~C~~C~~~f~~~~~L~~H~~~h~~ 173 (295)
-+.|+.|.+.|.....+..|+...|.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~ 82 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHP 82 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhh
Confidence 36899999999999999999986554
No 195
>KOG2636|consensus
Probab=29.81 E-value=36 Score=30.88 Aligned_cols=46 Identities=15% Similarity=0.184 Sum_probs=27.6
Q ss_pred CCCCCCCceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccccCChHHH
Q psy17050 18 GPPASPASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKTFNSRSSQ 74 (295)
Q Consensus 18 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l 74 (295)
...+.-..+.|..|++.+.....|..|.. + -.|..|++.|.+++..
T Consensus 242 ~~~~s~Eel~~~g~erlk~al~alglk~g---------G--t~~~ra~rlf~Tk~~~ 287 (497)
T KOG2636|consen 242 SGASSVEELYCLGCERLKSALTALGLKCG---------G--TLHERAQRLFSTKSKS 287 (497)
T ss_pred chhhHHHHHHhhchhHHHHHHHHHHHhcC---------C--eecHHHHhhhhhcCcc
Confidence 33344456778888888766667766642 1 1266666666655444
No 196
>KOG1842|consensus
Probab=29.70 E-value=29 Score=31.43 Aligned_cols=26 Identities=27% Similarity=0.356 Sum_probs=17.2
Q ss_pred ceecCcCccccCCHHHHHHHHhhccC
Q psy17050 148 TFECKVCGCMLSSSPELCQHLVQHSD 173 (295)
Q Consensus 148 ~~~C~~C~~~f~~~~~L~~H~~~h~~ 173 (295)
.|.|++|...|.+...|..|+...|.
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhcc
Confidence 46677777777777777777655443
No 197
>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=29.65 E-value=23 Score=20.44 Aligned_cols=11 Identities=36% Similarity=1.041 Sum_probs=5.3
Q ss_pred ceecccchhhc
Q psy17050 25 SHMCEDCGEEY 35 (295)
Q Consensus 25 ~~~C~~C~~~f 35 (295)
.-.|+.|+..|
T Consensus 29 ~~~CpYCg~~y 39 (40)
T PF10276_consen 29 PVVCPYCGTRY 39 (40)
T ss_dssp EEEETTTTEEE
T ss_pred eEECCCCCCEE
Confidence 34455555444
No 198
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=29.27 E-value=32 Score=18.16 Aligned_cols=8 Identities=25% Similarity=1.186 Sum_probs=3.9
Q ss_pred cccccccc
Q psy17050 58 IFPCHDCG 65 (295)
Q Consensus 58 ~~~C~~C~ 65 (295)
.|.|..|+
T Consensus 15 ~Y~C~~c~ 22 (30)
T PF03107_consen 15 FYHCSECC 22 (30)
T ss_pred eEEeCCCC
Confidence 44555444
No 199
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=29.22 E-value=30 Score=25.29 Aligned_cols=11 Identities=36% Similarity=1.168 Sum_probs=5.2
Q ss_pred ccccccccccC
Q psy17050 59 FPCHDCGKTFN 69 (295)
Q Consensus 59 ~~C~~C~~~f~ 69 (295)
+.|..||..|.
T Consensus 72 ~~C~~Cg~~~~ 82 (117)
T PRK00564 72 LECKDCSHVFK 82 (117)
T ss_pred EEhhhCCCccc
Confidence 34555554443
No 200
>KOG2907|consensus
Probab=29.01 E-value=37 Score=24.48 Aligned_cols=13 Identities=23% Similarity=0.851 Sum_probs=8.9
Q ss_pred cccccccccccCC
Q psy17050 58 IFPCHDCGKTFNS 70 (295)
Q Consensus 58 ~~~C~~C~~~f~~ 70 (295)
-|.|..|++.|..
T Consensus 102 FYTC~kC~~k~~e 114 (116)
T KOG2907|consen 102 FYTCPKCKYKFTE 114 (116)
T ss_pred EEEcCccceeeec
Confidence 4777777777653
No 201
>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=28.96 E-value=27 Score=22.54 Aligned_cols=9 Identities=22% Similarity=0.741 Sum_probs=3.9
Q ss_pred cccccchhc
Q psy17050 87 YSCRYCYKA 95 (295)
Q Consensus 87 ~~C~~C~~~ 95 (295)
|.|+.||..
T Consensus 47 ~~C~~Cg~~ 55 (69)
T PF07282_consen 47 FTCPNCGFE 55 (69)
T ss_pred EEcCCCCCE
Confidence 444444443
No 202
>COG1773 Rubredoxin [Energy production and conversion]
Probab=28.76 E-value=23 Score=22.00 Aligned_cols=12 Identities=33% Similarity=0.617 Sum_probs=8.3
Q ss_pred ceecccchhhcc
Q psy17050 25 SHMCEDCGEEYW 36 (295)
Q Consensus 25 ~~~C~~C~~~f~ 36 (295)
.|+|..||..|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 567777777773
No 203
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=28.57 E-value=6.1 Score=26.04 Aligned_cols=7 Identities=71% Similarity=2.038 Sum_probs=3.0
Q ss_pred ccCcchh
Q psy17050 115 YVCPICS 121 (295)
Q Consensus 115 ~~C~~C~ 121 (295)
|.|+.|+
T Consensus 62 ~~C~~C~ 68 (71)
T PF05495_consen 62 YFCPICG 68 (71)
T ss_dssp EEETTTT
T ss_pred ccCcCcC
Confidence 3444443
No 204
>PRK14873 primosome assembly protein PriA; Provisional
Probab=28.26 E-value=26 Score=34.06 Aligned_cols=44 Identities=23% Similarity=0.631 Sum_probs=24.6
Q ss_pred cccccccccCCh---HHHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhCCCCcccCcchhhh
Q psy17050 60 PCHDCGKTFNSR---SSQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHTGEKPYVCPICSKA 123 (295)
Q Consensus 60 ~C~~C~~~f~~~---~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~C~~C~~~ 123 (295)
.|..||..+... ..|.. |.......|.+||+. ..++.|+.||..
T Consensus 385 ~C~~Cg~~~~C~~C~~~L~~----h~~~~~l~Ch~CG~~----------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 385 ACARCRTPARCRHCTGPLGL----PSAGGTPRCRWCGRA----------------APDWRCPRCGSD 431 (665)
T ss_pred EhhhCcCeeECCCCCCceeE----ecCCCeeECCCCcCC----------------CcCccCCCCcCC
Confidence 677777765422 22332 333445677777642 125678888754
No 205
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=28.12 E-value=9.6 Score=20.06 Aligned_cols=18 Identities=22% Similarity=0.475 Sum_probs=9.2
Q ss_pred eecCcCccccCCHHHHHHH
Q psy17050 149 FECKVCGCMLSSSPELCQH 167 (295)
Q Consensus 149 ~~C~~C~~~f~~~~~L~~H 167 (295)
|.|-.|++.| ....++.|
T Consensus 1 ~sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EEETTTTEEE-EGGGTTT-
T ss_pred CeeecCCCCc-CcCCcCCC
Confidence 4566677776 33344444
No 206
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=28.01 E-value=22 Score=30.78 Aligned_cols=16 Identities=19% Similarity=0.289 Sum_probs=8.9
Q ss_pred CCcceecCcCccccCC
Q psy17050 145 GATTFECKVCGCMLSS 160 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~ 160 (295)
+.+...|..|+.-.+.
T Consensus 249 ~~r~e~C~~C~~YlK~ 264 (305)
T TIGR01562 249 VLKAETCDSCQGYLKI 264 (305)
T ss_pred ceEEeeccccccchhh
Confidence 3455667666654443
No 207
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=27.77 E-value=34 Score=21.04 Aligned_cols=12 Identities=25% Similarity=1.055 Sum_probs=6.2
Q ss_pred ccccccccccCC
Q psy17050 59 FPCHDCGKTFNS 70 (295)
Q Consensus 59 ~~C~~C~~~f~~ 70 (295)
++|+.||..|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 455555555543
No 208
>KOG4727|consensus
Probab=27.45 E-value=48 Score=25.86 Aligned_cols=26 Identities=19% Similarity=0.294 Sum_probs=16.9
Q ss_pred CCCCceecccchhhccCHHHHHHHHH
Q psy17050 21 ASPASHMCEDCGEEYWDRQSLLVHKA 46 (295)
Q Consensus 21 ~~~~~~~C~~C~~~f~~~~~l~~H~~ 46 (295)
+....|-|.+|+-+|.....+..|+.
T Consensus 71 sq~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 71 SQKGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cccCceeeeecceeehhhHHHHHHhc
Confidence 33445777777777777777766654
No 209
>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=27.33 E-value=22 Score=20.67 Aligned_cols=14 Identities=21% Similarity=0.724 Sum_probs=8.1
Q ss_pred CceecccchhhccC
Q psy17050 24 ASHMCEDCGEEYWD 37 (295)
Q Consensus 24 ~~~~C~~C~~~f~~ 37 (295)
-+|+|..|++.|=.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 46788888888743
No 210
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=27.23 E-value=32 Score=29.71 Aligned_cols=34 Identities=12% Similarity=0.212 Sum_probs=17.0
Q ss_pred CCccccccccccccCChHHHHHHHHHhcCCCCcccccchhccC
Q psy17050 55 RGRIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFA 97 (295)
Q Consensus 55 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 97 (295)
.+-+.+|+.|+.....+. |... .+.|+.|+..|.
T Consensus 35 ~~lw~kc~~C~~~~~~~~-l~~~--------~~vcp~c~~h~r 68 (296)
T CHL00174 35 KHLWVQCENCYGLNYKKF-LKSK--------MNICEQCGYHLK 68 (296)
T ss_pred CCCeeECCCccchhhHHH-HHHc--------CCCCCCCCCCcC
Confidence 334566666665543222 2111 256666666554
No 211
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=27.20 E-value=17 Score=25.12 Aligned_cols=32 Identities=31% Similarity=0.632 Sum_probs=18.8
Q ss_pred ccccccccccccCChHHHHHHHHHhcCCCCcccccchhccCC
Q psy17050 57 RIFPCHDCGKTFNSRSSQQIHQRIHTGERPYSCRYCYKAFAD 98 (295)
Q Consensus 57 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 98 (295)
..|.|++|++.--.. .....|.|..|++.|.-
T Consensus 35 a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~AG 66 (90)
T PRK03976 35 AKHVCPVCGRPKVKR----------VGTGIWECRKCGAKFAG 66 (90)
T ss_pred cCccCCCCCCCceEE----------EEEEEEEcCCCCCEEeC
Confidence 467788886442111 12234788888887754
No 212
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=26.87 E-value=40 Score=20.62 Aligned_cols=9 Identities=56% Similarity=1.449 Sum_probs=4.1
Q ss_pred ccccccccC
Q psy17050 61 CHDCGKTFN 69 (295)
Q Consensus 61 C~~C~~~f~ 69 (295)
|..|++.|.
T Consensus 5 C~~C~~~F~ 13 (57)
T cd00065 5 CMGCGKPFT 13 (57)
T ss_pred CcccCcccc
Confidence 444444443
No 213
>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=26.65 E-value=30 Score=24.39 Aligned_cols=13 Identities=23% Similarity=0.790 Sum_probs=10.2
Q ss_pred Cceecccchhhcc
Q psy17050 24 ASHMCEDCGEEYW 36 (295)
Q Consensus 24 ~~~~C~~C~~~f~ 36 (295)
++++|..||..|.
T Consensus 78 ~~~rC~eCG~~fk 90 (97)
T cd00924 78 KPKRCPECGHVFK 90 (97)
T ss_pred CceeCCCCCcEEE
Confidence 5788888888874
No 214
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=26.59 E-value=52 Score=23.39 Aligned_cols=24 Identities=25% Similarity=0.631 Sum_probs=20.2
Q ss_pred CCceecccchhhccCHHHHHHHHH
Q psy17050 23 PASHMCEDCGEEYWDRQSLLVHKA 46 (295)
Q Consensus 23 ~~~~~C~~C~~~f~~~~~l~~H~~ 46 (295)
-..|-|-+|.+.|.+...|..|.+
T Consensus 53 lGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 53 LGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CceeeeehhHHHHHHHHHHHHHhc
Confidence 346889999999999999999875
No 215
>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=26.53 E-value=22 Score=35.09 Aligned_cols=11 Identities=36% Similarity=0.745 Sum_probs=0.0
Q ss_pred ccccccccccc
Q psy17050 57 RIFPCHDCGKT 67 (295)
Q Consensus 57 ~~~~C~~C~~~ 67 (295)
..+.|+.||..
T Consensus 654 ~~r~Cp~Cg~~ 664 (900)
T PF03833_consen 654 GRRRCPKCGKE 664 (900)
T ss_dssp -----------
T ss_pred ecccCcccCCc
Confidence 34567777654
No 216
>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=26.30 E-value=34 Score=18.79 Aligned_cols=24 Identities=17% Similarity=0.389 Sum_probs=14.1
Q ss_pred CceecccchhhccCHHHHHHHHHhc
Q psy17050 24 ASHMCEDCGEEYWDRQSLLVHKARH 48 (295)
Q Consensus 24 ~~~~C~~C~~~f~~~~~l~~H~~~h 48 (295)
..|.|+.|++.+ ....+..|+..-
T Consensus 3 ~~~~C~nC~R~v-~a~RfA~HLekC 26 (33)
T PF08209_consen 3 PYVECPNCGRPV-AASRFAPHLEKC 26 (33)
T ss_dssp -EEE-TTTSSEE-EGGGHHHHHHHH
T ss_pred CeEECCCCcCCc-chhhhHHHHHHH
Confidence 356788887766 445666666543
No 217
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=26.25 E-value=19 Score=33.50 Aligned_cols=18 Identities=17% Similarity=0.156 Sum_probs=12.7
Q ss_pred CCCCCceecccchhhccC
Q psy17050 20 PASPASHMCEDCGEEYWD 37 (295)
Q Consensus 20 ~~~~~~~~C~~C~~~f~~ 37 (295)
....+.|+|..||..|.-
T Consensus 420 ~~~~~~~~c~~c~~~yd~ 437 (479)
T PRK05452 420 ADLGPRMQCSVCQWIYDP 437 (479)
T ss_pred cCCCCeEEECCCCeEECC
Confidence 344567888888888754
No 218
>KOG1994|consensus
Probab=25.96 E-value=64 Score=26.46 Aligned_cols=21 Identities=24% Similarity=0.637 Sum_probs=18.4
Q ss_pred cceecCcCccccCCHHHHHHH
Q psy17050 147 TTFECKVCGCMLSSSPELCQH 167 (295)
Q Consensus 147 ~~~~C~~C~~~f~~~~~L~~H 167 (295)
..|-|-+||..|.+...|..|
T Consensus 238 eh~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred cceEEEEeccccCCHHHHHHh
Confidence 348899999999999999888
No 219
>PLN02294 cytochrome c oxidase subunit Vb
Probab=25.77 E-value=31 Score=26.94 Aligned_cols=14 Identities=21% Similarity=0.392 Sum_probs=9.6
Q ss_pred CCceecccchhhcc
Q psy17050 23 PASHMCEDCGEEYW 36 (295)
Q Consensus 23 ~~~~~C~~C~~~f~ 36 (295)
.++++|++||..|.
T Consensus 139 Gkp~RCpeCG~~fk 152 (174)
T PLN02294 139 GKSFECPVCTQYFE 152 (174)
T ss_pred CCceeCCCCCCEEE
Confidence 45677777777773
No 220
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=25.34 E-value=47 Score=20.66 Aligned_cols=12 Identities=42% Similarity=0.852 Sum_probs=6.7
Q ss_pred cccccccccccc
Q psy17050 57 RIFPCHDCGKTF 68 (295)
Q Consensus 57 ~~~~C~~C~~~f 68 (295)
..|.|+.||..+
T Consensus 13 v~~~Cp~cGipt 24 (55)
T PF13824_consen 13 VNFECPDCGIPT 24 (55)
T ss_pred cCCcCCCCCCcC
Confidence 445666666554
No 221
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=25.19 E-value=30 Score=19.44 Aligned_cols=13 Identities=31% Similarity=0.582 Sum_probs=7.2
Q ss_pred CCceecccchhhc
Q psy17050 23 PASHMCEDCGEEY 35 (295)
Q Consensus 23 ~~~~~C~~C~~~f 35 (295)
.+-|+|..||...
T Consensus 4 ~~~YkC~~CGniV 16 (36)
T PF06397_consen 4 GEFYKCEHCGNIV 16 (36)
T ss_dssp TEEEE-TTT--EE
T ss_pred ccEEEccCCCCEE
Confidence 3568888888765
No 222
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=25.08 E-value=33 Score=20.80 Aligned_cols=12 Identities=42% Similarity=1.187 Sum_probs=6.8
Q ss_pred Cceecccchhhc
Q psy17050 24 ASHMCEDCGEEY 35 (295)
Q Consensus 24 ~~~~C~~C~~~f 35 (295)
+.+.|..||..|
T Consensus 3 k~l~C~dCg~~F 14 (49)
T PF13451_consen 3 KTLTCKDCGAEF 14 (49)
T ss_pred eeEEcccCCCeE
Confidence 455566666555
No 223
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=24.93 E-value=34 Score=20.49 Aligned_cols=8 Identities=38% Similarity=0.982 Sum_probs=3.3
Q ss_pred cccccchh
Q psy17050 87 YSCRYCYK 94 (295)
Q Consensus 87 ~~C~~C~~ 94 (295)
|.|+.|+.
T Consensus 21 ~vC~~Cg~ 28 (52)
T smart00661 21 FVCRKCGY 28 (52)
T ss_pred EECCcCCC
Confidence 34444443
No 224
>KOG0696|consensus
Probab=24.69 E-value=20 Score=32.48 Aligned_cols=35 Identities=29% Similarity=0.489 Sum_probs=15.8
Q ss_pred cccccchhccCChHhHHHH-HHHhCCCCcccCcchh
Q psy17050 87 YSCRYCYKAFADGGTLRKH-ERVHTGEKPYVCPICS 121 (295)
Q Consensus 87 ~~C~~C~~~f~~~~~L~~H-~~~h~~~~~~~C~~C~ 121 (295)
|.|+--++.+.+..--.+| .+.|+=..|--|..||
T Consensus 93 F~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCG 128 (683)
T KOG0696|consen 93 FSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCG 128 (683)
T ss_pred EECCCCCCCCCCCCcccccceeeeecCCCchhhhHH
Confidence 4555555555544444444 2233333344455554
No 225
>KOG1842|consensus
Probab=24.63 E-value=53 Score=29.87 Aligned_cols=27 Identities=26% Similarity=0.648 Sum_probs=16.5
Q ss_pred cccCcchhhhcCCHHHHHHHHHHhcCC
Q psy17050 114 PYVCPICSKAFNQRVVLREHIRAHHSG 140 (295)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~~h~~ 140 (295)
.|.|++|..-|.+...|..|+...|++
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccc
Confidence 456666666666666666666665543
No 226
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=24.51 E-value=43 Score=24.35 Aligned_cols=11 Identities=18% Similarity=0.510 Sum_probs=4.9
Q ss_pred ccccccccccC
Q psy17050 59 FPCHDCGKTFN 69 (295)
Q Consensus 59 ~~C~~C~~~f~ 69 (295)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (114)
T PRK03681 71 CWCETCQQYVT 81 (114)
T ss_pred EEcccCCCeee
Confidence 34444444443
No 227
>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=23.79 E-value=37 Score=20.37 Aligned_cols=40 Identities=18% Similarity=0.374 Sum_probs=19.5
Q ss_pred ceecCcCccccCCHHHHHHHHhhccC---CCCcCCCCCCCCccc
Q psy17050 148 TFECKVCGCMLSSSPELCQHLVQHSD---ENTAKNRVVPTAPRK 188 (295)
Q Consensus 148 ~~~C~~C~~~f~~~~~L~~H~~~h~~---~~~~~~~~C~~C~~~ 188 (295)
.|+|..|+..|.-...-..+ .+--+ +.....+.|+.|+..
T Consensus 1 ky~C~~CgyvYd~~~Gd~~~-~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKGDPEN-GIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEEETTTSBEEETTTBBGGG-TB-TT--GGGS-TT-B-TTTSSB
T ss_pred CcCCCCCCEEEcCCcCCccc-CcCCCCCHHHCCCCCcCcCCCCc
Confidence 38899999888654331111 00000 112356788888754
No 228
>PTZ00448 hypothetical protein; Provisional
Probab=23.63 E-value=52 Score=29.18 Aligned_cols=24 Identities=17% Similarity=0.429 Sum_probs=21.2
Q ss_pred ceecccchhhccCHHHHHHHHHhc
Q psy17050 25 SHMCEDCGEEYWDRQSLLVHKARH 48 (295)
Q Consensus 25 ~~~C~~C~~~f~~~~~l~~H~~~h 48 (295)
.|.|..|+..|.+....+.|+++.
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 688999999999999999998853
No 229
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=23.61 E-value=30 Score=21.03 Aligned_cols=11 Identities=18% Similarity=0.410 Sum_probs=6.2
Q ss_pred Ccccccchhcc
Q psy17050 86 PYSCRYCYKAF 96 (295)
Q Consensus 86 ~~~C~~C~~~f 96 (295)
.+.|..|+..+
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 45666666543
No 230
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=23.43 E-value=7.4 Score=22.38 Aligned_cols=8 Identities=38% Similarity=1.244 Sum_probs=3.2
Q ss_pred eecCcCcc
Q psy17050 149 FECKVCGC 156 (295)
Q Consensus 149 ~~C~~C~~ 156 (295)
|.|..|+.
T Consensus 29 y~C~~C~~ 36 (40)
T smart00440 29 YVCTKCGH 36 (40)
T ss_pred EEeCCCCC
Confidence 33444433
No 231
>KOG2071|consensus
Probab=23.38 E-value=50 Score=31.15 Aligned_cols=30 Identities=30% Similarity=0.512 Sum_probs=23.9
Q ss_pred CCcceecCcCccccCCHHHHHHHHhhccCC
Q psy17050 145 GATTFECKVCGCMLSSSPELCQHLVQHSDE 174 (295)
Q Consensus 145 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 174 (295)
...+-+|..||.+|........||..|.+.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~dw 444 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDDW 444 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhhh
Confidence 345678999999999988888888877543
No 232
>KOG0717|consensus
Probab=23.37 E-value=76 Score=29.09 Aligned_cols=25 Identities=28% Similarity=0.538 Sum_probs=21.4
Q ss_pred CceecccchhhccCHHHHHHHHHhc
Q psy17050 24 ASHMCEDCGEEYWDRQSLLVHKARH 48 (295)
Q Consensus 24 ~~~~C~~C~~~f~~~~~l~~H~~~h 48 (295)
....|..|..+|.++.-|..|+..-
T Consensus 459 a~~~C~tCr~~FdSRnkLF~Hlk~t 483 (508)
T KOG0717|consen 459 ALISCTTCRESFDSRNKLFAHLKKT 483 (508)
T ss_pred hhHhhhhhhhhccchhHHHHHhhhc
Confidence 3478999999999999999998753
No 233
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=23.19 E-value=39 Score=29.16 Aligned_cols=14 Identities=21% Similarity=0.605 Sum_probs=9.2
Q ss_pred ccccccccccCChH
Q psy17050 59 FPCHDCGKTFNSRS 72 (295)
Q Consensus 59 ~~C~~C~~~f~~~~ 72 (295)
+.|+.|+.-|.-..
T Consensus 47 ~vc~~c~~h~rl~a 60 (292)
T PRK05654 47 NVCPKCGHHMRISA 60 (292)
T ss_pred CCCCCCCCCeeCCH
Confidence 46888887776433
No 234
>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 PRK10220 hypothetical protein; Provisional
Probab=21.97 E-value=52 Score=23.62 Aligned_cols=12 Identities=17% Similarity=0.548 Sum_probs=5.9
Q ss_pred ceecCcCccccC
Q psy17050 148 TFECKVCGCMLS 159 (295)
Q Consensus 148 ~~~C~~C~~~f~ 159 (295)
.|.|+.|+..+.
T Consensus 20 ~~vCpeC~hEW~ 31 (111)
T PRK10220 20 MYICPECAHEWN 31 (111)
T ss_pred eEECCcccCcCC
Confidence 355555554443
No 236
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=21.95 E-value=28 Score=25.28 Aligned_cols=10 Identities=50% Similarity=1.411 Sum_probs=4.1
Q ss_pred cccccccccC
Q psy17050 60 PCHDCGKTFN 69 (295)
Q Consensus 60 ~C~~C~~~f~ 69 (295)
.|..||..|.
T Consensus 72 ~C~~Cg~~~~ 81 (113)
T PF01155_consen 72 RCRDCGHEFE 81 (113)
T ss_dssp EETTTS-EEE
T ss_pred ECCCCCCEEe
Confidence 3444444443
No 237
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=21.78 E-value=39 Score=24.17 Aligned_cols=10 Identities=20% Similarity=0.438 Sum_probs=4.7
Q ss_pred eecCcCcccc
Q psy17050 149 FECKVCGCML 158 (295)
Q Consensus 149 ~~C~~C~~~f 158 (295)
|.|+.|+..+
T Consensus 20 ~iCpeC~~EW 29 (109)
T TIGR00686 20 LICPSCLYEW 29 (109)
T ss_pred eECccccccc
Confidence 4444444444
No 238
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=21.70 E-value=1.1e+02 Score=21.74 Aligned_cols=38 Identities=21% Similarity=0.299 Sum_probs=21.8
Q ss_pred CceecccchhhccCHHHHHHHHHhcccccCCCCccccccccccc
Q psy17050 24 ASHMCEDCGEEYWDRQSLLVHKARHDVIRTERGRIFPCHDCGKT 67 (295)
Q Consensus 24 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~C~~C~~~ 67 (295)
+.|.|+.=|..|.+...+...+... ..+.|.|...|+.
T Consensus 2 eVf~i~~T~EiF~dYe~Y~~R~~~y------~~~vwtC~~TGk~ 39 (102)
T PF10537_consen 2 EVFYIPFTGEIFRDYEEYLKRMILY------NQRVWTCEITGKS 39 (102)
T ss_pred ceEEeCCCCcccCCHHHHHHHHHHH------hCCeeEEecCCCC
Confidence 3455666666666666666655544 3355666666554
No 239
>KOG1729|consensus
Probab=21.45 E-value=53 Score=28.24 Aligned_cols=10 Identities=30% Similarity=0.650 Sum_probs=5.7
Q ss_pred cccccccccc
Q psy17050 57 RIFPCHDCGK 66 (295)
Q Consensus 57 ~~~~C~~C~~ 66 (295)
..-.|.+|+.
T Consensus 167 ea~~C~~C~~ 176 (288)
T KOG1729|consen 167 EATECMVCGC 176 (288)
T ss_pred cceecccCCC
Confidence 3345666666
No 240
>KOG1994|consensus
Probab=21.36 E-value=50 Score=27.07 Aligned_cols=20 Identities=20% Similarity=0.506 Sum_probs=17.8
Q ss_pred cccccccccccCChHHHHHH
Q psy17050 58 IFPCHDCGKTFNSRSSQQIH 77 (295)
Q Consensus 58 ~~~C~~C~~~f~~~~~l~~H 77 (295)
.|-|-+||..|.+...|..|
T Consensus 239 h~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 239 HYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred ceEEEEeccccCCHHHHHHh
Confidence 46699999999999999888
No 241
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.20 E-value=55 Score=20.80 Aligned_cols=13 Identities=15% Similarity=0.498 Sum_probs=8.5
Q ss_pred ccccccccccccC
Q psy17050 57 RIFPCHDCGKTFN 69 (295)
Q Consensus 57 ~~~~C~~C~~~f~ 69 (295)
..-.|++|+..|+
T Consensus 47 gev~CPYC~t~y~ 59 (62)
T COG4391 47 GEVVCPYCSTRYR 59 (62)
T ss_pred CcEecCccccEEE
Confidence 3456777777764
No 242
>KOG4317|consensus
Probab=21.13 E-value=23 Score=30.45 Aligned_cols=19 Identities=21% Similarity=0.532 Sum_probs=12.3
Q ss_pred ccccccccccCChHHHHHH
Q psy17050 59 FPCHDCGKTFNSRSSQQIH 77 (295)
Q Consensus 59 ~~C~~C~~~f~~~~~l~~H 77 (295)
|+|+.|+..|.+..-++.|
T Consensus 20 YtCPRCn~~YCsl~CYr~h 38 (383)
T KOG4317|consen 20 YTCPRCNLLYCSLKCYRNH 38 (383)
T ss_pred ccCCCCCccceeeeeecCC
Confidence 6777777776665555444
No 243
>KOG0782|consensus
Probab=20.99 E-value=25 Score=32.90 Aligned_cols=52 Identities=21% Similarity=0.456 Sum_probs=32.8
Q ss_pred HhHHHHHHHhCCCCcccCcchhhhcCCHHHHHHHHHHhcCCCCCCCCcceecCcCccccCCHH
Q psy17050 100 GTLRKHERVHTGEKPYVCPICSKAFNQRVVLREHIRAHHSGPESKGATTFECKVCGCMLSSSP 162 (295)
Q Consensus 100 ~~L~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~C~~C~~~f~~~~ 162 (295)
..+.+|--.|....--+|..|++.|..+..+ |-+ ..-...|..|...|..+.
T Consensus 239 ~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F--hsK---------EivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 239 SGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF--HSK---------EIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccchHHhHhhHhhhccccchhhhhhhhheee--ccc---------cEEEEEehHHHHHhhcch
Confidence 4666666666544455788888888765433 211 234467888888887765
No 244
>KOG0782|consensus
Probab=20.56 E-value=17 Score=33.90 Aligned_cols=50 Identities=24% Similarity=0.471 Sum_probs=26.3
Q ss_pred HHHHHHHHhcCCCCcccccchhccCChHhHHHHHHHhCCC-CcccCcchhhhcCCHH
Q psy17050 73 SQQIHQRIHTGERPYSCRYCYKAFADGGTLRKHERVHTGE-KPYVCPICSKAFNQRV 128 (295)
Q Consensus 73 ~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~-~~~~C~~C~~~f~~~~ 128 (295)
.+.+|.-+|.....=+|..|++.|..+..+ |..+ -...|.+|...|..+.
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhheee------ccccEEEEEehHHHHHhhcch
Confidence 455555555444445677777776554332 1111 2345777766666553
No 245
>KOG2071|consensus
Probab=20.55 E-value=55 Score=30.91 Aligned_cols=15 Identities=13% Similarity=0.423 Sum_probs=10.4
Q ss_pred CcceecCcCccccCC
Q psy17050 146 ATTFECKVCGCMLSS 160 (295)
Q Consensus 146 ~~~~~C~~C~~~f~~ 160 (295)
+....|++|+..|..
T Consensus 511 e~~~~C~IC~EkFe~ 525 (579)
T KOG2071|consen 511 ERQASCPICQEKFEV 525 (579)
T ss_pred ccccCCcccccccce
Confidence 566777777777753
No 246
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=20.52 E-value=65 Score=20.13 Aligned_cols=11 Identities=18% Similarity=0.676 Sum_probs=4.0
Q ss_pred ceecccchhhc
Q psy17050 25 SHMCEDCGEEY 35 (295)
Q Consensus 25 ~~~C~~C~~~f 35 (295)
|++...|+-.|
T Consensus 24 PV~s~~C~H~f 34 (57)
T PF11789_consen 24 PVKSKKCGHTF 34 (57)
T ss_dssp EEEESSS--EE
T ss_pred CcCcCCCCCee
Confidence 34444444444
No 247
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=20.39 E-value=21 Score=27.28 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=4.9
Q ss_pred ccccchhccCC
Q psy17050 88 SCRYCYKAFAD 98 (295)
Q Consensus 88 ~C~~C~~~f~~ 98 (295)
.|..|+..|++
T Consensus 30 eC~~C~~RFTT 40 (156)
T COG1327 30 ECLECGERFTT 40 (156)
T ss_pred cccccccccch
Confidence 34444444443
No 248
>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=20.21 E-value=40 Score=20.62 Aligned_cols=19 Identities=32% Similarity=0.641 Sum_probs=9.4
Q ss_pred ecCcCccccCCH--HHHHHHH
Q psy17050 150 ECKVCGCMLSSS--PELCQHL 168 (295)
Q Consensus 150 ~C~~C~~~f~~~--~~L~~H~ 168 (295)
.|++|++.|... ..|..++
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~ 42 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKY 42 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHH
Confidence 899999999743 3444443
Done!