Query psy12560
Match_columns 440
No_of_seqs 586 out of 3407
Neff 9.9
Searched_HMMs 46136
Date Fri Aug 16 22:28:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12560.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12560hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 99.9 9.1E-29 2E-33 240.3 5.8 171 134-305 604-936 (958)
2 KOG2462|consensus 99.9 9.2E-29 2E-33 213.0 5.1 132 165-298 131-265 (279)
3 KOG3608|consensus 99.9 8.3E-28 1.8E-32 211.8 10.2 221 78-301 133-377 (467)
4 KOG2462|consensus 99.9 3.7E-28 8.1E-33 209.3 6.2 136 133-270 128-265 (279)
5 KOG1074|consensus 99.9 7.8E-28 1.7E-32 233.8 2.5 170 108-277 606-936 (958)
6 KOG3623|consensus 99.9 1.1E-26 2.5E-31 221.9 5.2 78 220-297 894-971 (1007)
7 KOG3608|consensus 99.9 3.3E-25 7.1E-30 195.5 7.7 229 37-273 135-377 (467)
8 KOG3623|consensus 99.9 1.3E-25 2.9E-30 214.6 1.8 78 192-269 894-971 (1007)
9 KOG3576|consensus 99.7 2.3E-18 4.9E-23 141.0 3.0 111 191-301 116-237 (267)
10 KOG3576|consensus 99.7 4E-17 8.7E-22 133.8 3.0 113 164-276 117-240 (267)
11 PLN03086 PRLI-interacting fact 99.4 1E-12 2.2E-17 128.3 8.2 147 135-301 407-565 (567)
12 PLN03086 PRLI-interacting fact 99.3 2.5E-12 5.4E-17 125.6 8.9 146 106-271 406-563 (567)
13 PHA00733 hypothetical protein 99.1 3.5E-11 7.7E-16 96.0 4.4 94 206-301 26-124 (128)
14 PHA00733 hypothetical protein 99.0 2.8E-10 6E-15 90.9 4.6 81 190-273 38-124 (128)
15 KOG3993|consensus 99.0 1.4E-10 3E-15 106.1 1.1 53 249-301 431-483 (500)
16 KOG3993|consensus 98.9 4.2E-10 9E-15 103.0 1.4 194 79-272 267-482 (500)
17 PHA02768 hypothetical protein; 98.9 9.5E-10 2.1E-14 71.8 2.0 42 249-292 6-47 (55)
18 PHA02768 hypothetical protein; 98.7 5E-09 1.1E-13 68.4 2.1 43 220-264 5-47 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.6 3.1E-08 6.7E-13 55.2 2.6 25 263-287 1-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 1.1E-07 2.4E-12 53.0 2.4 26 235-260 1-26 (26)
21 PHA00616 hypothetical protein 98.3 3E-07 6.5E-12 57.1 1.7 31 249-279 2-32 (44)
22 PHA00616 hypothetical protein 98.2 5.3E-07 1.2E-11 56.0 1.6 39 220-258 1-39 (44)
23 PHA00732 hypothetical protein 98.2 1.1E-06 2.3E-11 63.5 2.6 43 249-297 2-45 (79)
24 PHA00732 hypothetical protein 98.1 2.5E-06 5.4E-11 61.6 2.8 48 220-273 1-49 (79)
25 PF05605 zf-Di19: Drought indu 98.0 1.1E-05 2.4E-10 54.0 4.3 49 249-300 3-53 (54)
26 PF05605 zf-Di19: Drought indu 97.8 3.8E-05 8.2E-10 51.4 4.7 50 220-272 2-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.7 2.9E-05 6.3E-10 41.9 2.0 21 277-297 1-21 (23)
28 PF00096 zf-C2H2: Zinc finger, 97.7 2.9E-05 6.3E-10 41.9 2.0 23 249-271 1-23 (23)
29 KOG1146|consensus 97.6 4.3E-05 9.4E-10 80.6 4.3 145 68-215 454-641 (1406)
30 COG5236 Uncharacterized conser 97.6 0.00033 7.1E-09 63.3 9.0 91 203-301 199-306 (493)
31 PF13894 zf-C2H2_4: C2H2-type 97.6 6.3E-05 1.4E-09 40.9 2.5 24 277-300 1-24 (24)
32 KOG2231|consensus 97.6 0.00014 3.1E-09 72.8 6.7 121 108-252 100-240 (669)
33 PF12756 zf-C2H2_2: C2H2 type 97.5 6.8E-05 1.5E-09 57.6 2.8 74 222-300 1-74 (100)
34 PF12756 zf-C2H2_2: C2H2 type 97.4 0.00014 3E-09 55.9 2.8 73 81-158 1-73 (100)
35 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00017 3.6E-09 39.2 2.2 23 249-271 1-23 (24)
36 COG5189 SFP1 Putative transcri 97.3 7E-05 1.5E-09 66.8 0.6 52 246-297 347-419 (423)
37 KOG1146|consensus 97.3 6.5E-05 1.4E-09 79.4 0.0 97 1-99 734-846 (1406)
38 PF13912 zf-C2H2_6: C2H2-type 97.3 0.0002 4.4E-09 40.2 2.0 25 276-300 1-25 (27)
39 PF13912 zf-C2H2_6: C2H2-type 97.1 0.00025 5.4E-09 39.9 1.5 25 248-272 1-25 (27)
40 COG5189 SFP1 Putative transcri 96.9 0.00025 5.4E-09 63.3 0.5 53 217-269 346-419 (423)
41 KOG2231|consensus 96.9 0.0018 3.8E-08 65.2 6.0 138 136-297 100-260 (669)
42 PF09237 GAGA: GAGA factor; I 96.6 0.0028 6.1E-08 40.4 3.0 30 274-303 22-51 (54)
43 PF09237 GAGA: GAGA factor; I 96.5 0.0028 6E-08 40.4 2.7 30 246-275 22-51 (54)
44 PF13909 zf-H2C2_5: C2H2-type 96.5 0.0026 5.5E-08 34.5 2.2 23 277-300 1-23 (24)
45 smart00355 ZnF_C2H2 zinc finge 96.4 0.0029 6.2E-08 34.7 2.5 19 279-297 3-21 (26)
46 PF12874 zf-met: Zinc-finger o 96.2 0.0038 8.2E-08 34.2 1.9 22 277-298 1-22 (25)
47 PRK04860 hypothetical protein; 96.1 0.0026 5.6E-08 52.9 1.7 35 220-258 119-153 (160)
48 smart00355 ZnF_C2H2 zinc finge 96.1 0.0067 1.4E-07 33.2 2.7 22 250-271 2-23 (26)
49 PF13909 zf-H2C2_5: C2H2-type 96.1 0.0043 9.4E-08 33.6 1.8 23 249-272 1-23 (24)
50 PF12874 zf-met: Zinc-finger o 95.8 0.0052 1.1E-07 33.6 1.3 23 249-271 1-23 (25)
51 COG5236 Uncharacterized conser 95.7 0.014 3.1E-07 53.0 4.6 78 166-272 222-305 (493)
52 KOG2785|consensus 95.6 0.037 8E-07 51.5 6.8 58 248-305 166-250 (390)
53 PRK04860 hypothetical protein; 95.4 0.01 2.2E-07 49.4 2.3 39 247-289 118-156 (160)
54 PF12171 zf-C2H2_jaz: Zinc-fin 95.0 0.0072 1.6E-07 33.8 0.2 22 277-298 2-23 (27)
55 COG5048 FOG: Zn-finger [Genera 94.3 0.012 2.5E-07 58.4 -0.1 147 107-254 289-452 (467)
56 COG5048 FOG: Zn-finger [Genera 94.2 0.012 2.5E-07 58.4 -0.3 150 134-283 288-453 (467)
57 KOG2482|consensus 94.0 0.1 2.2E-06 47.6 5.2 164 75-243 140-357 (423)
58 KOG2785|consensus 93.7 0.19 4.1E-06 46.9 6.5 136 79-214 3-242 (390)
59 PF12171 zf-C2H2_jaz: Zinc-fin 93.6 0.039 8.4E-07 30.8 1.2 21 193-213 2-22 (27)
60 KOG2482|consensus 93.3 0.19 4.1E-06 46.0 5.7 49 249-297 280-355 (423)
61 KOG2893|consensus 93.1 0.026 5.7E-07 48.6 -0.0 48 250-301 12-59 (341)
62 PF13913 zf-C2HC_2: zinc-finge 92.7 0.099 2.1E-06 28.5 1.9 20 277-297 3-22 (25)
63 KOG4173|consensus 92.2 0.077 1.7E-06 44.8 1.5 79 220-301 79-171 (253)
64 PF13913 zf-C2HC_2: zinc-finge 91.8 0.15 3.3E-06 27.8 1.9 19 250-269 4-22 (25)
65 smart00451 ZnF_U1 U1-like zinc 91.6 0.15 3.3E-06 30.2 2.1 23 276-298 3-25 (35)
66 PF12013 DUF3505: Protein of u 90.9 0.42 9.1E-06 37.2 4.5 25 277-301 81-109 (109)
67 KOG2893|consensus 90.6 0.073 1.6E-06 45.9 -0.1 43 108-154 11-53 (341)
68 cd00350 rubredoxin_like Rubred 90.5 0.14 3E-06 30.1 1.1 11 249-259 2-12 (33)
69 TIGR00622 ssl1 transcription f 89.8 0.38 8.2E-06 37.0 3.2 24 248-271 81-104 (112)
70 TIGR00622 ssl1 transcription f 89.5 0.83 1.8E-05 35.2 4.8 54 194-255 57-110 (112)
71 smart00451 ZnF_U1 U1-like zinc 89.2 0.34 7.3E-06 28.7 2.1 22 135-156 3-24 (35)
72 COG4049 Uncharacterized protei 89.1 0.19 4.2E-06 32.7 1.0 29 273-301 14-42 (65)
73 PF12013 DUF3505: Protein of u 88.6 0.82 1.8E-05 35.5 4.5 54 219-273 10-109 (109)
74 KOG4173|consensus 88.4 0.33 7.1E-06 41.1 2.1 77 79-158 79-169 (253)
75 PRK14890 putative Zn-ribbon RN 83.6 0.9 2E-05 30.3 1.9 21 23-43 23-43 (59)
76 COG4049 Uncharacterized protei 83.2 0.59 1.3E-05 30.5 0.9 29 244-272 13-41 (65)
77 PF09538 FYDLN_acid: Protein o 83.0 0.76 1.7E-05 35.4 1.7 30 249-289 10-39 (108)
78 cd00729 rubredoxin_SM Rubredox 81.8 0.71 1.5E-05 27.3 0.9 10 249-258 3-12 (34)
79 PHA00626 hypothetical protein 80.5 0.9 1.9E-05 29.8 1.0 12 79-90 23-34 (59)
80 PF13719 zinc_ribbon_5: zinc-r 79.7 1.6 3.4E-05 26.4 1.9 33 80-117 3-35 (37)
81 PF09538 FYDLN_acid: Protein o 79.6 1.1 2.4E-05 34.5 1.6 30 221-261 10-39 (108)
82 KOG1280|consensus 79.5 2.5 5.3E-05 39.2 3.9 36 107-142 79-116 (381)
83 PF13717 zinc_ribbon_4: zinc-r 79.1 1.8 3.9E-05 26.0 2.0 33 80-117 3-35 (36)
84 PF10571 UPF0547: Uncharacteri 78.8 1.1 2.3E-05 24.7 0.9 9 278-286 16-24 (26)
85 PF02892 zf-BED: BED zinc fing 78.8 2.1 4.6E-05 27.0 2.4 27 274-300 14-44 (45)
86 PF09986 DUF2225: Uncharacteri 78.7 1 2.2E-05 39.7 1.2 22 191-212 4-25 (214)
87 TIGR02098 MJ0042_CXXC MJ0042 f 78.2 1.6 3.4E-05 26.5 1.6 33 80-117 3-35 (38)
88 KOG2186|consensus 76.8 1.8 3.9E-05 38.2 2.1 45 221-268 4-48 (276)
89 PF09986 DUF2225: Uncharacteri 75.4 0.47 1E-05 41.8 -1.8 43 247-289 4-61 (214)
90 PF06524 NOA36: NOA36 protein; 75.1 1.5 3.2E-05 38.8 1.2 26 246-271 207-232 (314)
91 KOG2186|consensus 74.1 2.3 4.9E-05 37.6 2.1 47 79-128 3-49 (276)
92 smart00659 RPOLCX RNA polymera 74.1 2 4.3E-05 27.1 1.3 27 79-116 2-28 (44)
93 PRK00398 rpoP DNA-directed RNA 72.8 1.9 4.1E-05 27.5 1.0 29 79-117 3-31 (46)
94 PF06524 NOA36: NOA36 protein; 72.5 2.8 6E-05 37.1 2.2 95 131-244 138-233 (314)
95 TIGR02300 FYDLN_acid conserved 72.1 2.5 5.4E-05 33.2 1.7 33 249-292 10-42 (129)
96 COG2888 Predicted Zn-ribbon RN 70.8 2.8 6.2E-05 27.9 1.5 20 24-43 26-45 (61)
97 smart00614 ZnF_BED BED zinc fi 70.6 3.7 8.1E-05 26.6 2.1 24 277-300 19-47 (50)
98 COG1592 Rubrerythrin [Energy p 68.0 3 6.5E-05 34.8 1.4 11 273-283 146-156 (166)
99 TIGR00373 conserved hypothetic 67.8 5.8 0.00013 33.1 3.2 18 106-123 108-125 (158)
100 smart00531 TFIIE Transcription 67.3 10 0.00023 31.2 4.5 36 105-144 97-132 (147)
101 COG5151 SSL1 RNA polymerase II 66.6 7.6 0.00017 35.4 3.8 24 248-271 388-411 (421)
102 TIGR02300 FYDLN_acid conserved 66.5 3.8 8.3E-05 32.2 1.6 30 221-261 10-39 (129)
103 COG1594 RPB9 DNA-directed RNA 66.3 2.4 5.1E-05 33.1 0.5 39 80-118 73-111 (113)
104 TIGR02605 CxxC_CxxC_SSSS putat 66.3 1.4 2.9E-05 29.0 -0.7 30 79-115 5-34 (52)
105 PF09723 Zn-ribbon_8: Zinc rib 66.0 1.5 3.3E-05 27.3 -0.5 30 79-115 5-34 (42)
106 PRK00464 nrdR transcriptional 65.5 1.2 2.5E-05 36.9 -1.4 16 277-292 29-44 (154)
107 PF04959 ARS2: Arsenite-resist 64.4 4.6 0.0001 35.4 2.0 30 273-302 74-103 (214)
108 smart00531 TFIIE Transcription 63.7 7.6 0.00017 32.0 3.1 36 247-286 98-133 (147)
109 PRK00464 nrdR transcriptional 63.7 3.4 7.5E-05 34.2 1.0 16 249-264 29-44 (154)
110 PRK06266 transcription initiat 63.6 6.4 0.00014 33.6 2.7 30 106-144 116-145 (178)
111 COG1592 Rubrerythrin [Energy p 63.4 4.5 9.8E-05 33.8 1.7 11 217-227 146-156 (166)
112 TIGR00373 conserved hypothetic 62.9 7.5 0.00016 32.4 2.9 31 246-285 107-137 (158)
113 COG5151 SSL1 RNA polymerase II 61.8 6.8 0.00015 35.7 2.6 23 165-187 389-411 (421)
114 KOG2807|consensus 61.6 13 0.00027 34.4 4.2 22 276-297 345-366 (378)
115 PF15269 zf-C2H2_7: Zinc-finge 59.6 8 0.00017 24.0 1.8 29 73-101 14-42 (54)
116 COG1198 PriA Primosomal protei 59.3 5.4 0.00012 41.8 1.8 8 194-201 437-444 (730)
117 smart00834 CxxC_CXXC_SSSS Puta 58.9 4.9 0.00011 24.6 0.9 11 193-203 6-16 (41)
118 COG1996 RPC10 DNA-directed RNA 58.8 5 0.00011 25.8 0.9 29 78-116 5-33 (49)
119 PRK06266 transcription initiat 57.4 8.9 0.00019 32.7 2.5 31 247-286 116-146 (178)
120 PF02176 zf-TRAF: TRAF-type zi 55.3 13 0.00029 24.9 2.7 18 123-140 26-43 (60)
121 smart00734 ZnF_Rad18 Rad18-lik 54.8 12 0.00026 20.5 1.9 19 278-297 3-21 (26)
122 PF03604 DNA_RNApol_7kD: DNA d 54.8 8 0.00017 22.5 1.2 6 222-227 19-24 (32)
123 PF05443 ROS_MUCR: ROS/MUCR tr 54.5 8.7 0.00019 30.8 1.8 22 108-132 73-94 (132)
124 PF12907 zf-met2: Zinc-binding 53.4 6.7 0.00014 24.1 0.8 26 277-302 2-30 (40)
125 KOG2807|consensus 53.3 20 0.00044 33.1 4.1 86 165-283 277-374 (378)
126 COG4306 Uncharacterized protei 51.7 3 6.6E-05 32.3 -1.1 70 10-93 13-82 (160)
127 COG1997 RPL43A Ribosomal prote 51.0 10 0.00022 27.7 1.5 12 220-231 53-64 (89)
128 PRK09678 DNA-binding transcrip 50.5 4.6 0.0001 28.5 -0.3 42 249-292 2-45 (72)
129 PF08274 PhnA_Zn_Ribbon: PhnA 50.5 6.7 0.00015 22.4 0.4 11 105-115 17-27 (30)
130 PF02176 zf-TRAF: TRAF-type zi 50.4 7 0.00015 26.3 0.6 43 78-121 8-56 (60)
131 PF14353 CpXC: CpXC protein 49.3 4.9 0.00011 32.2 -0.3 11 249-259 39-49 (128)
132 PRK04023 DNA polymerase II lar 49.0 17 0.00036 39.2 3.3 10 192-201 626-635 (1121)
133 KOG2593|consensus 48.4 19 0.00041 34.8 3.3 38 103-143 124-161 (436)
134 COG4530 Uncharacterized protei 48.3 14 0.00031 28.0 2.0 27 250-287 11-37 (129)
135 KOG2593|consensus 44.6 23 0.0005 34.2 3.3 35 246-283 126-160 (436)
136 KOG2071|consensus 44.4 18 0.0004 36.4 2.7 24 220-243 418-441 (579)
137 PF14835 zf-RING_6: zf-RING of 44.2 20 0.00043 24.7 2.0 40 2-44 8-48 (65)
138 PRK04023 DNA polymerase II lar 44.1 21 0.00046 38.4 3.2 9 136-144 627-635 (1121)
139 KOG4377|consensus 42.7 15 0.00032 35.1 1.6 23 277-299 402-426 (480)
140 PF05443 ROS_MUCR: ROS/MUCR tr 40.8 16 0.00034 29.4 1.4 26 248-276 72-97 (132)
141 PF09416 UPF1_Zn_bind: RNA hel 40.0 4.7 0.0001 33.0 -1.7 58 27-87 2-68 (152)
142 smart00440 ZnF_C2C2 C2C2 Zinc 39.9 16 0.00034 22.5 1.0 10 221-230 29-38 (40)
143 TIGR00570 cdk7 CDK-activating 39.2 21 0.00046 33.1 2.1 46 2-48 4-55 (309)
144 PRK03824 hypA hydrogenase nick 38.5 12 0.00025 30.4 0.3 15 78-92 69-83 (135)
145 PF12760 Zn_Tnp_IS1595: Transp 38.4 57 0.0012 20.6 3.4 8 193-200 19-26 (46)
146 KOG3408|consensus 36.7 21 0.00046 27.8 1.4 24 247-270 56-79 (129)
147 PF14634 zf-RING_5: zinc-RING 36.4 12 0.00027 23.4 0.1 40 3-43 1-43 (44)
148 COG3091 SprT Zn-dependent meta 36.2 16 0.00034 29.8 0.7 31 248-283 117-147 (156)
149 PF01096 TFIIS_C: Transcriptio 36.1 10 0.00022 23.1 -0.3 10 221-230 29-38 (39)
150 KOG4377|consensus 35.9 24 0.00052 33.7 1.9 22 253-274 408-429 (480)
151 PF07754 DUF1610: Domain of un 35.2 19 0.00041 19.4 0.7 8 276-283 16-23 (24)
152 PRK14873 primosome assembly pr 35.0 31 0.00067 36.2 2.7 10 248-257 422-431 (665)
153 PRK14714 DNA polymerase II lar 34.8 39 0.00084 37.6 3.5 8 193-200 668-675 (1337)
154 PF09845 DUF2072: Zn-ribbon co 34.6 21 0.00045 28.4 1.1 14 248-261 1-14 (131)
155 PF04959 ARS2: Arsenite-resist 34.5 19 0.00041 31.6 1.0 25 220-244 77-101 (214)
156 COG1198 PriA Primosomal protei 32.0 31 0.00067 36.4 2.2 31 15-45 451-484 (730)
157 PF13453 zf-TFIIB: Transcripti 32.0 25 0.00055 21.6 1.0 18 276-293 19-36 (41)
158 COG3357 Predicted transcriptio 31.9 23 0.0005 26.0 0.9 10 250-259 60-69 (97)
159 PRK12380 hydrogenase nickel in 30.9 22 0.00048 27.7 0.8 26 78-115 69-94 (113)
160 PF14446 Prok-RING_1: Prokaryo 30.6 19 0.0004 23.8 0.2 10 250-259 7-16 (54)
161 PF01363 FYVE: FYVE zinc finge 30.3 27 0.00059 24.2 1.1 9 222-230 11-19 (69)
162 PF05191 ADK_lid: Adenylate ki 30.3 24 0.00051 21.1 0.6 6 222-227 23-28 (36)
163 COG3677 Transposase and inacti 30.3 35 0.00075 27.4 1.8 15 35-49 52-66 (129)
164 COG5188 PRP9 Splicing factor 3 30.2 44 0.00095 31.3 2.6 25 190-214 372-397 (470)
165 PRK00432 30S ribosomal protein 30.1 24 0.00053 22.9 0.7 11 247-257 36-46 (50)
166 KOG2071|consensus 29.8 33 0.00072 34.6 1.9 25 2-27 419-443 (579)
167 KOG4167|consensus 29.7 14 0.00031 37.9 -0.6 24 249-272 793-816 (907)
168 KOG1701|consensus 29.6 12 0.00027 35.8 -1.0 39 81-119 276-314 (468)
169 COG4888 Uncharacterized Zn rib 29.4 13 0.00029 27.8 -0.7 37 78-118 21-57 (104)
170 TIGR00100 hypA hydrogenase nic 28.5 24 0.00051 27.7 0.5 26 78-115 69-94 (115)
171 PTZ00255 60S ribosomal protein 28.0 31 0.00067 25.6 1.0 12 220-231 54-65 (90)
172 COG3364 Zn-ribbon containing p 27.8 37 0.0008 25.6 1.4 13 248-260 2-14 (112)
173 KOG4124|consensus 27.2 8.6 0.00019 35.7 -2.4 51 247-297 348-419 (442)
174 COG4957 Predicted transcriptio 26.9 35 0.00075 27.2 1.2 22 108-132 77-98 (148)
175 COG1571 Predicted DNA-binding 26.9 35 0.00077 33.1 1.5 29 250-289 352-380 (421)
176 COG4896 Uncharacterized protei 26.5 47 0.001 22.4 1.5 9 134-142 30-38 (68)
177 TIGR00595 priA primosomal prot 26.5 45 0.00098 33.8 2.3 36 3-45 224-262 (505)
178 KOG2272|consensus 26.5 47 0.001 29.5 2.0 19 79-97 99-117 (332)
179 TIGR00280 L37a ribosomal prote 26.4 33 0.00071 25.5 0.9 12 220-231 53-64 (91)
180 PF01780 Ribosomal_L37ae: Ribo 26.2 24 0.00053 26.1 0.2 12 220-231 53-64 (90)
181 PF08790 zf-LYAR: LYAR-type C2 26.1 15 0.00032 20.6 -0.7 10 80-89 1-10 (28)
182 PF08271 TF_Zn_Ribbon: TFIIB z 26.1 35 0.00076 21.2 0.9 11 106-116 18-28 (43)
183 COG3091 SprT Zn-dependent meta 26.1 35 0.00075 27.9 1.1 8 135-142 140-147 (156)
184 TIGR00595 priA primosomal prot 25.9 53 0.0012 33.3 2.6 13 105-117 238-250 (505)
185 KOG3408|consensus 25.8 52 0.0011 25.7 1.9 24 78-101 56-79 (129)
186 COG0068 HypF Hydrogenase matur 25.8 13 0.00027 38.4 -1.8 55 82-143 126-181 (750)
187 PF15135 UPF0515: Uncharacteri 25.7 44 0.00096 29.7 1.7 10 134-143 111-120 (278)
188 PF13878 zf-C2H2_3: zinc-finge 25.3 71 0.0015 19.7 2.2 23 249-271 14-38 (41)
189 COG1571 Predicted DNA-binding 25.0 41 0.00088 32.7 1.5 30 222-262 352-381 (421)
190 PRK14559 putative protein seri 24.9 69 0.0015 33.5 3.2 37 1-47 1-38 (645)
191 TIGR01206 lysW lysine biosynth 24.6 31 0.00067 22.8 0.5 10 249-258 3-12 (54)
192 PF07975 C1_4: TFIIH C1-like d 24.6 26 0.00057 22.9 0.1 25 78-102 20-44 (51)
193 PF05495 zf-CHY: CHY zinc fing 24.4 27 0.00059 24.6 0.2 7 277-283 62-68 (71)
194 COG0068 HypF Hydrogenase matur 24.4 29 0.00062 36.0 0.4 30 81-116 153-182 (750)
195 KOG4167|consensus 24.4 26 0.00056 36.2 0.1 27 78-104 791-817 (907)
196 PF02150 RNA_POL_M_15KD: RNA p 23.9 28 0.0006 20.7 0.1 14 1-14 1-14 (35)
197 KOG2907|consensus 23.8 32 0.0007 26.4 0.5 11 249-259 103-113 (116)
198 cd00065 FYVE FYVE domain; Zinc 23.7 51 0.0011 21.7 1.4 10 277-286 19-28 (57)
199 PF13824 zf-Mss51: Zinc-finger 23.6 57 0.0012 21.7 1.5 13 275-287 13-25 (55)
200 PRK00564 hypA hydrogenase nick 23.3 34 0.00073 26.9 0.5 14 78-91 70-83 (117)
201 PF05290 Baculo_IE-1: Baculovi 23.2 36 0.00077 27.2 0.6 11 278-288 123-133 (140)
202 PF14311 DUF4379: Domain of un 22.8 50 0.0011 21.7 1.2 12 221-232 29-40 (55)
203 PRK14873 primosome assembly pr 22.8 53 0.0011 34.5 2.0 36 3-45 394-431 (665)
204 smart00154 ZnF_AN1 AN1-like Zi 22.8 44 0.00096 20.4 0.9 13 276-288 12-24 (39)
205 PF04780 DUF629: Protein of un 22.5 63 0.0014 32.0 2.3 26 276-301 57-82 (466)
206 KOG1280|consensus 21.8 83 0.0018 29.6 2.7 39 245-283 76-116 (381)
207 PF03811 Zn_Tnp_IS1: InsA N-te 21.5 56 0.0012 19.6 1.1 19 208-226 17-35 (36)
208 PF07282 OrfB_Zn_ribbon: Putat 21.4 59 0.0013 22.5 1.4 11 106-116 45-55 (69)
209 KOG2636|consensus 21.4 62 0.0013 31.5 1.9 29 269-297 394-423 (497)
210 PRK03976 rpl37ae 50S ribosomal 21.3 46 0.00099 24.7 0.8 12 220-231 54-65 (90)
211 KOG3002|consensus 21.2 22 0.00049 33.0 -1.0 76 78-158 79-162 (299)
212 COG1773 Rubredoxin [Energy pro 21.2 45 0.00097 22.2 0.7 13 276-288 3-15 (55)
213 PF01155 HypA: Hydrogenase exp 21.0 37 0.00081 26.4 0.4 27 78-116 69-95 (113)
214 smart00064 FYVE Protein presen 20.9 51 0.0011 22.7 1.0 10 277-286 27-36 (68)
215 PF04216 FdhE: Protein involve 20.3 26 0.00055 32.6 -0.8 72 3-92 174-251 (290)
No 1
>KOG1074|consensus
Probab=99.95 E-value=9.1e-29 Score=240.26 Aligned_cols=171 Identities=27% Similarity=0.559 Sum_probs=142.0
Q ss_pred CCeecCccccccCChHHHHHHHHHhcCCCCcccccccccccCCHHHHHHHHHHhcCC----CcccCC---CCCccccCch
Q psy12560 134 NPYECSNCHKGFKNKGKLNRHMKIHSDSKEQWFCKVCNKALMSVESLKKHMKIHAGL----KNYHCD---ICEKSFIEKN 206 (440)
Q Consensus 134 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----~~~~C~---~C~~~f~~~~ 206 (440)
.|-+|-+|-+....++.|+.|.++|.|+++ |+|.+||+.|.++.+|+.||.+|... -.+.|+ +|-+.|...-
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERP-FkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERP-FKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCc-cccccccchhccccchhhcccccccCccccccccCCchhhhcccccccc
Confidence 346899999999999999999999998877 99999999999999999999887543 347798 8999999999
Q ss_pred hhhhccccccCc-c------------ccccCccCcccCChHHHHHHHHHhCCC---------------------------
Q psy12560 207 DLIKHQVTHSDK-K------------IFVCENCGKSFKRKYDLALHIRTHFPL--------------------------- 246 (440)
Q Consensus 207 ~l~~H~~~h~~~-~------------~~~C~~C~~~f~~~~~l~~H~~~h~~~--------------------------- 246 (440)
.|..|+++|.+. . .-+|..|.+.|.....+..++..|.+.
T Consensus 683 ~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~ 762 (958)
T KOG1074|consen 683 TLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENS 762 (958)
T ss_pred cccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccc
Confidence 999999988732 1 136888888888777777777655211
Q ss_pred --------------------------------------------------------------------------------
Q psy12560 247 -------------------------------------------------------------------------------- 246 (440)
Q Consensus 247 -------------------------------------------------------------------------------- 246 (440)
T Consensus 763 ~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~ 842 (958)
T KOG1074|consen 763 CGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLA 842 (958)
T ss_pred cccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccc
Confidence
Q ss_pred -----------------------------------CccccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHH
Q psy12560 247 -----------------------------------KRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDN 291 (440)
Q Consensus 247 -----------------------------------~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~ 291 (440)
....|.+|++.|...+.|..|+++|+++|||.|.+|++.|..+.+
T Consensus 843 t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgn 922 (958)
T KOG1074|consen 843 TKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGN 922 (958)
T ss_pred cccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhh
Confidence 016799999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCC
Q psy12560 292 LERHVKSIHLEDPS 305 (440)
Q Consensus 292 l~~H~~~~H~~~~~ 305 (440)
|+.||.+++...+.
T Consensus 923 LKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 923 LKVHMGTHMWVQPP 936 (958)
T ss_pred hhhhhccccccCCC
Confidence 99999977664443
No 2
>KOG2462|consensus
Probab=99.95 E-value=9.2e-29 Score=213.01 Aligned_cols=132 Identities=36% Similarity=0.648 Sum_probs=98.7
Q ss_pred ccccccccccCCHHHHHHHHHHhc---CCCcccCCCCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHH
Q psy12560 165 WFCKVCNKALMSVESLKKHMKIHA---GLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIR 241 (440)
Q Consensus 165 ~~C~~C~~~f~~~~~l~~H~~~h~---~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 241 (440)
|+|+.|++.+.+.++|.+|.+.|- ..+.+.|++|++.|.+...|..|+++|. -++.|.+||+.|...+.|+-|+|
T Consensus 131 ~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiR 208 (279)
T KOG2462|consen 131 YKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIR 208 (279)
T ss_pred eeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccc
Confidence 445555555555555555544442 2455677777777777777777777776 45788888888888888888888
Q ss_pred HhCCCCccccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHHHHHHHh
Q psy12560 242 THFPLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNLERHVKS 298 (440)
Q Consensus 242 ~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~ 298 (440)
+|+|||||.|+.|++.|.++++|+.||++|.+.++|+|..|+|+|..++.|.+|..+
T Consensus 209 THTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 209 THTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 888888888888888888888888888888888888888888888888888888763
No 3
>KOG3608|consensus
Probab=99.95 E-value=8.3e-28 Score=211.81 Aligned_cols=221 Identities=28% Similarity=0.536 Sum_probs=196.7
Q ss_pred ceeecc--cchhhccChHHHHHhHhhcCC------------CC-ceec--cccccccCChHHHHHHHHHcCCCCCeecCc
Q psy12560 78 VMYKCL--KCKRQFKVKYNCKYHIHCTSL------------KA-KLSC--DICDKTFVNKSHLDYHKLSHQDLNPYECSN 140 (440)
Q Consensus 78 ~~~~C~--~C~~~f~~~~~l~~H~~~~~~------------~~-~~~C--~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 140 (440)
..|.|. .|+..|.+...|..|+..|.. ++ .+.| ..|-+.|.++..|++|++.|++++...|+.
T Consensus 133 ~~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~ 212 (467)
T KOG3608|consen 133 QNFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPH 212 (467)
T ss_pred hhhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecch
Confidence 468884 799999999999999865542 11 2445 459999999999999999999999999999
Q ss_pred cccccCChHHHHHHHHHhc-CCCCcccccccccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhhhccc-cccCc
Q psy12560 141 CHKGFKNKGKLNRHMKIHS-DSKEQWFCKVCNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQV-THSDK 218 (440)
Q Consensus 141 C~~~f~~~~~L~~H~~~h~-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~-~h~~~ 218 (440)
||..|.++..|-.|.+... -....|.|..|.+.|.+...|+.|+..|. .-|+|+.|+.+....+.|..|++ .|...
T Consensus 213 Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~d 290 (467)
T KOG3608|consen 213 CGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKD 290 (467)
T ss_pred HHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccC
Confidence 9999999999999986543 23456999999999999999999999985 47999999999999999999988 57788
Q ss_pred cccccCccCcccCChHHHHHHHHHhCCCCccccCc--cccccCChHHHHHHHHHhc-CC--CceecCcCccccCChHHHH
Q psy12560 219 KIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKL--CDKIFFTLHNMRRHMRIHK-DR--PLFECHDCHKSFTRKDNLE 293 (440)
Q Consensus 219 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~H~-~~--~~~~C~~C~~~f~~~~~l~ 293 (440)
+||+|+.|++.|.+.++|.+|..+|. +..|+|.. |...|.+...|++|++.++ |. .+|.|..|++.|++..+|.
T Consensus 291 kpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~ 369 (467)
T KOG3608|consen 291 KPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLS 369 (467)
T ss_pred CCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHH
Confidence 99999999999999999999999986 78899988 9999999999999998866 43 4699999999999999999
Q ss_pred HHHHhhcC
Q psy12560 294 RHVKSIHL 301 (440)
Q Consensus 294 ~H~~~~H~ 301 (440)
.|++..|+
T Consensus 370 ~HL~kkH~ 377 (467)
T KOG3608|consen 370 AHLMKKHG 377 (467)
T ss_pred HHHHHhhc
Confidence 99999997
No 4
>KOG2462|consensus
Probab=99.95 E-value=3.7e-28 Score=209.27 Aligned_cols=136 Identities=34% Similarity=0.669 Sum_probs=125.3
Q ss_pred CCCeecCccccccCChHHHHHHHHHhcC--CCCcccccccccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhhh
Q psy12560 133 LNPYECSNCHKGFKNKGKLNRHMKIHSD--SKEQWFCKVCNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIK 210 (440)
Q Consensus 133 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 210 (440)
...|+|+.|++.+.+.++|.+|.++|.. .+..+.|++|++.|.+...|+.|+++|. -+++|.+||+.|...+-|..
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhc
Confidence 3458999999999999999999999864 3445899999999999999999999996 68899999999999999999
Q ss_pred ccccccCccccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHH
Q psy12560 211 HQVTHSDKKIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRI 270 (440)
Q Consensus 211 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 270 (440)
|+++|+|||||.|+.|++.|.++++|+.||++|.+.|+|+|..|+|+|..++.|.+|...
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999864
No 5
>KOG1074|consensus
Probab=99.94 E-value=7.8e-28 Score=233.79 Aligned_cols=170 Identities=30% Similarity=0.617 Sum_probs=145.0
Q ss_pred eeccccccccCChHHHHHHHHHcCCCCCeecCccccccCChHHHHHHHHHhcCC---CCccccc---ccccccCCHHHHH
Q psy12560 108 LSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKGFKNKGKLNRHMKIHSDS---KEQWFCK---VCNKALMSVESLK 181 (440)
Q Consensus 108 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~---~~~~~C~---~C~~~f~~~~~l~ 181 (440)
-.|-+|-+.....+.|+.|.++|+|++||+|.+||+.|.++.+|+.||-+|... +..+.|+ +|.+.|...-.|.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lp 685 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLP 685 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccccc
Confidence 569999999999999999999999999999999999999999999999888542 2348899 9999999999999
Q ss_pred HHHHHhcCC-Cc------------ccCCCCCccccCchhhhhccccccCcc-----------------------------
Q psy12560 182 KHMKIHAGL-KN------------YHCDICEKSFIEKNDLIKHQVTHSDKK----------------------------- 219 (440)
Q Consensus 182 ~H~~~h~~~-~~------------~~C~~C~~~f~~~~~l~~H~~~h~~~~----------------------------- 219 (440)
.|+++|.+. .+ -+|..|.+.|.....+..++..|.+..
T Consensus 686 QhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~ 765 (958)
T KOG1074|consen 686 QHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGR 765 (958)
T ss_pred ceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccccc
Confidence 999998732 11 358888888866666655544331100
Q ss_pred --------------------------------------------------------------------------------
Q psy12560 220 -------------------------------------------------------------------------------- 219 (440)
Q Consensus 220 -------------------------------------------------------------------------------- 219 (440)
T Consensus 766 ~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~ 845 (958)
T KOG1074|consen 766 ELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKT 845 (958)
T ss_pred ccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccccccc
Confidence
Q ss_pred ---------------------------------ccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHH
Q psy12560 220 ---------------------------------IFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRR 266 (440)
Q Consensus 220 ---------------------------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~ 266 (440)
...|..||+.|...+.|..|+++|+++|+|.|.+|++.|.++.+|+.
T Consensus 846 n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKv 925 (958)
T KOG1074|consen 846 NEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKV 925 (958)
T ss_pred ccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhh
Confidence 26799999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCce
Q psy12560 267 HMRIHKDRPLF 277 (440)
Q Consensus 267 H~~~H~~~~~~ 277 (440)
||.+|....++
T Consensus 926 HMgtH~w~q~~ 936 (958)
T KOG1074|consen 926 HMGTHMWVQPP 936 (958)
T ss_pred hhccccccCCC
Confidence 99999876654
No 6
>KOG3623|consensus
Probab=99.93 E-value=1.1e-26 Score=221.88 Aligned_cols=78 Identities=29% Similarity=0.741 Sum_probs=76.3
Q ss_pred ccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHHHHHHH
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~ 297 (440)
+|.|++|++.|...+.|.+|...|+|.+||+|.+|.|.|..+..|..|+|.|.|+|||.|..|+|+|...+++-.||.
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 599999999999999999999999999999999999999999999999999999999999999999999999999986
No 7
>KOG3608|consensus
Probab=99.92 E-value=3.3e-25 Score=195.49 Aligned_cols=229 Identities=24% Similarity=0.470 Sum_probs=195.0
Q ss_pred CCcc--hhhhcccCccchhccCCCCCcc-ccCcccceeccCCCC-ceeecc--cchhhccChHHHHHhHhhcCCCCceec
Q psy12560 37 TQCY--LCWQKNEHASFIIEAPESDKDE-KFTIPDYIQVIPGEP-VMYKCL--KCKRQFKVKYNCKYHIHCTSLKAKLSC 110 (440)
Q Consensus 37 ~~C~--~C~~~~~~~~~~~~h~~~~~~~-~~~~~~h~~~~~~~~-~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~C 110 (440)
++|. .|+..|.+...+..|...+..- ... +....+++ ..+.|. .|-+.|.++..|+.|++.|++++...|
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd----~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvAC 210 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYD----IQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVAC 210 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhh----hhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEec
Confidence 5554 4888888888888887655532 111 11122222 346785 699999999999999999999999999
Q ss_pred cccccccCChHHHHHHHHHcC--CCCCeecCccccccCChHHHHHHHHHhcCCCCcccccccccccCCHHHHHHHHH-Hh
Q psy12560 111 DICDKTFVNKSHLDYHKLSHQ--DLNPYECSNCHKGFKNKGKLNRHMKIHSDSKEQWFCKVCNKALMSVESLKKHMK-IH 187 (440)
Q Consensus 111 ~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~-~h 187 (440)
+.||.-|.+...|-.|++..+ ...+|.|..|.+.|.+...|..|+..|-.- |+|+.|+.+....+.|..|++ .|
T Consensus 211 p~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~---ykCplCdmtc~~~ssL~~H~r~rH 287 (467)
T KOG3608|consen 211 PHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNC---YKCPLCDMTCSSASSLTTHIRYRH 287 (467)
T ss_pred chHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhc---ccccccccCCCChHHHHHHHHhhh
Confidence 999999999999999987654 456899999999999999999999998543 999999999999999999998 57
Q ss_pred cCCCcccCCCCCccccCchhhhhccccccCccccccCc--cCcccCChHHHHHHHHHhC-C--CCccccCccccccCChH
Q psy12560 188 AGLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCEN--CGKSFKRKYDLALHIRTHF-P--LKRFQCKLCDKIFFTLH 262 (440)
Q Consensus 188 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~--~~~~~C~~C~~~f~~~~ 262 (440)
...+||+|+.|++.|.+.++|.+|...|+ +..|.|+. |..+|++...|.+|++.++ | .-+|.|-.|++.|++-.
T Consensus 288 s~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~ 366 (467)
T KOG3608|consen 288 SKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGK 366 (467)
T ss_pred ccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccch
Confidence 78899999999999999999999999998 67899987 9999999999999999776 4 45699999999999999
Q ss_pred HHHHHHHHhcC
Q psy12560 263 NMRRHMRIHKD 273 (440)
Q Consensus 263 ~L~~H~~~H~~ 273 (440)
+|..|++.-++
T Consensus 367 ~L~~HL~kkH~ 377 (467)
T KOG3608|consen 367 SLSAHLMKKHG 377 (467)
T ss_pred hHHHHHHHhhc
Confidence 99999877554
No 8
>KOG3623|consensus
Probab=99.91 E-value=1.3e-25 Score=214.64 Aligned_cols=78 Identities=37% Similarity=0.669 Sum_probs=76.4
Q ss_pred cccCCCCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHH
Q psy12560 192 NYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMR 269 (440)
Q Consensus 192 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~ 269 (440)
.|.|+.|++.|...+.|.+|...|+|.+||+|.+|.+.|+.+..|..|+|.|.|+|||+|+.|+|+|.....+.+||.
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 499999999999999999999999999999999999999999999999999999999999999999999999999986
No 9
>KOG3576|consensus
Probab=99.72 E-value=2.3e-18 Score=141.03 Aligned_cols=111 Identities=32% Similarity=0.635 Sum_probs=73.3
Q ss_pred CcccCCCCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHH
Q psy12560 191 KNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRI 270 (440)
Q Consensus 191 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 270 (440)
..|.|.+|++.|....-|.+|++-|...+.|.|..||+.|.+..+|.+|+++|+|.+||+|..|++.|+..-.|..|++.
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 34555556666655555666666665556666666666666666666666666666666666666666666666666554
Q ss_pred hcC-----------CCceecCcCccccCChHHHHHHHHhhcC
Q psy12560 271 HKD-----------RPLFECHDCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 271 H~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 301 (440)
-+| .+.|.|+.||.+-.....+..|++.+|.
T Consensus 196 vhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 196 VHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 322 4668899999888888888888887775
No 10
>KOG3576|consensus
Probab=99.65 E-value=4e-17 Score=133.78 Aligned_cols=113 Identities=26% Similarity=0.520 Sum_probs=98.0
Q ss_pred cccccccccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHHHh
Q psy12560 164 QWFCKVCNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTH 243 (440)
Q Consensus 164 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 243 (440)
.|.|.+|++.|.....|.+|++-|...+.|.|..||+.|...-+|++|+++|+|.+||+|..|++.|...-.|..|.+.-
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kv 196 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKV 196 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHH
Confidence 48888888888888888889888888888899999999999999999999999999999999999999998999888754
Q ss_pred CC-----------CCccccCccccccCChHHHHHHHHHhcCCCc
Q psy12560 244 FP-----------LKRFQCKLCDKIFFTLHNMRRHMRIHKDRPL 276 (440)
Q Consensus 244 ~~-----------~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~ 276 (440)
+| .+.|.|..||.+-.....+..|+..|+...+
T Consensus 197 hgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 197 HGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred cCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 44 4569999999999999999999999886544
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.37 E-value=1e-12 Score=128.35 Aligned_cols=147 Identities=24% Similarity=0.526 Sum_probs=106.9
Q ss_pred CeecCccccccCChHHHHHHHHHhcCCCCcccccc--cccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhhhcc
Q psy12560 135 PYECSNCHKGFKNKGKLNRHMKIHSDSKEQWFCKV--CNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQ 212 (440)
Q Consensus 135 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 212 (440)
.-.|+.|..... ...|..|.....-. .-.|+. |+..|.. ..+.. .+.|+.|++.|. ...|..|+
T Consensus 407 ~V~C~NC~~~i~-l~~l~lHe~~C~r~--~V~Cp~~~Cg~v~~r-~el~~---------H~~C~~Cgk~f~-~s~LekH~ 472 (567)
T PLN03086 407 TVECRNCKHYIP-SRSIALHEAYCSRH--NVVCPHDGCGIVLRV-EEAKN---------HVHCEKCGQAFQ-QGEMEKHM 472 (567)
T ss_pred eEECCCCCCccc-hhHHHHHHhhCCCc--ceeCCcccccceeec-ccccc---------CccCCCCCCccc-hHHHHHHH
Confidence 346888876543 45666777554322 146774 8877732 22233 357888888885 57788888
Q ss_pred ccccCccccccCccCcccCChHHHHHHHHHhCCCCccccCccccccC----------ChHHHHHHHHHhcCCCceecCcC
Q psy12560 213 VTHSDKKIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFF----------TLHNMRRHMRIHKDRPLFECHDC 282 (440)
Q Consensus 213 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~L~~H~~~H~~~~~~~C~~C 282 (440)
..++ +++.|+ ||+.+ ....|..|+.+|.+.+++.|.+|++.|. ....|..|...+ |.+++.|..|
T Consensus 473 ~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~C 547 (567)
T PLN03086 473 KVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSC 547 (567)
T ss_pred HhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEcccc
Confidence 8875 678898 98655 6688888988888889999999998884 245788998886 8888999999
Q ss_pred ccccCChHHHHHHHHhhcC
Q psy12560 283 HKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 283 ~~~f~~~~~l~~H~~~~H~ 301 (440)
|+.+..+ .|..|+...|.
T Consensus 548 gk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 548 GRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred CCeeeeh-hHHHHHHHhhc
Confidence 9888654 67888887774
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.35 E-value=2.5e-12 Score=125.59 Aligned_cols=146 Identities=20% Similarity=0.461 Sum_probs=109.3
Q ss_pred CceeccccccccCChHHHHHHHHHcCCCCCeecCc--cccccCChHHHHHHHHHhcCCCCcccccccccccCCHHHHHHH
Q psy12560 106 AKLSCDICDKTFVNKSHLDYHKLSHQDLNPYECSN--CHKGFKNKGKLNRHMKIHSDSKEQWFCKVCNKALMSVESLKKH 183 (440)
Q Consensus 106 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 183 (440)
....|+.|.+...... |..|..... .....|+. |+..|. +..+..| +.|+.|++.|. ...|..|
T Consensus 406 ~~V~C~NC~~~i~l~~-l~lHe~~C~-r~~V~Cp~~~Cg~v~~-r~el~~H----------~~C~~Cgk~f~-~s~LekH 471 (567)
T PLN03086 406 DTVECRNCKHYIPSRS-IALHEAYCS-RHNVVCPHDGCGIVLR-VEEAKNH----------VHCEKCGQAFQ-QGEMEKH 471 (567)
T ss_pred CeEECCCCCCccchhH-HHHHHhhCC-CcceeCCcccccceee-ccccccC----------ccCCCCCCccc-hHHHHHH
Confidence 3457888888665544 678875443 24456874 888873 3333333 68999988885 5778999
Q ss_pred HHHhcCCCcccCCCCCccccCchhhhhccccccCccccccCccCcccC----------ChHHHHHHHHHhCCCCccccCc
Q psy12560 184 MKIHAGLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFK----------RKYDLALHIRTHFPLKRFQCKL 253 (440)
Q Consensus 184 ~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~~C~~ 253 (440)
++.++ +++.|+ ||+.+ .+..|..|+.+|.+.+++.|+.|++.|. ....|..|..++ |.+++.|..
T Consensus 472 ~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~ 546 (567)
T PLN03086 472 MKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDS 546 (567)
T ss_pred HHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccc
Confidence 88875 788998 98655 6688999998899999999999998884 245788998886 889999999
Q ss_pred cccccCChHHHHHHHHHh
Q psy12560 254 CDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 254 C~~~f~~~~~L~~H~~~H 271 (440)
||+.|..+ .|..|+..-
T Consensus 547 Cgk~Vrlr-dm~~H~~~~ 563 (567)
T PLN03086 547 CGRSVMLK-EMDIHQIAV 563 (567)
T ss_pred cCCeeeeh-hHHHHHHHh
Confidence 99888765 677887653
No 13
>PHA00733 hypothetical protein
Probab=99.15 E-value=3.5e-11 Score=96.04 Aligned_cols=94 Identities=19% Similarity=0.268 Sum_probs=68.9
Q ss_pred hhhhhccccccCccccccCccCcccCChHHHHHH--HH---HhCCCCccccCccccccCChHHHHHHHHHhcCCCceecC
Q psy12560 206 NDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALH--IR---THFPLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECH 280 (440)
Q Consensus 206 ~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~ 280 (440)
..|.++-..-...+++.|.+|...|.....|..| ++ .+++.++|.|+.|++.|.+...|..|++.| ..+|.|.
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~ 103 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCP 103 (128)
T ss_pred HHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCC
Confidence 3344333333345667777777777766665555 21 234578899999999999999999999876 3568999
Q ss_pred cCccccCChHHHHHHHHhhcC
Q psy12560 281 DCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 281 ~C~~~f~~~~~l~~H~~~~H~ 301 (440)
.|++.|.....|..|+...|.
T Consensus 104 ~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 104 VCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCccCCHHHHHHHHHHhcC
Confidence 999999999999999987774
No 14
>PHA00733 hypothetical protein
Probab=99.02 E-value=2.8e-10 Score=90.90 Aligned_cols=81 Identities=19% Similarity=0.252 Sum_probs=54.6
Q ss_pred CCcccCCCCCccccCchhhhhc------cccccCccccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHH
Q psy12560 190 LKNYHCDICEKSFIEKNDLIKH------QVTHSDKKIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHN 263 (440)
Q Consensus 190 ~~~~~C~~C~~~f~~~~~l~~H------~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 263 (440)
.+++.|.+|...|.....|..+ +. +.+.++|.|+.|++.|.+...|..|++.| +.+|.|..|++.|.....
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 3445555555555544444333 22 33467788888888888888888888765 346888888888888888
Q ss_pred HHHHHHHhcC
Q psy12560 264 MRRHMRIHKD 273 (440)
Q Consensus 264 L~~H~~~H~~ 273 (440)
|..|+...++
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 8888877654
No 15
>KOG3993|consensus
Probab=98.97 E-value=1.4e-10 Score=106.13 Aligned_cols=53 Identities=17% Similarity=0.137 Sum_probs=35.5
Q ss_pred cccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHHHHHHHhhcC
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 301 (440)
..|++|+-.+.++..--.|.+.-..+..|.|.+|...|.+...|.+|+...|.
T Consensus 431 ~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 431 ELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred cCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcCh
Confidence 35666766666655444444443444557888888888888888888877775
No 16
>KOG3993|consensus
Probab=98.89 E-value=4.2e-10 Score=103.03 Aligned_cols=194 Identities=15% Similarity=0.234 Sum_probs=114.1
Q ss_pred eeecccchhhccChHHHHHhHhhcCCCCceeccccccccCChHHHHHHHHHcCCCCCeec-C--ccccccCChHHHHHHH
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFVNKSHLDYHKLSHQDLNPYEC-S--NCHKGFKNKGKLNRHM 155 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C-~--~C~~~f~~~~~L~~H~ 155 (440)
.|.|..|...|.+...|..|.=..-..-.|+|+.|+|.|....+|..|.+-|.....-.= . -=.+.-.+....+.-.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 589999999999999999885222222468899999999999999999887753211000 0 0000000000000000
Q ss_pred HHhc-CCCCcccccccccccCCHHHHHHHHHHhcCCC-----------------cccCCCCCccccCchhhhhccccccC
Q psy12560 156 KIHS-DSKEQWFCKVCNKALMSVESLKKHMKIHAGLK-----------------NYHCDICEKSFIEKNDLIKHQVTHSD 217 (440)
Q Consensus 156 ~~h~-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~-----------------~~~C~~C~~~f~~~~~l~~H~~~h~~ 217 (440)
+.-. .....|.|.+|++.|.....|++|+.+|+... .+-|..|+-.+.....-..+...+.+
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~ 426 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAG 426 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeec
Confidence 0000 11123788888888888888888877664311 13355565555544433333333332
Q ss_pred c-cccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHHhc
Q psy12560 218 K-KIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 218 ~-~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 272 (440)
. ....|+.|+..+.++..--.+.+.-..+.-|.|.+|...|.+...|.+|+...+
T Consensus 427 sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 427 SAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred cccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcC
Confidence 1 224577777777666554455544445566888899988888888888876633
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.87 E-value=9.5e-10 Score=71.78 Aligned_cols=42 Identities=21% Similarity=0.621 Sum_probs=30.5
Q ss_pred cccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHH
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNL 292 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l 292 (440)
|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 677777777777777777777776 567777777777766555
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.74 E-value=5e-09 Score=68.44 Aligned_cols=43 Identities=19% Similarity=0.494 Sum_probs=36.4
Q ss_pred ccccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHH
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNM 264 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L 264 (440)
.|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 3789999999999999999999987 688999999988876655
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=98.61 E-value=3.1e-08 Score=55.21 Aligned_cols=25 Identities=48% Similarity=0.959 Sum_probs=17.2
Q ss_pred HHHHHHHHhcCCCceecCcCccccC
Q psy12560 263 NMRRHMRIHKDRPLFECHDCHKSFT 287 (440)
Q Consensus 263 ~L~~H~~~H~~~~~~~C~~C~~~f~ 287 (440)
+|.+|+++|++++||.|+.|+++|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 3666777777777777777777665
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=98.47 E-value=1.1e-07 Score=52.98 Aligned_cols=26 Identities=38% Similarity=0.718 Sum_probs=20.9
Q ss_pred HHHHHHHHhCCCCccccCccccccCC
Q psy12560 235 DLALHIRTHFPLKRFQCKLCDKIFFT 260 (440)
Q Consensus 235 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 260 (440)
+|..|+++|++++||.|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47788888888888888888888863
No 21
>PHA00616 hypothetical protein
Probab=98.31 E-value=3e-07 Score=57.09 Aligned_cols=31 Identities=19% Similarity=0.380 Sum_probs=13.3
Q ss_pred cccCccccccCChHHHHHHHHHhcCCCceec
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKDRPLFEC 279 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C 279 (440)
|+|+.||+.|..++.|..|++.|+|++++.|
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~ 32 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTL 32 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCccce
Confidence 3444444444444444444444444444433
No 22
>PHA00616 hypothetical protein
Probab=98.23 E-value=5.3e-07 Score=55.98 Aligned_cols=39 Identities=18% Similarity=0.465 Sum_probs=31.4
Q ss_pred ccccCccCcccCChHHHHHHHHHhCCCCccccCcccccc
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIF 258 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 258 (440)
||+|+.||+.|...+.|..|++.|++++++.|+.=-..|
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y~~f 39 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFYIYF 39 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEEEEE
Confidence 588888999999999999999888888888887644333
No 23
>PHA00732 hypothetical protein
Probab=98.18 E-value=1.1e-06 Score=63.51 Aligned_cols=43 Identities=33% Similarity=0.704 Sum_probs=20.6
Q ss_pred cccCccccccCChHHHHHHHHH-hcCCCceecCcCccccCChHHHHHHHH
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRI-HKDRPLFECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~-H~~~~~~~C~~C~~~f~~~~~l~~H~~ 297 (440)
|.|..|++.|.+...|+.|++. |.+ +.|+.||+.|. .|..|++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhc
Confidence 4455555555555555555542 322 34555555554 2444443
No 24
>PHA00732 hypothetical protein
Probab=98.08 E-value=2.5e-06 Score=61.60 Aligned_cols=48 Identities=27% Similarity=0.597 Sum_probs=33.4
Q ss_pred ccccCccCcccCChHHHHHHHHH-hCCCCccccCccccccCChHHHHHHHHHhcC
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRT-HFPLKRFQCKLCDKIFFTLHNMRRHMRIHKD 273 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~ 273 (440)
||.|+.|++.|.+...|..|++. |. ++.|+.|++.|. .|..|++++.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCC
Confidence 46777788888777778888774 44 257888888776 46777755543
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.98 E-value=1.1e-05 Score=54.03 Aligned_cols=49 Identities=35% Similarity=0.618 Sum_probs=29.0
Q ss_pred cccCccccccCChHHHHHHHHH-hcCC-CceecCcCccccCChHHHHHHHHhhc
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRI-HKDR-PLFECHDCHKSFTRKDNLERHVKSIH 300 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~-H~~~-~~~~C~~C~~~f~~~~~l~~H~~~~H 300 (440)
|.|++|++ ..+...|..|... |..+ +.+.|++|...+. .+|..|+...|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 66666766 3445566666554 3332 3466777766544 36777776655
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.82 E-value=3.8e-05 Score=51.44 Aligned_cols=50 Identities=26% Similarity=0.487 Sum_probs=35.2
Q ss_pred ccccCccCcccCChHHHHHHHHHhCC--CCccccCccccccCChHHHHHHHHHhc
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTHFP--LKRFQCKLCDKIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h~~--~~~~~C~~C~~~f~~~~~L~~H~~~H~ 272 (440)
.|.|++|++ ..+...|..|....+. .+.+.|++|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 378888888 4556778888775443 24688888887655 37888887765
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.67 E-value=2.9e-05 Score=41.86 Aligned_cols=21 Identities=48% Similarity=1.021 Sum_probs=11.7
Q ss_pred eecCcCccccCChHHHHHHHH
Q psy12560 277 FECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l~~H~~ 297 (440)
|.|++|++.|.++..|..|++
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHh
Confidence 455555555555555555555
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.67 E-value=2.9e-05 Score=41.86 Aligned_cols=23 Identities=43% Similarity=1.003 Sum_probs=21.7
Q ss_pred cccCccccccCChHHHHHHHHHh
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H 271 (440)
|.|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 29
>KOG1146|consensus
Probab=97.64 E-value=4.3e-05 Score=80.62 Aligned_cols=145 Identities=18% Similarity=0.274 Sum_probs=87.0
Q ss_pred cceeccCCCCceeecccchhhccChHHHHHhHhhcCCCCceeccccccccCChHHHHHHHHHcCCCCCeecCccccccCC
Q psy12560 68 DYIQVIPGEPVMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKGFKN 147 (440)
Q Consensus 68 ~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 147 (440)
.++.......+.|+|+.|++.|+....|..||+..+.+..- .+|... .....+.+-...-.+.++|.|..|...+.+
T Consensus 454 ~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~~g-q~~~~~arg~~~~~~~~p~~C~~C~~sttt 530 (1406)
T KOG1146|consen 454 GQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCKAG-QNHPRLARGEVYRCPGKPYPCRACNYSTTT 530 (1406)
T ss_pred cceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhHhc-cccccccccccccCCCCcccceeeeeeeec
Confidence 33333333337899999999999999999999874433221 222111 111111111111223466777777777777
Q ss_pred hHHHHHHHHHh------------------------------------------cCCCCcccccccccccCCHHHHHHHHH
Q psy12560 148 KGKLNRHMKIH------------------------------------------SDSKEQWFCKVCNKALMSVESLKKHMK 185 (440)
Q Consensus 148 ~~~L~~H~~~h------------------------------------------~~~~~~~~C~~C~~~f~~~~~l~~H~~ 185 (440)
+.+|.+|++.- ...++.|.|..|++...-..+|+.|+.
T Consensus 531 ng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmt 610 (1406)
T KOG1146|consen 531 NGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMT 610 (1406)
T ss_pred chHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccc
Confidence 77777776532 112345889999999888888999987
Q ss_pred HhcCCCc-ccCCCCCccccCchhhhhccccc
Q psy12560 186 IHAGLKN-YHCDICEKSFIEKNDLIKHQVTH 215 (440)
Q Consensus 186 ~h~~~~~-~~C~~C~~~f~~~~~l~~H~~~h 215 (440)
.-....+ ..+-.++..+.....+..+.+.+
T Consensus 611 ss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 611 ASPSSSPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred cCCCCCChHHHhhhcchhhccccccCcCCCC
Confidence 5433333 56666666666555555554443
No 30
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.63 E-value=0.00033 Score=63.27 Aligned_cols=91 Identities=23% Similarity=0.459 Sum_probs=66.8
Q ss_pred cCchhhhhccccccCcccc----ccCccCcccCChHHHHHHHHHhCCCCccccCcccc-------ccCChHHHHHHHHHh
Q psy12560 203 IEKNDLIKHQVTHSDKKIF----VCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDK-------IFFTLHNMRRHMRIH 271 (440)
Q Consensus 203 ~~~~~l~~H~~~h~~~~~~----~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~L~~H~~~H 271 (440)
-+...|+.|...-..+..| .|..|...|.+...|..|++..| -.|-+|++ .|.+...|..|.+.-
T Consensus 199 F~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~H----E~ChICD~v~p~~~QYFK~Y~~Le~HF~~~ 274 (493)
T COG5236 199 FRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRH----EACHICDMVGPIRYQYFKSYEDLEAHFRNA 274 (493)
T ss_pred eecccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhh----hhhhhhhccCccchhhhhCHHHHHHHhhcC
Confidence 3456677776543333222 69999999999999999998754 35777764 588888999988753
Q ss_pred cCCCceecCc--Cc----cccCChHHHHHHHHhhcC
Q psy12560 272 KDRPLFECHD--CH----KSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 272 ~~~~~~~C~~--C~----~~f~~~~~l~~H~~~~H~ 301 (440)
+ |.|.. |- ..|.....|..|+...|+
T Consensus 275 h----y~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 275 H----YCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred c----eEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 3 77754 42 679999999999988887
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.58 E-value=6.3e-05 Score=40.90 Aligned_cols=24 Identities=42% Similarity=0.881 Sum_probs=14.4
Q ss_pred eecCcCccccCChHHHHHHHHhhc
Q psy12560 277 FECHDCHKSFTRKDNLERHVKSIH 300 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l~~H~~~~H 300 (440)
|.|++|++.|.+...|..|++.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 566667777777777766666554
No 32
>KOG2231|consensus
Probab=97.58 E-value=0.00014 Score=72.78 Aligned_cols=121 Identities=27% Similarity=0.595 Sum_probs=72.2
Q ss_pred eeccccccccCChHHHHHHHHHcCCCCCeecCccccccCChHHHHHHHHHhcCCCCcccccccc---------cccCCHH
Q psy12560 108 LSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKGFKNKGKLNRHMKIHSDSKEQWFCKVCN---------KALMSVE 178 (440)
Q Consensus 108 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~---------~~f~~~~ 178 (440)
+.|.+|+..|.-.. ..-.|..| -.|.+...|+.|+..-|+. +.|.+|- ....+..
T Consensus 100 ~~C~~C~~~~~~~~------------~~~~~~~c-~~~~s~~~Lk~H~~~~H~~---~~c~lC~~~~kif~~e~k~Yt~~ 163 (669)
T KOG2231|consen 100 HSCHICDRRFRALY------------NKKECLHC-TEFKSVENLKNHMRDQHKL---HLCSLCLQNLKIFINERKLYTRA 163 (669)
T ss_pred hhcCccccchhhhc------------ccCCCccc-cchhHHHHHHHHHHHhhhh---hccccccccceeeeeeeehehHH
Confidence 67888887764322 11247777 6777888888888554443 5565552 2233456
Q ss_pred HHHHHHHHhcC-CC----cccCCCCCccccCchhhhhccccccCccccccCccC------cccCChHHHHHHHHHhCCCC
Q psy12560 179 SLKKHMKIHAG-LK----NYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCG------KSFKRKYDLALHIRTHFPLK 247 (440)
Q Consensus 179 ~l~~H~~~h~~-~~----~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~------~~f~~~~~l~~H~~~h~~~~ 247 (440)
.|..|++.-.. ++ .-.|..|...|.....|.+|++.++ |.|..|. .-|.....|..|.+.+|
T Consensus 164 el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H--- 236 (669)
T KOG2231|consen 164 ELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH--- 236 (669)
T ss_pred HHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC---
Confidence 66777653221 11 1346777777777777777776554 4555552 34566677777776655
Q ss_pred ccccC
Q psy12560 248 RFQCK 252 (440)
Q Consensus 248 ~~~C~ 252 (440)
|.|.
T Consensus 237 -flCE 240 (669)
T KOG2231|consen 237 -FLCE 240 (669)
T ss_pred -cccc
Confidence 5555
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.51 E-value=6.8e-05 Score=57.64 Aligned_cols=74 Identities=24% Similarity=0.489 Sum_probs=20.7
Q ss_pred ccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHHHHHHHhhc
Q psy12560 222 VCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNLERHVKSIH 300 (440)
Q Consensus 222 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~H 300 (440)
+|..|+..|.+...|..|+...|+... + ....+.....+..+++.-. ...+.|.+|++.|.+...|..||++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Ccccccccccccccccccccccccccc---c-ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 477788888888888888765554221 1 1112223334444443321 225889999999999999999998653
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.35 E-value=0.00014 Score=55.87 Aligned_cols=73 Identities=21% Similarity=0.350 Sum_probs=16.5
Q ss_pred ecccchhhccChHHHHHhHhhcCCCCceeccccccccCChHHHHHHHHHcCCCCCeecCccccccCChHHHHHHHHHh
Q psy12560 81 KCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKGFKNKGKLNRHMKIH 158 (440)
Q Consensus 81 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 158 (440)
+|..|+..|.+...|..|+...++-..- ....+.....+..+++... ...+.|..|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc----ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 4777777777777777777554432211 1111222233333332211 12467777777777777777777654
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=97.33 E-value=0.00017 Score=39.15 Aligned_cols=23 Identities=48% Similarity=1.009 Sum_probs=11.5
Q ss_pred cccCccccccCChHHHHHHHHHh
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H 271 (440)
|.|++|++.|.+...|+.|+++|
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 44555555555555555555544
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.30 E-value=7e-05 Score=66.75 Aligned_cols=52 Identities=25% Similarity=0.595 Sum_probs=41.1
Q ss_pred CCccccCc--cccccCChHHHHHHHHH-h------------------cCCCceecCcCccccCChHHHHHHHH
Q psy12560 246 LKRFQCKL--CDKIFFTLHNMRRHMRI-H------------------KDRPLFECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 246 ~~~~~C~~--C~~~f~~~~~L~~H~~~-H------------------~~~~~~~C~~C~~~f~~~~~l~~H~~ 297 (440)
++||+|++ |.|.|.....|+.|+.- | ...|||+|++|+|+|.....|+.|+.
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 47788865 77888888788877753 2 12489999999999999999999976
No 37
>KOG1146|consensus
Probab=97.27 E-value=6.5e-05 Score=79.37 Aligned_cols=97 Identities=18% Similarity=0.181 Sum_probs=74.1
Q ss_pred CCCCCCCCCcccccCCccccccCCC--cccccccCCCCCCcchhhhcccCccchhccCCCCC-ccccCcccceeccC---
Q psy12560 1 MEQCPQCKGLVVCSESRLVQDSCGH--IKCRMCLLSDSTQCYLCWQKNEHASFIIEAPESDK-DEKFTIPDYIQVIP--- 74 (440)
Q Consensus 1 ~~~C~~C~~~~~~~~~~l~~h~~~~--~~c~~c~~~~~~~C~~C~~~~~~~~~~~~h~~~~~-~~~~~~~~h~~~~~--- 74 (440)
|..|-+|+-+...++.-|.-|.... .... ...+.|+|.+|......+..+..|..... ..+..+..|++.-.
T Consensus 734 ~~~civcd~~st~~l~~l~~h~~~~rs~ke~--v~g~~~~c~l~~y~t~~kanfqlh~Ktdkh~qk~~~~~hikegg~a~ 811 (1406)
T KOG1146|consen 734 VFDCIVCDVFSTDRLDQLWFHNTRERSRKEQ--VPGDVPSCKLKPYATNTKANFQLHNKTDKHVQKYQLRAHIKEGGPAN 811 (1406)
T ss_pred HHHHhhhhhhhhhhHHHHhhcchhhhhhhhc--ccCCCCcceecccccccchhhhhhcccchhhhccchhhhhhccCCcc
Confidence 4579999889999999999998644 3333 67899999999999999988888876543 56677777776321
Q ss_pred ----------CCCceeecccchhhccChHHHHHhH
Q psy12560 75 ----------GEPVMYKCLKCKRQFKVKYNCKYHI 99 (440)
Q Consensus 75 ----------~~~~~~~C~~C~~~f~~~~~l~~H~ 99 (440)
+.++..+|..|+....+..-|..|-
T Consensus 812 ~~~t~~la~~~~P~~l~cn~cd~~Tns~~~L~lh~ 846 (1406)
T KOG1146|consen 812 EYPTKTLASGPNPVHLKCNACDTPTNSPEPLLLHT 846 (1406)
T ss_pred CCcchhhhcCCCccccccccccCCCCCccccccCC
Confidence 1445678999999888888887773
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=97.25 E-value=0.0002 Score=40.21 Aligned_cols=25 Identities=36% Similarity=0.728 Sum_probs=16.4
Q ss_pred ceecCcCccccCChHHHHHHHHhhc
Q psy12560 276 LFECHDCHKSFTRKDNLERHVKSIH 300 (440)
Q Consensus 276 ~~~C~~C~~~f~~~~~l~~H~~~~H 300 (440)
+|.|..|++.|.+...|..|++.++
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 4667777777777777777766443
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=97.12 E-value=0.00025 Score=39.86 Aligned_cols=25 Identities=40% Similarity=0.786 Sum_probs=15.6
Q ss_pred ccccCccccccCChHHHHHHHHHhc
Q psy12560 248 RFQCKLCDKIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 248 ~~~C~~C~~~f~~~~~L~~H~~~H~ 272 (440)
+|.|..|++.|.+...|..|++.|.
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 3566666666666666666666553
No 40
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.93 E-value=0.00025 Score=63.33 Aligned_cols=53 Identities=28% Similarity=0.647 Sum_probs=44.0
Q ss_pred CccccccCc--cCcccCChHHHHHHHHHhC-------------------CCCccccCccccccCChHHHHHHHH
Q psy12560 217 DKKIFVCEN--CGKSFKRKYDLALHIRTHF-------------------PLKRFQCKLCDKIFFTLHNMRRHMR 269 (440)
Q Consensus 217 ~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~L~~H~~ 269 (440)
+++||+|++ |.+.|++...|+.|+.--| ..|||+|++|+|+|.....|+.|+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 358999965 9999999999999986321 2489999999999999999998864
No 41
>KOG2231|consensus
Probab=96.88 E-value=0.0018 Score=65.17 Aligned_cols=138 Identities=25% Similarity=0.495 Sum_probs=94.0
Q ss_pred eecCccccccCChHHHHHHHHHhcCCCCcccccccccccCCHHHHHHHHHHhcCCCcccCCCCC---------ccccCch
Q psy12560 136 YECSNCHKGFKNKGKLNRHMKIHSDSKEQWFCKVCNKALMSVESLKKHMKIHAGLKNYHCDICE---------KSFIEKN 206 (440)
Q Consensus 136 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---------~~f~~~~ 206 (440)
+.|.+|+..|.-.. ..-.|..| ..|.+...|+.|+...|+ .+.|..|- ....+..
T Consensus 100 ~~C~~C~~~~~~~~-------------~~~~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~ 163 (669)
T KOG2231|consen 100 HSCHICDRRFRALY-------------NKKECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRA 163 (669)
T ss_pred hhcCccccchhhhc-------------ccCCCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHH
Confidence 67999998874221 11468899 889999999999965442 34444442 2233456
Q ss_pred hhhhccccccC-cc----ccccCccCcccCChHHHHHHHHHhCCCCccccCccc------cccCChHHHHHHHHHhcCCC
Q psy12560 207 DLIKHQVTHSD-KK----IFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCD------KIFFTLHNMRRHMRIHKDRP 275 (440)
Q Consensus 207 ~l~~H~~~h~~-~~----~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~------~~f~~~~~L~~H~~~H~~~~ 275 (440)
.|..|+..--. ++ --.|..|...|.....|.+|++.++ |.|.+|+ ..|.....|..|.+.+|
T Consensus 164 el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H--- 236 (669)
T KOG2231|consen 164 ELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH--- 236 (669)
T ss_pred HHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC---
Confidence 77777653211 21 1379999999999999999998776 7787774 56888899999999876
Q ss_pred ceecC--cCc-cccCChHHHHHHHH
Q psy12560 276 LFECH--DCH-KSFTRKDNLERHVK 297 (440)
Q Consensus 276 ~~~C~--~C~-~~f~~~~~l~~H~~ 297 (440)
|.|. .|. +.|.....+..|++
T Consensus 237 -flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 237 -FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred -ccccccccccceeeehhHHHHHHH
Confidence 7787 563 33444434444444
No 42
>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=96.55 E-value=0.0028 Score=40.37 Aligned_cols=30 Identities=23% Similarity=0.449 Sum_probs=14.3
Q ss_pred CCceecCcCccccCChHHHHHHHHhhcCCC
Q psy12560 274 RPLFECHDCHKSFTRKDNLERHVKSIHLED 303 (440)
Q Consensus 274 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 303 (440)
+.|-.|++|+..+.+..+|++|+...|..+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 345556666666666666666665555533
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=96.49 E-value=0.0028 Score=40.41 Aligned_cols=30 Identities=23% Similarity=0.532 Sum_probs=13.3
Q ss_pred CCccccCccccccCChHHHHHHHHHhcCCC
Q psy12560 246 LKRFQCKLCDKIFFTLHNMRRHMRIHKDRP 275 (440)
Q Consensus 246 ~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~ 275 (440)
+.|-.|++|+..+....+|++|+.++++.+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 344555555555555555555555544443
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.46 E-value=0.0026 Score=34.50 Aligned_cols=23 Identities=43% Similarity=0.866 Sum_probs=13.2
Q ss_pred eecCcCccccCChHHHHHHHHhhc
Q psy12560 277 FECHDCHKSFTRKDNLERHVKSIH 300 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l~~H~~~~H 300 (440)
|+|+.|++... +..|.+|++.+|
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 56666666665 666666666555
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.44 E-value=0.0029 Score=34.73 Aligned_cols=19 Identities=37% Similarity=0.905 Sum_probs=7.7
Q ss_pred cCcCccccCChHHHHHHHH
Q psy12560 279 CHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 279 C~~C~~~f~~~~~l~~H~~ 297 (440)
|..|++.|.....|..|++
T Consensus 3 C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 3 CPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCcchhCCHHHHHHHHH
Confidence 3444444444444444433
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.18 E-value=0.0038 Score=34.18 Aligned_cols=22 Identities=41% Similarity=0.934 Sum_probs=15.7
Q ss_pred eecCcCccccCChHHHHHHHHh
Q psy12560 277 FECHDCHKSFTRKDNLERHVKS 298 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l~~H~~~ 298 (440)
|.|.+|++.|.+...|..|+++
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 5677777777777777777764
No 47
>PRK04860 hypothetical protein; Provisional
Probab=96.15 E-value=0.0026 Score=52.85 Aligned_cols=35 Identities=17% Similarity=0.522 Sum_probs=16.3
Q ss_pred ccccCccCcccCChHHHHHHHHHhCCCCccccCcccccc
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIF 258 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 258 (440)
+|.|. |+. ....+.+|.++|+++++|.|..|+..|
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l 153 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETL 153 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCcee
Confidence 34554 444 333444444444444444444444444
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.10 E-value=0.0067 Score=33.20 Aligned_cols=22 Identities=36% Similarity=0.854 Sum_probs=11.1
Q ss_pred ccCccccccCChHHHHHHHHHh
Q psy12560 250 QCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 250 ~C~~C~~~f~~~~~L~~H~~~H 271 (440)
.|..|++.|.....|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4555555555555555555443
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.08 E-value=0.0043 Score=33.57 Aligned_cols=23 Identities=26% Similarity=0.668 Sum_probs=11.9
Q ss_pred cccCccccccCChHHHHHHHHHhc
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~ 272 (440)
|+|+.|++... ...|.+|++.|+
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 45666665555 556666665543
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.79 E-value=0.0052 Score=33.59 Aligned_cols=23 Identities=35% Similarity=0.891 Sum_probs=16.1
Q ss_pred cccCccccccCChHHHHHHHHHh
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H 271 (440)
|.|.+|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 56777777777777777777643
No 51
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.74 E-value=0.014 Score=52.98 Aligned_cols=78 Identities=22% Similarity=0.474 Sum_probs=43.0
Q ss_pred cccccccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHHHhCC
Q psy12560 166 FCKVCNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTHFP 245 (440)
Q Consensus 166 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 245 (440)
.|..|...|.+-..|.+|++..+. .|-+|++.-.- =..-|.+...|..|.+.-|
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE----~ChICD~v~p~---------------------~~QYFK~Y~~Le~HF~~~h- 275 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHE----ACHICDMVGPI---------------------RYQYFKSYEDLEAHFRNAH- 275 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhh----hhhhhhccCcc---------------------chhhhhCHHHHHHHhhcCc-
Confidence 577777777777777777765432 45555433110 0123556666666654322
Q ss_pred CCccccCc--cc----cccCChHHHHHHHHHhc
Q psy12560 246 LKRFQCKL--CD----KIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 246 ~~~~~C~~--C~----~~f~~~~~L~~H~~~H~ 272 (440)
|.|.+ |. ..|.....|..|+..-+
T Consensus 276 ---y~ct~qtc~~~k~~vf~~~~el~~h~~~~h 305 (493)
T COG5236 276 ---YCCTFQTCRVGKCYVFPYHTELLEHLTRFH 305 (493)
T ss_pred ---eEEEEEEEecCcEEEeccHHHHHHHHHHHh
Confidence 55543 32 35666667777765533
No 52
>KOG2785|consensus
Probab=95.60 E-value=0.037 Score=51.47 Aligned_cols=58 Identities=24% Similarity=0.420 Sum_probs=38.2
Q ss_pred ccccCccccccCChHHHHHHHHHhcCC-----------------------CceecCcCc---cccCChHHHHHHHHhh-c
Q psy12560 248 RFQCKLCDKIFFTLHNMRRHMRIHKDR-----------------------PLFECHDCH---KSFTRKDNLERHVKSI-H 300 (440)
Q Consensus 248 ~~~C~~C~~~f~~~~~L~~H~~~H~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~~-H 300 (440)
|-.|-+|++.+.+...-..||..++|- .-|.|-.|. +.|.+....++||... |
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K~H 245 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDKGH 245 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhccC
Confidence 345666666666666666666655542 226787787 9999999999999854 3
Q ss_pred CCCCC
Q psy12560 301 LEDPS 305 (440)
Q Consensus 301 ~~~~~ 305 (440)
..-+|
T Consensus 246 Ckl~y 250 (390)
T KOG2785|consen 246 CKLPY 250 (390)
T ss_pred cccCC
Confidence 34444
No 53
>PRK04860 hypothetical protein; Provisional
Probab=95.40 E-value=0.01 Score=49.38 Aligned_cols=39 Identities=26% Similarity=0.730 Sum_probs=31.5
Q ss_pred CccccCccccccCChHHHHHHHHHhcCCCceecCcCccccCCh
Q psy12560 247 KRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRK 289 (440)
Q Consensus 247 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~ 289 (440)
-+|.|. |+. ....+++|.++|+++++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 368897 887 666788899999998899999998887654
No 54
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.98 E-value=0.0072 Score=33.78 Aligned_cols=22 Identities=41% Similarity=0.927 Sum_probs=14.7
Q ss_pred eecCcCccccCChHHHHHHHHh
Q psy12560 277 FECHDCHKSFTRKDNLERHVKS 298 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l~~H~~~ 298 (440)
|.|..|++.|.+...|..|+++
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 5677777777777777666653
No 55
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.34 E-value=0.012 Score=58.38 Aligned_cols=147 Identities=23% Similarity=0.374 Sum_probs=68.4
Q ss_pred ceeccccccccCChHHHHHHHH--HcCCC--CCeecC--ccccccCChHHHHHHHHHhcCCCCcccccc--cccccCCHH
Q psy12560 107 KLSCDICDKTFVNKSHLDYHKL--SHQDL--NPYECS--NCHKGFKNKGKLNRHMKIHSDSKEQWFCKV--CNKALMSVE 178 (440)
Q Consensus 107 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~--C~~~f~~~~ 178 (440)
.+.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+... +.+.. +...+....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP-AKEKLLNSSSKFSPLL 367 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCc-cccccccCcccccccc
Confidence 3455555555555555555555 45555 555555 455555555555555555444332 22221 222221111
Q ss_pred HH-----HHHHHHhcCCCcccCC--CCCccccCchhhhhccccccCcc--ccccCccCcccCChHHHHHHHHHhCCCCcc
Q psy12560 179 SL-----KKHMKIHAGLKNYHCD--ICEKSFIEKNDLIKHQVTHSDKK--IFVCENCGKSFKRKYDLALHIRTHFPLKRF 249 (440)
Q Consensus 179 ~l-----~~H~~~h~~~~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 249 (440)
.- ............+.+. .|...+.....+..|...|.... .+.+..|...|.....+..|++.|....++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 10 0000011112223332 24445555555555655555444 344566777777777777777666555554
Q ss_pred ccCcc
Q psy12560 250 QCKLC 254 (440)
Q Consensus 250 ~C~~C 254 (440)
.|..+
T Consensus 448 ~~~~~ 452 (467)
T COG5048 448 LCSIL 452 (467)
T ss_pred eeccc
Confidence 44433
No 56
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.22 E-value=0.012 Score=58.35 Aligned_cols=150 Identities=24% Similarity=0.440 Sum_probs=105.1
Q ss_pred CCeecCccccccCChHHHHHHHH--HhcCCC-Cccccc--ccccccCCHHHHHHHHHHhcCCCcccCCC--CCccccCch
Q psy12560 134 NPYECSNCHKGFKNKGKLNRHMK--IHSDSK-EQWFCK--VCNKALMSVESLKKHMKIHAGLKNYHCDI--CEKSFIEKN 206 (440)
Q Consensus 134 ~~~~C~~C~~~f~~~~~L~~H~~--~h~~~~-~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~ 206 (440)
.++.|..|...|.....|..|.+ .|.+.. .++.|+ .|++.|.....+..|...|.+..++.+.. +...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 46889999999999999999998 677762 448999 79999999999999999998888777654 333333222
Q ss_pred hhhhcc-----ccccCcccccc--CccCcccCChHHHHHHHHHhCCCC--ccccCccccccCChHHHHHHHHHhcCCCce
Q psy12560 207 DLIKHQ-----VTHSDKKIFVC--ENCGKSFKRKYDLALHIRTHFPLK--RFQCKLCDKIFFTLHNMRRHMRIHKDRPLF 277 (440)
Q Consensus 207 ~l~~H~-----~~h~~~~~~~C--~~C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~ 277 (440)
.-..+. ........+.+ ..|-..+.....+..|...|.... .+.+..|.+.|.....+..|++.|....++
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 447 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPL 447 (467)
T ss_pred CCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCce
Confidence 211111 11122233444 236666777777777777776555 467788999999999999999998877776
Q ss_pred ecCcCc
Q psy12560 278 ECHDCH 283 (440)
Q Consensus 278 ~C~~C~ 283 (440)
.|..++
T Consensus 448 ~~~~~~ 453 (467)
T COG5048 448 LCSILK 453 (467)
T ss_pred eecccc
Confidence 665544
No 57
>KOG2482|consensus
Probab=94.00 E-value=0.1 Score=47.64 Aligned_cols=164 Identities=21% Similarity=0.329 Sum_probs=87.0
Q ss_pred CCCceeecccchhhccCh-HHHHHhHhhcCC----------------------CCceeccccccccCChHHHHHHHHH--
Q psy12560 75 GEPVMYKCLKCKRQFKVK-YNCKYHIHCTSL----------------------KAKLSCDICDKTFVNKSHLDYHKLS-- 129 (440)
Q Consensus 75 ~~~~~~~C~~C~~~f~~~-~~l~~H~~~~~~----------------------~~~~~C~~C~~~f~~~~~l~~H~~~-- 129 (440)
+......|-.|...+... +....|+..-++ -..+.|-.|.+.|+.+..|+.||+.
T Consensus 140 dt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~ 219 (423)
T KOG2482|consen 140 DTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKR 219 (423)
T ss_pred CCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhcc
Confidence 333567899998877543 344455532222 1247788888889888888888875
Q ss_pred cCCCCC--------eecC--ccccccCChHHHHHHH--HHh--cC------------CCC--cccccccccccCCHHHHH
Q psy12560 130 HQDLNP--------YECS--NCHKGFKNKGKLNRHM--KIH--SD------------SKE--QWFCKVCNKALMSVESLK 181 (440)
Q Consensus 130 h~~~~~--------~~C~--~C~~~f~~~~~L~~H~--~~h--~~------------~~~--~~~C~~C~~~f~~~~~l~ 181 (440)
|....| |.=. .=|++.. ....+. .+- .+ ..+ ...|-.|.....+...|.
T Consensus 220 HrrinPknreYDkfyiINY~ev~ks~t---~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~ 296 (423)
T KOG2482|consen 220 HRRINPKNREYDKFYIINYLEVGKSWT---IVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLF 296 (423)
T ss_pred CcccCCCccccceEEEEeHhhcCCccc---hhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHH
Confidence 332222 1100 0111111 111111 111 00 011 147999999999999999
Q ss_pred HHHHHhcCCCcccCC-CCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHHHh
Q psy12560 182 KHMKIHAGLKNYHCD-ICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTH 243 (440)
Q Consensus 182 ~H~~~h~~~~~~~C~-~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 243 (440)
.||+..|.-...+-. .-+--|..+-.+..-.+. ....-.|-.|.-.|.....|..||..+
T Consensus 297 eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRk--q~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 297 EHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRK--QKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHHHHHHhhHHhhccccccchhhhhhHHHHHHH--HhhccccccccccccCcchhhhhcccc
Confidence 999865532111000 001122222222222221 112246777888999999999998743
No 58
>KOG2785|consensus
Probab=93.69 E-value=0.19 Score=46.90 Aligned_cols=136 Identities=18% Similarity=0.312 Sum_probs=87.7
Q ss_pred eeecccchhhccChHHHHHhHhhcC-------------------------------------CCCceeccccccccCChH
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTS-------------------------------------LKAKLSCDICDKTFVNKS 121 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~-------------------------------------~~~~~~C~~C~~~f~~~~ 121 (440)
.|.|..|...|.+...-+.|+++-- +..++.|..|.+.|.+..
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 5899999999999988888864310 123578999999999888
Q ss_pred HHHHHHHHcCCC-----------------CCee-------------cCccccccCChHHHHHHH------HHhcC-----
Q psy12560 122 HLDYHKLSHQDL-----------------NPYE-------------CSNCHKGFKNKGKLNRHM------KIHSD----- 160 (440)
Q Consensus 122 ~l~~H~~~h~~~-----------------~~~~-------------C~~C~~~f~~~~~L~~H~------~~h~~----- 160 (440)
....|+..-... ..+. +..+...+........+. .+...
T Consensus 83 a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e~ 162 (390)
T KOG2785|consen 83 AHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDED 162 (390)
T ss_pred hHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchhc
Confidence 888887542110 0111 222222222211111111 11110
Q ss_pred CCCcccccccccccCCHHHHHHHHHHhcCCC-----------------------cccCCCCC---ccccCchhhhhcccc
Q psy12560 161 SKEQWFCKVCNKALMSVESLKKHMKIHAGLK-----------------------NYHCDICE---KSFIEKNDLIKHQVT 214 (440)
Q Consensus 161 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~-----------------------~~~C~~C~---~~f~~~~~l~~H~~~ 214 (440)
...+-.|-.|++.+.+...-..||..+|+-- -|.|-.|+ +.|.+....+.||..
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 1122568899999999999999998887632 26788888 999999999999874
No 59
>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=93.61 E-value=0.039 Score=30.76 Aligned_cols=21 Identities=38% Similarity=0.822 Sum_probs=11.0
Q ss_pred ccCCCCCccccCchhhhhccc
Q psy12560 193 YHCDICEKSFIEKNDLIKHQV 213 (440)
Q Consensus 193 ~~C~~C~~~f~~~~~l~~H~~ 213 (440)
|.|..|++.|.+...|..|++
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 345555555555555555544
No 60
>KOG2482|consensus
Probab=93.34 E-value=0.19 Score=46.02 Aligned_cols=49 Identities=22% Similarity=0.482 Sum_probs=34.2
Q ss_pred cccCccccccCChHHHHHHHHHhcC---------------------------CCceecCcCccccCChHHHHHHHH
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKD---------------------------RPLFECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~---------------------------~~~~~C~~C~~~f~~~~~l~~H~~ 297 (440)
..|-.|...+-+...|..||.+-+. ...-.|-.|.-.|.....|..||.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcc
Confidence 3566666666666666666654321 122468889999999999999987
No 61
>KOG2893|consensus
Probab=93.10 E-value=0.026 Score=48.59 Aligned_cols=48 Identities=27% Similarity=0.563 Sum_probs=39.9
Q ss_pred ccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHHHHHHHhhcC
Q psy12560 250 QCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 250 ~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 301 (440)
-|.+|++.|....-|.+|++..+ |+|.+|.+...+--.|..|.-.+|.
T Consensus 12 wcwycnrefddekiliqhqkakh----fkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAKH----FKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeeecccccchhhhhhhhhhhcc----ceeeeehhhhccCCCceeehhhhhh
Confidence 38899999999999988887533 9999999988888888888666776
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.72 E-value=0.099 Score=28.52 Aligned_cols=20 Identities=40% Similarity=0.806 Sum_probs=14.4
Q ss_pred eecCcCccccCChHHHHHHHH
Q psy12560 277 FECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l~~H~~ 297 (440)
..|+.||+.| ..+.|.+|++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4577788888 6677777765
No 63
>KOG4173|consensus
Probab=92.17 E-value=0.077 Score=44.78 Aligned_cols=79 Identities=23% Similarity=0.544 Sum_probs=61.2
Q ss_pred ccccCc--cCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHH----------hcCCCceec--CcCccc
Q psy12560 220 IFVCEN--CGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRI----------HKDRPLFEC--HDCHKS 285 (440)
Q Consensus 220 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~----------H~~~~~~~C--~~C~~~ 285 (440)
.|.|++ |...|.....+..|..+-|+ -.|.+|.+.|.+...|..|+.- ..|...|.| ..|+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 466765 77778888878777765444 4788899999988888888743 245667999 459999
Q ss_pred cCChHHHHHHHHhhcC
Q psy12560 286 FTRKDNLERHVKSIHL 301 (440)
Q Consensus 286 f~~~~~l~~H~~~~H~ 301 (440)
|.+...-..|+-..|.
T Consensus 156 FkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhhhhhhhhHHHHhcc
Confidence 9999999999888886
No 64
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=91.77 E-value=0.15 Score=27.78 Aligned_cols=19 Identities=21% Similarity=0.775 Sum_probs=9.4
Q ss_pred ccCccccccCChHHHHHHHH
Q psy12560 250 QCKLCDKIFFTLHNMRRHMR 269 (440)
Q Consensus 250 ~C~~C~~~f~~~~~L~~H~~ 269 (440)
.|+.||+.| ....|.+|+.
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 3344555543
No 65
>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=91.63 E-value=0.15 Score=30.23 Aligned_cols=23 Identities=35% Similarity=0.641 Sum_probs=18.1
Q ss_pred ceecCcCccccCChHHHHHHHHh
Q psy12560 276 LFECHDCHKSFTRKDNLERHVKS 298 (440)
Q Consensus 276 ~~~C~~C~~~f~~~~~l~~H~~~ 298 (440)
+|.|.+|++.|.+...+..|+++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788888888888888888764
No 66
>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=90.90 E-value=0.42 Score=37.17 Aligned_cols=25 Identities=20% Similarity=0.469 Sum_probs=21.6
Q ss_pred eec----CcCccccCChHHHHHHHHhhcC
Q psy12560 277 FEC----HDCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 277 ~~C----~~C~~~f~~~~~l~~H~~~~H~ 301 (440)
|.| ..|++.+.+...+.+|++..|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 788 8899999999999999888774
No 67
>KOG2893|consensus
Probab=90.58 E-value=0.073 Score=45.93 Aligned_cols=43 Identities=26% Similarity=0.505 Sum_probs=28.9
Q ss_pred eeccccccccCChHHHHHHHHHcCCCCCeecCccccccCChHHHHHH
Q psy12560 108 LSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKGFKNKGKLNRH 154 (440)
Q Consensus 108 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H 154 (440)
-+|..|++.|.....|.+|++. +-|+|.+|.+...+--.|..|
T Consensus 11 pwcwycnrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred ceeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 4677777777777777777654 337777777666555556655
No 68
>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=90.52 E-value=0.14 Score=30.12 Aligned_cols=11 Identities=27% Similarity=0.920 Sum_probs=5.3
Q ss_pred cccCccccccC
Q psy12560 249 FQCKLCDKIFF 259 (440)
Q Consensus 249 ~~C~~C~~~f~ 259 (440)
|.|..||..+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 44555554443
No 69
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.76 E-value=0.38 Score=37.04 Aligned_cols=24 Identities=25% Similarity=0.683 Sum_probs=14.5
Q ss_pred ccccCccccccCChHHHHHHHHHh
Q psy12560 248 RFQCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 248 ~~~C~~C~~~f~~~~~L~~H~~~H 271 (440)
.|+|+.|...|-..-+...|...|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 466666666666555556665555
No 70
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.52 E-value=0.83 Score=35.21 Aligned_cols=54 Identities=24% Similarity=0.384 Sum_probs=33.8
Q ss_pred cCCCCCccccCchhhhhccccccCccccccCccCcccCChHHHHHHHHHhCCCCccccCccc
Q psy12560 194 HCDICEKSFIEKNDLIKHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCD 255 (440)
Q Consensus 194 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 255 (440)
.|-.|...|........ ..-.....|.|+.|...|-..-++..|...| .|+.|.
T Consensus 57 ~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh------~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNVFCVDCDVFVHESLH------CCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccc--cccccccceeCCCCCCccccccchhhhhhcc------CCcCCC
Confidence 47777777765431110 0012234688888888888887888887666 366664
No 71
>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=89.23 E-value=0.34 Score=28.71 Aligned_cols=22 Identities=23% Similarity=0.599 Sum_probs=13.6
Q ss_pred CeecCccccccCChHHHHHHHH
Q psy12560 135 PYECSNCHKGFKNKGKLNRHMK 156 (440)
Q Consensus 135 ~~~C~~C~~~f~~~~~L~~H~~ 156 (440)
+|.|.+|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 3566666666666666666654
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.15 E-value=0.19 Score=32.66 Aligned_cols=29 Identities=28% Similarity=0.600 Sum_probs=21.7
Q ss_pred CCCceecCcCccccCChHHHHHHHHhhcC
Q psy12560 273 DRPLFECHDCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 273 ~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 301 (440)
|+.-++|+-||..|+...++.+|+...|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 55567788888888888888888776665
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=88.57 E-value=0.82 Score=35.51 Aligned_cols=54 Identities=20% Similarity=0.581 Sum_probs=43.2
Q ss_pred cccccCccCcccCChHHHHHHHHHhCCC------------------------------------------Ccccc----C
Q psy12560 219 KIFVCENCGKSFKRKYDLALHIRTHFPL------------------------------------------KRFQC----K 252 (440)
Q Consensus 219 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~------------------------------------------~~~~C----~ 252 (440)
+...|..|+....- +.+..|++..+.. .-|.| .
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~ 88 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPP 88 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCC
Confidence 45689999988765 8899999843321 12889 9
Q ss_pred ccccccCChHHHHHHHHHhcC
Q psy12560 253 LCDKIFFTLHNMRRHMRIHKD 273 (440)
Q Consensus 253 ~C~~~f~~~~~L~~H~~~H~~ 273 (440)
.|++.+.+...+++|++.++|
T Consensus 89 ~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCcEeccHHHHHHHHHHhcC
Confidence 999999999999999998775
No 74
>KOG4173|consensus
Probab=88.38 E-value=0.33 Score=41.13 Aligned_cols=77 Identities=26% Similarity=0.514 Sum_probs=51.2
Q ss_pred eeeccc--chhhccChHHHHHhHhhcCCCCceeccccccccCChHHHHHHHHHcC----------CCCCeec--Cccccc
Q psy12560 79 MYKCLK--CKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFVNKSHLDYHKLSHQ----------DLNPYEC--SNCHKG 144 (440)
Q Consensus 79 ~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~----------~~~~~~C--~~C~~~ 144 (440)
.+.|+. |-..|........|-..-++ -.|..|.+.|.+...|..|+...+ |...|.| ..|+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 467765 77888888877777654443 368888888888888888875433 3344666 346666
Q ss_pred cCChHHHHHHHHHh
Q psy12560 145 FKNKGKLNRHMKIH 158 (440)
Q Consensus 145 f~~~~~L~~H~~~h 158 (440)
|.+...-..|+...
T Consensus 156 FkT~r~RkdH~I~~ 169 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRM 169 (253)
T ss_pred hhhhhhhhhHHHHh
Confidence 66666666665443
No 75
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=83.57 E-value=0.9 Score=30.33 Aligned_cols=21 Identities=19% Similarity=0.303 Sum_probs=16.7
Q ss_pred CCCcccccccCCCCCCcchhh
Q psy12560 23 CGHIKCRMCLLSDSTQCYLCW 43 (440)
Q Consensus 23 ~~~~~c~~c~~~~~~~C~~C~ 43 (440)
..++.|+.|+....++|..|.
T Consensus 23 ~~~F~CPnCG~~~I~RC~~CR 43 (59)
T PRK14890 23 AVKFLCPNCGEVIIYRCEKCR 43 (59)
T ss_pred cCEeeCCCCCCeeEeechhHH
Confidence 456899999887788888874
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=83.23 E-value=0.59 Score=30.47 Aligned_cols=29 Identities=17% Similarity=0.306 Sum_probs=19.3
Q ss_pred CCCCccccCccccccCChHHHHHHHHHhc
Q psy12560 244 FPLKRFQCKLCDKIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 244 ~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 272 (440)
.|+.-++|+-|+..|....++.+|...-+
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 35556777777777777777777765533
No 77
>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=83.00 E-value=0.76 Score=35.43 Aligned_cols=30 Identities=23% Similarity=0.672 Sum_probs=23.5
Q ss_pred cccCccccccCChHHHHHHHHHhcCCCceecCcCccccCCh
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRK 289 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~ 289 (440)
..|+.||+.|... +..|..|+.||..|.-.
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 5788888888765 45778899999888765
No 78
>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=81.84 E-value=0.71 Score=27.30 Aligned_cols=10 Identities=30% Similarity=0.939 Sum_probs=5.2
Q ss_pred cccCcccccc
Q psy12560 249 FQCKLCDKIF 258 (440)
Q Consensus 249 ~~C~~C~~~f 258 (440)
|.|..||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 4555555444
No 79
>PHA00626 hypothetical protein
Probab=80.47 E-value=0.9 Score=29.76 Aligned_cols=12 Identities=25% Similarity=0.514 Sum_probs=7.1
Q ss_pred eeecccchhhcc
Q psy12560 79 MYKCLKCKRQFK 90 (440)
Q Consensus 79 ~~~C~~C~~~f~ 90 (440)
.|+|+.||..|.
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 466666666554
No 80
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=79.74 E-value=1.6 Score=26.40 Aligned_cols=33 Identities=24% Similarity=0.597 Sum_probs=17.9
Q ss_pred eecccchhhccChHHHHHhHhhcCCCCceecccccccc
Q psy12560 80 YKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTF 117 (440)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f 117 (440)
..|+.|+..|.-...- .-.+....+|+.|+..|
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcEEECCCCCcEe
Confidence 4566666666655431 11233456666666655
No 81
>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=79.64 E-value=1.1 Score=34.51 Aligned_cols=30 Identities=23% Similarity=0.483 Sum_probs=23.7
Q ss_pred cccCccCcccCChHHHHHHHHHhCCCCccccCccccccCCh
Q psy12560 221 FVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTL 261 (440)
Q Consensus 221 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 261 (440)
..|+.||..|... +..|..|++||..|.-.
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 4788999888764 45788899999888765
No 82
>KOG1280|consensus
Probab=79.49 E-value=2.5 Score=39.15 Aligned_cols=36 Identities=19% Similarity=0.424 Sum_probs=18.4
Q ss_pred ceeccccccccCChHHHHHHHHHcCCCCC--eecCccc
Q psy12560 107 KLSCDICDKTFVNKSHLDYHKLSHQDLNP--YECSNCH 142 (440)
Q Consensus 107 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~--~~C~~C~ 142 (440)
.|.|+.|++.-.+...|..|+...+.+-. ..|++|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 45566666555555556666554443322 3455554
No 83
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=79.13 E-value=1.8 Score=25.95 Aligned_cols=33 Identities=18% Similarity=0.586 Sum_probs=17.7
Q ss_pred eecccchhhccChHHHHHhHhhcCCCCceecccccccc
Q psy12560 80 YKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTF 117 (440)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f 117 (440)
..|+.|+..|.-.... +-......+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~-----ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK-----IPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHH-----CCCCCcEEECCCCCCEe
Confidence 4566666666655432 11223456666666655
No 84
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=78.85 E-value=1.1 Score=24.70 Aligned_cols=9 Identities=33% Similarity=0.829 Sum_probs=5.1
Q ss_pred ecCcCcccc
Q psy12560 278 ECHDCHKSF 286 (440)
Q Consensus 278 ~C~~C~~~f 286 (440)
.|+.||+.|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 455666555
No 85
>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=78.83 E-value=2.1 Score=26.97 Aligned_cols=27 Identities=33% Similarity=0.607 Sum_probs=13.8
Q ss_pred CCceecCcCccccCCh----HHHHHHHHhhc
Q psy12560 274 RPLFECHDCHKSFTRK----DNLERHVKSIH 300 (440)
Q Consensus 274 ~~~~~C~~C~~~f~~~----~~l~~H~~~~H 300 (440)
....+|.+|++.+... +.|.+|++..|
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 3445677777666654 56777775444
No 86
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.67 E-value=1 Score=39.74 Aligned_cols=22 Identities=27% Similarity=0.463 Sum_probs=13.7
Q ss_pred CcccCCCCCccccCchhhhhcc
Q psy12560 191 KNYHCDICEKSFIEKNDLIKHQ 212 (440)
Q Consensus 191 ~~~~C~~C~~~f~~~~~l~~H~ 212 (440)
+.+.|++|+..|.+..-.....
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCc
Confidence 4567777777777665444443
No 87
>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=78.25 E-value=1.6 Score=26.46 Aligned_cols=33 Identities=24% Similarity=0.576 Sum_probs=17.2
Q ss_pred eecccchhhccChHHHHHhHhhcCCCCceecccccccc
Q psy12560 80 YKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTF 117 (440)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f 117 (440)
+.|+.|+..|.-..... ........|+.|+..|
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEECCCCCCEE
Confidence 46666766665544321 1112246666666655
No 88
>KOG2186|consensus
Probab=76.82 E-value=1.8 Score=38.21 Aligned_cols=45 Identities=29% Similarity=0.608 Sum_probs=21.6
Q ss_pred cccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChHHHHHHH
Q psy12560 221 FVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHM 268 (440)
Q Consensus 221 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 268 (440)
|.|..||....-. .+.+|+...++ .-|.|--|++.|.. ..+..|.
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 4555555544322 33445554444 44555555555554 3444444
No 89
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.44 E-value=0.47 Score=41.84 Aligned_cols=43 Identities=23% Similarity=0.461 Sum_probs=25.4
Q ss_pred CccccCccccccCChHHHHHHHHH---h-------cCCCc-----eecCcCccccCCh
Q psy12560 247 KRFQCKLCDKIFFTLHNMRRHMRI---H-------KDRPL-----FECHDCHKSFTRK 289 (440)
Q Consensus 247 ~~~~C~~C~~~f~~~~~L~~H~~~---H-------~~~~~-----~~C~~C~~~f~~~ 289 (440)
+.+.|++|+..|.+..-.....+. . .+..| ..|+.||++|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 456677777777665444433322 1 12333 4699999988755
No 90
>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=75.06 E-value=1.5 Score=38.76 Aligned_cols=26 Identities=19% Similarity=0.257 Sum_probs=16.3
Q ss_pred CCccccCccccccCChHHHHHHHHHh
Q psy12560 246 LKRFQCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 246 ~~~~~C~~C~~~f~~~~~L~~H~~~H 271 (440)
.+++.|+.|+........|..-.|+|
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeecc
Confidence 46677777776666655555555554
No 91
>KOG2186|consensus
Probab=74.06 E-value=2.3 Score=37.56 Aligned_cols=47 Identities=26% Similarity=0.432 Sum_probs=30.9
Q ss_pred eeecccchhhccChHHHHHhHhhcCCCCceeccccccccCChHHHHHHHH
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFVNKSHLDYHKL 128 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~ 128 (440)
.|.|..||....-+ .+..|+-..++ ..|.|--|++.|.. ..+..|..
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 46777777777644 34557766665 56777777777776 44666654
No 92
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=74.05 E-value=2 Score=27.09 Aligned_cols=27 Identities=30% Similarity=0.694 Sum_probs=16.3
Q ss_pred eeecccchhhccChHHHHHhHhhcCCCCceeccccccc
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKT 116 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 116 (440)
.|.|..||..|... ...+..|+.||..
T Consensus 2 ~Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC-----------CCCceECCCCCce
Confidence 36777777766532 2345667777654
No 93
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=72.77 E-value=1.9 Score=27.47 Aligned_cols=29 Identities=24% Similarity=0.675 Sum_probs=16.4
Q ss_pred eeecccchhhccChHHHHHhHhhcCCCCceecccccccc
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTF 117 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f 117 (440)
.|.|+.||..|..... .....|+.||..+
T Consensus 3 ~y~C~~CG~~~~~~~~----------~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCARCGREVELDEY----------GTGVRCPYCGYRI 31 (46)
T ss_pred EEECCCCCCEEEECCC----------CCceECCCCCCeE
Confidence 5777777776654221 1146677776543
No 94
>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=72.52 E-value=2.8 Score=37.14 Aligned_cols=95 Identities=23% Similarity=0.432 Sum_probs=51.6
Q ss_pred CCCCCeecCccccccCChHHHHHHHHHhc-CCCCcccccccccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhh
Q psy12560 131 QDLNPYECSNCHKGFKNKGKLNRHMKIHS-DSKEQWFCKVCNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLI 209 (440)
Q Consensus 131 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 209 (440)
++.+.|+|..|.. |--...-..|+..-. -+...|+|.-|++. ..|.|-.|...|-...-.+
T Consensus 138 hGGrif~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~SCNrl-----------------Gq~sCLRCK~cfCddHvrr 199 (314)
T PF06524_consen 138 HGGRIFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQSCNRL-----------------GQYSCLRCKICFCDDHVRR 199 (314)
T ss_pred CCCeEEEeecCCC-eeeccchhhhhhhhhhhhcccccccccccc-----------------cchhhhheeeeehhhhhhh
Confidence 4667888888875 333344445553321 11223788877653 2344544544444332222
Q ss_pred hccccccCccccccCccCcccCChHHHHHHHHHhC
Q psy12560 210 KHQVTHSDKKIFVCENCGKSFKRKYDLALHIRTHF 244 (440)
Q Consensus 210 ~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 244 (440)
.-.+.- ..+++.|+.|+........|..-.++|.
T Consensus 200 Kg~ky~-k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 200 KGFKYE-KGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred cccccc-cCCCCCCCCCCCcccccccceeeeecch
Confidence 112222 2367888888888777777766666553
No 95
>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=72.11 E-value=2.5 Score=33.22 Aligned_cols=33 Identities=18% Similarity=0.259 Sum_probs=24.1
Q ss_pred cccCccccccCChHHHHHHHHHhcCCCceecCcCccccCChHHH
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRKDNL 292 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~l 292 (440)
..|+.||+.|... +..|..|+.||..|.-...+
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcchhh
Confidence 5788888888654 45778899999887655333
No 96
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=70.84 E-value=2.8 Score=27.94 Aligned_cols=20 Identities=20% Similarity=0.451 Sum_probs=15.5
Q ss_pred CCcccccccCCCCCCcchhh
Q psy12560 24 GHIKCRMCLLSDSTQCYLCW 43 (440)
Q Consensus 24 ~~~~c~~c~~~~~~~C~~C~ 43 (440)
..+.|+.|+...-++|.-|.
T Consensus 26 v~F~CPnCGe~~I~Rc~~CR 45 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKCR 45 (61)
T ss_pred eEeeCCCCCceeeehhhhHH
Confidence 44788888888888887773
No 97
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=70.60 E-value=3.7 Score=26.63 Aligned_cols=24 Identities=38% Similarity=0.798 Sum_probs=13.5
Q ss_pred eecCcCccccCCh-----HHHHHHHHhhc
Q psy12560 277 FECHDCHKSFTRK-----DNLERHVKSIH 300 (440)
Q Consensus 277 ~~C~~C~~~f~~~-----~~l~~H~~~~H 300 (440)
-.|..|++.+... +.|.+|++..|
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 3466666655444 46666666444
No 98
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=67.96 E-value=3 Score=34.85 Aligned_cols=11 Identities=18% Similarity=0.286 Sum_probs=6.3
Q ss_pred CCCceecCcCc
Q psy12560 273 DRPLFECHDCH 283 (440)
Q Consensus 273 ~~~~~~C~~C~ 283 (440)
|+.|-+||+||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 45555666665
No 99
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=67.81 E-value=5.8 Score=33.11 Aligned_cols=18 Identities=11% Similarity=0.097 Sum_probs=9.4
Q ss_pred CceeccccccccCChHHH
Q psy12560 106 AKLSCDICDKTFVNKSHL 123 (440)
Q Consensus 106 ~~~~C~~C~~~f~~~~~l 123 (440)
.-|.|+.|+..|.....+
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CeEECCCCCcEeeHHHHH
Confidence 345555555555554444
No 100
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.32 E-value=10 Score=31.16 Aligned_cols=36 Identities=14% Similarity=0.358 Sum_probs=18.2
Q ss_pred CCceeccccccccCChHHHHHHHHHcCCCCCeecCccccc
Q psy12560 105 KAKLSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKG 144 (440)
Q Consensus 105 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 144 (440)
...|.|+.|+..|.....+.. .. ....|.|+.||..
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~ 132 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEE 132 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCE
Confidence 345667777766664332221 01 1233666666654
No 101
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=66.56 E-value=7.6 Score=35.38 Aligned_cols=24 Identities=33% Similarity=0.749 Sum_probs=13.5
Q ss_pred ccccCccccccCChHHHHHHHHHh
Q psy12560 248 RFQCKLCDKIFFTLHNMRRHMRIH 271 (440)
Q Consensus 248 ~~~C~~C~~~f~~~~~L~~H~~~H 271 (440)
.|+|+.|...|-..-+.-.|...|
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHHHh
Confidence 355666655555555555555554
No 102
>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=66.45 E-value=3.8 Score=32.20 Aligned_cols=30 Identities=17% Similarity=0.194 Sum_probs=23.2
Q ss_pred cccCccCcccCChHHHHHHHHHhCCCCccccCccccccCCh
Q psy12560 221 FVCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTL 261 (440)
Q Consensus 221 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 261 (440)
..|+.||+.|... +..|..|++||..|.-.
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 5788898888654 45788899999887655
No 103
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=66.35 E-value=2.4 Score=33.12 Aligned_cols=39 Identities=15% Similarity=0.250 Sum_probs=18.8
Q ss_pred eecccchhhccChHHHHHhHhhcCCCCceeccccccccC
Q psy12560 80 YKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFV 118 (440)
Q Consensus 80 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~ 118 (440)
..|+.||..=.....|+.-..--..-.-|.|..||.+|+
T Consensus 73 ~~CpkCg~~ea~y~~~QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYYWQLQTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEEEeeehhccCCCceEEEEecccCCEee
Confidence 568888754433333222111011112377777777664
No 104
>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=66.27 E-value=1.4 Score=28.95 Aligned_cols=30 Identities=23% Similarity=0.596 Sum_probs=16.4
Q ss_pred eeecccchhhccChHHHHHhHhhcCCCCceecccccc
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDK 115 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~ 115 (440)
.|+|..||..|.....+ . ......|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~------~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKM------S-DDPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEec------C-CCCCCCCCCCCC
Confidence 36777777777643211 1 133455777764
No 105
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=65.95 E-value=1.5 Score=27.29 Aligned_cols=30 Identities=23% Similarity=0.689 Sum_probs=17.9
Q ss_pred eeecccchhhccChHHHHHhHhhcCCCCceecccccc
Q psy12560 79 MYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDK 115 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~ 115 (440)
.|+|..||..|.....+ .. .....|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~------~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSI------SE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEc------CC-CCCCcCCCCCC
Confidence 47777777777643221 11 45566777765
No 106
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=65.54 E-value=1.2 Score=36.90 Aligned_cols=16 Identities=38% Similarity=0.700 Sum_probs=11.6
Q ss_pred eecCcCccccCChHHH
Q psy12560 277 FECHDCHKSFTRKDNL 292 (440)
Q Consensus 277 ~~C~~C~~~f~~~~~l 292 (440)
|+|+.||++|.....+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 7888888888765443
No 107
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=64.37 E-value=4.6 Score=35.38 Aligned_cols=30 Identities=27% Similarity=0.510 Sum_probs=22.8
Q ss_pred CCCceecCcCccccCChHHHHHHHHhhcCC
Q psy12560 273 DRPLFECHDCHKSFTRKDNLERHVKSIHLE 302 (440)
Q Consensus 273 ~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 302 (440)
.+..|.|+.|+|.|.-..-.++|+...|.+
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 344599999999999999999999999863
No 108
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=63.74 E-value=7.6 Score=31.95 Aligned_cols=36 Identities=17% Similarity=0.483 Sum_probs=18.8
Q ss_pred CccccCccccccCChHHHHHHHHHhcCCCceecCcCcccc
Q psy12560 247 KRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSF 286 (440)
Q Consensus 247 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f 286 (440)
.-|.|+.|+..|.....+.. . . ....|.|+.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 45667777766665433322 0 1 12337777776543
No 109
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=63.68 E-value=3.4 Score=34.15 Aligned_cols=16 Identities=31% Similarity=0.640 Sum_probs=10.3
Q ss_pred cccCccccccCChHHH
Q psy12560 249 FQCKLCDKIFFTLHNM 264 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L 264 (440)
++|+.||++|.+...+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 6677777777665443
No 110
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=63.64 E-value=6.4 Score=33.57 Aligned_cols=30 Identities=17% Similarity=0.501 Sum_probs=15.6
Q ss_pred CceeccccccccCChHHHHHHHHHcCCCCCeecCccccc
Q psy12560 106 AKLSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHKG 144 (440)
Q Consensus 106 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 144 (440)
.-|.|+.|+..|.....+. ..|.|+.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 3456666666555544332 23566666543
No 111
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=63.39 E-value=4.5 Score=33.78 Aligned_cols=11 Identities=36% Similarity=0.730 Sum_probs=6.4
Q ss_pred CccccccCccC
Q psy12560 217 DKKIFVCENCG 227 (440)
Q Consensus 217 ~~~~~~C~~C~ 227 (440)
|+.|-.||+||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 34556666665
No 112
>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=62.90 E-value=7.5 Score=32.44 Aligned_cols=31 Identities=23% Similarity=0.234 Sum_probs=19.0
Q ss_pred CCccccCccccccCChHHHHHHHHHhcCCCceecCcCccc
Q psy12560 246 LKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKS 285 (440)
Q Consensus 246 ~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~ 285 (440)
..-|.|+.|+..|+....+. .-|.|+.||..
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 34466777776666666653 13677777654
No 113
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=61.81 E-value=6.8 Score=35.69 Aligned_cols=23 Identities=22% Similarity=0.525 Sum_probs=13.2
Q ss_pred ccccccccccCCHHHHHHHHHHh
Q psy12560 165 WFCKVCNKALMSVESLKKHMKIH 187 (440)
Q Consensus 165 ~~C~~C~~~f~~~~~l~~H~~~h 187 (440)
|.|+.|...|-..-..-.|...|
T Consensus 389 Y~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 389 YQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred eechhhhhhhhhhhHHHHHHHHh
Confidence 66666666665555555554443
No 114
>KOG2807|consensus
Probab=61.56 E-value=13 Score=34.41 Aligned_cols=22 Identities=18% Similarity=0.472 Sum_probs=15.1
Q ss_pred ceecCcCccccCChHHHHHHHH
Q psy12560 276 LFECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 276 ~~~C~~C~~~f~~~~~l~~H~~ 297 (440)
.|.|..|...|-..-+...|-.
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHes 366 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHES 366 (378)
T ss_pred cEEchhccceeeccchHHHHhh
Confidence 4777777777777666666654
No 115
>PF15269 zf-C2H2_7: Zinc-finger
Probab=59.65 E-value=8 Score=24.04 Aligned_cols=29 Identities=31% Similarity=0.642 Sum_probs=22.9
Q ss_pred cCCCCceeecccchhhccChHHHHHhHhh
Q psy12560 73 IPGEPVMYKCLKCKRQFKVKYNCKYHIHC 101 (440)
Q Consensus 73 ~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 101 (440)
..|.+-.|+|-+|..+....+.|-.||+-
T Consensus 14 p~gkp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 14 PPGKPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCCCCccceeecCCcccchHHHHHHHHHH
Confidence 34555568999999999999999888853
No 116
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=59.35 E-value=5.4 Score=41.84 Aligned_cols=8 Identities=25% Similarity=0.513 Sum_probs=4.6
Q ss_pred cCCCCCcc
Q psy12560 194 HCDICEKS 201 (440)
Q Consensus 194 ~C~~C~~~ 201 (440)
.|..||..
T Consensus 437 ~C~~Cg~v 444 (730)
T COG1198 437 LCRDCGYI 444 (730)
T ss_pred ecccCCCc
Confidence 46666654
No 117
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=58.89 E-value=4.9 Score=24.56 Aligned_cols=11 Identities=36% Similarity=1.087 Sum_probs=5.2
Q ss_pred ccCCCCCcccc
Q psy12560 193 YHCDICEKSFI 203 (440)
Q Consensus 193 ~~C~~C~~~f~ 203 (440)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44555554443
No 118
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.84 E-value=5 Score=25.85 Aligned_cols=29 Identities=24% Similarity=0.736 Sum_probs=16.7
Q ss_pred ceeecccchhhccChHHHHHhHhhcCCCCceeccccccc
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKT 116 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 116 (440)
..|.|..||+.|... .......|+.||..
T Consensus 5 ~~Y~C~~Cg~~~~~~----------~~~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREVELD----------QETRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCeeehh----------hccCceeCCCCCcE
Confidence 457777777777211 12345667777654
No 119
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=57.39 E-value=8.9 Score=32.70 Aligned_cols=31 Identities=26% Similarity=0.448 Sum_probs=19.9
Q ss_pred CccccCccccccCChHHHHHHHHHhcCCCceecCcCcccc
Q psy12560 247 KRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSF 286 (440)
Q Consensus 247 ~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f 286 (440)
.-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 4577777777776666552 247777777544
No 120
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=55.26 E-value=13 Score=24.87 Aligned_cols=18 Identities=28% Similarity=0.370 Sum_probs=7.0
Q ss_pred HHHHHHHcCCCCCeecCc
Q psy12560 123 LDYHKLSHQDLNPYECSN 140 (440)
Q Consensus 123 l~~H~~~h~~~~~~~C~~ 140 (440)
|..|+...-..++..|+.
T Consensus 26 l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 26 LDDHLENECPKRPVPCPY 43 (60)
T ss_dssp HHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHccCCCCcEECCC
Confidence 444444333333444444
No 121
>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=54.81 E-value=12 Score=20.48 Aligned_cols=19 Identities=16% Similarity=0.613 Sum_probs=12.9
Q ss_pred ecCcCccccCChHHHHHHHH
Q psy12560 278 ECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 278 ~C~~C~~~f~~~~~l~~H~~ 297 (440)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 577777777 5566667765
No 122
>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=54.76 E-value=8 Score=22.48 Aligned_cols=6 Identities=50% Similarity=1.553 Sum_probs=2.7
Q ss_pred ccCccC
Q psy12560 222 VCENCG 227 (440)
Q Consensus 222 ~C~~C~ 227 (440)
.|+.||
T Consensus 19 rC~~CG 24 (32)
T PF03604_consen 19 RCPECG 24 (32)
T ss_dssp SBSSSS
T ss_pred ECCcCC
Confidence 444444
No 123
>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=54.55 E-value=8.7 Score=30.82 Aligned_cols=22 Identities=32% Similarity=0.602 Sum_probs=8.4
Q ss_pred eeccccccccCChHHHHHHHHHcCC
Q psy12560 108 LSCDICDKTFVNKSHLDYHKLSHQD 132 (440)
Q Consensus 108 ~~C~~C~~~f~~~~~l~~H~~~h~~ 132 (440)
..|-+||+.|.. |.+|++.|+|
T Consensus 73 i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-
T ss_pred eEEccCCcccch---HHHHHHHccC
Confidence 445555554443 3445554443
No 124
>PF12907 zf-met2: Zinc-binding
Probab=53.42 E-value=6.7 Score=24.11 Aligned_cols=26 Identities=23% Similarity=0.515 Sum_probs=16.2
Q ss_pred eecCcCccc---cCChHHHHHHHHhhcCC
Q psy12560 277 FECHDCHKS---FTRKDNLERHVKSIHLE 302 (440)
Q Consensus 277 ~~C~~C~~~---f~~~~~l~~H~~~~H~~ 302 (440)
+.|.+|..+ ..+...|..|..+.|..
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCC
Confidence 467777633 34455677777777763
No 125
>KOG2807|consensus
Probab=53.30 E-value=20 Score=33.08 Aligned_cols=86 Identities=20% Similarity=0.536 Sum_probs=51.2
Q ss_pred ccccccccccCCHHHHHHHHHHhcCCCcccCCCCCccccCchhhhhccccc----------cCc--cccccCccCcccCC
Q psy12560 165 WFCKVCNKALMSVESLKKHMKIHAGLKNYHCDICEKSFIEKNDLIKHQVTH----------SDK--KIFVCENCGKSFKR 232 (440)
Q Consensus 165 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h----------~~~--~~~~C~~C~~~f~~ 232 (440)
|.|+.|.... -.-|..|++|+-+.....+|.+-...- ..+ +.-.|-.|+-.
T Consensus 277 y~CP~Ckakv--------------CsLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~--- 339 (378)
T KOG2807|consen 277 YFCPQCKAKV--------------CSLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE--- 339 (378)
T ss_pred eeCCcccCee--------------ecCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc---
Confidence 7888886432 234678888888777776665432211 011 01125555111
Q ss_pred hHHHHHHHHHhCCCCccccCccccccCChHHHHHHHHHhcCCCceecCcCc
Q psy12560 233 KYDLALHIRTHFPLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCH 283 (440)
Q Consensus 233 ~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~ 283 (440)
-.+...|+|..|...|-..-+...|...| .|+.|.
T Consensus 340 ----------~~~~~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 340 ----------LLSSGRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred ----------cCCCCcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 11334588888888888877777887776 466665
No 126
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.70 E-value=3 Score=32.32 Aligned_cols=70 Identities=17% Similarity=0.169 Sum_probs=44.3
Q ss_pred cccccCCccccccCCCcccccccCCCCCCcchhhhcccCccchhccCCCCCccccCcccceeccCCCCceeecccchhhc
Q psy12560 10 LVVCSESRLVQDSCGHIKCRMCLLSDSTQCYLCWQKNEHASFIIEAPESDKDEKFTIPDYIQVIPGEPVMYKCLKCKRQF 89 (440)
Q Consensus 10 ~~~~~~~~l~~h~~~~~~c~~c~~~~~~~C~~C~~~~~~~~~~~~h~~~~~~~~~~~~~h~~~~~~~~~~~~C~~C~~~f 89 (440)
-...+..+-..++.....|..|+...-.+|++|+...+.......-.....+. . -|--|..||..|
T Consensus 13 gh~attaadq~pel~eafcskcgeati~qcp~csasirgd~~vegvlglg~dy-------------e-~psfchncgs~f 78 (160)
T COG4306 13 GHVATTAADQSPELMEAFCSKCGEATITQCPICSASIRGDYYVEGVLGLGGDY-------------E-PPSFCHNCGSRF 78 (160)
T ss_pred CceeeccccCCHHHHHHHHhhhchHHHhcCCccCCcccccceeeeeeccCCCC-------------C-CcchhhcCCCCC
Confidence 33444556666667678899999999999999987766543322222111111 1 245699999998
Q ss_pred cChH
Q psy12560 90 KVKY 93 (440)
Q Consensus 90 ~~~~ 93 (440)
..-.
T Consensus 79 pwte 82 (160)
T COG4306 79 PWTE 82 (160)
T ss_pred CcHH
Confidence 7543
No 127
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=50.97 E-value=10 Score=27.65 Aligned_cols=12 Identities=42% Similarity=1.193 Sum_probs=6.9
Q ss_pred ccccCccCcccC
Q psy12560 220 IFVCENCGKSFK 231 (440)
Q Consensus 220 ~~~C~~C~~~f~ 231 (440)
.|.|..|+..|.
T Consensus 53 IW~C~kCg~~fA 64 (89)
T COG1997 53 IWKCRKCGAKFA 64 (89)
T ss_pred eEEcCCCCCeec
Confidence 456666666554
No 128
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=50.51 E-value=4.6 Score=28.52 Aligned_cols=42 Identities=17% Similarity=0.485 Sum_probs=22.2
Q ss_pred cccCccccccCChHHHHHHHHHhcCCCceecC--cCccccCChHHH
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHKDRPLFECH--DCHKSFTRKDNL 292 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~--~C~~~f~~~~~l 292 (440)
+.|+.||.......+-..+.. ..+.-+.|. .||.+|.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEE
Confidence 467777755433222222211 334456787 788888765443
No 129
>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=50.47 E-value=6.7 Score=22.40 Aligned_cols=11 Identities=27% Similarity=0.610 Sum_probs=5.7
Q ss_pred CCceecccccc
Q psy12560 105 KAKLSCDICDK 115 (440)
Q Consensus 105 ~~~~~C~~C~~ 115 (440)
...|.|+.|+.
T Consensus 17 ~~~~vCp~C~~ 27 (30)
T PF08274_consen 17 GELLVCPECGH 27 (30)
T ss_dssp SSSEEETTTTE
T ss_pred CCEEeCCcccc
Confidence 34455555554
No 130
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=50.40 E-value=7 Score=26.27 Aligned_cols=43 Identities=14% Similarity=0.361 Sum_probs=28.0
Q ss_pred ceeeccc--chhhccChHHHHHhHhhcCCCCceeccc----cccccCChH
Q psy12560 78 VMYKCLK--CKRQFKVKYNCKYHIHCTSLKAKLSCDI----CDKTFVNKS 121 (440)
Q Consensus 78 ~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~C~~----C~~~f~~~~ 121 (440)
.+..|+. |...+. +..|..|+...=......|+. |+..+....
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~ 56 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVPRED 56 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEEHHH
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccchhH
Confidence 4678988 555555 667899998666677889999 998876543
No 131
>PF14353 CpXC: CpXC protein
Probab=49.31 E-value=4.9 Score=32.17 Aligned_cols=11 Identities=36% Similarity=0.899 Sum_probs=4.9
Q ss_pred cccCccccccC
Q psy12560 249 FQCKLCDKIFF 259 (440)
Q Consensus 249 ~~C~~C~~~f~ 259 (440)
|.|+.||..|.
T Consensus 39 ~~CP~Cg~~~~ 49 (128)
T PF14353_consen 39 FTCPSCGHKFR 49 (128)
T ss_pred EECCCCCCcee
Confidence 44444444443
No 132
>PRK04023 DNA polymerase II large subunit; Validated
Probab=48.99 E-value=17 Score=39.21 Aligned_cols=10 Identities=30% Similarity=0.740 Sum_probs=6.4
Q ss_pred cccCCCCCcc
Q psy12560 192 NYHCDICEKS 201 (440)
Q Consensus 192 ~~~C~~C~~~ 201 (440)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 3567777765
No 133
>KOG2593|consensus
Probab=48.36 E-value=19 Score=34.79 Aligned_cols=38 Identities=21% Similarity=0.521 Sum_probs=22.9
Q ss_pred CCCCceeccccccccCChHHHHHHHHHcCCCCCeecCcccc
Q psy12560 103 SLKAKLSCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHK 143 (440)
Q Consensus 103 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 143 (440)
.....|.|+.|.+.|.....++. .-.....|.|..|+-
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 34456788888887776554432 222334577777764
No 134
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.26 E-value=14 Score=28.04 Aligned_cols=27 Identities=22% Similarity=0.202 Sum_probs=20.0
Q ss_pred ccCccccccCChHHHHHHHHHhcCCCceecCcCccccC
Q psy12560 250 QCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFT 287 (440)
Q Consensus 250 ~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~ 287 (440)
.|+.|++.|... +..|..|++||++|+
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccch
Confidence 577788777653 457788888888883
No 135
>KOG2593|consensus
Probab=44.58 E-value=23 Score=34.19 Aligned_cols=35 Identities=20% Similarity=0.664 Sum_probs=17.9
Q ss_pred CCccccCccccccCChHHHHHHHHHhcCCCceecCcCc
Q psy12560 246 LKRFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCH 283 (440)
Q Consensus 246 ~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~ 283 (440)
..-|.|+.|.+.|+....++. .-.....|.|..|+
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCG 160 (436)
T ss_pred cccccCCccccchhhhHHHHh---hcccCceEEEecCC
Confidence 344666666666665544432 11222346666665
No 136
>KOG2071|consensus
Probab=44.45 E-value=18 Score=36.38 Aligned_cols=24 Identities=25% Similarity=0.555 Sum_probs=12.1
Q ss_pred ccccCccCcccCChHHHHHHHHHh
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTH 243 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h 243 (440)
+-.|..||.+|.+......||..|
T Consensus 418 pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 418 PNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cchhcccccccccchhhhhHhhhh
Confidence 345555555555555444444433
No 137
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=44.15 E-value=20 Score=24.65 Aligned_cols=40 Identities=23% Similarity=0.692 Sum_probs=18.4
Q ss_pred CCCCCCCCcccccCCccccccCCCcccccccC-CCCCCcchhhh
Q psy12560 2 EQCPQCKGLVVCSESRLVQDSCGHIKCRMCLL-SDSTQCYLCWQ 44 (440)
Q Consensus 2 ~~C~~C~~~~~~~~~~l~~h~~~~~~c~~c~~-~~~~~C~~C~~ 44 (440)
+.|+.|..+ + ++.+--..++|+.|..|.. ...++|++|..
T Consensus 8 LrCs~C~~~-l--~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~ 48 (65)
T PF14835_consen 8 LRCSICFDI-L--KEPVCLGGCEHIFCSSCIRDCIGSECPVCHT 48 (65)
T ss_dssp TS-SSS-S-----SS-B---SSS--B-TTTGGGGTTTB-SSS--
T ss_pred cCCcHHHHH-h--cCCceeccCccHHHHHHhHHhcCCCCCCcCC
Confidence 578999222 1 3344445679999999964 34578999964
No 138
>PRK04023 DNA polymerase II large subunit; Validated
Probab=44.08 E-value=21 Score=38.45 Aligned_cols=9 Identities=33% Similarity=0.914 Sum_probs=4.1
Q ss_pred eecCccccc
Q psy12560 136 YECSNCHKG 144 (440)
Q Consensus 136 ~~C~~C~~~ 144 (440)
..|+.||..
T Consensus 627 RfCpsCG~~ 635 (1121)
T PRK04023 627 RKCPSCGKE 635 (1121)
T ss_pred ccCCCCCCc
Confidence 344445443
No 139
>KOG4377|consensus
Probab=42.72 E-value=15 Score=35.09 Aligned_cols=23 Identities=17% Similarity=0.570 Sum_probs=18.4
Q ss_pred eecC--cCccccCChHHHHHHHHhh
Q psy12560 277 FECH--DCHKSFTRKDNLERHVKSI 299 (440)
Q Consensus 277 ~~C~--~C~~~f~~~~~l~~H~~~~ 299 (440)
|.|. .|+.++.+-+.+..|.|.+
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkh 426 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKH 426 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhh
Confidence 5564 4999999999999998843
No 140
>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=40.81 E-value=16 Score=29.36 Aligned_cols=26 Identities=35% Similarity=0.618 Sum_probs=13.6
Q ss_pred ccccCccccccCChHHHHHHHHHhcCCCc
Q psy12560 248 RFQCKLCDKIFFTLHNMRRHMRIHKDRPL 276 (440)
Q Consensus 248 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~~ 276 (440)
...|-+||+.|.. |.+|++.|+|-.|
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred eeEEccCCcccch---HHHHHHHccCCCH
Confidence 3567777777764 4777777766543
No 141
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=39.98 E-value=4.7 Score=32.98 Aligned_cols=58 Identities=17% Similarity=0.436 Sum_probs=22.3
Q ss_pred ccccccCCCC---CCcchhhhccc------CccchhccCCCCCccccCcccceeccCCCCceeecccchh
Q psy12560 27 KCRMCLLSDS---TQCYLCWQKNE------HASFIIEAPESDKDEKFTIPDYIQVIPGEPVMYKCLKCKR 87 (440)
Q Consensus 27 ~c~~c~~~~~---~~C~~C~~~~~------~~~~~~~h~~~~~~~~~~~~~h~~~~~~~~~~~~C~~C~~ 87 (440)
.|..|+.+++ .+|..|++-|= +.+.++.|.....-....| |.....|+ ..++|..||.
T Consensus 2 aC~YCG~~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~L--H~~s~lgd-t~leCy~Cg~ 68 (152)
T PF09416_consen 2 ACAYCGIHDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSL--HPDSPLGD-TVLECYNCGS 68 (152)
T ss_dssp S-TTT----CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE---TTSTT-S--B---TTT--
T ss_pred CccccCCCCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceee--CCCCCCCC-cEEEEEecCC
Confidence 5778886665 58999988883 3455555543211111110 11111223 5688888874
No 142
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=39.85 E-value=16 Score=22.46 Aligned_cols=10 Identities=40% Similarity=1.424 Sum_probs=5.9
Q ss_pred cccCccCccc
Q psy12560 221 FVCENCGKSF 230 (440)
Q Consensus 221 ~~C~~C~~~f 230 (440)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5666666554
No 143
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.18 E-value=21 Score=33.09 Aligned_cols=46 Identities=30% Similarity=0.589 Sum_probs=30.1
Q ss_pred CCCCCCCCc--ccccCCccccccCCCcccccccC----CCCCCcchhhhcccC
Q psy12560 2 EQCPQCKGL--VVCSESRLVQDSCGHIKCRMCLL----SDSTQCYLCWQKNEH 48 (440)
Q Consensus 2 ~~C~~C~~~--~~~~~~~l~~h~~~~~~c~~c~~----~~~~~C~~C~~~~~~ 48 (440)
..|+.|+.- ...++..+.- .|+|..|..|.. ..+..|+.|+.....
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 469999553 2333223333 899999999953 345689999765554
No 144
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=38.49 E-value=12 Score=30.36 Aligned_cols=15 Identities=27% Similarity=0.802 Sum_probs=12.1
Q ss_pred ceeecccchhhccCh
Q psy12560 78 VMYKCLKCKRQFKVK 92 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~ 92 (440)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 568999999888754
No 145
>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=38.39 E-value=57 Score=20.57 Aligned_cols=8 Identities=25% Similarity=0.937 Sum_probs=4.0
Q ss_pred ccCCCCCc
Q psy12560 193 YHCDICEK 200 (440)
Q Consensus 193 ~~C~~C~~ 200 (440)
+.|+.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 44555553
No 146
>KOG3408|consensus
Probab=36.66 E-value=21 Score=27.79 Aligned_cols=24 Identities=21% Similarity=0.661 Sum_probs=18.8
Q ss_pred CccccCccccccCChHHHHHHHHH
Q psy12560 247 KRFQCKLCDKIFFTLHNMRRHMRI 270 (440)
Q Consensus 247 ~~~~C~~C~~~f~~~~~L~~H~~~ 270 (440)
..|.|-.|.+.|.+...|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 457888888888888888888764
No 147
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=36.39 E-value=12 Score=23.35 Aligned_cols=40 Identities=35% Similarity=0.690 Sum_probs=25.7
Q ss_pred CCCCCCCcccccCCccccccCCCcccccccCCCC---CCcchhh
Q psy12560 3 QCPQCKGLVVCSESRLVQDSCGHIKCRMCLLSDS---TQCYLCW 43 (440)
Q Consensus 3 ~C~~C~~~~~~~~~~l~~h~~~~~~c~~c~~~~~---~~C~~C~ 43 (440)
.|++| ...+.......-=.++|+.|..|..... ..|++|.
T Consensus 1 ~C~~C-~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~ 43 (44)
T PF14634_consen 1 HCNIC-FEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICR 43 (44)
T ss_pred CCcCc-CccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCC
Confidence 37888 5555333444444568888888865443 6788775
No 148
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=36.17 E-value=16 Score=29.83 Aligned_cols=31 Identities=23% Similarity=0.945 Sum_probs=13.9
Q ss_pred ccccCccccccCChHHHHHHHHHhcCCCceecCcCc
Q psy12560 248 RFQCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCH 283 (440)
Q Consensus 248 ~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~ 283 (440)
+|.|. |+..|.+. ++|-.+-.|+ .|.|..|+
T Consensus 117 ~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~ 147 (156)
T COG3091 117 PYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCG 147 (156)
T ss_pred eEEee-cCCccchh---hhcccccccc-eEEeccCC
Confidence 35555 55444332 3333333344 45555554
No 149
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=36.11 E-value=10 Score=23.13 Aligned_cols=10 Identities=50% Similarity=1.428 Sum_probs=6.4
Q ss_pred cccCccCccc
Q psy12560 221 FVCENCGKSF 230 (440)
Q Consensus 221 ~~C~~C~~~f 230 (440)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 6677776654
No 150
>KOG4377|consensus
Probab=35.87 E-value=24 Score=33.72 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=18.7
Q ss_pred ccccccCChHHHHHHHHHhcCC
Q psy12560 253 LCDKIFFTLHNMRRHMRIHKDR 274 (440)
Q Consensus 253 ~C~~~f~~~~~L~~H~~~H~~~ 274 (440)
-|+.++.+.+.+..|.+.|...
T Consensus 408 Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 408 GCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred CCceEEEehhhhhhhhhhhhhh
Confidence 4899999999999999988543
No 151
>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=35.16 E-value=19 Score=19.38 Aligned_cols=8 Identities=38% Similarity=1.119 Sum_probs=4.4
Q ss_pred ceecCcCc
Q psy12560 276 LFECHDCH 283 (440)
Q Consensus 276 ~~~C~~C~ 283 (440)
.|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 35555555
No 152
>PRK14873 primosome assembly protein PriA; Provisional
Probab=34.98 E-value=31 Score=36.23 Aligned_cols=10 Identities=20% Similarity=0.713 Sum_probs=6.2
Q ss_pred ccccCccccc
Q psy12560 248 RFQCKLCDKI 257 (440)
Q Consensus 248 ~~~C~~C~~~ 257 (440)
++.|+.|+..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 4667777643
No 153
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=34.80 E-value=39 Score=37.58 Aligned_cols=8 Identities=25% Similarity=0.775 Sum_probs=5.2
Q ss_pred ccCCCCCc
Q psy12560 193 YHCDICEK 200 (440)
Q Consensus 193 ~~C~~C~~ 200 (440)
++|+.||.
T Consensus 668 rkCPkCG~ 675 (1337)
T PRK14714 668 RRCPSCGT 675 (1337)
T ss_pred EECCCCCC
Confidence 56777765
No 154
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=34.64 E-value=21 Score=28.41 Aligned_cols=14 Identities=29% Similarity=0.650 Sum_probs=7.7
Q ss_pred ccccCccccccCCh
Q psy12560 248 RFQCKLCDKIFFTL 261 (440)
Q Consensus 248 ~~~C~~C~~~f~~~ 261 (440)
|++|..||+.|..-
T Consensus 1 PH~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 1 PHQCTKCGRVFEDG 14 (131)
T ss_pred CcccCcCCCCcCCC
Confidence 34566666666543
No 155
>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=34.52 E-value=19 Score=31.61 Aligned_cols=25 Identities=32% Similarity=0.467 Sum_probs=12.8
Q ss_pred ccccCccCcccCChHHHHHHHHHhC
Q psy12560 220 IFVCENCGKSFKRKYDLALHIRTHF 244 (440)
Q Consensus 220 ~~~C~~C~~~f~~~~~l~~H~~~h~ 244 (440)
.|.|+.|+|.|....-+..|+...|
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred EECCCCCCcccCChHHHHHHHhhcC
Confidence 4566666666666655555655444
No 156
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=32.04 E-value=31 Score=36.44 Aligned_cols=31 Identities=19% Similarity=0.441 Sum_probs=24.1
Q ss_pred CCccccccCCC-cccccccCC--CCCCcchhhhc
Q psy12560 15 ESRLVQDSCGH-IKCRMCLLS--DSTQCYLCWQK 45 (440)
Q Consensus 15 ~~~l~~h~~~~-~~c~~c~~~--~~~~C~~C~~~ 45 (440)
...|.-|...+ .+|+.|+.. .+..|+.|+..
T Consensus 451 d~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 451 DSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred CcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 55677888765 899999775 55799999866
No 157
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=32.02 E-value=25 Score=21.55 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=9.2
Q ss_pred ceecCcCccccCChHHHH
Q psy12560 276 LFECHDCHKSFTRKDNLE 293 (440)
Q Consensus 276 ~~~C~~C~~~f~~~~~l~ 293 (440)
.+.|+.|+-.+.....|.
T Consensus 19 id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGELE 36 (41)
T ss_pred EEECCCCCeEEccHHHHH
Confidence 345555555555554443
No 158
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=31.91 E-value=23 Score=26.02 Aligned_cols=10 Identities=40% Similarity=0.783 Sum_probs=4.0
Q ss_pred ccCccccccC
Q psy12560 250 QCKLCDKIFF 259 (440)
Q Consensus 250 ~C~~C~~~f~ 259 (440)
+|..||+.|.
T Consensus 60 ~CkkCGfef~ 69 (97)
T COG3357 60 RCKKCGFEFR 69 (97)
T ss_pred hhcccCcccc
Confidence 3444444433
No 159
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=30.92 E-value=22 Score=27.70 Aligned_cols=26 Identities=15% Similarity=0.484 Sum_probs=16.7
Q ss_pred ceeecccchhhccChHHHHHhHhhcCCCCceecccccc
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDK 115 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~ 115 (440)
....|..|+..|.... ..+.||.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~------------~~~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQ------------HDAQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCC------------cCccCcCCCC
Confidence 4578888887776432 3345787774
No 160
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=30.64 E-value=19 Score=23.82 Aligned_cols=10 Identities=40% Similarity=1.019 Sum_probs=4.6
Q ss_pred ccCccccccC
Q psy12560 250 QCKLCDKIFF 259 (440)
Q Consensus 250 ~C~~C~~~f~ 259 (440)
+|..|++.|.
T Consensus 7 ~C~~Cg~~~~ 16 (54)
T PF14446_consen 7 KCPVCGKKFK 16 (54)
T ss_pred cChhhCCccc
Confidence 3444444443
No 161
>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=30.31 E-value=27 Score=24.19 Aligned_cols=9 Identities=56% Similarity=1.217 Sum_probs=2.2
Q ss_pred ccCccCccc
Q psy12560 222 VCENCGKSF 230 (440)
Q Consensus 222 ~C~~C~~~f 230 (440)
.|..|++.|
T Consensus 11 ~C~~C~~~F 19 (69)
T PF01363_consen 11 NCMICGKKF 19 (69)
T ss_dssp B-TTT--B-
T ss_pred cCcCcCCcC
Confidence 344444444
No 162
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=30.29 E-value=24 Score=21.14 Aligned_cols=6 Identities=83% Similarity=2.189 Sum_probs=2.4
Q ss_pred ccCccC
Q psy12560 222 VCENCG 227 (440)
Q Consensus 222 ~C~~C~ 227 (440)
.|+.||
T Consensus 23 ~Cd~cg 28 (36)
T PF05191_consen 23 VCDNCG 28 (36)
T ss_dssp BCTTTT
T ss_pred ccCCCC
Confidence 344443
No 163
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=30.26 E-value=35 Score=27.37 Aligned_cols=15 Identities=13% Similarity=0.228 Sum_probs=11.9
Q ss_pred CCCCcchhhhcccCc
Q psy12560 35 DSTQCYLCWQKNEHA 49 (440)
Q Consensus 35 ~~~~C~~C~~~~~~~ 49 (440)
..|+|..|++.|...
T Consensus 52 qRyrC~~C~~tf~~~ 66 (129)
T COG3677 52 QRYKCKSCGSTFTVE 66 (129)
T ss_pred cccccCCcCcceeee
Confidence 678999998888653
No 164
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=30.22 E-value=44 Score=31.29 Aligned_cols=25 Identities=16% Similarity=0.489 Sum_probs=19.7
Q ss_pred CCcccCCCCC-ccccCchhhhhcccc
Q psy12560 190 LKNYHCDICE-KSFIEKNDLIKHQVT 214 (440)
Q Consensus 190 ~~~~~C~~C~-~~f~~~~~l~~H~~~ 214 (440)
.+.|.|.+|| +.+..+..+.+|...
T Consensus 372 d~ef~CEICgNyvy~GR~~FdrHF~E 397 (470)
T COG5188 372 DIEFECEICGNYVYYGRDRFDRHFEE 397 (470)
T ss_pred CcceeeeecccccccchHHHHhhhhh
Confidence 4568999999 788888888888653
No 165
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=30.13 E-value=24 Score=22.91 Aligned_cols=11 Identities=27% Similarity=0.824 Sum_probs=5.8
Q ss_pred CccccCccccc
Q psy12560 247 KRFQCKLCDKI 257 (440)
Q Consensus 247 ~~~~C~~C~~~ 257 (440)
..+.|..|+..
T Consensus 36 ~r~~C~~Cgyt 46 (50)
T PRK00432 36 DRWHCGKCGYT 46 (50)
T ss_pred CcEECCCcCCE
Confidence 34556555544
No 166
>KOG2071|consensus
Probab=29.80 E-value=33 Score=34.62 Aligned_cols=25 Identities=24% Similarity=0.339 Sum_probs=21.2
Q ss_pred CCCCCCCCcccccCCccccccCCCcc
Q psy12560 2 EQCPQCKGLVVCSESRLVQDSCGHIK 27 (440)
Q Consensus 2 ~~C~~C~~~~~~~~~~l~~h~~~~~~ 27 (440)
-+|..| +..|...+...+|+-.|..
T Consensus 419 nqC~~C-G~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 419 NQCKSC-GLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred chhccc-ccccccchhhhhHhhhhhh
Confidence 379999 9999999999999988843
No 167
>KOG4167|consensus
Probab=29.66 E-value=14 Score=37.93 Aligned_cols=24 Identities=38% Similarity=1.021 Sum_probs=22.3
Q ss_pred cccCccccccCChHHHHHHHHHhc
Q psy12560 249 FQCKLCDKIFFTLHNMRRHMRIHK 272 (440)
Q Consensus 249 ~~C~~C~~~f~~~~~L~~H~~~H~ 272 (440)
|.|.+|++.|....++..||++|.
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHH
Confidence 899999999999999999999985
No 168
>KOG1701|consensus
Probab=29.58 E-value=12 Score=35.82 Aligned_cols=39 Identities=10% Similarity=0.230 Sum_probs=15.9
Q ss_pred ecccchhhccChHHHHHhHhhcCCCCceeccccccccCC
Q psy12560 81 KCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFVN 119 (440)
Q Consensus 81 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~~ 119 (440)
.|-.|++.......--.=|..--...-|.|..|.+...-
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~G 314 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAG 314 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhcc
Confidence 455555554433322222222112234555555544433
No 169
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=29.42 E-value=13 Score=27.83 Aligned_cols=37 Identities=16% Similarity=0.354 Sum_probs=19.4
Q ss_pred ceeecccchhhccChHHHHHhHhhcCCCCceeccccccccC
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKTFV 118 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~f~ 118 (440)
+.|.|+.|+..-.+.-.+ +.........|..||..|.
T Consensus 21 k~FtCp~Cghe~vs~ctv----kk~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 21 KTFTCPRCGHEKVSSCTV----KKTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred ceEecCccCCeeeeEEEE----EecCceeEEEcccCcceEE
Confidence 567777777554443221 2222333456666666553
No 170
>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=28.49 E-value=24 Score=27.65 Aligned_cols=26 Identities=19% Similarity=0.556 Sum_probs=16.7
Q ss_pred ceeecccchhhccChHHHHHhHhhcCCCCceecccccc
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDK 115 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~ 115 (440)
....|..|+..|..... .+.||.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECEDCSEEVSPEID------------LYRCPKCHG 94 (115)
T ss_pred cEEEcccCCCEEecCCc------------CccCcCCcC
Confidence 45778888877764321 356777774
No 171
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=27.97 E-value=31 Score=25.55 Aligned_cols=12 Identities=33% Similarity=0.930 Sum_probs=6.9
Q ss_pred ccccCccCcccC
Q psy12560 220 IFVCENCGKSFK 231 (440)
Q Consensus 220 ~~~C~~C~~~f~ 231 (440)
.|.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PTZ00255 54 IWRCKGCKKTVA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 456666665554
No 172
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=27.77 E-value=37 Score=25.56 Aligned_cols=13 Identities=31% Similarity=0.756 Sum_probs=7.7
Q ss_pred ccccCccccccCC
Q psy12560 248 RFQCKLCDKIFFT 260 (440)
Q Consensus 248 ~~~C~~C~~~f~~ 260 (440)
|++|..||..|.+
T Consensus 2 pH~CtrCG~vf~~ 14 (112)
T COG3364 2 PHQCTRCGEVFDD 14 (112)
T ss_pred Cceeccccccccc
Confidence 3456666666655
No 173
>KOG4124|consensus
Probab=27.25 E-value=8.6 Score=35.72 Aligned_cols=51 Identities=24% Similarity=0.630 Sum_probs=33.2
Q ss_pred CccccCc--cccccCChHHHHHHHHH---------------hc----CCCceecCcCccccCChHHHHHHHH
Q psy12560 247 KRFQCKL--CDKIFFTLHNMRRHMRI---------------HK----DRPLFECHDCHKSFTRKDNLERHVK 297 (440)
Q Consensus 247 ~~~~C~~--C~~~f~~~~~L~~H~~~---------------H~----~~~~~~C~~C~~~f~~~~~l~~H~~ 297 (440)
++|+|++ |++.+.....|..|... |+ ..|+|+|++|.+++.....|.-|+.
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceee
Confidence 4566643 66666666566555432 11 2478999999999888777766644
No 174
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=26.90 E-value=35 Score=27.18 Aligned_cols=22 Identities=27% Similarity=0.356 Sum_probs=10.9
Q ss_pred eeccccccccCChHHHHHHHHHcCC
Q psy12560 108 LSCDICDKTFVNKSHLDYHKLSHQD 132 (440)
Q Consensus 108 ~~C~~C~~~f~~~~~l~~H~~~h~~ 132 (440)
..|-.+|+.|.+ |.+|+.+|.+
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccC
Confidence 345555555543 4555555544
No 175
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=26.89 E-value=35 Score=33.14 Aligned_cols=29 Identities=21% Similarity=0.477 Sum_probs=19.3
Q ss_pred ccCccccccCChHHHHHHHHHhcCCCceecCcCccccCCh
Q psy12560 250 QCKLCDKIFFTLHNMRRHMRIHKDRPLFECHDCHKSFTRK 289 (440)
Q Consensus 250 ~C~~C~~~f~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~ 289 (440)
.|+.||.+..++ |..-|+|+.||+.+...
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCcc
Confidence 577787665443 34468888888777654
No 176
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.49 E-value=47 Score=22.38 Aligned_cols=9 Identities=33% Similarity=1.143 Sum_probs=3.9
Q ss_pred CCeecCccc
Q psy12560 134 NPYECSNCH 142 (440)
Q Consensus 134 ~~~~C~~C~ 142 (440)
+.|-|+.|.
T Consensus 30 rtymC~eC~ 38 (68)
T COG4896 30 RTYMCPECE 38 (68)
T ss_pred eeEechhhH
Confidence 334444443
No 177
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.47 E-value=45 Score=33.79 Aligned_cols=36 Identities=22% Similarity=0.665 Sum_probs=26.2
Q ss_pred CCCCCCCcccccCCccccccCCC-cccccccCCC--CCCcchhhhc
Q psy12560 3 QCPQCKGLVVCSESRLVQDSCGH-IKCRMCLLSD--STQCYLCWQK 45 (440)
Q Consensus 3 ~C~~C~~~~~~~~~~l~~h~~~~-~~c~~c~~~~--~~~C~~C~~~ 45 (440)
+|+.| ...|.-|.... ..|+.|+... +..|+.|+..
T Consensus 224 ~C~~C-------~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 224 CCPNC-------DVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CCCCC-------CCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 57777 56677776644 8899998754 4689999764
No 178
>KOG2272|consensus
Probab=26.45 E-value=47 Score=29.54 Aligned_cols=19 Identities=11% Similarity=0.394 Sum_probs=12.4
Q ss_pred eeecccchhhccChHHHHH
Q psy12560 79 MYKCLKCKRQFKVKYNCKY 97 (440)
Q Consensus 79 ~~~C~~C~~~f~~~~~l~~ 97 (440)
-|.|..|.+...+...++.
T Consensus 99 CF~Cd~Cn~~Lad~gf~rn 117 (332)
T KOG2272|consen 99 CFRCDLCNKHLADQGFYRN 117 (332)
T ss_pred cchhHHHHHHHhhhhhHhh
Confidence 4677777777766655543
No 179
>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=26.36 E-value=33 Score=25.46 Aligned_cols=12 Identities=42% Similarity=1.240 Sum_probs=7.1
Q ss_pred ccccCccCcccC
Q psy12560 220 IFVCENCGKSFK 231 (440)
Q Consensus 220 ~~~C~~C~~~f~ 231 (440)
.|.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 466666666554
No 180
>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=26.21 E-value=24 Score=26.08 Aligned_cols=12 Identities=50% Similarity=1.315 Sum_probs=7.2
Q ss_pred ccccCccCcccC
Q psy12560 220 IFVCENCGKSFK 231 (440)
Q Consensus 220 ~~~C~~C~~~f~ 231 (440)
.|.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (90)
T PF01780_consen 53 IWKCKKCGKKFA 64 (90)
T ss_dssp EEEETTTTEEEE
T ss_pred EeecCCCCCEEe
Confidence 366666666553
No 181
>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=26.15 E-value=15 Score=20.60 Aligned_cols=10 Identities=30% Similarity=1.404 Sum_probs=5.7
Q ss_pred eecccchhhc
Q psy12560 80 YKCLKCKRQF 89 (440)
Q Consensus 80 ~~C~~C~~~f 89 (440)
|.|-.|++.|
T Consensus 1 ~sCiDC~~~F 10 (28)
T PF08790_consen 1 FSCIDCSKDF 10 (28)
T ss_dssp EEETTTTEEE
T ss_pred CeeecCCCCc
Confidence 3455666666
No 182
>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=26.12 E-value=35 Score=21.16 Aligned_cols=11 Identities=27% Similarity=0.673 Sum_probs=4.8
Q ss_pred Cceeccccccc
Q psy12560 106 AKLSCDICDKT 116 (440)
Q Consensus 106 ~~~~C~~C~~~ 116 (440)
..+.|..||..
T Consensus 18 g~~vC~~CG~V 28 (43)
T PF08271_consen 18 GELVCPNCGLV 28 (43)
T ss_dssp TEEEETTT-BB
T ss_pred CeEECCCCCCE
Confidence 34455555543
No 183
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=26.08 E-value=35 Score=27.94 Aligned_cols=8 Identities=38% Similarity=1.215 Sum_probs=3.9
Q ss_pred CeecCccc
Q psy12560 135 PYECSNCH 142 (440)
Q Consensus 135 ~~~C~~C~ 142 (440)
.|.|..|+
T Consensus 140 ~YrC~~C~ 147 (156)
T COG3091 140 VYRCGKCG 147 (156)
T ss_pred eEEeccCC
Confidence 45555554
No 184
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.94 E-value=53 Score=33.29 Aligned_cols=13 Identities=31% Similarity=0.654 Sum_probs=7.0
Q ss_pred CCceecccccccc
Q psy12560 105 KAKLSCDICDKTF 117 (440)
Q Consensus 105 ~~~~~C~~C~~~f 117 (440)
.....|..||...
T Consensus 238 ~~~l~Ch~Cg~~~ 250 (505)
T TIGR00595 238 EGKLRCHYCGYQE 250 (505)
T ss_pred CCeEEcCCCcCcC
Confidence 4455566666543
No 185
>KOG3408|consensus
Probab=25.85 E-value=52 Score=25.69 Aligned_cols=24 Identities=25% Similarity=0.479 Sum_probs=21.4
Q ss_pred ceeecccchhhccChHHHHHhHhh
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHC 101 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~ 101 (440)
..|-|-.|.+.|.+...|..|.+.
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 679999999999999999999754
No 186
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=25.84 E-value=13 Score=38.44 Aligned_cols=55 Identities=24% Similarity=0.638 Sum_probs=27.6
Q ss_pred cccchhhccChHHHHHhHhhcCCCCce-eccccccccCChHHHHHHHHHcCCCCCeecCcccc
Q psy12560 82 CLKCKRQFKVKYNCKYHIHCTSLKAKL-SCDICDKTFVNKSHLDYHKLSHQDLNPYECSNCHK 143 (440)
Q Consensus 82 C~~C~~~f~~~~~l~~H~~~~~~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 143 (440)
|..||-.|+-...|-.= |..+.-+.| .|+.|.+.|.+...-+-|. .|..|+.||-
T Consensus 126 CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP 181 (750)
T COG0068 126 CTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFHA------QPIACPKCGP 181 (750)
T ss_pred cCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCcccccccc------ccccCcccCC
Confidence 66666666554444221 111222222 4677766666665444442 3566777764
No 187
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=25.71 E-value=44 Score=29.69 Aligned_cols=10 Identities=30% Similarity=1.075 Sum_probs=5.7
Q ss_pred CCeecCcccc
Q psy12560 134 NPYECSNCHK 143 (440)
Q Consensus 134 ~~~~C~~C~~ 143 (440)
+.|.|..|+.
T Consensus 111 rqFaC~~Cd~ 120 (278)
T PF15135_consen 111 RQFACSSCDH 120 (278)
T ss_pred eeeeccccch
Confidence 4566666654
No 188
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=25.33 E-value=71 Score=19.68 Aligned_cols=23 Identities=17% Similarity=0.496 Sum_probs=12.4
Q ss_pred cccCccccccCC--hHHHHHHHHHh
Q psy12560 249 FQCKLCDKIFFT--LHNMRRHMRIH 271 (440)
Q Consensus 249 ~~C~~C~~~f~~--~~~L~~H~~~H 271 (440)
-.|+.||..|.. ...-..|.+-|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 356666655533 34555555555
No 189
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=24.96 E-value=41 Score=32.74 Aligned_cols=30 Identities=30% Similarity=0.593 Sum_probs=23.1
Q ss_pred ccCccCcccCChHHHHHHHHHhCCCCccccCccccccCChH
Q psy12560 222 VCENCGKSFKRKYDLALHIRTHFPLKRFQCKLCDKIFFTLH 262 (440)
Q Consensus 222 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 262 (440)
.|+.||.+..+. |..-|+|+.||+.+....
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCccc
Confidence 799999865543 444899999999887753
No 190
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.89 E-value=69 Score=33.49 Aligned_cols=37 Identities=27% Similarity=0.481 Sum_probs=20.3
Q ss_pred CCCCCCCCCcccccCCccccccCCCcccccccCCCC-CCcchhhhccc
Q psy12560 1 MEQCPQCKGLVVCSESRLVQDSCGHIKCRMCLLSDS-TQCYLCWQKNE 47 (440)
Q Consensus 1 ~~~C~~C~~~~~~~~~~l~~h~~~~~~c~~c~~~~~-~~C~~C~~~~~ 47 (440)
|..|+.| ++.-.. ...+|..|+.+.. -.|..|+....
T Consensus 1 M~~Cp~C-g~~n~~---------~akFC~~CG~~l~~~~Cp~CG~~~~ 38 (645)
T PRK14559 1 MLICPQC-QFENPN---------NNRFCQKCGTSLTHKPCPQCGTEVP 38 (645)
T ss_pred CCcCCCC-CCcCCC---------CCccccccCCCCCCCcCCCCCCCCC
Confidence 8899999 444221 1245666655433 34555555543
No 191
>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=24.61 E-value=31 Score=22.84 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=5.2
Q ss_pred cccCcccccc
Q psy12560 249 FQCKLCDKIF 258 (440)
Q Consensus 249 ~~C~~C~~~f 258 (440)
|.|+.|+..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 4555555544
No 192
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=24.60 E-value=26 Score=22.88 Aligned_cols=25 Identities=28% Similarity=0.575 Sum_probs=12.5
Q ss_pred ceeecccchhhccChHHHHHhHhhc
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCT 102 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~ 102 (440)
..|+|+.|+..|=..-++-.|...|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CeEECCCCCCccccCcChhhhcccc
Confidence 4688888888887666665664433
No 193
>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=24.43 E-value=27 Score=24.58 Aligned_cols=7 Identities=29% Similarity=0.852 Sum_probs=2.8
Q ss_pred eecCcCc
Q psy12560 277 FECHDCH 283 (440)
Q Consensus 277 ~~C~~C~ 283 (440)
|.|+.|+
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 194
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=24.38 E-value=29 Score=35.98 Aligned_cols=30 Identities=23% Similarity=0.690 Sum_probs=24.8
Q ss_pred ecccchhhccChHHHHHhHhhcCCCCceeccccccc
Q psy12560 81 KCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKT 116 (440)
Q Consensus 81 ~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 116 (440)
-|+.|.+.|.+..+-+.|. .+..|+.||-.
T Consensus 153 lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP~ 182 (750)
T COG0068 153 LCPFCDKEYKDPLNRRFHA------QPIACPKCGPH 182 (750)
T ss_pred CCHHHHHHhcCcccccccc------ccccCcccCCC
Confidence 5999999999998776664 47789999864
No 195
>KOG4167|consensus
Probab=24.36 E-value=26 Score=36.19 Aligned_cols=27 Identities=15% Similarity=0.340 Sum_probs=24.0
Q ss_pred ceeecccchhhccChHHHHHhHhhcCC
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSL 104 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~ 104 (440)
..|.|..|++.|.....+..||+.|..
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 469999999999999999999988853
No 196
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=23.88 E-value=28 Score=20.66 Aligned_cols=14 Identities=36% Similarity=0.842 Sum_probs=8.5
Q ss_pred CCCCCCCCCccccc
Q psy12560 1 MEQCPQCKGLVVCS 14 (440)
Q Consensus 1 ~~~C~~C~~~~~~~ 14 (440)
|.=|+.|+++..+.
T Consensus 1 m~FCp~C~nlL~p~ 14 (35)
T PF02150_consen 1 MRFCPECGNLLYPK 14 (35)
T ss_dssp --BETTTTSBEEEE
T ss_pred CeeCCCCCccceEc
Confidence 56688886666653
No 197
>KOG2907|consensus
Probab=23.78 E-value=32 Score=26.45 Aligned_cols=11 Identities=27% Similarity=0.803 Sum_probs=5.0
Q ss_pred cccCccccccC
Q psy12560 249 FQCKLCDKIFF 259 (440)
Q Consensus 249 ~~C~~C~~~f~ 259 (440)
|.|+.|++.|+
T Consensus 103 YTC~kC~~k~~ 113 (116)
T KOG2907|consen 103 YTCPKCKYKFT 113 (116)
T ss_pred EEcCccceeee
Confidence 44444444443
No 198
>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=23.68 E-value=51 Score=21.66 Aligned_cols=10 Identities=30% Similarity=1.085 Sum_probs=4.6
Q ss_pred eecCcCcccc
Q psy12560 277 FECHDCHKSF 286 (440)
Q Consensus 277 ~~C~~C~~~f 286 (440)
+.|..||+.|
T Consensus 19 ~~Cr~Cg~~~ 28 (57)
T cd00065 19 HHCRNCGRIF 28 (57)
T ss_pred cccCcCcCCc
Confidence 3444444444
No 199
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=23.56 E-value=57 Score=21.69 Aligned_cols=13 Identities=38% Similarity=0.687 Sum_probs=7.5
Q ss_pred CceecCcCccccC
Q psy12560 275 PLFECHDCHKSFT 287 (440)
Q Consensus 275 ~~~~C~~C~~~f~ 287 (440)
..|.|+.||..+.
T Consensus 13 v~~~Cp~cGipth 25 (55)
T PF13824_consen 13 VNFECPDCGIPTH 25 (55)
T ss_pred cCCcCCCCCCcCc
Confidence 3466666665543
No 200
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.29 E-value=34 Score=26.90 Aligned_cols=14 Identities=36% Similarity=0.752 Sum_probs=10.1
Q ss_pred ceeecccchhhccC
Q psy12560 78 VMYKCLKCKRQFKV 91 (440)
Q Consensus 78 ~~~~C~~C~~~f~~ 91 (440)
..+.|..|+..|..
T Consensus 70 ~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 70 VELECKDCSHVFKP 83 (117)
T ss_pred CEEEhhhCCCcccc
Confidence 45788888877764
No 201
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=23.20 E-value=36 Score=27.15 Aligned_cols=11 Identities=36% Similarity=0.815 Sum_probs=5.6
Q ss_pred ecCcCccccCC
Q psy12560 278 ECHDCHKSFTR 288 (440)
Q Consensus 278 ~C~~C~~~f~~ 288 (440)
+|+.|..+|.+
T Consensus 123 vCPvCkTSFKs 133 (140)
T PF05290_consen 123 VCPVCKTSFKS 133 (140)
T ss_pred CCCcccccccc
Confidence 45555555544
No 202
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.78 E-value=50 Score=21.74 Aligned_cols=12 Identities=33% Similarity=1.077 Sum_probs=5.5
Q ss_pred cccCccCcccCC
Q psy12560 221 FVCENCGKSFKR 232 (440)
Q Consensus 221 ~~C~~C~~~f~~ 232 (440)
++|+.||..|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 445555444433
No 203
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.78 E-value=53 Score=34.52 Aligned_cols=36 Identities=28% Similarity=0.603 Sum_probs=25.1
Q ss_pred CCCCCCCcccccCCccccccCC-CcccccccCC-CCCCcchhhhc
Q psy12560 3 QCPQCKGLVVCSESRLVQDSCG-HIKCRMCLLS-DSTQCYLCWQK 45 (440)
Q Consensus 3 ~C~~C~~~~~~~~~~l~~h~~~-~~~c~~c~~~-~~~~C~~C~~~ 45 (440)
.|+.| ...|.-|... ...|+.|+.. .+.+|+.|+..
T Consensus 394 ~C~~C-------~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 394 RCRHC-------TGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred ECCCC-------CCceeEecCCCeeECCCCcCCCcCccCCCCcCC
Confidence 56777 5566667654 3789999763 36789999765
No 204
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=22.77 E-value=44 Score=20.35 Aligned_cols=13 Identities=31% Similarity=0.784 Sum_probs=10.8
Q ss_pred ceecCcCccccCC
Q psy12560 276 LFECHDCHKSFTR 288 (440)
Q Consensus 276 ~~~C~~C~~~f~~ 288 (440)
||.|..|++.|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 7889999988864
No 205
>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=22.53 E-value=63 Score=32.04 Aligned_cols=26 Identities=23% Similarity=0.571 Sum_probs=22.9
Q ss_pred ceecCcCccccCChHHHHHHHHhhcC
Q psy12560 276 LFECHDCHKSFTRKDNLERHVKSIHL 301 (440)
Q Consensus 276 ~~~C~~C~~~f~~~~~l~~H~~~~H~ 301 (440)
=+.|+.|.+.|.....+..|+...|.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~ 82 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHP 82 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhh
Confidence 36799999999999999999998887
No 206
>KOG1280|consensus
Probab=21.76 E-value=83 Score=29.57 Aligned_cols=39 Identities=21% Similarity=0.422 Sum_probs=29.2
Q ss_pred CCCccccCccccccCChHHHHHHHHHhcCCCc--eecCcCc
Q psy12560 245 PLKRFQCKLCDKIFFTLHNMRRHMRIHKDRPL--FECHDCH 283 (440)
Q Consensus 245 ~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~--~~C~~C~ 283 (440)
....|.|++|++.-.+...|..|+..-+.+.. ..|++|+
T Consensus 76 ~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 76 DPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 44579999999988888899999877555443 3477775
No 207
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=21.49 E-value=56 Score=19.57 Aligned_cols=19 Identities=21% Similarity=0.585 Sum_probs=9.6
Q ss_pred hhhccccccCccccccCcc
Q psy12560 208 LIKHQVTHSDKKIFVCENC 226 (440)
Q Consensus 208 l~~H~~~h~~~~~~~C~~C 226 (440)
+.+|-....|...|.|..|
T Consensus 17 v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 17 VKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred ceeCCCCCCCCEeEecCcC
Confidence 3444444445555555555
No 208
>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=21.43 E-value=59 Score=22.47 Aligned_cols=11 Identities=18% Similarity=0.528 Sum_probs=5.2
Q ss_pred Cceeccccccc
Q psy12560 106 AKLSCDICDKT 116 (440)
Q Consensus 106 ~~~~C~~C~~~ 116 (440)
+.|.|+.||..
T Consensus 45 r~~~C~~Cg~~ 55 (69)
T PF07282_consen 45 RVFTCPNCGFE 55 (69)
T ss_pred ceEEcCCCCCE
Confidence 34445555444
No 209
>KOG2636|consensus
Probab=21.37 E-value=62 Score=31.49 Aligned_cols=29 Identities=17% Similarity=0.520 Sum_probs=23.8
Q ss_pred HHhcCCCceecCcCc-cccCChHHHHHHHH
Q psy12560 269 RIHKDRPLFECHDCH-KSFTRKDNLERHVK 297 (440)
Q Consensus 269 ~~H~~~~~~~C~~C~-~~f~~~~~l~~H~~ 297 (440)
+.|.-...|.|.+|| ++|.-+..+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 345556679999999 99999999999964
No 210
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=21.32 E-value=46 Score=24.68 Aligned_cols=12 Identities=42% Similarity=1.187 Sum_probs=7.1
Q ss_pred ccccCccCcccC
Q psy12560 220 IFVCENCGKSFK 231 (440)
Q Consensus 220 ~~~C~~C~~~f~ 231 (440)
.|.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PRK03976 54 IWECRKCGAKFA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 456666666554
No 211
>KOG3002|consensus
Probab=21.25 E-value=22 Score=33.01 Aligned_cols=76 Identities=18% Similarity=0.302 Sum_probs=45.1
Q ss_pred ceeecccchhhccChHHHHHhHhhcCCCCceecc----ccccccCChHHHHHHHHHcCCCCCeecCc----cccccCChH
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCD----ICDKTFVNKSHLDYHKLSHQDLNPYECSN----CHKGFKNKG 149 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~----~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~ 149 (440)
+..+|+.|...+.....+ +|..--....+.|+ -|.+.|..... ..|.+.-.. .+|.|+. |... ....
T Consensus 79 ~~~~CP~Cr~~~g~~R~~--amEkV~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C~f-~~~~CP~p~~~C~~~-G~~~ 153 (299)
T KOG3002|consen 79 VSNKCPTCRLPIGNIRCR--AMEKVAEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVCEF-RPCSCPVPGAECKYT-GSYK 153 (299)
T ss_pred hcccCCccccccccHHHH--HHHHHHHhceecccccccCCceeeccccc-ccccccccc-CCcCCCCCcccCCcc-CcHH
Confidence 467899998888766544 33222233456676 48888877765 556555444 6777764 4443 2334
Q ss_pred HHHHHHHHh
Q psy12560 150 KLNRHMKIH 158 (440)
Q Consensus 150 ~L~~H~~~h 158 (440)
.|..|.+.-
T Consensus 154 ~l~~H~~~~ 162 (299)
T KOG3002|consen 154 DLYAHLNDT 162 (299)
T ss_pred HHHHHHHhh
Confidence 566665543
No 212
>COG1773 Rubredoxin [Energy production and conversion]
Probab=21.20 E-value=45 Score=22.16 Aligned_cols=13 Identities=15% Similarity=0.549 Sum_probs=10.4
Q ss_pred ceecCcCccccCC
Q psy12560 276 LFECHDCHKSFTR 288 (440)
Q Consensus 276 ~~~C~~C~~~f~~ 288 (440)
.|+|..||..|.-
T Consensus 3 ~~~C~~CG~vYd~ 15 (55)
T COG1773 3 RWRCSVCGYVYDP 15 (55)
T ss_pred ceEecCCceEecc
Confidence 5889999988854
No 213
>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=21.01 E-value=37 Score=26.43 Aligned_cols=27 Identities=22% Similarity=0.586 Sum_probs=15.9
Q ss_pred ceeecccchhhccChHHHHHhHhhcCCCCceeccccccc
Q psy12560 78 VMYKCLKCKRQFKVKYNCKYHIHCTSLKAKLSCDICDKT 116 (440)
Q Consensus 78 ~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~C~~C~~~ 116 (440)
....|..|+..|..... .+.||.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEF------------DFSCPRCGSP 95 (113)
T ss_dssp -EEEETTTS-EEECHHC------------CHH-SSSSSS
T ss_pred CcEECCCCCCEEecCCC------------CCCCcCCcCC
Confidence 45788888888875432 1458888754
No 214
>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 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=20.33 E-value=26 Score=32.61 Aligned_cols=72 Identities=19% Similarity=0.328 Sum_probs=31.0
Q ss_pred CCCCCCCcccccCCcccccc---CCCcccccccCCC---CCCcchhhhcccCccchhccCCCCCccccCcccceeccCCC
Q psy12560 3 QCPQCKGLVVCSESRLVQDS---CGHIKCRMCLLSD---STQCYLCWQKNEHASFIIEAPESDKDEKFTIPDYIQVIPGE 76 (440)
Q Consensus 3 ~C~~C~~~~~~~~~~l~~h~---~~~~~c~~c~~~~---~~~C~~C~~~~~~~~~~~~h~~~~~~~~~~~~~h~~~~~~~ 76 (440)
.|++| +..- ..+.|+.-. ..+..|.+|+-.= ..+|..|+......-..+..- . ..+
T Consensus 174 ~CPvC-Gs~P-~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e----~-----------~~~- 235 (290)
T PF04216_consen 174 YCPVC-GSPP-VLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVE----G-----------EPA- 235 (290)
T ss_dssp S-TTT----E-EEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE-----------------------S-
T ss_pred cCCCC-CCcC-ceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecC----C-----------CCc-
Confidence 59999 4332 255555544 2457888886532 358888876644331111100 0 001
Q ss_pred CceeecccchhhccCh
Q psy12560 77 PVMYKCLKCKRQFKVK 92 (440)
Q Consensus 77 ~~~~~C~~C~~~f~~~ 92 (440)
-+.+.|..|+..++..
T Consensus 236 ~rve~C~~C~~YlK~v 251 (290)
T PF04216_consen 236 YRVEVCESCGSYLKTV 251 (290)
T ss_dssp EEEEEETTTTEEEEEE
T ss_pred EEEEECCcccchHHHH
Confidence 1678999998766544
Done!