Query psy14386
Match_columns 344
No_of_seqs 381 out of 3508
Neff 10.0
Searched_HMMs 46136
Date Fri Aug 16 18:32:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14386.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14386hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 6.4E-36 1.4E-40 276.1 8.2 149 196-344 606-930 (958)
2 KOG2462|consensus 100.0 8.6E-33 1.9E-37 226.9 10.7 136 136-273 127-265 (279)
3 KOG2462|consensus 100.0 1.3E-32 2.8E-37 225.9 6.0 110 166-277 129-241 (279)
4 KOG3608|consensus 99.9 7.9E-27 1.7E-31 196.6 9.4 188 141-343 181-374 (467)
5 KOG3608|consensus 99.9 8.8E-24 1.9E-28 178.3 9.9 189 140-344 135-344 (467)
6 KOG3623|consensus 99.9 1.5E-24 3.3E-29 198.0 4.3 77 252-342 895-971 (1007)
7 KOG1074|consensus 99.9 7.3E-25 1.6E-29 203.3 1.2 111 223-343 605-731 (958)
8 KOG3623|consensus 99.9 4.3E-23 9.3E-28 188.6 3.6 78 139-216 240-330 (1007)
9 KOG3576|consensus 99.8 1.1E-19 2.3E-24 142.3 3.6 111 167-277 117-238 (267)
10 KOG3576|consensus 99.8 6.1E-19 1.3E-23 138.2 7.7 116 136-251 114-240 (267)
11 PLN03086 PRLI-interacting fact 99.5 3.6E-14 7.8E-19 131.5 9.2 134 140-293 408-553 (567)
12 PLN03086 PRLI-interacting fact 99.4 2.2E-13 4.8E-18 126.4 8.0 150 168-341 408-560 (567)
13 PHA00733 hypothetical protein 99.3 2.1E-12 4.6E-17 98.2 4.3 82 193-276 38-124 (128)
14 KOG3993|consensus 99.2 1.9E-12 4.1E-17 112.8 -0.8 175 168-342 268-479 (500)
15 PHA00733 hypothetical protein 99.2 2.8E-11 6.1E-16 92.0 5.7 96 152-249 25-125 (128)
16 PHA02768 hypothetical protein; 99.1 2.5E-11 5.4E-16 75.8 2.0 42 224-267 6-47 (55)
17 PHA02768 hypothetical protein; 99.1 3.1E-11 6.7E-16 75.3 1.6 42 295-338 7-48 (55)
18 KOG3993|consensus 99.1 1.9E-11 4E-16 106.7 -0.2 138 138-275 266-482 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 99.0 2.2E-10 4.7E-15 61.3 1.9 26 308-333 1-26 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.9 9.2E-10 2E-14 58.8 2.6 26 238-263 1-26 (26)
21 PHA00616 hypothetical protein 98.6 2.1E-08 4.5E-13 59.6 1.9 34 223-256 1-34 (44)
22 PHA00732 hypothetical protein 98.5 8.2E-08 1.8E-12 66.1 2.9 46 223-274 1-47 (79)
23 PHA00616 hypothetical protein 98.5 6.3E-08 1.4E-12 57.5 1.6 33 251-285 1-33 (44)
24 PHA00732 hypothetical protein 98.4 3.4E-07 7.3E-12 63.1 3.1 47 195-247 1-48 (79)
25 PF00096 zf-C2H2: Zinc finger, 98.2 5.3E-07 1.2E-11 46.7 0.9 23 322-344 1-23 (23)
26 PF05605 zf-Di19: Drought indu 98.1 4.2E-06 9E-11 53.5 4.5 25 252-277 3-27 (54)
27 PF05605 zf-Di19: Drought indu 98.1 4.9E-06 1.1E-10 53.2 4.4 49 224-275 3-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 98.0 3.6E-06 7.8E-11 43.5 2.2 22 252-273 1-22 (23)
29 PF12756 zf-C2H2_2: C2H2 type 97.9 5.5E-06 1.2E-10 60.6 2.1 24 253-276 1-24 (100)
30 PF13912 zf-C2H2_6: C2H2-type 97.8 7.4E-06 1.6E-10 44.2 1.4 24 321-344 1-24 (27)
31 COG5189 SFP1 Putative transcri 97.8 3.6E-06 7.8E-11 71.5 -0.2 71 248-341 346-418 (423)
32 COG5189 SFP1 Putative transcri 97.8 5.9E-06 1.3E-10 70.2 0.7 52 221-272 347-419 (423)
33 PF13894 zf-C2H2_4: C2H2-type 97.7 1.2E-05 2.5E-10 41.9 1.1 23 322-344 1-23 (24)
34 PF13894 zf-C2H2_4: C2H2-type 97.7 2.7E-05 5.8E-10 40.5 2.4 23 252-274 1-23 (24)
35 PF13912 zf-C2H2_6: C2H2-type 97.6 3.5E-05 7.5E-10 41.5 1.9 25 251-275 1-25 (27)
36 PF12756 zf-C2H2_2: C2H2 type 97.6 3.7E-05 8E-10 56.2 2.6 24 251-274 50-73 (100)
37 smart00355 ZnF_C2H2 zinc finge 97.4 9.2E-05 2E-09 39.1 1.8 23 322-344 1-23 (26)
38 KOG2231|consensus 97.4 0.00034 7.3E-09 66.8 6.5 137 169-325 117-275 (669)
39 KOG2231|consensus 97.1 0.0013 2.7E-08 63.0 6.9 143 168-343 100-261 (669)
40 PF09237 GAGA: GAGA factor; I 97.1 0.00057 1.2E-08 41.6 2.8 29 222-250 23-51 (54)
41 PF12874 zf-met: Zinc-finger o 97.1 0.00021 4.6E-09 37.5 0.8 22 322-343 1-22 (25)
42 PRK04860 hypothetical protein; 97.0 0.00043 9.3E-09 54.8 2.2 38 223-264 119-156 (160)
43 smart00355 ZnF_C2H2 zinc finge 97.0 0.00085 1.8E-08 35.3 2.6 19 254-272 3-21 (26)
44 COG5048 FOG: Zn-finger [Genera 96.9 0.00015 3.2E-09 67.9 -1.3 153 167-331 289-456 (467)
45 KOG2785|consensus 96.8 0.0027 5.9E-08 56.0 6.1 47 296-342 169-241 (390)
46 PF13909 zf-H2C2_5: C2H2-type 96.8 0.0012 2.5E-08 34.3 2.1 23 252-275 1-23 (24)
47 COG5048 FOG: Zn-finger [Genera 96.7 0.00035 7.5E-09 65.4 -0.6 141 194-344 288-441 (467)
48 PRK04860 hypothetical protein; 96.6 0.0012 2.7E-08 52.1 2.4 39 194-236 118-156 (160)
49 PF09237 GAGA: GAGA factor; I 96.6 0.0028 6.1E-08 38.7 2.9 29 166-194 23-51 (54)
50 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.0011 2.3E-08 35.5 0.9 22 322-343 2-23 (27)
51 PF13909 zf-H2C2_5: C2H2-type 96.5 0.002 4.2E-08 33.4 1.8 23 224-247 1-23 (24)
52 PF12874 zf-met: Zinc-finger o 96.4 0.0027 5.9E-08 33.2 1.9 23 252-274 1-23 (25)
53 KOG1146|consensus 96.3 0.0011 2.4E-08 67.1 0.5 139 204-342 445-639 (1406)
54 KOG1146|consensus 96.1 0.0023 5.1E-08 64.9 1.4 134 141-274 438-641 (1406)
55 KOG2482|consensus 95.7 0.044 9.5E-07 47.8 7.0 51 224-274 280-357 (423)
56 PF12171 zf-C2H2_jaz: Zinc-fin 95.4 0.005 1.1E-07 32.9 0.4 22 252-273 2-23 (27)
57 PF13913 zf-C2HC_2: zinc-finge 95.2 0.014 3E-07 30.5 1.6 19 323-342 4-22 (25)
58 PF13913 zf-C2HC_2: zinc-finge 94.8 0.022 4.7E-07 29.8 1.7 19 296-315 5-23 (25)
59 smart00451 ZnF_U1 U1-like zinc 94.7 0.02 4.3E-07 32.6 1.6 23 321-343 3-25 (35)
60 TIGR00622 ssl1 transcription f 94.6 0.052 1.1E-06 39.8 3.8 48 225-274 57-104 (112)
61 COG5236 Uncharacterized conser 94.6 0.028 6.1E-07 48.9 2.7 20 226-245 223-242 (493)
62 KOG2785|consensus 94.0 0.23 4.9E-06 44.3 7.2 135 139-273 3-242 (390)
63 COG5236 Uncharacterized conser 93.6 0.12 2.6E-06 45.2 4.7 131 140-277 152-307 (493)
64 KOG4173|consensus 93.6 0.045 9.6E-07 44.1 2.0 84 221-317 77-171 (253)
65 TIGR00622 ssl1 transcription f 93.5 0.1 2.2E-06 38.3 3.5 85 166-258 14-110 (112)
66 smart00451 ZnF_U1 U1-like zinc 93.3 0.076 1.6E-06 30.1 2.1 23 251-273 3-25 (35)
67 cd00350 rubredoxin_like Rubred 92.8 0.054 1.2E-06 30.4 1.0 9 250-258 16-24 (33)
68 PF12013 DUF3505: Protein of u 92.8 0.19 4.1E-06 37.2 4.3 25 252-276 81-109 (109)
69 KOG2482|consensus 92.5 0.16 3.4E-06 44.5 3.9 107 140-246 145-357 (423)
70 PF10571 UPF0547: Uncharacteri 91.1 0.15 3.4E-06 26.8 1.4 21 284-304 3-25 (26)
71 PF06524 NOA36: NOA36 protein; 89.9 0.13 2.7E-06 43.2 0.8 92 246-344 137-232 (314)
72 KOG4173|consensus 89.3 0.17 3.7E-06 40.9 1.0 74 168-244 80-167 (253)
73 KOG2893|consensus 89.1 0.11 2.4E-06 42.9 -0.1 42 226-271 13-54 (341)
74 PF09538 FYDLN_acid: Protein o 87.8 0.26 5.6E-06 36.2 1.1 13 320-332 25-37 (108)
75 PF13719 zinc_ribbon_5: zinc-r 87.7 0.41 8.8E-06 27.6 1.7 11 251-261 25-35 (37)
76 TIGR02098 MJ0042_CXXC MJ0042 f 87.6 0.37 8E-06 27.9 1.5 10 252-261 26-35 (38)
77 PF12013 DUF3505: Protein of u 87.5 1.3 2.8E-05 32.7 4.7 25 224-248 81-109 (109)
78 COG4049 Uncharacterized protei 87.5 0.28 6.1E-06 30.6 0.9 30 247-276 13-42 (65)
79 PF09986 DUF2225: Uncharacteri 87.1 0.14 3.1E-06 42.9 -0.7 24 249-272 3-26 (214)
80 cd00729 rubredoxin_SM Rubredox 87.0 0.31 6.7E-06 27.5 0.9 9 224-232 3-11 (34)
81 PRK04023 DNA polymerase II lar 87.0 0.61 1.3E-05 47.1 3.4 24 280-303 650-673 (1121)
82 PRK14890 putative Zn-ribbon RN 86.5 0.25 5.4E-06 31.5 0.4 8 252-259 26-33 (59)
83 KOG2893|consensus 86.3 0.26 5.5E-06 40.9 0.4 33 250-289 10-42 (341)
84 PF13717 zinc_ribbon_4: zinc-r 86.2 0.57 1.2E-05 26.8 1.7 10 251-260 25-34 (36)
85 KOG1842|consensus 86.1 0.48 1E-05 43.1 2.0 26 222-247 14-39 (505)
86 KOG4124|consensus 85.5 0.12 2.6E-06 45.2 -1.9 29 158-187 204-232 (442)
87 PF09986 DUF2225: Uncharacteri 85.5 0.19 4.2E-06 42.1 -0.7 43 222-264 4-61 (214)
88 PF02892 zf-BED: BED zinc fing 84.8 0.66 1.4E-05 28.0 1.7 23 319-341 14-40 (45)
89 PF01352 KRAB: KRAB box; Inte 84.8 0.34 7.3E-06 28.7 0.3 21 33-53 18-38 (41)
90 COG4049 Uncharacterized protei 84.6 0.45 9.7E-06 29.7 0.8 27 219-245 13-39 (65)
91 COG1198 PriA Primosomal protei 83.4 0.77 1.7E-05 45.6 2.3 15 316-330 470-484 (730)
92 COG2888 Predicted Zn-ribbon RN 82.6 0.97 2.1E-05 28.8 1.7 14 251-264 27-40 (61)
93 smart00614 ZnF_BED BED zinc fi 81.9 0.83 1.8E-05 28.3 1.3 9 296-304 21-29 (50)
94 PF05443 ROS_MUCR: ROS/MUCR tr 81.8 0.78 1.7E-05 35.0 1.3 23 296-321 75-97 (132)
95 smart00659 RPOLCX RNA polymera 81.6 0.94 2E-05 27.3 1.4 11 224-234 3-13 (44)
96 PHA00626 hypothetical protein 81.5 0.84 1.8E-05 28.6 1.1 12 321-332 23-34 (59)
97 PRK00398 rpoP DNA-directed RNA 80.7 0.73 1.6E-05 28.0 0.7 9 282-290 4-12 (46)
98 smart00531 TFIIE Transcription 80.7 1.4 3E-05 34.5 2.5 14 194-207 98-111 (147)
99 PF09845 DUF2072: Zn-ribbon co 80.6 1 2.2E-05 34.0 1.5 14 251-264 1-14 (131)
100 TIGR02300 FYDLN_acid conserved 80.3 0.99 2.1E-05 33.8 1.4 23 283-305 11-38 (129)
101 TIGR00373 conserved hypothetic 79.6 1.7 3.7E-05 34.5 2.7 35 190-233 104-138 (158)
102 TIGR00373 conserved hypothetic 79.3 2.4 5.3E-05 33.6 3.4 35 162-205 104-138 (158)
103 KOG2807|consensus 78.4 2.9 6.3E-05 36.6 3.8 24 251-274 345-368 (378)
104 COG1996 RPC10 DNA-directed RNA 78.3 0.75 1.6E-05 28.3 0.2 10 252-261 7-16 (49)
105 COG1592 Rubrerythrin [Energy p 78.2 1.6 3.4E-05 34.8 2.0 23 195-230 134-156 (166)
106 PRK14714 DNA polymerase II lar 77.7 2 4.4E-05 44.7 3.1 21 281-301 692-717 (1337)
107 PRK00464 nrdR transcriptional 77.6 0.45 9.8E-06 37.4 -1.1 12 252-263 29-40 (154)
108 PF06524 NOA36: NOA36 protein; 77.3 0.85 1.8E-05 38.4 0.3 28 248-275 206-233 (314)
109 PF13240 zinc_ribbon_2: zinc-r 76.4 1.9 4.1E-05 21.9 1.3 6 296-301 16-21 (23)
110 TIGR02300 FYDLN_acid conserved 75.3 1.8 3.9E-05 32.5 1.5 12 280-291 25-36 (129)
111 KOG2186|consensus 75.0 2.2 4.8E-05 35.9 2.2 55 195-252 3-57 (276)
112 COG1997 RPL43A Ribosomal prote 74.6 1.8 3.9E-05 30.0 1.2 11 280-290 34-44 (89)
113 smart00834 CxxC_CXXC_SSSS Puta 74.5 1 2.3E-05 26.4 0.1 12 252-263 6-17 (41)
114 PRK06266 transcription initiat 74.3 3.3 7.1E-05 33.6 3.0 16 167-182 117-132 (178)
115 PF03604 DNA_RNApol_7kD: DNA d 74.2 1.7 3.7E-05 24.1 0.9 11 252-262 1-11 (32)
116 smart00734 ZnF_Rad18 Rad18-lik 74.1 2.4 5.3E-05 22.2 1.4 19 323-342 3-21 (26)
117 COG3364 Zn-ribbon containing p 73.2 1.8 3.9E-05 30.9 1.0 13 251-263 2-14 (112)
118 PRK06266 transcription initiat 73.1 3 6.5E-05 33.8 2.5 33 192-233 114-146 (178)
119 smart00531 TFIIE Transcription 72.8 4.3 9.4E-05 31.8 3.3 38 164-205 96-133 (147)
120 KOG2186|consensus 72.8 2 4.2E-05 36.3 1.3 54 168-224 4-57 (276)
121 PF09723 Zn-ribbon_8: Zinc rib 72.3 1.1 2.5E-05 26.6 -0.1 13 252-264 6-18 (42)
122 TIGR02605 CxxC_CxxC_SSSS putat 72.1 0.89 1.9E-05 28.4 -0.6 7 253-259 7-13 (52)
123 COG1592 Rubrerythrin [Energy p 72.1 2.2 4.8E-05 33.9 1.4 13 316-328 144-156 (166)
124 PF05443 ROS_MUCR: ROS/MUCR tr 72.0 2.2 4.7E-05 32.6 1.3 22 196-220 73-94 (132)
125 PF02176 zf-TRAF: TRAF-type zi 71.5 1.4 3.1E-05 28.3 0.2 41 222-263 8-54 (60)
126 PRK09678 DNA-binding transcrip 70.3 1.1 2.5E-05 30.1 -0.5 17 248-264 24-42 (72)
127 PF07282 OrfB_Zn_ribbon: Putat 70.1 3.5 7.5E-05 27.5 1.9 34 290-333 25-58 (69)
128 PRK00464 nrdR transcriptional 69.7 0.61 1.3E-05 36.7 -2.1 14 168-181 29-42 (154)
129 COG0068 HypF Hydrogenase matur 69.3 0.82 1.8E-05 44.5 -1.8 28 296-329 154-181 (750)
130 PRK12496 hypothetical protein; 68.9 2.6 5.7E-05 33.7 1.3 11 252-262 128-138 (164)
131 COG4530 Uncharacterized protei 68.9 3.4 7.3E-05 29.9 1.6 13 319-331 24-36 (129)
132 PRK14559 putative protein seri 68.8 5.3 0.00012 39.4 3.5 24 283-306 29-54 (645)
133 PF13248 zf-ribbon_3: zinc-rib 68.8 3.8 8.2E-05 21.4 1.5 20 283-302 4-25 (26)
134 KOG2807|consensus 68.7 8.2 0.00018 34.0 4.2 31 222-258 344-374 (378)
135 PF14353 CpXC: CpXC protein 68.0 2.2 4.8E-05 32.5 0.7 11 253-263 3-13 (128)
136 KOG4167|consensus 67.8 1.4 3.1E-05 42.8 -0.6 24 321-344 792-815 (907)
137 PRK09678 DNA-binding transcrip 66.8 1.3 2.9E-05 29.8 -0.7 18 317-334 23-42 (72)
138 PRK03564 formate dehydrogenase 66.1 1.7 3.7E-05 38.5 -0.4 47 280-330 211-261 (309)
139 KOG1280|consensus 65.7 1.7 3.7E-05 38.3 -0.4 36 293-328 79-116 (381)
140 COG4957 Predicted transcriptio 65.3 3.4 7.3E-05 31.2 1.1 23 296-321 79-101 (148)
141 PF15135 UPF0515: Uncharacteri 64.7 6.3 0.00014 33.2 2.7 83 206-303 90-184 (278)
142 KOG2272|consensus 63.8 2.5 5.3E-05 35.6 0.2 16 320-335 220-235 (332)
143 PF12773 DZR: Double zinc ribb 63.7 6.8 0.00015 24.0 2.2 21 280-300 28-50 (50)
144 PRK14714 DNA polymerase II lar 62.7 4.9 0.00011 42.1 2.1 21 282-302 668-688 (1337)
145 smart00504 Ubox Modified RING 62.5 10 0.00023 24.3 3.0 46 282-333 2-47 (63)
146 TIGR00595 priA primosomal prot 62.4 5.5 0.00012 38.2 2.3 23 280-302 239-262 (505)
147 PF07754 DUF1610: Domain of un 61.1 5.1 0.00011 20.6 1.0 7 322-328 17-23 (24)
148 PF04216 FdhE: Protein involve 61.0 0.65 1.4E-05 41.0 -3.9 34 295-329 213-246 (290)
149 COG1773 Rubredoxin [Energy pro 61.0 4.3 9.2E-05 25.7 0.8 13 251-263 3-15 (55)
150 PRK14559 putative protein seri 60.1 11 0.00023 37.3 3.8 20 283-302 17-36 (645)
151 KOG3362|consensus 59.4 2.9 6.4E-05 31.9 -0.1 30 284-314 121-150 (156)
152 KOG0717|consensus 59.2 38 0.00082 31.6 6.8 25 137-161 458-482 (508)
153 PF04438 zf-HIT: HIT zinc fing 59.1 2.8 6.1E-05 22.9 -0.2 19 283-302 4-22 (30)
154 COG5188 PRP9 Splicing factor 3 58.9 9.8 0.00021 33.8 3.0 29 244-272 367-396 (470)
155 PF04959 ARS2: Arsenite-resist 58.7 4.5 9.7E-05 33.8 0.9 28 222-249 76-103 (214)
156 cd00730 rubredoxin Rubredoxin; 57.3 6.8 0.00015 24.3 1.3 11 252-262 2-12 (50)
157 KOG2593|consensus 57.0 12 0.00026 34.4 3.3 15 167-181 128-142 (436)
158 PRK04023 DNA polymerase II lar 56.9 8.5 0.00018 39.4 2.5 33 282-330 639-672 (1121)
159 COG5151 SSL1 RNA polymerase II 56.4 6.8 0.00015 34.1 1.6 26 249-274 386-411 (421)
160 PF15135 UPF0515: Uncharacteri 56.4 9.6 0.00021 32.2 2.4 73 151-236 91-168 (278)
161 TIGR01206 lysW lysine biosynth 56.3 6.8 0.00015 24.7 1.2 10 252-261 3-12 (54)
162 PF15269 zf-C2H2_7: Zinc-finge 56.0 7.4 0.00016 23.1 1.2 21 322-342 21-41 (54)
163 PRK00432 30S ribosomal protein 54.6 5.5 0.00012 24.7 0.6 13 320-332 36-48 (50)
164 KOG4167|consensus 54.5 4.4 9.6E-05 39.6 0.2 29 135-163 788-816 (907)
165 TIGR00280 L37a ribosomal prote 54.4 6.1 0.00013 27.9 0.8 26 280-305 34-65 (91)
166 KOG2593|consensus 54.1 15 0.00034 33.7 3.5 37 192-231 125-161 (436)
167 KOG1244|consensus 54.1 6.2 0.00014 33.7 1.0 13 168-180 194-206 (336)
168 PF13878 zf-C2H2_3: zinc-finge 53.7 17 0.00037 21.4 2.6 27 291-317 11-39 (41)
169 PTZ00255 60S ribosomal protein 53.7 7.1 0.00015 27.5 1.1 26 280-305 35-66 (90)
170 PRK05580 primosome assembly pr 52.9 9.4 0.0002 38.2 2.2 23 280-302 407-430 (679)
171 PF14446 Prok-RING_1: Prokaryo 52.8 9.1 0.0002 24.1 1.3 20 283-302 7-30 (54)
172 TIGR01562 FdhE formate dehydro 52.5 3.9 8.6E-05 36.2 -0.4 46 280-329 209-260 (305)
173 PF09332 Mcm10: Mcm10 replicat 52.3 2.6 5.7E-05 37.8 -1.6 14 224-237 253-266 (344)
174 PF00301 Rubredoxin: Rubredoxi 52.0 5 0.00011 24.5 0.1 13 252-264 2-14 (47)
175 PF08274 PhnA_Zn_Ribbon: PhnA 51.4 6.6 0.00014 21.4 0.5 8 251-258 19-26 (30)
176 smart00064 FYVE Protein presen 51.0 8 0.00017 25.5 1.0 21 283-303 12-36 (68)
177 PF07975 C1_4: TFIIH C1-like d 50.8 4.2 9.1E-05 25.3 -0.4 26 249-274 19-44 (51)
178 KOG4377|consensus 50.7 9.7 0.00021 34.6 1.7 19 299-317 409-427 (480)
179 COG5151 SSL1 RNA polymerase II 50.5 23 0.0005 31.0 3.8 19 250-268 321-339 (421)
180 PRK03824 hypA hydrogenase nick 50.1 5 0.00011 30.9 -0.1 11 224-234 71-81 (135)
181 PF05191 ADK_lid: Adenylate ki 50.0 5.3 0.00011 22.8 -0.0 9 254-262 4-12 (36)
182 PF01780 Ribosomal_L37ae: Ribo 50.0 3.5 7.6E-05 29.0 -0.9 25 280-304 34-64 (90)
183 PF13451 zf-trcl: Probable zin 49.8 11 0.00023 23.3 1.3 17 250-266 3-19 (49)
184 PF01363 FYVE: FYVE zinc finge 49.6 8.7 0.00019 25.4 1.0 31 253-301 11-41 (69)
185 COG1198 PriA Primosomal protei 49.5 9.2 0.0002 38.3 1.5 35 283-330 437-471 (730)
186 PRK03976 rpl37ae 50S ribosomal 49.3 8.3 0.00018 27.2 0.8 26 280-305 35-66 (90)
187 PF05495 zf-CHY: CHY zinc fing 48.8 3.1 6.6E-05 28.0 -1.3 13 223-235 41-53 (71)
188 COG4957 Predicted transcriptio 48.8 8.6 0.00019 29.1 0.9 24 196-222 77-100 (148)
189 COG4888 Uncharacterized Zn rib 46.6 8.2 0.00018 27.6 0.5 8 296-303 49-56 (104)
190 PF02318 FYVE_2: FYVE-type zin 46.0 6.4 0.00014 29.5 -0.1 49 251-329 54-102 (118)
191 PRK13130 H/ACA RNA-protein com 46.0 13 0.00029 23.6 1.4 24 280-303 4-27 (56)
192 KOG1701|consensus 45.7 4.2 9.1E-05 37.1 -1.3 39 169-209 276-316 (468)
193 KOG3408|consensus 45.5 13 0.00029 27.6 1.4 23 321-343 57-79 (129)
194 COG3091 SprT Zn-dependent meta 45.4 9.1 0.0002 29.8 0.6 9 195-204 117-125 (156)
195 PF12760 Zn_Tnp_IS1595: Transp 45.1 21 0.00046 21.5 2.1 9 250-258 36-44 (46)
196 PF04959 ARS2: Arsenite-resist 45.0 7.9 0.00017 32.3 0.3 29 193-221 75-103 (214)
197 PRK14873 primosome assembly pr 44.6 6.6 0.00014 39.0 -0.3 23 280-302 409-431 (665)
198 COG5152 Uncharacterized conser 44.4 6.9 0.00015 31.7 -0.2 15 250-264 195-209 (259)
199 PF05290 Baculo_IE-1: Baculovi 44.2 14 0.00031 28.0 1.4 21 246-266 75-95 (140)
200 PF14311 DUF4379: Domain of un 44.0 14 0.0003 23.3 1.2 9 225-233 30-38 (55)
201 COG1327 Predicted transcriptio 43.7 15 0.00032 28.6 1.5 11 296-306 31-41 (156)
202 TIGR00595 priA primosomal prot 43.1 13 0.00028 35.8 1.4 11 319-329 251-261 (505)
203 cd00065 FYVE FYVE domain; Zinc 43.1 15 0.00033 23.1 1.3 33 253-303 4-36 (57)
204 PF05613 Herpes_U15: Human her 43.1 12 0.00026 25.8 0.9 24 6-29 7-30 (110)
205 COG1439 Predicted nucleic acid 42.9 9.5 0.00021 30.6 0.4 11 252-262 140-150 (177)
206 TIGR00244 transcriptional regu 42.6 14 0.0003 28.7 1.3 11 296-306 31-41 (147)
207 KOG4377|consensus 42.6 10 0.00022 34.5 0.6 107 167-276 271-428 (480)
208 PRK12380 hydrogenase nickel in 42.3 11 0.00023 28.1 0.6 10 196-205 71-80 (113)
209 smart00154 ZnF_AN1 AN1-like Zi 42.2 11 0.00023 22.0 0.4 12 321-332 12-23 (39)
210 PF03811 Zn_Tnp_IS1: InsA N-te 41.1 5.5 0.00012 22.8 -0.9 19 309-327 17-35 (36)
211 KOG4124|consensus 41.1 5.5 0.00012 35.3 -1.3 45 297-341 355-418 (442)
212 TIGR00100 hypA hydrogenase nic 40.8 11 0.00023 28.2 0.4 10 224-233 71-80 (115)
213 PRK05978 hypothetical protein; 40.8 17 0.00037 28.4 1.5 9 296-304 55-63 (148)
214 PF01286 XPA_N: XPA protein N- 40.6 8.9 0.00019 21.6 -0.1 13 253-265 5-17 (34)
215 KOG1280|consensus 39.4 31 0.00067 30.8 3.0 51 250-302 78-128 (381)
216 smart00290 ZnF_UBP Ubiquitin C 39.3 16 0.00035 22.3 1.0 33 284-317 2-34 (50)
217 KOG2636|consensus 39.1 20 0.00043 33.2 1.8 30 313-342 393-423 (497)
218 smart00661 RPOL9 RNA polymeras 38.9 19 0.0004 22.2 1.2 14 321-334 20-33 (52)
219 COG1571 Predicted DNA-binding 38.6 18 0.0004 33.4 1.6 30 225-265 352-381 (421)
220 PRK00564 hypA hydrogenase nick 37.6 13 0.00028 27.8 0.4 10 196-205 72-81 (117)
221 KOG0978|consensus 37.2 8.4 0.00018 37.9 -0.8 21 321-341 678-698 (698)
222 PF09416 UPF1_Zn_bind: RNA hel 36.9 11 0.00024 29.4 -0.0 44 280-329 13-68 (152)
223 KOG3408|consensus 36.7 23 0.0005 26.4 1.5 23 194-216 56-78 (129)
224 PF12907 zf-met2: Zinc-binding 36.1 9.9 0.00021 22.3 -0.3 20 322-341 2-24 (40)
225 COG1571 Predicted DNA-binding 35.8 20 0.00043 33.2 1.4 16 319-334 365-380 (421)
226 PRK14873 primosome assembly pr 35.6 17 0.00036 36.3 0.9 44 283-330 385-431 (665)
227 PF03833 PolC_DP2: DNA polymer 35.6 12 0.00027 37.5 0.0 26 280-305 679-704 (900)
228 PF01428 zf-AN1: AN1-like Zinc 35.6 12 0.00026 22.2 -0.0 12 320-331 12-23 (43)
229 COG3357 Predicted transcriptio 35.1 22 0.00048 24.9 1.2 14 250-263 57-70 (97)
230 cd02335 ZZ_ADA2 Zinc finger, Z 35.1 6.9 0.00015 24.1 -1.2 9 280-288 14-22 (49)
231 PF13453 zf-TFIIB: Transcripti 34.4 21 0.00046 20.9 0.9 22 318-339 16-37 (41)
232 PF14445 Prok-RING_2: Prokaryo 33.9 7.4 0.00016 23.8 -1.1 9 320-328 40-48 (57)
233 KOG4317|consensus 33.8 13 0.00027 32.6 -0.2 16 280-295 18-33 (383)
234 KOG2906|consensus 33.6 2.3 4.9E-05 30.1 -3.8 15 250-264 20-34 (105)
235 KOG2071|consensus 33.5 22 0.00048 34.2 1.3 26 319-344 416-441 (579)
236 COG1655 Uncharacterized protei 33.3 8.3 0.00018 32.2 -1.3 9 252-260 63-71 (267)
237 PF10083 DUF2321: Uncharacteri 33.2 3.9 8.4E-05 31.9 -3.0 17 319-335 66-82 (158)
238 PRK00420 hypothetical protein; 32.9 26 0.00057 25.9 1.4 8 296-303 43-50 (112)
239 PF09855 DUF2082: Nucleic-acid 32.8 18 0.00039 23.8 0.4 8 252-259 1-8 (64)
240 COG4640 Predicted membrane pro 32.8 29 0.00063 31.6 1.8 28 284-311 4-33 (465)
241 smart00440 ZnF_C2C2 C2C2 Zinc 32.1 5.4 0.00012 23.4 -1.9 8 252-259 29-36 (40)
242 PF01155 HypA: Hydrogenase exp 32.0 15 0.00034 27.2 0.0 12 224-235 71-82 (113)
243 TIGR00143 hypF [NiFe] hydrogen 31.8 6.5 0.00014 39.4 -2.6 36 224-265 69-104 (711)
244 COG2260 Predicted Zn-ribbon RN 31.6 26 0.00057 22.4 1.0 21 282-302 6-26 (59)
245 PF08271 TF_Zn_Ribbon: TFIIB z 31.5 14 0.0003 22.0 -0.3 8 252-259 1-8 (43)
246 COG1545 Predicted nucleic-acid 31.5 23 0.00051 27.4 1.0 20 283-302 31-52 (140)
247 PF07295 DUF1451: Protein of u 31.4 16 0.00034 28.6 0.0 9 252-260 113-121 (146)
248 PRK05580 primosome assembly pr 31.4 24 0.00052 35.3 1.3 46 282-330 382-430 (679)
249 PF14634 zf-RING_5: zinc-RING 31.1 22 0.00047 21.1 0.6 10 319-328 34-43 (44)
250 KOG0320|consensus 30.9 42 0.00092 27.0 2.3 17 135-151 127-143 (187)
251 COG0675 Transposase and inacti 30.8 25 0.00055 31.5 1.2 28 291-333 307-334 (364)
252 PF05129 Elf1: Transcription e 30.8 15 0.00034 25.4 -0.1 9 280-288 21-29 (81)
253 PTZ00448 hypothetical protein; 30.6 30 0.00066 31.3 1.6 23 321-343 314-336 (373)
254 KOG1813|consensus 29.9 26 0.00057 30.5 1.1 43 250-302 240-284 (313)
255 KOG0782|consensus 29.7 26 0.00055 33.5 1.0 34 296-335 256-290 (1004)
256 PF03833 PolC_DP2: DNA polymer 29.5 18 0.00039 36.5 0.0 11 323-333 694-704 (900)
257 PF10263 SprT-like: SprT-like 29.5 15 0.00033 28.8 -0.4 9 252-260 144-152 (157)
258 COG1675 TFA1 Transcription ini 28.3 59 0.0013 26.3 2.7 18 191-208 109-126 (176)
259 PRK08351 DNA-directed RNA poly 27.7 34 0.00073 22.2 1.0 19 283-301 5-23 (61)
260 PF01927 Mut7-C: Mut7-C RNAse 27.6 38 0.00082 26.4 1.6 17 251-267 124-140 (147)
261 PRK03681 hypA hydrogenase nick 27.6 26 0.00057 26.1 0.6 10 252-261 71-80 (114)
262 PF04810 zf-Sec23_Sec24: Sec23 27.5 31 0.00067 20.1 0.8 15 316-330 19-33 (40)
263 PF08792 A2L_zn_ribbon: A2L zi 27.5 34 0.00073 19.1 0.9 7 282-288 4-10 (33)
264 smart00731 SprT SprT homologue 27.5 29 0.00064 27.0 0.9 12 250-261 132-143 (146)
265 PF13824 zf-Mss51: Zinc-finger 27.3 49 0.0011 21.0 1.7 12 320-331 13-24 (55)
266 PF10276 zf-CHCC: Zinc-finger 27.3 27 0.00058 20.5 0.5 12 250-261 28-39 (40)
267 KOG0978|consensus 26.8 23 0.0005 35.1 0.2 16 250-265 677-692 (698)
268 KOG3214|consensus 26.8 16 0.00035 26.1 -0.6 10 296-305 50-59 (109)
269 KOG0717|consensus 26.8 35 0.00075 31.9 1.3 22 224-245 293-314 (508)
270 PTZ00303 phosphatidylinositol 26.4 24 0.00051 35.2 0.2 41 252-305 461-501 (1374)
271 PF08790 zf-LYAR: LYAR-type C2 26.1 14 0.00029 19.8 -0.8 8 254-261 3-10 (28)
272 PF11672 DUF3268: Protein of u 25.8 27 0.00059 25.3 0.4 7 252-258 32-38 (102)
273 COG4896 Uncharacterized protei 25.7 38 0.00083 21.8 1.0 36 225-260 4-40 (68)
274 PF04606 Ogr_Delta: Ogr/Delta- 25.4 12 0.00026 22.8 -1.3 36 296-333 2-39 (47)
275 COG5188 PRP9 Splicing factor 3 25.1 45 0.00097 29.9 1.6 29 313-341 366-395 (470)
276 PF10013 DUF2256: Uncharacteri 25.0 40 0.00086 20.0 0.9 11 295-305 10-20 (42)
277 COG2093 DNA-directed RNA polym 25.0 40 0.00086 21.9 1.0 19 284-302 7-27 (64)
278 KOG2071|consensus 24.8 47 0.001 32.1 1.8 28 248-275 415-442 (579)
279 cd00924 Cyt_c_Oxidase_Vb Cytoc 24.7 35 0.00077 24.5 0.8 12 222-233 78-89 (97)
280 KOG1512|consensus 24.5 28 0.00061 30.1 0.3 16 280-301 307-322 (381)
281 PF14205 Cys_rich_KTR: Cystein 24.5 43 0.00093 21.1 1.0 8 252-259 5-12 (55)
282 PLN02294 cytochrome c oxidase 24.2 37 0.0008 27.1 0.9 13 250-262 140-152 (174)
283 PF06220 zf-U1: U1 zinc finger 23.9 63 0.0014 18.6 1.6 10 322-331 4-13 (38)
284 PHA02942 putative transposase; 23.7 37 0.00081 31.3 1.0 32 290-332 322-353 (383)
285 PF14787 zf-CCHC_5: GAG-polypr 23.5 36 0.00079 19.4 0.5 15 253-267 4-18 (36)
286 PRK14892 putative transcriptio 23.4 34 0.00074 24.7 0.5 8 251-258 21-28 (99)
287 PRK04351 hypothetical protein; 23.3 38 0.00083 26.6 0.8 13 249-261 130-142 (149)
288 PF04423 Rad50_zn_hook: Rad50 23.2 68 0.0015 20.0 1.8 16 248-264 18-33 (54)
289 PF05766 NinG: Bacteriophage L 23.1 46 0.00099 27.3 1.3 26 279-304 4-35 (189)
290 KOG0782|consensus 23.1 31 0.00067 33.0 0.3 27 238-264 240-266 (1004)
291 COG2331 Uncharacterized protei 23.1 13 0.00027 25.1 -1.6 12 251-262 12-23 (82)
292 COG1645 Uncharacterized Zn-fin 23.0 42 0.0009 25.6 0.9 8 296-303 47-54 (131)
293 PF11023 DUF2614: Protein of u 22.9 42 0.00091 24.7 0.9 12 250-261 68-79 (114)
294 COG3677 Transposase and inacti 22.8 37 0.0008 25.9 0.6 16 319-334 51-66 (129)
295 COG3809 Uncharacterized protei 22.8 50 0.0011 22.5 1.2 34 283-316 3-44 (88)
296 PRK07218 replication factor A; 22.7 47 0.001 31.0 1.4 21 282-302 298-318 (423)
297 COG4391 Uncharacterized protei 22.2 32 0.00068 22.2 0.1 19 242-260 15-33 (62)
298 PF03107 C1_2: C1 domain; Int 22.2 65 0.0014 17.3 1.4 8 321-328 15-22 (30)
299 cd01121 Sms Sms (bacterial rad 22.0 57 0.0012 30.0 1.8 20 282-301 1-22 (372)
300 PRK06393 rpoE DNA-directed RNA 21.7 56 0.0012 21.5 1.2 19 284-302 8-26 (64)
301 COG1779 C4-type Zn-finger prot 21.5 31 0.00067 28.2 0.0 7 253-259 16-22 (201)
302 COG4306 Uncharacterized protei 21.3 18 0.00039 27.0 -1.3 13 321-333 68-80 (160)
303 PF06397 Desulfoferrod_N: Desu 21.3 36 0.00078 19.5 0.2 10 320-329 5-14 (36)
304 COG1998 RPS31 Ribosomal protei 21.2 53 0.0012 20.2 1.0 10 321-330 37-46 (51)
305 cd02341 ZZ_ZZZ3 Zinc finger, Z 21.1 25 0.00055 21.5 -0.4 9 280-288 14-22 (48)
306 KOG0402|consensus 20.9 32 0.00069 23.7 -0.0 10 281-290 36-45 (92)
307 PRK12722 transcriptional activ 20.7 56 0.0012 26.7 1.3 49 258-329 114-162 (187)
308 TIGR03829 YokU_near_AblA uncha 20.7 78 0.0017 22.4 1.8 15 296-310 38-52 (89)
309 PRK00762 hypA hydrogenase nick 20.7 43 0.00093 25.3 0.6 11 252-263 71-81 (124)
310 PF14369 zf-RING_3: zinc-finge 20.4 56 0.0012 18.5 0.9 7 324-330 24-30 (35)
311 PF11238 DUF3039: Protein of u 20.3 34 0.00074 21.8 0.0 8 296-303 47-54 (58)
312 PLN02748 tRNA dimethylallyltra 20.0 61 0.0013 30.8 1.6 24 320-343 417-441 (468)
No 1
>KOG1074|consensus
Probab=100.00 E-value=6.4e-36 Score=276.10 Aligned_cols=149 Identities=35% Similarity=0.735 Sum_probs=133.1
Q ss_pred eecCccCCccCCHHHHHHHHHHcCCCCCcccCCCccccCChHHHHHHHHHhCCC----Cceecc---ccCcccCChhHHH
Q psy14386 196 YECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSFKTKQTLLDHENRHMGV----KPYSCE---ICGRGFITKGLCK 268 (344)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~----k~~~C~---~C~k~f~~~~~L~ 268 (344)
-+|-+|.+...-++.|+.|.|+|+|++||+|.+||+.|.++.+|+.||-+|... -+|.|+ +|.+.|.+.-.|.
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lp 685 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLP 685 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccccc
Confidence 789999999999999999999999999999999999999999999999998644 458999 9999999999999
Q ss_pred HHHhhhcCCCC-----------CCcCCCCCCCccCCCC------------------------------------------
Q psy14386 269 SHQKIHSGNDN-----------RQYPCPVCKKLFVSKS------------------------------------------ 295 (344)
Q Consensus 269 ~H~~~h~~~~~-----------~~~~C~~C~~~f~~~~------------------------------------------ 295 (344)
.|+++|.+... .--+|..|.+.|..-.
T Consensus 686 QhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~ 765 (958)
T KOG1074|consen 686 QHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGR 765 (958)
T ss_pred ceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccccc
Confidence 99999984211 1125777777763210
Q ss_pred --------------------------------------------------------------------------------
Q psy14386 296 -------------------------------------------------------------------------------- 295 (344)
Q Consensus 296 -------------------------------------------------------------------------------- 295 (344)
T Consensus 766 ~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~ 845 (958)
T KOG1074|consen 766 ELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKT 845 (958)
T ss_pred ccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccccccc
Confidence
Q ss_pred ------------------------------------CcccccccCChhhHHHHHHHccCCCcccccccchhccChHHHHH
Q psy14386 296 ------------------------------------CNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFVSRSTLMV 339 (344)
Q Consensus 296 ------------------------------------C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~~~~~L~~ 339 (344)
|..||+.|...++|..|+|+|+|+|||.|.+|+++|.++.+|..
T Consensus 846 n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKv 925 (958)
T KOG1074|consen 846 NEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKV 925 (958)
T ss_pred ccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhh
Confidence 99999999999999999999999999999999999999999999
Q ss_pred HhhhC
Q psy14386 340 HKKKH 344 (344)
Q Consensus 340 H~~~H 344 (344)
||.+|
T Consensus 926 HMgtH 930 (958)
T KOG1074|consen 926 HMGTH 930 (958)
T ss_pred hhccc
Confidence 99988
No 2
>KOG2462|consensus
Probab=100.00 E-value=8.6e-33 Score=226.94 Aligned_cols=136 Identities=32% Similarity=0.613 Sum_probs=128.6
Q ss_pred CCCcccccccccccCCHHHHHHHHHhcCC---CCccccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHH
Q psy14386 136 SKSLHKCDRCPKKFSSLAKYNFHVSNHGV---DKPFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLI 212 (344)
Q Consensus 136 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 212 (344)
....|+|+.||+.|.+..+|.+|...|-. .+.+.|+.|+|.|.+...|..|+++|+ -+++|.+|||.|.+.+.|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQ 204 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQ 204 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhh
Confidence 44569999999999999999999999854 567999999999999999999999997 5799999999999999999
Q ss_pred HHHHHcCCCCCcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhh
Q psy14386 213 VHQRVHSTDKPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKI 273 (344)
Q Consensus 213 ~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~ 273 (344)
-|+|+|+|||||.|..|+|.|..+++|+.||+||.+.|+|+|+.|+|.|..++.|.+|...
T Consensus 205 GHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 205 GHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999999999999999999999999999764
No 3
>KOG2462|consensus
Probab=99.97 E-value=1.3e-32 Score=225.94 Aligned_cols=110 Identities=29% Similarity=0.671 Sum_probs=76.9
Q ss_pred CccccccccccccChHHHHHHHHHhcC---CCceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCccccCChHHHHHH
Q psy14386 166 KPFQCFKCEKRFRSKLGLDEHEAKHTG---RYEYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSFKTKQTLLDH 242 (344)
Q Consensus 166 ~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H 242 (344)
..|+|+.||+.|.+.++|.+|...|.. .+.+.|++|+|.|.+...|+.|+|+|+ -+++|.+|||.|..++-|+.|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGH 206 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGH 206 (279)
T ss_pred CceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcc
Confidence 347777788888887888887777743 345667777777777777777777775 466777777777777777777
Q ss_pred HHHhCCCCceeccccCcccCChhHHHHHHhhhcCC
Q psy14386 243 ENRHMGVKPYSCEICGRGFITKGLCKSHQKIHSGN 277 (344)
Q Consensus 243 ~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~ 277 (344)
+|+|||||||.|+.|+|+|..+++|+.|+++|.+.
T Consensus 207 iRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~ 241 (279)
T KOG2462|consen 207 IRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDV 241 (279)
T ss_pred cccccCCCCccCCcccchhcchHHHHHHHHhhcCC
Confidence 77777777777777777777666666666666554
No 4
>KOG3608|consensus
Probab=99.94 E-value=7.9e-27 Score=196.57 Aligned_cols=188 Identities=26% Similarity=0.515 Sum_probs=167.6
Q ss_pred cccccccccCCHHHHHHHHHhcCCCCccccccccccccChHHHHHHHHHhc--CCCceecCccCCccCCHHHHHHHHHHc
Q psy14386 141 KCDRCPKKFSSLAKYNFHVSNHGVDKPFQCFKCEKRFRSKLGLDEHEAKHT--GRYEYECNACGKGFQNKSYLIVHQRVH 218 (344)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h 218 (344)
.+..|-+.+.+++.|+.|++.|.++|...|+.||.-|.++..|..|++..+ ...+|+|..|.|.|.+...|..|++.|
T Consensus 181 ~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rH 260 (467)
T KOG3608|consen 181 NWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRH 260 (467)
T ss_pred cchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHh
Confidence 345699999999999999999999999999999999999999999987643 456899999999999999999999999
Q ss_pred CCCCCcccCCCccccCChHHHHHHHHH-hCCCCceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCc
Q psy14386 219 STDKPYACKTCPRSFKTKQTLLDHENR-HMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCN 297 (344)
Q Consensus 219 ~~~~~~~C~~C~~~f~~~~~L~~H~~~-h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~ 297 (344)
.. -|+|+.|+.+...+++|.+|++. |...|||+|+.|.+.|.+.+.|.+|..+|.. -.|.|+. +
T Consensus 261 vn--~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~---~~y~C~h----------~ 325 (467)
T KOG3608|consen 261 VN--CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSK---TVYQCEH----------P 325 (467)
T ss_pred hh--cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccc---cceecCC----------C
Confidence 64 69999999999999999999995 8889999999999999999999999999973 5677654 2
Q ss_pred ccccccCChhhHHHHHH-HccCCC--cccccccchhccChHHHHHHhhh
Q psy14386 298 ICGQSFTQFSPMAIHKR-LHTGER--PYSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 298 ~C~k~f~~~~~L~~H~~-~H~~~k--~~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
.|..+|.+...+++|++ +|.|.. +|.|..|++.|++..+|..|++.
T Consensus 326 ~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 326 DCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMK 374 (467)
T ss_pred CCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHH
Confidence 37778888899999976 454654 59999999999999999999864
No 5
>KOG3608|consensus
Probab=99.90 E-value=8.8e-24 Score=178.28 Aligned_cols=189 Identities=25% Similarity=0.562 Sum_probs=166.5
Q ss_pred ccc--cccccccCCHHHHHHHHHhcCC------------CCc-ccccc--ccccccChHHHHHHHHHhcCCCceecCccC
Q psy14386 140 HKC--DRCPKKFSSLAKYNFHVSNHGV------------DKP-FQCFK--CEKRFRSKLGLDEHEAKHTGRYEYECNACG 202 (344)
Q Consensus 140 ~~C--~~C~~~f~~~~~l~~H~~~h~~------------~~~-~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 202 (344)
|.| ..|+..|.+...|..|...|.. ++| +.|.+ |-+.|.+++.|.+|++.|+++|...|+.||
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg 214 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCG 214 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHH
Confidence 555 6799999999999999877632 223 56766 999999999999999999999999999999
Q ss_pred CccCCHHHHHHHHHHc--CCCCCcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhhhcCCCCC
Q psy14386 203 KGFQNKSYLIVHQRVH--STDKPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDNR 280 (344)
Q Consensus 203 ~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~ 280 (344)
..|.++..|..|.+.. ....+|.|..|.|.|.+...|+.|+..|. .-|+|+.|..+....+.|..|++.-+.+ .+
T Consensus 215 ~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~-dk 291 (467)
T KOG3608|consen 215 ELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSK-DK 291 (467)
T ss_pred HHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhcc-CC
Confidence 9999999999998754 34679999999999999999999999995 5699999999999999999999987776 58
Q ss_pred CcCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCcccccc--cchhccChHHHHHHhhhC
Q psy14386 281 QYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCEL--CNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 281 ~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~--C~~~f~~~~~L~~H~~~H 344 (344)
||+|+. |.+.|.+.+.|.+|..+|. +-.|+|+. |..+|.+...|++|++.|
T Consensus 292 pfKCd~------------Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~ev 344 (467)
T KOG3608|consen 292 PFKCDE------------CDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEV 344 (467)
T ss_pred Cccccc------------hhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHh
Confidence 988655 5567778899999999998 77899998 999999999999999854
No 6
>KOG3623|consensus
Probab=99.90 E-value=1.5e-24 Score=197.98 Aligned_cols=77 Identities=35% Similarity=0.795 Sum_probs=71.0
Q ss_pred eeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCcccccccchhc
Q psy14386 252 YSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAF 331 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f 331 (344)
|.|+.|+|+|.-.+.|.+|.--|+|. |||+| .+|.|.|..+-.|..|+|.|.|+|||+|+.|+|.|
T Consensus 895 yaCDqCDK~FqKqSSLaRHKYEHsGq--RPyqC------------~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRF 960 (1007)
T KOG3623|consen 895 YACDQCDKAFQKQSSLARHKYEHSGQ--RPYQC------------IICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRF 960 (1007)
T ss_pred chHHHHHHHHHhhHHHHHhhhhhcCC--CCccc------------chhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhc
Confidence 99999999999999999999999998 99985 56667788889999999999999999999999999
Q ss_pred cChHHHHHHhh
Q psy14386 332 VSRSTLMVHKK 342 (344)
Q Consensus 332 ~~~~~L~~H~~ 342 (344)
+.......||.
T Consensus 961 SHSGSYSQHMN 971 (1007)
T KOG3623|consen 961 SHSGSYSQHMN 971 (1007)
T ss_pred ccccchHhhhc
Confidence 99999998873
No 7
>KOG1074|consensus
Probab=99.89 E-value=7.3e-25 Score=203.32 Aligned_cols=111 Identities=32% Similarity=0.653 Sum_probs=94.9
Q ss_pred CcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCc---cc
Q psy14386 223 PYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCN---IC 299 (344)
Q Consensus 223 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~---~C 299 (344)
|-+|-+|-+..+-++.|+.|.++|+||+||+|.+||++|.++.+|+.|+-+|... -+++ ...+|+ +|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~--p~~R--------~q~ScP~~~ic 674 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAK--PPAR--------VQFSCPSTFIC 674 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccC--cccc--------ccccCCchhhh
Confidence 5799999999999999999999999999999999999999999999999999754 2222 224588 99
Q ss_pred ccccCChhhHHHHHHHccC-CCc------------ccccccchhccChHHHHHHhhh
Q psy14386 300 GQSFTQFSPMAIHKRLHTG-ERP------------YSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 300 ~k~f~~~~~L~~H~~~H~~-~k~------------~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
-+.|...-.|..|+++|.+ ..+ =+|..|.+.|.....+..|+--
T Consensus 675 ~~kftn~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se 731 (958)
T KOG1074|consen 675 QKKFTNAVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISE 731 (958)
T ss_pred cccccccccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhc
Confidence 9999999999999999984 222 3799999999888887777643
No 8
>KOG3623|consensus
Probab=99.87 E-value=4.3e-23 Score=188.64 Aligned_cols=78 Identities=28% Similarity=0.545 Sum_probs=70.8
Q ss_pred cccccccccccCCHHHHHHHHHhcCCC-------------CccccccccccccChHHHHHHHHHhcCCCceecCccCCcc
Q psy14386 139 LHKCDRCPKKFSSLAKYNFHVSNHGVD-------------KPFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGF 205 (344)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~-------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 205 (344)
.|.|..|...|..+..|.+||..|... +.|+|..|||.|..+..|+.|+|+|.|+|||.|+.|+|.|
T Consensus 240 nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRF 319 (1007)
T KOG3623|consen 240 NFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRF 319 (1007)
T ss_pred CCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCccccccc
Confidence 367999999999999999999888532 4599999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHH
Q psy14386 206 QNKSYLIVHQR 216 (344)
Q Consensus 206 ~~~~~l~~H~~ 216 (344)
....+...||.
T Consensus 320 SHSGSySSHmS 330 (1007)
T KOG3623|consen 320 SHSGSYSSHMS 330 (1007)
T ss_pred ccCCccccccc
Confidence 99998888863
No 9
>KOG3576|consensus
Probab=99.78 E-value=1.1e-19 Score=142.33 Aligned_cols=111 Identities=31% Similarity=0.552 Sum_probs=67.4
Q ss_pred ccccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCccccCChHHHHHHHHHh
Q psy14386 167 PFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSFKTKQTLLDHENRH 246 (344)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h 246 (344)
.|.|.+|+|.|.-...|.+|++-|...+.|-|..||+.|.+...|++|+|+|+|.+||+|..|+++|.++-.|..|.+.-
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kv 196 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKV 196 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHH
Confidence 35555555555555555555555555555555555555555555555555555555555555555555555555555433
Q ss_pred C-----------CCCceeccccCcccCChhHHHHHHhhhcCC
Q psy14386 247 M-----------GVKPYSCEICGRGFITKGLCKSHQKIHSGN 277 (344)
Q Consensus 247 ~-----------~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~ 277 (344)
+ ..|.|.|..||.+-.....+..|++.|+..
T Consensus 197 hgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 197 HGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred cCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 3 346688888888887777888888877653
No 10
>KOG3576|consensus
Probab=99.77 E-value=6.1e-19 Score=138.16 Aligned_cols=116 Identities=28% Similarity=0.489 Sum_probs=107.2
Q ss_pred CCCcccccccccccCCHHHHHHHHHhcCCCCccccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHH
Q psy14386 136 SKSLHKCDRCPKKFSSLAKYNFHVSNHGVDKPFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQ 215 (344)
Q Consensus 136 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 215 (344)
....|.|.+|++.|.-...|++|++-|..-+.|.|..||+.|.....|++|+++|+|.+||+|..|++.|..+-+|..|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHH
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HHcCC-----------CCCcccCCCccccCChHHHHHHHHHhCCCCc
Q psy14386 216 RVHST-----------DKPYACKTCPRSFKTKQTLLDHENRHMGVKP 251 (344)
Q Consensus 216 ~~h~~-----------~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~ 251 (344)
+.-+| ++.|.|..||.+-.....+..|++.|+..-|
T Consensus 194 ~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 194 KKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 75444 4679999999999999999999999986654
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.52 E-value=3.6e-14 Score=131.54 Aligned_cols=134 Identities=21% Similarity=0.491 Sum_probs=83.8
Q ss_pred ccccccccccCCHHHHHHHHHhcCCCCcccccc--ccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHHH
Q psy14386 140 HKCDRCPKKFSSLAKYNFHVSNHGVDKPFQCFK--CEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQRV 217 (344)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 217 (344)
..|+.|.... ....|..|...... ....|+. |+..|. +..+.. ++.|+.|++.|. ...|..|+++
T Consensus 408 V~C~NC~~~i-~l~~l~lHe~~C~r-~~V~Cp~~~Cg~v~~-r~el~~---------H~~C~~Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 408 VECRNCKHYI-PSRSIALHEAYCSR-HNVVCPHDGCGIVLR-VEEAKN---------HVHCEKCGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred EECCCCCCcc-chhHHHHHHhhCCC-cceeCCcccccceee-cccccc---------CccCCCCCCccc-hHHHHHHHHh
Confidence 4577777644 34556667655433 2345764 777763 222222 356777777774 5667777777
Q ss_pred cCCCCCcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccC----------ChhHHHHHHhhhcCCCCCCcCCCCC
Q psy14386 218 HSTDKPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFI----------TKGLCKSHQKIHSGNDNRQYPCPVC 287 (344)
Q Consensus 218 h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~----------~~~~L~~H~~~h~~~~~~~~~C~~C 287 (344)
|+ +++.|+ ||+.+ .+..|..|+.+|.+.+|+.|+.|++.|. ..+.|..|..++ |. +++.|..|
T Consensus 475 ~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~--rt~~C~~C 547 (567)
T PLN03086 475 FH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GS--RTAPCDSC 547 (567)
T ss_pred cC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CC--cceEcccc
Confidence 64 677777 77644 5577777777777777777777777774 134677776664 33 66666666
Q ss_pred CCccCC
Q psy14386 288 KKLFVS 293 (344)
Q Consensus 288 ~~~f~~ 293 (344)
|+.++.
T Consensus 548 gk~Vrl 553 (567)
T PLN03086 548 GRSVML 553 (567)
T ss_pred CCeeee
Confidence 555543
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.44 E-value=2.2e-13 Score=126.39 Aligned_cols=150 Identities=20% Similarity=0.462 Sum_probs=109.1
Q ss_pred cccccccccccChHHHHHHHHHhcCCCceecCc--cCCccCCHHHHHHHHHHcCCCCCcccCCCccccCChHHHHHHHHH
Q psy14386 168 FQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNA--CGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSFKTKQTLLDHENR 245 (344)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~ 245 (344)
..|+.|.+... ..+|..|..... .....|+. |+..|. +..+. +.+.|+.|++.|. ...|..|+++
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C~-r~~V~Cp~~~Cg~v~~-r~el~---------~H~~C~~Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYCS-RHNVVCPHDGCGIVLR-VEEAK---------NHVHCEKCGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhCC-CcceeCCcccccceee-ccccc---------cCccCCCCCCccc-hHHHHHHHHh
Confidence 57999887654 455668875443 34467884 999883 23333 3468999999996 6789999999
Q ss_pred hCCCCceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCccccccc-CChhhHHHHHHHccCCCcccc
Q psy14386 246 HMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSF-TQFSPMAIHKRLHTGERPYSC 324 (344)
Q Consensus 246 h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f-~~~~~L~~H~~~H~~~k~~~C 324 (344)
|+ +||.|+ ||+.+ .+..|..|+.+|.++ +++.|..|++.|..... .-.| ...+.|..|..++ |.+++.|
T Consensus 475 ~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~--Kpi~C~fC~~~v~~g~~---~~d~~d~~s~Lt~HE~~C-G~rt~~C 544 (567)
T PLN03086 475 FH--EPLQCP-CGVVL-EKEQMVQHQASTCPL--RLITCRFCGDMVQAGGS---AMDVRDRLRGMSEHESIC-GSRTAPC 544 (567)
T ss_pred cC--CCccCC-CCCCc-chhHHHhhhhccCCC--CceeCCCCCCccccCcc---ccchhhhhhhHHHHHHhc-CCcceEc
Confidence 86 899999 99755 678999999999987 88887776665521100 0000 0246899999986 9999999
Q ss_pred cccchhccChHHHHHHh
Q psy14386 325 ELCNKAFVSRSTLMVHK 341 (344)
Q Consensus 325 ~~C~~~f~~~~~L~~H~ 341 (344)
..||+.|..+ .|..|+
T Consensus 545 ~~Cgk~Vrlr-dm~~H~ 560 (567)
T PLN03086 545 DSCGRSVMLK-EMDIHQ 560 (567)
T ss_pred cccCCeeeeh-hHHHHH
Confidence 9999888755 566665
No 13
>PHA00733 hypothetical protein
Probab=99.30 E-value=2.1e-12 Score=98.17 Aligned_cols=82 Identities=17% Similarity=0.252 Sum_probs=59.7
Q ss_pred CCceecCccCCccCCHHHHHHH--H---HHcCCCCCcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHH
Q psy14386 193 RYEYECNACGKGFQNKSYLIVH--Q---RVHSTDKPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLC 267 (344)
Q Consensus 193 ~~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L 267 (344)
.+++.|.+|++.|.....|..| + ..+.+.+||.|+.|++.|.+...|..|++.| +.+|.|+.|+++|.....|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 3456666666666555554444 1 1234578888888888888888888888876 4578899999999998888
Q ss_pred HHHHhhhcC
Q psy14386 268 KSHQKIHSG 276 (344)
Q Consensus 268 ~~H~~~h~~ 276 (344)
..|+...|+
T Consensus 116 ~~H~~~~h~ 124 (128)
T PHA00733 116 LDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC
Confidence 888887765
No 14
>KOG3993|consensus
Probab=99.20 E-value=1.9e-12 Score=112.78 Aligned_cols=175 Identities=20% Similarity=0.351 Sum_probs=104.5
Q ss_pred cccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHHHcCCCCCcc---cCCCccccCChHHHHHHHH
Q psy14386 168 FQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYA---CKTCPRSFKTKQTLLDHEN 244 (344)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~---C~~C~~~f~~~~~L~~H~~ 244 (344)
|.|..|...|.....|.+|.-.....--|+|+.|+|.|.-..+|..|+|+|....--. =+-=.+.-.++...+.-.+
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 6777777777777777777643333344777777777777777777777774321000 0000000000000000000
Q ss_pred --HhCCCCceeccccCcccCChhHHHHHHhhhcCCCC-C--------------CcCCCCCCCccCCC-------------
Q psy14386 245 --RHMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDN-R--------------QYPCPVCKKLFVSK------------- 294 (344)
Q Consensus 245 --~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~-~--------------~~~C~~C~~~f~~~------------- 294 (344)
.-..+..|.|.+|+|.|.+...|++|+.+|+.... + .+-|..|...+...
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~s 427 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGS 427 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeecc
Confidence 00223468888888888888888888887764211 0 01244444333221
Q ss_pred ----CCcccccccCChhhHHHHHHHccCCCcccccccchhccChHHHHHHhh
Q psy14386 295 ----SCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFVSRSTLMVHKK 342 (344)
Q Consensus 295 ----~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~~~~~L~~H~~ 342 (344)
.|++||-.+.++..=-.|.+.-..+.-|.|.+|.-+|...-+|.+|..
T Consensus 428 ael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin 479 (500)
T KOG3993|consen 428 AELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHIN 479 (500)
T ss_pred ccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhh
Confidence 188888888877766666666666778999999999999999999874
No 15
>PHA00733 hypothetical protein
Probab=99.19 E-value=2.8e-11 Score=92.04 Aligned_cols=96 Identities=20% Similarity=0.254 Sum_probs=73.3
Q ss_pred HHHHHHHHHhcCCCCccccccccccccChHHHHHH--HH---HhcCCCceecCccCCccCCHHHHHHHHHHcCCCCCccc
Q psy14386 152 LAKYNFHVSNHGVDKPFQCFKCEKRFRSKLGLDEH--EA---KHTGRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYAC 226 (344)
Q Consensus 152 ~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C 226 (344)
...|..+-..-...+++.|.+|.+.|.....|..+ +. .+.+.+||.|+.|++.|.+...|..|++.| +.+|.|
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C 102 (128)
T PHA00733 25 LEELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVC 102 (128)
T ss_pred HHHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccC
Confidence 44454444444446678888888888776665555 22 234578999999999999999999999976 457999
Q ss_pred CCCccccCChHHHHHHHHHhCCC
Q psy14386 227 KTCPRSFKTKQTLLDHENRHMGV 249 (344)
Q Consensus 227 ~~C~~~f~~~~~L~~H~~~h~~~ 249 (344)
..|++.|.....|..|+...++.
T Consensus 103 ~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 103 PVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCCCccCCHHHHHHHHHHhcCc
Confidence 99999999999999999887754
No 16
>PHA02768 hypothetical protein; Provisional
Probab=99.12 E-value=2.5e-11 Score=75.77 Aligned_cols=42 Identities=19% Similarity=0.477 Sum_probs=29.0
Q ss_pred cccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHH
Q psy14386 224 YACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLC 267 (344)
Q Consensus 224 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L 267 (344)
|.|+.||+.|+..++|..|+++|+ ++|+|..|++.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 667777777777777777777766 567777777777666554
No 17
>PHA02768 hypothetical protein; Provisional
Probab=99.10 E-value=3.1e-11 Score=75.34 Aligned_cols=42 Identities=21% Similarity=0.495 Sum_probs=38.7
Q ss_pred CCcccccccCChhhHHHHHHHccCCCcccccccchhccChHHHH
Q psy14386 295 SCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFVSRSTLM 338 (344)
Q Consensus 295 ~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~~~~~L~ 338 (344)
.|+.||+.|...++|..|+++|+ ++|+|..|++.|.+.+.|.
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred CcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 48899999999999999999999 8999999999999888763
No 18
>KOG3993|consensus
Probab=99.07 E-value=1.9e-11 Score=106.66 Aligned_cols=138 Identities=20% Similarity=0.322 Sum_probs=104.9
Q ss_pred CcccccccccccCCHHHHHHHHHhcCCCCccccccccccccChHHHHHHHHHhcCC------------------------
Q psy14386 138 SLHKCDRCPKKFSSLAKYNFHVSNHGVDKPFQCFKCEKRFRSKLGLDEHEAKHTGR------------------------ 193 (344)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~------------------------ 193 (344)
+.|.|..|...|...-.|..|.-.......|+|+.|+|+|....+|..|.|+|...
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 45999999999999999999986655556699999999999999999999998521
Q ss_pred ---------CceecCccCCccCCHHHHHHHHHHcCCC-------------------------------------------
Q psy14386 194 ---------YEYECNACGKGFQNKSYLIVHQRVHSTD------------------------------------------- 221 (344)
Q Consensus 194 ---------~~~~C~~C~~~f~~~~~l~~H~~~h~~~------------------------------------------- 221 (344)
.-|.|.+|+|.|.+...|+.|+.+|...
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a 425 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVA 425 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeee
Confidence 1288999999999999999998776431
Q ss_pred ---CCcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhhhc
Q psy14386 222 ---KPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 222 ---~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 275 (344)
....|+.|+-.+.++..-..|.+.-.-+.-|.|.+|.-+|.+..+|.+|+...|
T Consensus 426 ~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 426 GSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred ccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcC
Confidence 012455555555555444444443344556889999999999999999887654
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.99 E-value=2.2e-10 Score=61.27 Aligned_cols=26 Identities=46% Similarity=0.998 Sum_probs=24.3
Q ss_pred hHHHHHHHccCCCcccccccchhccC
Q psy14386 308 PMAIHKRLHTGERPYSCELCNKAFVS 333 (344)
Q Consensus 308 ~L~~H~~~H~~~k~~~C~~C~~~f~~ 333 (344)
+|.+|+++|+|++||+|++|+++|.+
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 58999999999999999999999974
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.91 E-value=9.2e-10 Score=58.82 Aligned_cols=26 Identities=42% Similarity=0.924 Sum_probs=18.8
Q ss_pred HHHHHHHHhCCCCceeccccCcccCC
Q psy14386 238 TLLDHENRHMGVKPYSCEICGRGFIT 263 (344)
Q Consensus 238 ~L~~H~~~h~~~k~~~C~~C~k~f~~ 263 (344)
+|..|+++|+|++||.|+.|+++|.+
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 46777777777777777777777753
No 21
>PHA00616 hypothetical protein
Probab=98.60 E-value=2.1e-08 Score=59.58 Aligned_cols=34 Identities=21% Similarity=0.397 Sum_probs=20.1
Q ss_pred CcccCCCccccCChHHHHHHHHHhCCCCceeccc
Q psy14386 223 PYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEI 256 (344)
Q Consensus 223 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~ 256 (344)
||+|+.||+.|..+++|..|++.|+|++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4556666666666666666666666666655543
No 22
>PHA00732 hypothetical protein
Probab=98.50 E-value=8.2e-08 Score=66.15 Aligned_cols=46 Identities=22% Similarity=0.437 Sum_probs=30.9
Q ss_pred CcccCCCccccCChHHHHHHHHH-hCCCCceeccccCcccCChhHHHHHHhhh
Q psy14386 223 PYACKTCPRSFKTKQTLLDHENR-HMGVKPYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 223 ~~~C~~C~~~f~~~~~L~~H~~~-h~~~k~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
||.|..|++.|.+..+|+.|++. |+ ++.|+.||+.|. .|..|.+++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 46677777777777777777764 44 346777777776 366676554
No 23
>PHA00616 hypothetical protein
Probab=98.48 E-value=6.3e-08 Score=57.53 Aligned_cols=33 Identities=21% Similarity=0.248 Sum_probs=30.1
Q ss_pred ceeccccCcccCChhHHHHHHhhhcCCCCCCcCCC
Q psy14386 251 PYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCP 285 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~ 285 (344)
||+|+.||+.|.+++.|.+|++.|+|+ .++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~--~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ--NKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC--Ccccee
Confidence 799999999999999999999999998 676654
No 24
>PHA00732 hypothetical protein
Probab=98.35 E-value=3.4e-07 Score=63.11 Aligned_cols=47 Identities=26% Similarity=0.474 Sum_probs=31.8
Q ss_pred ceecCccCCccCCHHHHHHHHHH-cCCCCCcccCCCccccCChHHHHHHHHHhC
Q psy14386 195 EYECNACGKGFQNKSYLIVHQRV-HSTDKPYACKTCPRSFKTKQTLLDHENRHM 247 (344)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 247 (344)
||.|+.|++.|.+...|..|++. |. ++.|+.|++.|. .|..|++++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 46777777777777777777764 43 346777777776 3666775543
No 25
>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=98.19 E-value=5.3e-07 Score=46.71 Aligned_cols=23 Identities=43% Similarity=0.986 Sum_probs=17.7
Q ss_pred ccccccchhccChHHHHHHhhhC
Q psy14386 322 YSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
|+|+.|++.|.+...|..|+++|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 67778888888888888887765
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.14 E-value=4.2e-06 Score=53.53 Aligned_cols=25 Identities=20% Similarity=0.593 Sum_probs=12.0
Q ss_pred eeccccCcccCChhHHHHHHhhhcCC
Q psy14386 252 YSCEICGRGFITKGLCKSHQKIHSGN 277 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~h~~~ 277 (344)
|.||+|++. .+...|..|....|..
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~ 27 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRS 27 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcC
Confidence 455555552 3334555555544443
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=98.11 E-value=4.9e-06 Score=53.19 Aligned_cols=49 Identities=18% Similarity=0.386 Sum_probs=22.8
Q ss_pred cccCCCccccCChHHHHHHHHHh-CC-CCceeccccCcccCChhHHHHHHhhhc
Q psy14386 224 YACKTCPRSFKTKQTLLDHENRH-MG-VKPYSCEICGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 224 ~~C~~C~~~f~~~~~L~~H~~~h-~~-~k~~~C~~C~k~f~~~~~L~~H~~~h~ 275 (344)
|.|++|++ ..+...|..|.... .. .+.+.||+|...+. .+|..|+..++
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 45555555 23334455554432 22 23455555555433 25555555544
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.03 E-value=3.6e-06 Score=43.52 Aligned_cols=22 Identities=41% Similarity=0.881 Sum_probs=13.1
Q ss_pred eeccccCcccCChhHHHHHHhh
Q psy14386 252 YSCEICGRGFITKGLCKSHQKI 273 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~ 273 (344)
|.|+.|++.|.++..|..|++.
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 4566666666666666666554
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.91 E-value=5.5e-06 Score=60.63 Aligned_cols=24 Identities=25% Similarity=0.461 Sum_probs=0.0
Q ss_pred eccccCcccCChhHHHHHHhhhcC
Q psy14386 253 SCEICGRGFITKGLCKSHQKIHSG 276 (344)
Q Consensus 253 ~C~~C~k~f~~~~~L~~H~~~h~~ 276 (344)
+|..|+..|.+...|..|+...|+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~ 24 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG 24 (100)
T ss_dssp ------------------------
T ss_pred Cccccccccccccccccccccccc
Confidence 366677777777777777655554
No 30
>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=97.85 E-value=7.4e-06 Score=44.17 Aligned_cols=24 Identities=46% Similarity=0.933 Sum_probs=21.0
Q ss_pred cccccccchhccChHHHHHHhhhC
Q psy14386 321 PYSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 321 ~~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
||+|..|++.|.+...|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 588999999999999999998876
No 31
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.82 E-value=3.6e-06 Score=71.45 Aligned_cols=71 Identities=24% Similarity=0.509 Sum_probs=46.3
Q ss_pred CCCceeccc--cCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCccccc
Q psy14386 248 GVKPYSCEI--CGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCE 325 (344)
Q Consensus 248 ~~k~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~ 325 (344)
++|||+|++ |.|++++...|+-|++--|.. .+..+-+. ++ .|.-.-...|||.|+
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~-~~~~~~p~----------p~------------~~~~F~~~~KPYrCe 402 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQN-QKLHENPS----------PE------------KMNIFSAKDKPYRCE 402 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccC-cccCCCCC----------cc------------ccccccccCCceecc
Confidence 469999987 999999999999998754421 01000000 00 111112345899999
Q ss_pred ccchhccChHHHHHHh
Q psy14386 326 LCNKAFVSRSTLMVHK 341 (344)
Q Consensus 326 ~C~~~f~~~~~L~~H~ 341 (344)
+|+|.|....+|.-|+
T Consensus 403 vC~KRYKNlNGLKYHr 418 (423)
T COG5189 403 VCDKRYKNLNGLKYHR 418 (423)
T ss_pred ccchhhccCccceecc
Confidence 9999999999998885
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.80 E-value=5.9e-06 Score=70.17 Aligned_cols=52 Identities=35% Similarity=0.720 Sum_probs=38.4
Q ss_pred CCCcccCC--CccccCChHHHHHHHHH-h------------------CCCCceeccccCcccCChhHHHHHHh
Q psy14386 221 DKPYACKT--CPRSFKTKQTLLDHENR-H------------------MGVKPYSCEICGRGFITKGLCKSHQK 272 (344)
Q Consensus 221 ~~~~~C~~--C~~~f~~~~~L~~H~~~-h------------------~~~k~~~C~~C~k~f~~~~~L~~H~~ 272 (344)
+|||+|++ |.|.|+....|+-|+.- | ...|||.|++|+|.+++...|+-|+.
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 46777765 77777777777777652 1 23589999999999999999988864
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.74 E-value=1.2e-05 Score=41.93 Aligned_cols=23 Identities=39% Similarity=0.891 Sum_probs=15.4
Q ss_pred ccccccchhccChHHHHHHhhhC
Q psy14386 322 YSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
|.|++|++.|.+...|..|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 56777777777777777777654
No 34
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.73 E-value=2.7e-05 Score=40.50 Aligned_cols=23 Identities=35% Similarity=0.911 Sum_probs=12.2
Q ss_pred eeccccCcccCChhHHHHHHhhh
Q psy14386 252 YSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
|.|++|++.|.+...|..|+++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45555666666666666665554
No 35
>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=3.5e-05 Score=41.48 Aligned_cols=25 Identities=28% Similarity=0.850 Sum_probs=17.8
Q ss_pred ceeccccCcccCChhHHHHHHhhhc
Q psy14386 251 PYSCEICGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L~~H~~~h~ 275 (344)
||.|..|++.|.+...|..|++.|.
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 5677777777777777777776664
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.62 E-value=3.7e-05 Score=56.18 Aligned_cols=24 Identities=17% Similarity=0.592 Sum_probs=15.3
Q ss_pred ceeccccCcccCChhHHHHHHhhh
Q psy14386 251 PYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
.+.|..|++.|.+...|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 566666766666666666666654
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.41 E-value=9.2e-05 Score=39.15 Aligned_cols=23 Identities=43% Similarity=0.842 Sum_probs=16.4
Q ss_pred ccccccchhccChHHHHHHhhhC
Q psy14386 322 YSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
|.|..|+++|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 56777777777777777777654
No 38
>KOG2231|consensus
Probab=97.41 E-value=0.00034 Score=66.81 Aligned_cols=137 Identities=20% Similarity=0.396 Sum_probs=74.8
Q ss_pred ccccccccccChHHHHHHHHHhcCCCceecCccCC---------ccCCHHHHHHHHHHcC-CCC----CcccCCCccccC
Q psy14386 169 QCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGK---------GFQNKSYLIVHQRVHS-TDK----PYACKTCPRSFK 234 (344)
Q Consensus 169 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---------~f~~~~~l~~H~~~h~-~~~----~~~C~~C~~~f~ 234 (344)
.|..| -.|.....|..|+..-+. .+.|..|-. .......|..|++.-- +++ --.|..|...|-
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 46666 566677788888754332 245554432 2234566677765311 121 135777777777
Q ss_pred ChHHHHHHHHHhCCCCceecccc------CcccCChhHHHHHHhhhcCCCCCCcCCC--CCCCccCCCCCcccccccCCh
Q psy14386 235 TKQTLLDHENRHMGVKPYSCEIC------GRGFITKGLCKSHQKIHSGNDNRQYPCP--VCKKLFVSKSCNICGQSFTQF 306 (344)
Q Consensus 235 ~~~~L~~H~~~h~~~k~~~C~~C------~k~f~~~~~L~~H~~~h~~~~~~~~~C~--~C~~~f~~~~C~~C~k~f~~~ 306 (344)
....|..|++.++ |.|..| +.-|.....|..|.+.+| |.|+ .|. +..+-..|...
T Consensus 194 d~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H------flCE~~~C~-------~~~f~~~~~~e 256 (669)
T KOG2231|consen 194 DDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH------FLCEEEFCR-------TKKFYVAFELE 256 (669)
T ss_pred cHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC------ccccccccc-------cceeeehhHHH
Confidence 7777777777654 445555 334556677777777654 4454 332 12222233444
Q ss_pred hhHHHHHHHccCCCccccc
Q psy14386 307 SPMAIHKRLHTGERPYSCE 325 (344)
Q Consensus 307 ~~L~~H~~~H~~~k~~~C~ 325 (344)
..|+.|.+.+.-++.|.|.
T Consensus 257 i~lk~~~~~~~~e~~~~~~ 275 (669)
T KOG2231|consen 257 IELKAHNRFIQHEKCYICR 275 (669)
T ss_pred HHHHhhccccchheeccCC
Confidence 5555555444445555553
No 39
>KOG2231|consensus
Probab=97.11 E-value=0.0013 Score=63.01 Aligned_cols=143 Identities=23% Similarity=0.437 Sum_probs=98.0
Q ss_pred cccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHH-HcCCCCCcccCCC----------ccccCCh
Q psy14386 168 FQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQR-VHSTDKPYACKTC----------PRSFKTK 236 (344)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C----------~~~f~~~ 236 (344)
+.|..|+..|.... ..-.|..| -.|.....|++|++ .|. .+.|.+| .+.| ++
T Consensus 100 ~~C~~C~~~~~~~~------------~~~~~~~c-~~~~s~~~Lk~H~~~~H~---~~~c~lC~~~~kif~~e~k~Y-t~ 162 (669)
T KOG2231|consen 100 HSCHICDRRFRALY------------NKKECLHC-TEFKSVENLKNHMRDQHK---LHLCSLCLQNLKIFINERKLY-TR 162 (669)
T ss_pred hhcCccccchhhhc------------ccCCCccc-cchhHHHHHHHHHHHhhh---hhccccccccceeeeeeeehe-hH
Confidence 78999998874322 11348888 78889999999996 453 3444443 3333 56
Q ss_pred HHHHHHHHHhCC-CC----ceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHH
Q psy14386 237 QTLLDHENRHMG-VK----PYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAI 311 (344)
Q Consensus 237 ~~L~~H~~~h~~-~k----~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~ 311 (344)
..|..|++.--. ++ --.|..|...|.....|.+|++.++ |.|-.|.+. +.++.-|.....|..
T Consensus 163 ~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h------~~chfC~~~------~~~neyy~~~~dLe~ 230 (669)
T KOG2231|consen 163 AELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH------EFCHFCDYK------TGQNEYYNDYDDLEE 230 (669)
T ss_pred HHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce------eheeecCcc------cccchhcccchHHHH
Confidence 678888874221 11 2579999999999999999998765 456666531 345677888899999
Q ss_pred HHHHccCCCccccc--ccc-hhccChHHHHHHhhh
Q psy14386 312 HKRLHTGERPYSCE--LCN-KAFVSRSTLMVHKKK 343 (344)
Q Consensus 312 H~~~H~~~k~~~C~--~C~-~~f~~~~~L~~H~~~ 343 (344)
|.+.++ |.|. .|. +.|.....+..|++.
T Consensus 231 HfR~~H----flCE~~~C~~~~f~~~~~~ei~lk~ 261 (669)
T KOG2231|consen 231 HFRKGH----FLCEEEFCRTKKFYVAFELEIELKA 261 (669)
T ss_pred HhhhcC----ccccccccccceeeehhHHHHHHHh
Confidence 988764 7887 665 455555566666553
No 40
>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=97.08 E-value=0.00057 Score=41.63 Aligned_cols=29 Identities=21% Similarity=0.354 Sum_probs=10.6
Q ss_pred CCcccCCCccccCChHHHHHHHHHhCCCC
Q psy14386 222 KPYACKTCPRSFKTKQTLLDHENRHMGVK 250 (344)
Q Consensus 222 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~k 250 (344)
.|-.|++|+..+.+..+|++|+.++++.|
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 34444444444444444444444444433
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.06 E-value=0.00021 Score=37.54 Aligned_cols=22 Identities=36% Similarity=0.883 Sum_probs=17.9
Q ss_pred ccccccchhccChHHHHHHhhh
Q psy14386 322 YSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
|.|.+|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 5788888888888888888865
No 42
>PRK04860 hypothetical protein; Provisional
Probab=96.99 E-value=0.00043 Score=54.75 Aligned_cols=38 Identities=34% Similarity=0.765 Sum_probs=26.2
Q ss_pred CcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCCh
Q psy14386 223 PYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITK 264 (344)
Q Consensus 223 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~ 264 (344)
+|.|. |+. ....+++|.++|+++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 57776 766 555567777777777777777777766543
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.96 E-value=0.00085 Score=35.26 Aligned_cols=19 Identities=37% Similarity=0.775 Sum_probs=7.9
Q ss_pred ccccCcccCChhHHHHHHh
Q psy14386 254 CEICGRGFITKGLCKSHQK 272 (344)
Q Consensus 254 C~~C~k~f~~~~~L~~H~~ 272 (344)
|+.|++.|.+...|..|++
T Consensus 3 C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 3 CPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCcchhCCHHHHHHHHH
Confidence 4444444444444444443
No 44
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.90 E-value=0.00015 Score=67.92 Aligned_cols=153 Identities=24% Similarity=0.357 Sum_probs=85.7
Q ss_pred ccccccccccccChHHHHHHHH--HhcCC--CceecC--ccCCccCCHHHHHHHHHHcCCCCCcccCC--CccccCChHH
Q psy14386 167 PFQCFKCEKRFRSKLGLDEHEA--KHTGR--YEYECN--ACGKGFQNKSYLIVHQRVHSTDKPYACKT--CPRSFKTKQT 238 (344)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~ 238 (344)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|++..++.+.. |...+.....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccC
Confidence 4556666666666666666666 56666 666666 56666666666666666666665555543 3333322222
Q ss_pred H-----HHHHHHhCCCCceeccc--cCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHH
Q psy14386 239 L-----LDHENRHMGVKPYSCEI--CGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAI 311 (344)
Q Consensus 239 L-----~~H~~~h~~~k~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~ 311 (344)
- ..........+.+.+.. |-..+.....+..|...|... +++. ..+..|.+.|.....+..
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~----------~~~~~~~~~~~~~~~~~~ 436 (467)
T COG5048 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSF--RPYN----------CKNPPCSKSFNRHYNLIP 436 (467)
T ss_pred CCCccchhhccCccCCccccccccchhhhhcccccccccccccccc--CCcC----------CCCCcchhhccCcccccc
Confidence 0 00111112233344432 555555555555555555443 2111 126677778888888888
Q ss_pred HHHHccCCCcccccccchhc
Q psy14386 312 HKRLHTGERPYSCELCNKAF 331 (344)
Q Consensus 312 H~~~H~~~k~~~C~~C~~~f 331 (344)
|++.|....++.|..++..+
T Consensus 437 ~~~~~~~~~~~~~~~~~~~~ 456 (467)
T COG5048 437 HKKIHTNHAPLLCSILKSFR 456 (467)
T ss_pred cccccccCCceeeccccccc
Confidence 88888888887777765433
No 45
>KOG2785|consensus
Probab=96.84 E-value=0.0027 Score=56.00 Aligned_cols=47 Identities=21% Similarity=0.429 Sum_probs=42.4
Q ss_pred CcccccccCChhhHHHHHHHccCCC-----------------------cccccccc---hhccChHHHHHHhh
Q psy14386 296 CNICGQSFTQFSPMAIHKRLHTGER-----------------------PYSCELCN---KAFVSRSTLMVHKK 342 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~H~~~k-----------------------~~~C~~C~---~~f~~~~~L~~H~~ 342 (344)
|..|++.|.+......||..|+|-. -|.|-.|+ +.|.+....+.||+
T Consensus 169 CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 169 CLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred eeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 9999999999999999999988732 37899999 99999999999996
No 46
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.78 E-value=0.0012 Score=34.29 Aligned_cols=23 Identities=35% Similarity=0.527 Sum_probs=12.2
Q ss_pred eeccccCcccCChhHHHHHHhhhc
Q psy14386 252 YSCEICGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~h~ 275 (344)
|+|+.|+.... ...|.+|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45666665555 556666665554
No 47
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.69 E-value=0.00035 Score=65.44 Aligned_cols=141 Identities=24% Similarity=0.387 Sum_probs=89.7
Q ss_pred CceecCccCCccCCHHHHHHHHH--HcCCC--CCcccC--CCccccCChHHHHHHHHHhCCCCceeccc--cCcccCChh
Q psy14386 194 YEYECNACGKGFQNKSYLIVHQR--VHSTD--KPYACK--TCPRSFKTKQTLLDHENRHMGVKPYSCEI--CGRGFITKG 265 (344)
Q Consensus 194 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~k~~~C~~--C~k~f~~~~ 265 (344)
.++.|..|...|.....|.+|.+ .|.++ +++.|+ .|++.|.+...+..|..+|++..++.+.. |.+.+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 367 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLL 367 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCcccccccc
Confidence 35667777777777777777777 67777 777777 57777777777777777777777666654 333333332
Q ss_pred HHHHHHhhhcC---CCCCCcCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCC--cccccccchhccChHHHHHH
Q psy14386 266 LCKSHQKIHSG---NDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGER--PYSCELCNKAFVSRSTLMVH 340 (344)
Q Consensus 266 ~L~~H~~~h~~---~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k--~~~C~~C~~~f~~~~~L~~H 340 (344)
.-..+...... .....+.+. =..|-..+.....+..|...|...+ .+.+..|.+.|.....|..|
T Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 (467)
T COG5048 368 NNEPPQSLQQYKDLKNDKKSETL----------SNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPH 437 (467)
T ss_pred CCCCccchhhccCccCCcccccc----------ccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccc
Confidence 21111111100 000111111 1236667777888888888888877 47788899999999999999
Q ss_pred hhhC
Q psy14386 341 KKKH 344 (344)
Q Consensus 341 ~~~H 344 (344)
++.|
T Consensus 438 ~~~~ 441 (467)
T COG5048 438 KKIH 441 (467)
T ss_pred cccc
Confidence 8765
No 48
>PRK04860 hypothetical protein; Provisional
Probab=96.64 E-value=0.0012 Score=52.15 Aligned_cols=39 Identities=26% Similarity=0.677 Sum_probs=33.3
Q ss_pred CceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCccccCCh
Q psy14386 194 YEYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSFKTK 236 (344)
Q Consensus 194 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 236 (344)
.+|.|. |+. ....+.+|.++|+++++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 469998 987 667789999999999999999999988654
No 49
>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=96.56 E-value=0.0028 Score=38.69 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=12.6
Q ss_pred CccccccccccccChHHHHHHHHHhcCCC
Q psy14386 166 KPFQCFKCEKRFRSKLGLDEHEAKHTGRY 194 (344)
Q Consensus 166 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 194 (344)
.|-.|+.|+..+....+|.+|+..+++.+
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 34455555555555555555555544443
No 50
>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=96.52 E-value=0.0011 Score=35.55 Aligned_cols=22 Identities=36% Similarity=0.748 Sum_probs=18.7
Q ss_pred ccccccchhccChHHHHHHhhh
Q psy14386 322 YSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
|-|.+|++.|.+...|..|+++
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 6788888888888888888875
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.48 E-value=0.002 Score=33.41 Aligned_cols=23 Identities=39% Similarity=0.683 Sum_probs=11.7
Q ss_pred cccCCCccccCChHHHHHHHHHhC
Q psy14386 224 YACKTCPRSFKTKQTLLDHENRHM 247 (344)
Q Consensus 224 ~~C~~C~~~f~~~~~L~~H~~~h~ 247 (344)
|+|+.|+.... ...|..|++.|+
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 45556665555 555666655543
No 52
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.36 E-value=0.0027 Score=33.20 Aligned_cols=23 Identities=22% Similarity=0.723 Sum_probs=14.6
Q ss_pred eeccccCcccCChhHHHHHHhhh
Q psy14386 252 YSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
|.|..|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 45666666666666666666543
No 53
>KOG1146|consensus
Probab=96.33 E-value=0.0011 Score=67.09 Aligned_cols=139 Identities=22% Similarity=0.209 Sum_probs=94.7
Q ss_pred ccCCHHHHHHHHH-HcCCCCCcccCCCccccCChHHHHHHHHHhC-------------------------CCCceecccc
Q psy14386 204 GFQNKSYLIVHQR-VHSTDKPYACKTCPRSFKTKQTLLDHENRHM-------------------------GVKPYSCEIC 257 (344)
Q Consensus 204 ~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-------------------------~~k~~~C~~C 257 (344)
.+.+...+..|+. .|.-.+.|+|+.|+..|+....|..|||.-+ +.+||.|..|
T Consensus 445 ~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C 524 (1406)
T KOG1146|consen 445 LLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRAC 524 (1406)
T ss_pred hhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceee
Confidence 3444444444443 3555688999999999999999999999722 3478999999
Q ss_pred CcccCChhHHHHHHhhh--cCC----------CC--CCc-CCCCC--------------CCccCCCCCcccccccCChhh
Q psy14386 258 GRGFITKGLCKSHQKIH--SGN----------DN--RQY-PCPVC--------------KKLFVSKSCNICGQSFTQFSP 308 (344)
Q Consensus 258 ~k~f~~~~~L~~H~~~h--~~~----------~~--~~~-~C~~C--------------~~~f~~~~C~~C~k~f~~~~~ 308 (344)
..++....+|.+|+..- -.+ .. .+. .|..+ .+....+.|..|+..-.-..+
T Consensus 525 ~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarn 604 (1406)
T KOG1146|consen 525 NYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARN 604 (1406)
T ss_pred eeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhc
Confidence 99999999999998642 110 00 000 02111 233344569999988888889
Q ss_pred HHHHHH-HccCCCcccccccchhccChHHHHHHhh
Q psy14386 309 MAIHKR-LHTGERPYSCELCNKAFVSRSTLMVHKK 342 (344)
Q Consensus 309 L~~H~~-~H~~~k~~~C~~C~~~f~~~~~L~~H~~ 342 (344)
|+-|+. .++...|--|..|+-.+.....|..|.+
T Consensus 605 lrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~ 639 (1406)
T KOG1146|consen 605 LRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGR 639 (1406)
T ss_pred cccccccCCCCCChHHHhhhcchhhccccccCcCC
Confidence 999975 3555555778888877777777666544
No 54
>KOG1146|consensus
Probab=96.10 E-value=0.0023 Score=64.91 Aligned_cols=134 Identities=16% Similarity=0.232 Sum_probs=86.1
Q ss_pred cccccccccCCHHHHHHHHHh-cCCCCccccccccccccChHHHHHHHHHhc-------------------------CCC
Q psy14386 141 KCDRCPKKFSSLAKYNFHVSN-HGVDKPFQCFKCEKRFRSKLGLDEHEAKHT-------------------------GRY 194 (344)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~-------------------------~~~ 194 (344)
.|..|+..+.+...+..|+.. +...+.|.|+.|+..|.....|..|||..+ +.+
T Consensus 438 e~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~ 517 (1406)
T KOG1146|consen 438 ELTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGK 517 (1406)
T ss_pred cccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCC
Confidence 344555555555555555432 444466777777777777777777777621 235
Q ss_pred ceecCccCCccCCHHHHHHHHHH--cCC-----------------------------------------CCCcccCCCcc
Q psy14386 195 EYECNACGKGFQNKSYLIVHQRV--HST-----------------------------------------DKPYACKTCPR 231 (344)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~--h~~-----------------------------------------~~~~~C~~C~~ 231 (344)
+|.|..|...+..+.+|.+|+.. |.. .-.|.|.+|++
T Consensus 518 p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~y 597 (1406)
T KOG1146|consen 518 PYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSY 597 (1406)
T ss_pred cccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcc
Confidence 67788888888887888777642 110 12378888888
Q ss_pred ccCChHHHHHHHHH-hCCCCceeccccCcccCChhHHHHHHhhh
Q psy14386 232 SFKTKQTLLDHENR-HMGVKPYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 232 ~f~~~~~L~~H~~~-h~~~k~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
-.+-..+|+.||.. ++...|..|-.|+-.+.....+..+.+.+
T Consensus 598 etniarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 598 ETNIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGGQGRLP 641 (1406)
T ss_pred hhhhhhccccccccCCCCCChHHHhhhcchhhccccccCcCCCC
Confidence 88878888888774 33344477777777777766666666655
No 55
>KOG2482|consensus
Probab=95.66 E-value=0.044 Score=47.75 Aligned_cols=51 Identities=18% Similarity=0.252 Sum_probs=41.1
Q ss_pred cccCCCccccCChHHHHHHHHHhCC---------------------------CCceeccccCcccCChhHHHHHHhhh
Q psy14386 224 YACKTCPRSFKTKQTLLDHENRHMG---------------------------VKPYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 224 ~~C~~C~~~f~~~~~L~~H~~~h~~---------------------------~k~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
..|-.|...+.+...|..||++-+. .+.-.|-.|.-.|.....|..|+.-+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 5899999999999999999986441 12356788899999999999998764
No 56
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.41 E-value=0.005 Score=32.88 Aligned_cols=22 Identities=27% Similarity=0.635 Sum_probs=14.5
Q ss_pred eeccccCcccCChhHHHHHHhh
Q psy14386 252 YSCEICGRGFITKGLCKSHQKI 273 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~ 273 (344)
|.|..|++.|.+...|..|++.
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 5566677777776666666654
No 57
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.20 E-value=0.014 Score=30.53 Aligned_cols=19 Identities=32% Similarity=0.814 Sum_probs=9.3
Q ss_pred cccccchhccChHHHHHHhh
Q psy14386 323 SCELCNKAFVSRSTLMVHKK 342 (344)
Q Consensus 323 ~C~~C~~~f~~~~~L~~H~~ 342 (344)
.|+.||+.| ..+.|.+|++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 4444555543
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.85 E-value=0.022 Score=29.78 Aligned_cols=19 Identities=32% Similarity=0.898 Sum_probs=15.6
Q ss_pred CcccccccCChhhHHHHHHH
Q psy14386 296 CNICGQSFTQFSPMAIHKRL 315 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~ 315 (344)
|++||+.| ....|.+|+.+
T Consensus 5 C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 5 CPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CCCCCCEE-CHHHHHHHHHh
Confidence 88888888 67889999764
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=94.73 E-value=0.02 Score=32.60 Aligned_cols=23 Identities=30% Similarity=0.667 Sum_probs=17.5
Q ss_pred cccccccchhccChHHHHHHhhh
Q psy14386 321 PYSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 321 ~~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
+|.|.+|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888888888888753
No 60
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.60 E-value=0.052 Score=39.78 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=29.6
Q ss_pred ccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhhh
Q psy14386 225 ACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 225 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
.|--|...|........ ..-.....|.|+.|...|--.-++-.|...|
T Consensus 57 ~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCcccccc--cccccccceeCCCCCCccccccchhhhhhcc
Confidence 37777777765431110 0022345688888888888777777777666
No 61
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.56 E-value=0.028 Score=48.94 Aligned_cols=20 Identities=25% Similarity=0.378 Sum_probs=10.5
Q ss_pred cCCCccccCChHHHHHHHHH
Q psy14386 226 CKTCPRSFKTKQTLLDHENR 245 (344)
Q Consensus 226 C~~C~~~f~~~~~L~~H~~~ 245 (344)
|..|...|-.-..|.+|++.
T Consensus 223 C~FC~~~FYdDDEL~~HcR~ 242 (493)
T COG5236 223 CIFCKIYFYDDDELRRHCRL 242 (493)
T ss_pred hhhccceecChHHHHHHHHh
Confidence 55555555555555555553
No 62
>KOG2785|consensus
Probab=94.04 E-value=0.23 Score=44.30 Aligned_cols=135 Identities=17% Similarity=0.283 Sum_probs=88.6
Q ss_pred cccccccccccCCHHHHHHHHHh--cC-----------------------------------CCCccccccccccccChH
Q psy14386 139 LHKCDRCPKKFSSLAKYNFHVSN--HG-----------------------------------VDKPFQCFKCEKRFRSKL 181 (344)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~--h~-----------------------------------~~~~~~C~~C~~~f~~~~ 181 (344)
.|.|.-|...|.+...-+.|+++ |. .+-++.|..|.+.|.+..
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s~~ 82 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFASPK 82 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccChh
Confidence 48999999999999888888764 21 113578999999999888
Q ss_pred HHHHHHHHhcCC-----------------Ccee-------------cCccCCccCCHHHHHHHH------HHc------C
Q psy14386 182 GLDEHEAKHTGR-----------------YEYE-------------CNACGKGFQNKSYLIVHQ------RVH------S 219 (344)
Q Consensus 182 ~l~~H~~~h~~~-----------------~~~~-------------C~~C~~~f~~~~~l~~H~------~~h------~ 219 (344)
....|+..-... +.+. +..+-..+........+. .+- -
T Consensus 83 a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~~d~~~e~ 162 (390)
T KOG2785|consen 83 AHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIEEDGDDED 162 (390)
T ss_pred hHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhhhccchhc
Confidence 888887542110 0011 111111111111111110 000 0
Q ss_pred CCCCcccCCCccccCChHHHHHHHHHhCCC-----------------------CceeccccC---cccCChhHHHHHHhh
Q psy14386 220 TDKPYACKTCPRSFKTKQTLLDHENRHMGV-----------------------KPYSCEICG---RGFITKGLCKSHQKI 273 (344)
Q Consensus 220 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~-----------------------k~~~C~~C~---k~f~~~~~L~~H~~~ 273 (344)
..-|-.|-.|++.+++-..-..||..++|- .-|.|-.|+ +.|.+....+.||..
T Consensus 163 e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 163 ELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 123467999999999999999999988864 237888898 999999999999975
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.60 E-value=0.12 Score=45.15 Aligned_cols=131 Identities=21% Similarity=0.312 Sum_probs=87.5
Q ss_pred ccccc--cccccCCHHHHHHHHHhcCCCCcccccccc---cccc------ChHHHHHHHHHhcCCC----ceecCccCCc
Q psy14386 140 HKCDR--CPKKFSSLAKYNFHVSNHGVDKPFQCFKCE---KRFR------SKLGLDEHEAKHTGRY----EYECNACGKG 204 (344)
Q Consensus 140 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~f~------~~~~l~~H~~~h~~~~----~~~C~~C~~~ 204 (344)
|.|+. |.........|..|.+..++. +.|..|- +.|. ++..|..|...-..+. .=.|..|...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 67864 666667788999999886654 6777774 3444 3455666654322221 2369999999
Q ss_pred cCCHHHHHHHHHHcCCCCCcccCCCc----cccCChHHHHHHHHHhCCCCceeccc--cC----cccCChhHHHHHHhhh
Q psy14386 205 FQNKSYLIVHQRVHSTDKPYACKTCP----RSFKTKQTLLDHENRHMGVKPYSCEI--CG----RGFITKGLCKSHQKIH 274 (344)
Q Consensus 205 f~~~~~l~~H~~~h~~~~~~~C~~C~----~~f~~~~~L~~H~~~h~~~k~~~C~~--C~----k~f~~~~~L~~H~~~h 274 (344)
|.+-..|.+|+|..+ ++-|.|+.-+ .-|+....|..|.+. --|.|.. |. ..|.....|..|+..-
T Consensus 230 FYdDDEL~~HcR~~H-E~ChICD~v~p~~~QYFK~Y~~Le~HF~~----~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~ 304 (493)
T COG5236 230 FYDDDELRRHCRLRH-EACHICDMVGPIRYQYFKSYEDLEAHFRN----AHYCCTFQTCRVGKCYVFPYHTELLEHLTRF 304 (493)
T ss_pred ecChHHHHHHHHhhh-hhhhhhhccCccchhhhhCHHHHHHHhhc----CceEEEEEEEecCcEEEeccHHHHHHHHHHH
Confidence 999999999999654 3334443322 247777788877663 3366654 42 3588889999999877
Q ss_pred cCC
Q psy14386 275 SGN 277 (344)
Q Consensus 275 ~~~ 277 (344)
|+.
T Consensus 305 h~~ 307 (493)
T COG5236 305 HKV 307 (493)
T ss_pred hhc
Confidence 764
No 64
>KOG4173|consensus
Probab=93.59 E-value=0.045 Score=44.14 Aligned_cols=84 Identities=26% Similarity=0.471 Sum_probs=58.2
Q ss_pred CCCcccCC--CccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhhhcCC--------CCCCcCCCCCCCc
Q psy14386 221 DKPYACKT--CPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKIHSGN--------DNRQYPCPVCKKL 290 (344)
Q Consensus 221 ~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~--------~~~~~~C~~C~~~ 290 (344)
.+.|.|.+ |...|..-..+..|..+-++. .|..|.+.|.+...|..|+..-|.- ..-.|+|-+
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~Clv---- 149 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLV---- 149 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHH----
Confidence 34578887 778888887777777665544 7999999999999999998643310 013455433
Q ss_pred cCCCCCcccccccCChhhHHHHH-HHcc
Q psy14386 291 FVSKSCNICGQSFTQFSPMAIHK-RLHT 317 (344)
Q Consensus 291 f~~~~C~~C~k~f~~~~~L~~H~-~~H~ 317 (344)
..|+..|.+......|+ ++|.
T Consensus 150 ------EgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 150 ------EGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred ------HhhhhhhhhhhhhhhHHHHhcc
Confidence 44777888888888885 5563
No 65
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.49 E-value=0.1 Score=38.33 Aligned_cols=85 Identities=19% Similarity=0.298 Sum_probs=48.6
Q ss_pred CccccccccccccChHHHHHHHHHhcCCC------------ceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCcccc
Q psy14386 166 KPFQCFKCEKRFRSKLGLDEHEAKHTGRY------------EYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSF 233 (344)
Q Consensus 166 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 233 (344)
-|..|+.|+-..-....|.+-...--..+ .-.|--|...|........ ..-.....|+|+.|...|
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~F 91 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNVF 91 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccc--cccccccceeCCCCCCcc
Confidence 35566666666555555544211000011 1237788888865431110 001233468899999999
Q ss_pred CChHHHHHHHHHhCCCCceeccccC
Q psy14386 234 KTKQTLLDHENRHMGVKPYSCEICG 258 (344)
Q Consensus 234 ~~~~~L~~H~~~h~~~k~~~C~~C~ 258 (344)
--.-.+..|...|. |+.|.
T Consensus 92 C~dCD~fiHe~Lh~------CPGC~ 110 (112)
T TIGR00622 92 CVDCDVFVHESLHC------CPGCI 110 (112)
T ss_pred ccccchhhhhhccC------CcCCC
Confidence 88888888887774 76665
No 66
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.25 E-value=0.076 Score=30.12 Aligned_cols=23 Identities=22% Similarity=0.469 Sum_probs=18.5
Q ss_pred ceeccccCcccCChhHHHHHHhh
Q psy14386 251 PYSCEICGRGFITKGLCKSHQKI 273 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L~~H~~~ 273 (344)
+|.|..|++.|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888888888888764
No 67
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=92.82 E-value=0.054 Score=30.43 Aligned_cols=9 Identities=44% Similarity=1.571 Sum_probs=3.9
Q ss_pred CceeccccC
Q psy14386 250 KPYSCEICG 258 (344)
Q Consensus 250 k~~~C~~C~ 258 (344)
.++.|+.||
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 344444444
No 68
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=92.81 E-value=0.19 Score=37.20 Aligned_cols=25 Identities=28% Similarity=0.514 Sum_probs=23.1
Q ss_pred eec----cccCcccCChhHHHHHHhhhcC
Q psy14386 252 YSC----EICGRGFITKGLCKSHQKIHSG 276 (344)
Q Consensus 252 ~~C----~~C~k~f~~~~~L~~H~~~h~~ 276 (344)
|.| ..|++.+.+...+.+|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999998875
No 69
>KOG2482|consensus
Probab=92.55 E-value=0.16 Score=44.46 Aligned_cols=107 Identities=28% Similarity=0.463 Sum_probs=76.2
Q ss_pred ccccccccccC-CHHHHHHHHHh-cCC-----C----------------CccccccccccccChHHHHHHHHHh--cCCC
Q psy14386 140 HKCDRCPKKFS-SLAKYNFHVSN-HGV-----D----------------KPFQCFKCEKRFRSKLGLDEHEAKH--TGRY 194 (344)
Q Consensus 140 ~~C~~C~~~f~-~~~~l~~H~~~-h~~-----~----------------~~~~C~~C~~~f~~~~~l~~H~~~h--~~~~ 194 (344)
.+|-.|...+. .++....|+-. |+- + ..+.|-.|.+.|+.+..|+.||+.. ....
T Consensus 145 lqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrrin 224 (423)
T KOG2482|consen 145 LQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRIN 224 (423)
T ss_pred eEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcccC
Confidence 56888876654 45566666532 321 0 2367888999999999999998752 1110
Q ss_pred ----------------------------------------------------c--eecCccCCccCCHHHHHHHHHHcCC
Q psy14386 195 ----------------------------------------------------E--YECNACGKGFQNKSYLIVHQRVHST 220 (344)
Q Consensus 195 ----------------------------------------------------~--~~C~~C~~~f~~~~~l~~H~~~h~~ 220 (344)
+ .+|-.|.....+...|..||..-+.
T Consensus 225 PknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe 304 (423)
T KOG2482|consen 225 PKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVHE 304 (423)
T ss_pred CCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHHH
Confidence 1 5899999998889999999975332
Q ss_pred ---------------------------CCCcccCCCccccCChHHHHHHHHHh
Q psy14386 221 ---------------------------DKPYACKTCPRSFKTKQTLLDHENRH 246 (344)
Q Consensus 221 ---------------------------~~~~~C~~C~~~f~~~~~L~~H~~~h 246 (344)
.+.-.|-.|.-.|.....|..||..+
T Consensus 305 ~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 305 FDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred hhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 12346888999999999999999753
No 70
>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=91.07 E-value=0.15 Score=26.79 Aligned_cols=21 Identities=38% Similarity=0.880 Sum_probs=11.5
Q ss_pred CCCCCCccCC--CCCcccccccC
Q psy14386 284 CPVCKKLFVS--KSCNICGQSFT 304 (344)
Q Consensus 284 C~~C~~~f~~--~~C~~C~k~f~ 304 (344)
|+.|++.... ..|+.||..|.
T Consensus 3 CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 3 CPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred CCCCcCCchhhcCcCCCCCCCCc
Confidence 5566554322 34777776664
No 71
>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=89.94 E-value=0.13 Score=43.23 Aligned_cols=92 Identities=21% Similarity=0.404 Sum_probs=55.3
Q ss_pred hCCCCceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHHHHHH----ccCCCc
Q psy14386 246 HMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRL----HTGERP 321 (344)
Q Consensus 246 h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~----H~~~k~ 321 (344)
.+|.+.|+|..|+...-. ..--.|+..-.--....|+|.-|++. -.++|..|--.|=. .|.+. -...++
T Consensus 137 ~hGGrif~CsfC~~flCE-DDQFEHQAsCQvLe~E~~KC~SCNrl-Gq~sCLRCK~cfCd-----dHvrrKg~ky~k~k~ 209 (314)
T PF06524_consen 137 DHGGRIFKCSFCDNFLCE-DDQFEHQASCQVLESETFKCQSCNRL-GQYSCLRCKICFCD-----DHVRRKGFKYEKGKP 209 (314)
T ss_pred cCCCeEEEeecCCCeeec-cchhhhhhhhhhhhcccccccccccc-cchhhhheeeeehh-----hhhhhcccccccCCC
Confidence 467888888888754332 23334544332223366888888874 34456666655543 34332 123478
Q ss_pred ccccccchhccChHHHHHHhhhC
Q psy14386 322 YSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
+.|+.||.-......|..-.|+|
T Consensus 210 ~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 210 IPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred CCCCCCCCcccccccceeeeecc
Confidence 99999998887777776555444
No 72
>KOG4173|consensus
Probab=89.33 E-value=0.17 Score=40.91 Aligned_cols=74 Identities=27% Similarity=0.505 Sum_probs=45.2
Q ss_pred ccccc--ccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHHH-c---------CCCCCcccC--CCcccc
Q psy14386 168 FQCFK--CEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQRV-H---------STDKPYACK--TCPRSF 233 (344)
Q Consensus 168 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~~~C~--~C~~~f 233 (344)
|.|+. |...|.....+..|...-++. .|..|.+.|.+.-.|..|+.- | .|..-|.|- .|+..|
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 67776 777777777777776554443 477888888877777777642 2 223335553 255555
Q ss_pred CChHHHHHHHH
Q psy14386 234 KTKQTLLDHEN 244 (344)
Q Consensus 234 ~~~~~L~~H~~ 244 (344)
.+...-+.|+-
T Consensus 157 kT~r~RkdH~I 167 (253)
T KOG4173|consen 157 KTSRDRKDHMI 167 (253)
T ss_pred hhhhhhhhHHH
Confidence 55555555543
No 73
>KOG2893|consensus
Probab=89.15 E-value=0.11 Score=42.91 Aligned_cols=42 Identities=26% Similarity=0.631 Sum_probs=27.7
Q ss_pred cCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHH
Q psy14386 226 CKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQ 271 (344)
Q Consensus 226 C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~ 271 (344)
|.+|++.|....-|..|++. |-|+|.+|.|..-+--.|..|-
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeeh
Confidence 67777777777777666653 4477777777666666666663
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=87.76 E-value=0.26 Score=36.22 Aligned_cols=13 Identities=31% Similarity=0.812 Sum_probs=6.5
Q ss_pred Ccccccccchhcc
Q psy14386 320 RPYSCELCNKAFV 332 (344)
Q Consensus 320 k~~~C~~C~~~f~ 332 (344)
.|-.|+.||..|.
T Consensus 25 ~PivCP~CG~~~~ 37 (108)
T PF09538_consen 25 DPIVCPKCGTEFP 37 (108)
T ss_pred CCccCCCCCCccC
Confidence 4455555555443
No 75
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=87.75 E-value=0.41 Score=27.65 Aligned_cols=11 Identities=36% Similarity=0.890 Sum_probs=4.8
Q ss_pred ceeccccCccc
Q psy14386 251 PYSCEICGRGF 261 (344)
Q Consensus 251 ~~~C~~C~k~f 261 (344)
..+|+.|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 44444444433
No 76
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=87.57 E-value=0.37 Score=27.92 Aligned_cols=10 Identities=30% Similarity=0.876 Sum_probs=4.2
Q ss_pred eeccccCccc
Q psy14386 252 YSCEICGRGF 261 (344)
Q Consensus 252 ~~C~~C~k~f 261 (344)
..|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 3444444433
No 77
>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=87.53 E-value=1.3 Score=32.72 Aligned_cols=25 Identities=28% Similarity=0.598 Sum_probs=22.8
Q ss_pred ccc----CCCccccCChHHHHHHHHHhCC
Q psy14386 224 YAC----KTCPRSFKTKQTLLDHENRHMG 248 (344)
Q Consensus 224 ~~C----~~C~~~f~~~~~L~~H~~~h~~ 248 (344)
|.| ..|+..+.+...++.|.+.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999998775
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=87.48 E-value=0.28 Score=30.57 Aligned_cols=30 Identities=23% Similarity=0.319 Sum_probs=20.9
Q ss_pred CCCCceeccccCcccCChhHHHHHHhhhcC
Q psy14386 247 MGVKPYSCEICGRGFITKGLCKSHQKIHSG 276 (344)
Q Consensus 247 ~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~ 276 (344)
-|+.-+.||.||..|.....+.+|...-|+
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 466667777777777777777777655443
No 79
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=87.10 E-value=0.14 Score=42.88 Aligned_cols=24 Identities=29% Similarity=0.634 Sum_probs=15.4
Q ss_pred CCceeccccCcccCChhHHHHHHh
Q psy14386 249 VKPYSCEICGRGFITKGLCKSHQK 272 (344)
Q Consensus 249 ~k~~~C~~C~k~f~~~~~L~~H~~ 272 (344)
++.+.||+|++.|.+..-+....+
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r 26 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIR 26 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCce
Confidence 356778888888877655444443
No 80
>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=87.01 E-value=0.31 Score=27.54 Aligned_cols=9 Identities=22% Similarity=0.792 Sum_probs=3.8
Q ss_pred cccCCCccc
Q psy14386 224 YACKTCPRS 232 (344)
Q Consensus 224 ~~C~~C~~~ 232 (344)
|+|..||..
T Consensus 3 ~~C~~CG~i 11 (34)
T cd00729 3 WVCPVCGYI 11 (34)
T ss_pred EECCCCCCE
Confidence 344444433
No 81
>PRK04023 DNA polymerase II large subunit; Validated
Probab=87.01 E-value=0.61 Score=47.09 Aligned_cols=24 Identities=29% Similarity=0.729 Sum_probs=15.3
Q ss_pred CCcCCCCCCCccCCCCCccccccc
Q psy14386 280 RQYPCPVCKKLFVSKSCNICGQSF 303 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~C~~C~k~f 303 (344)
..|.|+.|+.....+.|+.||..-
T Consensus 650 ~i~fCP~CG~~~~~y~CPKCG~El 673 (1121)
T PRK04023 650 PVYRCPRCGIEVEEDECEKCGREP 673 (1121)
T ss_pred cceeCccccCcCCCCcCCCCCCCC
Confidence 456677777666666677776543
No 82
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=86.52 E-value=0.25 Score=31.47 Aligned_cols=8 Identities=38% Similarity=1.236 Sum_probs=4.0
Q ss_pred eeccccCc
Q psy14386 252 YSCEICGR 259 (344)
Q Consensus 252 ~~C~~C~k 259 (344)
|.|+.||.
T Consensus 26 F~CPnCG~ 33 (59)
T PRK14890 26 FLCPNCGE 33 (59)
T ss_pred eeCCCCCC
Confidence 45555553
No 83
>KOG2893|consensus
Probab=86.30 E-value=0.26 Score=40.85 Aligned_cols=33 Identities=36% Similarity=0.890 Sum_probs=25.3
Q ss_pred CceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCC
Q psy14386 250 KPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKK 289 (344)
Q Consensus 250 k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~ 289 (344)
||+ |=+|++.|.....|..|++. +.|+|..|.|
T Consensus 10 kpw-cwycnrefddekiliqhqka------khfkchichk 42 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKA------KHFKCHICHK 42 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhh------ccceeeeehh
Confidence 444 88899999999999999987 4566555544
No 84
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=86.16 E-value=0.57 Score=26.83 Aligned_cols=10 Identities=30% Similarity=0.770 Sum_probs=4.1
Q ss_pred ceeccccCcc
Q psy14386 251 PYSCEICGRG 260 (344)
Q Consensus 251 ~~~C~~C~k~ 260 (344)
..+|+.|+..
T Consensus 25 ~v~C~~C~~~ 34 (36)
T PF13717_consen 25 KVRCSKCGHV 34 (36)
T ss_pred EEECCCCCCE
Confidence 3444444433
No 85
>KOG1842|consensus
Probab=86.08 E-value=0.48 Score=43.07 Aligned_cols=26 Identities=19% Similarity=0.387 Sum_probs=21.4
Q ss_pred CCcccCCCccccCChHHHHHHHHHhC
Q psy14386 222 KPYACKTCPRSFKTKQTLLDHENRHM 247 (344)
Q Consensus 222 ~~~~C~~C~~~f~~~~~L~~H~~~h~ 247 (344)
.-|.|++|.+-|..-..|..|...-|
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhc
Confidence 35889999999999999999987543
No 86
>KOG4124|consensus
Probab=85.51 E-value=0.12 Score=45.23 Aligned_cols=29 Identities=10% Similarity=0.075 Sum_probs=20.6
Q ss_pred HHHhcCCCCccccccccccccChHHHHHHH
Q psy14386 158 HVSNHGVDKPFQCFKCEKRFRSKLGLDEHE 187 (344)
Q Consensus 158 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 187 (344)
|+..-...+||+|+ |++.+.++..|..|-
T Consensus 204 ~~T~~t~~~p~k~~-~~~~~~T~~~l~~HS 232 (442)
T KOG4124|consen 204 SSTAETTGTPKKMP-ESLVMDTSSPLSDHS 232 (442)
T ss_pred ccccccccCCccCc-ccccccccchhhhcc
Confidence 44444556788876 788888888877773
No 87
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=85.50 E-value=0.19 Score=42.10 Aligned_cols=43 Identities=30% Similarity=0.612 Sum_probs=24.5
Q ss_pred CCcccCCCccccCChHHHHHHHHH----------hCCCCc-----eeccccCcccCCh
Q psy14386 222 KPYACKTCPRSFKTKQTLLDHENR----------HMGVKP-----YSCEICGRGFITK 264 (344)
Q Consensus 222 ~~~~C~~C~~~f~~~~~L~~H~~~----------h~~~k~-----~~C~~C~k~f~~~ 264 (344)
+.+.|++|++.|.+..-.....+. ..+..| ..||.||.+|...
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 456677777766665433333221 112333 5899999988754
No 88
>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=84.84 E-value=0.66 Score=27.96 Aligned_cols=23 Identities=26% Similarity=0.486 Sum_probs=11.6
Q ss_pred CCcccccccchhccCh----HHHHHHh
Q psy14386 319 ERPYSCELCNKAFVSR----STLMVHK 341 (344)
Q Consensus 319 ~k~~~C~~C~~~f~~~----~~L~~H~ 341 (344)
....+|.+|++.+... +.|..|+
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 4445667776666553 6677776
No 89
>PF01352 KRAB: KRAB box; InterPro: IPR001909 The Krueppel-associated box (KRAB) is a domain of around 75 amino acids that is found in the N-terminal part of about one third of eukaryotic Krueppel-type C2H2 zinc finger proteins (ZFPs) []. It is enriched in charged amino acids and can be divided into subregions A and B, which are predicted to fold into two amphipathic alpha-helices. The KRAB A and B boxes can be separated by variable spacer segments and many KRAB proteins contain only the A box []. The functions currently known for members of the KRAB-containing protein family include transcriptional repression of RNA polymerase I, II, and III promoters, binding and splicing of RNA, and control of nucleolus function. The KRAB domain functions as a transcriptional repressor when tethered to the template DNA by a DNA-binding domain. A sequence of 45 amino acids in the KRAB A subdomain has been shown to be necessary and sufficient for transcriptional repression. The B box does not repress by itself but does potentiate the repression exerted by the KRAB A subdomain [, ]. Gene silencing requires the binding of the KRAB domain to the RING-B box-coiled coil (RBCC) domain of the KAP-1/TIF1-beta corepressor. As KAP-1 binds to the heterochromatin proteins HP1, it has been proposed that the KRAB-ZFP-bound target gene could be silenced following recruitment to heterochromatin [, ]. KRAB-ZFPs probably constitute the single largest class of transcription factors within the human genome []. Although the function of KRAB-ZFPs is largely unknown, they appear to play important roles during cell differentiation and development. The KRAB domain is generally encoded by two exons. The regions coded by the two exons are known as KRAB-A and KRAB-B.; GO: 0003676 nucleic acid binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1V65_A.
Probab=84.81 E-value=0.34 Score=28.71 Aligned_cols=21 Identities=29% Similarity=0.437 Sum_probs=16.6
Q ss_pred CCCccchhHHHHHHHHhhcCC
Q psy14386 33 SEPSQDVNYILSHMETYRQMP 53 (344)
Q Consensus 33 ~ep~q~~~~~~~~~e~~~~~~ 53 (344)
.+|+|+.+|.++|+|+|..+.
T Consensus 18 L~~~Qk~ly~dvm~Eny~~l~ 38 (41)
T PF01352_consen 18 LDPAQKNLYRDVMLENYRNLV 38 (41)
T ss_dssp S-HHHHHHHHHHHHHTTTS--
T ss_pred ccceecccchhHHHHhhcccE
Confidence 468999999999999998774
No 90
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=84.62 E-value=0.45 Score=29.69 Aligned_cols=27 Identities=19% Similarity=0.539 Sum_probs=17.7
Q ss_pred CCCCCcccCCCccccCChHHHHHHHHH
Q psy14386 219 STDKPYACKTCPRSFKTKQTLLDHENR 245 (344)
Q Consensus 219 ~~~~~~~C~~C~~~f~~~~~L~~H~~~ 245 (344)
.|+--++|+.||..|.....+.+|...
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 355566677777777777666666654
No 91
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=83.40 E-value=0.77 Score=45.56 Aligned_cols=15 Identities=27% Similarity=0.498 Sum_probs=9.6
Q ss_pred ccCCCcccccccchh
Q psy14386 316 HTGERPYSCELCNKA 330 (344)
Q Consensus 316 H~~~k~~~C~~C~~~ 330 (344)
|....|..|+.||-.
T Consensus 470 ~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 470 YQEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCCC
Confidence 445567777777743
No 92
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=82.64 E-value=0.97 Score=28.78 Aligned_cols=14 Identities=29% Similarity=0.695 Sum_probs=7.5
Q ss_pred ceeccccCcccCCh
Q psy14386 251 PYSCEICGRGFITK 264 (344)
Q Consensus 251 ~~~C~~C~k~f~~~ 264 (344)
.|.|+.||..-..+
T Consensus 27 ~F~CPnCGe~~I~R 40 (61)
T COG2888 27 KFPCPNCGEVEIYR 40 (61)
T ss_pred EeeCCCCCceeeeh
Confidence 36666666544443
No 93
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=81.87 E-value=0.83 Score=28.34 Aligned_cols=9 Identities=33% Similarity=1.287 Sum_probs=4.1
Q ss_pred CcccccccC
Q psy14386 296 CNICGQSFT 304 (344)
Q Consensus 296 C~~C~k~f~ 304 (344)
|.+|++.+.
T Consensus 21 C~~C~~~l~ 29 (50)
T smart00614 21 CKYCGKKLS 29 (50)
T ss_pred ecCCCCEee
Confidence 444444443
No 94
>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=81.82 E-value=0.78 Score=35.00 Aligned_cols=23 Identities=39% Similarity=0.823 Sum_probs=15.2
Q ss_pred CcccccccCChhhHHHHHHHccCCCc
Q psy14386 296 CNICGQSFTQFSPMAIHKRLHTGERP 321 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~H~~~k~ 321 (344)
|.+||+.|.. |.+|++.|+|..|
T Consensus 75 clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 75 CLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -TBT--EESB---HHHHHHHTT-S-H
T ss_pred EccCCcccch---HHHHHHHccCCCH
Confidence 8899998874 5999999988765
No 95
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=81.57 E-value=0.94 Score=27.28 Aligned_cols=11 Identities=36% Similarity=0.915 Sum_probs=4.8
Q ss_pred cccCCCccccC
Q psy14386 224 YACKTCPRSFK 234 (344)
Q Consensus 224 ~~C~~C~~~f~ 234 (344)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 34444444443
No 96
>PHA00626 hypothetical protein
Probab=81.48 E-value=0.84 Score=28.61 Aligned_cols=12 Identities=25% Similarity=0.407 Sum_probs=5.7
Q ss_pred cccccccchhcc
Q psy14386 321 PYSCELCNKAFV 332 (344)
Q Consensus 321 ~~~C~~C~~~f~ 332 (344)
.|+|+.||+.|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 345555554444
No 97
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=80.73 E-value=0.73 Score=28.03 Aligned_cols=9 Identities=33% Similarity=1.010 Sum_probs=3.9
Q ss_pred cCCCCCCCc
Q psy14386 282 YPCPVCKKL 290 (344)
Q Consensus 282 ~~C~~C~~~ 290 (344)
|.|+.||..
T Consensus 4 y~C~~CG~~ 12 (46)
T PRK00398 4 YKCARCGRE 12 (46)
T ss_pred EECCCCCCE
Confidence 444444443
No 98
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=80.72 E-value=1.4 Score=34.54 Aligned_cols=14 Identities=21% Similarity=0.617 Sum_probs=7.7
Q ss_pred CceecCccCCccCC
Q psy14386 194 YEYECNACGKGFQN 207 (344)
Q Consensus 194 ~~~~C~~C~~~f~~ 207 (344)
.-|.|+.|+..|..
T Consensus 98 ~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 98 AYYKCPNCQSKYTF 111 (147)
T ss_pred cEEECcCCCCEeeH
Confidence 34556666655554
No 99
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=80.61 E-value=1 Score=34.02 Aligned_cols=14 Identities=43% Similarity=0.895 Sum_probs=6.8
Q ss_pred ceeccccCcccCCh
Q psy14386 251 PYSCEICGRGFITK 264 (344)
Q Consensus 251 ~~~C~~C~k~f~~~ 264 (344)
|++|..||+.|...
T Consensus 1 PH~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 1 PHQCTKCGRVFEDG 14 (131)
T ss_pred CcccCcCCCCcCCC
Confidence 34455555555443
No 100
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=80.26 E-value=0.99 Score=33.79 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=11.3
Q ss_pred CCCCCCCccCCC-----CCcccccccCC
Q psy14386 283 PCPVCKKLFVSK-----SCNICGQSFTQ 305 (344)
Q Consensus 283 ~C~~C~~~f~~~-----~C~~C~k~f~~ 305 (344)
.|+.||+.|.-. .|++||..|.-
T Consensus 11 ~Cp~cg~kFYDLnk~p~vcP~cg~~~~~ 38 (129)
T TIGR02300 11 ICPNTGSKFYDLNRRPAVSPYTGEQFPP 38 (129)
T ss_pred cCCCcCccccccCCCCccCCCcCCccCc
Confidence 466666555322 25555555433
No 101
>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=79.62 E-value=1.7 Score=34.49 Aligned_cols=35 Identities=14% Similarity=0.313 Sum_probs=21.7
Q ss_pred hcCCCceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCcccc
Q psy14386 190 HTGRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSF 233 (344)
Q Consensus 190 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 233 (344)
..+..-|.|+.|+..|+...++. .-|.|+.||...
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 34445577777777776666653 247777777543
No 102
>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=79.25 E-value=2.4 Score=33.63 Aligned_cols=35 Identities=20% Similarity=0.448 Sum_probs=24.6
Q ss_pred cCCCCccccccccccccChHHHHHHHHHhcCCCceecCccCCcc
Q psy14386 162 HGVDKPFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGF 205 (344)
Q Consensus 162 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 205 (344)
.....-|.|+.|+..|+....+. ..|.|+.||...
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 34455688888888887777664 248888888753
No 103
>KOG2807|consensus
Probab=78.37 E-value=2.9 Score=36.62 Aligned_cols=24 Identities=29% Similarity=0.529 Sum_probs=12.1
Q ss_pred ceeccccCcccCChhHHHHHHhhh
Q psy14386 251 PYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
.|.|..|...|-.-.+...|...|
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred cEEchhccceeeccchHHHHhhhh
Confidence 355555555555555554554444
No 104
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=78.33 E-value=0.75 Score=28.25 Aligned_cols=10 Identities=50% Similarity=1.301 Sum_probs=5.5
Q ss_pred eeccccCccc
Q psy14386 252 YSCEICGRGF 261 (344)
Q Consensus 252 ~~C~~C~k~f 261 (344)
|.|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 5555555555
No 105
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.20 E-value=1.6 Score=34.75 Aligned_cols=23 Identities=30% Similarity=0.847 Sum_probs=14.6
Q ss_pred ceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCc
Q psy14386 195 EYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCP 230 (344)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 230 (344)
-|.|++||.. +-|+.|-+||+||
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 4677777664 3356667777776
No 106
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=77.74 E-value=2 Score=44.71 Aligned_cols=21 Identities=29% Similarity=0.724 Sum_probs=9.7
Q ss_pred CcCCCCCCCccCCC-----CCccccc
Q psy14386 281 QYPCPVCKKLFVSK-----SCNICGQ 301 (344)
Q Consensus 281 ~~~C~~C~~~f~~~-----~C~~C~k 301 (344)
+|.|+.||...... .|+.||.
T Consensus 692 vy~CPsCGaev~~des~a~~CP~CGt 717 (1337)
T PRK14714 692 VYVCPDCGAEVPPDESGRVECPRCDV 717 (1337)
T ss_pred ceeCccCCCccCCCccccccCCCCCC
Confidence 34555555433222 3555553
No 107
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=77.64 E-value=0.45 Score=37.43 Aligned_cols=12 Identities=42% Similarity=0.971 Sum_probs=5.3
Q ss_pred eeccccCcccCC
Q psy14386 252 YSCEICGRGFIT 263 (344)
Q Consensus 252 ~~C~~C~k~f~~ 263 (344)
|+|+.||+.|.+
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 444444444443
No 108
>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=77.27 E-value=0.85 Score=38.45 Aligned_cols=28 Identities=21% Similarity=0.303 Sum_probs=21.5
Q ss_pred CCCceeccccCcccCChhHHHHHHhhhc
Q psy14386 248 GVKPYSCEICGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 248 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 275 (344)
..+++.||.||........|..-.|+|.
T Consensus 206 k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 206 KGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred cCCCCCCCCCCCcccccccceeeeecch
Confidence 4578889999988888777777666664
No 109
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=76.35 E-value=1.9 Score=21.91 Aligned_cols=6 Identities=50% Similarity=1.436 Sum_probs=3.4
Q ss_pred Cccccc
Q psy14386 296 CNICGQ 301 (344)
Q Consensus 296 C~~C~k 301 (344)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 556654
No 110
>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=75.27 E-value=1.8 Score=32.46 Aligned_cols=12 Identities=25% Similarity=0.337 Sum_probs=6.1
Q ss_pred CCcCCCCCCCcc
Q psy14386 280 RQYPCPVCKKLF 291 (344)
Q Consensus 280 ~~~~C~~C~~~f 291 (344)
.|-.|+.||..|
T Consensus 25 ~p~vcP~cg~~~ 36 (129)
T TIGR02300 25 RPAVSPYTGEQF 36 (129)
T ss_pred CCccCCCcCCcc
Confidence 445555555544
No 111
>KOG2186|consensus
Probab=74.99 E-value=2.2 Score=35.93 Aligned_cols=55 Identities=18% Similarity=0.489 Sum_probs=38.5
Q ss_pred ceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCccccCChHHHHHHHHHhCCCCce
Q psy14386 195 EYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSFKTKQTLLDHENRHMGVKPY 252 (344)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~ 252 (344)
.|.|..||....- ..+.+|+...++ ..|.|-.|++.|.. ..++.|..--+....|
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcchHHHh
Confidence 3778888877554 456678877766 67888888888877 6677887655544444
No 112
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=74.59 E-value=1.8 Score=30.04 Aligned_cols=11 Identities=27% Similarity=0.845 Sum_probs=5.9
Q ss_pred CCcCCCCCCCc
Q psy14386 280 RQYPCPVCKKL 290 (344)
Q Consensus 280 ~~~~C~~C~~~ 290 (344)
..|.|+.|++.
T Consensus 34 ~~~~Cp~C~~~ 44 (89)
T COG1997 34 AKHVCPFCGRT 44 (89)
T ss_pred cCCcCCCCCCc
Confidence 44555555554
No 113
>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=74.49 E-value=1 Score=26.37 Aligned_cols=12 Identities=50% Similarity=1.132 Sum_probs=6.9
Q ss_pred eeccccCcccCC
Q psy14386 252 YSCEICGRGFIT 263 (344)
Q Consensus 252 ~~C~~C~k~f~~ 263 (344)
|.|+.||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (41)
T smart00834 6 YRCEDCGHTFEV 17 (41)
T ss_pred EEcCCCCCEEEE
Confidence 556666665543
No 114
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=74.31 E-value=3.3 Score=33.62 Aligned_cols=16 Identities=31% Similarity=0.538 Sum_probs=7.6
Q ss_pred ccccccccccccChHH
Q psy14386 167 PFQCFKCEKRFRSKLG 182 (344)
Q Consensus 167 ~~~C~~C~~~f~~~~~ 182 (344)
-|.|+.|+..|.....
T Consensus 117 ~Y~Cp~C~~rytf~eA 132 (178)
T PRK06266 117 FFFCPNCHIRFTFDEA 132 (178)
T ss_pred EEECCCCCcEEeHHHH
Confidence 3455555555444443
No 115
>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=74.20 E-value=1.7 Score=24.12 Aligned_cols=11 Identities=36% Similarity=0.851 Sum_probs=4.7
Q ss_pred eeccccCcccC
Q psy14386 252 YSCEICGRGFI 262 (344)
Q Consensus 252 ~~C~~C~k~f~ 262 (344)
|.|..||..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 34444554443
No 116
>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=74.15 E-value=2.4 Score=22.23 Aligned_cols=19 Identities=16% Similarity=0.503 Sum_probs=10.6
Q ss_pred cccccchhccChHHHHHHhh
Q psy14386 323 SCELCNKAFVSRSTLMVHKK 342 (344)
Q Consensus 323 ~C~~C~~~f~~~~~L~~H~~ 342 (344)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666665 4455555553
No 117
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=73.24 E-value=1.8 Score=30.86 Aligned_cols=13 Identities=38% Similarity=0.846 Sum_probs=6.5
Q ss_pred ceeccccCcccCC
Q psy14386 251 PYSCEICGRGFIT 263 (344)
Q Consensus 251 ~~~C~~C~k~f~~ 263 (344)
|+.|..||..|..
T Consensus 2 pH~CtrCG~vf~~ 14 (112)
T COG3364 2 PHQCTRCGEVFDD 14 (112)
T ss_pred Cceeccccccccc
Confidence 3445555555544
No 118
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=73.07 E-value=3 Score=33.83 Aligned_cols=33 Identities=15% Similarity=0.407 Sum_probs=19.3
Q ss_pred CCCceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCcccc
Q psy14386 192 GRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPRSF 233 (344)
Q Consensus 192 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 233 (344)
...-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 334567777776666655542 246666666543
No 119
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=72.84 E-value=4.3 Score=31.78 Aligned_cols=38 Identities=13% Similarity=0.409 Sum_probs=21.4
Q ss_pred CCCccccccccccccChHHHHHHHHHhcCCCceecCccCCcc
Q psy14386 164 VDKPFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGF 205 (344)
Q Consensus 164 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 205 (344)
....|.|+.|+..|.....+..- . ....|.|+.||...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~---d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLL---D-MDGTFTCPRCGEEL 133 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhc---C-CCCcEECCCCCCEE
Confidence 33457788888777754433220 1 12337777777654
No 120
>KOG2186|consensus
Probab=72.77 E-value=2 Score=36.27 Aligned_cols=54 Identities=22% Similarity=0.541 Sum_probs=39.6
Q ss_pred cccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHHHcCCCCCc
Q psy14386 168 FQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQRVHSTDKPY 224 (344)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 224 (344)
|.|..||.... +..+.+|+-..++ .-|.|-.|++.|.. .....|...-+....|
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcchHHHh
Confidence 78899988765 4456778887777 56899999999988 6677787655544444
No 121
>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=72.27 E-value=1.1 Score=26.61 Aligned_cols=13 Identities=46% Similarity=1.027 Sum_probs=7.8
Q ss_pred eeccccCcccCCh
Q psy14386 252 YSCEICGRGFITK 264 (344)
Q Consensus 252 ~~C~~C~k~f~~~ 264 (344)
|.|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 5666666666544
No 122
>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=72.14 E-value=0.89 Score=28.42 Aligned_cols=7 Identities=43% Similarity=1.384 Sum_probs=2.6
Q ss_pred eccccCc
Q psy14386 253 SCEICGR 259 (344)
Q Consensus 253 ~C~~C~k 259 (344)
.|..||.
T Consensus 7 ~C~~Cg~ 13 (52)
T TIGR02605 7 RCTACGH 13 (52)
T ss_pred EeCCCCC
Confidence 3333333
No 123
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=72.05 E-value=2.2 Score=33.93 Aligned_cols=13 Identities=46% Similarity=1.155 Sum_probs=8.6
Q ss_pred ccCCCcccccccc
Q psy14386 316 HTGERPYSCELCN 328 (344)
Q Consensus 316 H~~~k~~~C~~C~ 328 (344)
|-|+-|-+|++||
T Consensus 144 ~~ge~P~~CPiCg 156 (166)
T COG1592 144 HEGEAPEVCPICG 156 (166)
T ss_pred ccCCCCCcCCCCC
Confidence 5556667777776
No 124
>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=71.99 E-value=2.2 Score=32.61 Aligned_cols=22 Identities=41% Similarity=0.727 Sum_probs=10.1
Q ss_pred eecCccCCccCCHHHHHHHHHHcCC
Q psy14386 196 YECNACGKGFQNKSYLIVHQRVHST 220 (344)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~h~~ 220 (344)
..|-.||+.|.. |++|++.|+|
T Consensus 73 i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-
T ss_pred eEEccCCcccch---HHHHHHHccC
Confidence 556666666644 3556665554
No 125
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=71.53 E-value=1.4 Score=28.31 Aligned_cols=41 Identities=22% Similarity=0.548 Sum_probs=19.2
Q ss_pred CCcccCC--CccccCChHHHHHHHHHhCCCCceeccc----cCcccCC
Q psy14386 222 KPYACKT--CPRSFKTKQTLLDHENRHMGVKPYSCEI----CGRGFIT 263 (344)
Q Consensus 222 ~~~~C~~--C~~~f~~~~~L~~H~~~h~~~k~~~C~~----C~k~f~~ 263 (344)
.+..|+. |...+. +..|..|+...-..++..|++ |+..+..
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEEH
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccch
Confidence 3445555 333333 345666666555566666666 6655543
No 126
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=70.25 E-value=1.1 Score=30.10 Aligned_cols=17 Identities=29% Similarity=0.522 Sum_probs=8.9
Q ss_pred CCCceecc--ccCcccCCh
Q psy14386 248 GVKPYSCE--ICGRGFITK 264 (344)
Q Consensus 248 ~~k~~~C~--~C~k~f~~~ 264 (344)
.+.-+.|. .||..|...
T Consensus 24 ~~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 24 KERYHQCQNVNCSATFITY 42 (72)
T ss_pred heeeeecCCCCCCCEEEEE
Confidence 34455555 555555543
No 127
>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=70.11 E-value=3.5 Score=27.45 Aligned_cols=34 Identities=21% Similarity=0.584 Sum_probs=23.1
Q ss_pred ccCCCCCcccccccCChhhHHHHHHHccCCCcccccccchhccC
Q psy14386 290 LFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFVS 333 (344)
Q Consensus 290 ~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~~ 333 (344)
.+++..|+.||..-.. -...+-|.|+.||..+.+
T Consensus 25 ~~TSq~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 25 AYTSQTCPRCGHRNKK----------RRSGRVFTCPNCGFEMDR 58 (69)
T ss_pred CCCccCccCccccccc----------ccccceEEcCCCCCEECc
Confidence 3456668888865543 234567999999987654
No 128
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=69.70 E-value=0.61 Score=36.70 Aligned_cols=14 Identities=36% Similarity=0.771 Sum_probs=8.0
Q ss_pred cccccccccccChH
Q psy14386 168 FQCFKCEKRFRSKL 181 (344)
Q Consensus 168 ~~C~~C~~~f~~~~ 181 (344)
++|+.||++|.+..
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 56666666665443
No 129
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=69.25 E-value=0.82 Score=44.47 Aligned_cols=28 Identities=21% Similarity=0.693 Sum_probs=19.8
Q ss_pred CcccccccCChhhHHHHHHHccCCCcccccccch
Q psy14386 296 CNICGQSFTQFSPMAIHKRLHTGERPYSCELCNK 329 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~ 329 (344)
|+.|.+.|.+..+.+-|- .|.-|+.||=
T Consensus 154 C~~C~~EY~dP~nRRfHA------Qp~aCp~CGP 181 (750)
T COG0068 154 CPFCDKEYKDPLNRRFHA------QPIACPKCGP 181 (750)
T ss_pred CHHHHHHhcCcccccccc------ccccCcccCC
Confidence 888888777776655542 4678888883
No 130
>PRK12496 hypothetical protein; Provisional
Probab=68.92 E-value=2.6 Score=33.66 Aligned_cols=11 Identities=18% Similarity=0.594 Sum_probs=6.0
Q ss_pred eeccccCcccC
Q psy14386 252 YSCEICGRGFI 262 (344)
Q Consensus 252 ~~C~~C~k~f~ 262 (344)
|.|.-|++.|.
T Consensus 128 ~~C~gC~~~~~ 138 (164)
T PRK12496 128 KVCKGCKKKYP 138 (164)
T ss_pred EECCCCCcccc
Confidence 55555555554
No 131
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.89 E-value=3.4 Score=29.91 Aligned_cols=13 Identities=15% Similarity=0.383 Sum_probs=7.7
Q ss_pred CCcccccccchhc
Q psy14386 319 ERPYSCELCNKAF 331 (344)
Q Consensus 319 ~k~~~C~~C~~~f 331 (344)
..|..|++||++|
T Consensus 24 rdPiVsPytG~s~ 36 (129)
T COG4530 24 RDPIVSPYTGKSY 36 (129)
T ss_pred CCccccCcccccc
Confidence 4555666666665
No 132
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=68.80 E-value=5.3 Score=39.37 Aligned_cols=24 Identities=29% Similarity=0.739 Sum_probs=12.4
Q ss_pred CCCCCCCccCC--CCCcccccccCCh
Q psy14386 283 PCPVCKKLFVS--KSCNICGQSFTQF 306 (344)
Q Consensus 283 ~C~~C~~~f~~--~~C~~C~k~f~~~ 306 (344)
.|+.||..... +.|+.||......
T Consensus 29 ~Cp~CG~~~~~~~~fC~~CG~~~~~~ 54 (645)
T PRK14559 29 PCPQCGTEVPVDEAHCPNCGAETGTI 54 (645)
T ss_pred cCCCCCCCCCcccccccccCCcccch
Confidence 36666655322 2366666655443
No 133
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=68.80 E-value=3.8 Score=21.42 Aligned_cols=20 Identities=35% Similarity=0.762 Sum_probs=10.3
Q ss_pred CCCCCCCccC--CCCCcccccc
Q psy14386 283 PCPVCKKLFV--SKSCNICGQS 302 (344)
Q Consensus 283 ~C~~C~~~f~--~~~C~~C~k~ 302 (344)
.|+.||..-. ...|+.||..
T Consensus 4 ~Cp~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 4 FCPNCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred CCcccCCcCCcccccChhhCCC
Confidence 4566665321 1237777754
No 134
>KOG2807|consensus
Probab=68.72 E-value=8.2 Score=33.96 Aligned_cols=31 Identities=29% Similarity=0.678 Sum_probs=25.3
Q ss_pred CCcccCCCccccCChHHHHHHHHHhCCCCceeccccC
Q psy14386 222 KPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICG 258 (344)
Q Consensus 222 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~ 258 (344)
-.|+|..|...|-..-+...|...| .|+.|.
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 4589999999998888888888877 577775
No 135
>PF14353 CpXC: CpXC protein
Probab=68.02 E-value=2.2 Score=32.46 Aligned_cols=11 Identities=36% Similarity=0.917 Sum_probs=6.8
Q ss_pred eccccCcccCC
Q psy14386 253 SCEICGRGFIT 263 (344)
Q Consensus 253 ~C~~C~k~f~~ 263 (344)
.|+.||..|..
T Consensus 3 tCP~C~~~~~~ 13 (128)
T PF14353_consen 3 TCPHCGHEFEF 13 (128)
T ss_pred CCCCCCCeeEE
Confidence 56667666643
No 136
>KOG4167|consensus
Probab=67.76 E-value=1.4 Score=42.76 Aligned_cols=24 Identities=29% Similarity=0.600 Sum_probs=22.0
Q ss_pred cccccccchhccChHHHHHHhhhC
Q psy14386 321 PYSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 321 ~~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
-|-|..|+|.|..-..+..||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 489999999999999999999987
No 137
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=66.83 E-value=1.3 Score=29.81 Aligned_cols=18 Identities=33% Similarity=0.689 Sum_probs=13.4
Q ss_pred cCCCccccc--ccchhccCh
Q psy14386 317 TGERPYSCE--LCNKAFVSR 334 (344)
Q Consensus 317 ~~~k~~~C~--~C~~~f~~~ 334 (344)
..++-++|. .||.+|.+.
T Consensus 23 ~~~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 23 TKERYHQCQNVNCSATFITY 42 (72)
T ss_pred hheeeeecCCCCCCCEEEEE
Confidence 445668898 899988754
No 138
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=66.10 E-value=1.7 Score=38.46 Aligned_cols=47 Identities=23% Similarity=0.466 Sum_probs=22.4
Q ss_pred CCcCCCCCCCc--cCCCCCcccccccCChhhHHHH-HHHc-cCCCcccccccchh
Q psy14386 280 RQYPCPVCKKL--FVSKSCNICGQSFTQFSPMAIH-KRLH-TGERPYSCELCNKA 330 (344)
Q Consensus 280 ~~~~C~~C~~~--f~~~~C~~C~k~f~~~~~L~~H-~~~H-~~~k~~~C~~C~~~ 330 (344)
|-..|..|+-. |....|+.||.. ..|... ...- .+.|-..|..|+.-
T Consensus 211 RyL~CslC~teW~~~R~~C~~Cg~~----~~l~y~~~~~~~~~~r~e~C~~C~~Y 261 (309)
T PRK03564 211 RYLHCNLCESEWHVVRVKCSNCEQS----GKLHYWSLDSEQAAVKAESCGDCGTY 261 (309)
T ss_pred eEEEcCCCCCcccccCccCCCCCCC----CceeeeeecCCCcceEeeeccccccc
Confidence 33445555432 334458888852 122211 1000 23456789999743
No 139
>KOG1280|consensus
Probab=65.68 E-value=1.7 Score=38.33 Aligned_cols=36 Identities=25% Similarity=0.372 Sum_probs=25.7
Q ss_pred CCCCcccccccCChhhHHHHHHHccCCCcc--cccccc
Q psy14386 293 SKSCNICGQSFTQFSPMAIHKRLHTGERPY--SCELCN 328 (344)
Q Consensus 293 ~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~--~C~~C~ 328 (344)
++.|++|++.=-+...|..|...-+.+-++ .|++|+
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 445888888777778888888887776553 456665
No 140
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=65.29 E-value=3.4 Score=31.22 Aligned_cols=23 Identities=30% Similarity=0.522 Sum_probs=19.6
Q ss_pred CcccccccCChhhHHHHHHHccCCCc
Q psy14386 296 CNICGQSFTQFSPMAIHKRLHTGERP 321 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~H~~~k~ 321 (344)
|..+||.|. +|++|+.+|.|--|
T Consensus 79 cLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 79 CLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EeccCcchH---HHHHHHhcccCCCH
Confidence 888888887 79999999988654
No 141
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=64.65 E-value=6.3 Score=33.21 Aligned_cols=83 Identities=17% Similarity=0.434 Sum_probs=48.4
Q ss_pred CCHHHHHHHHHHcCCC-----CCcccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChhHHHHHHhhhcCCCCC
Q psy14386 206 QNKSYLIVHQRVHSTD-----KPYACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKGLCKSHQKIHSGNDNR 280 (344)
Q Consensus 206 ~~~~~l~~H~~~h~~~-----~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~ 280 (344)
.+..+|+.+.+.+.+. +.|.|..|....- .+.-....--.|..|.+.|.=... . ... | -.
T Consensus 90 LTe~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~Ww--------Rrvp~rKeVSRCr~C~~rYDPVP~--d-kmw--G--~a 154 (278)
T PF15135_consen 90 LTEENLRMFDDAQENLIPSVDRQFACSSCDHMWW--------RRVPQRKEVSRCRKCRKRYDPVPC--D-KMW--G--IA 154 (278)
T ss_pred chHHHHHHhhhhhhccccccceeeeccccchHHH--------hccCcccccccccccccccCCCcc--c-ccc--c--ee
Confidence 3456666666555443 7799999954321 122223334578888887754321 0 001 1 14
Q ss_pred CcCCCCCCCccCCC-------CCccccccc
Q psy14386 281 QYPCPVCKKLFVSK-------SCNICGQSF 303 (344)
Q Consensus 281 ~~~C~~C~~~f~~~-------~C~~C~k~f 303 (344)
.|.|+.|+..|.-+ .|-.|+...
T Consensus 155 ef~C~~C~h~F~G~~qm~v~sPCy~C~~~v 184 (278)
T PF15135_consen 155 EFHCPKCRHNFRGFAQMGVPSPCYGCGNPV 184 (278)
T ss_pred eeecccccccchhhhhcCCCCCccCCCCcc
Confidence 58899999988654 388887643
No 142
>KOG2272|consensus
Probab=63.81 E-value=2.5 Score=35.59 Aligned_cols=16 Identities=25% Similarity=0.798 Sum_probs=11.9
Q ss_pred CcccccccchhccChH
Q psy14386 320 RPYSCELCNKAFVSRS 335 (344)
Q Consensus 320 k~~~C~~C~~~f~~~~ 335 (344)
..|.|..|.+-|.--.
T Consensus 220 eHFvCa~CekPFlGHr 235 (332)
T KOG2272|consen 220 EHFVCAKCEKPFLGHR 235 (332)
T ss_pred hheeehhcCCcccchh
Confidence 4589999998886543
No 143
>PF12773 DZR: Double zinc ribbon
Probab=63.67 E-value=6.8 Score=24.04 Aligned_cols=21 Identities=33% Similarity=0.675 Sum_probs=10.3
Q ss_pred CCcCCCCCCCccCC--CCCcccc
Q psy14386 280 RQYPCPVCKKLFVS--KSCNICG 300 (344)
Q Consensus 280 ~~~~C~~C~~~f~~--~~C~~C~ 300 (344)
....|+.|+..... ..|+.||
T Consensus 28 ~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 28 SKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCCCcCCcCCCcCCcCccCccc
Confidence 44556666654322 2255554
No 144
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=62.69 E-value=4.9 Score=42.06 Aligned_cols=21 Identities=29% Similarity=0.719 Sum_probs=9.4
Q ss_pred cCCCCCCCccCCCCCcccccc
Q psy14386 282 YPCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 282 ~~C~~C~~~f~~~~C~~C~k~ 302 (344)
++|+.||..-....|+.||..
T Consensus 668 rkCPkCG~~t~~~fCP~CGs~ 688 (1337)
T PRK14714 668 RRCPSCGTETYENRCPDCGTH 688 (1337)
T ss_pred EECCCCCCccccccCcccCCc
Confidence 345555543333345555443
No 145
>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=62.47 E-value=10 Score=24.34 Aligned_cols=46 Identities=9% Similarity=0.196 Sum_probs=28.5
Q ss_pred cCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCcccccccchhccC
Q psy14386 282 YPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFVS 333 (344)
Q Consensus 282 ~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~~ 333 (344)
+.|+.|+..+......-||..|-. ..+..+.+. ...|+.|++.++.
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~-~~i~~~~~~-----~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYER-RAIEKWLLS-----HGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeH-HHHHHHHHH-----CCCCCCCcCCCCh
Confidence 456666666655545557766643 455556554 2479999988743
No 146
>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=62.43 E-value=5.5 Score=38.22 Aligned_cols=23 Identities=26% Similarity=0.612 Sum_probs=15.6
Q ss_pred CCcCCCCCCCccC-CCCCcccccc
Q psy14386 280 RQYPCPVCKKLFV-SKSCNICGQS 302 (344)
Q Consensus 280 ~~~~C~~C~~~f~-~~~C~~C~k~ 302 (344)
....|..||.... ...|+.||-.
T Consensus 239 ~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 239 GKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CeEEcCCCcCcCCCCCCCCCCCCC
Confidence 5567888887654 4458888763
No 147
>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=61.05 E-value=5.1 Score=20.59 Aligned_cols=7 Identities=29% Similarity=1.208 Sum_probs=3.2
Q ss_pred ccccccc
Q psy14386 322 YSCELCN 328 (344)
Q Consensus 322 ~~C~~C~ 328 (344)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4444444
No 148
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=61.03 E-value=0.65 Score=41.03 Aligned_cols=34 Identities=21% Similarity=0.344 Sum_probs=12.4
Q ss_pred CCcccccccCChhhHHHHHHHccCCCcccccccch
Q psy14386 295 SCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNK 329 (344)
Q Consensus 295 ~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~ 329 (344)
.|++||..-...-.... ...-.+.+-+.|..|+.
T Consensus 213 ~Cp~Cg~~~~~~l~~~~-~e~~~~~rve~C~~C~~ 246 (290)
T PF04216_consen 213 KCPYCGNTDHEKLEYFT-VEGEPAYRVEVCESCGS 246 (290)
T ss_dssp S-TTT---SS-EEE---------SEEEEEETTTTE
T ss_pred CCcCCCCCCCcceeeEe-cCCCCcEEEEECCcccc
Confidence 46677665433222210 11122345678888873
No 149
>COG1773 Rubredoxin [Energy production and conversion]
Probab=60.96 E-value=4.3 Score=25.65 Aligned_cols=13 Identities=23% Similarity=0.825 Sum_probs=7.0
Q ss_pred ceeccccCcccCC
Q psy14386 251 PYSCEICGRGFIT 263 (344)
Q Consensus 251 ~~~C~~C~k~f~~ 263 (344)
.|+|..||..|.-
T Consensus 3 ~~~C~~CG~vYd~ 15 (55)
T COG1773 3 RWRCSVCGYVYDP 15 (55)
T ss_pred ceEecCCceEecc
Confidence 3556666555543
No 150
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=60.09 E-value=11 Score=37.34 Aligned_cols=20 Identities=30% Similarity=0.777 Sum_probs=12.3
Q ss_pred CCCCCCCccCCCCCcccccc
Q psy14386 283 PCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 283 ~C~~C~~~f~~~~C~~C~k~ 302 (344)
-|..||..+....|+.||..
T Consensus 17 FC~~CG~~l~~~~Cp~CG~~ 36 (645)
T PRK14559 17 FCQKCGTSLTHKPCPQCGTE 36 (645)
T ss_pred cccccCCCCCCCcCCCCCCC
Confidence 36666666655556666654
No 151
>KOG3362|consensus
Probab=59.36 E-value=2.9 Score=31.90 Aligned_cols=30 Identities=27% Similarity=0.618 Sum_probs=18.4
Q ss_pred CCCCCCccCCCCCcccccccCChhhHHHHHH
Q psy14386 284 CPVCKKLFVSKSCNICGQSFTQFSPMAIHKR 314 (344)
Q Consensus 284 C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~ 314 (344)
|.+|| -++.+.|.-||-.+=+...|..|..
T Consensus 121 CaVCG-~~S~ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 121 CAVCG-YDSKYSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred hhhcC-CCchhHHHhcCCceeechhhhhccc
Confidence 55555 3444556677776666677776653
No 152
>KOG0717|consensus
Probab=59.16 E-value=38 Score=31.64 Aligned_cols=25 Identities=28% Similarity=0.534 Sum_probs=19.7
Q ss_pred CCcccccccccccCCHHHHHHHHHh
Q psy14386 137 KSLHKCDRCPKKFSSLAKYNFHVSN 161 (344)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~ 161 (344)
.....|..|+..|.++..|..|+..
T Consensus 458 sa~~~C~tCr~~FdSRnkLF~Hlk~ 482 (508)
T KOG0717|consen 458 SALISCTTCRESFDSRNKLFAHLKK 482 (508)
T ss_pred chhHhhhhhhhhccchhHHHHHhhh
Confidence 3446788888888888888888764
No 153
>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=59.06 E-value=2.8 Score=22.86 Aligned_cols=19 Identities=32% Similarity=0.775 Sum_probs=8.7
Q ss_pred CCCCCCCccCCCCCcccccc
Q psy14386 283 PCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 283 ~C~~C~~~f~~~~C~~C~k~ 302 (344)
.|.+|+. ...+.|+.|+..
T Consensus 4 ~C~vC~~-~~kY~Cp~C~~~ 22 (30)
T PF04438_consen 4 LCSVCGN-PAKYRCPRCGAR 22 (30)
T ss_dssp EETSSSS-EESEE-TTT--E
T ss_pred CCccCcC-CCEEECCCcCCc
Confidence 3555665 555556655544
No 154
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=58.91 E-value=9.8 Score=33.80 Aligned_cols=29 Identities=24% Similarity=0.422 Sum_probs=20.1
Q ss_pred HHhCCCCceeccccC-cccCChhHHHHHHh
Q psy14386 244 NRHMGVKPYSCEICG-RGFITKGLCKSHQK 272 (344)
Q Consensus 244 ~~h~~~k~~~C~~C~-k~f~~~~~L~~H~~ 272 (344)
+.|-=.+.|.|.+|| +.+.-+..+.+|..
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhhh
Confidence 345556678888888 67777777777753
No 155
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=58.72 E-value=4.5 Score=33.79 Aligned_cols=28 Identities=18% Similarity=0.333 Sum_probs=13.9
Q ss_pred CCcccCCCccccCChHHHHHHHHHhCCC
Q psy14386 222 KPYACKTCPRSFKTKQTLLDHENRHMGV 249 (344)
Q Consensus 222 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 249 (344)
..|.|+.|+|.|+-..-.+.|+..-|.+
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 3456666666666665555665554443
No 156
>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=57.32 E-value=6.8 Score=24.30 Aligned_cols=11 Identities=45% Similarity=1.120 Sum_probs=6.1
Q ss_pred eeccccCcccC
Q psy14386 252 YSCEICGRGFI 262 (344)
Q Consensus 252 ~~C~~C~k~f~ 262 (344)
|.|..||+.+.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 45556655554
No 157
>KOG2593|consensus
Probab=57.04 E-value=12 Score=34.37 Aligned_cols=15 Identities=27% Similarity=0.707 Sum_probs=7.2
Q ss_pred ccccccccccccChH
Q psy14386 167 PFQCFKCEKRFRSKL 181 (344)
Q Consensus 167 ~~~C~~C~~~f~~~~ 181 (344)
.|.|+.|.+.|....
T Consensus 128 ~Y~Cp~C~kkyt~Le 142 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLE 142 (436)
T ss_pred cccCCccccchhhhH
Confidence 355555555544433
No 158
>PRK04023 DNA polymerase II large subunit; Validated
Probab=56.87 E-value=8.5 Score=39.39 Aligned_cols=33 Identities=27% Similarity=0.664 Sum_probs=19.0
Q ss_pred cCCCCCCCc-cCCCCCcccccccCChhhHHHHHHHccCCCcccccccchh
Q psy14386 282 YPCPVCKKL-FVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKA 330 (344)
Q Consensus 282 ~~C~~C~~~-f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~ 330 (344)
+.|+.||.. ...+.|+.||... .+|.|+.||.-
T Consensus 639 frCP~CG~~Te~i~fCP~CG~~~----------------~~y~CPKCG~E 672 (1121)
T PRK04023 639 RRCPFCGTHTEPVYRCPRCGIEV----------------EEDECEKCGRE 672 (1121)
T ss_pred ccCCCCCCCCCcceeCccccCcC----------------CCCcCCCCCCC
Confidence 466667653 2334466664432 24778888854
No 159
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=56.44 E-value=6.8 Score=34.14 Aligned_cols=26 Identities=27% Similarity=0.583 Sum_probs=17.7
Q ss_pred CCceeccccCcccCChhHHHHHHhhh
Q psy14386 249 VKPYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 249 ~k~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
...|.|+.|...|-.-.+.-.|...|
T Consensus 386 s~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 386 SGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ccceechhhhhhhhhhhHHHHHHHHh
Confidence 34577777777777777776776665
No 160
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=56.37 E-value=9.6 Score=32.16 Aligned_cols=73 Identities=12% Similarity=0.301 Sum_probs=36.6
Q ss_pred CHHHHHHHHHhcCCC-----CccccccccccccChHHHHHHHHHhcCCCceecCccCCccCCHHHHHHHHHHcCCCCCcc
Q psy14386 151 SLAKYNFHVSNHGVD-----KPFQCFKCEKRFRSKLGLDEHEAKHTGRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYA 225 (344)
Q Consensus 151 ~~~~l~~H~~~h~~~-----~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~ 225 (344)
+..+|....+.+.+. +.|.|..|....-. +.-....--.|..|.+.|.-.-. ..-.|-.-|.
T Consensus 91 Te~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~WwR--------rvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~aef~ 157 (278)
T PF15135_consen 91 TEENLRMFDDAQENLIPSVDRQFACSSCDHMWWR--------RVPQRKEVSRCRKCRKRYDPVPC-----DKMWGIAEFH 157 (278)
T ss_pred hHHHHHHhhhhhhccccccceeeeccccchHHHh--------ccCcccccccccccccccCCCcc-----ccccceeeee
Confidence 455666555544333 56777777543211 11111223457777766543210 0122444577
Q ss_pred cCCCccccCCh
Q psy14386 226 CKTCPRSFKTK 236 (344)
Q Consensus 226 C~~C~~~f~~~ 236 (344)
|+.|+..|+..
T Consensus 158 C~~C~h~F~G~ 168 (278)
T PF15135_consen 158 CPKCRHNFRGF 168 (278)
T ss_pred cccccccchhh
Confidence 77777777654
No 161
>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=56.28 E-value=6.8 Score=24.74 Aligned_cols=10 Identities=30% Similarity=1.006 Sum_probs=5.1
Q ss_pred eeccccCccc
Q psy14386 252 YSCEICGRGF 261 (344)
Q Consensus 252 ~~C~~C~k~f 261 (344)
|.|+.||..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 4555555544
No 162
>PF15269 zf-C2H2_7: Zinc-finger
Probab=55.96 E-value=7.4 Score=23.15 Aligned_cols=21 Identities=33% Similarity=0.553 Sum_probs=12.5
Q ss_pred ccccccchhccChHHHHHHhh
Q psy14386 322 YSCELCNKAFVSRSTLMVHKK 342 (344)
Q Consensus 322 ~~C~~C~~~f~~~~~L~~H~~ 342 (344)
|+|=.|..+..-.++|-.||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 455556655566666666654
No 163
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=54.64 E-value=5.5 Score=24.70 Aligned_cols=13 Identities=15% Similarity=0.460 Sum_probs=10.6
Q ss_pred Ccccccccchhcc
Q psy14386 320 RPYSCELCNKAFV 332 (344)
Q Consensus 320 k~~~C~~C~~~f~ 332 (344)
..|.|..||..+.
T Consensus 36 ~r~~C~~Cgyt~~ 48 (50)
T PRK00432 36 DRWHCGKCGYTEF 48 (50)
T ss_pred CcEECCCcCCEEe
Confidence 6789999998764
No 164
>KOG4167|consensus
Probab=54.49 E-value=4.4 Score=39.56 Aligned_cols=29 Identities=24% Similarity=0.557 Sum_probs=18.4
Q ss_pred CCCCcccccccccccCCHHHHHHHHHhcC
Q psy14386 135 ESKSLHKCDRCPKKFSSLAKYNFHVSNHG 163 (344)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 163 (344)
.+...|.|..|++.|.....++.||++|.
T Consensus 788 ~~~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 788 DPTGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CCCceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 34455666667666666666666666664
No 165
>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=54.41 E-value=6.1 Score=27.89 Aligned_cols=26 Identities=38% Similarity=0.912 Sum_probs=14.3
Q ss_pred CCcCCCCCCCccCC------CCCcccccccCC
Q psy14386 280 RQYPCPVCKKLFVS------KSCNICGQSFTQ 305 (344)
Q Consensus 280 ~~~~C~~C~~~f~~------~~C~~C~k~f~~ 305 (344)
..|.|+.|++.-.. +.|..|++.|..
T Consensus 34 a~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AG 65 (91)
T TIGR00280 34 AKYVCPFCGKKTVKRGSTGIWTCRKCGAKFAG 65 (91)
T ss_pred cCccCCCCCCCceEEEeeEEEEcCCCCCEEeC
Confidence 45677777653221 236666666643
No 166
>KOG2593|consensus
Probab=54.14 E-value=15 Score=33.72 Aligned_cols=37 Identities=19% Similarity=0.521 Sum_probs=17.9
Q ss_pred CCCceecCccCCccCCHHHHHHHHHHcCCCCCcccCCCcc
Q psy14386 192 GRYEYECNACGKGFQNKSYLIVHQRVHSTDKPYACKTCPR 231 (344)
Q Consensus 192 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 231 (344)
....|.|+.|.+.|.....++. .-...-.|.|..|+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 3345666666666655444321 111223466666654
No 167
>KOG1244|consensus
Probab=54.08 E-value=6.2 Score=33.69 Aligned_cols=13 Identities=15% Similarity=0.153 Sum_probs=7.6
Q ss_pred cccccccccccCh
Q psy14386 168 FQCFKCEKRFRSK 180 (344)
Q Consensus 168 ~~C~~C~~~f~~~ 180 (344)
|.|+.+.+.....
T Consensus 194 ~~~d~~~~~~~~~ 206 (336)
T KOG1244|consen 194 YVCDTGTKQTVFA 206 (336)
T ss_pred hhhcccccccccC
Confidence 6677766654433
No 168
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=53.71 E-value=17 Score=21.41 Aligned_cols=27 Identities=26% Similarity=0.645 Sum_probs=16.1
Q ss_pred cCCCCCcccccccC--ChhhHHHHHHHcc
Q psy14386 291 FVSKSCNICGQSFT--QFSPMAIHKRLHT 317 (344)
Q Consensus 291 f~~~~C~~C~k~f~--~~~~L~~H~~~H~ 317 (344)
|....|+.||..|. ....-..|.+.|.
T Consensus 11 ~~~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 11 FGATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 33345667776664 3456677777664
No 169
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=53.68 E-value=7.1 Score=27.50 Aligned_cols=26 Identities=31% Similarity=0.695 Sum_probs=13.3
Q ss_pred CCcCCCCCCCccCC------CCCcccccccCC
Q psy14386 280 RQYPCPVCKKLFVS------KSCNICGQSFTQ 305 (344)
Q Consensus 280 ~~~~C~~C~~~f~~------~~C~~C~k~f~~ 305 (344)
..|.|+.|++.-.. +.|..|++.|..
T Consensus 35 a~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AG 66 (90)
T PTZ00255 35 AKYFCPFCGKHAVKRQAVGIWRCKGCKKTVAG 66 (90)
T ss_pred CCccCCCCCCCceeeeeeEEEEcCCCCCEEeC
Confidence 45666666643211 126666666543
No 170
>PRK05580 primosome assembly protein PriA; Validated
Probab=52.91 E-value=9.4 Score=38.19 Aligned_cols=23 Identities=30% Similarity=0.683 Sum_probs=14.2
Q ss_pred CCcCCCCCCCccC-CCCCcccccc
Q psy14386 280 RQYPCPVCKKLFV-SKSCNICGQS 302 (344)
Q Consensus 280 ~~~~C~~C~~~f~-~~~C~~C~k~ 302 (344)
+...|..||.... ...|+.||..
T Consensus 407 ~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 407 RRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred CeEECCCCcCCCCCCCCCCCCcCC
Confidence 4556777776653 3457777654
No 171
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=52.77 E-value=9.1 Score=24.10 Aligned_cols=20 Identities=45% Similarity=1.054 Sum_probs=10.4
Q ss_pred CCCCCCCccCCC----CCcccccc
Q psy14386 283 PCPVCKKLFVSK----SCNICGQS 302 (344)
Q Consensus 283 ~C~~C~~~f~~~----~C~~C~k~ 302 (344)
+|+.|++.|... .|+.||..
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~Cgap 30 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAP 30 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCc
Confidence 455666555422 26666544
No 172
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=52.47 E-value=3.9 Score=36.16 Aligned_cols=46 Identities=22% Similarity=0.535 Sum_probs=21.9
Q ss_pred CCcCCCCCCCc--cCCCCCcccccccCChhhHHHHHHH----ccCCCcccccccch
Q psy14386 280 RQYPCPVCKKL--FVSKSCNICGQSFTQFSPMAIHKRL----HTGERPYSCELCNK 329 (344)
Q Consensus 280 ~~~~C~~C~~~--f~~~~C~~C~k~f~~~~~L~~H~~~----H~~~k~~~C~~C~~ 329 (344)
|-..|..|+-. |....|++||.. ..|....-- ..+.+-..|..|+.
T Consensus 209 RyL~CslC~teW~~~R~~C~~Cg~~----~~l~y~~~e~~~~~~~~r~e~C~~C~~ 260 (305)
T TIGR01562 209 RYLSCSLCATEWHYVRVKCSHCEES----KHLAYLSLEHDAEKAVLKAETCDSCQG 260 (305)
T ss_pred eEEEcCCCCCcccccCccCCCCCCC----CceeeEeecCCCCCcceEEeecccccc
Confidence 33345555432 333458888864 122211111 12235678888873
No 173
>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=52.25 E-value=2.6 Score=37.83 Aligned_cols=14 Identities=21% Similarity=0.451 Sum_probs=5.2
Q ss_pred cccCCCccccCChH
Q psy14386 224 YACKTCPRSFKTKQ 237 (344)
Q Consensus 224 ~~C~~C~~~f~~~~ 237 (344)
+.|..|.+++-...
T Consensus 253 v~C~~C~yt~~~~~ 266 (344)
T PF09332_consen 253 VTCKQCKYTAFKPS 266 (344)
T ss_dssp EEETTT--EESS--
T ss_pred EEcCCCCCcccCcc
Confidence 55666655444433
No 174
>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=52.03 E-value=5 Score=24.53 Aligned_cols=13 Identities=31% Similarity=0.966 Sum_probs=7.8
Q ss_pred eeccccCcccCCh
Q psy14386 252 YSCEICGRGFITK 264 (344)
Q Consensus 252 ~~C~~C~k~f~~~ 264 (344)
|.|..||..+.-.
T Consensus 2 y~C~~CgyvYd~~ 14 (47)
T PF00301_consen 2 YQCPVCGYVYDPE 14 (47)
T ss_dssp EEETTTSBEEETT
T ss_pred cCCCCCCEEEcCC
Confidence 5666676665443
No 175
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=51.38 E-value=6.6 Score=21.42 Aligned_cols=8 Identities=38% Similarity=0.962 Sum_probs=3.3
Q ss_pred ceeccccC
Q psy14386 251 PYSCEICG 258 (344)
Q Consensus 251 ~~~C~~C~ 258 (344)
.|.|+.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 34444443
No 176
>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 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=50.79 E-value=4.2 Score=25.31 Aligned_cols=26 Identities=23% Similarity=0.454 Sum_probs=11.8
Q ss_pred CCceeccccCcccCChhHHHHHHhhh
Q psy14386 249 VKPYSCEICGRGFITKGLCKSHQKIH 274 (344)
Q Consensus 249 ~k~~~C~~C~k~f~~~~~L~~H~~~h 274 (344)
...|.|+.|+..|----.+-.|...|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 34566776766666666666665554
No 178
>KOG4377|consensus
Probab=50.69 E-value=9.7 Score=34.61 Aligned_cols=19 Identities=42% Similarity=0.649 Sum_probs=12.3
Q ss_pred cccccCChhhHHHHHHHcc
Q psy14386 299 CGQSFTQFSPMAIHKRLHT 317 (344)
Q Consensus 299 C~k~f~~~~~L~~H~~~H~ 317 (344)
|+..|...+++..|.|-|.
T Consensus 409 c~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 409 CEATLYSVSQMASHKRKHE 427 (480)
T ss_pred CceEEEehhhhhhhhhhhh
Confidence 6666666666666666664
No 179
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=50.49 E-value=23 Score=30.98 Aligned_cols=19 Identities=32% Similarity=0.537 Sum_probs=10.5
Q ss_pred CceeccccCcccCChhHHH
Q psy14386 250 KPYSCEICGRGFITKGLCK 268 (344)
Q Consensus 250 k~~~C~~C~k~f~~~~~L~ 268 (344)
-|..|+.|........+|.
T Consensus 321 LPi~CP~Csl~LilsthLa 339 (421)
T COG5151 321 LPISCPICSLQLILSTHLA 339 (421)
T ss_pred CCccCcchhHHHHHHHHHH
Confidence 3566777765555444443
No 180
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=50.11 E-value=5 Score=30.90 Aligned_cols=11 Identities=18% Similarity=0.860 Sum_probs=5.3
Q ss_pred cccCCCccccC
Q psy14386 224 YACKTCPRSFK 234 (344)
Q Consensus 224 ~~C~~C~~~f~ 234 (344)
+.|..||..|.
T Consensus 71 ~~C~~CG~~~~ 81 (135)
T PRK03824 71 LKCRNCGNEWS 81 (135)
T ss_pred EECCCCCCEEe
Confidence 44555554443
No 181
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=49.97 E-value=5.3 Score=22.84 Aligned_cols=9 Identities=44% Similarity=1.113 Sum_probs=3.9
Q ss_pred ccccCcccC
Q psy14386 254 CEICGRGFI 262 (344)
Q Consensus 254 C~~C~k~f~ 262 (344)
|+.||+.|.
T Consensus 4 C~~Cg~~Yh 12 (36)
T PF05191_consen 4 CPKCGRIYH 12 (36)
T ss_dssp ETTTTEEEE
T ss_pred cCCCCCccc
Confidence 444444443
No 182
>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=49.96 E-value=3.5 Score=29.03 Aligned_cols=25 Identities=40% Similarity=1.000 Sum_probs=12.9
Q ss_pred CCcCCCCCCCccCC------CCCcccccccC
Q psy14386 280 RQYPCPVCKKLFVS------KSCNICGQSFT 304 (344)
Q Consensus 280 ~~~~C~~C~~~f~~------~~C~~C~k~f~ 304 (344)
..|.|+.|++.-.. +.|..|++.|.
T Consensus 34 ~ky~Cp~Cgk~~vkR~a~GIW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSVKRVATGIWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSEEEEEETTEEEETTTTEEEE
T ss_pred CCCcCCCCCCceeEEeeeEEeecCCCCCEEe
Confidence 45667776664321 12666666554
No 183
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=49.82 E-value=11 Score=23.32 Aligned_cols=17 Identities=29% Similarity=0.677 Sum_probs=9.3
Q ss_pred CceeccccCcccCChhH
Q psy14386 250 KPYSCEICGRGFITKGL 266 (344)
Q Consensus 250 k~~~C~~C~k~f~~~~~ 266 (344)
+.+.|..||..|.....
T Consensus 3 k~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAG 19 (49)
T ss_pred eeEEcccCCCeEEEehh
Confidence 44556666666555433
No 184
>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=49.57 E-value=8.7 Score=25.44 Aligned_cols=31 Identities=32% Similarity=0.903 Sum_probs=11.9
Q ss_pred eccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCccccc
Q psy14386 253 SCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQ 301 (344)
Q Consensus 253 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k 301 (344)
.|..|++.|... .+.+-|..||..| |..|..
T Consensus 11 ~C~~C~~~F~~~--------------~rrhhCr~CG~~v----C~~Cs~ 41 (69)
T PF01363_consen 11 NCMICGKKFSLF--------------RRRHHCRNCGRVV----CSSCSS 41 (69)
T ss_dssp B-TTT--B-BSS--------------S-EEE-TTT--EE----ECCCS-
T ss_pred cCcCcCCcCCCc--------------eeeEccCCCCCEE----CCchhC
Confidence 567777777431 1555666666655 445543
No 185
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=49.51 E-value=9.2 Score=38.26 Aligned_cols=35 Identities=26% Similarity=0.642 Sum_probs=26.7
Q ss_pred CCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCcccccccchh
Q psy14386 283 PCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKA 330 (344)
Q Consensus 283 ~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~ 330 (344)
.|..||..+. |+.|+-.+. .|...+...|.+||..
T Consensus 437 ~C~~Cg~v~~---Cp~Cd~~lt----------~H~~~~~L~CH~Cg~~ 471 (730)
T COG1198 437 LCRDCGYIAE---CPNCDSPLT----------LHKATGQLRCHYCGYQ 471 (730)
T ss_pred ecccCCCccc---CCCCCcceE----------EecCCCeeEeCCCCCC
Confidence 5888888764 888887644 3666678899999976
No 186
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=49.25 E-value=8.3 Score=27.19 Aligned_cols=26 Identities=35% Similarity=0.787 Sum_probs=14.8
Q ss_pred CCcCCCCCCCccCC------CCCcccccccCC
Q psy14386 280 RQYPCPVCKKLFVS------KSCNICGQSFTQ 305 (344)
Q Consensus 280 ~~~~C~~C~~~f~~------~~C~~C~k~f~~ 305 (344)
..|.|+.|++.-.. ..|..|++.|..
T Consensus 35 a~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AG 66 (90)
T PRK03976 35 AKHVCPVCGRPKVKRVGTGIWECRKCGAKFAG 66 (90)
T ss_pred cCccCCCCCCCceEEEEEEEEEcCCCCCEEeC
Confidence 55777777654221 236667666654
No 187
>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=48.80 E-value=3.1 Score=28.05 Aligned_cols=13 Identities=15% Similarity=0.373 Sum_probs=5.6
Q ss_pred CcccCCCccccCC
Q psy14386 223 PYACKTCPRSFKT 235 (344)
Q Consensus 223 ~~~C~~C~~~f~~ 235 (344)
...|..|+..+.-
T Consensus 41 ~v~Cg~C~~~~~~ 53 (71)
T PF05495_consen 41 RVICGKCRTEQPI 53 (71)
T ss_dssp EEEETTT--EEES
T ss_pred CeECCCCCCccCh
Confidence 4555555554443
No 188
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=48.77 E-value=8.6 Score=29.13 Aligned_cols=24 Identities=29% Similarity=0.285 Sum_probs=14.2
Q ss_pred eecCccCCccCCHHHHHHHHHHcCCCC
Q psy14386 196 YECNACGKGFQNKSYLIVHQRVHSTDK 222 (344)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~h~~~~ 222 (344)
..|-.+|+.|. +|++|+.+|.|--
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmT 100 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLT 100 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCC
Confidence 55666666663 4666666665543
No 189
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=46.56 E-value=8.2 Score=27.60 Aligned_cols=8 Identities=63% Similarity=1.447 Sum_probs=4.0
Q ss_pred Cccccccc
Q psy14386 296 CNICGQSF 303 (344)
Q Consensus 296 C~~C~k~f 303 (344)
|..||.+|
T Consensus 49 Cg~CGls~ 56 (104)
T COG4888 49 CGNCGLSF 56 (104)
T ss_pred cccCcceE
Confidence 55555444
No 190
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=46.03 E-value=6.4 Score=29.50 Aligned_cols=49 Identities=33% Similarity=0.670 Sum_probs=28.7
Q ss_pred ceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCcccccccch
Q psy14386 251 PYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNK 329 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~ 329 (344)
...|..|++.|.... +..-.|..|++.+ |..|+.. ..+...+.|.+|-+
T Consensus 54 ~~~C~~C~~~fg~l~-------------~~~~~C~~C~~~V----C~~C~~~-------------~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLF-------------NRGRVCVDCKHRV----CKKCGVY-------------SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTS-------------TTCEEETTTTEEE----ETTSEEE-------------TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccC-------------CCCCcCCcCCccc----cCccCCc-------------CCCCCCEEChhhHH
Confidence 346777777765432 1345677776643 6666654 34566788888864
No 191
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=46.03 E-value=13 Score=23.60 Aligned_cols=24 Identities=25% Similarity=0.726 Sum_probs=17.3
Q ss_pred CCcCCCCCCCccCCCCCccccccc
Q psy14386 280 RQYPCPVCKKLFVSKSCNICGQSF 303 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~C~~C~k~f 303 (344)
+.-.|+.||.......|+.||...
T Consensus 4 ~mr~C~~CgvYTLk~~CP~CG~~t 27 (56)
T PRK13130 4 KIRKCPKCGVYTLKEICPVCGGKT 27 (56)
T ss_pred cceECCCCCCEEccccCcCCCCCC
Confidence 345688888776666788888753
No 192
>KOG1701|consensus
Probab=45.70 E-value=4.2 Score=37.11 Aligned_cols=39 Identities=21% Similarity=0.358 Sum_probs=21.9
Q ss_pred ccccccccccChHHHHHHHH--HhcCCCceecCccCCccCCHH
Q psy14386 169 QCFKCEKRFRSKLGLDEHEA--KHTGRYEYECNACGKGFQNKS 209 (344)
Q Consensus 169 ~C~~C~~~f~~~~~l~~H~~--~h~~~~~~~C~~C~~~f~~~~ 209 (344)
.|-.|+|...-...-..=|. .|. .-|+|..|++...-.+
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv--~CFtC~~C~r~L~Gq~ 316 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHV--QCFTCRTCRRQLAGQS 316 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcc--cceehHhhhhhhcccc
Confidence 57778876654443333332 232 3488888877654443
No 193
>KOG3408|consensus
Probab=45.47 E-value=13 Score=27.58 Aligned_cols=23 Identities=26% Similarity=0.580 Sum_probs=14.2
Q ss_pred cccccccchhccChHHHHHHhhh
Q psy14386 321 PYSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 321 ~~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
.|-|-.|.+-|.+...|..|.|+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhc
Confidence 35666666666666666666553
No 194
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=45.41 E-value=9.1 Score=29.76 Aligned_cols=9 Identities=33% Similarity=1.128 Sum_probs=4.0
Q ss_pred ceecCccCCc
Q psy14386 195 EYECNACGKG 204 (344)
Q Consensus 195 ~~~C~~C~~~ 204 (344)
+|.|. |+..
T Consensus 117 ~Y~C~-C~q~ 125 (156)
T COG3091 117 PYRCQ-CQQH 125 (156)
T ss_pred eEEee-cCCc
Confidence 34444 4444
No 195
>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=45.09 E-value=21 Score=21.50 Aligned_cols=9 Identities=33% Similarity=1.036 Sum_probs=4.0
Q ss_pred CceeccccC
Q psy14386 250 KPYSCEICG 258 (344)
Q Consensus 250 k~~~C~~C~ 258 (344)
..|.|..|+
T Consensus 36 ~~~~C~~C~ 44 (46)
T PF12760_consen 36 GRYRCKACR 44 (46)
T ss_pred CeEECCCCC
Confidence 344444444
No 196
>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=44.98 E-value=7.9 Score=32.34 Aligned_cols=29 Identities=21% Similarity=0.493 Sum_probs=22.2
Q ss_pred CCceecCccCCccCCHHHHHHHHHHcCCC
Q psy14386 193 RYEYECNACGKGFQNKSYLIVHQRVHSTD 221 (344)
Q Consensus 193 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 221 (344)
+..|.|+.|+|.|........|+..-+.+
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 44599999999999999999999876554
No 197
>PRK14873 primosome assembly protein PriA; Provisional
Probab=44.56 E-value=6.6 Score=39.03 Aligned_cols=23 Identities=22% Similarity=0.502 Sum_probs=14.6
Q ss_pred CCcCCCCCCCccCCCCCcccccc
Q psy14386 280 RQYPCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~C~~C~k~ 302 (344)
....|..||.......|+.||-.
T Consensus 409 ~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 409 GTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred CeeECCCCcCCCcCccCCCCcCC
Confidence 45667777765555567777654
No 198
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=44.38 E-value=6.9 Score=31.70 Aligned_cols=15 Identities=27% Similarity=0.882 Sum_probs=10.4
Q ss_pred CceeccccCcccCCh
Q psy14386 250 KPYSCEICGRGFITK 264 (344)
Q Consensus 250 k~~~C~~C~k~f~~~ 264 (344)
-||.|.+|.+.|...
T Consensus 195 IPF~C~iCKkdy~sp 209 (259)
T COG5152 195 IPFLCGICKKDYESP 209 (259)
T ss_pred Cceeehhchhhccch
Confidence 467777777776654
No 199
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=44.19 E-value=14 Score=28.02 Aligned_cols=21 Identities=24% Similarity=0.548 Sum_probs=15.2
Q ss_pred hCCCCceeccccCcccCChhH
Q psy14386 246 HMGVKPYSCEICGRGFITKGL 266 (344)
Q Consensus 246 h~~~k~~~C~~C~k~f~~~~~ 266 (344)
-...+-|+|.+|..+.....-
T Consensus 75 F~d~~lYeCnIC~etS~ee~F 95 (140)
T PF05290_consen 75 FLDPKLYECNICKETSAEERF 95 (140)
T ss_pred ecCCCceeccCcccccchhhc
Confidence 356688999999877766543
No 200
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=44.00 E-value=14 Score=23.32 Aligned_cols=9 Identities=22% Similarity=0.922 Sum_probs=3.6
Q ss_pred ccCCCcccc
Q psy14386 225 ACKTCPRSF 233 (344)
Q Consensus 225 ~C~~C~~~f 233 (344)
+|+.||..|
T Consensus 30 ~C~~Cgh~w 38 (55)
T PF14311_consen 30 KCPKCGHEW 38 (55)
T ss_pred ECCCCCCee
Confidence 344443333
No 201
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=43.74 E-value=15 Score=28.63 Aligned_cols=11 Identities=55% Similarity=1.268 Sum_probs=5.8
Q ss_pred CcccccccCCh
Q psy14386 296 CNICGQSFTQF 306 (344)
Q Consensus 296 C~~C~k~f~~~ 306 (344)
|+.||+.|++.
T Consensus 31 C~~C~~RFTTf 41 (156)
T COG1327 31 CLECGERFTTF 41 (156)
T ss_pred ccccccccchh
Confidence 55555555543
No 202
>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=43.12 E-value=13 Score=35.80 Aligned_cols=11 Identities=27% Similarity=0.773 Sum_probs=7.6
Q ss_pred CCcccccccch
Q psy14386 319 ERPYSCELCNK 329 (344)
Q Consensus 319 ~k~~~C~~C~~ 329 (344)
.-|..|+.||-
T Consensus 251 ~~~~~Cp~C~s 261 (505)
T TIGR00595 251 PIPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCCC
Confidence 34667888875
No 203
>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=43.10 E-value=15 Score=23.09 Aligned_cols=33 Identities=33% Similarity=0.870 Sum_probs=20.7
Q ss_pred eccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCccccccc
Q psy14386 253 SCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSF 303 (344)
Q Consensus 253 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f 303 (344)
.|..|++.|... .+.+.|..||+.| |..|...+
T Consensus 4 ~C~~C~~~F~~~--------------~rk~~Cr~Cg~~~----C~~C~~~~ 36 (57)
T cd00065 4 SCMGCGKPFTLT--------------RRRHHCRNCGRIF----CSKCSSNR 36 (57)
T ss_pred cCcccCccccCC--------------ccccccCcCcCCc----ChHHcCCe
Confidence 577788877752 1556677777765 55555444
No 204
>PF05613 Herpes_U15: Human herpesvirus U15 protein; InterPro: IPR008644 U15 is an ORF present in human herpesvirus 6 (HHV-6) that was initially isolated from patients with the AIDS and lymphoproliferative disorders, but was subsequently shown to be responsible for the common childhood disease exanthema subitum (roseola). Several gene fragments of HHV-6 have been shown to activate the human immunodeficiency virus (HIV) type 1 long terminal repeat (LTR) []. The ORF U15 encodes a protein of 110 amino acids, whose function in unknown.
Probab=43.08 E-value=12 Score=25.82 Aligned_cols=24 Identities=38% Similarity=0.488 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHhhhccccccC
Q psy14386 6 EELQEFNELCREAYAVHCTEIHSK 29 (344)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~ 29 (344)
.+++||||||.--..+-.+|+.+.
T Consensus 7 qrlqe~relcpl~vlmslsnilsk 30 (110)
T PF05613_consen 7 QRLQECRELCPLPVLMSLSNILSK 30 (110)
T ss_pred HHHHHHHHhCChHHHHHHHHHHhh
Confidence 468999999999888888877763
No 205
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=42.95 E-value=9.5 Score=30.62 Aligned_cols=11 Identities=36% Similarity=0.673 Sum_probs=6.7
Q ss_pred eeccccCcccC
Q psy14386 252 YSCEICGRGFI 262 (344)
Q Consensus 252 ~~C~~C~k~f~ 262 (344)
|.|.-|++.|.
T Consensus 140 ~rC~GC~~~f~ 150 (177)
T COG1439 140 LRCHGCKRIFP 150 (177)
T ss_pred EEEecCceecC
Confidence 56666666665
No 206
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=42.62 E-value=14 Score=28.68 Aligned_cols=11 Identities=45% Similarity=1.026 Sum_probs=5.4
Q ss_pred CcccccccCCh
Q psy14386 296 CNICGQSFTQF 306 (344)
Q Consensus 296 C~~C~k~f~~~ 306 (344)
|..||+.|++.
T Consensus 31 C~~C~~RFTTy 41 (147)
T TIGR00244 31 CLECHERFTTF 41 (147)
T ss_pred CCccCCcccee
Confidence 55555555443
No 207
>KOG4377|consensus
Probab=42.60 E-value=10 Score=34.47 Aligned_cols=107 Identities=21% Similarity=0.413 Sum_probs=62.3
Q ss_pred ccccc--cccccccChHHHHHHHHHhcCCC------------ceec--CccCCccCCHHHHHHHHHHcCCC-------CC
Q psy14386 167 PFQCF--KCEKRFRSKLGLDEHEAKHTGRY------------EYEC--NACGKGFQNKSYLIVHQRVHSTD-------KP 223 (344)
Q Consensus 167 ~~~C~--~C~~~f~~~~~l~~H~~~h~~~~------------~~~C--~~C~~~f~~~~~l~~H~~~h~~~-------~~ 223 (344)
-|.|. .|+..+..+..+.+|..+|.... .|.| ..|.+ +-+....|-..|+.. .-
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfrrth 347 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTH 347 (480)
T ss_pred hhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceecce
Confidence 46673 48877777888888888774321 2566 34777 334455565555322 12
Q ss_pred cccCCCccccCCh--HHHHHHHHHhCCCC------------------------ceeccc--cCcccCChhHHHHHHhhhc
Q psy14386 224 YACKTCPRSFKTK--QTLLDHENRHMGVK------------------------PYSCEI--CGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 224 ~~C~~C~~~f~~~--~~L~~H~~~h~~~k------------------------~~~C~~--C~k~f~~~~~L~~H~~~h~ 275 (344)
|.|..||-++..+ ..-..|.+-+.++. -|-|.. |+..|.+.+.+..|.+.|.
T Consensus 348 fhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 348 FHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRKHE 427 (480)
T ss_pred eEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhhhhh
Confidence 6677766444333 22222222222211 144543 8899999999999998885
Q ss_pred C
Q psy14386 276 G 276 (344)
Q Consensus 276 ~ 276 (344)
.
T Consensus 428 R 428 (480)
T KOG4377|consen 428 R 428 (480)
T ss_pred h
Confidence 4
No 208
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=42.35 E-value=11 Score=28.08 Aligned_cols=10 Identities=20% Similarity=0.378 Sum_probs=4.2
Q ss_pred eecCccCCcc
Q psy14386 196 YECNACGKGF 205 (344)
Q Consensus 196 ~~C~~C~~~f 205 (344)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 3444444333
No 209
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=42.18 E-value=11 Score=22.03 Aligned_cols=12 Identities=25% Similarity=0.891 Sum_probs=8.9
Q ss_pred cccccccchhcc
Q psy14386 321 PYSCELCNKAFV 332 (344)
Q Consensus 321 ~~~C~~C~~~f~ 332 (344)
||+|..|++.|=
T Consensus 12 ~f~C~~C~~~FC 23 (39)
T smart00154 12 GFKCRHCGNLFC 23 (39)
T ss_pred CeECCccCCccc
Confidence 777888877763
No 210
>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=41.12 E-value=5.5 Score=22.78 Aligned_cols=19 Identities=21% Similarity=0.625 Sum_probs=15.1
Q ss_pred HHHHHHHccCCCccccccc
Q psy14386 309 MAIHKRLHTGERPYSCELC 327 (344)
Q Consensus 309 L~~H~~~H~~~k~~~C~~C 327 (344)
+.+|-+...|...|.|..|
T Consensus 17 v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 17 VKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred ceeCCCCCCCCEeEecCcC
Confidence 5567777778888999988
No 211
>KOG4124|consensus
Probab=41.08 E-value=5.5 Score=35.30 Aligned_cols=45 Identities=29% Similarity=0.702 Sum_probs=32.4
Q ss_pred cccccccCChhhHHHHHHH-cc--------------C----CCcccccccchhccChHHHHHHh
Q psy14386 297 NICGQSFTQFSPMAIHKRL-HT--------------G----ERPYSCELCNKAFVSRSTLMVHK 341 (344)
Q Consensus 297 ~~C~k~f~~~~~L~~H~~~-H~--------------~----~k~~~C~~C~~~f~~~~~L~~H~ 341 (344)
+.|.+.+.....|..|... |. + .|+|.|++|.+++....+|.-|+
T Consensus 355 p~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 355 PNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred CcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 5677888777777777542 31 1 47899999999998877766553
No 212
>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=40.81 E-value=11 Score=28.16 Aligned_cols=10 Identities=20% Similarity=0.826 Sum_probs=4.3
Q ss_pred cccCCCcccc
Q psy14386 224 YACKTCPRSF 233 (344)
Q Consensus 224 ~~C~~C~~~f 233 (344)
..|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (115)
T TIGR00100 71 CECEDCSEEV 80 (115)
T ss_pred EEcccCCCEE
Confidence 3444444444
No 213
>PRK05978 hypothetical protein; Provisional
Probab=40.78 E-value=17 Score=28.40 Aligned_cols=9 Identities=56% Similarity=1.486 Sum_probs=4.6
Q ss_pred CcccccccC
Q psy14386 296 CNICGQSFT 304 (344)
Q Consensus 296 C~~C~k~f~ 304 (344)
|+.||..|.
T Consensus 55 C~~CG~~~~ 63 (148)
T PRK05978 55 CAACGEDFT 63 (148)
T ss_pred ccccCCccc
Confidence 555555443
No 214
>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=40.61 E-value=8.9 Score=21.60 Aligned_cols=13 Identities=31% Similarity=0.933 Sum_probs=4.9
Q ss_pred eccccCcccCChh
Q psy14386 253 SCEICGRGFITKG 265 (344)
Q Consensus 253 ~C~~C~k~f~~~~ 265 (344)
.|..|++.|..+.
T Consensus 5 ~C~eC~~~f~dSy 17 (34)
T PF01286_consen 5 KCDECGKPFMDSY 17 (34)
T ss_dssp E-TTT--EES-SS
T ss_pred hHhHhCCHHHHHH
Confidence 4556666665543
No 215
>KOG1280|consensus
Probab=39.43 E-value=31 Score=30.80 Aligned_cols=51 Identities=18% Similarity=0.365 Sum_probs=29.4
Q ss_pred CceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccc
Q psy14386 250 KPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 250 k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~ 302 (344)
.-|.|++|++.=.+-..|..|....|.+-..-..|++|+.. ...|++|++.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~~--~~~qp~~~~~ 128 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAAN--PEMQPIHSKE 128 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeeccccC--cccCchhhhh
Confidence 35777777777666677777776666553222346666542 1235555554
No 216
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=39.32 E-value=16 Score=22.29 Aligned_cols=33 Identities=27% Similarity=0.337 Sum_probs=17.4
Q ss_pred CCCCCCccCCCCCcccccccCChhhHHHHHHHcc
Q psy14386 284 CPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHT 317 (344)
Q Consensus 284 C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~ 317 (344)
|..|+..-..+.|..|+..+-..... .|...|.
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~~~~-~h~~~H~ 34 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGRYQL-GHALEHF 34 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCCCCC-cHHHHHh
Confidence 56666544455577777666533211 2444443
No 217
>KOG2636|consensus
Probab=39.15 E-value=20 Score=33.16 Aligned_cols=30 Identities=27% Similarity=0.568 Sum_probs=25.2
Q ss_pred HHHccCCCcccccccc-hhccChHHHHHHhh
Q psy14386 313 KRLHTGERPYSCELCN-KAFVSRSTLMVHKK 342 (344)
Q Consensus 313 ~~~H~~~k~~~C~~C~-~~f~~~~~L~~H~~ 342 (344)
.+.|.-..-|.|.+|| +++.-+..+.+|..
T Consensus 393 yKLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 393 YKLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred HhhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 3567778889999999 89999999998863
No 218
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=38.92 E-value=19 Score=22.18 Aligned_cols=14 Identities=14% Similarity=0.375 Sum_probs=10.4
Q ss_pred cccccccchhccCh
Q psy14386 321 PYSCELCNKAFVSR 334 (344)
Q Consensus 321 ~~~C~~C~~~f~~~ 334 (344)
.|.|+.||..+.-.
T Consensus 20 ~~vC~~Cg~~~~~~ 33 (52)
T smart00661 20 RFVCRKCGYEEPIE 33 (52)
T ss_pred EEECCcCCCeEECC
Confidence 68899998776543
No 219
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=38.60 E-value=18 Score=33.38 Aligned_cols=30 Identities=23% Similarity=0.584 Sum_probs=20.9
Q ss_pred ccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChh
Q psy14386 225 ACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKG 265 (344)
Q Consensus 225 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~ 265 (344)
.|+.||.+..+. |..-|+|+.||+.+....
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCccc
Confidence 688888766553 444788888888777653
No 220
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.64 E-value=13 Score=27.83 Aligned_cols=10 Identities=40% Similarity=1.059 Sum_probs=4.2
Q ss_pred eecCccCCcc
Q psy14386 196 YECNACGKGF 205 (344)
Q Consensus 196 ~~C~~C~~~f 205 (344)
+.|..|+..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 3444444333
No 221
>KOG0978|consensus
Probab=37.15 E-value=8.4 Score=37.94 Aligned_cols=21 Identities=29% Similarity=0.529 Sum_probs=15.8
Q ss_pred cccccccchhccChHHHHHHh
Q psy14386 321 PYSCELCNKAFVSRSTLMVHK 341 (344)
Q Consensus 321 ~~~C~~C~~~f~~~~~L~~H~ 341 (344)
.=+||.|+.+|....-+..|+
T Consensus 678 qRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 678 QRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred cCCCCCCCCCCCcccccccCC
Confidence 348999999998877766653
No 222
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=36.90 E-value=11 Score=29.43 Aligned_cols=44 Identities=20% Similarity=0.289 Sum_probs=18.2
Q ss_pred CCcCCCCCCCccCCCCCcccccccCChhhHHHHHH-HccC-----------CCcccccccch
Q psy14386 280 RQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKR-LHTG-----------ERPYSCELCNK 329 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~-~H~~-----------~k~~~C~~C~~ 329 (344)
--.+|..|+|.|=.. - .=+..+.+..|+. ..+. +..++|-.||-
T Consensus 13 ~vv~C~~c~kWFCNg----~--~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 13 CVVKCNTCNKWFCNG----R--GNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp CEEEETTTTEEEES--------TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred cEeEcCCCCcEeecC----C--CCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 345566666665221 1 1135677777753 2222 23578988984
No 223
>KOG3408|consensus
Probab=36.67 E-value=23 Score=26.38 Aligned_cols=23 Identities=22% Similarity=0.469 Sum_probs=13.2
Q ss_pred CceecCccCCccCCHHHHHHHHH
Q psy14386 194 YEYECNACGKGFQNKSYLIVHQR 216 (344)
Q Consensus 194 ~~~~C~~C~~~f~~~~~l~~H~~ 216 (344)
..|.|-.|.+.|.+...|..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 34556666666666666655544
No 224
>PF12907 zf-met2: Zinc-binding
Probab=36.13 E-value=9.9 Score=22.33 Aligned_cols=20 Identities=25% Similarity=0.703 Sum_probs=13.7
Q ss_pred ccccccchhccCh---HHHHHHh
Q psy14386 322 YSCELCNKAFVSR---STLMVHK 341 (344)
Q Consensus 322 ~~C~~C~~~f~~~---~~L~~H~ 341 (344)
+.|.+|-.+|... ..|..|.
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~ 24 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHA 24 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHH
Confidence 5788888666544 5577775
No 225
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=35.80 E-value=20 Score=33.15 Aligned_cols=16 Identities=13% Similarity=0.453 Sum_probs=10.9
Q ss_pred CCcccccccchhccCh
Q psy14386 319 ERPYSCELCNKAFVSR 334 (344)
Q Consensus 319 ~k~~~C~~C~~~f~~~ 334 (344)
.+-|+|+.||+.+...
T Consensus 365 ~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 365 RNGFRCKKCGTRARET 380 (421)
T ss_pred CCCcccccccccCCcc
Confidence 3467888888776654
No 226
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.64 E-value=17 Score=36.27 Aligned_cols=44 Identities=14% Similarity=0.321 Sum_probs=21.6
Q ss_pred CCCCCCCccCCCCCcccccccCC---hhhHHHHHHHccCCCcccccccchh
Q psy14386 283 PCPVCKKLFVSKSCNICGQSFTQ---FSPMAIHKRLHTGERPYSCELCNKA 330 (344)
Q Consensus 283 ~C~~C~~~f~~~~C~~C~k~f~~---~~~L~~H~~~H~~~k~~~C~~C~~~ 330 (344)
.|..||..+. |+.|+-.... ...|.-|.=-+. ..|+.|+.||-.
T Consensus 385 ~C~~Cg~~~~---C~~C~~~L~~h~~~~~l~Ch~CG~~-~~p~~Cp~Cgs~ 431 (665)
T PRK14873 385 ACARCRTPAR---CRHCTGPLGLPSAGGTPRCRWCGRA-APDWRCPRCGSD 431 (665)
T ss_pred EhhhCcCeeE---CCCCCCceeEecCCCeeECCCCcCC-CcCccCCCCcCC
Confidence 5777776543 6666654332 112222221122 246777777753
No 227
>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=35.61 E-value=12 Score=37.53 Aligned_cols=26 Identities=31% Similarity=0.682 Sum_probs=0.0
Q ss_pred CCcCCCCCCCccCCCCCcccccccCC
Q psy14386 280 RQYPCPVCKKLFVSKSCNICGQSFTQ 305 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~C~~C~k~f~~ 305 (344)
..|.|+.|+.......|+.||.....
T Consensus 679 ~~~~Cp~C~~~~~~~~C~~C~~~~~~ 704 (900)
T PF03833_consen 679 PVYVCPDCGIEVEEDECPKCGRETTS 704 (900)
T ss_dssp --------------------------
T ss_pred cceeccccccccCccccccccccCcc
Confidence 45777777777766677777766443
No 228
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=35.59 E-value=12 Score=22.23 Aligned_cols=12 Identities=42% Similarity=1.237 Sum_probs=7.2
Q ss_pred Ccccccccchhc
Q psy14386 320 RPYSCELCNKAF 331 (344)
Q Consensus 320 k~~~C~~C~~~f 331 (344)
-||.|..|++.|
T Consensus 12 ~~~~C~~C~~~F 23 (43)
T PF01428_consen 12 LPFKCKHCGKSF 23 (43)
T ss_dssp SHEE-TTTS-EE
T ss_pred CCeECCCCCccc
Confidence 367788877776
No 229
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=35.09 E-value=22 Score=24.92 Aligned_cols=14 Identities=36% Similarity=0.885 Sum_probs=10.2
Q ss_pred CceeccccCcccCC
Q psy14386 250 KPYSCEICGRGFIT 263 (344)
Q Consensus 250 k~~~C~~C~k~f~~ 263 (344)
+|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 46677777777766
No 230
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=35.08 E-value=6.9 Score=24.10 Aligned_cols=9 Identities=22% Similarity=0.689 Sum_probs=5.1
Q ss_pred CCcCCCCCC
Q psy14386 280 RQYPCPVCK 288 (344)
Q Consensus 280 ~~~~C~~C~ 288 (344)
..|+|..|.
T Consensus 14 ~r~~C~~C~ 22 (49)
T cd02335 14 IRIKCAECP 22 (49)
T ss_pred cEEECCCCC
Confidence 445666664
No 231
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=34.44 E-value=21 Score=20.88 Aligned_cols=22 Identities=14% Similarity=0.234 Sum_probs=15.1
Q ss_pred CCCcccccccchhccChHHHHH
Q psy14386 318 GERPYSCELCNKAFVSRSTLMV 339 (344)
Q Consensus 318 ~~k~~~C~~C~~~f~~~~~L~~ 339 (344)
+..-+.|+.|+-.+.....|.+
T Consensus 16 ~~~id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 16 DVEIDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred CEEEEECCCCCeEEccHHHHHH
Confidence 3455678888877777776654
No 232
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=33.88 E-value=7.4 Score=23.84 Aligned_cols=9 Identities=44% Similarity=1.202 Sum_probs=4.9
Q ss_pred Ccccccccc
Q psy14386 320 RPYSCELCN 328 (344)
Q Consensus 320 k~~~C~~C~ 328 (344)
+-|.|.-|+
T Consensus 40 eYY~CksC~ 48 (57)
T PF14445_consen 40 EYYTCKSCN 48 (57)
T ss_pred hHhHHHhhh
Confidence 445666554
No 233
>KOG4317|consensus
Probab=33.84 E-value=13 Score=32.64 Aligned_cols=16 Identities=44% Similarity=1.059 Sum_probs=9.2
Q ss_pred CCcCCCCCCCccCCCC
Q psy14386 280 RQYPCPVCKKLFVSKS 295 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~ 295 (344)
+.|.|+.|+..|-+.+
T Consensus 18 ~~YtCPRCn~~YCsl~ 33 (383)
T KOG4317|consen 18 REYTCPRCNLLYCSLK 33 (383)
T ss_pred ccccCCCCCccceeee
Confidence 3467777766554433
No 234
>KOG2906|consensus
Probab=33.56 E-value=2.3 Score=30.14 Aligned_cols=15 Identities=27% Similarity=0.605 Sum_probs=11.4
Q ss_pred CceeccccCcccCCh
Q psy14386 250 KPYSCEICGRGFITK 264 (344)
Q Consensus 250 k~~~C~~C~k~f~~~ 264 (344)
..|.|.-|++.|.-.
T Consensus 20 ~rf~C~tCpY~~~I~ 34 (105)
T KOG2906|consen 20 NRFSCRTCPYVFPIS 34 (105)
T ss_pred eeEEcCCCCceeeEe
Confidence 468888898887654
No 235
>KOG2071|consensus
Probab=33.49 E-value=22 Score=34.15 Aligned_cols=26 Identities=23% Similarity=0.474 Sum_probs=21.2
Q ss_pred CCcccccccchhccChHHHHHHhhhC
Q psy14386 319 ERPYSCELCNKAFVSRSTLMVHKKKH 344 (344)
Q Consensus 319 ~k~~~C~~C~~~f~~~~~L~~H~~~H 344 (344)
.+|.+|..||.+|.......+||-.|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhh
Confidence 35678999999999988888887665
No 236
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.34 E-value=8.3 Score=32.18 Aligned_cols=9 Identities=33% Similarity=0.707 Sum_probs=5.9
Q ss_pred eeccccCcc
Q psy14386 252 YSCEICGRG 260 (344)
Q Consensus 252 ~~C~~C~k~ 260 (344)
..||.|+.+
T Consensus 63 vvCP~C~yA 71 (267)
T COG1655 63 VVCPICYYA 71 (267)
T ss_pred EEcchhhHH
Confidence 467777754
No 237
>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=33.22 E-value=3.9 Score=31.86 Aligned_cols=17 Identities=29% Similarity=0.610 Sum_probs=12.6
Q ss_pred CCcccccccchhccChH
Q psy14386 319 ERPYSCELCNKAFVSRS 335 (344)
Q Consensus 319 ~k~~~C~~C~~~f~~~~ 335 (344)
+.|.-|..||+.|....
T Consensus 66 ~~PsYC~~CGkpyPWt~ 82 (158)
T PF10083_consen 66 EAPSYCHNCGKPYPWTE 82 (158)
T ss_pred CCChhHHhCCCCCchHH
Confidence 46778888888887644
No 238
>PRK00420 hypothetical protein; Validated
Probab=32.86 E-value=26 Score=25.91 Aligned_cols=8 Identities=25% Similarity=1.024 Sum_probs=4.7
Q ss_pred Cccccccc
Q psy14386 296 CNICGQSF 303 (344)
Q Consensus 296 C~~C~k~f 303 (344)
|+.||...
T Consensus 43 Cp~Cg~~~ 50 (112)
T PRK00420 43 CPVHGKVY 50 (112)
T ss_pred CCCCCCee
Confidence 66666643
No 239
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=32.82 E-value=18 Score=23.78 Aligned_cols=8 Identities=50% Similarity=1.464 Sum_probs=4.2
Q ss_pred eeccccCc
Q psy14386 252 YSCEICGR 259 (344)
Q Consensus 252 ~~C~~C~k 259 (344)
|.|+.||.
T Consensus 1 y~C~KCg~ 8 (64)
T PF09855_consen 1 YKCPKCGN 8 (64)
T ss_pred CCCCCCCC
Confidence 45555553
No 240
>COG4640 Predicted membrane protein [Function unknown]
Probab=32.78 E-value=29 Score=31.56 Aligned_cols=28 Identities=32% Similarity=0.644 Sum_probs=16.5
Q ss_pred CCCCCC--ccCCCCCcccccccCChhhHHH
Q psy14386 284 CPVCKK--LFVSKSCNICGQSFTQFSPMAI 311 (344)
Q Consensus 284 C~~C~~--~f~~~~C~~C~k~f~~~~~L~~ 311 (344)
|+.||. .-....|+.||..|...+.+..
T Consensus 4 C~kcG~qk~Ed~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 4 CPKCGSQKAEDDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred ccccccccccccccccccCCcCCchhhhhh
Confidence 555552 1222347788888877766555
No 241
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=32.07 E-value=5.4 Score=23.38 Aligned_cols=8 Identities=50% Similarity=1.447 Sum_probs=3.3
Q ss_pred eeccccCc
Q psy14386 252 YSCEICGR 259 (344)
Q Consensus 252 ~~C~~C~k 259 (344)
|.|..||.
T Consensus 29 y~C~~C~~ 36 (40)
T smart00440 29 YVCTKCGH 36 (40)
T ss_pred EEeCCCCC
Confidence 44444443
No 242
>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=31.98 E-value=15 Score=27.20 Aligned_cols=12 Identities=25% Similarity=0.844 Sum_probs=5.6
Q ss_pred cccCCCccccCC
Q psy14386 224 YACKTCPRSFKT 235 (344)
Q Consensus 224 ~~C~~C~~~f~~ 235 (344)
+.|..||..|.-
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 71 ARCRDCGHEFEP 82 (113)
T ss_dssp EEETTTS-EEEC
T ss_pred EECCCCCCEEec
Confidence 445555555544
No 243
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=31.75 E-value=6.5 Score=39.40 Aligned_cols=36 Identities=22% Similarity=0.358 Sum_probs=18.6
Q ss_pred cccCCCccccCChHHHHHHHHHhCCCCceeccccCcccCChh
Q psy14386 224 YACKTCPRSFKTKQTLLDHENRHMGVKPYSCEICGRGFITKG 265 (344)
Q Consensus 224 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~k~f~~~~ 265 (344)
-.|+.|-+-+..+.+-+ -.----.|..||-.|.-..
T Consensus 69 a~C~~Cl~E~~dp~~Rr------y~YpF~nCt~CGPr~~i~~ 104 (711)
T TIGR00143 69 ATCSDCLEEMLDKNDRR------YLYPFISCTHCGPRFTIIE 104 (711)
T ss_pred hhHHHHHHHhcCCCccc------ccCCcccccCCCCCeEEee
Confidence 45777766555443310 0011126777887776543
No 244
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=31.63 E-value=26 Score=22.37 Aligned_cols=21 Identities=29% Similarity=0.958 Sum_probs=13.1
Q ss_pred cCCCCCCCccCCCCCcccccc
Q psy14386 282 YPCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 282 ~~C~~C~~~f~~~~C~~C~k~ 302 (344)
.+|+.|+.---.-.|+.||..
T Consensus 6 rkC~~cg~YTLke~Cp~CG~~ 26 (59)
T COG2260 6 RKCPKCGRYTLKEKCPVCGGD 26 (59)
T ss_pred hcCcCCCceeecccCCCCCCc
Confidence 457777664444468888754
No 245
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=31.54 E-value=14 Score=21.95 Aligned_cols=8 Identities=38% Similarity=1.082 Sum_probs=3.8
Q ss_pred eeccccCc
Q psy14386 252 YSCEICGR 259 (344)
Q Consensus 252 ~~C~~C~k 259 (344)
|.|+.||.
T Consensus 1 m~Cp~Cg~ 8 (43)
T PF08271_consen 1 MKCPNCGS 8 (43)
T ss_dssp ESBTTTSS
T ss_pred CCCcCCcC
Confidence 34555554
No 246
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=31.50 E-value=23 Score=27.41 Aligned_cols=20 Identities=25% Similarity=0.893 Sum_probs=13.9
Q ss_pred CCCCCCCccCCC--CCcccccc
Q psy14386 283 PCPVCKKLFVSK--SCNICGQS 302 (344)
Q Consensus 283 ~C~~C~~~f~~~--~C~~C~k~ 302 (344)
+|..||..|-.. .|+.|+..
T Consensus 31 kC~~CG~v~~PPr~~Cp~C~~~ 52 (140)
T COG1545 31 KCKKCGRVYFPPRAYCPKCGSE 52 (140)
T ss_pred EcCCCCeEEcCCcccCCCCCCC
Confidence 588888877544 38888765
No 247
>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=31.43 E-value=16 Score=28.56 Aligned_cols=9 Identities=44% Similarity=1.080 Sum_probs=5.5
Q ss_pred eeccccCcc
Q psy14386 252 YSCEICGRG 260 (344)
Q Consensus 252 ~~C~~C~k~ 260 (344)
|.|..||..
T Consensus 113 l~C~~Cg~~ 121 (146)
T PF07295_consen 113 LVCENCGHE 121 (146)
T ss_pred EecccCCCE
Confidence 666666643
No 248
>PRK05580 primosome assembly protein PriA; Validated
Probab=31.35 E-value=24 Score=35.34 Aligned_cols=46 Identities=22% Similarity=0.406 Sum_probs=23.9
Q ss_pred cCCCCCCCccCCCCCcccccccCC---hhhHHHHHHHccCCCcccccccchh
Q psy14386 282 YPCPVCKKLFVSKSCNICGQSFTQ---FSPMAIHKRLHTGERPYSCELCNKA 330 (344)
Q Consensus 282 ~~C~~C~~~f~~~~C~~C~k~f~~---~~~L~~H~~~H~~~k~~~C~~C~~~ 330 (344)
..|..||... .|+.|+-.+.. ...|.-|.=-++...|..|+.||..
T Consensus 382 ~~C~~Cg~~~---~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 382 LLCRDCGWVA---ECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred eEhhhCcCcc---CCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 3477777654 36677654431 2222333222334456678888654
No 249
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=31.06 E-value=22 Score=21.13 Aligned_cols=10 Identities=20% Similarity=0.896 Sum_probs=5.2
Q ss_pred CCcccccccc
Q psy14386 319 ERPYSCELCN 328 (344)
Q Consensus 319 ~k~~~C~~C~ 328 (344)
.+...|++|+
T Consensus 34 ~~~~~CP~C~ 43 (44)
T PF14634_consen 34 GKSVKCPICR 43 (44)
T ss_pred CCCCCCcCCC
Confidence 3445566554
No 250
>KOG0320|consensus
Probab=30.87 E-value=42 Score=26.98 Aligned_cols=17 Identities=24% Similarity=0.442 Sum_probs=11.6
Q ss_pred CCCCcccccccccccCC
Q psy14386 135 ESKSLHKCDRCPKKFSS 151 (344)
Q Consensus 135 ~~~~~~~C~~C~~~f~~ 151 (344)
.....|.|++|-..|..
T Consensus 127 ~~~~~~~CPiCl~~~se 143 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSE 143 (187)
T ss_pred ccccccCCCceecchhh
Confidence 34456889998776654
No 251
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=30.77 E-value=25 Score=31.50 Aligned_cols=28 Identities=29% Similarity=0.726 Sum_probs=18.8
Q ss_pred cCCCCCcccccccCChhhHHHHHHHccCCCcccccccchhccC
Q psy14386 291 FVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFVS 333 (344)
Q Consensus 291 f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~~ 333 (344)
+++..|+.||. -..+.|.|+.||..+.+
T Consensus 307 ~tS~~C~~cg~---------------~~~r~~~C~~cg~~~~r 334 (364)
T COG0675 307 YTSKTCPCCGH---------------LSGRLFKCPRCGFVHDR 334 (364)
T ss_pred CCcccccccCC---------------ccceeEECCCCCCeehh
Confidence 44566888887 22466888888876543
No 252
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=30.76 E-value=15 Score=25.38 Aligned_cols=9 Identities=33% Similarity=1.372 Sum_probs=2.3
Q ss_pred CCcCCCCCC
Q psy14386 280 RQYPCPVCK 288 (344)
Q Consensus 280 ~~~~C~~C~ 288 (344)
+.|.|+.|+
T Consensus 21 ~~F~CPfC~ 29 (81)
T PF05129_consen 21 KVFDCPFCN 29 (81)
T ss_dssp S----TTT-
T ss_pred ceEcCCcCC
Confidence 445666665
No 253
>PTZ00448 hypothetical protein; Provisional
Probab=30.56 E-value=30 Score=31.27 Aligned_cols=23 Identities=17% Similarity=0.440 Sum_probs=18.3
Q ss_pred cccccccchhccChHHHHHHhhh
Q psy14386 321 PYSCELCNKAFVSRSTLMVHKKK 343 (344)
Q Consensus 321 ~~~C~~C~~~f~~~~~L~~H~~~ 343 (344)
.|.|..|+-.|.+...-+.|+|+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 57888888888888888888775
No 254
>KOG1813|consensus
Probab=29.93 E-value=26 Score=30.52 Aligned_cols=43 Identities=28% Similarity=0.702 Sum_probs=24.6
Q ss_pred CceeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCc-cCC-CCCcccccc
Q psy14386 250 KPYSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKL-FVS-KSCNICGQS 302 (344)
Q Consensus 250 k~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~-f~~-~~C~~C~k~ 302 (344)
-||.|.+|.+.|.+.- ++-. ..|-|..|... |.. ..|.+|++.
T Consensus 240 ~Pf~c~icr~~f~~pV------vt~c----~h~fc~~ca~~~~qk~~~c~vC~~~ 284 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPV------VTKC----GHYFCEVCALKPYQKGEKCYVCSQQ 284 (313)
T ss_pred CCccccccccccccch------hhcC----CceeehhhhccccccCCcceecccc
Confidence 4788888888777652 2221 45666666533 221 247777664
No 255
>KOG0782|consensus
Probab=29.65 E-value=26 Score=33.53 Aligned_cols=34 Identities=35% Similarity=0.743 Sum_probs=16.6
Q ss_pred CcccccccCChhhHHHHHHHccCC-CcccccccchhccChH
Q psy14386 296 CNICGQSFTQFSPMAIHKRLHTGE-RPYSCELCNKAFVSRS 335 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~H~~~-k~~~C~~C~~~f~~~~ 335 (344)
|..|||.|..+-.+ |..+ -...|.-|.++|..+.
T Consensus 256 C~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 256 CNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cchhhhhhhhheee------ccccEEEEEehHHHHHhhcch
Confidence 56666655543322 2222 1345666666665543
No 256
>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=29.50 E-value=18 Score=36.45 Aligned_cols=11 Identities=27% Similarity=0.718 Sum_probs=0.0
Q ss_pred cccccchhccC
Q psy14386 323 SCELCNKAFVS 333 (344)
Q Consensus 323 ~C~~C~~~f~~ 333 (344)
.|+.|+.-...
T Consensus 694 ~C~~C~~~~~~ 704 (900)
T PF03833_consen 694 ECPKCGRETTS 704 (900)
T ss_dssp -----------
T ss_pred ccccccccCcc
Confidence 67777765443
No 257
>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=29.46 E-value=15 Score=28.83 Aligned_cols=9 Identities=44% Similarity=1.161 Sum_probs=4.3
Q ss_pred eeccccCcc
Q psy14386 252 YSCEICGRG 260 (344)
Q Consensus 252 ~~C~~C~k~ 260 (344)
|.|..|+-.
T Consensus 144 ~~C~~C~~~ 152 (157)
T PF10263_consen 144 YRCGRCGGP 152 (157)
T ss_pred EECCCCCCE
Confidence 455555433
No 258
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=28.34 E-value=59 Score=26.30 Aligned_cols=18 Identities=22% Similarity=0.447 Sum_probs=9.6
Q ss_pred cCCCceecCccCCccCCH
Q psy14386 191 TGRYEYECNACGKGFQNK 208 (344)
Q Consensus 191 ~~~~~~~C~~C~~~f~~~ 208 (344)
.+..-|.|+.|.-.|+.-
T Consensus 109 ~~~~~y~C~~~~~r~sfd 126 (176)
T COG1675 109 TENNYYVCPNCHVKYSFD 126 (176)
T ss_pred ccCCceeCCCCCCcccHH
Confidence 344456666665555433
No 259
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=27.74 E-value=34 Score=22.24 Aligned_cols=19 Identities=26% Similarity=0.912 Sum_probs=10.5
Q ss_pred CCCCCCCccCCCCCccccc
Q psy14386 283 PCPVCKKLFVSKSCNICGQ 301 (344)
Q Consensus 283 ~C~~C~~~f~~~~C~~C~k 301 (344)
.|..|+..-....|+.||-
T Consensus 5 AC~~C~~i~~~~~CP~Cgs 23 (61)
T PRK08351 5 ACRHCHYITTEDRCPVCGS 23 (61)
T ss_pred hhhhCCcccCCCcCCCCcC
Confidence 3555555544445666664
No 260
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=27.59 E-value=38 Score=26.43 Aligned_cols=17 Identities=18% Similarity=0.442 Sum_probs=9.3
Q ss_pred ceeccccCcccCChhHH
Q psy14386 251 PYSCEICGRGFITKGLC 267 (344)
Q Consensus 251 ~~~C~~C~k~f~~~~~L 267 (344)
-+.|+.||+.|-.-+++
T Consensus 124 f~~C~~C~kiyW~GsH~ 140 (147)
T PF01927_consen 124 FWRCPGCGKIYWEGSHW 140 (147)
T ss_pred EEECCCCCCEecccccH
Confidence 45566666665554443
No 261
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=27.56 E-value=26 Score=26.05 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=5.0
Q ss_pred eeccccCccc
Q psy14386 252 YSCEICGRGF 261 (344)
Q Consensus 252 ~~C~~C~k~f 261 (344)
+.|..||..|
T Consensus 71 ~~C~~Cg~~~ 80 (114)
T PRK03681 71 CWCETCQQYV 80 (114)
T ss_pred EEcccCCCee
Confidence 4555555433
No 262
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=27.48 E-value=31 Score=20.11 Aligned_cols=15 Identities=20% Similarity=0.829 Sum_probs=9.0
Q ss_pred ccCCCcccccccchh
Q psy14386 316 HTGERPYSCELCNKA 330 (344)
Q Consensus 316 H~~~k~~~C~~C~~~ 330 (344)
..+.+.+.|.+|+..
T Consensus 19 ~~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 19 DDGGKTWICNFCGTK 33 (40)
T ss_dssp ETTTTEEEETTT--E
T ss_pred cCCCCEEECcCCCCc
Confidence 445567888888753
No 263
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=27.47 E-value=34 Score=19.09 Aligned_cols=7 Identities=29% Similarity=0.852 Sum_probs=3.2
Q ss_pred cCCCCCC
Q psy14386 282 YPCPVCK 288 (344)
Q Consensus 282 ~~C~~C~ 288 (344)
+.|..|+
T Consensus 4 ~~C~~C~ 10 (33)
T PF08792_consen 4 KKCSKCG 10 (33)
T ss_pred eEcCCCC
Confidence 3444444
No 264
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=27.46 E-value=29 Score=27.00 Aligned_cols=12 Identities=33% Similarity=0.927 Sum_probs=6.1
Q ss_pred CceeccccCccc
Q psy14386 250 KPYSCEICGRGF 261 (344)
Q Consensus 250 k~~~C~~C~k~f 261 (344)
..|.|..|+-.+
T Consensus 132 ~~y~C~~C~g~l 143 (146)
T smart00731 132 SRYRCGKCGGKL 143 (146)
T ss_pred ceEEcCCCCCEE
Confidence 445555555443
No 265
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=27.31 E-value=49 Score=20.99 Aligned_cols=12 Identities=17% Similarity=0.481 Sum_probs=6.2
Q ss_pred Ccccccccchhc
Q psy14386 320 RPYSCELCNKAF 331 (344)
Q Consensus 320 k~~~C~~C~~~f 331 (344)
-.|.|+.||-.+
T Consensus 13 v~~~Cp~cGipt 24 (55)
T PF13824_consen 13 VNFECPDCGIPT 24 (55)
T ss_pred cCCcCCCCCCcC
Confidence 345566555433
No 266
>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=27.27 E-value=27 Score=20.52 Aligned_cols=12 Identities=33% Similarity=1.018 Sum_probs=8.2
Q ss_pred CceeccccCccc
Q psy14386 250 KPYSCEICGRGF 261 (344)
Q Consensus 250 k~~~C~~C~k~f 261 (344)
++-.|++||..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 456777777666
No 267
>KOG0978|consensus
Probab=26.83 E-value=23 Score=35.06 Aligned_cols=16 Identities=19% Similarity=0.532 Sum_probs=9.0
Q ss_pred CceeccccCcccCChh
Q psy14386 250 KPYSCEICGRGFITKG 265 (344)
Q Consensus 250 k~~~C~~C~k~f~~~~ 265 (344)
+.-+||.|+.+|.-..
T Consensus 677 RqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGAND 692 (698)
T ss_pred hcCCCCCCCCCCCccc
Confidence 3345666666665543
No 268
>KOG3214|consensus
Probab=26.80 E-value=16 Score=26.07 Aligned_cols=10 Identities=50% Similarity=1.245 Sum_probs=5.7
Q ss_pred CcccccccCC
Q psy14386 296 CNICGQSFTQ 305 (344)
Q Consensus 296 C~~C~k~f~~ 305 (344)
|.+|+.+|..
T Consensus 50 C~iC~esFqt 59 (109)
T KOG3214|consen 50 CRICEESFQT 59 (109)
T ss_pred eeehhhhhcc
Confidence 5556665544
No 269
>KOG0717|consensus
Probab=26.79 E-value=35 Score=31.87 Aligned_cols=22 Identities=41% Similarity=0.830 Sum_probs=19.8
Q ss_pred cccCCCccccCChHHHHHHHHH
Q psy14386 224 YACKTCPRSFKTKQTLLDHENR 245 (344)
Q Consensus 224 ~~C~~C~~~f~~~~~L~~H~~~ 245 (344)
+-|.+|+++|++...|.+|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999764
No 270
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=26.44 E-value=24 Score=35.18 Aligned_cols=41 Identities=32% Similarity=0.629 Sum_probs=26.1
Q ss_pred eeccccCcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCC
Q psy14386 252 YSCEICGRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQ 305 (344)
Q Consensus 252 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~ 305 (344)
-.|..|++.|.....+. + .|..-|..||..| |..|...+..
T Consensus 461 dtC~~C~kkFfSlsK~L-------~--~RKHHCRkCGrVF----C~~CSSnRs~ 501 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPL-------G--TRAHHCRSCGIRL----CVFCITKRAH 501 (1374)
T ss_pred CcccCcCCccccccccc-------c--cccccccCCcccc----CccccCCccc
Confidence 46999999986541100 1 1455688888876 7777766554
No 271
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=26.10 E-value=14 Score=19.83 Aligned_cols=8 Identities=38% Similarity=1.111 Sum_probs=3.3
Q ss_pred ccccCccc
Q psy14386 254 CEICGRGF 261 (344)
Q Consensus 254 C~~C~k~f 261 (344)
|-.|++.|
T Consensus 3 CiDC~~~F 10 (28)
T PF08790_consen 3 CIDCSKDF 10 (28)
T ss_dssp ETTTTEEE
T ss_pred eecCCCCc
Confidence 33344444
No 272
>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=25.78 E-value=27 Score=25.34 Aligned_cols=7 Identities=43% Similarity=1.293 Sum_probs=3.3
Q ss_pred eeccccC
Q psy14386 252 YSCEICG 258 (344)
Q Consensus 252 ~~C~~C~ 258 (344)
|.|..|+
T Consensus 32 y~C~~C~ 38 (102)
T PF11672_consen 32 YVCTPCD 38 (102)
T ss_pred EECCCCC
Confidence 4444444
No 273
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.73 E-value=38 Score=21.77 Aligned_cols=36 Identities=22% Similarity=0.495 Sum_probs=16.3
Q ss_pred ccCCCccc-cCChHHHHHHHHHhCCCCceeccccCcc
Q psy14386 225 ACKTCPRS-FKTKQTLLDHENRHMGVKPYSCEICGRG 260 (344)
Q Consensus 225 ~C~~C~~~-f~~~~~L~~H~~~h~~~k~~~C~~C~k~ 260 (344)
+|.+|++. +.....+..-+......+.|.|+.|.-.
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~R 40 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHR 40 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHhh
Confidence 45555432 2333333333333444555666666543
No 274
>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=25.39 E-value=12 Score=22.77 Aligned_cols=36 Identities=25% Similarity=0.478 Sum_probs=18.7
Q ss_pred CcccccccCChhhHHHHHHHccCCCcccccc--cchhccC
Q psy14386 296 CNICGQSFTQFSPMAIHKRLHTGERPYSCEL--CNKAFVS 333 (344)
Q Consensus 296 C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~--C~~~f~~ 333 (344)
||.||....-..+...+.. ..+.-|+|.. ||.+|..
T Consensus 2 CP~Cg~~a~ir~S~~~s~~--~~~~Y~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 2 CPHCGSKARIRTSRQLSPL--TRELYCQCTNPECGHTFVA 39 (47)
T ss_pred cCCCCCeeEEEEchhhCcc--eEEEEEEECCCcCCCEEEE
Confidence 5556554433333332211 1234478877 9988864
No 275
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=25.15 E-value=45 Score=29.86 Aligned_cols=29 Identities=24% Similarity=0.534 Sum_probs=24.5
Q ss_pred HHHccCCCcccccccc-hhccChHHHHHHh
Q psy14386 313 KRLHTGERPYSCELCN-KAFVSRSTLMVHK 341 (344)
Q Consensus 313 ~~~H~~~k~~~C~~C~-~~f~~~~~L~~H~ 341 (344)
.+.|.-.+-|.|.+|| +.+.-+..+.+|.
T Consensus 366 ~klhgLd~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 366 CKLHGLDIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred HHhcCCCcceeeeecccccccchHHHHhhh
Confidence 3568888899999999 8888888888885
No 276
>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=24.99 E-value=40 Score=19.98 Aligned_cols=11 Identities=45% Similarity=1.171 Sum_probs=5.8
Q ss_pred CCcccccccCC
Q psy14386 295 SCNICGQSFTQ 305 (344)
Q Consensus 295 ~C~~C~k~f~~ 305 (344)
.|++||+.|+.
T Consensus 10 ~C~~C~rpf~W 20 (42)
T PF10013_consen 10 ICPVCGRPFTW 20 (42)
T ss_pred cCcccCCcchH
Confidence 35555555543
No 277
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=24.96 E-value=40 Score=21.89 Aligned_cols=19 Identities=37% Similarity=1.083 Sum_probs=10.8
Q ss_pred CCCCCCccCCCC--Ccccccc
Q psy14386 284 CPVCKKLFVSKS--CNICGQS 302 (344)
Q Consensus 284 C~~C~~~f~~~~--C~~C~k~ 302 (344)
|..|.+...... |+.||-.
T Consensus 7 C~~Ck~l~~~d~e~CP~Cgs~ 27 (64)
T COG2093 7 CKNCKRLTPEDTEICPVCGST 27 (64)
T ss_pred HhhccccCCCCCccCCCCCCc
Confidence 555655544444 7777654
No 278
>KOG2071|consensus
Probab=24.78 E-value=47 Score=32.05 Aligned_cols=28 Identities=29% Similarity=0.501 Sum_probs=21.4
Q ss_pred CCCceeccccCcccCChhHHHHHHhhhc
Q psy14386 248 GVKPYSCEICGRGFITKGLCKSHQKIHS 275 (344)
Q Consensus 248 ~~k~~~C~~C~k~f~~~~~L~~H~~~h~ 275 (344)
...|-.|..||..|.+......|+..|-
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3566888888888888888777777664
No 279
>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=24.70 E-value=35 Score=24.54 Aligned_cols=12 Identities=42% Similarity=0.982 Sum_probs=5.9
Q ss_pred CCcccCCCcccc
Q psy14386 222 KPYACKTCPRSF 233 (344)
Q Consensus 222 ~~~~C~~C~~~f 233 (344)
++++|..||.-|
T Consensus 78 ~~~rC~eCG~~f 89 (97)
T cd00924 78 KPKRCPECGHVF 89 (97)
T ss_pred CceeCCCCCcEE
Confidence 455555555443
No 280
>KOG1512|consensus
Probab=24.52 E-value=28 Score=30.08 Aligned_cols=16 Identities=31% Similarity=0.885 Sum_probs=10.7
Q ss_pred CCcCCCCCCCccCCCCCccccc
Q psy14386 280 RQYPCPVCKKLFVSKSCNICGQ 301 (344)
Q Consensus 280 ~~~~C~~C~~~f~~~~C~~C~k 301 (344)
.+|+|..|.. |.+|++
T Consensus 307 Y~W~C~~C~l------C~IC~~ 322 (381)
T KOG1512|consen 307 YFWKCSSCEL------CRICLG 322 (381)
T ss_pred cchhhcccHh------hhccCC
Confidence 7778877764 556654
No 281
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=24.51 E-value=43 Score=21.09 Aligned_cols=8 Identities=50% Similarity=1.273 Sum_probs=4.5
Q ss_pred eeccccCc
Q psy14386 252 YSCEICGR 259 (344)
Q Consensus 252 ~~C~~C~k 259 (344)
..||.||.
T Consensus 5 i~CP~Cgn 12 (55)
T PF14205_consen 5 ILCPICGN 12 (55)
T ss_pred EECCCCCC
Confidence 45666664
No 282
>PLN02294 cytochrome c oxidase subunit Vb
Probab=24.24 E-value=37 Score=27.09 Aligned_cols=13 Identities=31% Similarity=0.902 Sum_probs=6.3
Q ss_pred CceeccccCcccC
Q psy14386 250 KPYSCEICGRGFI 262 (344)
Q Consensus 250 k~~~C~~C~k~f~ 262 (344)
+|+.|+.||..|.
T Consensus 140 kp~RCpeCG~~fk 152 (174)
T PLN02294 140 KSFECPVCTQYFE 152 (174)
T ss_pred CceeCCCCCCEEE
Confidence 4445555554443
No 283
>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=23.86 E-value=63 Score=18.63 Aligned_cols=10 Identities=40% Similarity=1.178 Sum_probs=2.2
Q ss_pred ccccccchhc
Q psy14386 322 YSCELCNKAF 331 (344)
Q Consensus 322 ~~C~~C~~~f 331 (344)
|=|++|+..|
T Consensus 4 yyCdyC~~~~ 13 (38)
T PF06220_consen 4 YYCDYCKKYL 13 (38)
T ss_dssp -B-TTT--B-
T ss_pred eeccccccee
Confidence 3344444444
No 284
>PHA02942 putative transposase; Provisional
Probab=23.75 E-value=37 Score=31.32 Aligned_cols=32 Identities=25% Similarity=0.578 Sum_probs=21.0
Q ss_pred ccCCCCCcccccccCChhhHHHHHHHccCCCcccccccchhcc
Q psy14386 290 LFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNKAFV 332 (344)
Q Consensus 290 ~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~~f~ 332 (344)
.|++..|+.||..-.. .+.+.|.|+.||....
T Consensus 322 ~yTSq~Cs~CG~~~~~-----------l~~r~f~C~~CG~~~d 353 (383)
T PHA02942 322 SYSSVSCPKCGHKMVE-----------IAHRYFHCPSCGYEND 353 (383)
T ss_pred CCCCccCCCCCCccCc-----------CCCCEEECCCCCCEeC
Confidence 3556668899864221 1346799999997654
No 285
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=23.55 E-value=36 Score=19.36 Aligned_cols=15 Identities=40% Similarity=0.975 Sum_probs=8.9
Q ss_pred eccccCcccCChhHH
Q psy14386 253 SCEICGRGFITKGLC 267 (344)
Q Consensus 253 ~C~~C~k~f~~~~~L 267 (344)
.|+.|++.|...+.-
T Consensus 4 ~CprC~kg~Hwa~~C 18 (36)
T PF14787_consen 4 LCPRCGKGFHWASEC 18 (36)
T ss_dssp C-TTTSSSCS-TTT-
T ss_pred cCcccCCCcchhhhh
Confidence 578888888776553
No 286
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=23.44 E-value=34 Score=24.72 Aligned_cols=8 Identities=38% Similarity=1.223 Sum_probs=4.4
Q ss_pred ceeccccC
Q psy14386 251 PYSCEICG 258 (344)
Q Consensus 251 ~~~C~~C~ 258 (344)
.|.|+.||
T Consensus 21 ~f~CP~Cg 28 (99)
T PRK14892 21 IFECPRCG 28 (99)
T ss_pred EeECCCCC
Confidence 35555555
No 287
>PRK04351 hypothetical protein; Provisional
Probab=23.26 E-value=38 Score=26.56 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=6.7
Q ss_pred CCceeccccCccc
Q psy14386 249 VKPYSCEICGRGF 261 (344)
Q Consensus 249 ~k~~~C~~C~k~f 261 (344)
...|.|..|+-.+
T Consensus 130 ~~~yrCg~C~g~L 142 (149)
T PRK04351 130 TKRYRCGKCRGKL 142 (149)
T ss_pred CCcEEeCCCCcEe
Confidence 3455555555443
No 288
>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=23.20 E-value=68 Score=20.00 Aligned_cols=16 Identities=31% Similarity=0.735 Sum_probs=7.2
Q ss_pred CCCceeccccCcccCCh
Q psy14386 248 GVKPYSCEICGRGFITK 264 (344)
Q Consensus 248 ~~k~~~C~~C~k~f~~~ 264 (344)
+... .||.|++.|..-
T Consensus 18 ~~~~-~CPlC~r~l~~e 33 (54)
T PF04423_consen 18 EAKG-CCPLCGRPLDEE 33 (54)
T ss_dssp T-SE-E-TTT--EE-HH
T ss_pred cCCC-cCCCCCCCCCHH
Confidence 3444 788888888753
No 289
>PF05766 NinG: Bacteriophage Lambda NinG protein; InterPro: IPR008713 The ninR region of phage lambda contains two recombination genes, ninB (also known as orf) and ninG (also known as rap). These genes are involved in the RecF and RecBCD recombination pathways of Escherichia coli that operate on phage lambda [, ]. NinB and NinG participate in Red recombination, the primary pathway operating when wild-type lambda grows lytically in rec+ cells [].
Probab=23.15 E-value=46 Score=27.25 Aligned_cols=26 Identities=23% Similarity=0.598 Sum_probs=17.3
Q ss_pred CCCcCCCCCCCccCCCC------CcccccccC
Q psy14386 279 NRQYPCPVCKKLFVSKS------CNICGQSFT 304 (344)
Q Consensus 279 ~~~~~C~~C~~~f~~~~------C~~C~k~f~ 304 (344)
.++-+|.+|+..|.... |+.|+..+.
T Consensus 4 ~k~rKCKvCg~~F~P~~s~q~vCSpeCa~a~~ 35 (189)
T PF05766_consen 4 PKRRKCKVCGEWFVPARSNQKVCSPECAIALA 35 (189)
T ss_pred CCCCcCcccCCccccCCCceeeeCHHHHhHHH
Confidence 35667777777776543 677885443
No 290
>KOG0782|consensus
Probab=23.07 E-value=31 Score=33.01 Aligned_cols=27 Identities=30% Similarity=0.607 Sum_probs=12.8
Q ss_pred HHHHHHHHhCCCCceeccccCcccCCh
Q psy14386 238 TLLDHENRHMGVKPYSCEICGRGFITK 264 (344)
Q Consensus 238 ~L~~H~~~h~~~k~~~C~~C~k~f~~~ 264 (344)
.|.+|--.|.....=+|..|||+|.++
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQK 266 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQK 266 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhh
Confidence 444444444433344455555555444
No 291
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.05 E-value=13 Score=25.14 Aligned_cols=12 Identities=42% Similarity=1.046 Sum_probs=8.3
Q ss_pred ceeccccCcccC
Q psy14386 251 PYSCEICGRGFI 262 (344)
Q Consensus 251 ~~~C~~C~k~f~ 262 (344)
.|.|..||..|.
T Consensus 12 ~Y~c~~cg~~~d 23 (82)
T COG2331 12 SYECTECGNRFD 23 (82)
T ss_pred EEeecccchHHH
Confidence 478888886554
No 292
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=22.96 E-value=42 Score=25.58 Aligned_cols=8 Identities=38% Similarity=1.082 Sum_probs=4.9
Q ss_pred Cccccccc
Q psy14386 296 CNICGQSF 303 (344)
Q Consensus 296 C~~C~k~f 303 (344)
|++||..+
T Consensus 47 CPvC~~~~ 54 (131)
T COG1645 47 CPVCGYRE 54 (131)
T ss_pred CCCCCceE
Confidence 77777443
No 293
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=22.87 E-value=42 Score=24.71 Aligned_cols=12 Identities=25% Similarity=0.639 Sum_probs=6.5
Q ss_pred CceeccccCccc
Q psy14386 250 KPYSCEICGRGF 261 (344)
Q Consensus 250 k~~~C~~C~k~f 261 (344)
....||.|+|..
T Consensus 68 v~V~CP~C~K~T 79 (114)
T PF11023_consen 68 VQVECPNCGKQT 79 (114)
T ss_pred eeeECCCCCChH
Confidence 445566666543
No 294
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.82 E-value=37 Score=25.90 Aligned_cols=16 Identities=25% Similarity=0.802 Sum_probs=13.1
Q ss_pred CCcccccccchhccCh
Q psy14386 319 ERPYSCELCNKAFVSR 334 (344)
Q Consensus 319 ~k~~~C~~C~~~f~~~ 334 (344)
...|+|+.|++.|...
T Consensus 51 ~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccCCcCcceeee
Confidence 5679999999999754
No 295
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.81 E-value=50 Score=22.49 Aligned_cols=34 Identities=18% Similarity=0.384 Sum_probs=23.3
Q ss_pred CCCCCCCccCCC--------CCcccccccCChhhHHHHHHHc
Q psy14386 283 PCPVCKKLFVSK--------SCNICGQSFTQFSPMAIHKRLH 316 (344)
Q Consensus 283 ~C~~C~~~f~~~--------~C~~C~k~f~~~~~L~~H~~~H 316 (344)
.|+.|+...... .|+.|+-..-..+.|.+=+..-
T Consensus 3 lCP~C~v~l~~~~rs~vEiD~CPrCrGVWLDrGELdKli~r~ 44 (88)
T COG3809 3 LCPICGVELVMSVRSGVEIDYCPRCRGVWLDRGELDKLIERS 44 (88)
T ss_pred ccCcCCceeeeeeecCceeeeCCccccEeecchhHHHHHHHh
Confidence 366666554332 2999998888888888876543
No 296
>PRK07218 replication factor A; Provisional
Probab=22.69 E-value=47 Score=31.05 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=12.1
Q ss_pred cCCCCCCCccCCCCCcccccc
Q psy14386 282 YPCPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 282 ~~C~~C~~~f~~~~C~~C~k~ 302 (344)
..|+.|++......|+.||+.
T Consensus 298 ~rCP~C~r~v~~~~C~~hG~v 318 (423)
T PRK07218 298 ERCPECGRVIQKGQCRSHGAV 318 (423)
T ss_pred ecCcCccccccCCcCCCCCCc
Confidence 346666665555556666653
No 297
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.18 E-value=32 Score=22.25 Aligned_cols=19 Identities=26% Similarity=0.326 Sum_probs=11.5
Q ss_pred HHHHhCCCCceeccccCcc
Q psy14386 242 HENRHMGVKPYSCEICGRG 260 (344)
Q Consensus 242 H~~~h~~~k~~~C~~C~k~ 260 (344)
|..++.+..++.|+-=+-.
T Consensus 15 ~~~I~~~~~~l~C~g~~~p 33 (62)
T COG4391 15 HETIEIGDLPLMCPGPEPP 33 (62)
T ss_pred ceEEEeCCeeEEcCCCCCC
Confidence 4555667777777654433
No 298
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=22.17 E-value=65 Score=17.29 Aligned_cols=8 Identities=38% Similarity=0.933 Sum_probs=3.6
Q ss_pred cccccccc
Q psy14386 321 PYSCELCN 328 (344)
Q Consensus 321 ~~~C~~C~ 328 (344)
-|.|..|+
T Consensus 15 ~Y~C~~c~ 22 (30)
T PF03107_consen 15 FYHCSECC 22 (30)
T ss_pred eEEeCCCC
Confidence 34444444
No 299
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=21.99 E-value=57 Score=30.02 Aligned_cols=20 Identities=30% Similarity=0.765 Sum_probs=9.8
Q ss_pred cCCCCCCCccCCC--CCccccc
Q psy14386 282 YPCPVCKKLFVSK--SCNICGQ 301 (344)
Q Consensus 282 ~~C~~C~~~f~~~--~C~~C~k 301 (344)
|.|..||..+..+ .|+.|+.
T Consensus 1 ~~c~~cg~~~~~~~g~cp~c~~ 22 (372)
T cd01121 1 YVCSECGYVSPKWLGKCPECGE 22 (372)
T ss_pred CCCCCCCCCCCCccEECcCCCC
Confidence 4455555444333 2666654
No 300
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=21.67 E-value=56 Score=21.46 Aligned_cols=19 Identities=37% Similarity=0.905 Sum_probs=11.2
Q ss_pred CCCCCCccCCCCCcccccc
Q psy14386 284 CPVCKKLFVSKSCNICGQS 302 (344)
Q Consensus 284 C~~C~~~f~~~~C~~C~k~ 302 (344)
|..|+..-....|+.||-.
T Consensus 8 C~~C~~i~~~~~Cp~Cgs~ 26 (64)
T PRK06393 8 CKKCKRLTPEKTCPVHGDE 26 (64)
T ss_pred HhhCCcccCCCcCCCCCCC
Confidence 5566555544456666654
No 301
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=21.49 E-value=31 Score=28.25 Aligned_cols=7 Identities=43% Similarity=1.507 Sum_probs=3.2
Q ss_pred eccccCc
Q psy14386 253 SCEICGR 259 (344)
Q Consensus 253 ~C~~C~k 259 (344)
.||.||.
T Consensus 16 ~CPvCg~ 22 (201)
T COG1779 16 DCPVCGG 22 (201)
T ss_pred cCCcccc
Confidence 4444443
No 302
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.29 E-value=18 Score=27.00 Aligned_cols=13 Identities=31% Similarity=0.644 Sum_probs=6.7
Q ss_pred cccccccchhccC
Q psy14386 321 PYSCELCNKAFVS 333 (344)
Q Consensus 321 ~~~C~~C~~~f~~ 333 (344)
|--|..||+.|..
T Consensus 68 psfchncgs~fpw 80 (160)
T COG4306 68 PSFCHNCGSRFPW 80 (160)
T ss_pred cchhhcCCCCCCc
Confidence 3445555555543
No 303
>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=21.28 E-value=36 Score=19.48 Aligned_cols=10 Identities=40% Similarity=1.012 Sum_probs=4.9
Q ss_pred Ccccccccch
Q psy14386 320 RPYSCELCNK 329 (344)
Q Consensus 320 k~~~C~~C~~ 329 (344)
+-|+|..||.
T Consensus 5 ~~YkC~~CGn 14 (36)
T PF06397_consen 5 EFYKCEHCGN 14 (36)
T ss_dssp EEEE-TTT--
T ss_pred cEEEccCCCC
Confidence 3578888875
No 304
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=21.19 E-value=53 Score=20.21 Aligned_cols=10 Identities=20% Similarity=0.777 Sum_probs=8.2
Q ss_pred cccccccchh
Q psy14386 321 PYSCELCNKA 330 (344)
Q Consensus 321 ~~~C~~C~~~ 330 (344)
.+.|..||++
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 7889999875
No 305
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=21.13 E-value=25 Score=21.54 Aligned_cols=9 Identities=33% Similarity=1.110 Sum_probs=5.7
Q ss_pred CCcCCCCCC
Q psy14386 280 RQYPCPVCK 288 (344)
Q Consensus 280 ~~~~C~~C~ 288 (344)
..|.|.+|.
T Consensus 14 ~R~~C~~C~ 22 (48)
T cd02341 14 TRYHCSECD 22 (48)
T ss_pred ceEECCCCC
Confidence 456676665
No 306
>KOG0402|consensus
Probab=20.95 E-value=32 Score=23.68 Aligned_cols=10 Identities=40% Similarity=1.095 Sum_probs=5.2
Q ss_pred CcCCCCCCCc
Q psy14386 281 QYPCPVCKKL 290 (344)
Q Consensus 281 ~~~C~~C~~~ 290 (344)
.|.|+.||+.
T Consensus 36 ky~CsfCGK~ 45 (92)
T KOG0402|consen 36 KYTCSFCGKK 45 (92)
T ss_pred hhhhhhcchh
Confidence 3555555543
No 307
>PRK12722 transcriptional activator FlhC; Provisional
Probab=20.71 E-value=56 Score=26.67 Aligned_cols=49 Identities=18% Similarity=0.321 Sum_probs=28.5
Q ss_pred CcccCChhHHHHHHhhhcCCCCCCcCCCCCCCccCCCCCcccccccCChhhHHHHHHHccCCCcccccccch
Q psy14386 258 GRGFITKGLCKSHQKIHSGNDNRQYPCPVCKKLFVSKSCNICGQSFTQFSPMAIHKRLHTGERPYSCELCNK 329 (344)
Q Consensus 258 ~k~f~~~~~L~~H~~~h~~~~~~~~~C~~C~~~f~~~~C~~C~k~f~~~~~L~~H~~~H~~~k~~~C~~C~~ 329 (344)
--.|.+...|.+.+...- -.... |..||-.|.... |.....|.|+.|.-
T Consensus 114 ~Ls~tRAw~LvRf~~s~~---L~l~~------------C~~Cgg~fv~~~--------~e~~~~f~CplC~~ 162 (187)
T PRK12722 114 LLSLTRAWTLVRFVDSGM---LQLSS------------CNCCGGHFVTHA--------HDPVGSFVCGLCQP 162 (187)
T ss_pred eecHHHHHHHHHHHhcCc---Eeecc------------CCCCCCCeeccc--------cccCCCCcCCCCCC
Confidence 456777788887765531 12333 555555554222 34446799999963
No 308
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=20.69 E-value=78 Score=22.35 Aligned_cols=15 Identities=20% Similarity=0.707 Sum_probs=8.9
Q ss_pred CcccccccCChhhHH
Q psy14386 296 CNICGQSFTQFSPMA 310 (344)
Q Consensus 296 C~~C~k~f~~~~~L~ 310 (344)
|+.||..|.+...+.
T Consensus 38 C~~CGe~y~~dev~~ 52 (89)
T TIGR03829 38 CSHCGMEYQDDTTVK 52 (89)
T ss_pred ccCCCcEeecHHHHH
Confidence 666776666554433
No 309
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.66 E-value=43 Score=25.34 Aligned_cols=11 Identities=27% Similarity=0.658 Sum_probs=6.9
Q ss_pred eeccccCcccCC
Q psy14386 252 YSCEICGRGFIT 263 (344)
Q Consensus 252 ~~C~~C~k~f~~ 263 (344)
+.| .||..|..
T Consensus 71 ~~C-~Cg~~~~~ 81 (124)
T PRK00762 71 IEC-ECGYEGVV 81 (124)
T ss_pred EEe-eCcCcccc
Confidence 667 67766554
No 310
>PF14369 zf-RING_3: zinc-finger
Probab=20.42 E-value=56 Score=18.46 Aligned_cols=7 Identities=29% Similarity=0.994 Sum_probs=2.7
Q ss_pred ccccchh
Q psy14386 324 CELCNKA 330 (344)
Q Consensus 324 C~~C~~~ 330 (344)
|+.|+-.
T Consensus 24 CP~C~~g 30 (35)
T PF14369_consen 24 CPRCHGG 30 (35)
T ss_pred CcCCCCc
Confidence 3333333
No 311
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=20.32 E-value=34 Score=21.83 Aligned_cols=8 Identities=25% Similarity=0.970 Sum_probs=3.8
Q ss_pred Cccccccc
Q psy14386 296 CNICGQSF 303 (344)
Q Consensus 296 C~~C~k~f 303 (344)
|+.|.+.|
T Consensus 47 CP~Ck~iy 54 (58)
T PF11238_consen 47 CPECKEIY 54 (58)
T ss_pred CcCHHHHH
Confidence 55554433
No 312
>PLN02748 tRNA dimethylallyltransferase
Probab=20.01 E-value=61 Score=30.82 Aligned_cols=24 Identities=25% Similarity=0.529 Sum_probs=20.1
Q ss_pred Ccccccccch-hccChHHHHHHhhh
Q psy14386 320 RPYSCELCNK-AFVSRSTLMVHKKK 343 (344)
Q Consensus 320 k~~~C~~C~~-~f~~~~~L~~H~~~ 343 (344)
+.|.|++|++ .+........|+++
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlks 441 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQG 441 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcc
Confidence 6688999997 79989889888854
Done!