Query psy12195
Match_columns 254
No_of_seqs 148 out of 1798
Neff 11.1
Searched_HMMs 46136
Date Fri Aug 16 21:15:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12195.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12195hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 3.6E-32 7.7E-37 198.2 6.2 139 101-242 127-266 (279)
2 KOG3608|consensus 100.0 1.6E-29 3.5E-34 189.4 11.0 231 14-253 133-386 (467)
3 KOG2462|consensus 99.9 5E-27 1.1E-31 171.4 5.5 116 134-254 130-249 (279)
4 KOG1074|consensus 99.9 8.1E-25 1.7E-29 180.7 5.9 170 75-250 605-937 (958)
5 KOG3608|consensus 99.9 7.1E-24 1.5E-28 159.3 8.6 202 45-251 135-355 (467)
6 KOG3623|consensus 99.9 5.7E-23 1.2E-27 167.5 2.7 109 15-124 210-329 (1007)
7 KOG1074|consensus 99.8 1.2E-21 2.5E-26 162.3 -2.3 84 160-245 604-693 (958)
8 KOG3576|consensus 99.7 3.2E-18 6.9E-23 119.5 3.1 112 134-246 117-239 (267)
9 KOG3623|consensus 99.6 2.7E-16 5.9E-21 129.0 3.3 105 105-210 211-330 (1007)
10 KOG3576|consensus 99.6 7.3E-17 1.6E-21 112.8 -0.2 88 160-249 116-203 (267)
11 PLN03086 PRLI-interacting fact 99.3 7.1E-12 1.5E-16 103.5 9.0 147 75-244 407-565 (567)
12 PHA00733 hypothetical protein 99.3 3.8E-12 8.1E-17 86.0 4.9 80 160-243 39-123 (128)
13 PLN03086 PRLI-interacting fact 99.2 9.3E-11 2E-15 97.0 10.8 146 44-214 407-565 (567)
14 PHA00733 hypothetical protein 99.2 3.5E-11 7.7E-16 81.3 5.5 80 134-215 40-125 (128)
15 PHA02768 hypothetical protein; 99.1 5.6E-11 1.2E-15 66.1 1.8 42 190-235 6-47 (55)
16 PHA02768 hypothetical protein; 99.0 8.6E-11 1.9E-15 65.3 1.7 44 161-206 5-48 (55)
17 PF05605 zf-Di19: Drought indu 98.9 2.8E-09 6.1E-14 60.8 5.1 53 189-244 2-54 (54)
18 PF13465 zf-H2C2_2: Zinc-finge 98.9 1.2E-09 2.6E-14 52.0 2.0 26 176-201 1-26 (26)
19 KOG3993|consensus 98.8 9E-10 2E-14 86.0 -0.5 167 75-246 267-485 (500)
20 PHA00616 hypothetical protein 98.7 5E-09 1.1E-13 55.4 1.7 32 219-251 1-32 (44)
21 KOG3993|consensus 98.6 4.4E-09 9.6E-14 82.2 -1.1 201 13-215 265-484 (500)
22 PHA00732 hypothetical protein 98.6 5.2E-08 1.1E-12 59.7 2.9 55 161-222 1-56 (79)
23 PHA00616 hypothetical protein 98.5 5.3E-08 1.2E-12 51.5 1.4 25 189-213 1-25 (44)
24 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.5E-07 3.2E-12 44.7 1.6 26 204-231 1-26 (26)
25 PHA00732 hypothetical protein 98.4 3.1E-07 6.6E-12 56.3 2.6 44 189-239 1-44 (79)
26 PF00096 zf-C2H2: Zinc finger, 98.2 7.2E-07 1.6E-11 41.1 1.1 21 220-240 1-21 (23)
27 PF05605 zf-Di19: Drought indu 98.2 4E-06 8.6E-11 47.7 4.1 37 105-142 3-39 (54)
28 PF13894 zf-C2H2_4: C2H2-type 97.9 4.8E-06 1E-10 38.7 1.5 22 220-241 1-22 (24)
29 PF00096 zf-C2H2: Zinc finger, 97.9 6.3E-06 1.4E-10 37.9 1.9 22 190-211 1-22 (23)
30 COG5189 SFP1 Putative transcri 97.9 1.8E-06 4E-11 65.4 -0.0 54 186-239 346-418 (423)
31 PF13894 zf-C2H2_4: C2H2-type 97.8 1.5E-05 3.2E-10 37.0 2.2 24 190-213 1-24 (24)
32 PF12756 zf-C2H2_2: C2H2 type 97.8 9.6E-06 2.1E-10 52.9 2.1 23 137-159 2-24 (100)
33 PF12756 zf-C2H2_2: C2H2 type 97.8 1.1E-05 2.4E-10 52.5 2.4 21 220-240 51-71 (100)
34 PF13912 zf-C2H2_6: C2H2-type 97.7 2.2E-05 4.8E-10 37.6 1.2 20 220-239 2-21 (27)
35 COG5189 SFP1 Putative transcri 97.7 9.5E-06 2E-10 61.7 -0.2 52 159-210 347-419 (423)
36 PF13912 zf-C2H2_6: C2H2-type 97.6 1.5E-05 3.2E-10 38.2 0.3 25 189-213 1-25 (27)
37 PF09237 GAGA: GAGA factor; I 97.3 8E-05 1.7E-09 40.4 0.6 30 216-245 21-50 (54)
38 smart00355 ZnF_C2H2 zinc finge 97.3 0.00023 4.9E-09 33.4 2.1 20 220-239 1-20 (26)
39 PF13909 zf-H2C2_5: C2H2-type 97.3 0.00015 3.3E-09 33.5 1.4 23 220-243 1-23 (24)
40 smart00355 ZnF_C2H2 zinc finge 96.9 0.0012 2.7E-08 30.8 2.6 21 190-210 1-21 (26)
41 PRK04860 hypothetical protein; 96.8 0.00078 1.7E-08 47.5 2.2 38 160-201 118-155 (160)
42 PF12874 zf-met: Zinc-finger o 96.8 0.00043 9.2E-09 32.3 0.6 20 220-239 1-20 (25)
43 PF13909 zf-H2C2_5: C2H2-type 96.7 0.0017 3.7E-08 29.9 2.3 23 190-213 1-23 (24)
44 PF12874 zf-met: Zinc-finger o 96.6 0.0013 2.8E-08 30.6 1.5 18 192-209 3-20 (25)
45 PF09237 GAGA: GAGA factor; I 96.6 0.0025 5.5E-08 34.7 2.5 30 186-215 21-50 (54)
46 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.00039 8.4E-09 33.2 -0.7 20 220-239 2-21 (27)
47 PF12171 zf-C2H2_jaz: Zinc-fin 96.2 0.0034 7.3E-08 29.9 1.6 22 16-37 2-23 (27)
48 KOG2482|consensus 96.1 0.021 4.5E-07 44.5 6.2 147 90-239 130-354 (423)
49 PRK04860 hypothetical protein; 95.7 0.0049 1.1E-07 43.5 1.1 40 188-233 118-157 (160)
50 KOG1146|consensus 95.7 0.0029 6.3E-08 57.7 -0.1 61 188-248 517-618 (1406)
51 KOG2231|consensus 95.5 0.057 1.2E-06 46.7 6.8 69 162-240 183-260 (669)
52 PF13913 zf-C2HC_2: zinc-finge 95.4 0.013 2.9E-07 27.2 1.7 18 221-239 4-21 (25)
53 KOG2231|consensus 95.1 0.14 3E-06 44.4 7.9 19 137-155 185-203 (669)
54 KOG2482|consensus 94.5 0.13 2.7E-06 40.4 5.7 22 189-210 334-355 (423)
55 KOG1146|consensus 94.3 0.018 3.9E-07 52.9 1.1 76 166-241 441-540 (1406)
56 COG4049 Uncharacterized protei 94.1 0.027 5.8E-07 31.2 1.1 30 185-214 13-42 (65)
57 smart00451 ZnF_U1 U1-like zinc 94.1 0.032 6.8E-07 28.2 1.4 23 219-241 3-25 (35)
58 KOG4173|consensus 94.1 0.013 2.8E-07 42.2 -0.2 87 13-103 77-174 (253)
59 smart00451 ZnF_U1 U1-like zinc 94.0 0.049 1.1E-06 27.5 2.0 22 189-210 3-24 (35)
60 KOG4173|consensus 93.7 0.046 9.9E-07 39.5 1.9 79 135-215 80-172 (253)
61 cd00350 rubredoxin_like Rubred 93.5 0.04 8.7E-07 27.5 1.1 9 163-171 3-11 (33)
62 PF12907 zf-met2: Zinc-binding 93.3 0.053 1.1E-06 28.3 1.3 32 220-251 2-36 (40)
63 KOG2785|consensus 93.1 0.52 1.1E-05 37.7 7.1 55 188-242 165-243 (390)
64 KOG2893|consensus 92.2 0.028 6E-07 41.5 -0.9 48 45-99 11-58 (341)
65 COG4049 Uncharacterized protei 92.1 0.064 1.4E-06 29.8 0.7 30 10-39 12-41 (65)
66 PF12013 DUF3505: Protein of u 91.3 0.46 9.9E-06 31.4 4.2 25 219-243 80-108 (109)
67 KOG2785|consensus 91.2 0.47 1E-05 38.0 4.8 24 15-38 3-26 (390)
68 KOG2893|consensus 91.1 0.07 1.5E-06 39.5 0.2 41 192-238 13-53 (341)
69 PF06524 NOA36: NOA36 protein; 90.9 0.19 4.1E-06 37.9 2.3 81 10-91 137-225 (314)
70 COG5236 Uncharacterized conser 90.5 0.51 1.1E-05 37.2 4.4 124 110-244 159-306 (493)
71 COG5236 Uncharacterized conser 90.3 0.32 6.9E-06 38.3 3.1 103 134-243 151-275 (493)
72 TIGR00373 conserved hypothetic 89.8 0.36 7.8E-06 34.2 2.9 33 185-228 105-137 (158)
73 cd00729 rubredoxin_SM Rubredox 89.8 0.19 4.2E-06 25.3 1.1 25 189-227 2-26 (34)
74 PF09538 FYDLN_acid: Protein o 89.6 0.23 4.9E-06 32.6 1.6 14 219-232 26-39 (108)
75 PF12013 DUF3505: Protein of u 89.4 0.95 2.1E-05 29.8 4.5 25 190-214 81-109 (109)
76 PF13719 zinc_ribbon_5: zinc-r 89.0 0.42 9.2E-06 24.5 2.1 34 16-55 3-36 (37)
77 TIGR02098 MJ0042_CXXC MJ0042 f 89.0 0.32 7E-06 25.0 1.7 34 16-55 3-36 (38)
78 COG5048 FOG: Zn-finger [Genera 88.8 0.076 1.6E-06 44.3 -1.3 48 13-61 31-80 (467)
79 PF13717 zinc_ribbon_4: zinc-r 88.8 0.44 9.6E-06 24.3 2.0 33 16-54 3-35 (36)
80 PF02892 zf-BED: BED zinc fing 88.5 0.27 6E-06 26.4 1.2 26 218-243 15-44 (45)
81 smart00614 ZnF_BED BED zinc fi 88.4 0.35 7.7E-06 26.7 1.6 25 220-244 19-48 (50)
82 TIGR00622 ssl1 transcription f 88.1 0.77 1.7E-05 30.2 3.3 89 133-244 14-105 (112)
83 PF10571 UPF0547: Uncharacteri 87.8 0.35 7.6E-06 22.6 1.2 8 192-199 17-24 (26)
84 PRK06266 transcription initiat 87.7 0.48 1E-05 34.3 2.4 32 186-228 114-145 (178)
85 COG2888 Predicted Zn-ribbon RN 87.2 0.92 2E-05 25.8 2.7 10 74-83 49-58 (61)
86 PF09538 FYDLN_acid: Protein o 86.5 0.48 1.1E-05 31.1 1.7 15 188-202 25-39 (108)
87 COG5048 FOG: Zn-finger [Genera 86.1 0.4 8.7E-06 39.9 1.5 53 15-67 289-346 (467)
88 smart00531 TFIIE Transcription 86.1 0.83 1.8E-05 32.0 2.8 16 186-201 96-111 (147)
89 COG1592 Rubrerythrin [Energy p 85.8 0.46 1E-05 33.7 1.4 24 188-226 133-156 (166)
90 smart00659 RPOLCX RNA polymera 84.9 0.58 1.3E-05 25.1 1.2 10 162-171 3-12 (44)
91 TIGR00622 ssl1 transcription f 84.8 1.7 3.7E-05 28.6 3.6 47 77-126 57-103 (112)
92 PF09986 DUF2225: Uncharacteri 84.5 0.098 2.1E-06 39.2 -2.6 45 188-232 4-61 (214)
93 PHA00626 hypothetical protein 84.5 0.25 5.4E-06 27.6 -0.3 12 219-230 23-34 (59)
94 smart00734 ZnF_Rad18 Rad18-lik 84.0 1.2 2.6E-05 20.8 2.0 19 191-210 3-21 (26)
95 PRK00398 rpoP DNA-directed RNA 83.7 0.91 2E-05 24.6 1.7 12 15-26 3-14 (46)
96 PF09986 DUF2225: Uncharacteri 83.7 0.35 7.6E-06 36.2 0.1 19 13-31 3-21 (214)
97 COG1997 RPL43A Ribosomal prote 82.7 0.63 1.4E-05 28.8 0.9 35 187-233 33-67 (89)
98 smart00531 TFIIE Transcription 81.3 1.4 3E-05 30.8 2.3 17 13-29 97-113 (147)
99 PRK00464 nrdR transcriptional 80.3 0.32 6.8E-06 34.2 -1.1 13 162-174 29-41 (154)
100 KOG2186|consensus 80.1 1 2.2E-05 34.0 1.4 56 135-192 4-59 (276)
101 PRK14890 putative Zn-ribbon RN 80.0 1.9 4E-05 24.7 2.1 10 74-83 47-56 (59)
102 PF09723 Zn-ribbon_8: Zinc rib 79.9 1.1 2.4E-05 23.7 1.2 14 44-57 5-18 (42)
103 KOG2186|consensus 79.6 0.83 1.8E-05 34.4 0.8 47 104-155 3-49 (276)
104 COG1592 Rubrerythrin [Energy p 78.7 1.5 3.4E-05 31.1 1.9 23 161-196 134-156 (166)
105 KOG1280|consensus 78.4 1.9 4.2E-05 34.2 2.4 40 187-226 77-116 (381)
106 PF03604 DNA_RNApol_7kD: DNA d 77.9 1.6 3.6E-05 21.5 1.3 8 189-196 17-24 (32)
107 PF08274 PhnA_Zn_Ribbon: PhnA 77.3 0.66 1.4E-05 22.6 -0.2 11 218-228 18-28 (30)
108 COG1996 RPC10 DNA-directed RNA 77.1 1.3 2.9E-05 24.3 0.9 10 162-171 7-16 (49)
109 TIGR00373 conserved hypothetic 76.2 1.6 3.4E-05 31.0 1.4 29 161-198 109-137 (158)
110 PF07754 DUF1610: Domain of un 76.1 1.6 3.5E-05 19.9 0.9 11 13-23 14-24 (24)
111 TIGR02300 FYDLN_acid conserved 75.7 2.1 4.6E-05 28.7 1.8 12 188-199 25-36 (129)
112 PF14353 CpXC: CpXC protein 75.3 2.3 5E-05 28.9 2.0 19 189-207 38-56 (128)
113 PRK06266 transcription initiat 75.0 1.6 3.5E-05 31.6 1.2 31 160-199 116-146 (178)
114 PF04780 DUF629: Protein of un 74.9 1.9 4.1E-05 36.1 1.7 30 217-246 55-84 (466)
115 smart00834 CxxC_CXXC_SSSS Puta 74.5 2 4.4E-05 22.3 1.2 10 45-54 6-15 (41)
116 PF04959 ARS2: Arsenite-resist 74.3 1.7 3.6E-05 32.5 1.1 26 219-244 77-102 (214)
117 TIGR02605 CxxC_CxxC_SSSS putat 73.5 2.3 4.9E-05 23.6 1.3 11 45-55 6-16 (52)
118 PF05290 Baculo_IE-1: Baculovi 70.8 2.4 5.3E-05 28.6 1.2 55 160-234 79-136 (140)
119 KOG2593|consensus 70.2 3.1 6.8E-05 34.2 1.9 42 12-57 125-166 (436)
120 PRK09678 DNA-binding transcrip 68.3 1.4 3E-05 26.5 -0.3 8 224-231 34-41 (72)
121 PF13451 zf-trcl: Probable zin 66.9 2.3 4.9E-05 23.4 0.3 14 13-26 2-15 (49)
122 PF00301 Rubredoxin: Rubredoxi 65.2 6.1 0.00013 21.5 1.8 13 45-57 2-14 (47)
123 PF02176 zf-TRAF: TRAF-type zi 64.9 1.1 2.4E-05 25.7 -1.2 43 11-55 5-53 (60)
124 COG3364 Zn-ribbon containing p 64.6 4.5 9.8E-05 25.9 1.4 14 134-147 2-15 (112)
125 COG5216 Uncharacterized conser 64.1 6.5 0.00014 22.3 1.8 29 15-51 22-51 (67)
126 PF15269 zf-C2H2_7: Zinc-finge 62.1 6.5 0.00014 20.9 1.5 21 190-210 21-41 (54)
127 COG0068 HypF Hydrogenase matur 61.4 2.9 6.3E-05 36.8 0.2 66 7-83 110-181 (750)
128 KOG4124|consensus 61.0 1.1 2.4E-05 35.4 -2.1 52 187-238 347-417 (442)
129 PF05495 zf-CHY: CHY zinc fing 60.6 5.9 0.00013 23.8 1.4 58 14-83 9-69 (71)
130 COG4530 Uncharacterized protei 59.8 9.3 0.0002 24.9 2.2 12 188-199 25-36 (129)
131 PF04959 ARS2: Arsenite-resist 59.0 6.8 0.00015 29.3 1.7 27 161-187 77-103 (214)
132 COG4306 Uncharacterized protei 59.0 4.1 8.9E-05 27.1 0.5 18 73-90 66-83 (160)
133 COG3357 Predicted transcriptio 58.4 6.6 0.00014 24.6 1.3 14 43-56 57-70 (97)
134 KOG1280|consensus 57.5 9.6 0.00021 30.5 2.4 38 104-141 79-116 (381)
135 PF09845 DUF2072: Zn-ribbon co 57.3 6.7 0.00014 26.6 1.3 14 135-148 2-15 (131)
136 PF06524 NOA36: NOA36 protein; 57.2 5.2 0.00011 30.5 0.9 40 101-141 139-178 (314)
137 PF14205 Cys_rich_KTR: Cystein 57.1 5.2 0.00011 22.4 0.6 36 13-53 2-37 (55)
138 cd00730 rubredoxin Rubredoxin; 57.0 2.9 6.2E-05 23.2 -0.4 7 190-196 35-41 (50)
139 COG1675 TFA1 Transcription ini 56.8 13 0.00029 26.8 2.8 32 185-227 109-140 (176)
140 PTZ00255 60S ribosomal protein 56.2 4.3 9.2E-05 25.6 0.3 33 187-231 34-66 (90)
141 PRK03824 hypA hydrogenase nick 55.4 5.6 0.00012 27.4 0.8 14 14-27 69-82 (135)
142 PRK04023 DNA polymerase II lar 54.9 15 0.00033 34.0 3.5 10 219-228 663-672 (1121)
143 COG1198 PriA Primosomal protei 53.1 12 0.00027 33.6 2.6 13 72-84 472-484 (730)
144 TIGR00280 L37a ribosomal prote 53.0 4.2 9E-05 25.7 -0.2 33 187-231 33-65 (91)
145 KOG4118|consensus 52.9 9.8 0.00021 22.1 1.3 29 219-247 38-66 (74)
146 COG0068 HypF Hydrogenase matur 52.9 1.6 3.5E-05 38.2 -2.6 56 136-197 125-181 (750)
147 KOG2923|consensus 52.2 12 0.00026 21.7 1.6 28 16-51 23-51 (67)
148 KOG2593|consensus 52.2 14 0.0003 30.6 2.6 17 188-204 127-143 (436)
149 PF05443 ROS_MUCR: ROS/MUCR tr 51.1 9.2 0.0002 26.2 1.2 27 187-216 70-96 (132)
150 PF08271 TF_Zn_Ribbon: TFIIB z 51.1 6.8 0.00015 20.7 0.5 9 76-84 20-28 (43)
151 PF13878 zf-C2H2_3: zinc-finge 49.2 22 0.00047 18.7 2.2 22 163-184 15-38 (41)
152 PRK04023 DNA polymerase II lar 48.6 20 0.00043 33.4 3.2 12 189-200 663-674 (1121)
153 smart00440 ZnF_C2C2 C2C2 Zinc 48.4 4.6 0.0001 21.1 -0.4 9 76-84 29-37 (40)
154 PF06397 Desulfoferrod_N: Desu 47.3 10 0.00022 19.3 0.7 12 14-25 5-16 (36)
155 COG1773 Rubredoxin [Energy pro 46.5 8.9 0.00019 21.7 0.5 13 45-57 4-16 (55)
156 TIGR00686 phnA alkylphosphonat 45.7 11 0.00024 24.6 0.9 13 219-231 19-31 (109)
157 PF14369 zf-RING_3: zinc-finge 45.5 23 0.00049 17.9 1.9 10 77-86 23-32 (35)
158 PF01096 TFIIS_C: Transcriptio 45.3 1.8 3.8E-05 22.5 -2.3 9 76-84 29-37 (39)
159 KOG2807|consensus 45.0 29 0.00064 27.6 3.2 25 218-243 344-368 (378)
160 PF07282 OrfB_Zn_ribbon: Putat 44.6 12 0.00026 22.1 1.0 13 187-199 44-56 (69)
161 PF13824 zf-Mss51: Zinc-finger 43.9 20 0.00043 20.3 1.6 8 189-196 14-21 (55)
162 PF01363 FYVE: FYVE zinc finge 43.6 12 0.00025 22.1 0.8 8 164-171 12-19 (69)
163 PRK10220 hypothetical protein; 43.3 14 0.0003 24.2 1.1 14 219-232 20-33 (111)
164 COG5151 SSL1 RNA polymerase II 43.0 22 0.00048 28.0 2.3 26 101-126 385-410 (421)
165 PF09332 Mcm10: Mcm10 replicat 43.0 10 0.00022 30.7 0.6 69 12-93 249-321 (344)
166 COG1571 Predicted DNA-binding 42.7 17 0.00037 30.2 1.8 30 191-233 352-381 (421)
167 cd00065 FYVE FYVE domain; Zinc 42.6 21 0.00045 20.0 1.7 14 188-201 17-30 (57)
168 PF04780 DUF629: Protein of un 42.5 20 0.00043 30.3 2.2 33 10-42 52-84 (466)
169 COG4888 Uncharacterized Zn rib 42.2 11 0.00023 24.2 0.5 15 13-27 20-34 (104)
170 PF12760 Zn_Tnp_IS1595: Transp 42.0 15 0.00032 19.8 1.0 8 219-226 37-44 (46)
171 KOG3408|consensus 41.6 16 0.00036 24.3 1.3 25 186-210 54-78 (129)
172 PF13453 zf-TFIIB: Transcripti 41.4 12 0.00027 19.5 0.6 8 192-199 22-29 (41)
173 PF04423 Rad50_zn_hook: Rad50 40.2 9.8 0.00021 21.3 0.1 12 221-232 22-33 (54)
174 smart00661 RPOL9 RNA polymeras 39.7 16 0.00035 20.0 0.9 7 190-196 21-27 (52)
175 PF08209 Sgf11: Sgf11 (transcr 39.1 19 0.00041 17.9 1.0 21 14-35 3-23 (33)
176 KOG4167|consensus 39.0 9.7 0.00021 33.8 -0.1 25 218-243 791-815 (907)
177 KOG3408|consensus 38.9 19 0.0004 24.1 1.2 25 159-183 55-79 (129)
178 PF14446 Prok-RING_1: Prokaryo 38.9 22 0.00048 20.0 1.3 12 188-199 20-31 (54)
179 PF07503 zf-HYPF: HypF finger; 37.9 2.7 5.8E-05 21.3 -2.2 8 163-170 23-30 (35)
180 KOG2907|consensus 37.7 38 0.00082 22.4 2.4 11 76-86 103-113 (116)
181 COG1326 Uncharacterized archae 37.5 46 0.00099 24.4 3.0 39 13-56 4-42 (201)
182 KOG1842|consensus 37.2 20 0.00043 29.9 1.4 27 189-215 15-41 (505)
183 smart00154 ZnF_AN1 AN1-like Zi 36.6 18 0.00039 18.7 0.7 14 189-202 12-25 (39)
184 PF10083 DUF2321: Uncharacteri 36.4 12 0.00025 26.3 0.0 48 44-93 39-86 (158)
185 COG3091 SprT Zn-dependent meta 35.9 31 0.00067 24.2 1.9 37 41-85 114-150 (156)
186 smart00064 FYVE Protein presen 35.8 26 0.00056 20.5 1.5 14 188-201 25-38 (68)
187 TIGR00100 hypA hydrogenase nic 35.2 15 0.00032 24.5 0.4 11 162-172 71-81 (115)
188 PRK03681 hypA hydrogenase nick 35.2 19 0.00042 23.9 0.9 9 162-170 71-79 (114)
189 KOG0782|consensus 34.7 9.3 0.0002 32.8 -0.8 54 173-233 237-290 (1004)
190 COG1594 RPB9 DNA-directed RNA 34.7 6.8 0.00015 26.0 -1.3 10 190-199 101-110 (113)
191 KOG1842|consensus 34.6 23 0.0005 29.5 1.4 31 73-103 13-43 (505)
192 PF11789 zf-Nse: Zinc-finger o 34.3 18 0.00038 20.7 0.5 31 188-224 23-53 (57)
193 PF07975 C1_4: TFIIH C1-like d 34.3 25 0.00054 19.6 1.1 25 13-37 19-43 (51)
194 PRK12380 hydrogenase nickel in 34.2 18 0.00039 24.0 0.6 11 162-172 71-81 (113)
195 cd00924 Cyt_c_Oxidase_Vb Cytoc 34.1 18 0.0004 23.3 0.6 16 11-26 75-90 (97)
196 PRK08222 hydrogenase 4 subunit 33.4 53 0.0011 23.9 3.0 18 188-205 113-130 (181)
197 PF01780 Ribosomal_L37ae: Ribo 32.8 13 0.00029 23.4 -0.2 11 75-85 53-63 (90)
198 PF10276 zf-CHCC: Zinc-finger 32.6 15 0.00033 19.2 0.1 12 188-199 28-39 (40)
199 PF10013 DUF2256: Uncharacteri 32.6 34 0.00075 18.1 1.3 18 191-208 10-27 (42)
200 COG4896 Uncharacterized protei 31.7 18 0.00038 20.8 0.2 7 190-196 32-38 (68)
201 smart00731 SprT SprT homologue 31.2 44 0.00095 23.3 2.2 34 42-85 110-143 (146)
202 PRK00564 hypA hydrogenase nick 31.0 30 0.00065 23.1 1.3 11 162-172 72-82 (117)
203 PF07800 DUF1644: Protein of u 31.0 2E+02 0.0042 20.6 5.2 57 189-249 80-138 (162)
204 PRK12496 hypothetical protein; 30.8 38 0.00082 24.3 1.8 11 162-172 128-138 (164)
205 PF01428 zf-AN1: AN1-like Zinc 30.6 16 0.00035 19.3 -0.0 15 188-202 12-26 (43)
206 PF08790 zf-LYAR: LYAR-type C2 30.0 7.1 0.00015 18.6 -1.3 6 139-144 5-10 (28)
207 PRK04351 hypothetical protein; 29.7 25 0.00055 24.7 0.8 34 43-87 111-144 (149)
208 PF12230 PRP21_like_P: Pre-mRN 29.5 18 0.00039 27.5 0.0 25 12-37 165-189 (229)
209 KOG0717|consensus 29.2 27 0.00058 29.4 0.9 21 220-240 293-313 (508)
210 KOG0717|consensus 29.2 31 0.00068 29.0 1.3 21 190-210 293-313 (508)
211 COG1198 PriA Primosomal protei 28.6 14 0.00031 33.3 -0.8 11 187-197 473-483 (730)
212 KOG2636|consensus 28.2 40 0.00086 28.2 1.7 28 183-210 395-423 (497)
213 TIGR00319 desulf_FeS4 desulfof 28.0 33 0.00071 16.9 0.8 12 14-25 6-17 (34)
214 smart00504 Ubox Modified RING 27.7 1.2E+02 0.0026 17.1 3.4 10 221-230 37-46 (63)
215 PF02591 DUF164: Putative zinc 27.6 60 0.0013 18.2 2.0 11 187-197 44-54 (56)
216 PHA02998 RNA polymerase subuni 27.5 20 0.00043 25.8 -0.0 14 44-57 171-184 (195)
217 COG4391 Uncharacterized protei 27.4 30 0.00065 20.0 0.7 39 158-200 21-59 (62)
218 TIGR01206 lysW lysine biosynth 27.3 23 0.00049 20.0 0.2 12 220-231 3-14 (54)
219 COG4957 Predicted transcriptio 26.8 39 0.00085 23.1 1.2 23 189-214 76-98 (148)
220 PF04438 zf-HIT: HIT zinc fing 26.7 62 0.0014 15.6 1.6 17 13-29 11-27 (30)
221 KOG4167|consensus 26.5 23 0.0005 31.6 0.2 21 75-95 792-812 (907)
222 cd00974 DSRD Desulforedoxin (D 26.5 35 0.00077 16.8 0.8 11 15-25 4-14 (34)
223 KOG2272|consensus 26.2 65 0.0014 24.7 2.4 76 97-174 92-176 (332)
224 PRK01343 zinc-binding protein; 25.9 35 0.00076 19.5 0.7 11 189-199 9-19 (57)
225 COG2331 Uncharacterized protei 25.8 36 0.00078 20.6 0.8 10 162-171 13-22 (82)
226 TIGR00595 priA primosomal prot 25.7 47 0.001 28.8 1.8 10 187-196 238-247 (505)
227 COG1998 RPS31 Ribosomal protei 25.6 45 0.00098 18.3 1.1 8 161-168 37-44 (51)
228 PF03811 Zn_Tnp_IS1: InsA N-te 25.3 75 0.0016 16.2 1.8 12 39-50 24-35 (36)
229 PTZ00448 hypothetical protein; 25.2 44 0.00096 27.3 1.5 25 14-38 313-337 (373)
230 PF11672 DUF3268: Protein of u 25.1 40 0.00087 22.0 1.0 9 15-23 2-10 (102)
231 PLN02294 cytochrome c oxidase 24.8 36 0.00079 24.4 0.8 15 186-200 138-152 (174)
232 KOG2857|consensus 24.7 38 0.00083 23.3 0.9 25 12-36 14-38 (157)
233 cd00162 RING RING-finger (Real 24.7 1.1E+02 0.0023 15.3 3.2 8 220-227 36-43 (45)
234 PRK00420 hypothetical protein; 24.0 58 0.0013 21.6 1.6 9 162-170 41-49 (112)
235 PF14803 Nudix_N_2: Nudix N-te 23.9 8.6 0.00019 19.3 -1.7 12 217-228 20-31 (34)
236 PRK12387 formate hydrogenlyase 23.8 34 0.00073 24.9 0.6 17 188-204 113-129 (180)
237 PLN03239 histone acetyltransfe 23.7 85 0.0018 25.6 2.8 24 13-36 104-127 (351)
238 PF09963 DUF2197: Uncharacteri 23.6 19 0.00042 20.4 -0.6 38 45-84 3-40 (56)
239 PRK14714 DNA polymerase II lar 23.5 1E+02 0.0023 29.9 3.6 12 14-25 666-677 (1337)
240 PF04606 Ogr_Delta: Ogr/Delta- 23.4 12 0.00025 20.3 -1.4 6 107-112 2-7 (47)
241 PF14634 zf-RING_5: zinc-RING 23.2 76 0.0016 16.6 1.8 8 219-226 36-43 (44)
242 KOG3002|consensus 22.6 1.3E+02 0.0028 24.1 3.6 79 134-215 80-165 (299)
243 KOG4727|consensus 22.5 48 0.001 23.7 1.0 23 188-210 74-96 (193)
244 PF01155 HypA: Hydrogenase exp 22.3 25 0.00054 23.3 -0.3 11 162-172 71-81 (113)
245 PF06220 zf-U1: U1 zinc finger 22.0 1E+02 0.0022 15.9 2.0 11 189-199 3-13 (38)
246 PF03833 PolC_DP2: DNA polymer 22.0 30 0.00065 31.6 0.0 10 221-230 694-703 (900)
247 PF14255 Cys_rich_CPXG: Cystei 21.6 45 0.00097 18.6 0.7 9 191-199 2-10 (52)
248 PF07295 DUF1451: Protein of u 21.6 66 0.0014 22.6 1.6 8 45-52 113-120 (146)
249 PF01286 XPA_N: XPA protein N- 21.5 58 0.0013 16.4 1.0 17 45-61 4-20 (34)
250 PF12156 ATPase-cat_bd: Putati 21.2 39 0.00085 21.2 0.4 36 46-86 2-37 (88)
251 PTZ00448 hypothetical protein; 20.7 68 0.0015 26.3 1.7 24 219-242 314-337 (373)
252 KOG3214|consensus 20.4 41 0.00088 21.6 0.4 14 220-233 48-61 (109)
253 PF13821 DUF4187: Domain of un 20.3 1E+02 0.0022 17.5 1.9 17 221-237 29-45 (55)
254 PTZ00064 histone acetyltransfe 20.2 1.2E+02 0.0025 26.2 3.0 26 12-37 277-302 (552)
255 PF10263 SprT-like: SprT-like 20.1 29 0.00062 24.4 -0.4 11 189-199 123-133 (157)
No 1
>KOG2462|consensus
Probab=99.97 E-value=3.6e-32 Score=198.23 Aligned_cols=139 Identities=27% Similarity=0.506 Sum_probs=128.5
Q ss_pred CCCCcccccchhhccChHHHHHHHHhhhcc-CCCcccccccccccCCHHHHHHHHHhcCCcccccCCCcccCCChHHHHH
Q psy12195 101 MDINMSCVPCDVLFHNKATLYKHLYLEHKA-TSLSIQCNMCSLVLDSKESLVTHISQTHTLMFTCRRCPSTFLNSATLSK 179 (254)
Q Consensus 101 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~-~~~~~~C~~C~~~f~~~~~l~~h~~~~~~~~~~C~~C~~~f~~~~~l~~ 179 (254)
....|.|+.|++.+.+.++|-.|.+.|... ....+.|++|++.|.+...|..|++ +|..+.+|.+||+.|...+.|+.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHir-TH~l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIR-THTLPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhh-ccCCCcccccccccccchHHhhc
Confidence 445699999999999999999999986543 3446899999999999999999998 99999999999999999999999
Q ss_pred HHhHhhCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHHHHHHHHh
Q psy12195 180 HVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSV 242 (254)
Q Consensus 180 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 242 (254)
|+++|+|||||.|+.|+|+|.++++|..|+. +|.+ .+.|+|+.|+|.|+..+.|..|.+.-
T Consensus 206 HiRTHTGEKPF~C~hC~kAFADRSNLRAHmQ-THS~-~K~~qC~~C~KsFsl~SyLnKH~ES~ 266 (279)
T KOG2462|consen 206 HIRTHTGEKPFSCPHCGKAFADRSNLRAHMQ-THSD-VKKHQCPRCGKSFALKSYLNKHSESA 266 (279)
T ss_pred ccccccCCCCccCCcccchhcchHHHHHHHH-hhcC-CccccCcchhhHHHHHHHHHHhhhhc
Confidence 9999999999999999999999999999998 7888 78999999999999999999998554
No 2
>KOG3608|consensus
Probab=99.96 E-value=1.6e-29 Score=189.38 Aligned_cols=231 Identities=23% Similarity=0.474 Sum_probs=200.9
Q ss_pred eeeec--ccccccCCCHHHHHhhhccccc------------Cc-ceeecC--cCCcccCCCCccchhhhhccCCCCCCcc
Q psy12195 14 VIIRC--ETCTRNYESLESLTTHLSFKHS------------NQ-FLMKCT--NCNVLVPRDEILPHLSIQHCQGTTPSIY 76 (254)
Q Consensus 14 ~~~~C--~~C~~~f~~~~~l~~H~~~~h~------------~~-~~~~C~--~C~~~~~~~~~l~~~~~~h~~~~~~~~~ 76 (254)
..|.| ..|+..|.+..+|..|+.. |. .+ ..+-|. -|.+.+.++..|..|++.| ++++..
T Consensus 133 ~~f~C~WedCe~~F~s~~ef~dHV~~-H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~H---s~eKvv 208 (467)
T KOG3608|consen 133 QNFRCGWEDCEREFVSIVEFQDHVVK-HALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTH---SNEKVV 208 (467)
T ss_pred hhhccChhhcCCcccCHHHHHHHHHH-hhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhc---CCCeEE
Confidence 34566 5699999999999999886 43 11 224454 4888999999999888889 999999
Q ss_pred cccccccccccHHHHHhHHhhhc-cCCCCcccccchhhccChHHHHHHHHhhhccCCCcccccccccccCCHHHHHHHHH
Q psy12195 77 ECNQCKEKTNDMTTMLNHYSVKH-YMDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTHIS 155 (254)
Q Consensus 77 ~C~~C~~~~~~~~~l~~h~~~~h-~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~ 155 (254)
.|+.||..|..+..|.+|.++.. ....+|.|..|.+.|.++..|..|+..+.. .|+|++|+.+....++|..|++
T Consensus 209 ACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn----~ykCplCdmtc~~~ssL~~H~r 284 (467)
T KOG3608|consen 209 ACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN----CYKCPLCDMTCSSASSLTTHIR 284 (467)
T ss_pred ecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh----cccccccccCCCChHHHHHHHH
Confidence 99999999999999999985532 345689999999999999999999987432 6899999999999999999988
Q ss_pred hcCC--cccccCCCcccCCChHHHHHHHhHhhCCCcccCCC--CcccCCCHHHHHHHHHHhhc-CCCCCccCcchhhccC
Q psy12195 156 QTHT--LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNE--CPESFERLNKLKRHKFQAHN-DSVHQIQCPYCITDFS 230 (254)
Q Consensus 156 ~~~~--~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~-~~~~~~~C~~C~~~f~ 230 (254)
..|. +||+|+.|+..+...+.|.+|..+|+ +-.|+|.. |..+|++...+.+|++.+|. .++.+|.|-+|++.|+
T Consensus 285 ~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft 363 (467)
T KOG3608|consen 285 YRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFT 363 (467)
T ss_pred hhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhc
Confidence 6554 89999999999999999999999998 88899988 99999999999999999994 4456799999999999
Q ss_pred CchHHHHHHHHhcCCCCCCCCCC
Q psy12195 231 EDKNLIQHIVSVHLGKEGTAPAR 253 (254)
Q Consensus 231 ~~~~l~~H~~~~h~~~~~~~c~~ 253 (254)
+..+|..|+.+.|.-.-||.-+|
T Consensus 364 ~G~~L~~HL~kkH~f~~PsGh~R 386 (467)
T KOG3608|consen 364 SGKSLSAHLMKKHGFRLPSGHKR 386 (467)
T ss_pred cchhHHHHHHHhhcccCCCCCCc
Confidence 99999999999999988887665
No 3
>KOG2462|consensus
Probab=99.93 E-value=5e-27 Score=171.43 Aligned_cols=116 Identities=22% Similarity=0.483 Sum_probs=108.8
Q ss_pred cccccccccccCCHHHHHHHHHhcCC----cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHH
Q psy12195 134 SIQCNMCSLVLDSKESLVTHISQTHT----LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHK 209 (254)
Q Consensus 134 ~~~C~~C~~~f~~~~~l~~h~~~~~~----~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 209 (254)
.|.|+.||+.+...+.|.+|...... +.+.|..||+.|.+-..|..|+++|+ -+.+|++|||+|...+-|+.|+
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHi 207 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHI 207 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhccc
Confidence 68999999999999999999763322 77999999999999999999999998 7899999999999999999999
Q ss_pred HHhhcCCCCCccCcchhhccCCchHHHHHHHHhcCCCCCCCCCCC
Q psy12195 210 FQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHLGKEGTAPART 254 (254)
Q Consensus 210 ~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c~~~ 254 (254)
+ .|+| +|||.|+.|++.|++++||..|| .+|++.|+|+|.||
T Consensus 208 R-THTG-EKPF~C~hC~kAFADRSNLRAHm-QTHS~~K~~qC~~C 249 (279)
T KOG2462|consen 208 R-THTG-EKPFSCPHCGKAFADRSNLRAHM-QTHSDVKKHQCPRC 249 (279)
T ss_pred c-cccC-CCCccCCcccchhcchHHHHHHH-HhhcCCccccCcch
Confidence 9 7888 89999999999999999999999 99999999999997
No 4
>KOG1074|consensus
Probab=99.91 E-value=8.1e-25 Score=180.69 Aligned_cols=170 Identities=22% Similarity=0.445 Sum_probs=142.3
Q ss_pred cccccccccccccHHHHHhHHhhhccCCCCcccccchhhccChHHHHHHHHhhhccCC---Cccccc---ccccccCCHH
Q psy12195 75 IYECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATS---LSIQCN---MCSLVLDSKE 148 (254)
Q Consensus 75 ~~~C~~C~~~~~~~~~l~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~---~~~~C~---~C~~~f~~~~ 148 (254)
+-.|-+|.+++.-.+.|..|+ +.|++++||.|.+||+.|.++.+|+.|+..|- ..+ .++.|+ +|.+.|.+.-
T Consensus 605 PNqCiiC~rVlSC~saLqmHy-rtHtGERPFkCKiCgRAFtTkGNLkaH~~vHk-a~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHY-RTHTGERPFKCKICGRAFTTKGNLKAHMSVHK-AKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred ccceeeeeecccchhhhhhhh-hcccCcCccccccccchhccccchhhcccccc-cCccccccccCCchhhhcccccccc
Confidence 567999999999999999999 77999999999999999999999999998733 222 368899 9999999988
Q ss_pred HHHHHHHhcCC---------------cccccCCCcccCCChHHHHHHHhHhhCC--------------------------
Q psy12195 149 SLVTHISQTHT---------------LMFTCRRCPSTFLNSATLSKHVKMEHNS-------------------------- 187 (254)
Q Consensus 149 ~l~~h~~~~~~---------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~-------------------------- 187 (254)
.|..|++ .|. -.-+|..|.+.|.....+..++..+.++
T Consensus 683 ~lpQhIr-iH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~ 761 (958)
T KOG1074|consen 683 TLPQHIR-IHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPEN 761 (958)
T ss_pred cccceEE-eecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccc
Confidence 8888866 221 1256888888887777777777765211
Q ss_pred --------------------------------------------------------------------------------
Q psy12195 188 -------------------------------------------------------------------------------- 187 (254)
Q Consensus 188 -------------------------------------------------------------------------------- 187 (254)
T Consensus 762 ~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~ 841 (958)
T KOG1074|consen 762 SCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGL 841 (958)
T ss_pred ccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccc
Confidence
Q ss_pred ------------------------------------CcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCC
Q psy12195 188 ------------------------------------KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSE 231 (254)
Q Consensus 188 ------------------------------------~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~ 231 (254)
....|.+||+.|...+.|..|++ .|++ .++|.|..|++.|.+
T Consensus 842 ~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~r-THtg-~KPF~C~fC~~aFtt 919 (958)
T KOG1074|consen 842 ATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMR-THTG-PKPFFCHFCEEAFTT 919 (958)
T ss_pred ccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhh-cCCC-CCCccchhhhhhhhh
Confidence 12789999999999999999999 7888 789999999999999
Q ss_pred chHHHHHHHHhcCCCCCCC
Q psy12195 232 DKNLIQHIVSVHLGKEGTA 250 (254)
Q Consensus 232 ~~~l~~H~~~~h~~~~~~~ 250 (254)
+.+|..|| .+|.+..|..
T Consensus 920 rgnLKvHM-gtH~w~q~~s 937 (958)
T KOG1074|consen 920 RGNLKVHM-GTHMWVQPPS 937 (958)
T ss_pred hhhhhhhh-ccccccCCCc
Confidence 99999999 7999887754
No 5
>KOG3608|consensus
Probab=99.90 E-value=7.1e-24 Score=159.31 Aligned_cols=202 Identities=21% Similarity=0.434 Sum_probs=174.6
Q ss_pred eec--CcCCcccCCCCccchhhhhccCC----------CCCCcc--cccccccccccHHHHHhHHhhhccCCCCcccccc
Q psy12195 45 MKC--TNCNVLVPRDEILPHLSIQHCQG----------TTPSIY--ECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPC 110 (254)
Q Consensus 45 ~~C--~~C~~~~~~~~~l~~~~~~h~~~----------~~~~~~--~C~~C~~~~~~~~~l~~h~~~~h~~~~~~~C~~C 110 (254)
+.| +.|+..|.....+..|...|... .....+ .+..|-..+.++..|+.|+ ..|.+++...|+.|
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~-r~Hs~eKvvACp~C 213 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHI-RTHSNEKVVACPHC 213 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHH-HhcCCCeEEecchH
Confidence 455 55999999998888666656321 111223 4567889999999999998 77999999999999
Q ss_pred hhhccChHHHHHHHHhhhccCCCcccccccccccCCHHHHHHHHHhcCCcccccCCCcccCCChHHHHHHHhH-hhCCCc
Q psy12195 111 DVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTHISQTHTLMFTCRRCPSTFLNSATLSKHVKM-EHNSKS 189 (254)
Q Consensus 111 ~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~ 189 (254)
|.-|.++..|..|.+........+|.|..|.+.|.....|..|+. .|-..|+|++|+......++|..|++. |...+|
T Consensus 214 g~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~-rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~dkp 292 (467)
T KOG3608|consen 214 GELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVV-RHVNCYKCPLCDMTCSSASSLTTHIRYRHSKDKP 292 (467)
T ss_pred HHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHH-HhhhcccccccccCCCChHHHHHHHHhhhccCCC
Confidence 999999999999998877777779999999999999999999998 888999999999999999999999998 888999
Q ss_pred ccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcc--hhhccCCchHHHHHHHHhcCCCCC--CCC
Q psy12195 190 YQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPY--CITDFSEDKNLIQHIVSVHLGKEG--TAP 251 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~--~~c 251 (254)
|+|..|++.|.+.+.|.+|+. .|++ ..|+|.. |..+|.+...|.+|++.+|.|..| |.|
T Consensus 293 fKCd~Cd~~c~~esdL~kH~~-~HS~--~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~C 355 (467)
T KOG3608|consen 293 FKCDECDTRCVRESDLAKHVQ-VHSK--TVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYAC 355 (467)
T ss_pred ccccchhhhhccHHHHHHHHH-hccc--cceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceee
Confidence 999999999999999999998 7775 3688977 999999999999999999966654 554
No 6
>KOG3623|consensus
Probab=99.86 E-value=5.7e-23 Score=167.46 Aligned_cols=109 Identities=21% Similarity=0.461 Sum_probs=63.1
Q ss_pred eeecccccccCCCHHHHHhhhccccc-CcceeecCcCCcccCCCCccchhhhhccCCC----------CCCccccccccc
Q psy12195 15 IIRCETCTRNYESLESLTTHLSFKHS-NQFLMKCTNCNVLVPRDEILPHLSIQHCQGT----------TPSIYECNQCKE 83 (254)
Q Consensus 15 ~~~C~~C~~~f~~~~~l~~H~~~~h~-~~~~~~C~~C~~~~~~~~~l~~~~~~h~~~~----------~~~~~~C~~C~~ 83 (254)
...|+.|+..|.....|+.|+...|. .+.-|.|..|.+.|-.+..|..|+..|.... ....|+|.+||+
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 44566666666666666666655332 2334566666666666666665554453221 123466666666
Q ss_pred ccccHHHHHhHHhhhccCCCCcccccchhhccChHHHHHHH
Q psy12195 84 KTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHL 124 (254)
Q Consensus 84 ~~~~~~~l~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 124 (254)
.|..+..|..|+ ++|.|++||.|+.|++.|+-.+++-.||
T Consensus 290 AFKfKHHLKEHl-RIHSGEKPfeCpnCkKRFSHSGSySSHm 329 (1007)
T KOG3623|consen 290 AFKFKHHLKEHL-RIHSGEKPFECPNCKKRFSHSGSYSSHM 329 (1007)
T ss_pred hhhhHHHHHhhh-eeecCCCCcCCcccccccccCCcccccc
Confidence 666666666665 5566666666666666666555555555
No 7
>KOG1074|consensus
Probab=99.81 E-value=1.2e-21 Score=162.27 Aligned_cols=84 Identities=27% Similarity=0.550 Sum_probs=75.8
Q ss_pred cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHHHHhhcCC---CCCccCc---chhhccCCch
Q psy12195 160 LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDS---VHQIQCP---YCITDFSEDK 233 (254)
Q Consensus 160 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~---~~~~~C~---~C~~~f~~~~ 233 (254)
-|-+|-+|.++.+=.+.|+.|.++|+||+||+|.+||++|.++.+|+.|+. +|... .-+|.|| +|.+.|+..-
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~-vHka~p~~R~q~ScP~~~ic~~kftn~V 682 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMS-VHKAKPPARVQFSCPSTFICQKKFTNAV 682 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhccc-ccccCccccccccCCchhhhcccccccc
Confidence 348899999999999999999999999999999999999999999999997 55442 2468999 9999999999
Q ss_pred HHHHHHHHhcCC
Q psy12195 234 NLIQHIVSVHLG 245 (254)
Q Consensus 234 ~l~~H~~~~h~~ 245 (254)
.|.+|+ +.|.+
T Consensus 683 ~lpQhI-riH~~ 693 (958)
T KOG1074|consen 683 TLPQHI-RIHLG 693 (958)
T ss_pred cccceE-EeecC
Confidence 999999 88874
No 8
>KOG3576|consensus
Probab=99.72 E-value=3.2e-18 Score=119.54 Aligned_cols=112 Identities=20% Similarity=0.390 Sum_probs=99.6
Q ss_pred cccccccccccCCHHHHHHHHHhcCC--cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHHHH
Q psy12195 134 SIQCNMCSLVLDSKESLVTHISQTHT--LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQ 211 (254)
Q Consensus 134 ~~~C~~C~~~f~~~~~l~~h~~~~~~--~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 211 (254)
.|.|.+|++.|...--|.+|+. -|. +.+-|..||+.|...-.|++|+++|+|.+||+|..|+|+|.+..+|..|++.
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~k-ch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLK-CHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhh-hccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 6889999999988888888887 444 7889999999999999999999999999999999999999999999999998
Q ss_pred hhcCC---------CCCccCcchhhccCCchHHHHHHHHhcCCC
Q psy12195 212 AHNDS---------VHQIQCPYCITDFSEDKNLIQHIVSVHLGK 246 (254)
Q Consensus 212 ~h~~~---------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 246 (254)
+|+.. .+.|.|..||..-.....+..|++..|..-
T Consensus 196 vhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 196 VHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred HcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 88752 366999999999999999999997777543
No 9
>KOG3623|consensus
Probab=99.61 E-value=2.7e-16 Score=129.03 Aligned_cols=105 Identities=22% Similarity=0.557 Sum_probs=90.3
Q ss_pred cccccchhhccChHHHHHHHHhhhccCCCcccccccccccCCHHHHHHHHHhcCC---------------cccccCCCcc
Q psy12195 105 MSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTHISQTHT---------------LMFTCRRCPS 169 (254)
Q Consensus 105 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~~~~---------------~~~~C~~C~~ 169 (254)
..|++|++.+....+|+.|++..|...+-.|.|.+|..+|-.+..|.+|+. .|. +.|+|.+||+
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~-~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQ-LHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHH-hhcCCCcccccccchhhhccccccccch
Confidence 689999999999999999999877666657899999999999999999976 332 5688999999
Q ss_pred cCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHHH
Q psy12195 170 TFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 170 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 210 (254)
.|..+-.|+.|+++|.|||||.|+.|+|+|+-..++..|+.
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 99999999999999999999999999999988888888875
No 10
>KOG3576|consensus
Probab=99.61 E-value=7.3e-17 Score=112.80 Aligned_cols=88 Identities=30% Similarity=0.505 Sum_probs=82.5
Q ss_pred cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHHHHHH
Q psy12195 160 LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 160 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~ 239 (254)
..|.|.+|++.|.....|.+|+.-|...+.|-|..|||+|++--.|++|++ .|++ .+||+|.+|+|.|++...|..|+
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~r-thtg-vrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTR-THTG-VRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhc-cccC-ccccchhhhhHHHHhhccHHHHH
Confidence 569999999999999999999999999999999999999999999999999 7888 89999999999999999999999
Q ss_pred HHhcCCCCCC
Q psy12195 240 VSVHLGKEGT 249 (254)
Q Consensus 240 ~~~h~~~~~~ 249 (254)
+.+|.-...|
T Consensus 194 ~kvhgv~~~y 203 (267)
T KOG3576|consen 194 KKVHGVQHQY 203 (267)
T ss_pred HHHcCchHHH
Confidence 9999765443
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.32 E-value=7.1e-12 Score=103.47 Aligned_cols=147 Identities=17% Similarity=0.388 Sum_probs=112.3
Q ss_pred cccccccccccccHHHHHhHHhhhccCCCCccccc--chhhccChHHHHHHHHhhhccCCCcccccccccccCCHHHHHH
Q psy12195 75 IYECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVP--CDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVT 152 (254)
Q Consensus 75 ~~~C~~C~~~~~~~~~l~~h~~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~ 152 (254)
...|+.|...... ..|..|. . +=.-..-.|+. |+..|.. ..+..| +.|+.|++.|. .+.|..
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe-~-~C~r~~V~Cp~~~Cg~v~~r-~el~~H-----------~~C~~Cgk~f~-~s~Lek 470 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHE-A-YCSRHNVVCPHDGCGIVLRV-EEAKNH-----------VHCEKCGQAFQ-QGEMEK 470 (567)
T ss_pred eEECCCCCCccch-hHHHHHH-h-hCCCcceeCCcccccceeec-cccccC-----------ccCCCCCCccc-hHHHHH
Confidence 4579989877554 5566776 3 33345556874 9888732 333333 47999999996 678999
Q ss_pred HHHhcCCcccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCC----------CHHHHHHHHHHhhcCCCCCccC
Q psy12195 153 HISQTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFE----------RLNKLKRHKFQAHNDSVHQIQC 222 (254)
Q Consensus 153 h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~~h~~~~~~~~C 222 (254)
|+... ..++.|+ ||..+ ....|..|+.+|.+++++.|+.|++.|. ..+.|..|... . + .+++.|
T Consensus 471 H~~~~-Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-C-G-~rt~~C 544 (567)
T PLN03086 471 HMKVF-HEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI-C-G-SRTAPC 544 (567)
T ss_pred HHHhc-CCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHh-c-C-CcceEc
Confidence 98844 5899999 99755 6789999999999999999999999995 24689999874 3 4 678999
Q ss_pred cchhhccCCchHHHHHHHHhcC
Q psy12195 223 PYCITDFSEDKNLIQHIVSVHL 244 (254)
Q Consensus 223 ~~C~~~f~~~~~l~~H~~~~h~ 244 (254)
..|++.+..+ .|..|+...|.
T Consensus 545 ~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 545 DSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred cccCCeeeeh-hHHHHHHHhhc
Confidence 9999888765 68899977774
No 12
>PHA00733 hypothetical protein
Probab=99.30 E-value=3.8e-12 Score=86.02 Aligned_cols=80 Identities=20% Similarity=0.360 Sum_probs=54.2
Q ss_pred cccccCCCcccCCChHHHHHH--H---hHhhCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchH
Q psy12195 160 LMFTCRRCPSTFLNSATLSKH--V---KMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKN 234 (254)
Q Consensus 160 ~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~ 234 (254)
+++.|++|+..|..+..|..+ + ..+.+++||.|+.||+.|.+.+.|..|++. + ..+|.|+.|++.|.....
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~-h---~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRY-T---EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhc-C---CcCccCCCCCCccCCHHH
Confidence 556666666666555544444 1 122347788888888888888888888763 3 235788888888888888
Q ss_pred HHHHHHHhc
Q psy12195 235 LIQHIVSVH 243 (254)
Q Consensus 235 l~~H~~~~h 243 (254)
|..|+...|
T Consensus 115 L~~H~~~~h 123 (128)
T PHA00733 115 TLDHVCKKH 123 (128)
T ss_pred HHHHHHHhc
Confidence 888886655
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.23 E-value=9.3e-11 Score=96.98 Aligned_cols=146 Identities=25% Similarity=0.506 Sum_probs=88.8
Q ss_pred eeecCcCCcccCCCCccchhhhhccCCCCCCccccc--ccccccccHHHHHhHHhhhccCCCCcccccchhhccChHHHH
Q psy12195 44 LMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECN--QCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLY 121 (254)
Q Consensus 44 ~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~--~C~~~~~~~~~l~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~ 121 (254)
...|..|.+..+......|... - .-....|+ .|+..|.. ..+ +..+.|+.|+..|. ...|.
T Consensus 407 ~V~C~NC~~~i~l~~l~lHe~~-C----~r~~V~Cp~~~Cg~v~~r-~el----------~~H~~C~~Cgk~f~-~s~Le 469 (567)
T PLN03086 407 TVECRNCKHYIPSRSIALHEAY-C----SRHNVVCPHDGCGIVLRV-EEA----------KNHVHCEKCGQAFQ-QGEME 469 (567)
T ss_pred eEECCCCCCccchhHHHHHHhh-C----CCcceeCCcccccceeec-ccc----------ccCccCCCCCCccc-hHHHH
Confidence 4567777665555543322221 1 12234565 37766631 112 22246777777774 56677
Q ss_pred HHHHhhhccCCCcccccccccccCCHHHHHHHHHh-cCCcccccCCCcccCC----------ChHHHHHHHhHhhCCCcc
Q psy12195 122 KHLYLEHKATSLSIQCNMCSLVLDSKESLVTHISQ-THTLMFTCRRCPSTFL----------NSATLSKHVKMEHNSKSY 190 (254)
Q Consensus 122 ~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~-~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~ 190 (254)
.|+..+| .++.|+ ||..+ .+..|..|+.. ...+++.|+.|+..|. ....|..|..++ +.+++
T Consensus 470 kH~~~~H----kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~ 542 (567)
T PLN03086 470 KHMKVFH----EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTA 542 (567)
T ss_pred HHHHhcC----CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcce
Confidence 7777743 267777 77644 45677777652 2237788888887774 134688888875 88888
Q ss_pred cCCCCcccCCCHHHHHHHHHHhhc
Q psy12195 191 QCNECPESFERLNKLKRHKFQAHN 214 (254)
Q Consensus 191 ~C~~C~~~f~~~~~l~~H~~~~h~ 214 (254)
.|..||+.+. ...+..|+.+.|.
T Consensus 543 ~C~~Cgk~Vr-lrdm~~H~~~~h~ 565 (567)
T PLN03086 543 PCDSCGRSVM-LKEMDIHQIAVHQ 565 (567)
T ss_pred EccccCCeee-ehhHHHHHHHhhc
Confidence 8888888874 4567777776664
No 14
>PHA00733 hypothetical protein
Probab=99.20 E-value=3.5e-11 Score=81.31 Aligned_cols=80 Identities=18% Similarity=0.342 Sum_probs=62.5
Q ss_pred cccccccccccCCHHHHHH------HHHhcCCcccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHH
Q psy12195 134 SIQCNMCSLVLDSKESLVT------HISQTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKR 207 (254)
Q Consensus 134 ~~~C~~C~~~f~~~~~l~~------h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 207 (254)
++.|.+|...|.....|.. ++.....+||.|+.|++.|.....|..|++.+ +.+|.|++|+++|.....|.+
T Consensus 40 ~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~ 117 (128)
T PHA00733 40 RLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLD 117 (128)
T ss_pred hHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHH
Confidence 5666666666655444433 33334458999999999999999999999976 467999999999999999999
Q ss_pred HHHHhhcC
Q psy12195 208 HKFQAHND 215 (254)
Q Consensus 208 H~~~~h~~ 215 (254)
|+...|+-
T Consensus 118 H~~~~h~~ 125 (128)
T PHA00733 118 HVCKKHNI 125 (128)
T ss_pred HHHHhcCc
Confidence 99887754
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.07 E-value=5.6e-11 Score=66.05 Aligned_cols=42 Identities=19% Similarity=0.384 Sum_probs=22.7
Q ss_pred ccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHH
Q psy12195 190 YQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNL 235 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l 235 (254)
|.|++||+.|...++|.+|++. |. ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~-H~---k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRK-HN---TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHh-cC---CcccCCcccceeccccee
Confidence 4555555555555555555553 32 245555555555555544
No 16
>PHA02768 hypothetical protein; Provisional
Probab=99.04 E-value=8.6e-11 Score=65.32 Aligned_cols=44 Identities=11% Similarity=0.381 Sum_probs=40.7
Q ss_pred ccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHH
Q psy12195 161 MFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLK 206 (254)
Q Consensus 161 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 206 (254)
.|.|+.||+.|.....|..|+++|+ ++|+|..|++.|...+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4899999999999999999999999 7999999999999887764
No 17
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.93 E-value=2.8e-09 Score=60.77 Aligned_cols=53 Identities=28% Similarity=0.557 Sum_probs=44.6
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHHHHHHHHhcC
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHL 244 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 244 (254)
.|.||+|++. .+..+|..|....|....+.+.||+|...++ .+|..||...|.
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 4899999995 5678999999989988778899999998655 499999977763
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.87 E-value=1.2e-09 Score=51.99 Aligned_cols=26 Identities=31% Similarity=0.756 Sum_probs=21.7
Q ss_pred HHHHHHhHhhCCCcccCCCCcccCCC
Q psy12195 176 TLSKHVKMEHNSKSYQCNECPESFER 201 (254)
Q Consensus 176 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 201 (254)
+|..|+++|++++||.|++|+++|.+
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 47788888999999999999888853
No 19
>KOG3993|consensus
Probab=98.78 E-value=9e-10 Score=85.97 Aligned_cols=167 Identities=19% Similarity=0.306 Sum_probs=111.0
Q ss_pred cccccccccccccHHHHHhHHhhhccCCCCcccccchhhccChHHHHHHHHhhhccCCCccc--ccccccccCCHHHHHH
Q psy12195 75 IYECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQ--CNMCSLVLDSKESLVT 152 (254)
Q Consensus 75 ~~~C~~C~~~~~~~~~l~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~--C~~C~~~f~~~~~l~~ 152 (254)
.|.|..|...|.+...|..|. -.-.....|.|+.|++.|+...+|..|.+.|-.... .-. -+.=...-... .+..
T Consensus 267 dyiCqLCK~kYeD~F~LAQHr-C~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~e-aa~a~~~P~k~~~~~r-ae~~ 343 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHR-CPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPE-AAKAGSPPPKQAVETR-AEVQ 343 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhcc-CCeeEEeeecCCcccccccCchhhhhhhcccCCchh-hhhcCCCChhhhhhhh-hhhh
Confidence 589999999999999999996 545666789999999999999999999988432221 111 00000000000 1111
Q ss_pred HHHhc----CCcccccCCCcccCCChHHHHHHHhHhhCC-----------------------------------------
Q psy12195 153 HISQT----HTLMFTCRRCPSTFLNSATLSKHVKMEHNS----------------------------------------- 187 (254)
Q Consensus 153 h~~~~----~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----------------------------------------- 187 (254)
..... .+.-|.|..|++.|.....|+.|+.+|...
T Consensus 344 ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~ 423 (500)
T KOG3993|consen 344 EAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLY 423 (500)
T ss_pred hccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceee
Confidence 11111 124688888888888888888888876521
Q ss_pred -----CcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHHHHHHHHhcCCC
Q psy12195 188 -----KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHLGK 246 (254)
Q Consensus 188 -----~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 246 (254)
....++++|-.+.++..-..+.+..+. ...|.|.+|.-.|.+..+|.+|+..-|..+
T Consensus 424 ~a~sael~~pp~~~~ppsss~~sgg~~rlg~~--~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 424 VAGSAELELPPYDGSPPSSSGSSGGYGRLGIA--EQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred eeccccccCCCCCCCCcccCCCCCccccccch--hhccccccchHhhhcCcchHhHhhhcChHH
Confidence 114677888777666554444432121 346889999999999999999987777543
No 20
>PHA00616 hypothetical protein
Probab=98.74 E-value=5e-09 Score=55.41 Aligned_cols=32 Identities=22% Similarity=0.310 Sum_probs=19.1
Q ss_pred CccCcchhhccCCchHHHHHHHHhcCCCCCCCC
Q psy12195 219 QIQCPYCITDFSEDKNLIQHIVSVHLGKEGTAP 251 (254)
Q Consensus 219 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~c 251 (254)
+|+|+.||+.|.++++|..|+ +.|.|++|+.+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~-r~~hg~~~~~~ 32 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHL-LSVHKQNKLTL 32 (44)
T ss_pred CCccchhhHHHhhHHHHHHHH-HHhcCCCccce
Confidence 355666666666666666666 55555566554
No 21
>KOG3993|consensus
Probab=98.61 E-value=4.4e-09 Score=82.22 Aligned_cols=201 Identities=16% Similarity=0.166 Sum_probs=127.3
Q ss_pred eeeeecccccccCCCHHHHHhhhcccccCcceeecCcCCcccCCCCccchhhhhccCCCCCCcccccccccccccHHHHH
Q psy12195 13 VVIIRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKTNDMTTML 92 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~~~~~~l~ 92 (254)
...|.|..|...|.+.-.|.+|... .-....|+|.+|+|.|....+|..|+++|.+..+...-.-+.=... .....+.
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQHrC~-RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~-~~~rae~ 342 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQHRCP-RIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQA-VETRAEV 342 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhccCC-eeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhh-hhhhhhh
Confidence 5678899999999999999999876 5556679999999999999999999998854322110000000000 0000111
Q ss_pred hHH--hhhccCCCCcccccchhhccChHHHHHHHHhhhccCCC---------------cccccccccccCCHHHHHHHHH
Q psy12195 93 NHY--SVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATSL---------------SIQCNMCSLVLDSKESLVTHIS 155 (254)
Q Consensus 93 ~h~--~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~---------------~~~C~~C~~~f~~~~~l~~h~~ 155 (254)
... ......+.-|.|..|++.|.....|+.|+..++..... -+-+..++..+.....-..+..
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl 422 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVL 422 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccccccccccccccccee
Confidence 110 01113345799999999999999999998886633221 1224444443332222111110
Q ss_pred h-cC-CcccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHHHHhhcC
Q psy12195 156 Q-TH-TLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHND 215 (254)
Q Consensus 156 ~-~~-~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 215 (254)
. .. ..-..++.++..+.++..--.+.+.-..+..|.|.+|.-+|.+...|.+|+.+.|..
T Consensus 423 ~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 423 YVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred eeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 0 00 122456778877766655444545455667899999999999999999999877755
No 22
>PHA00732 hypothetical protein
Probab=98.57 E-value=5.2e-08 Score=59.71 Aligned_cols=55 Identities=29% Similarity=0.612 Sum_probs=36.2
Q ss_pred ccccCCCcccCCChHHHHHHHhH-hhCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccC
Q psy12195 161 MFTCRRCPSTFLNSATLSKHVKM-EHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQC 222 (254)
Q Consensus 161 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C 222 (254)
||.|+.|++.|.+...|..|++. |. ++.|+.||++|. .|..|.. ...+-.....|
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~-~~~~~~~~~~~ 56 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFY-SQYDIEHLIYC 56 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhc-ccCCccceEEe
Confidence 56788888888888888888774 54 357888888886 4677764 33332333333
No 23
>PHA00616 hypothetical protein
Probab=98.49 E-value=5.3e-08 Score=51.53 Aligned_cols=25 Identities=28% Similarity=0.635 Sum_probs=13.3
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhh
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAH 213 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h 213 (254)
||+|+.||+.|.+++.|.+|++.+|
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h 25 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH 25 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc
Confidence 4555555555555555555555333
No 24
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.41 E-value=1.5e-07 Score=44.74 Aligned_cols=26 Identities=38% Similarity=0.829 Sum_probs=22.4
Q ss_pred HHHHHHHHhhcCCCCCccCcchhhccCC
Q psy12195 204 KLKRHKFQAHNDSVHQIQCPYCITDFSE 231 (254)
Q Consensus 204 ~l~~H~~~~h~~~~~~~~C~~C~~~f~~ 231 (254)
+|.+|++ .|.+ +++|.|+.|++.|.+
T Consensus 1 ~l~~H~~-~H~~-~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMR-THTG-EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHH-HHSS-SSSEEESSSSEEESS
T ss_pred CHHHHhh-hcCC-CCCCCCCCCcCeeCc
Confidence 5889999 6888 789999999999974
No 25
>PHA00732 hypothetical protein
Probab=98.36 E-value=3.1e-07 Score=56.35 Aligned_cols=44 Identities=30% Similarity=0.575 Sum_probs=32.8
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHHHHHH
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~ 239 (254)
||.|++||+.|.+.+.|..|++.+|.+ +.|+.|++.|+ .|..|+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~----~~C~~CgKsF~---~l~~H~ 44 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL----TKCPVCNKSYR---RLNQHF 44 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC----CccCCCCCEeC---Chhhhh
Confidence 577888888888888888887644433 46888888887 466776
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.17 E-value=7.2e-07 Score=41.14 Aligned_cols=21 Identities=38% Similarity=0.801 Sum_probs=13.0
Q ss_pred ccCcchhhccCCchHHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHIV 240 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~~ 240 (254)
|+|+.|++.|++.++|..|++
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 456666666666666666663
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.15 E-value=4e-06 Score=47.73 Aligned_cols=37 Identities=27% Similarity=0.562 Sum_probs=14.4
Q ss_pred cccccchhhccChHHHHHHHHhhhccCCCccccccccc
Q psy12195 105 MSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSL 142 (254)
Q Consensus 105 ~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~~ 142 (254)
|.||.|++. .+...|..|....|..+...+.|++|..
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchh
Confidence 334444442 2233344444443433333344444443
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.95 E-value=4.8e-06 Score=38.70 Aligned_cols=22 Identities=36% Similarity=0.765 Sum_probs=10.9
Q ss_pred ccCcchhhccCCchHHHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHIVS 241 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~~~ 241 (254)
|.|++|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 3455555555555555555533
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.94 E-value=6.3e-06 Score=37.91 Aligned_cols=22 Identities=41% Similarity=0.786 Sum_probs=15.5
Q ss_pred ccCCCCcccCCCHHHHHHHHHH
Q psy12195 190 YQCNECPESFERLNKLKRHKFQ 211 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~~ 211 (254)
|.|++|++.|.+...|.+|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5677777777777777777664
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.94 E-value=1.8e-06 Score=65.44 Aligned_cols=54 Identities=24% Similarity=0.552 Sum_probs=45.6
Q ss_pred CCCcccCCC--CcccCCCHHHHHHHHHHhhcC-----------------CCCCccCcchhhccCCchHHHHHH
Q psy12195 186 NSKSYQCNE--CPESFERLNKLKRHKFQAHND-----------------SVHQIQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 186 ~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~-----------------~~~~~~C~~C~~~f~~~~~l~~H~ 239 (254)
+++||+||+ |.|++.....|+.|+.-.|.. +.+||+|++|+|.+.....|.-|.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 358999987 999999999999999754411 248999999999999999998885
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=97.85 E-value=1.5e-05 Score=36.96 Aligned_cols=24 Identities=33% Similarity=0.708 Sum_probs=15.9
Q ss_pred ccCCCCcccCCCHHHHHHHHHHhh
Q psy12195 190 YQCNECPESFERLNKLKRHKFQAH 213 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~~~h 213 (254)
|.|++|++.|.+...|..|+..+|
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 567777777777777777776543
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.84 E-value=9.6e-06 Score=52.86 Aligned_cols=23 Identities=26% Similarity=0.658 Sum_probs=0.0
Q ss_pred ccccccccCCHHHHHHHHHhcCC
Q psy12195 137 CNMCSLVLDSKESLVTHISQTHT 159 (254)
Q Consensus 137 C~~C~~~f~~~~~l~~h~~~~~~ 159 (254)
|..|+..|.+...|..|+...|.
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~ 24 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHG 24 (100)
T ss_dssp -----------------------
T ss_pred ccccccccccccccccccccccc
Confidence 55566666555555555544444
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.84 E-value=1.1e-05 Score=52.55 Aligned_cols=21 Identities=33% Similarity=0.890 Sum_probs=9.5
Q ss_pred ccCcchhhccCCchHHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHIV 240 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~~ 240 (254)
+.|..|++.|.+...|..||+
T Consensus 51 ~~C~~C~~~f~s~~~l~~Hm~ 71 (100)
T PF12756_consen 51 FRCPYCNKTFRSREALQEHMR 71 (100)
T ss_dssp EEBSSSS-EESSHHHHHHHHH
T ss_pred CCCCccCCCCcCHHHHHHHHc
Confidence 444444444444444444443
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.66 E-value=2.2e-05 Score=37.61 Aligned_cols=20 Identities=30% Similarity=0.506 Sum_probs=9.0
Q ss_pred ccCcchhhccCCchHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~ 239 (254)
|+|..|++.|.+..+|..|+
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~ 21 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHK 21 (27)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCccCCccCChhHHHHHh
Confidence 34444444444444444444
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.65 E-value=9.5e-06 Score=61.69 Aligned_cols=52 Identities=27% Similarity=0.597 Sum_probs=44.5
Q ss_pred CcccccCC--CcccCCChHHHHHHHhH-hh------------------CCCcccCCCCcccCCCHHHHHHHHH
Q psy12195 159 TLMFTCRR--CPSTFLNSATLSKHVKM-EH------------------NSKSYQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 159 ~~~~~C~~--C~~~f~~~~~l~~H~~~-h~------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 210 (254)
++||+|++ |.+.+.+...|+-|+.- |. .+|||.|++|+|++.....|+.|+.
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 48899976 88999999999999875 31 2489999999999999999999975
No 36
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.63 E-value=1.5e-05 Score=38.24 Aligned_cols=25 Identities=32% Similarity=0.797 Sum_probs=22.4
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhh
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAH 213 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h 213 (254)
||.|..|++.|.+...|..|++.++
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 6899999999999999999997543
No 37
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.30 E-value=8e-05 Score=40.38 Aligned_cols=30 Identities=27% Similarity=0.514 Sum_probs=17.5
Q ss_pred CCCCccCcchhhccCCchHHHHHHHHhcCC
Q psy12195 216 SVHQIQCPYCITDFSEDKNLIQHIVSVHLG 245 (254)
Q Consensus 216 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 245 (254)
++.+-.||+|+..+.+..+|.+|+++.|..
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 356667777777777777777777666643
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.29 E-value=0.00023 Score=33.43 Aligned_cols=20 Identities=30% Similarity=0.685 Sum_probs=11.8
Q ss_pred ccCcchhhccCCchHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~ 239 (254)
|+|+.|++.|.+.+.|..|+
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~ 20 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHM 20 (26)
T ss_pred CCCCCCcchhCCHHHHHHHH
Confidence 34566666666666666665
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.28 E-value=0.00015 Score=33.55 Aligned_cols=23 Identities=35% Similarity=0.648 Sum_probs=13.4
Q ss_pred ccCcchhhccCCchHHHHHHHHhc
Q psy12195 220 IQCPYCITDFSEDKNLIQHIVSVH 243 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~~~~h 243 (254)
|+|+.|+...+ .++|.+|++..|
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 45677776666 667777765544
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.89 E-value=0.0012 Score=30.77 Aligned_cols=21 Identities=38% Similarity=0.778 Sum_probs=13.2
Q ss_pred ccCCCCcccCCCHHHHHHHHH
Q psy12195 190 YQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~ 210 (254)
|.|+.|+++|.....|..|++
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 456666666666666666665
No 41
>PRK04860 hypothetical protein; Provisional
Probab=96.84 E-value=0.00078 Score=47.48 Aligned_cols=38 Identities=21% Similarity=0.672 Sum_probs=28.6
Q ss_pred cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCC
Q psy12195 160 LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFER 201 (254)
Q Consensus 160 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 201 (254)
-+|.|. |+. ....+..|.++++++++|.|..|+..|..
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 367887 876 55677788888888888888888877754
No 42
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.83 E-value=0.00043 Score=32.33 Aligned_cols=20 Identities=35% Similarity=0.760 Sum_probs=14.3
Q ss_pred ccCcchhhccCCchHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~ 239 (254)
|.|.+|++.|++...|..|+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHL 20 (25)
T ss_dssp EEETTTTEEESSHHHHHHHH
T ss_pred CCCCCCCCCcCCHHHHHHHH
Confidence 45777777777777777776
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.73 E-value=0.0017 Score=29.91 Aligned_cols=23 Identities=39% Similarity=0.703 Sum_probs=13.6
Q ss_pred ccCCCCcccCCCHHHHHHHHHHhh
Q psy12195 190 YQCNECPESFERLNKLKRHKFQAH 213 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~~~h 213 (254)
|+|+.|+.... ...|.+|++.+|
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 56667776666 666777766554
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.63 E-value=0.0013 Score=30.62 Aligned_cols=18 Identities=39% Similarity=0.837 Sum_probs=7.7
Q ss_pred CCCCcccCCCHHHHHHHH
Q psy12195 192 CNECPESFERLNKLKRHK 209 (254)
Q Consensus 192 C~~C~~~f~~~~~l~~H~ 209 (254)
|.+|++.|.+...|..|+
T Consensus 3 C~~C~~~f~s~~~~~~H~ 20 (25)
T PF12874_consen 3 CDICNKSFSSENSLRQHL 20 (25)
T ss_dssp ETTTTEEESSHHHHHHHH
T ss_pred CCCCCCCcCCHHHHHHHH
Confidence 444444444444444443
No 45
>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=96.58 E-value=0.0025 Score=34.69 Aligned_cols=30 Identities=20% Similarity=0.355 Sum_probs=17.4
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHHhhcC
Q psy12195 186 NSKSYQCNECPESFERLNKLKRHKFQAHND 215 (254)
Q Consensus 186 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 215 (254)
.+.|-.||+|+..+++..+|.+|+...|..
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 456777777777777777777777666644
No 46
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.55 E-value=0.00039 Score=33.19 Aligned_cols=20 Identities=35% Similarity=0.660 Sum_probs=14.1
Q ss_pred ccCcchhhccCCchHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~ 239 (254)
|.|..|++.|++...|..|+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~ 21 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHM 21 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCT
T ss_pred CCcccCCCCcCCHHHHHHHH
Confidence 56777777777777776666
No 47
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.21 E-value=0.0034 Score=29.86 Aligned_cols=22 Identities=23% Similarity=0.649 Sum_probs=20.1
Q ss_pred eecccccccCCCHHHHHhhhcc
Q psy12195 16 IRCETCTRNYESLESLTTHLSF 37 (254)
Q Consensus 16 ~~C~~C~~~f~~~~~l~~H~~~ 37 (254)
|-|..|++.|.+...|..|+++
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 6799999999999999999876
No 48
>KOG2482|consensus
Probab=96.12 E-value=0.021 Score=44.53 Aligned_cols=147 Identities=15% Similarity=0.307 Sum_probs=84.3
Q ss_pred HHHhHHhhhccCCCCcccccchhhcc-ChHHHHHHHHhhhccCC--------------------CcccccccccccCCHH
Q psy12195 90 TMLNHYSVKHYMDINMSCVPCDVLFH-NKATLYKHLYLEHKATS--------------------LSIQCNMCSLVLDSKE 148 (254)
Q Consensus 90 ~l~~h~~~~h~~~~~~~C~~C~~~f~-~~~~l~~H~~~~~~~~~--------------------~~~~C~~C~~~f~~~~ 148 (254)
.|..++...-......+|-.|...+. .++.+..|+-..|+-.- ..+.|.+|.+.|.++.
T Consensus 130 aLeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkn 209 (423)
T KOG2482|consen 130 ALEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKN 209 (423)
T ss_pred HHHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcH
Confidence 34455433333445567877866543 45666667654443211 1356888888888888
Q ss_pred HHHHHHHhcCCc---c--------ccc--CCCcccCCChHHHHHHH--hHh--h-------------CCCc--ccCCCCc
Q psy12195 149 SLVTHISQTHTL---M--------FTC--RRCPSTFLNSATLSKHV--KME--H-------------NSKS--YQCNECP 196 (254)
Q Consensus 149 ~l~~h~~~~~~~---~--------~~C--~~C~~~f~~~~~l~~H~--~~h--~-------------~~~~--~~C~~C~ 196 (254)
.|+.||+..+-+ | |.= ..=|++-. ....+- .+- . +..+ ..|-.|.
T Consensus 210 tLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t---~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~ 286 (423)
T KOG2482|consen 210 TLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWT---IVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCT 286 (423)
T ss_pred HHHHHHHhccCcccCCCccccceEEEEeHhhcCCccc---hhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeec
Confidence 888887633211 1 000 00011110 111111 110 0 0112 5888898
Q ss_pred ccCCCHHHHHHHHHHhhcCC-------------------------CCCccCcchhhccCCchHHHHHH
Q psy12195 197 ESFERLNKLKRHKFQAHNDS-------------------------VHQIQCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 197 ~~f~~~~~l~~H~~~~h~~~-------------------------~~~~~C~~C~~~f~~~~~l~~H~ 239 (254)
...-+...|..|++.+|.-. .+.-.|-.|..+|.....|..||
T Consensus 287 ~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm 354 (423)
T KOG2482|consen 287 NFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHM 354 (423)
T ss_pred cchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhc
Confidence 88888888999988777421 12235888999999999999998
No 49
>PRK04860 hypothetical protein; Provisional
Probab=95.66 E-value=0.0049 Score=43.53 Aligned_cols=40 Identities=20% Similarity=0.416 Sum_probs=32.0
Q ss_pred CcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCch
Q psy12195 188 KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDK 233 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~ 233 (254)
-+|.|. |+. ...++.+|.+ .+.+ .++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~r-i~~g-~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNR-VVRG-EAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHH-HhcC-CccEECCCCCceeEEec
Confidence 479998 987 6778889988 5666 67899999998876543
No 50
>KOG1146|consensus
Probab=95.65 E-value=0.0029 Score=57.66 Aligned_cols=61 Identities=21% Similarity=0.347 Sum_probs=43.9
Q ss_pred CcccCCCCcccCCCHHHHHHHHHHh-hc----------------------------------------CCCCCccCcchh
Q psy12195 188 KSYQCNECPESFERLNKLKRHKFQA-HN----------------------------------------DSVHQIQCPYCI 226 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~~~-h~----------------------------------------~~~~~~~C~~C~ 226 (254)
++|.|..|..++..+.+|..|+... |. .....|.|.+|+
T Consensus 517 ~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~ 596 (1406)
T KOG1146|consen 517 KPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCS 596 (1406)
T ss_pred CcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhc
Confidence 5788888888888888888886421 10 001248899999
Q ss_pred hccCCchHHHHHHHHhcCCCCC
Q psy12195 227 TDFSEDKNLIQHIVSVHLGKEG 248 (254)
Q Consensus 227 ~~f~~~~~l~~H~~~~h~~~~~ 248 (254)
...+-..+|..||...+....|
T Consensus 597 yetniarnlrihmtss~~s~~p 618 (1406)
T KOG1146|consen 597 YETNIARNLRIHMTASPSSSPP 618 (1406)
T ss_pred chhhhhhccccccccCCCCCCh
Confidence 9999999999999776655443
No 51
>KOG2231|consensus
Probab=95.47 E-value=0.057 Score=46.66 Aligned_cols=69 Identities=25% Similarity=0.576 Sum_probs=39.7
Q ss_pred cccCCCcccCCChHHHHHHHhHhhCCCcccCCCC------cccCCCHHHHHHHHHHhhcCCCCCccCc--chh-hccCCc
Q psy12195 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNEC------PESFERLNKLKRHKFQAHNDSVHQIQCP--YCI-TDFSED 232 (254)
Q Consensus 162 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~~h~~~~~~~~C~--~C~-~~f~~~ 232 (254)
-.|..|...|.....|..|++.+. |.|-.| +.-|.....|..|.+..| |.|. .|. +.|...
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H------flCE~~~C~~~~f~~~ 252 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH------FLCEEEFCRTKKFYVA 252 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC------ccccccccccceeeeh
Confidence 356777777777777777776533 233333 455666677777777444 4455 453 344444
Q ss_pred hHHHHHHH
Q psy12195 233 KNLIQHIV 240 (254)
Q Consensus 233 ~~l~~H~~ 240 (254)
-.+.++++
T Consensus 253 ~~~ei~lk 260 (669)
T KOG2231|consen 253 FELEIELK 260 (669)
T ss_pred hHHHHHHH
Confidence 44555553
No 52
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.40 E-value=0.013 Score=27.22 Aligned_cols=18 Identities=33% Similarity=0.733 Sum_probs=9.3
Q ss_pred cCcchhhccCCchHHHHHH
Q psy12195 221 QCPYCITDFSEDKNLIQHI 239 (254)
Q Consensus 221 ~C~~C~~~f~~~~~l~~H~ 239 (254)
.|+.|++.| ..+.|..|+
T Consensus 4 ~C~~CgR~F-~~~~l~~H~ 21 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHE 21 (25)
T ss_pred cCCCCCCEE-CHHHHHHHH
Confidence 455555555 444455554
No 53
>KOG2231|consensus
Probab=95.06 E-value=0.14 Score=44.40 Aligned_cols=19 Identities=21% Similarity=0.590 Sum_probs=9.2
Q ss_pred ccccccccCCHHHHHHHHH
Q psy12195 137 CNMCSLVLDSKESLVTHIS 155 (254)
Q Consensus 137 C~~C~~~f~~~~~l~~h~~ 155 (254)
|..|...|.....|..|++
T Consensus 185 C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLR 203 (669)
T ss_pred chhhhhhhccHHHHHHhhc
Confidence 4444444444444444444
No 54
>KOG2482|consensus
Probab=94.48 E-value=0.13 Score=40.41 Aligned_cols=22 Identities=32% Similarity=0.448 Sum_probs=18.5
Q ss_pred cccCCCCcccCCCHHHHHHHHH
Q psy12195 189 SYQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~ 210 (254)
.-.|-.|.-.|.....|..|+.
T Consensus 334 ~~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 334 KSRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred ccccccccccccCcchhhhhcc
Confidence 4577888899999999999986
No 55
>KOG1146|consensus
Probab=94.34 E-value=0.018 Score=52.87 Aligned_cols=76 Identities=17% Similarity=0.288 Sum_probs=55.5
Q ss_pred CCcccCCChHHHHHHHhH-hhCCCcccCCCCcccCCCHHHHHHHHHHhhcC-----------------------CCCCcc
Q psy12195 166 RCPSTFLNSATLSKHVKM-EHNSKSYQCNECPESFERLNKLKRHKFQAHND-----------------------SVHQIQ 221 (254)
Q Consensus 166 ~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~-----------------------~~~~~~ 221 (254)
.++..+.....+..|+.. +.-.+-|.|+.|+-.|.....|..|++..|.. ..++|.
T Consensus 441 ~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~ 520 (1406)
T KOG1146|consen 441 KAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYP 520 (1406)
T ss_pred chhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCccc
Confidence 344444444444444433 45567899999999999999999999875532 136799
Q ss_pred CcchhhccCCchHHHHHHHH
Q psy12195 222 CPYCITDFSEDKNLIQHIVS 241 (254)
Q Consensus 222 C~~C~~~f~~~~~l~~H~~~ 241 (254)
|..|..+++++-+|-+||..
T Consensus 521 C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 521 CRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ceeeeeeeecchHHHHHHHH
Confidence 99999999999999999854
No 56
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=94.14 E-value=0.027 Score=31.24 Aligned_cols=30 Identities=27% Similarity=0.491 Sum_probs=24.0
Q ss_pred hCCCcccCCCCcccCCCHHHHHHHHHHhhc
Q psy12195 185 HNSKSYQCNECPESFERLNKLKRHKFQAHN 214 (254)
Q Consensus 185 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 214 (254)
.||..+.||-||..|+......+|+...|.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 467778888888888888888888876664
No 57
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.13 E-value=0.032 Score=28.22 Aligned_cols=23 Identities=17% Similarity=0.537 Sum_probs=18.5
Q ss_pred CccCcchhhccCCchHHHHHHHH
Q psy12195 219 QIQCPYCITDFSEDKNLIQHIVS 241 (254)
Q Consensus 219 ~~~C~~C~~~f~~~~~l~~H~~~ 241 (254)
+|.|.+|++.|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788999888888888888743
No 58
>KOG4173|consensus
Probab=94.09 E-value=0.013 Score=42.16 Aligned_cols=87 Identities=23% Similarity=0.490 Sum_probs=59.9
Q ss_pred eeeeeccc--ccccCCCHHHHHhhhcccccCcceeecCcCCcccCCCCccc-hhhhhccC------CCCCCcccc--ccc
Q psy12195 13 VVIIRCET--CTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPRDEILP-HLSIQHCQ------GTTPSIYEC--NQC 81 (254)
Q Consensus 13 ~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~-~~~~~h~~------~~~~~~~~C--~~C 81 (254)
...|.|++ |-..|...++...|+.+.|.+ .|..|.+.|+....|. |+...|-. .-+...|.| ..|
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgC 152 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGC 152 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhh
Confidence 34566866 778899999999998875654 4999999999999999 77776610 012344556 456
Q ss_pred ccccccHHHHHhHHhhhccCCC
Q psy12195 82 KEKTNDMTTMLNHYSVKHYMDI 103 (254)
Q Consensus 82 ~~~~~~~~~l~~h~~~~h~~~~ 103 (254)
+..|.+...-.+|++..|.-..
T Consensus 153 t~KFkT~r~RkdH~I~~Hk~Pa 174 (253)
T KOG4173|consen 153 TEKFKTSRDRKDHMIRMHKYPA 174 (253)
T ss_pred hhhhhhhhhhhhHHHHhccCCc
Confidence 6666666666666655554433
No 59
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.02 E-value=0.049 Score=27.51 Aligned_cols=22 Identities=18% Similarity=0.419 Sum_probs=17.6
Q ss_pred cccCCCCcccCCCHHHHHHHHH
Q psy12195 189 SYQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~ 210 (254)
+|.|.+|++.|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5778888888888888888874
No 60
>KOG4173|consensus
Probab=93.66 E-value=0.046 Score=39.49 Aligned_cols=79 Identities=25% Similarity=0.512 Sum_probs=45.7
Q ss_pred ccccc--cccccCCHHHHHHHHHhcCCcccccCCCcccCCChHHHHHHHhHh----------hCCCcccCC--CCcccCC
Q psy12195 135 IQCNM--CSLVLDSKESLVTHISQTHTLMFTCRRCPSTFLNSATLSKHVKME----------HNSKSYQCN--ECPESFE 200 (254)
Q Consensus 135 ~~C~~--C~~~f~~~~~l~~h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h----------~~~~~~~C~--~C~~~f~ 200 (254)
|.|+. |-..|.+..+...|-...|+. .|+.|.+.|.....|..|+... .|...|+|- .|+..|.
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~--sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFk 157 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN--SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFK 157 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc--hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhh
Confidence 44544 444555444444443323332 5666666666666666665542 245567774 4888888
Q ss_pred CHHHHHHHHHHhhcC
Q psy12195 201 RLNKLKRHKFQAHND 215 (254)
Q Consensus 201 ~~~~l~~H~~~~h~~ 215 (254)
+...-.+|+-..|.-
T Consensus 158 T~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 158 TSRDRKDHMIRMHKY 172 (253)
T ss_pred hhhhhhhHHHHhccC
Confidence 777777777666644
No 61
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=93.54 E-value=0.04 Score=27.54 Aligned_cols=9 Identities=22% Similarity=0.781 Sum_probs=4.0
Q ss_pred ccCCCcccC
Q psy12195 163 TCRRCPSTF 171 (254)
Q Consensus 163 ~C~~C~~~f 171 (254)
.|..||..+
T Consensus 3 ~C~~CGy~y 11 (33)
T cd00350 3 VCPVCGYIY 11 (33)
T ss_pred ECCCCCCEE
Confidence 444444443
No 62
>PF12907 zf-met2: Zinc-binding
Probab=93.30 E-value=0.053 Score=28.31 Aligned_cols=32 Identities=22% Similarity=0.362 Sum_probs=24.1
Q ss_pred ccCcchhhcc---CCchHHHHHHHHhcCCCCCCCC
Q psy12195 220 IQCPYCITDF---SEDKNLIQHIVSVHLGKEGTAP 251 (254)
Q Consensus 220 ~~C~~C~~~f---~~~~~l~~H~~~~h~~~~~~~c 251 (254)
++|.+|...| +....|..|....|++..+-.|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 6799998544 4556799999889988766555
No 63
>KOG2785|consensus
Probab=93.14 E-value=0.52 Score=37.75 Aligned_cols=55 Identities=20% Similarity=0.326 Sum_probs=44.5
Q ss_pred CcccCCCCcccCCCHHHHHHHHHHhhcCC---------------------CCCccCcchh---hccCCchHHHHHHHHh
Q psy12195 188 KSYQCNECPESFERLNKLKRHKFQAHNDS---------------------VHQIQCPYCI---TDFSEDKNLIQHIVSV 242 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~---------------------~~~~~C~~C~---~~f~~~~~l~~H~~~~ 242 (254)
.|-.|-.|++.+.+.-.-..||...|+-= ...|.|-.|. +.|.+......||...
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 35789999999999999999998777530 2347788888 8999999999998543
No 64
>KOG2893|consensus
Probab=92.15 E-value=0.028 Score=41.55 Aligned_cols=48 Identities=25% Similarity=0.394 Sum_probs=26.4
Q ss_pred eecCcCCcccCCCCccchhhhhccCCCCCCcccccccccccccHHHHHhHHhhhc
Q psy12195 45 MKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKTNDMTTMLNHYSVKH 99 (254)
Q Consensus 45 ~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~~h 99 (254)
-+|.+|++.|..+..|. +| ...+.|+|.+|.+.+.+--.|..|-+.+|
T Consensus 11 pwcwycnrefddekili----qh---qkakhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILI----QH---QKAKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred ceeeecccccchhhhhh----hh---hhhccceeeeehhhhccCCCceeehhhhh
Confidence 36777777776665433 23 33456677777665554444555543334
No 65
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.12 E-value=0.064 Score=29.78 Aligned_cols=30 Identities=17% Similarity=0.409 Sum_probs=25.5
Q ss_pred hcceeeeecccccccCCCHHHHHhhhcccc
Q psy12195 10 EHKVVIIRCETCTRNYESLESLTTHLSFKH 39 (254)
Q Consensus 10 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 39 (254)
..|+.-++||-|+..|+..-+..+|....|
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 457888999999999999999989987644
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=91.27 E-value=0.46 Score=31.35 Aligned_cols=25 Identities=24% Similarity=0.379 Sum_probs=22.1
Q ss_pred CccC----cchhhccCCchHHHHHHHHhc
Q psy12195 219 QIQC----PYCITDFSEDKNLIQHIVSVH 243 (254)
Q Consensus 219 ~~~C----~~C~~~f~~~~~l~~H~~~~h 243 (254)
.|.| +.|+..+.+...|..|++..|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 3889 999999999999999997766
No 67
>KOG2785|consensus
Probab=91.19 E-value=0.47 Score=37.98 Aligned_cols=24 Identities=17% Similarity=0.483 Sum_probs=18.9
Q ss_pred eeecccccccCCCHHHHHhhhccc
Q psy12195 15 IIRCETCTRNYESLESLTTHLSFK 38 (254)
Q Consensus 15 ~~~C~~C~~~f~~~~~l~~H~~~~ 38 (254)
.|.|..|...|.+...-+.|+.+.
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSd 26 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSD 26 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhh
Confidence 478888888888887777787764
No 68
>KOG2893|consensus
Probab=91.12 E-value=0.07 Score=39.51 Aligned_cols=41 Identities=22% Similarity=0.480 Sum_probs=20.1
Q ss_pred CCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchHHHHH
Q psy12195 192 CNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQH 238 (254)
Q Consensus 192 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 238 (254)
|=+|++.|.+...|..|++ .+-|+|-.|-|..-+...|.+|
T Consensus 13 cwycnrefddekiliqhqk------akhfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK------AKHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhh------hccceeeeehhhhccCCCceee
Confidence 4445555555555555544 3345555555444444444444
No 69
>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=90.94 E-value=0.19 Score=37.87 Aligned_cols=81 Identities=17% Similarity=0.326 Sum_probs=45.7
Q ss_pred hcceeeeecccccccCCCHHHHHhhhccccc-CcceeecCcCCcccCCCCc-----c-c-hhhhhccCCCCCCccccccc
Q psy12195 10 EHKVVIIRCETCTRNYESLESLTTHLSFKHS-NQFLMKCTNCNVLVPRDEI-----L-P-HLSIQHCQGTTPSIYECNQC 81 (254)
Q Consensus 10 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~-~~~~~~C~~C~~~~~~~~~-----l-~-~~~~~h~~~~~~~~~~C~~C 81 (254)
.||-++|+|..|+...-....| .|+.+... ....|+|..|++.....-. + . |.++.-......++++|+.|
T Consensus 137 ~hGGrif~CsfC~~flCEDDQF-EHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKC 215 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCEDDQF-EHQASCQVLESETFKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKC 215 (314)
T ss_pred cCCCeEEEeecCCCeeeccchh-hhhhhhhhhhcccccccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCC
Confidence 4678899999998777666666 55554222 2346888888765443311 1 1 22222222234466777777
Q ss_pred ccccccHHHH
Q psy12195 82 KEKTNDMTTM 91 (254)
Q Consensus 82 ~~~~~~~~~l 91 (254)
+........|
T Consensus 216 g~et~eTkdL 225 (314)
T PF06524_consen 216 GYETQETKDL 225 (314)
T ss_pred CCcccccccc
Confidence 7655544444
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.53 E-value=0.51 Score=37.22 Aligned_cols=124 Identities=21% Similarity=0.363 Sum_probs=66.7
Q ss_pred chhhccChHHHHHHHHhhhccCCCcccccccc---ccc------CCHHHHHHHHHhcCC-----cccccCCCcccCCChH
Q psy12195 110 CDVLFHNKATLYKHLYLEHKATSLSIQCNMCS---LVL------DSKESLVTHISQTHT-----LMFTCRRCPSTFLNSA 175 (254)
Q Consensus 110 C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~---~~f------~~~~~l~~h~~~~~~-----~~~~C~~C~~~f~~~~ 175 (254)
|+........|..|.+..|. .+.|.+|. +.| .+...|..|...-.+ ..-.|..|...|-+..
T Consensus 159 c~~~C~~~k~lk~H~K~~H~----~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDD 234 (493)
T COG5236 159 CHRRCGSLKELKKHYKAQHG----FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDD 234 (493)
T ss_pred hhhhhhhHHHHHHHHHhhcC----cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccceecChH
Confidence 44444445666677665444 34455553 222 223455555431111 2234777777777777
Q ss_pred HHHHHHhHhhCCCcccCCC----CcccCCCHHHHHHHHHHhhcCCCCCccCcc--hh----hccCCchHHHHHHHHhcC
Q psy12195 176 TLSKHVKMEHNSKSYQCNE----CPESFERLNKLKRHKFQAHNDSVHQIQCPY--CI----TDFSEDKNLIQHIVSVHL 244 (254)
Q Consensus 176 ~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~--C~----~~f~~~~~l~~H~~~~h~ 244 (254)
.|..|++..+ ++-|.|.. =..-|.+...|-+|.+.. -|.|.+ |. ..|...-.|+.|+-+.|.
T Consensus 235 EL~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~~~------hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 235 ELRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFRNA------HYCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred HHHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhhcC------ceEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 7777777533 22233321 123466667777776522 354533 32 357777778888766664
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.30 E-value=0.32 Score=38.30 Aligned_cols=103 Identities=26% Similarity=0.431 Sum_probs=69.6
Q ss_pred cccccc--cccccCCHHHHHHHHHhcCCcccccCCC---cccCC------ChHHHHHHHhHhhCC----CcccCCCCccc
Q psy12195 134 SIQCNM--CSLVLDSKESLVTHISQTHTLMFTCRRC---PSTFL------NSATLSKHVKMEHNS----KSYQCNECPES 198 (254)
Q Consensus 134 ~~~C~~--C~~~f~~~~~l~~h~~~~~~~~~~C~~C---~~~f~------~~~~l~~H~~~h~~~----~~~~C~~C~~~ 198 (254)
.|.|+. |..+......|..|....|.+ +.|.+| .+.|. +...|..|...-..+ .--.|..|...
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~-~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF-VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc-EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 577875 666666677888898755553 445554 34444 345566665543222 12478999999
Q ss_pred CCCHHHHHHHHHHhhcCCCCCccCcchhhc-------cCCchHHHHHHHHhc
Q psy12195 199 FERLNKLKRHKFQAHNDSVHQIQCPYCITD-------FSEDKNLIQHIVSVH 243 (254)
Q Consensus 199 f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~-------f~~~~~l~~H~~~~h 243 (254)
|-+...|.+|.+..|.. |-.|++. |.+-..|..|.+..|
T Consensus 230 FYdDDEL~~HcR~~HE~------ChICD~v~p~~~QYFK~Y~~Le~HF~~~h 275 (493)
T COG5236 230 FYDDDELRRHCRLRHEA------CHICDMVGPIRYQYFKSYEDLEAHFRNAH 275 (493)
T ss_pred ecChHHHHHHHHhhhhh------hhhhhccCccchhhhhCHHHHHHHhhcCc
Confidence 99999999999977754 6666654 777888888875554
No 72
>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=89.80 E-value=0.36 Score=34.24 Aligned_cols=33 Identities=18% Similarity=0.362 Sum_probs=23.0
Q ss_pred hCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhc
Q psy12195 185 HNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITD 228 (254)
Q Consensus 185 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~ 228 (254)
.+...|.||.|+..|+..-.+. ..|.||.||..
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~-----------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME-----------LNFTCPRCGAM 137 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH-----------cCCcCCCCCCE
Confidence 4556788888888877666653 25888888754
No 73
>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=89.77 E-value=0.19 Score=25.26 Aligned_cols=25 Identities=24% Similarity=0.538 Sum_probs=15.9
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhh
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCIT 227 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~ 227 (254)
.|.|..||..+.. ...+-.||+|+.
T Consensus 2 ~~~C~~CG~i~~g--------------~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEG--------------EEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeEC--------------CcCCCcCcCCCC
Confidence 4678888864422 234567888875
No 74
>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=89.58 E-value=0.23 Score=32.60 Aligned_cols=14 Identities=43% Similarity=0.978 Sum_probs=7.0
Q ss_pred CccCcchhhccCCc
Q psy12195 219 QIQCPYCITDFSED 232 (254)
Q Consensus 219 ~~~C~~C~~~f~~~ 232 (254)
|..||.||..|.-.
T Consensus 26 PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 26 PIVCPKCGTEFPPE 39 (108)
T ss_pred CccCCCCCCccCcc
Confidence 44455555555443
No 75
>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=89.41 E-value=0.95 Score=29.83 Aligned_cols=25 Identities=20% Similarity=0.506 Sum_probs=23.1
Q ss_pred ccC----CCCcccCCCHHHHHHHHHHhhc
Q psy12195 190 YQC----NECPESFERLNKLKRHKFQAHN 214 (254)
Q Consensus 190 ~~C----~~C~~~f~~~~~l~~H~~~~h~ 214 (254)
|.| +.|+....+..++.+|++..|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999998774
No 76
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=89.02 E-value=0.42 Score=24.53 Aligned_cols=34 Identities=15% Similarity=0.497 Sum_probs=18.1
Q ss_pred eecccccccCCCHHHHHhhhcccccCcceeecCcCCcccC
Q psy12195 16 IRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVP 55 (254)
Q Consensus 16 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~ 55 (254)
..||.|+..|.-.++.. ..+...++|..|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~l------~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKL------PAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHc------ccCCcEEECCCCCcEee
Confidence 45777777776544321 11122466777765553
No 77
>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=89.00 E-value=0.32 Score=25.04 Aligned_cols=34 Identities=21% Similarity=0.536 Sum_probs=18.7
Q ss_pred eecccccccCCCHHHHHhhhcccccCcceeecCcCCcccC
Q psy12195 16 IRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVP 55 (254)
Q Consensus 16 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~ 55 (254)
+.||.|+..|.-..+... .....+.|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~------~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLG------ANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcC------CCCCEEECCCCCCEEE
Confidence 567777777765544311 1112466777766553
No 78
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=88.82 E-value=0.076 Score=44.26 Aligned_cols=48 Identities=25% Similarity=0.391 Sum_probs=37.4
Q ss_pred eeeeecccccccCCCHHHHHhhhcccccCcceeecCcCC--cccCCCCccc
Q psy12195 13 VVIIRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCN--VLVPRDEILP 61 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~--~~~~~~~~l~ 61 (254)
...+.|+.|...|........|.+. +..+++..|...+ ..+.....+.
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (467)
T COG5048 31 PRPDSCPNCTDSFSRLEHLTRHIRS-HTGEKPSQCSYSGCDKSFSRPLELS 80 (467)
T ss_pred Cchhhcccccccccccchhhhhccc-ccccCCccccccccccccCCcchhh
Confidence 5677899999999999999999998 9998888887754 3444444444
No 79
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=88.78 E-value=0.44 Score=24.29 Aligned_cols=33 Identities=21% Similarity=0.583 Sum_probs=16.8
Q ss_pred eecccccccCCCHHHHHhhhcccccCcceeecCcCCccc
Q psy12195 16 IRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLV 54 (254)
Q Consensus 16 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~ 54 (254)
..|+.|+..|.-.++... ..-..++|..|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~ip------~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIP------PKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHCC------CCCcEEECCCCCCEe
Confidence 456666666665544311 111245666666544
No 80
>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=88.52 E-value=0.27 Score=26.40 Aligned_cols=26 Identities=27% Similarity=0.551 Sum_probs=13.3
Q ss_pred CCccCcchhhccCC----chHHHHHHHHhc
Q psy12195 218 HQIQCPYCITDFSE----DKNLIQHIVSVH 243 (254)
Q Consensus 218 ~~~~C~~C~~~f~~----~~~l~~H~~~~h 243 (254)
...+|..|++.+.. .++|..|++..|
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 34556666665544 366677765544
No 81
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=88.40 E-value=0.35 Score=26.75 Aligned_cols=25 Identities=32% Similarity=0.636 Sum_probs=15.5
Q ss_pred ccCcchhhccCCc-----hHHHHHHHHhcC
Q psy12195 220 IQCPYCITDFSED-----KNLIQHIVSVHL 244 (254)
Q Consensus 220 ~~C~~C~~~f~~~-----~~l~~H~~~~h~ 244 (254)
-.|..|++.++.. ++|.+|++..|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 3577777665443 577777755554
No 82
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.10 E-value=0.77 Score=30.17 Aligned_cols=89 Identities=25% Similarity=0.398 Sum_probs=44.6
Q ss_pred CcccccccccccCCHHHHHHHHHhcCC---cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHH
Q psy12195 133 LSIQCNMCSLVLDSKESLVTHISQTHT---LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHK 209 (254)
Q Consensus 133 ~~~~C~~C~~~f~~~~~l~~h~~~~~~---~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 209 (254)
.|..|+.||.+..++..|.+.- .|- .+|. .- .+ -.......|--|...|........
T Consensus 14 LP~~CpiCgLtLVss~HLARSy--HHLfPl~~f~---------ev-~~------~~~~~~~~C~~C~~~f~~~~~~~~-- 73 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSY--HHLFPLKAFQ---------EI-PL------EEYNGSRFCFGCQGPFPKPPVSPF-- 73 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhh--hccCCCcccc---------cc-cc------cccCCCCcccCcCCCCCCcccccc--
Confidence 4678888888887777666442 221 1121 00 00 001112236666666654321110
Q ss_pred HHhhcCCCCCccCcchhhccCCchHHHHHHHHhcC
Q psy12195 210 FQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHL 244 (254)
Q Consensus 210 ~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 244 (254)
. . ......|+|+.|...|-..-++-.|- ..|.
T Consensus 74 ~-~-~~~~~~y~C~~C~~~FC~dCD~fiHe-~Lh~ 105 (112)
T TIGR00622 74 D-E-LKDSHRYVCAVCKNVFCVDCDVFVHE-SLHC 105 (112)
T ss_pred c-c-cccccceeCCCCCCccccccchhhhh-hccC
Confidence 0 0 01123577888887777777777775 4443
No 83
>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=87.83 E-value=0.35 Score=22.64 Aligned_cols=8 Identities=38% Similarity=1.070 Sum_probs=3.2
Q ss_pred CCCCcccC
Q psy12195 192 CNECPESF 199 (254)
Q Consensus 192 C~~C~~~f 199 (254)
|+.||..|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 44444333
No 84
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=87.72 E-value=0.48 Score=34.32 Aligned_cols=32 Identities=22% Similarity=0.456 Sum_probs=20.1
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhc
Q psy12195 186 NSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITD 228 (254)
Q Consensus 186 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~ 228 (254)
....|.||.|+..|+..-.+ ...|.||.||..
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~-----------~~~F~Cp~Cg~~ 145 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAM-----------EYGFRCPQCGEM 145 (178)
T ss_pred CCCEEECCCCCcEEeHHHHh-----------hcCCcCCCCCCC
Confidence 34567777777777655443 125778887754
No 85
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=87.18 E-value=0.92 Score=25.81 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=5.6
Q ss_pred Cccccccccc
Q psy12195 74 SIYECNQCKE 83 (254)
Q Consensus 74 ~~~~C~~C~~ 83 (254)
.+|.|+.||.
T Consensus 49 ~~Y~Cp~CGF 58 (61)
T COG2888 49 NPYRCPKCGF 58 (61)
T ss_pred CceECCCcCc
Confidence 4556666654
No 86
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=86.52 E-value=0.48 Score=31.08 Aligned_cols=15 Identities=20% Similarity=0.519 Sum_probs=7.7
Q ss_pred CcccCCCCcccCCCH
Q psy12195 188 KSYQCNECPESFERL 202 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~ 202 (254)
.|..||.||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 455555555555433
No 87
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=86.12 E-value=0.4 Score=39.90 Aligned_cols=53 Identities=26% Similarity=0.501 Sum_probs=36.7
Q ss_pred eeecccccccCCCHHHHHhhhcc-cccCc--ceeecC--cCCcccCCCCccchhhhhc
Q psy12195 15 IIRCETCTRNYESLESLTTHLSF-KHSNQ--FLMKCT--NCNVLVPRDEILPHLSIQH 67 (254)
Q Consensus 15 ~~~C~~C~~~f~~~~~l~~H~~~-~h~~~--~~~~C~--~C~~~~~~~~~l~~~~~~h 67 (254)
++.|..|...|.....+..|.+. .|..+ .++.|. .|++.|.....+..+...|
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~ 346 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLH 346 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccc
Confidence 56677777777777777777772 26666 677777 6777777777766554445
No 88
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=86.08 E-value=0.83 Score=31.98 Aligned_cols=16 Identities=25% Similarity=0.762 Sum_probs=9.7
Q ss_pred CCCcccCCCCcccCCC
Q psy12195 186 NSKSYQCNECPESFER 201 (254)
Q Consensus 186 ~~~~~~C~~C~~~f~~ 201 (254)
+...|.||.|+..|..
T Consensus 96 ~~~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 96 NNAYYKCPNCQSKYTF 111 (147)
T ss_pred CCcEEECcCCCCEeeH
Confidence 3445677777766653
No 89
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=85.83 E-value=0.46 Score=33.72 Aligned_cols=24 Identities=29% Similarity=0.648 Sum_probs=18.2
Q ss_pred CcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchh
Q psy12195 188 KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCI 226 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~ 226 (254)
+.|.|++||. .+.+ +.|-+||+|+
T Consensus 133 ~~~vC~vCGy--------------~~~g-e~P~~CPiCg 156 (166)
T COG1592 133 KVWVCPVCGY--------------THEG-EAPEVCPICG 156 (166)
T ss_pred CEEEcCCCCC--------------cccC-CCCCcCCCCC
Confidence 4689999985 3455 6788899998
No 90
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=84.87 E-value=0.58 Score=25.11 Aligned_cols=10 Identities=20% Similarity=0.730 Sum_probs=4.0
Q ss_pred cccCCCcccC
Q psy12195 162 FTCRRCPSTF 171 (254)
Q Consensus 162 ~~C~~C~~~f 171 (254)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 3344444433
No 91
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.76 E-value=1.7 Score=28.58 Aligned_cols=47 Identities=15% Similarity=0.204 Sum_probs=27.3
Q ss_pred cccccccccccHHHHHhHHhhhccCCCCcccccchhhccChHHHHHHHHh
Q psy12195 77 ECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYL 126 (254)
Q Consensus 77 ~C~~C~~~~~~~~~l~~h~~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 126 (254)
.|-.|...|........ ..-.....|.|+.|...|-..-++-.|...
T Consensus 57 ~C~~C~~~f~~~~~~~~---~~~~~~~~y~C~~C~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPF---DELKDSHRYVCAVCKNVFCVDCDVFVHESL 103 (112)
T ss_pred cccCcCCCCCCcccccc---cccccccceeCCCCCCccccccchhhhhhc
Confidence 36777766654321100 001234467788888888777777777654
No 92
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=84.50 E-value=0.098 Score=39.15 Aligned_cols=45 Identities=22% Similarity=0.356 Sum_probs=23.9
Q ss_pred CcccCCCCcccCCCHHHHHHHHHHh--hcC------CCCC-----ccCcchhhccCCc
Q psy12195 188 KSYQCNECPESFERLNKLKRHKFQA--HND------SVHQ-----IQCPYCITDFSED 232 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~~~--h~~------~~~~-----~~C~~C~~~f~~~ 232 (254)
+.+.||+|++.|....-+....+.. ..+ +..| ..||.||..|...
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 4567777777776653332222211 111 1222 4699999876644
No 93
>PHA00626 hypothetical protein
Probab=84.46 E-value=0.25 Score=27.59 Aligned_cols=12 Identities=25% Similarity=0.260 Sum_probs=5.6
Q ss_pred CccCcchhhccC
Q psy12195 219 QIQCPYCITDFS 230 (254)
Q Consensus 219 ~~~C~~C~~~f~ 230 (254)
.|+|+.|+..|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 344555544444
No 94
>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=84.01 E-value=1.2 Score=20.79 Aligned_cols=19 Identities=26% Similarity=0.363 Sum_probs=10.8
Q ss_pred cCCCCcccCCCHHHHHHHHH
Q psy12195 191 QCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 191 ~C~~C~~~f~~~~~l~~H~~ 210 (254)
.||+|++.+ ....+.+|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666666 4455555553
No 95
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=83.72 E-value=0.91 Score=24.56 Aligned_cols=12 Identities=33% Similarity=0.808 Sum_probs=5.5
Q ss_pred eeecccccccCC
Q psy12195 15 IIRCETCTRNYE 26 (254)
Q Consensus 15 ~~~C~~C~~~f~ 26 (254)
+|+|+.||..|.
T Consensus 3 ~y~C~~CG~~~~ 14 (46)
T PRK00398 3 EYKCARCGREVE 14 (46)
T ss_pred EEECCCCCCEEE
Confidence 344444444443
No 96
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=83.72 E-value=0.35 Score=36.23 Aligned_cols=19 Identities=16% Similarity=0.454 Sum_probs=12.1
Q ss_pred eeeeecccccccCCCHHHH
Q psy12195 13 VVIIRCETCTRNYESLESL 31 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l 31 (254)
++.+.||+|+..|.++.-.
T Consensus 3 ~k~~~CPvC~~~F~~~~vr 21 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVR 21 (214)
T ss_pred CCceECCCCCCeeeeeEEE
Confidence 3556777777777765433
No 97
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=82.75 E-value=0.63 Score=28.80 Aligned_cols=35 Identities=17% Similarity=0.291 Sum_probs=22.8
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCch
Q psy12195 187 SKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDK 233 (254)
Q Consensus 187 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~ 233 (254)
..+|.||.|++.- +.+ . +...+.|..|+..|+-.+
T Consensus 33 ~~~~~Cp~C~~~~--------VkR-~---a~GIW~C~kCg~~fAGga 67 (89)
T COG1997 33 RAKHVCPFCGRTT--------VKR-I---ATGIWKCRKCGAKFAGGA 67 (89)
T ss_pred hcCCcCCCCCCcc--------eee-e---ccCeEEcCCCCCeecccc
Confidence 4578888888641 111 1 244788999998887543
No 98
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=81.25 E-value=1.4 Score=30.84 Aligned_cols=17 Identities=29% Similarity=0.692 Sum_probs=9.4
Q ss_pred eeeeecccccccCCCHH
Q psy12195 13 VVIIRCETCTRNYESLE 29 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~ 29 (254)
...|.||.|+..|....
T Consensus 97 ~~~Y~Cp~C~~~y~~~e 113 (147)
T smart00531 97 NAYYKCPNCQSKYTFLE 113 (147)
T ss_pred CcEEECcCCCCEeeHHH
Confidence 44566666666665433
No 99
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=80.26 E-value=0.32 Score=34.21 Aligned_cols=13 Identities=23% Similarity=0.478 Sum_probs=8.1
Q ss_pred cccCCCcccCCCh
Q psy12195 162 FTCRRCPSTFLNS 174 (254)
Q Consensus 162 ~~C~~C~~~f~~~ 174 (254)
++|+.||..|...
T Consensus 29 ~~c~~c~~~f~~~ 41 (154)
T PRK00464 29 RECLACGKRFTTF 41 (154)
T ss_pred eeccccCCcceEe
Confidence 6666666666543
No 100
>KOG2186|consensus
Probab=80.06 E-value=1 Score=33.98 Aligned_cols=56 Identities=23% Similarity=0.532 Sum_probs=41.1
Q ss_pred ccccccccccCCHHHHHHHHHhcCCcccccCCCcccCCChHHHHHHHhHhhCCCcccC
Q psy12195 135 IQCNMCSLVLDSKESLVTHISQTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQC 192 (254)
Q Consensus 135 ~~C~~C~~~f~~~~~l~~h~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C 192 (254)
|.|..||.+..- ..+..|+..-+...|.|--|+..|.. ..+..|..--++...|.=
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCITEaQKYg~ 59 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCITEAQKYGK 59 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhhhhcchHHHhhh
Confidence 678888887654 45667877666678889999999887 677888776666555543
No 101
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=79.97 E-value=1.9 Score=24.66 Aligned_cols=10 Identities=30% Similarity=0.820 Sum_probs=6.2
Q ss_pred Cccccccccc
Q psy12195 74 SIYECNQCKE 83 (254)
Q Consensus 74 ~~~~C~~C~~ 83 (254)
.+|.|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 4666666664
No 102
>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=79.87 E-value=1.1 Score=23.69 Aligned_cols=14 Identities=14% Similarity=0.304 Sum_probs=7.0
Q ss_pred eeecCcCCcccCCC
Q psy12195 44 LMKCTNCNVLVPRD 57 (254)
Q Consensus 44 ~~~C~~C~~~~~~~ 57 (254)
.|+|..||..|...
T Consensus 5 ey~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 5 EYRCEECGHEFEVL 18 (42)
T ss_pred EEEeCCCCCEEEEE
Confidence 35555555544433
No 103
>KOG2186|consensus
Probab=79.63 E-value=0.83 Score=34.45 Aligned_cols=47 Identities=17% Similarity=0.330 Sum_probs=31.9
Q ss_pred CcccccchhhccChHHHHHHHHhhhccCCCcccccccccccCCHHHHHHHHH
Q psy12195 104 NMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTHIS 155 (254)
Q Consensus 104 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~ 155 (254)
.|.|..||....-. .+..|+-..+. . .|.|-.|+.+|.. .++..|..
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn--~-~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN--A-YFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC--C-eeEEeeccccccc-chhhhhhh
Confidence 36788888765443 45668766333 3 5889999999987 55666754
No 104
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.74 E-value=1.5 Score=31.14 Aligned_cols=23 Identities=22% Similarity=0.563 Sum_probs=17.9
Q ss_pred ccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCc
Q psy12195 161 MFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECP 196 (254)
Q Consensus 161 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 196 (254)
.|.|++||..+ .++-|-+||+||
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 58888888764 357788899888
No 105
>KOG1280|consensus
Probab=78.38 E-value=1.9 Score=34.17 Aligned_cols=40 Identities=20% Similarity=0.487 Sum_probs=30.3
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchh
Q psy12195 187 SKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCI 226 (254)
Q Consensus 187 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~ 226 (254)
...|.||+|+..=.+...|..|+...|.+....-.|++|.
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 3478888888877788888889888887755445677775
No 106
>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=77.93 E-value=1.6 Score=21.54 Aligned_cols=8 Identities=38% Similarity=1.053 Sum_probs=3.6
Q ss_pred cccCCCCc
Q psy12195 189 SYQCNECP 196 (254)
Q Consensus 189 ~~~C~~C~ 196 (254)
+..|+.||
T Consensus 17 ~irC~~CG 24 (32)
T PF03604_consen 17 PIRCPECG 24 (32)
T ss_dssp TSSBSSSS
T ss_pred cEECCcCC
Confidence 33444444
No 107
>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=77.35 E-value=0.66 Score=22.56 Aligned_cols=11 Identities=27% Similarity=0.785 Sum_probs=6.5
Q ss_pred CCccCcchhhc
Q psy12195 218 HQIQCPYCITD 228 (254)
Q Consensus 218 ~~~~C~~C~~~ 228 (254)
..|.|+.|+..
T Consensus 18 ~~~vCp~C~~e 28 (30)
T PF08274_consen 18 ELLVCPECGHE 28 (30)
T ss_dssp SSEEETTTTEE
T ss_pred CEEeCCccccc
Confidence 35667666643
No 108
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=77.11 E-value=1.3 Score=24.25 Aligned_cols=10 Identities=30% Similarity=1.016 Sum_probs=3.9
Q ss_pred cccCCCcccC
Q psy12195 162 FTCRRCPSTF 171 (254)
Q Consensus 162 ~~C~~C~~~f 171 (254)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 3344444333
No 109
>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=76.16 E-value=1.6 Score=31.00 Aligned_cols=29 Identities=17% Similarity=0.509 Sum_probs=14.9
Q ss_pred ccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCccc
Q psy12195 161 MFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198 (254)
Q Consensus 161 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 198 (254)
-|.|+.|+..|+....+. .-|.||.||..
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred eEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 355655655555444432 24566666643
No 110
>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=76.14 E-value=1.6 Score=19.95 Aligned_cols=11 Identities=27% Similarity=0.597 Sum_probs=9.1
Q ss_pred eeeeecccccc
Q psy12195 13 VVIIRCETCTR 23 (254)
Q Consensus 13 ~~~~~C~~C~~ 23 (254)
-..|.||.||.
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 57899999984
No 111
>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=75.74 E-value=2.1 Score=28.70 Aligned_cols=12 Identities=17% Similarity=0.130 Sum_probs=5.2
Q ss_pred CcccCCCCcccC
Q psy12195 188 KSYQCNECPESF 199 (254)
Q Consensus 188 ~~~~C~~C~~~f 199 (254)
.|..||.||..|
T Consensus 25 ~p~vcP~cg~~~ 36 (129)
T TIGR02300 25 RPAVSPYTGEQF 36 (129)
T ss_pred CCccCCCcCCcc
Confidence 344444444444
No 112
>PF14353 CpXC: CpXC protein
Probab=75.33 E-value=2.3 Score=28.90 Aligned_cols=19 Identities=26% Similarity=0.509 Sum_probs=9.1
Q ss_pred cccCCCCcccCCCHHHHHH
Q psy12195 189 SYQCNECPESFERLNKLKR 207 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~ 207 (254)
.|.||.||..|.-...+..
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY 56 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLY 56 (128)
T ss_pred EEECCCCCCceecCCCEEE
Confidence 3555555555544443333
No 113
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=74.97 E-value=1.6 Score=31.63 Aligned_cols=31 Identities=23% Similarity=0.715 Sum_probs=17.7
Q ss_pred cccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccC
Q psy12195 160 LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESF 199 (254)
Q Consensus 160 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 199 (254)
.-|.|+.|+..|+....+. .-|.||.||...
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 3466666666666554431 356677776544
No 114
>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=74.86 E-value=1.9 Score=36.12 Aligned_cols=30 Identities=23% Similarity=0.473 Sum_probs=24.3
Q ss_pred CCCccCcchhhccCCchHHHHHHHHhcCCC
Q psy12195 217 VHQIQCPYCITDFSEDKNLIQHIVSVHLGK 246 (254)
Q Consensus 217 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 246 (254)
.+=+.||.|.+.|.....+..|+...|.+.
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 445678999988999999999988888764
No 115
>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=74.54 E-value=2 Score=22.31 Aligned_cols=10 Identities=20% Similarity=0.826 Sum_probs=4.5
Q ss_pred eecCcCCccc
Q psy12195 45 MKCTNCNVLV 54 (254)
Q Consensus 45 ~~C~~C~~~~ 54 (254)
|+|..|+..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 4444444443
No 116
>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=74.32 E-value=1.7 Score=32.49 Aligned_cols=26 Identities=27% Similarity=0.526 Sum_probs=14.4
Q ss_pred CccCcchhhccCCchHHHHHHHHhcC
Q psy12195 219 QIQCPYCITDFSEDKNLIQHIVSVHL 244 (254)
Q Consensus 219 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 244 (254)
.|.|++|+|.|.-......|+...|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 36666666666666666666655553
No 117
>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=73.50 E-value=2.3 Score=23.63 Aligned_cols=11 Identities=27% Similarity=0.712 Sum_probs=4.6
Q ss_pred eecCcCCcccC
Q psy12195 45 MKCTNCNVLVP 55 (254)
Q Consensus 45 ~~C~~C~~~~~ 55 (254)
|+|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44444444333
No 118
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=70.81 E-value=2.4 Score=28.65 Aligned_cols=55 Identities=24% Similarity=0.561 Sum_probs=30.4
Q ss_pred cccccCCCcccCCChHHHHHHHhHhhCCCcccC---CCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCchH
Q psy12195 160 LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQC---NECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKN 234 (254)
Q Consensus 160 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C---~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~~ 234 (254)
.-|+|++|.++...+.-| +|=.| .+|+.-+ .+|= .+.. . --+||+|..+|.+.+.
T Consensus 79 ~lYeCnIC~etS~ee~FL----------KPneCCgY~iCn~Cy---a~LW-----K~~~-~-ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 79 KLYECNICKETSAEERFL----------KPNECCGYSICNACY---ANLW-----KFCN-L-YPVCPVCKTSFKSSSS 136 (140)
T ss_pred CceeccCcccccchhhcC----------CcccccchHHHHHHH---HHHH-----HHcc-c-CCCCCccccccccccc
Confidence 678999998887655322 33333 1232222 1221 2222 2 2259999999988654
No 119
>KOG2593|consensus
Probab=70.16 E-value=3.1 Score=34.19 Aligned_cols=42 Identities=29% Similarity=0.521 Sum_probs=31.0
Q ss_pred ceeeeecccccccCCCHHHHHhhhcccccCcceeecCcCCcccCCC
Q psy12195 12 KVVIIRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPRD 57 (254)
Q Consensus 12 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 57 (254)
...-|.||.|++.|.....+..- -...-.|.|..|+......
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~gelveD 166 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGGELVED 166 (436)
T ss_pred ccccccCCccccchhhhHHHHhh----cccCceEEEecCCCchhcc
Confidence 47789999999999988777432 3334468999998766544
No 120
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=68.27 E-value=1.4 Score=26.54 Aligned_cols=8 Identities=25% Similarity=0.584 Sum_probs=3.4
Q ss_pred chhhccCC
Q psy12195 224 YCITDFSE 231 (254)
Q Consensus 224 ~C~~~f~~ 231 (254)
.||..|.+
T Consensus 34 eCg~tF~t 41 (72)
T PRK09678 34 NCSATFIT 41 (72)
T ss_pred CCCCEEEE
Confidence 44444443
No 121
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=66.88 E-value=2.3 Score=23.40 Aligned_cols=14 Identities=14% Similarity=0.572 Sum_probs=7.8
Q ss_pred eeeeecccccccCC
Q psy12195 13 VVIIRCETCTRNYE 26 (254)
Q Consensus 13 ~~~~~C~~C~~~f~ 26 (254)
++++.|..||..|.
T Consensus 2 Dk~l~C~dCg~~Fv 15 (49)
T PF13451_consen 2 DKTLTCKDCGAEFV 15 (49)
T ss_pred CeeEEcccCCCeEE
Confidence 45555666665554
No 122
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=65.21 E-value=6.1 Score=21.55 Aligned_cols=13 Identities=15% Similarity=0.598 Sum_probs=7.6
Q ss_pred eecCcCCcccCCC
Q psy12195 45 MKCTNCNVLVPRD 57 (254)
Q Consensus 45 ~~C~~C~~~~~~~ 57 (254)
|.|..|+..+...
T Consensus 2 y~C~~CgyvYd~~ 14 (47)
T PF00301_consen 2 YQCPVCGYVYDPE 14 (47)
T ss_dssp EEETTTSBEEETT
T ss_pred cCCCCCCEEEcCC
Confidence 5566666655544
No 123
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=64.88 E-value=1.1 Score=25.67 Aligned_cols=43 Identities=21% Similarity=0.409 Sum_probs=20.4
Q ss_pred cceeeeeccc--ccccCCCHHHHHhhhcccccCcceeecCc----CCcccC
Q psy12195 11 HKVVIIRCET--CTRNYESLESLTTHLSFKHSNQFLMKCTN----CNVLVP 55 (254)
Q Consensus 11 ~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~----C~~~~~ 55 (254)
-...+..|+. |...+. +..|..|... .-...+..|.. |+..+.
T Consensus 5 C~~~~v~C~~~cc~~~i~-r~~l~~H~~~-~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 5 CPFRPVPCPNGCCNEMIP-RKELDDHLEN-ECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp STTSEEE-TT--S-BEEE-CCCHHHHHHT-TSTTSEEE-SS----S--EEE
T ss_pred CCCCEeeCCCCCccccee-HHHHHHHHHc-cCCCCcEECCCCCCCCCCccc
Confidence 3445566766 444344 4566667664 33444566666 655443
No 124
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=64.64 E-value=4.5 Score=25.88 Aligned_cols=14 Identities=36% Similarity=0.710 Sum_probs=9.0
Q ss_pred cccccccccccCCH
Q psy12195 134 SIQCNMCSLVLDSK 147 (254)
Q Consensus 134 ~~~C~~C~~~f~~~ 147 (254)
|++|..||..|.+-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 45677777777654
No 125
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=64.10 E-value=6.5 Score=22.29 Aligned_cols=29 Identities=31% Similarity=0.857 Sum_probs=16.5
Q ss_pred eeecccccccCC-CHHHHHhhhcccccCcceeecCcCC
Q psy12195 15 IIRCETCTRNYE-SLESLTTHLSFKHSNQFLMKCTNCN 51 (254)
Q Consensus 15 ~~~C~~C~~~f~-~~~~l~~H~~~~h~~~~~~~C~~C~ 51 (254)
.|.|| ||..|. +..+| ..++...+|+.|.
T Consensus 22 tyPCP-CGDRFeIsLeDl-------~~GE~VArCPSCS 51 (67)
T COG5216 22 TYPCP-CGDRFEISLEDL-------RNGEVVARCPSCS 51 (67)
T ss_pred EecCC-CCCEeEEEHHHh-------hCCceEEEcCCce
Confidence 45566 777775 33444 3455566677665
No 126
>PF15269 zf-C2H2_7: Zinc-finger
Probab=62.13 E-value=6.5 Score=20.88 Aligned_cols=21 Identities=29% Similarity=0.608 Sum_probs=17.8
Q ss_pred ccCCCCcccCCCHHHHHHHHH
Q psy12195 190 YQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~ 210 (254)
|+|-+|..+..-++.|-.|++
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 788888888888888888876
No 127
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=61.38 E-value=2.9 Score=36.79 Aligned_cols=66 Identities=12% Similarity=0.235 Sum_probs=38.8
Q ss_pred hhhhcceeeee-----cccccccCCCHHHHHhhhcccccCc-ceeecCcCCcccCCCCccchhhhhccCCCCCCcccccc
Q psy12195 7 HLEEHKVVIIR-----CETCTRNYESLESLTTHLSFKHSNQ-FLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQ 80 (254)
Q Consensus 7 ~~~~~~~~~~~-----C~~C~~~f~~~~~l~~H~~~~h~~~-~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~ 80 (254)
.+...+++.|. |..||..|.....|---.. .+.. ..--|+.|.+.+.++..-+.|. .+..|+.
T Consensus 110 Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~--nTsM~~F~lC~~C~~EY~dP~nRRfHA---------Qp~aCp~ 178 (750)
T COG0068 110 EIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRE--NTSMADFPLCPFCDKEYKDPLNRRFHA---------QPIACPK 178 (750)
T ss_pred HhcCCCCcceeccccccCCCCcceeeeccCCCCcc--cCccccCcCCHHHHHHhcCcccccccc---------ccccCcc
Confidence 34455566665 8888888877766633221 2222 2235888877777775443222 3677888
Q ss_pred ccc
Q psy12195 81 CKE 83 (254)
Q Consensus 81 C~~ 83 (254)
||-
T Consensus 179 CGP 181 (750)
T COG0068 179 CGP 181 (750)
T ss_pred cCC
Confidence 885
No 128
>KOG4124|consensus
Probab=61.03 E-value=1.1 Score=35.45 Aligned_cols=52 Identities=27% Similarity=0.603 Sum_probs=38.3
Q ss_pred CCcccCCC--CcccCCCHHHHHHHHHHhhcC-----------------CCCCccCcchhhccCCchHHHHH
Q psy12195 187 SKSYQCNE--CPESFERLNKLKRHKFQAHND-----------------SVHQIQCPYCITDFSEDKNLIQH 238 (254)
Q Consensus 187 ~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~-----------------~~~~~~C~~C~~~f~~~~~l~~H 238 (254)
.++|.|++ |++.+.....|..|....|.. ..++|+|++|.+.+.....|.-|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 36888865 999999888888886533322 25789999999988877666444
No 129
>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=60.60 E-value=5.9 Score=23.79 Aligned_cols=58 Identities=24% Similarity=0.311 Sum_probs=30.3
Q ss_pred eeeecccccccCCCHH---HHHhhhcccccCcceeecCcCCcccCCCCccchhhhhccCCCCCCccccccccc
Q psy12195 14 VIIRCETCTRNYESLE---SLTTHLSFKHSNQFLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKE 83 (254)
Q Consensus 14 ~~~~C~~C~~~f~~~~---~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~ 83 (254)
..++++-|++.|+-.. .+..|... ......+.|..|+..++..... -+ ..+.|+.|+.
T Consensus 9 ~~~~~~cC~~~y~C~~CHde~~~H~~~-~~~~~~v~Cg~C~~~~~~~~~~----------c~-~~~~C~~C~~ 69 (71)
T PF05495_consen 9 CAIRFPCCGKYYPCRFCHDELEDHPFD-RWPVKRVICGKCRTEQPIDEYS----------CG-ADYFCPICGL 69 (71)
T ss_dssp EEEEETTTTEEESSHHHHHHCSSS----TTT--EEEETTT--EEES-SBT----------T---SEEETTTTE
T ss_pred EEEECCcccCeecHHHHHHHhccCccc-cccccCeECCCCCCccChhhhh----------cC-CCccCcCcCC
Confidence 5677888888887653 33344433 3333467888888776665430 11 4567777764
No 130
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.83 E-value=9.3 Score=24.86 Aligned_cols=12 Identities=8% Similarity=0.047 Sum_probs=6.0
Q ss_pred CcccCCCCcccC
Q psy12195 188 KSYQCNECPESF 199 (254)
Q Consensus 188 ~~~~C~~C~~~f 199 (254)
.|..||+||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 444555555554
No 131
>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=59.01 E-value=6.8 Score=29.33 Aligned_cols=27 Identities=22% Similarity=0.464 Sum_probs=11.6
Q ss_pred ccccCCCcccCCChHHHHHHHhHhhCC
Q psy12195 161 MFTCRRCPSTFLNSATLSKHVKMEHNS 187 (254)
Q Consensus 161 ~~~C~~C~~~f~~~~~l~~H~~~h~~~ 187 (254)
.|.|++|++.|.-..-+.+|+...+.+
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred EECCCCCCcccCChHHHHHHHhhcCHH
Confidence 344555555555544455555444443
No 132
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.98 E-value=4.1 Score=27.13 Aligned_cols=18 Identities=11% Similarity=0.169 Sum_probs=10.2
Q ss_pred CCcccccccccccccHHH
Q psy12195 73 PSIYECNQCKEKTNDMTT 90 (254)
Q Consensus 73 ~~~~~C~~C~~~~~~~~~ 90 (254)
+.|.-|..||..|.....
T Consensus 66 e~psfchncgs~fpwter 83 (160)
T COG4306 66 EPPSFCHNCGSRFPWTER 83 (160)
T ss_pred CCcchhhcCCCCCCcHHH
Confidence 345556667766655433
No 133
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=58.44 E-value=6.6 Score=24.61 Aligned_cols=14 Identities=14% Similarity=0.406 Sum_probs=9.2
Q ss_pred ceeecCcCCcccCC
Q psy12195 43 FLMKCTNCNVLVPR 56 (254)
Q Consensus 43 ~~~~C~~C~~~~~~ 56 (254)
.|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34567777777765
No 134
>KOG1280|consensus
Probab=57.46 E-value=9.6 Score=30.48 Aligned_cols=38 Identities=21% Similarity=0.577 Sum_probs=18.6
Q ss_pred CcccccchhhccChHHHHHHHHhhhccCCCcccccccc
Q psy12195 104 NMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCS 141 (254)
Q Consensus 104 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~ 141 (254)
.|.|++|+..=-+...+..|+...|.+......|+.|+
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 45555555554445555555555454443333444443
No 135
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=57.32 E-value=6.7 Score=26.62 Aligned_cols=14 Identities=29% Similarity=0.679 Sum_probs=7.9
Q ss_pred ccccccccccCCHH
Q psy12195 135 IQCNMCSLVLDSKE 148 (254)
Q Consensus 135 ~~C~~C~~~f~~~~ 148 (254)
++|..||+.|.+-+
T Consensus 2 H~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 2 HQCTKCGRVFEDGS 15 (131)
T ss_pred cccCcCCCCcCCCc
Confidence 45666666665443
No 136
>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=57.19 E-value=5.2 Score=30.52 Aligned_cols=40 Identities=20% Similarity=0.373 Sum_probs=19.4
Q ss_pred CCCCcccccchhhccChHHHHHHHHhhhccCCCcccccccc
Q psy12195 101 MDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCS 141 (254)
Q Consensus 101 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~C~~C~ 141 (254)
+.+.|.|..|.. |....+-..|+..--..+...|+|.-|.
T Consensus 139 GGrif~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~SCN 178 (314)
T PF06524_consen 139 GGRIFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQSCN 178 (314)
T ss_pred CCeEEEeecCCC-eeeccchhhhhhhhhhhhcccccccccc
Confidence 345567777653 3344444455544333333345555554
No 137
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=57.06 E-value=5.2 Score=22.41 Aligned_cols=36 Identities=17% Similarity=0.271 Sum_probs=18.4
Q ss_pred eeeeecccccccCCCHHHHHhhhcccccCcceeecCcCCcc
Q psy12195 13 VVIIRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVL 53 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 53 (254)
+.++.||.||...+.+..- -+ --...++.|+.|.+.
T Consensus 2 ~~Wi~CP~CgnKTR~kir~----DT-~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 2 SEWILCPICGNKTRLKIRE----DT-VLKNFPLYCPKCKQE 37 (55)
T ss_pred CeEEECCCCCCccceeeec----Cc-eeccccccCCCCCce
Confidence 4567788887655432111 00 122345667777543
No 138
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=56.97 E-value=2.9 Score=23.17 Aligned_cols=7 Identities=29% Similarity=1.008 Sum_probs=3.0
Q ss_pred ccCCCCc
Q psy12195 190 YQCNECP 196 (254)
Q Consensus 190 ~~C~~C~ 196 (254)
+.||+|+
T Consensus 35 w~CP~C~ 41 (50)
T cd00730 35 WVCPVCG 41 (50)
T ss_pred CCCCCCC
Confidence 3444444
No 139
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=56.81 E-value=13 Score=26.85 Aligned_cols=32 Identities=19% Similarity=0.504 Sum_probs=17.3
Q ss_pred hCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhh
Q psy12195 185 HNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCIT 227 (254)
Q Consensus 185 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~ 227 (254)
+++..|.||.|...|+...+. ...|.||.||-
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA~-----------~~~F~Cp~Cg~ 140 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEAM-----------ELGFTCPKCGE 140 (176)
T ss_pred ccCCceeCCCCCCcccHHHHH-----------HhCCCCCCCCc
Confidence 455567777666555433222 12267777764
No 140
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=56.22 E-value=4.3 Score=25.59 Aligned_cols=33 Identities=24% Similarity=0.458 Sum_probs=18.5
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCC
Q psy12195 187 SKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSE 231 (254)
Q Consensus 187 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~ 231 (254)
...|.||.||+.- +.+ .. .-++.|..|++.|+-
T Consensus 34 ~a~y~CpfCgk~~-----vkR----~a---~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 34 HAKYFCPFCGKHA-----VKR----QA---VGIWRCKGCKKTVAG 66 (90)
T ss_pred hCCccCCCCCCCc-----eee----ee---eEEEEcCCCCCEEeC
Confidence 4567777777421 111 11 236777777777654
No 141
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=55.39 E-value=5.6 Score=27.40 Aligned_cols=14 Identities=14% Similarity=0.831 Sum_probs=8.3
Q ss_pred eeeecccccccCCC
Q psy12195 14 VIIRCETCTRNYES 27 (254)
Q Consensus 14 ~~~~C~~C~~~f~~ 27 (254)
..+.|+.||..|..
T Consensus 69 ~~~~C~~CG~~~~~ 82 (135)
T PRK03824 69 AVLKCRNCGNEWSL 82 (135)
T ss_pred eEEECCCCCCEEec
Confidence 45666666665554
No 142
>PRK04023 DNA polymerase II large subunit; Validated
Probab=54.86 E-value=15 Score=34.04 Aligned_cols=10 Identities=20% Similarity=0.601 Sum_probs=6.1
Q ss_pred CccCcchhhc
Q psy12195 219 QIQCPYCITD 228 (254)
Q Consensus 219 ~~~C~~C~~~ 228 (254)
++.||.|+..
T Consensus 663 ~y~CPKCG~E 672 (1121)
T PRK04023 663 EDECEKCGRE 672 (1121)
T ss_pred CCcCCCCCCC
Confidence 3557777653
No 143
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=53.06 E-value=12 Score=33.63 Aligned_cols=13 Identities=23% Similarity=0.659 Sum_probs=8.0
Q ss_pred CCCcccccccccc
Q psy12195 72 TPSIYECNQCKEK 84 (254)
Q Consensus 72 ~~~~~~C~~C~~~ 84 (254)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 3456677777644
No 144
>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=53.05 E-value=4.2 Score=25.68 Aligned_cols=33 Identities=24% Similarity=0.512 Sum_probs=18.4
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCC
Q psy12195 187 SKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSE 231 (254)
Q Consensus 187 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~ 231 (254)
...|.||.||+.- +.+ .. .-++.|..|++.|+-
T Consensus 33 ~a~y~CpfCgk~~-----vkR----~a---~GIW~C~~C~~~~AG 65 (91)
T TIGR00280 33 KAKYVCPFCGKKT-----VKR----GS---TGIWTCRKCGAKFAG 65 (91)
T ss_pred hcCccCCCCCCCc-----eEE----Ee---eEEEEcCCCCCEEeC
Confidence 3567777777421 111 11 236777777777654
No 145
>KOG4118|consensus
Probab=52.92 E-value=9.8 Score=22.11 Aligned_cols=29 Identities=21% Similarity=0.504 Sum_probs=24.8
Q ss_pred CccCcchhhccCCchHHHHHHHHhcCCCC
Q psy12195 219 QIQCPYCITDFSEDKNLIQHIVSVHLGKE 247 (254)
Q Consensus 219 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 247 (254)
.|+|.+|.........+..|....|+.+.
T Consensus 38 ~~kCtVC~~~mpdpktfkqhfe~kHpk~~ 66 (74)
T KOG4118|consen 38 HHKCTVCMVQMPDPKTFKQHFENKHPKEP 66 (74)
T ss_pred HhhhHhhHhhCCCCchHHHHHhhcCCCCC
Confidence 47899999999999999999988887653
No 146
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=52.88 E-value=1.6 Score=38.24 Aligned_cols=56 Identities=20% Similarity=0.420 Sum_probs=27.9
Q ss_pred cccccccccCCHHHHHHHHHhcCCcccc-cCCCcccCCChHHHHHHHhHhhCCCcccCCCCcc
Q psy12195 136 QCNMCSLVLDSKESLVTHISQTHTLMFT-CRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPE 197 (254)
Q Consensus 136 ~C~~C~~~f~~~~~l~~h~~~~~~~~~~-C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 197 (254)
.|+.||..|+--.+|---...+-...|. |+.|.+.+.++.+-+-|. .|..||.||-
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHA------QPIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccccccc------ccccCcccCC
Confidence 3666666665433332222222223444 666666666665544443 2455666664
No 147
>KOG2923|consensus
Probab=52.21 E-value=12 Score=21.68 Aligned_cols=28 Identities=25% Similarity=0.807 Sum_probs=14.8
Q ss_pred eecccccccCC-CHHHHHhhhcccccCcceeecCcCC
Q psy12195 16 IRCETCTRNYE-SLESLTTHLSFKHSNQFLMKCTNCN 51 (254)
Q Consensus 16 ~~C~~C~~~f~-~~~~l~~H~~~~h~~~~~~~C~~C~ 51 (254)
|.|| ||..|. ++..| ..++....|+-|.
T Consensus 23 yPCp-CGDrf~It~edL-------~~ge~Va~CpsCS 51 (67)
T KOG2923|consen 23 YPCP-CGDRFQITLEDL-------ENGEDVARCPSCS 51 (67)
T ss_pred cCCC-CCCeeeecHHHH-------hCCCeeecCCCce
Confidence 3454 666665 44444 2344455666664
No 148
>KOG2593|consensus
Probab=52.21 E-value=14 Score=30.62 Aligned_cols=17 Identities=24% Similarity=0.778 Sum_probs=9.0
Q ss_pred CcccCCCCcccCCCHHH
Q psy12195 188 KSYQCNECPESFERLNK 204 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~ 204 (254)
.-|.||.|.+.|+..-.
T Consensus 127 ~~Y~Cp~C~kkyt~Lea 143 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEA 143 (436)
T ss_pred ccccCCccccchhhhHH
Confidence 34666666665544433
No 149
>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=51.08 E-value=9.2 Score=26.18 Aligned_cols=27 Identities=33% Similarity=0.536 Sum_probs=15.9
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHHhhcCC
Q psy12195 187 SKSYQCNECPESFERLNKLKRHKFQAHNDS 216 (254)
Q Consensus 187 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 216 (254)
+....|-+||+.|... .+|+..+|+-.
T Consensus 70 ~d~i~clecGk~~k~L---krHL~~~~glt 96 (132)
T PF05443_consen 70 PDYIICLECGKKFKTL---KRHLRTHHGLT 96 (132)
T ss_dssp SS-EE-TBT--EESBH---HHHHHHTT-S-
T ss_pred cCeeEEccCCcccchH---HHHHHHccCCC
Confidence 3457899999999764 89998665553
No 150
>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=51.07 E-value=6.8 Score=20.73 Aligned_cols=9 Identities=22% Similarity=0.567 Sum_probs=3.7
Q ss_pred ccccccccc
Q psy12195 76 YECNQCKEK 84 (254)
Q Consensus 76 ~~C~~C~~~ 84 (254)
+.|..||.+
T Consensus 20 ~vC~~CG~V 28 (43)
T PF08271_consen 20 LVCPNCGLV 28 (43)
T ss_dssp EEETTT-BB
T ss_pred EECCCCCCE
Confidence 345555444
No 151
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=49.24 E-value=22 Score=18.66 Aligned_cols=22 Identities=23% Similarity=0.415 Sum_probs=9.8
Q ss_pred ccCCCcccCC--ChHHHHHHHhHh
Q psy12195 163 TCRRCPSTFL--NSATLSKHVKME 184 (254)
Q Consensus 163 ~C~~C~~~f~--~~~~l~~H~~~h 184 (254)
.|+.||..|. ....-..|.+-|
T Consensus 15 ~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 15 TCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred CCCCCCCEECCCCHHHHHHHHHHH
Confidence 4555555444 233344444433
No 152
>PRK04023 DNA polymerase II large subunit; Validated
Probab=48.58 E-value=20 Score=33.37 Aligned_cols=12 Identities=17% Similarity=0.537 Sum_probs=7.0
Q ss_pred cccCCCCcccCC
Q psy12195 189 SYQCNECPESFE 200 (254)
Q Consensus 189 ~~~C~~C~~~f~ 200 (254)
+|.|+-||..-.
T Consensus 663 ~y~CPKCG~El~ 674 (1121)
T PRK04023 663 EDECEKCGREPT 674 (1121)
T ss_pred CCcCCCCCCCCC
Confidence 356777775443
No 153
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=48.36 E-value=4.6 Score=21.08 Aligned_cols=9 Identities=33% Similarity=1.217 Sum_probs=3.9
Q ss_pred ccccccccc
Q psy12195 76 YECNQCKEK 84 (254)
Q Consensus 76 ~~C~~C~~~ 84 (254)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 444444433
No 154
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=47.27 E-value=10 Score=19.35 Aligned_cols=12 Identities=25% Similarity=0.631 Sum_probs=5.0
Q ss_pred eeeecccccccC
Q psy12195 14 VIIRCETCTRNY 25 (254)
Q Consensus 14 ~~~~C~~C~~~f 25 (254)
+.|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 456666666543
No 155
>COG1773 Rubredoxin [Energy production and conversion]
Probab=46.50 E-value=8.9 Score=21.66 Aligned_cols=13 Identities=15% Similarity=0.644 Sum_probs=6.3
Q ss_pred eecCcCCcccCCC
Q psy12195 45 MKCTNCNVLVPRD 57 (254)
Q Consensus 45 ~~C~~C~~~~~~~ 57 (254)
|+|..||..|...
T Consensus 4 ~~C~~CG~vYd~e 16 (55)
T COG1773 4 WRCSVCGYVYDPE 16 (55)
T ss_pred eEecCCceEeccc
Confidence 4455555554433
No 156
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=45.73 E-value=11 Score=24.57 Aligned_cols=13 Identities=38% Similarity=1.127 Sum_probs=6.8
Q ss_pred CccCcchhhccCC
Q psy12195 219 QIQCPYCITDFSE 231 (254)
Q Consensus 219 ~~~C~~C~~~f~~ 231 (254)
.|.||.|+..++.
T Consensus 19 ~~iCpeC~~EW~~ 31 (109)
T TIGR00686 19 QLICPSCLYEWNE 31 (109)
T ss_pred eeECccccccccc
Confidence 3555555555543
No 157
>PF14369 zf-RING_3: zinc-finger
Probab=45.55 E-value=23 Score=17.87 Aligned_cols=10 Identities=20% Similarity=0.597 Sum_probs=6.2
Q ss_pred cccccccccc
Q psy12195 77 ECNQCKEKTN 86 (254)
Q Consensus 77 ~C~~C~~~~~ 86 (254)
.|+.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 4777766554
No 158
>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=45.35 E-value=1.8 Score=22.53 Aligned_cols=9 Identities=33% Similarity=1.102 Sum_probs=4.1
Q ss_pred ccccccccc
Q psy12195 76 YECNQCKEK 84 (254)
Q Consensus 76 ~~C~~C~~~ 84 (254)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (39)
T PF01096_consen 29 YVCCNCGHR 37 (39)
T ss_dssp EEESSSTEE
T ss_pred EEeCCCCCe
Confidence 445444443
No 159
>KOG2807|consensus
Probab=45.04 E-value=29 Score=27.64 Aligned_cols=25 Identities=28% Similarity=0.529 Sum_probs=19.4
Q ss_pred CCccCcchhhccCCchHHHHHHHHhc
Q psy12195 218 HQIQCPYCITDFSEDKNLIQHIVSVH 243 (254)
Q Consensus 218 ~~~~C~~C~~~f~~~~~l~~H~~~~h 243 (254)
..|+|+.|...|-...+.-.|- +-|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHe-sLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHE-SLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHh-hhh
Confidence 3588889988888888887885 555
No 160
>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=44.57 E-value=12 Score=22.07 Aligned_cols=13 Identities=15% Similarity=0.680 Sum_probs=6.1
Q ss_pred CCcccCCCCcccC
Q psy12195 187 SKSYQCNECPESF 199 (254)
Q Consensus 187 ~~~~~C~~C~~~f 199 (254)
.+.|.|+.||..+
T Consensus 44 ~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 44 GRVFTCPNCGFEM 56 (69)
T ss_pred cceEEcCCCCCEE
Confidence 3445555555443
No 161
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=43.86 E-value=20 Score=20.31 Aligned_cols=8 Identities=25% Similarity=1.286 Sum_probs=3.3
Q ss_pred cccCCCCc
Q psy12195 189 SYQCNECP 196 (254)
Q Consensus 189 ~~~C~~C~ 196 (254)
.|.||.||
T Consensus 14 ~~~Cp~cG 21 (55)
T PF13824_consen 14 NFECPDCG 21 (55)
T ss_pred CCcCCCCC
Confidence 34444444
No 162
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=43.57 E-value=12 Score=22.11 Aligned_cols=8 Identities=38% Similarity=1.020 Sum_probs=1.9
Q ss_pred cCCCcccC
Q psy12195 164 CRRCPSTF 171 (254)
Q Consensus 164 C~~C~~~f 171 (254)
|..|++.|
T Consensus 12 C~~C~~~F 19 (69)
T PF01363_consen 12 CMICGKKF 19 (69)
T ss_dssp -TTT--B-
T ss_pred CcCcCCcC
Confidence 44444444
No 163
>PRK10220 hypothetical protein; Provisional
Probab=43.35 E-value=14 Score=24.19 Aligned_cols=14 Identities=21% Similarity=0.781 Sum_probs=7.2
Q ss_pred CccCcchhhccCCc
Q psy12195 219 QIQCPYCITDFSED 232 (254)
Q Consensus 219 ~~~C~~C~~~f~~~ 232 (254)
.|.||.|+..++..
T Consensus 20 ~~vCpeC~hEW~~~ 33 (111)
T PRK10220 20 MYICPECAHEWNDA 33 (111)
T ss_pred eEECCcccCcCCcc
Confidence 35555555555433
No 164
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=43.03 E-value=22 Score=28.05 Aligned_cols=26 Identities=19% Similarity=0.381 Sum_probs=18.1
Q ss_pred CCCCcccccchhhccChHHHHHHHHh
Q psy12195 101 MDINMSCVPCDVLFHNKATLYKHLYL 126 (254)
Q Consensus 101 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 126 (254)
....|.|+.|...|-.-.++..|...
T Consensus 385 ss~rY~Ce~CK~~FC~dCdvfiHe~L 410 (421)
T COG5151 385 SSGRYQCELCKSTFCSDCDVFIHETL 410 (421)
T ss_pred cccceechhhhhhhhhhhHHHHHHHH
Confidence 34567777777777777777777654
No 165
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=43.01 E-value=10 Score=30.66 Aligned_cols=69 Identities=22% Similarity=0.329 Sum_probs=27.9
Q ss_pred ceeeeecccccccCCCHHHH---Hhhhccccc-CcceeecCcCCcccCCCCccchhhhhccCCCCCCccccccccccccc
Q psy12195 12 KVVIIRCETCTRNYESLESL---TTHLSFKHS-NQFLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKTND 87 (254)
Q Consensus 12 ~~~~~~C~~C~~~f~~~~~l---~~H~~~~h~-~~~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~~~ 87 (254)
..+.+.|..|.+.+-..... ..|.-..+. ....|+|..|++....-..+ ..-.|..||..-..
T Consensus 249 k~kav~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~sl~r~-------------P~~~C~~Cg~~~we 315 (344)
T PF09332_consen 249 KCKAVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTISLERL-------------PKKHCSNCGSSKWE 315 (344)
T ss_dssp EEEEEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEEESSSS---------------S--TTT-S---E
T ss_pred EEEEEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeeeecccC-------------CCCCCCcCCcCcee
Confidence 47888999998766544433 234433233 34568899998764433222 12358788765444
Q ss_pred HHHHHh
Q psy12195 88 MTTMLN 93 (254)
Q Consensus 88 ~~~l~~ 93 (254)
...|+.
T Consensus 316 r~~M~~ 321 (344)
T PF09332_consen 316 RTGMLK 321 (344)
T ss_dssp EE---S
T ss_pred ehhhhh
Confidence 444433
No 166
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=42.73 E-value=17 Score=30.19 Aligned_cols=30 Identities=20% Similarity=0.393 Sum_probs=19.3
Q ss_pred cCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCch
Q psy12195 191 QCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDK 233 (254)
Q Consensus 191 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~ 233 (254)
.||.||.+. ...+.. -|+|+.|+..+....
T Consensus 352 ~Cp~Cg~~m------------~S~G~~-g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRM------------KSAGRN-GFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCch------------hhcCCC-CcccccccccCCccc
Confidence 688888644 223322 788888887776643
No 167
>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=42.56 E-value=21 Score=19.97 Aligned_cols=14 Identities=21% Similarity=0.631 Sum_probs=7.3
Q ss_pred CcccCCCCcccCCC
Q psy12195 188 KSYQCNECPESFER 201 (254)
Q Consensus 188 ~~~~C~~C~~~f~~ 201 (254)
+.+.|..||+.|-.
T Consensus 17 rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 17 RRHHCRNCGRIFCS 30 (57)
T ss_pred cccccCcCcCCcCh
Confidence 34555555555543
No 168
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=42.46 E-value=20 Score=30.35 Aligned_cols=33 Identities=18% Similarity=0.434 Sum_probs=27.9
Q ss_pred hcceeeeecccccccCCCHHHHHhhhcccccCc
Q psy12195 10 EHKVVIIRCETCTRNYESLESLTTHLSFKHSNQ 42 (254)
Q Consensus 10 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 42 (254)
+....=+.|+.|.+.|.+..++..|+...|.+.
T Consensus 52 n~sWrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 52 NKSWRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred cCceeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 445677889999999999999999999777654
No 169
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=42.23 E-value=11 Score=24.21 Aligned_cols=15 Identities=20% Similarity=0.392 Sum_probs=8.3
Q ss_pred eeeeecccccccCCC
Q psy12195 13 VVIIRCETCTRNYES 27 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~ 27 (254)
++.|.|+.|+..-..
T Consensus 20 ~k~FtCp~Cghe~vs 34 (104)
T COG4888 20 PKTFTCPRCGHEKVS 34 (104)
T ss_pred CceEecCccCCeeee
Confidence 455666666654443
No 170
>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=42.04 E-value=15 Score=19.76 Aligned_cols=8 Identities=25% Similarity=0.837 Sum_probs=4.2
Q ss_pred CccCcchh
Q psy12195 219 QIQCPYCI 226 (254)
Q Consensus 219 ~~~C~~C~ 226 (254)
.|+|..|+
T Consensus 37 ~~~C~~C~ 44 (46)
T PF12760_consen 37 RYRCKACR 44 (46)
T ss_pred eEECCCCC
Confidence 45555554
No 171
>KOG3408|consensus
Probab=41.64 E-value=16 Score=24.31 Aligned_cols=25 Identities=28% Similarity=0.474 Sum_probs=17.0
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHH
Q psy12195 186 NSKSYQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 186 ~~~~~~C~~C~~~f~~~~~l~~H~~ 210 (254)
|...|.|-.|.+-|.+...|..|.+
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHh
Confidence 3345777777777777777777765
No 172
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=41.45 E-value=12 Score=19.46 Aligned_cols=8 Identities=25% Similarity=0.904 Sum_probs=3.0
Q ss_pred CCCCcccC
Q psy12195 192 CNECPESF 199 (254)
Q Consensus 192 C~~C~~~f 199 (254)
|+.|+-.+
T Consensus 22 C~~C~G~W 29 (41)
T PF13453_consen 22 CPSCGGIW 29 (41)
T ss_pred CCCCCeEE
Confidence 33333333
No 173
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=40.20 E-value=9.8 Score=21.29 Aligned_cols=12 Identities=33% Similarity=0.877 Sum_probs=6.5
Q ss_pred cCcchhhccCCc
Q psy12195 221 QCPYCITDFSED 232 (254)
Q Consensus 221 ~C~~C~~~f~~~ 232 (254)
.||+|+..|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799999988764
No 174
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=39.68 E-value=16 Score=19.98 Aligned_cols=7 Identities=29% Similarity=1.260 Sum_probs=3.0
Q ss_pred ccCCCCc
Q psy12195 190 YQCNECP 196 (254)
Q Consensus 190 ~~C~~C~ 196 (254)
+.|+.||
T Consensus 21 ~vC~~Cg 27 (52)
T smart00661 21 FVCRKCG 27 (52)
T ss_pred EECCcCC
Confidence 3444444
No 175
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=39.10 E-value=19 Score=17.93 Aligned_cols=21 Identities=24% Similarity=0.589 Sum_probs=10.4
Q ss_pred eeeecccccccCCCHHHHHhhh
Q psy12195 14 VIIRCETCTRNYESLESLTTHL 35 (254)
Q Consensus 14 ~~~~C~~C~~~f~~~~~l~~H~ 35 (254)
..+.|+.|+..+. .+.+..|+
T Consensus 3 ~~~~C~nC~R~v~-a~RfA~HL 23 (33)
T PF08209_consen 3 PYVECPNCGRPVA-ASRFAPHL 23 (33)
T ss_dssp -EEE-TTTSSEEE-GGGHHHHH
T ss_pred CeEECCCCcCCcc-hhhhHHHH
Confidence 4566777776554 33344444
No 176
>KOG4167|consensus
Probab=38.97 E-value=9.7 Score=33.76 Aligned_cols=25 Identities=24% Similarity=0.331 Sum_probs=21.4
Q ss_pred CCccCcchhhccCCchHHHHHHHHhc
Q psy12195 218 HQIQCPYCITDFSEDKNLIQHIVSVH 243 (254)
Q Consensus 218 ~~~~C~~C~~~f~~~~~l~~H~~~~h 243 (254)
-.|-|.+|+|.|-....+..|| ..|
T Consensus 791 giFpCreC~kvF~KiKSrNAHM-K~H 815 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHM-KTH 815 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHH-HHH
Confidence 3589999999999999999999 444
No 177
>KOG3408|consensus
Probab=38.92 E-value=19 Score=24.07 Aligned_cols=25 Identities=28% Similarity=0.587 Sum_probs=18.6
Q ss_pred CcccccCCCcccCCChHHHHHHHhH
Q psy12195 159 TLMFTCRRCPSTFLNSATLSKHVKM 183 (254)
Q Consensus 159 ~~~~~C~~C~~~f~~~~~l~~H~~~ 183 (254)
...|.|-.|.+-|++...|..|.++
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhc
Confidence 3567777788778777777777775
No 178
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.87 E-value=22 Score=20.04 Aligned_cols=12 Identities=25% Similarity=0.714 Sum_probs=6.2
Q ss_pred CcccCCCCcccC
Q psy12195 188 KSYQCNECPESF 199 (254)
Q Consensus 188 ~~~~C~~C~~~f 199 (254)
....|+.||.-+
T Consensus 20 DiVvCp~Cgapy 31 (54)
T PF14446_consen 20 DIVVCPECGAPY 31 (54)
T ss_pred CEEECCCCCCcc
Confidence 344566666443
No 179
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=37.91 E-value=2.7 Score=21.29 Aligned_cols=8 Identities=25% Similarity=0.966 Sum_probs=2.6
Q ss_pred ccCCCccc
Q psy12195 163 TCRRCPST 170 (254)
Q Consensus 163 ~C~~C~~~ 170 (254)
.|+.||..
T Consensus 23 sC~~CGPr 30 (35)
T PF07503_consen 23 SCTNCGPR 30 (35)
T ss_dssp -BTTCC-S
T ss_pred cCCCCCCC
Confidence 34444443
No 180
>KOG2907|consensus
Probab=37.70 E-value=38 Score=22.36 Aligned_cols=11 Identities=45% Similarity=1.008 Sum_probs=5.8
Q ss_pred ccccccccccc
Q psy12195 76 YECNQCKEKTN 86 (254)
Q Consensus 76 ~~C~~C~~~~~ 86 (254)
|.|+.|+..|.
T Consensus 103 YTC~kC~~k~~ 113 (116)
T KOG2907|consen 103 YTCPKCKYKFT 113 (116)
T ss_pred EEcCccceeee
Confidence 55555555443
No 181
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=37.46 E-value=46 Score=24.44 Aligned_cols=39 Identities=21% Similarity=0.568 Sum_probs=22.9
Q ss_pred eeeeecccccccCCCHHHHHhhhcccccCcceeecCcCCcccCC
Q psy12195 13 VVIIRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPR 56 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~ 56 (254)
...+.||.|+ .-.....+ ++. ...+..+.|..||..++.
T Consensus 4 ~iy~~Cp~Cg-~eev~hEV---ik~-~g~~~lvrC~eCG~V~~~ 42 (201)
T COG1326 4 EIYIECPSCG-SEEVSHEV---IKE-RGREPLVRCEECGTVHPA 42 (201)
T ss_pred eEEEECCCCC-cchhhHHH---HHh-cCCceEEEccCCCcEeec
Confidence 3457799999 21111122 122 234467899999988744
No 182
>KOG1842|consensus
Probab=37.20 E-value=20 Score=29.87 Aligned_cols=27 Identities=22% Similarity=0.409 Sum_probs=17.1
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhhcC
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAHND 215 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h~~ 215 (254)
-|.||+|...|.+...|..|....|.+
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccc
Confidence 356666666666666666666555544
No 183
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=36.63 E-value=18 Score=18.75 Aligned_cols=14 Identities=21% Similarity=0.669 Sum_probs=10.7
Q ss_pred cccCCCCcccCCCH
Q psy12195 189 SYQCNECPESFERL 202 (254)
Q Consensus 189 ~~~C~~C~~~f~~~ 202 (254)
|+.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78888888888653
No 184
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=36.44 E-value=12 Score=26.28 Aligned_cols=48 Identities=17% Similarity=0.271 Sum_probs=25.5
Q ss_pred eeecCcCCcccCCCCccchhhhhccCCCCCCcccccccccccccHHHHHh
Q psy12195 44 LMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKTNDMTTMLN 93 (254)
Q Consensus 44 ~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~~~~~~l~~ 93 (254)
.-.|+.|+....-.....-.... ......|.-|..||..|+.....+.
T Consensus 39 I~~Cp~C~~~IrG~y~v~gv~~~--g~~~~~PsYC~~CGkpyPWt~~~L~ 86 (158)
T PF10083_consen 39 ITSCPNCSTPIRGDYHVEGVFGL--GGHYEAPSYCHNCGKPYPWTENALE 86 (158)
T ss_pred HHHCcCCCCCCCCceecCCeeee--CCCCCCChhHHhCCCCCchHHHHHH
Confidence 34577776544433222211110 0134467888888888876655443
No 185
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=35.89 E-value=31 Score=24.18 Aligned_cols=37 Identities=19% Similarity=0.492 Sum_probs=20.6
Q ss_pred CcceeecCcCCcccCCCCccchhhhhccCCCCCCccccccccccc
Q psy12195 41 NQFLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKT 85 (254)
Q Consensus 41 ~~~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~ 85 (254)
...+|.|. |+..+.........+ .++ .|.|..|+...
T Consensus 114 ~~~~Y~C~-C~q~~l~~RRhn~~~------~g~-~YrC~~C~gkL 150 (156)
T COG3091 114 TTYPYRCQ-CQQHYLRIRRHNTVR------RGE-VYRCGKCGGKL 150 (156)
T ss_pred cceeEEee-cCCccchhhhccccc------ccc-eEEeccCCceE
Confidence 44567787 776655443222222 233 67787776543
No 186
>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 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=35.24 E-value=15 Score=24.49 Aligned_cols=11 Identities=18% Similarity=0.628 Sum_probs=5.9
Q ss_pred cccCCCcccCC
Q psy12195 162 FTCRRCPSTFL 172 (254)
Q Consensus 162 ~~C~~C~~~f~ 172 (254)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 45555555554
No 188
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=35.21 E-value=19 Score=23.92 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=4.6
Q ss_pred cccCCCccc
Q psy12195 162 FTCRRCPST 170 (254)
Q Consensus 162 ~~C~~C~~~ 170 (254)
..|..|+..
T Consensus 71 ~~C~~Cg~~ 79 (114)
T PRK03681 71 CWCETCQQY 79 (114)
T ss_pred EEcccCCCe
Confidence 445555543
No 189
>KOG0782|consensus
Probab=34.73 E-value=9.3 Score=32.83 Aligned_cols=54 Identities=17% Similarity=0.468 Sum_probs=38.7
Q ss_pred ChHHHHHHHhHhhCCCcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcchhhccCCch
Q psy12195 173 NSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDK 233 (254)
Q Consensus 173 ~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~C~~~f~~~~ 233 (254)
..+.+.+|-=+|.-...=+|..|||+|.++-.+ |+.+.-...|+.|...|-.+.
T Consensus 237 rE~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F-------hsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 237 RESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF-------HSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccccchHHhHhhHhhhccccchhhhhhhhheee-------ccccEEEEEehHHHHHhhcch
Confidence 344677777777666666899999999765444 343344578999999988776
No 190
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=34.71 E-value=6.8 Score=26.04 Aligned_cols=10 Identities=30% Similarity=1.075 Sum_probs=4.7
Q ss_pred ccCCCCcccC
Q psy12195 190 YQCNECPESF 199 (254)
Q Consensus 190 ~~C~~C~~~f 199 (254)
|.|..||..|
T Consensus 101 y~C~~Cg~~w 110 (113)
T COG1594 101 YKCTRCGYRW 110 (113)
T ss_pred EEecccCCEe
Confidence 4444444443
No 191
>KOG1842|consensus
Probab=34.60 E-value=23 Score=29.51 Aligned_cols=31 Identities=16% Similarity=0.404 Sum_probs=26.5
Q ss_pred CCcccccccccccccHHHHHhHHhhhccCCC
Q psy12195 73 PSIYECNQCKEKTNDMTTMLNHYSVKHYMDI 103 (254)
Q Consensus 73 ~~~~~C~~C~~~~~~~~~l~~h~~~~h~~~~ 103 (254)
...|.|++|...|.+...|..|+...|..+-
T Consensus 13 ~egflCPiC~~dl~~~~~L~~H~d~eH~~ed 43 (505)
T KOG1842|consen 13 LEGFLCPICLLDLPNLSALNDHLDVEHFEED 43 (505)
T ss_pred hhcccCchHhhhhhhHHHHHHHHhhhccccc
Confidence 3568999999999999999999988887654
No 192
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=34.34 E-value=18 Score=20.66 Aligned_cols=31 Identities=16% Similarity=0.448 Sum_probs=13.4
Q ss_pred CcccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcc
Q psy12195 188 KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPY 224 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~ 224 (254)
.|+....||..|.. ..+...+ ......+||+
T Consensus 23 ~PV~s~~C~H~fek-~aI~~~i-----~~~~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFEK-EAILQYI-----QRNGSKRCPV 53 (57)
T ss_dssp SEEEESSS--EEEH-HHHHHHC-----TTTS-EE-SC
T ss_pred CCcCcCCCCCeecH-HHHHHHH-----HhcCCCCCCC
Confidence 45566667776633 3333333 1144566766
No 193
>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=34.32 E-value=25 Score=19.57 Aligned_cols=25 Identities=16% Similarity=0.312 Sum_probs=14.5
Q ss_pred eeeeecccccccCCCHHHHHhhhcc
Q psy12195 13 VVIIRCETCTRNYESLESLTTHLSF 37 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l~~H~~~ 37 (254)
...|+|+.|...|-..-++-.|...
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~L 43 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETL 43 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS
T ss_pred CCeEECCCCCCccccCcChhhhccc
Confidence 4678888888888877777777665
No 194
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=34.20 E-value=18 Score=24.03 Aligned_cols=11 Identities=18% Similarity=0.401 Sum_probs=5.6
Q ss_pred cccCCCcccCC
Q psy12195 162 FTCRRCPSTFL 172 (254)
Q Consensus 162 ~~C~~C~~~f~ 172 (254)
..|..||..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PRK12380 71 AWCWDCSQVVE 81 (113)
T ss_pred EEcccCCCEEe
Confidence 44555554443
No 195
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=34.12 E-value=18 Score=23.25 Aligned_cols=16 Identities=25% Similarity=0.513 Sum_probs=11.4
Q ss_pred cceeeeecccccccCC
Q psy12195 11 HKVVIIRCETCTRNYE 26 (254)
Q Consensus 11 ~~~~~~~C~~C~~~f~ 26 (254)
++.++.+|+.||..|.
T Consensus 75 ~~g~~~rC~eCG~~fk 90 (97)
T cd00924 75 EKGKPKRCPECGHVFK 90 (97)
T ss_pred eCCCceeCCCCCcEEE
Confidence 3456778888887775
No 196
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=33.38 E-value=53 Score=23.94 Aligned_cols=18 Identities=17% Similarity=0.558 Sum_probs=10.1
Q ss_pred CcccCCCCcccCCCHHHH
Q psy12195 188 KSYQCNECPESFERLNKL 205 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l 205 (254)
....|..||+.|.....+
T Consensus 113 ~~~~C~~Cg~~f~~~k~i 130 (181)
T PRK08222 113 HLQRCSRCERPFAPQKTV 130 (181)
T ss_pred ccCcCcccCCccCcHhHH
Confidence 355666666666654443
No 197
>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=32.82 E-value=13 Score=23.43 Aligned_cols=11 Identities=36% Similarity=1.081 Sum_probs=7.0
Q ss_pred ccccccccccc
Q psy12195 75 IYECNQCKEKT 85 (254)
Q Consensus 75 ~~~C~~C~~~~ 85 (254)
.+.|..|+..|
T Consensus 53 IW~C~~C~~~~ 63 (90)
T PF01780_consen 53 IWKCKKCGKKF 63 (90)
T ss_dssp EEEETTTTEEE
T ss_pred EeecCCCCCEE
Confidence 46677776655
No 198
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=32.62 E-value=15 Score=19.21 Aligned_cols=12 Identities=17% Similarity=0.537 Sum_probs=7.9
Q ss_pred CcccCCCCcccC
Q psy12195 188 KSYQCNECPESF 199 (254)
Q Consensus 188 ~~~~C~~C~~~f 199 (254)
++-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 356777777665
No 199
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=32.57 E-value=34 Score=18.07 Aligned_cols=18 Identities=28% Similarity=0.499 Sum_probs=12.2
Q ss_pred cCCCCcccCCCHHHHHHH
Q psy12195 191 QCNECPESFERLNKLKRH 208 (254)
Q Consensus 191 ~C~~C~~~f~~~~~l~~H 208 (254)
.|++||+.|.......+-
T Consensus 10 ~C~~C~rpf~WRKKW~~~ 27 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWARC 27 (42)
T ss_pred cCcccCCcchHHHHHHHh
Confidence 578888888776655543
No 200
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.66 E-value=18 Score=20.80 Aligned_cols=7 Identities=57% Similarity=1.521 Sum_probs=2.7
Q ss_pred ccCCCCc
Q psy12195 190 YQCNECP 196 (254)
Q Consensus 190 ~~C~~C~ 196 (254)
|-|+.|.
T Consensus 32 ymC~eC~ 38 (68)
T COG4896 32 YMCPECE 38 (68)
T ss_pred EechhhH
Confidence 3333333
No 201
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=31.20 E-value=44 Score=23.28 Aligned_cols=34 Identities=26% Similarity=0.560 Sum_probs=19.5
Q ss_pred cceeecCcCCcccCCCCccchhhhhccCCCCCCccccccccccc
Q psy12195 42 QFLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKT 85 (254)
Q Consensus 42 ~~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~ 85 (254)
...|.|..|+..+... .+ + .....|.|..|+..+
T Consensus 110 ~~~y~C~~C~~~~~~~------rr-~---~~~~~y~C~~C~g~l 143 (146)
T smart00731 110 KYPYRCTGCGQRYLRV------RR-S---NNVSRYRCGKCGGKL 143 (146)
T ss_pred eEEEECCCCCCCCceE------cc-c---cCcceEEcCCCCCEE
Confidence 3467888887655311 11 2 222567888887655
No 202
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.02 E-value=30 Score=23.15 Aligned_cols=11 Identities=27% Similarity=0.981 Sum_probs=5.3
Q ss_pred cccCCCcccCC
Q psy12195 162 FTCRRCPSTFL 172 (254)
Q Consensus 162 ~~C~~C~~~f~ 172 (254)
+.|..||..|.
T Consensus 72 ~~C~~Cg~~~~ 82 (117)
T PRK00564 72 LECKDCSHVFK 82 (117)
T ss_pred EEhhhCCCccc
Confidence 44555554443
No 203
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=30.98 E-value=2e+02 Score=20.55 Aligned_cols=57 Identities=16% Similarity=0.187 Sum_probs=31.1
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhhcCCCCCccCcc--hhhccCCchHHHHHHHHhcCCCCCC
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPY--CITDFSEDKNLIQHIVSVHLGKEGT 249 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~ 249 (254)
...||.|.-... .+.+....+..-+. |+-.|.. |.. ..+-..|..|++..|...+|-
T Consensus 80 ~L~CPLCRG~V~-GWtvve~AR~~LN~--K~RsC~~e~C~F-~GtY~eLrKHar~~HP~~rP~ 138 (162)
T PF07800_consen 80 ELACPLCRGEVK-GWTVVEPARRFLNA--KKRSCSQESCSF-SGTYSELRKHARSEHPSARPS 138 (162)
T ss_pred cccCccccCcee-ceEEchHHHHHhcc--CCccCccccccc-ccCHHHHHHHHHhhCCCCCCc
Confidence 467888863221 12222223322222 3333544 543 245677899998999888874
No 204
>PRK12496 hypothetical protein; Provisional
Probab=30.79 E-value=38 Score=24.25 Aligned_cols=11 Identities=18% Similarity=0.721 Sum_probs=8.6
Q ss_pred cccCCCcccCC
Q psy12195 162 FTCRRCPSTFL 172 (254)
Q Consensus 162 ~~C~~C~~~f~ 172 (254)
|.|..|++.|.
T Consensus 128 ~~C~gC~~~~~ 138 (164)
T PRK12496 128 KVCKGCKKKYP 138 (164)
T ss_pred EECCCCCcccc
Confidence 67888888875
No 205
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=30.65 E-value=16 Score=19.29 Aligned_cols=15 Identities=27% Similarity=0.680 Sum_probs=8.7
Q ss_pred CcccCCCCcccCCCH
Q psy12195 188 KSYQCNECPESFERL 202 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~ 202 (254)
-|+.|+.|++.|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 467888888888653
No 206
>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=30.01 E-value=7.1 Score=18.60 Aligned_cols=6 Identities=33% Similarity=0.429 Sum_probs=2.2
Q ss_pred cccccc
Q psy12195 139 MCSLVL 144 (254)
Q Consensus 139 ~C~~~f 144 (254)
.|++.|
T Consensus 5 DC~~~F 10 (28)
T PF08790_consen 5 DCSKDF 10 (28)
T ss_dssp TTTEEE
T ss_pred cCCCCc
Confidence 333333
No 207
>PRK04351 hypothetical protein; Provisional
Probab=29.72 E-value=25 Score=24.68 Aligned_cols=34 Identities=24% Similarity=0.592 Sum_probs=21.6
Q ss_pred ceeecCcCCcccCCCCccchhhhhccCCCCCCccccccccccccc
Q psy12195 43 FLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKTND 87 (254)
Q Consensus 43 ~~~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~~~ 87 (254)
..|.|..|+..+... ++ + ....|.|..|+..+..
T Consensus 111 y~Y~C~~Cg~~~~r~------Rr-~----n~~~yrCg~C~g~L~~ 144 (149)
T PRK04351 111 YLYECQSCGQQYLRK------RR-I----NTKRYRCGKCRGKLKL 144 (149)
T ss_pred EEEECCCCCCEeeee------ee-c----CCCcEEeCCCCcEeee
Confidence 568898888655332 11 2 2367889988866543
No 208
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=29.49 E-value=18 Score=27.48 Aligned_cols=25 Identities=16% Similarity=0.315 Sum_probs=0.0
Q ss_pred ceeeeecccccccCCCHHHHHhhhcc
Q psy12195 12 KVVIIRCETCTRNYESLESLTTHLSF 37 (254)
Q Consensus 12 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 37 (254)
+.....||+||...+ .+.|..||++
T Consensus 165 ~~~~~~cPitGe~IP-~~e~~eHmRi 189 (229)
T PF12230_consen 165 KEKMIICPITGEMIP-ADEMDEHMRI 189 (229)
T ss_dssp --------------------------
T ss_pred ccccccccccccccc-cccccccccc
Confidence 567789999999998 7889999997
No 209
>KOG0717|consensus
Probab=29.24 E-value=27 Score=29.38 Aligned_cols=21 Identities=29% Similarity=0.581 Sum_probs=17.0
Q ss_pred ccCcchhhccCCchHHHHHHH
Q psy12195 220 IQCPYCITDFSEDKNLIQHIV 240 (254)
Q Consensus 220 ~~C~~C~~~f~~~~~l~~H~~ 240 (254)
+.|.+|.|+|.+...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 668888888888888888853
No 210
>KOG0717|consensus
Probab=29.20 E-value=31 Score=29.01 Aligned_cols=21 Identities=33% Similarity=0.616 Sum_probs=18.8
Q ss_pred ccCCCCcccCCCHHHHHHHHH
Q psy12195 190 YQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 190 ~~C~~C~~~f~~~~~l~~H~~ 210 (254)
+.|.+|.|+|.+...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 889999999999999998864
No 211
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=28.57 E-value=14 Score=33.29 Aligned_cols=11 Identities=27% Similarity=0.652 Sum_probs=5.6
Q ss_pred CCcccCCCCcc
Q psy12195 187 SKSYQCNECPE 197 (254)
Q Consensus 187 ~~~~~C~~C~~ 197 (254)
..|..||.||.
T Consensus 473 ~~p~~Cp~Cgs 483 (730)
T COG1198 473 PIPQSCPECGS 483 (730)
T ss_pred CCCCCCCCCCC
Confidence 34555555553
No 212
>KOG2636|consensus
Probab=28.25 E-value=40 Score=28.24 Aligned_cols=28 Identities=18% Similarity=0.383 Sum_probs=22.6
Q ss_pred HhhCCCcccCCCCc-ccCCCHHHHHHHHH
Q psy12195 183 MEHNSKSYQCNECP-ESFERLNKLKRHKF 210 (254)
Q Consensus 183 ~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 210 (254)
.|--+..|.|.+|| +++....++.+|..
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHhH
Confidence 44556779999999 88888889999964
No 213
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=28.00 E-value=33 Score=16.94 Aligned_cols=12 Identities=25% Similarity=0.708 Sum_probs=7.6
Q ss_pred eeeecccccccC
Q psy12195 14 VIIRCETCTRNY 25 (254)
Q Consensus 14 ~~~~C~~C~~~f 25 (254)
+.|+|..|+..+
T Consensus 6 ~~ykC~~Cgniv 17 (34)
T TIGR00319 6 QVYKCEVCGNIV 17 (34)
T ss_pred cEEEcCCCCcEE
Confidence 466777776654
No 214
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=27.73 E-value=1.2e+02 Score=17.06 Aligned_cols=10 Identities=10% Similarity=0.039 Sum_probs=6.3
Q ss_pred cCcchhhccC
Q psy12195 221 QCPYCITDFS 230 (254)
Q Consensus 221 ~C~~C~~~f~ 230 (254)
.||.|++.++
T Consensus 37 ~cP~~~~~~~ 46 (63)
T smart00504 37 TDPVTGQPLT 46 (63)
T ss_pred CCCCCcCCCC
Confidence 4777766654
No 215
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=27.63 E-value=60 Score=18.23 Aligned_cols=11 Identities=18% Similarity=0.546 Sum_probs=5.2
Q ss_pred CCcccCCCCcc
Q psy12195 187 SKSYQCNECPE 197 (254)
Q Consensus 187 ~~~~~C~~C~~ 197 (254)
+....||.||+
T Consensus 44 ~~i~~Cp~CgR 54 (56)
T PF02591_consen 44 DEIVFCPNCGR 54 (56)
T ss_pred CCeEECcCCCc
Confidence 34444555543
No 216
>PHA02998 RNA polymerase subunit; Provisional
Probab=27.52 E-value=20 Score=25.79 Aligned_cols=14 Identities=14% Similarity=0.387 Sum_probs=7.2
Q ss_pred eeecCcCCcccCCC
Q psy12195 44 LMKCTNCNVLVPRD 57 (254)
Q Consensus 44 ~~~C~~C~~~~~~~ 57 (254)
.|.|..|+..|..+
T Consensus 171 FYkC~~CG~~wkpp 184 (195)
T PHA02998 171 RHACRDCKKHFKPP 184 (195)
T ss_pred EEEcCCCCCccCCc
Confidence 35555555554443
No 217
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.37 E-value=30 Score=20.00 Aligned_cols=39 Identities=13% Similarity=0.251 Sum_probs=21.0
Q ss_pred CCcccccCCCcccCCChHHHHHHHhHhhCCCcccCCCCcccCC
Q psy12195 158 HTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFE 200 (254)
Q Consensus 158 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 200 (254)
+..++.|+.=+..|....-+. .+ -.++...|++|+..|+
T Consensus 21 ~~~~l~C~g~~~p~~HPrV~L---~m-g~~gev~CPYC~t~y~ 59 (62)
T COG4391 21 GDLPLMCPGPEPPNDHPRVFL---DM-GDEGEVVCPYCSTRYR 59 (62)
T ss_pred CCeeEEcCCCCCCCCCCEEEE---Ec-CCCCcEecCccccEEE
Confidence 335666766555544332111 11 3455677888887775
No 218
>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=27.30 E-value=23 Score=20.00 Aligned_cols=12 Identities=25% Similarity=0.769 Sum_probs=8.1
Q ss_pred ccCcchhhccCC
Q psy12195 220 IQCPYCITDFSE 231 (254)
Q Consensus 220 ~~C~~C~~~f~~ 231 (254)
|+||.|+..+.-
T Consensus 3 ~~CP~CG~~iev 14 (54)
T TIGR01206 3 FECPDCGAEIEL 14 (54)
T ss_pred cCCCCCCCEEec
Confidence 578888776543
No 219
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=26.78 E-value=39 Score=23.09 Aligned_cols=23 Identities=30% Similarity=0.335 Sum_probs=16.8
Q ss_pred cccCCCCcccCCCHHHHHHHHHHhhc
Q psy12195 189 SYQCNECPESFERLNKLKRHKFQAHN 214 (254)
Q Consensus 189 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 214 (254)
...|-++|+.| .+|+||+..+++
T Consensus 76 ~IicLEDGkkf---KSLKRHL~t~~g 98 (148)
T COG4957 76 YIICLEDGKKF---KSLKRHLTTHYG 98 (148)
T ss_pred eEEEeccCcch---HHHHHHHhcccC
Confidence 35788888888 568888875444
No 220
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=26.71 E-value=62 Score=15.60 Aligned_cols=17 Identities=35% Similarity=0.630 Sum_probs=9.4
Q ss_pred eeeeecccccccCCCHH
Q psy12195 13 VVIIRCETCTRNYESLE 29 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~ 29 (254)
...|+|+.|+..+-+..
T Consensus 11 ~~kY~Cp~C~~~~CSl~ 27 (30)
T PF04438_consen 11 PAKYRCPRCGARYCSLA 27 (30)
T ss_dssp EESEE-TTT--EESSHH
T ss_pred CCEEECCCcCCceeCcE
Confidence 55688888887765544
No 221
>KOG4167|consensus
Probab=26.54 E-value=23 Score=31.56 Aligned_cols=21 Identities=19% Similarity=0.510 Sum_probs=14.2
Q ss_pred cccccccccccccHHHHHhHH
Q psy12195 75 IYECNQCKEKTNDMTTMLNHY 95 (254)
Q Consensus 75 ~~~C~~C~~~~~~~~~l~~h~ 95 (254)
.|.|.+|+++|....++..||
T Consensus 792 iFpCreC~kvF~KiKSrNAHM 812 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHM 812 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHH
Confidence 466777777776666666666
No 222
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=26.46 E-value=35 Score=16.84 Aligned_cols=11 Identities=27% Similarity=0.800 Sum_probs=5.2
Q ss_pred eeecccccccC
Q psy12195 15 IIRCETCTRNY 25 (254)
Q Consensus 15 ~~~C~~C~~~f 25 (254)
.|+|..|+...
T Consensus 4 ~ykC~~CGniv 14 (34)
T cd00974 4 VYKCEICGNIV 14 (34)
T ss_pred EEEcCCCCcEE
Confidence 45555554443
No 223
>KOG2272|consensus
Probab=26.24 E-value=65 Score=24.73 Aligned_cols=76 Identities=14% Similarity=0.307 Sum_probs=35.9
Q ss_pred hhccCCCCcccccchhhccChHHHHHH---------HHhhhccCCCcccccccccccCCHHHHHHHHHhcCCcccccCCC
Q psy12195 97 VKHYMDINMSCVPCDVLFHNKATLYKH---------LYLEHKATSLSIQCNMCSLVLDSKESLVTHISQTHTLMFTCRRC 167 (254)
Q Consensus 97 ~~h~~~~~~~C~~C~~~f~~~~~l~~H---------~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~~~~~~~~C~~C 167 (254)
+......-|.|+.|.+...+..-++.- .+...... -.|.|..|-..... ..|..-...-|.-.|+|..|
T Consensus 92 nnSwHp~CF~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~-g~YvC~KCh~~iD~-~~l~fr~d~yH~yHFkCt~C 169 (332)
T KOG2272|consen 92 NNSWHPACFRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGR-GRYVCQKCHAHIDE-QPLTFRGDPYHPYHFKCTTC 169 (332)
T ss_pred ccccCcccchhHHHHHHHhhhhhHhhcchHHhhhhhhhhccccc-ceeehhhhhhhccc-ccccccCCCCCccceecccc
Confidence 334445557788887766655444321 11111111 14566666544332 22221111223345778888
Q ss_pred cccCCCh
Q psy12195 168 PSTFLNS 174 (254)
Q Consensus 168 ~~~f~~~ 174 (254)
++.+.+.
T Consensus 170 ~keL~sd 176 (332)
T KOG2272|consen 170 GKELTSD 176 (332)
T ss_pred cccccch
Confidence 8777654
No 224
>PRK01343 zinc-binding protein; Provisional
Probab=25.92 E-value=35 Score=19.50 Aligned_cols=11 Identities=27% Similarity=0.679 Sum_probs=7.2
Q ss_pred cccCCCCcccC
Q psy12195 189 SYQCNECPESF 199 (254)
Q Consensus 189 ~~~C~~C~~~f 199 (254)
...|++|++.+
T Consensus 9 ~~~CP~C~k~~ 19 (57)
T PRK01343 9 TRPCPECGKPS 19 (57)
T ss_pred CCcCCCCCCcC
Confidence 35677777765
No 225
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.76 E-value=36 Score=20.63 Aligned_cols=10 Identities=30% Similarity=1.142 Sum_probs=5.1
Q ss_pred cccCCCcccC
Q psy12195 162 FTCRRCPSTF 171 (254)
Q Consensus 162 ~~C~~C~~~f 171 (254)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 4555555544
No 226
>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=25.70 E-value=47 Score=28.75 Aligned_cols=10 Identities=20% Similarity=0.687 Sum_probs=4.8
Q ss_pred CCcccCCCCc
Q psy12195 187 SKSYQCNECP 196 (254)
Q Consensus 187 ~~~~~C~~C~ 196 (254)
.+...|..||
T Consensus 238 ~~~l~Ch~Cg 247 (505)
T TIGR00595 238 EGKLRCHYCG 247 (505)
T ss_pred CCeEEcCCCc
Confidence 3444555555
No 227
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=25.64 E-value=45 Score=18.35 Aligned_cols=8 Identities=25% Similarity=1.066 Sum_probs=3.6
Q ss_pred ccccCCCc
Q psy12195 161 MFTCRRCP 168 (254)
Q Consensus 161 ~~~C~~C~ 168 (254)
.+.|..||
T Consensus 37 R~~CGkCg 44 (51)
T COG1998 37 RWACGKCG 44 (51)
T ss_pred eeEecccc
Confidence 34444444
No 228
>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=25.30 E-value=75 Score=16.15 Aligned_cols=12 Identities=25% Similarity=0.714 Sum_probs=5.9
Q ss_pred ccCcceeecCcC
Q psy12195 39 HSNQFLMKCTNC 50 (254)
Q Consensus 39 h~~~~~~~C~~C 50 (254)
..+...|.|..|
T Consensus 24 ~~G~qryrC~~C 35 (36)
T PF03811_consen 24 PSGHQRYRCKDC 35 (36)
T ss_pred CCCCEeEecCcC
Confidence 344445555554
No 229
>PTZ00448 hypothetical protein; Provisional
Probab=25.23 E-value=44 Score=27.27 Aligned_cols=25 Identities=12% Similarity=0.376 Sum_probs=22.4
Q ss_pred eeeecccccccCCCHHHHHhhhccc
Q psy12195 14 VIIRCETCTRNYESLESLTTHLSFK 38 (254)
Q Consensus 14 ~~~~C~~C~~~f~~~~~l~~H~~~~ 38 (254)
..|.|..|+..|.+....+.|+++.
T Consensus 313 ~~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 313 NMLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CCccccccccccCCHHHHHHHhhhh
Confidence 4689999999999999999999974
No 230
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=25.11 E-value=40 Score=21.95 Aligned_cols=9 Identities=33% Similarity=0.648 Sum_probs=4.5
Q ss_pred eeecccccc
Q psy12195 15 IIRCETCTR 23 (254)
Q Consensus 15 ~~~C~~C~~ 23 (254)
+-.|+.||.
T Consensus 2 p~~CpYCg~ 10 (102)
T PF11672_consen 2 PIICPYCGG 10 (102)
T ss_pred CcccCCCCC
Confidence 344555554
No 231
>PLN02294 cytochrome c oxidase subunit Vb
Probab=24.82 E-value=36 Score=24.36 Aligned_cols=15 Identities=40% Similarity=0.979 Sum_probs=11.6
Q ss_pred CCCcccCCCCcccCC
Q psy12195 186 NSKSYQCNECPESFE 200 (254)
Q Consensus 186 ~~~~~~C~~C~~~f~ 200 (254)
..+|+.|++||..|.
T Consensus 138 kGkp~RCpeCG~~fk 152 (174)
T PLN02294 138 KGKSFECPVCTQYFE 152 (174)
T ss_pred CCCceeCCCCCCEEE
Confidence 347888999998775
No 232
>KOG2857|consensus
Probab=24.66 E-value=38 Score=23.32 Aligned_cols=25 Identities=28% Similarity=0.542 Sum_probs=22.1
Q ss_pred ceeeeecccccccCCCHHHHHhhhc
Q psy12195 12 KVVIIRCETCTRNYESLESLTTHLS 36 (254)
Q Consensus 12 ~~~~~~C~~C~~~f~~~~~l~~H~~ 36 (254)
.+.-|+|+.|..-|-+...|+.|..
T Consensus 14 ~~~KYKCpkC~vPYCSl~CfKiHk~ 38 (157)
T KOG2857|consen 14 SEIKYKCPKCSVPYCSLPCFKIHKS 38 (157)
T ss_pred chhhccCCCCCCccccchhhhhccC
Confidence 3457999999999999999999976
No 233
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=24.66 E-value=1.1e+02 Score=15.31 Aligned_cols=8 Identities=50% Similarity=1.161 Sum_probs=4.5
Q ss_pred ccCcchhh
Q psy12195 220 IQCPYCIT 227 (254)
Q Consensus 220 ~~C~~C~~ 227 (254)
..||.|..
T Consensus 36 ~~Cp~C~~ 43 (45)
T cd00162 36 NTCPLCRT 43 (45)
T ss_pred CCCCCCCC
Confidence 44666654
No 234
>PRK00420 hypothetical protein; Validated
Probab=24.00 E-value=58 Score=21.63 Aligned_cols=9 Identities=11% Similarity=0.220 Sum_probs=4.1
Q ss_pred cccCCCccc
Q psy12195 162 FTCRRCPST 170 (254)
Q Consensus 162 ~~C~~C~~~ 170 (254)
..|+.||..
T Consensus 41 ~~Cp~Cg~~ 49 (112)
T PRK00420 41 VVCPVHGKV 49 (112)
T ss_pred eECCCCCCe
Confidence 344444443
No 235
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=23.93 E-value=8.6 Score=19.30 Aligned_cols=12 Identities=25% Similarity=0.531 Sum_probs=6.1
Q ss_pred CCCccCcchhhc
Q psy12195 217 VHQIQCPYCITD 228 (254)
Q Consensus 217 ~~~~~C~~C~~~ 228 (254)
...+.|+.|+..
T Consensus 20 r~R~vC~~Cg~I 31 (34)
T PF14803_consen 20 RERLVCPACGFI 31 (34)
T ss_dssp S-EEEETTTTEE
T ss_pred ccceECCCCCCE
Confidence 344566666643
No 236
>PRK12387 formate hydrogenlyase complex iron-sulfur subunit; Provisional
Probab=23.83 E-value=34 Score=24.87 Aligned_cols=17 Identities=18% Similarity=0.466 Sum_probs=10.3
Q ss_pred CcccCCCCcccCCCHHH
Q psy12195 188 KSYQCNECPESFERLNK 204 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~ 204 (254)
.++.|..||+.|.....
T Consensus 113 ~~~~C~~CG~~f~~~~~ 129 (180)
T PRK12387 113 ALCNCRVCGRPFAVQKE 129 (180)
T ss_pred CcccchhhCCccccHHH
Confidence 45567777776665543
No 237
>PLN03239 histone acetyltransferase; Provisional
Probab=23.68 E-value=85 Score=25.57 Aligned_cols=24 Identities=17% Similarity=0.174 Sum_probs=21.5
Q ss_pred eeeeecccccccCCCHHHHHhhhc
Q psy12195 13 VVIIRCETCTRNYESLESLTTHLS 36 (254)
Q Consensus 13 ~~~~~C~~C~~~f~~~~~l~~H~~ 36 (254)
+..|.|..|-+-|.+...|..|+.
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~ 127 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQA 127 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHH
Confidence 679999999999999999998875
No 238
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=23.63 E-value=19 Score=20.43 Aligned_cols=38 Identities=29% Similarity=0.539 Sum_probs=19.9
Q ss_pred eecCcCCcccCCCCccchhhhhccCCCCCCcccccccccc
Q psy12195 45 MKCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEK 84 (254)
Q Consensus 45 ~~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~ 84 (254)
++|..|++.+.-.+......+... .....|-|..|...
T Consensus 3 vkC~lCdk~~~Id~~~~~aKrLrn--rPi~tYmC~eC~~R 40 (56)
T PF09963_consen 3 VKCILCDKKEEIDEDTPEAKRLRN--RPIHTYMCDECKER 40 (56)
T ss_pred eEEEecCCEEEeccCCHHHHHhhc--CCCcceeChhHHHH
Confidence 567778776655443332221110 24456778888544
No 239
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=23.55 E-value=1e+02 Score=29.86 Aligned_cols=12 Identities=25% Similarity=0.509 Sum_probs=8.5
Q ss_pred eeeecccccccC
Q psy12195 14 VIIRCETCTRNY 25 (254)
Q Consensus 14 ~~~~C~~C~~~f 25 (254)
..++||.||...
T Consensus 666 ~~rkCPkCG~~t 677 (1337)
T PRK14714 666 GRRRCPSCGTET 677 (1337)
T ss_pred EEEECCCCCCcc
Confidence 357788888754
No 240
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=23.41 E-value=12 Score=20.32 Aligned_cols=6 Identities=33% Similarity=1.066 Sum_probs=2.4
Q ss_pred cccchh
Q psy12195 107 CVPCDV 112 (254)
Q Consensus 107 C~~C~~ 112 (254)
||.||.
T Consensus 2 CP~Cg~ 7 (47)
T PF04606_consen 2 CPHCGS 7 (47)
T ss_pred cCCCCC
Confidence 344433
No 241
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=23.19 E-value=76 Score=16.64 Aligned_cols=8 Identities=38% Similarity=1.343 Sum_probs=4.6
Q ss_pred CccCcchh
Q psy12195 219 QIQCPYCI 226 (254)
Q Consensus 219 ~~~C~~C~ 226 (254)
...||+|+
T Consensus 36 ~~~CP~C~ 43 (44)
T PF14634_consen 36 SVKCPICR 43 (44)
T ss_pred CCCCcCCC
Confidence 45566665
No 242
>KOG3002|consensus
Probab=22.57 E-value=1.3e+02 Score=24.07 Aligned_cols=79 Identities=19% Similarity=0.380 Sum_probs=44.6
Q ss_pred cccccccccccCCHHHHHHHHHhcCCcccccC----CCcccCCChHHHHHHHhHhhCCCcccCCCCccc--C-CCHHHHH
Q psy12195 134 SIQCNMCSLVLDSKESLVTHISQTHTLMFTCR----RCPSTFLNSATLSKHVKMEHNSKSYQCNECPES--F-ERLNKLK 206 (254)
Q Consensus 134 ~~~C~~C~~~f~~~~~l~~h~~~~~~~~~~C~----~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~--f-~~~~~l~ 206 (254)
..+|+.|...+.+...+..-.. .......|+ .|.+.|..... ..|.+.... +||.||+=|-. + .....|.
T Consensus 80 ~~~CP~Cr~~~g~~R~~amEkV-~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C~f-~~~~CP~p~~~C~~~G~~~~l~ 156 (299)
T KOG3002|consen 80 SNKCPTCRLPIGNIRCRAMEKV-AEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVCEF-RPCSCPVPGAECKYTGSYKDLY 156 (299)
T ss_pred cccCCccccccccHHHHHHHHH-HHhceecccccccCCceeeccccc-ccccccccc-CCcCCCCCcccCCccCcHHHHH
Confidence 4568888777765544332221 222344454 47777765544 555555555 77888776322 2 2345677
Q ss_pred HHHHHhhcC
Q psy12195 207 RHKFQAHND 215 (254)
Q Consensus 207 ~H~~~~h~~ 215 (254)
.|....|..
T Consensus 157 ~H~~~~hk~ 165 (299)
T KOG3002|consen 157 AHLNDTHKS 165 (299)
T ss_pred HHHHhhChh
Confidence 787766655
No 243
>KOG4727|consensus
Probab=22.47 E-value=48 Score=23.73 Aligned_cols=23 Identities=17% Similarity=0.310 Sum_probs=19.6
Q ss_pred CcccCCCCcccCCCHHHHHHHHH
Q psy12195 188 KSYQCNECPESFERLNKLKRHKF 210 (254)
Q Consensus 188 ~~~~C~~C~~~f~~~~~l~~H~~ 210 (254)
.-|.|.+|+-.|....+++.|+.
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred CceeeeecceeehhhHHHHHHhc
Confidence 45889999999999999999873
No 244
>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=22.34 E-value=25 Score=23.32 Aligned_cols=11 Identities=36% Similarity=0.824 Sum_probs=5.3
Q ss_pred cccCCCcccCC
Q psy12195 162 FTCRRCPSTFL 172 (254)
Q Consensus 162 ~~C~~C~~~f~ 172 (254)
..|..||..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PF01155_consen 71 ARCRDCGHEFE 81 (113)
T ss_dssp EEETTTS-EEE
T ss_pred EECCCCCCEEe
Confidence 44555555554
No 245
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=22.01 E-value=1e+02 Score=15.85 Aligned_cols=11 Identities=27% Similarity=0.881 Sum_probs=3.4
Q ss_pred cccCCCCcccC
Q psy12195 189 SYQCNECPESF 199 (254)
Q Consensus 189 ~~~C~~C~~~f 199 (254)
.|-|.+|+..|
T Consensus 3 ryyCdyC~~~~ 13 (38)
T PF06220_consen 3 RYYCDYCKKYL 13 (38)
T ss_dssp S-B-TTT--B-
T ss_pred Ceeccccccee
Confidence 35566666666
No 246
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=21.97 E-value=30 Score=31.61 Aligned_cols=10 Identities=30% Similarity=0.916 Sum_probs=0.0
Q ss_pred cCcchhhccC
Q psy12195 221 QCPYCITDFS 230 (254)
Q Consensus 221 ~C~~C~~~f~ 230 (254)
.|+.|+....
T Consensus 694 ~C~~C~~~~~ 703 (900)
T PF03833_consen 694 ECPKCGRETT 703 (900)
T ss_dssp ----------
T ss_pred ccccccccCc
Confidence 4666665433
No 247
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=21.63 E-value=45 Score=18.65 Aligned_cols=9 Identities=44% Similarity=0.944 Sum_probs=5.8
Q ss_pred cCCCCcccC
Q psy12195 191 QCNECPESF 199 (254)
Q Consensus 191 ~C~~C~~~f 199 (254)
.||+||..+
T Consensus 2 ~CPyCge~~ 10 (52)
T PF14255_consen 2 QCPYCGEPI 10 (52)
T ss_pred CCCCCCCee
Confidence 577777655
No 248
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=21.57 E-value=66 Score=22.56 Aligned_cols=8 Identities=38% Similarity=1.090 Sum_probs=4.6
Q ss_pred eecCcCCc
Q psy12195 45 MKCTNCNV 52 (254)
Q Consensus 45 ~~C~~C~~ 52 (254)
|.|..||.
T Consensus 113 l~C~~Cg~ 120 (146)
T PF07295_consen 113 LVCENCGH 120 (146)
T ss_pred EecccCCC
Confidence 56666653
No 249
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=21.54 E-value=58 Score=16.36 Aligned_cols=17 Identities=24% Similarity=0.436 Sum_probs=8.8
Q ss_pred eecCcCCcccCCCCccc
Q psy12195 45 MKCTNCNVLVPRDEILP 61 (254)
Q Consensus 45 ~~C~~C~~~~~~~~~l~ 61 (254)
-.|..|++.|...-.+.
T Consensus 4 ~~C~eC~~~f~dSyL~~ 20 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLN 20 (34)
T ss_dssp EE-TTT--EES-SSCCC
T ss_pred chHhHhCCHHHHHHHHH
Confidence 36888888887775443
No 250
>PF12156 ATPase-cat_bd: Putative metal-binding domain of cation transport ATPase; InterPro: IPR021993 This domain is found in bacteria, and is approximately 90 amino acids in length. It is found associated with PF00403 from PFAM, PF00122 from PFAM, PF00702 from PFAM. The cysteine-rich nature and composition suggest this might be a cation-binding domain; most members are annotated as being cation transport ATPases.
Probab=21.22 E-value=39 Score=21.24 Aligned_cols=36 Identities=19% Similarity=0.414 Sum_probs=21.1
Q ss_pred ecCcCCcccCCCCccchhhhhccCCCCCCcccccccccccc
Q psy12195 46 KCTNCNVLVPRDEILPHLSIQHCQGTTPSIYECNQCKEKTN 86 (254)
Q Consensus 46 ~C~~C~~~~~~~~~l~~~~~~h~~~~~~~~~~C~~C~~~~~ 86 (254)
.|..||..++....+..... .....|-|..|..++.
T Consensus 2 ~C~HCg~~~p~~~~~~~~~~-----g~~~~FCC~GC~~V~~ 37 (88)
T PF12156_consen 2 KCYHCGLPVPEGAKITVEID-----GEERPFCCPGCQAVYQ 37 (88)
T ss_pred CCCCCCCCCCCCCCeeeeeC-----CCccccccHHHHHHHH
Confidence 47777777764443332221 3456788888865543
No 251
>PTZ00448 hypothetical protein; Provisional
Probab=20.73 E-value=68 Score=26.28 Aligned_cols=24 Identities=21% Similarity=0.391 Sum_probs=19.8
Q ss_pred CccCcchhhccCCchHHHHHHHHh
Q psy12195 219 QIQCPYCITDFSEDKNLIQHIVSV 242 (254)
Q Consensus 219 ~~~C~~C~~~f~~~~~l~~H~~~~ 242 (254)
.|.|..|+..|.+......|+++.
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 588999999998888888887553
No 252
>KOG3214|consensus
Probab=20.43 E-value=41 Score=21.62 Aligned_cols=14 Identities=21% Similarity=0.560 Sum_probs=9.5
Q ss_pred ccCcchhhccCCch
Q psy12195 220 IQCPYCITDFSEDK 233 (254)
Q Consensus 220 ~~C~~C~~~f~~~~ 233 (254)
..|.+|+.+|.+.-
T Consensus 48 ~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 48 ASCRICEESFQTTI 61 (109)
T ss_pred eeeeehhhhhccch
Confidence 45777877777643
No 253
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=20.25 E-value=1e+02 Score=17.48 Aligned_cols=17 Identities=24% Similarity=0.731 Sum_probs=11.6
Q ss_pred cCcchhhccCCchHHHH
Q psy12195 221 QCPYCITDFSEDKNLIQ 237 (254)
Q Consensus 221 ~C~~C~~~f~~~~~l~~ 237 (254)
-|-.||..|.+...|..
T Consensus 29 YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 29 YCFWCGTKYDDEEDLER 45 (55)
T ss_pred eeeeeCCccCCHHHHHh
Confidence 37777777777776643
No 254
>PTZ00064 histone acetyltransferase; Provisional
Probab=20.23 E-value=1.2e+02 Score=26.19 Aligned_cols=26 Identities=27% Similarity=0.314 Sum_probs=23.5
Q ss_pred ceeeeecccccccCCCHHHHHhhhcc
Q psy12195 12 KVVIIRCETCTRNYESLESLTTHLSF 37 (254)
Q Consensus 12 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 37 (254)
-+..|.|..|-+-|.+...|.+|+..
T Consensus 277 ~d~LYICEfCLkY~~s~~~l~rH~~~ 302 (552)
T PTZ00064 277 VDTLHFCEYCLDFFCFEDELIRHLSR 302 (552)
T ss_pred CCeEEEccchhhhhCCHHHHHHHHhc
Confidence 47899999999999999999999874
No 255
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=20.11 E-value=29 Score=24.36 Aligned_cols=11 Identities=27% Similarity=1.050 Sum_probs=6.0
Q ss_pred cccCCCCcccC
Q psy12195 189 SYQCNECPESF 199 (254)
Q Consensus 189 ~~~C~~C~~~f 199 (254)
.|.|+.|+..+
T Consensus 123 ~~~C~~C~~~~ 133 (157)
T PF10263_consen 123 VYRCPSCGREY 133 (157)
T ss_pred EEEcCCCCCEe
Confidence 45566666544
Done!