Query psy1798
Match_columns 353
No_of_seqs 144 out of 1575
Neff 10.7
Searched_HMMs 46136
Date Fri Aug 16 19:15:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1798.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1798hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 9.6E-31 2.1E-35 236.4 7.2 238 112-352 603-936 (958)
2 KOG2462|consensus 99.9 2.8E-26 6.1E-31 183.7 6.1 136 141-344 129-264 (279)
3 KOG3608|consensus 99.9 2.3E-25 5E-30 183.0 10.7 195 115-351 178-380 (467)
4 KOG3608|consensus 99.9 4E-24 8.7E-29 175.7 11.7 198 115-353 135-352 (467)
5 KOG3623|consensus 99.9 8.8E-25 1.9E-29 195.0 4.8 120 13-163 209-330 (1007)
6 KOG2462|consensus 99.9 1.2E-23 2.7E-28 168.6 8.4 141 112-262 128-271 (279)
7 KOG1074|consensus 99.9 3.1E-24 6.7E-29 194.6 4.9 115 203-318 602-732 (958)
8 KOG3623|consensus 99.9 8.2E-23 1.8E-27 182.5 1.3 120 112-254 208-329 (1007)
9 KOG3576|consensus 99.6 7.7E-16 1.7E-20 117.6 2.5 115 204-351 115-240 (267)
10 KOG3576|consensus 99.5 2.4E-15 5.2E-20 114.9 3.4 124 40-232 115-238 (267)
11 PHA00733 hypothetical protein 99.2 6E-12 1.3E-16 93.3 3.5 102 218-349 24-125 (128)
12 PLN03086 PRLI-interacting fact 99.2 7.4E-11 1.6E-15 107.4 9.6 147 143-349 408-566 (567)
13 KOG3993|consensus 99.2 1.4E-11 3E-16 104.8 3.0 216 113-347 266-482 (500)
14 PLN03086 PRLI-interacting fact 99.1 1E-09 2.3E-14 100.0 10.2 107 115-254 454-560 (567)
15 PHA02768 hypothetical protein; 99.0 2.3E-10 5E-15 69.3 1.6 44 295-340 5-48 (55)
16 PHA00733 hypothetical protein 98.9 2.3E-09 5.1E-14 79.5 5.3 82 204-320 38-124 (128)
17 PHA02768 hypothetical protein; 98.7 4.8E-09 1E-13 63.6 2.0 44 14-59 5-48 (55)
18 PF13465 zf-H2C2_2: Zinc-finge 98.7 1E-08 2.2E-13 53.1 2.1 26 310-335 1-26 (26)
19 KOG3993|consensus 98.5 1.2E-08 2.6E-13 87.3 -0.7 112 14-138 267-380 (500)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 8.2E-08 1.8E-12 49.7 1.7 26 221-246 1-26 (26)
21 PHA00616 hypothetical protein 98.5 5E-08 1.1E-12 56.2 1.0 34 295-328 1-34 (44)
22 PHA00732 hypothetical protein 98.4 2E-07 4.4E-12 62.5 2.8 48 295-348 1-49 (79)
23 PHA00616 hypothetical protein 98.4 2.3E-07 5E-12 53.5 1.8 30 323-352 1-30 (44)
24 PF05605 zf-Di19: Drought indu 98.3 1.5E-06 3.2E-11 54.2 4.3 51 295-348 2-54 (54)
25 PHA00732 hypothetical protein 98.1 3.5E-06 7.6E-11 56.5 3.1 46 14-65 1-47 (79)
26 PF00096 zf-C2H2: Zinc finger, 97.9 4.5E-06 9.7E-11 41.9 1.3 22 324-345 1-22 (23)
27 PF00096 zf-C2H2: Zinc finger, 97.9 7.3E-06 1.6E-10 41.1 1.7 23 296-318 1-23 (23)
28 PF13894 zf-C2H2_4: C2H2-type 97.9 9.3E-06 2E-10 41.2 1.7 24 324-347 1-24 (24)
29 PF05605 zf-Di19: Drought indu 97.8 2.6E-05 5.7E-10 48.5 3.1 50 14-66 2-53 (54)
30 PF12756 zf-C2H2_2: C2H2 type 97.7 1.9E-05 4.1E-10 56.5 2.0 24 323-346 50-73 (100)
31 PF13912 zf-C2H2_6: C2H2-type 97.7 1.8E-05 3.9E-10 41.4 1.2 26 323-348 1-26 (27)
32 PF09237 GAGA: GAGA factor; I 97.6 2.1E-05 4.5E-10 46.3 0.8 33 319-351 20-52 (54)
33 PF13894 zf-C2H2_4: C2H2-type 97.6 4.8E-05 1E-09 38.4 2.1 24 296-319 1-24 (24)
34 KOG1146|consensus 97.5 5.6E-05 1.2E-09 74.6 3.0 101 17-136 439-540 (1406)
35 PF13912 zf-C2H2_6: C2H2-type 97.4 4.9E-05 1.1E-09 39.7 0.8 25 295-319 1-25 (27)
36 PF13909 zf-H2C2_5: C2H2-type 97.3 0.00012 2.7E-09 36.9 1.4 24 324-348 1-24 (24)
37 COG5189 SFP1 Putative transcri 97.2 0.00015 3.3E-09 60.4 1.5 36 40-75 347-384 (423)
38 COG5189 SFP1 Putative transcri 97.1 0.00022 4.7E-09 59.5 1.9 52 12-63 347-419 (423)
39 smart00355 ZnF_C2H2 zinc finge 96.9 0.00076 1.7E-08 34.5 2.3 22 324-345 1-22 (26)
40 PF12756 zf-C2H2_2: C2H2 type 96.9 0.0005 1.1E-08 49.0 2.1 24 114-137 50-73 (100)
41 PF09237 GAGA: GAGA factor; I 96.9 0.00096 2.1E-08 39.4 2.6 34 9-42 19-52 (54)
42 smart00355 ZnF_C2H2 zinc finge 96.8 0.0012 2.5E-08 33.8 2.2 24 296-319 1-24 (26)
43 PRK04860 hypothetical protein; 96.6 0.0015 3.3E-08 50.5 2.7 40 294-337 118-157 (160)
44 PF12874 zf-met: Zinc-finger o 96.6 0.00095 2.1E-08 34.0 1.1 22 324-345 1-22 (25)
45 PF13909 zf-H2C2_5: C2H2-type 96.6 0.0017 3.7E-08 32.6 1.8 24 296-320 1-24 (24)
46 PF12874 zf-met: Zinc-finger o 96.6 0.001 2.2E-08 33.9 0.9 23 296-318 1-23 (25)
47 PF12171 zf-C2H2_jaz: Zinc-fin 96.2 0.0013 2.7E-08 34.2 0.1 22 324-345 2-23 (27)
48 KOG2785|consensus 96.1 0.013 2.9E-07 50.7 5.8 53 294-346 165-243 (390)
49 PRK04860 hypothetical protein; 96.1 0.0043 9.4E-08 48.0 2.6 41 13-57 118-158 (160)
50 KOG2231|consensus 95.9 0.02 4.2E-07 54.1 6.2 66 175-259 100-174 (669)
51 PF12171 zf-C2H2_jaz: Zinc-fin 95.6 0.0062 1.3E-07 31.6 1.1 22 15-36 2-23 (27)
52 KOG2231|consensus 95.3 0.031 6.7E-07 52.8 5.4 48 115-166 183-236 (669)
53 KOG1146|consensus 95.1 0.0034 7.4E-08 62.6 -1.6 141 13-161 464-637 (1406)
54 PF13913 zf-C2HC_2: zinc-finge 94.2 0.039 8.4E-07 28.0 1.7 20 296-316 3-22 (25)
55 KOG2482|consensus 94.0 0.14 3.1E-06 43.7 5.6 87 128-228 129-217 (423)
56 KOG2482|consensus 93.8 0.09 1.9E-06 44.9 4.2 52 13-64 143-217 (423)
57 smart00451 ZnF_U1 U1-like zinc 93.8 0.035 7.5E-07 30.7 1.3 23 323-345 3-25 (35)
58 PF13913 zf-C2HC_2: zinc-finge 93.8 0.052 1.1E-06 27.5 1.8 21 324-345 3-23 (25)
59 cd00350 rubredoxin_like Rubred 93.7 0.058 1.3E-06 29.4 2.0 24 296-331 2-25 (33)
60 COG5236 Uncharacterized conser 93.3 0.098 2.1E-06 44.7 3.5 136 14-169 151-308 (493)
61 smart00451 ZnF_U1 U1-like zinc 93.0 0.082 1.8E-06 29.2 2.0 23 114-136 3-25 (35)
62 PF12013 DUF3505: Protein of u 92.6 0.25 5.4E-06 35.8 4.5 55 293-348 9-109 (109)
63 KOG2785|consensus 92.3 0.25 5.4E-06 43.1 4.7 25 112-136 66-90 (390)
64 TIGR00622 ssl1 transcription f 91.1 0.35 7.5E-06 34.7 3.7 26 294-319 80-105 (112)
65 COG5048 FOG: Zn-finger [Genera 90.5 0.063 1.4E-06 49.5 -0.7 60 294-353 288-353 (467)
66 KOG4173|consensus 90.1 0.14 3.1E-06 40.4 1.1 51 11-64 76-128 (253)
67 COG2888 Predicted Zn-ribbon RN 90.1 0.34 7.4E-06 29.9 2.5 50 174-242 9-58 (61)
68 cd00729 rubredoxin_SM Rubredox 90.1 0.26 5.7E-06 27.0 1.9 24 296-331 3-26 (34)
69 KOG2893|consensus 90.0 0.073 1.6E-06 42.9 -0.5 50 115-168 11-60 (341)
70 COG5236 Uncharacterized conser 89.9 0.3 6.5E-06 41.8 3.0 24 143-166 152-177 (493)
71 COG4049 Uncharacterized protei 89.7 0.16 3.5E-06 30.7 0.9 32 7-38 10-41 (65)
72 COG2888 Predicted Zn-ribbon RN 89.0 0.41 8.9E-06 29.6 2.3 33 295-332 27-59 (61)
73 PRK14890 putative Zn-ribbon RN 88.6 0.56 1.2E-05 29.1 2.7 33 294-332 24-57 (59)
74 COG5048 FOG: Zn-finger [Genera 88.3 0.24 5.1E-06 45.6 1.5 52 190-241 402-453 (467)
75 COG4049 Uncharacterized protei 86.9 0.32 6.9E-06 29.4 0.9 29 290-318 12-40 (65)
76 KOG2893|consensus 86.5 0.18 4E-06 40.7 -0.3 47 298-348 13-59 (341)
77 TIGR00622 ssl1 transcription f 86.3 2.4 5.2E-05 30.5 5.2 44 116-161 57-100 (112)
78 PF10571 UPF0547: Uncharacteri 84.2 0.61 1.3E-05 23.8 1.0 11 207-217 15-25 (26)
79 PF02892 zf-BED: BED zinc fing 83.2 0.94 2E-05 26.6 1.8 25 322-346 15-43 (45)
80 PF13719 zinc_ribbon_5: zinc-r 82.9 0.78 1.7E-05 25.7 1.3 13 294-306 24-36 (37)
81 PF09986 DUF2225: Uncharacteri 82.8 0.62 1.3E-05 38.3 1.2 44 12-55 3-61 (214)
82 smart00659 RPOLCX RNA polymera 82.6 1.1 2.3E-05 26.3 1.8 25 296-331 3-27 (44)
83 PHA00626 hypothetical protein 81.1 1.3 2.8E-05 27.0 1.8 15 294-308 22-36 (59)
84 smart00834 CxxC_CXXC_SSSS Puta 80.5 0.88 1.9E-05 26.0 1.0 31 14-51 5-35 (41)
85 PRK00398 rpoP DNA-directed RNA 80.5 0.98 2.1E-05 26.7 1.2 32 13-54 2-33 (46)
86 TIGR02605 CxxC_CxxC_SSSS putat 80.5 0.75 1.6E-05 28.1 0.7 30 295-331 5-34 (52)
87 PF09538 FYDLN_acid: Protein o 80.1 1.3 2.9E-05 31.8 2.0 31 206-247 9-39 (108)
88 PF13717 zinc_ribbon_4: zinc-r 80.0 1.3 2.7E-05 24.7 1.4 13 294-306 24-36 (36)
89 TIGR02098 MJ0042_CXXC MJ0042 f 79.3 0.93 2E-05 25.5 0.8 12 295-306 25-36 (38)
90 PF09538 FYDLN_acid: Protein o 79.3 1.6 3.4E-05 31.4 2.1 34 12-56 7-40 (108)
91 PF06524 NOA36: NOA36 protein; 79.1 0.58 1.3E-05 38.5 -0.1 40 296-340 183-226 (314)
92 COG1996 RPC10 DNA-directed RNA 78.7 1.2 2.5E-05 26.7 1.1 29 294-332 5-33 (49)
93 KOG1842|consensus 78.5 1.5 3.2E-05 39.3 2.1 22 115-136 16-37 (505)
94 PF15269 zf-C2H2_7: Zinc-finge 77.7 1.4 3E-05 25.4 1.1 22 43-64 21-42 (54)
95 PF09986 DUF2225: Uncharacteri 77.5 0.44 9.6E-06 39.1 -1.3 43 294-336 4-61 (214)
96 smart00614 ZnF_BED BED zinc fi 76.1 2.4 5.1E-05 25.6 2.0 21 296-316 19-44 (50)
97 PF12907 zf-met2: Zinc-binding 74.1 1.8 3.8E-05 24.7 1.0 25 325-349 3-30 (40)
98 KOG2186|consensus 74.0 2.1 4.5E-05 35.3 1.7 48 14-64 3-50 (276)
99 COG1592 Rubrerythrin [Energy p 73.3 2.8 6E-05 32.7 2.2 24 295-331 134-157 (166)
100 PRK00464 nrdR transcriptional 72.1 1.5 3.2E-05 33.8 0.4 45 15-62 1-48 (154)
101 PF03604 DNA_RNApol_7kD: DNA d 71.6 4.1 9E-05 22.0 2.0 27 15-52 1-27 (32)
102 PF09723 Zn-ribbon_8: Zinc rib 71.4 0.94 2E-05 26.2 -0.6 7 297-303 28-34 (42)
103 PF00301 Rubredoxin: Rubredoxi 71.2 4.1 8.9E-05 24.2 2.1 38 14-51 1-43 (47)
104 TIGR00373 conserved hypothetic 69.5 3.4 7.3E-05 32.2 1.9 42 290-340 104-147 (158)
105 KOG1280|consensus 69.5 2.6 5.7E-05 36.5 1.4 39 142-182 79-117 (381)
106 KOG2807|consensus 69.1 6.2 0.00013 34.0 3.4 19 42-60 290-308 (378)
107 KOG4118|consensus 68.9 2.9 6.4E-05 26.3 1.2 30 324-353 39-68 (74)
108 PRK09678 DNA-binding transcrip 68.6 1.9 4.1E-05 28.3 0.3 43 14-58 1-45 (72)
109 PF05443 ROS_MUCR: ROS/MUCR tr 68.3 2.4 5.2E-05 31.7 0.8 22 296-320 73-94 (132)
110 PF12013 DUF3505: Protein of u 68.2 4 8.8E-05 29.4 2.0 26 295-320 80-109 (109)
111 smart00531 TFIIE Transcription 67.5 6.2 0.00013 30.3 3.0 14 42-55 99-112 (147)
112 TIGR02300 FYDLN_acid conserved 65.6 5.7 0.00012 29.2 2.3 37 12-59 7-43 (129)
113 cd00730 rubredoxin Rubredoxin; 65.2 3.8 8.3E-05 24.7 1.1 14 14-27 1-14 (50)
114 TIGR02300 FYDLN_acid conserved 65.0 5 0.00011 29.4 1.9 31 207-248 10-40 (129)
115 PRK06266 transcription initiat 64.7 4.4 9.6E-05 32.2 1.8 34 291-333 113-146 (178)
116 TIGR00373 conserved hypothetic 64.4 4.8 0.0001 31.3 1.9 16 43-58 110-125 (158)
117 smart00734 ZnF_Rad18 Rad18-lik 64.1 5.9 0.00013 20.1 1.6 19 325-344 3-21 (26)
118 KOG2186|consensus 62.8 4 8.6E-05 33.7 1.2 45 207-254 4-48 (276)
119 PF04959 ARS2: Arsenite-resist 62.7 5 0.00011 32.8 1.7 30 140-169 75-104 (214)
120 KOG4173|consensus 62.4 2.8 6E-05 33.4 0.2 54 297-350 108-173 (253)
121 PF05443 ROS_MUCR: ROS/MUCR tr 61.5 3.9 8.4E-05 30.6 0.8 23 326-351 75-97 (132)
122 PF07975 C1_4: TFIIH C1-like d 60.8 4.3 9.3E-05 24.6 0.8 22 140-161 19-40 (51)
123 PRK06266 transcription initiat 60.3 6 0.00013 31.4 1.8 16 43-58 118-133 (178)
124 smart00531 TFIIE Transcription 60.2 11 0.00023 29.0 3.1 39 291-333 95-133 (147)
125 PF04959 ARS2: Arsenite-resist 59.8 5 0.00011 32.8 1.3 26 323-348 77-102 (214)
126 KOG3408|consensus 59.6 5.8 0.00013 28.7 1.4 31 6-36 49-79 (129)
127 COG1592 Rubrerythrin [Energy p 59.6 4.9 0.00011 31.3 1.1 12 174-185 134-145 (166)
128 PF02176 zf-TRAF: TRAF-type zi 57.7 6.8 0.00015 24.5 1.4 40 294-334 8-53 (60)
129 COG5188 PRP9 Splicing factor 3 57.2 21 0.00046 31.2 4.6 27 290-316 369-396 (470)
130 COG5151 SSL1 RNA polymerase II 57.1 13 0.00028 31.8 3.3 25 294-318 387-411 (421)
131 PF07282 OrfB_Zn_ribbon: Putat 57.0 11 0.00024 24.4 2.4 32 12-53 26-57 (69)
132 PTZ00255 60S ribosomal protein 55.1 10 0.00023 26.1 2.0 14 294-307 53-66 (90)
133 PF06524 NOA36: NOA36 protein; 55.0 7.2 0.00016 32.4 1.4 21 140-160 207-227 (314)
134 PRK04023 DNA polymerase II lar 54.8 9.9 0.00021 38.3 2.5 12 296-307 664-675 (1121)
135 PF08274 PhnA_Zn_Ribbon: PhnA 54.7 6.6 0.00014 20.8 0.8 25 16-51 4-28 (30)
136 TIGR01206 lysW lysine biosynth 54.3 7.8 0.00017 23.8 1.2 32 14-53 2-33 (54)
137 COG1198 PriA Primosomal protei 54.2 8.9 0.00019 37.7 2.2 10 206-215 475-484 (730)
138 PF05290 Baculo_IE-1: Baculovi 54.2 3.6 7.8E-05 30.4 -0.3 21 230-250 76-96 (140)
139 KOG2807|consensus 54.0 15 0.00032 31.8 3.1 19 143-161 346-364 (378)
140 COG4957 Predicted transcriptio 53.6 7.7 0.00017 28.7 1.2 23 296-321 77-99 (148)
141 PRK03824 hypA hydrogenase nick 52.9 8.5 0.00018 29.0 1.5 40 12-51 68-116 (135)
142 KOG2071|consensus 52.7 20 0.00044 33.8 4.1 27 204-230 416-442 (579)
143 TIGR00280 L37a ribosomal prote 52.4 11 0.00024 26.0 1.8 14 294-307 52-65 (91)
144 PF14353 CpXC: CpXC protein 51.0 2.1 4.6E-05 31.9 -2.1 49 15-63 2-59 (128)
145 PF01780 Ribosomal_L37ae: Ribo 49.9 7.2 0.00016 26.8 0.6 13 295-307 53-65 (90)
146 KOG2272|consensus 49.4 6.2 0.00014 32.5 0.3 52 43-94 100-151 (332)
147 PRK04023 DNA polymerase II lar 48.9 17 0.00036 36.8 3.0 11 234-244 663-673 (1121)
148 PRK03976 rpl37ae 50S ribosomal 48.5 13 0.00029 25.5 1.7 14 294-307 53-66 (90)
149 COG1198 PriA Primosomal protei 48.5 8.7 0.00019 37.8 1.1 13 43-55 436-448 (730)
150 PF01363 FYVE: FYVE zinc finge 48.2 12 0.00026 24.2 1.5 9 297-305 11-19 (69)
151 COG3357 Predicted transcriptio 47.8 11 0.00025 25.7 1.3 14 141-154 57-70 (97)
152 PF07649 C1_3: C1-like domain; 47.7 11 0.00024 19.7 1.0 21 104-124 5-25 (30)
153 PF05191 ADK_lid: Adenylate ki 47.3 5.9 0.00013 22.0 -0.1 8 324-331 22-29 (36)
154 KOG3362|consensus 46.5 11 0.00023 28.3 1.1 23 42-64 129-151 (156)
155 KOG1280|consensus 46.0 19 0.00042 31.4 2.6 41 290-330 74-116 (381)
156 smart00440 ZnF_C2C2 C2C2 Zinc 45.5 19 0.00041 20.5 1.8 11 296-306 29-39 (40)
157 PRK14714 DNA polymerase II lar 45.4 25 0.00053 36.7 3.7 21 235-264 668-688 (1337)
158 PRK14714 DNA polymerase II lar 44.0 15 0.00032 38.1 2.0 8 175-182 668-675 (1337)
159 PF07800 DUF1644: Protein of u 43.9 87 0.0019 24.2 5.5 54 114-168 80-134 (162)
160 PF09963 DUF2197: Uncharacteri 43.7 6.2 0.00013 24.4 -0.4 13 292-304 28-40 (56)
161 COG1997 RPL43A Ribosomal prote 43.7 21 0.00047 24.2 2.1 13 295-307 53-65 (89)
162 COG5112 UFD2 U1-like Zn-finger 43.2 10 0.00023 26.6 0.6 34 3-36 44-77 (126)
163 PRK14873 primosome assembly pr 42.2 19 0.00041 35.3 2.3 9 115-123 393-401 (665)
164 KOG3507|consensus 41.5 27 0.00058 21.7 2.1 36 9-55 15-50 (62)
165 COG4640 Predicted membrane pro 41.3 18 0.0004 32.1 1.9 25 290-314 10-34 (465)
166 COG0068 HypF Hydrogenase matur 40.5 4.3 9.3E-05 39.0 -2.1 28 298-331 154-181 (750)
167 COG3091 SprT Zn-dependent meta 40.4 13 0.00027 28.4 0.7 36 292-332 114-149 (156)
168 PF13878 zf-C2H2_3: zinc-finge 39.8 31 0.00067 19.8 2.1 9 208-216 15-23 (41)
169 PF07754 DUF1610: Domain of un 39.7 25 0.00054 17.5 1.5 7 43-49 17-23 (24)
170 PF14446 Prok-RING_1: Prokaryo 39.0 30 0.00064 21.3 2.0 13 293-305 19-31 (54)
171 cd00065 FYVE FYVE domain; Zinc 38.6 23 0.0005 21.7 1.6 13 295-307 18-30 (57)
172 PF03107 C1_2: C1 domain; Int 37.4 34 0.00074 17.9 1.9 9 295-303 15-23 (30)
173 KOG2593|consensus 37.1 30 0.00065 31.3 2.6 21 39-59 125-145 (436)
174 COG2331 Uncharacterized protei 36.2 16 0.00034 24.1 0.5 31 295-333 12-43 (82)
175 KOG2593|consensus 35.6 25 0.00053 31.9 1.8 38 290-330 123-160 (436)
176 KOG3408|consensus 35.6 27 0.00059 25.4 1.7 27 110-136 53-79 (129)
177 smart00154 ZnF_AN1 AN1-like Zi 35.4 26 0.00056 19.8 1.3 12 114-125 12-23 (39)
178 PF10013 DUF2256: Uncharacteri 35.2 21 0.00045 20.6 0.9 14 325-338 10-23 (42)
179 PF09845 DUF2072: Zn-ribbon co 35.1 24 0.00053 26.2 1.5 12 175-186 2-13 (131)
180 KOG4167|consensus 33.9 8.3 0.00018 37.1 -1.4 25 295-319 792-816 (907)
181 KOG4124|consensus 33.8 14 0.0003 32.3 -0.0 53 11-63 346-419 (442)
182 PRK04351 hypothetical protein; 33.6 27 0.00058 26.9 1.5 33 295-335 112-144 (149)
183 PRK12496 hypothetical protein; 33.6 26 0.00056 27.5 1.5 8 297-304 145-152 (164)
184 TIGR00595 priA primosomal prot 33.4 32 0.00069 32.6 2.3 8 44-51 215-222 (505)
185 COG1327 Predicted transcriptio 32.9 19 0.00041 27.4 0.6 18 41-58 27-44 (156)
186 PF13451 zf-trcl: Probable zin 32.7 24 0.00051 21.2 0.9 15 142-156 4-18 (49)
187 TIGR00595 priA primosomal prot 32.6 30 0.00066 32.7 2.1 9 142-150 240-248 (505)
188 PF08790 zf-LYAR: LYAR-type C2 32.0 10 0.00022 19.7 -0.7 17 326-343 3-19 (28)
189 COG4888 Uncharacterized Zn rib 31.9 19 0.0004 25.2 0.4 40 12-55 20-59 (104)
190 COG1571 Predicted DNA-binding 31.8 26 0.00057 31.8 1.4 14 206-219 367-380 (421)
191 KOG4727|consensus 31.5 26 0.00056 27.2 1.1 25 112-136 73-97 (193)
192 PF04780 DUF629: Protein of un 31.3 31 0.00066 32.0 1.8 34 287-320 49-83 (466)
193 PF01096 TFIIS_C: Transcriptio 31.0 24 0.00052 19.9 0.7 10 296-305 29-38 (39)
194 smart00064 FYVE Protein presen 30.5 35 0.00076 21.9 1.5 9 298-306 13-21 (68)
195 KOG0978|consensus 30.2 29 0.00063 33.8 1.5 50 13-62 642-698 (698)
196 TIGR00244 transcriptional regu 30.1 24 0.00051 26.9 0.7 19 41-59 27-45 (147)
197 PRK14873 primosome assembly pr 30.0 30 0.00065 34.0 1.6 10 206-215 422-431 (665)
198 PRK12380 hydrogenase nickel in 29.7 26 0.00057 25.4 0.9 25 295-331 70-94 (113)
199 PRK00432 30S ribosomal protein 29.4 43 0.00094 20.2 1.7 9 296-304 38-46 (50)
200 PF12773 DZR: Double zinc ribb 29.4 50 0.0011 19.6 2.0 11 207-217 13-23 (50)
201 KOG2907|consensus 29.3 35 0.00076 24.5 1.4 12 296-307 103-114 (116)
202 PF06220 zf-U1: U1 zinc finger 29.2 41 0.00088 18.9 1.4 12 323-334 3-14 (38)
203 KOG4167|consensus 28.9 14 0.0003 35.7 -0.8 25 42-66 792-816 (907)
204 PF01155 HypA: Hydrogenase exp 28.7 30 0.00065 25.1 1.1 27 13-51 69-95 (113)
205 TIGR03826 YvyF flagellar opero 28.0 52 0.0011 24.9 2.2 11 235-245 82-92 (137)
206 PF10276 zf-CHCC: Zinc-finger 27.8 29 0.00063 19.8 0.7 20 286-305 20-39 (40)
207 COG4530 Uncharacterized protei 27.7 36 0.00078 24.2 1.2 13 204-216 24-36 (129)
208 KOG0402|consensus 27.3 38 0.00081 22.8 1.2 12 295-306 54-65 (92)
209 PF15227 zf-C3HC4_4: zinc fing 27.0 19 0.00042 20.7 -0.2 6 296-301 37-42 (42)
210 PF13453 zf-TFIIB: Transcripti 26.8 32 0.00069 19.6 0.7 18 42-59 19-36 (41)
211 PF04780 DUF629: Protein of un 26.5 49 0.0011 30.7 2.2 29 322-350 56-84 (466)
212 COG1773 Rubredoxin [Energy pro 26.5 28 0.00061 21.5 0.5 17 14-30 3-19 (55)
213 COG0068 HypF Hydrogenase matur 26.3 27 0.00058 33.9 0.6 30 115-150 152-181 (750)
214 COG4896 Uncharacterized protei 26.2 19 0.00041 22.5 -0.3 16 292-307 28-43 (68)
215 PF12760 Zn_Tnp_IS1595: Transp 26.2 63 0.0014 18.9 2.0 8 235-242 19-26 (46)
216 PF14311 DUF4379: Domain of un 26.1 68 0.0015 19.6 2.2 14 14-27 28-41 (55)
217 TIGR00100 hypA hydrogenase nic 26.1 34 0.00074 24.9 1.0 26 294-331 69-94 (115)
218 PF13248 zf-ribbon_3: zinc-rib 25.9 41 0.00089 16.9 1.0 9 175-183 3-11 (26)
219 COG5151 SSL1 RNA polymerase II 25.9 56 0.0012 28.1 2.3 24 142-166 388-411 (421)
220 PF04216 FdhE: Protein involve 25.5 11 0.00023 32.8 -2.1 8 44-51 174-181 (290)
221 COG1571 Predicted DNA-binding 25.4 46 0.00099 30.3 1.8 30 16-56 352-381 (421)
222 KOG0717|consensus 25.4 32 0.00069 31.5 0.8 22 324-345 293-314 (508)
223 PRK00564 hypA hydrogenase nick 24.9 40 0.00087 24.7 1.2 15 294-308 70-84 (117)
224 PF04810 zf-Sec23_Sec24: Sec23 24.9 33 0.00072 19.4 0.6 32 14-51 2-33 (40)
225 smart00731 SprT SprT homologue 24.8 34 0.00075 26.1 0.8 34 294-334 111-144 (146)
226 KOG2636|consensus 24.5 40 0.00087 30.6 1.3 24 113-136 400-424 (497)
227 PF10263 SprT-like: SprT-like 24.3 24 0.00051 27.2 -0.2 33 294-334 122-154 (157)
228 CHL00174 accD acetyl-CoA carbo 24.1 50 0.0011 28.6 1.7 38 9-55 33-70 (296)
229 COG1998 RPS31 Ribosomal protei 23.9 41 0.00089 20.1 0.8 9 234-242 37-45 (51)
230 PF09855 DUF2082: Nucleic-acid 23.7 67 0.0014 20.6 1.8 11 294-304 35-45 (64)
231 TIGR00686 phnA alkylphosphonat 23.5 51 0.0011 23.6 1.3 29 16-55 4-32 (109)
232 PF14369 zf-RING_3: zinc-finge 23.5 70 0.0015 17.6 1.7 10 144-153 23-32 (35)
233 PF04606 Ogr_Delta: Ogr/Delta- 23.0 18 0.0004 21.4 -0.8 40 16-57 1-42 (47)
234 KOG2636|consensus 22.8 57 0.0012 29.8 1.8 27 290-316 396-423 (497)
235 PRK03681 hypA hydrogenase nick 22.8 43 0.00093 24.4 0.9 13 295-307 70-82 (114)
236 PF08209 Sgf11: Sgf11 (transcr 22.7 66 0.0014 17.5 1.4 19 325-344 6-24 (33)
237 PF05129 Elf1: Transcription e 22.2 15 0.00032 24.9 -1.4 40 12-55 20-59 (81)
238 PF11023 DUF2614: Protein of u 22.1 51 0.0011 23.7 1.2 17 294-310 84-100 (114)
239 KOG4727|consensus 21.8 41 0.00089 26.1 0.7 20 296-315 76-95 (193)
240 TIGR01384 TFS_arch transcripti 21.6 76 0.0017 22.4 2.1 13 295-307 16-28 (104)
241 COG3677 Transposase and inacti 21.4 37 0.00079 25.4 0.4 12 234-245 53-64 (129)
242 PRK05452 anaerobic nitric oxid 20.8 65 0.0014 30.3 2.0 41 10-51 421-467 (479)
243 PF14787 zf-CCHC_5: GAG-polypr 20.7 47 0.001 18.4 0.6 14 325-338 4-17 (36)
244 COG4338 Uncharacterized protei 20.7 35 0.00076 20.2 0.1 14 325-338 14-27 (54)
245 TIGR00515 accD acetyl-CoA carb 20.7 79 0.0017 27.3 2.3 37 10-55 22-58 (285)
246 PF04423 Rad50_zn_hook: Rad50 20.6 40 0.00086 20.6 0.3 19 325-343 22-42 (54)
247 PF15135 UPF0515: Uncharacteri 20.6 64 0.0014 26.9 1.6 69 219-310 92-170 (278)
248 PF03811 Zn_Tnp_IS1: InsA N-te 20.4 21 0.00046 19.8 -0.8 16 314-329 20-35 (36)
249 PF06397 Desulfoferrod_N: Desu 20.4 46 0.001 18.5 0.5 12 294-305 5-16 (36)
250 PF01428 zf-AN1: AN1-like Zinc 20.3 42 0.00091 19.4 0.4 15 294-308 12-26 (43)
No 1
>KOG1074|consensus
Probab=99.96 E-value=9.6e-31 Score=236.42 Aligned_cols=238 Identities=21% Similarity=0.301 Sum_probs=165.1
Q ss_pred CCceecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHHHhcCCccc-cCcccCc---ccccccccc
Q psy1798 112 PGWFQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIERIHMPQFV-EDVRHCV---HCNKEMHNL 187 (353)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~-~~~~~c~---~c~~~~~~~ 187 (353)
..+..|-+|.++..-++.|..|.++|++++||+|.+||+.|.++.+|+.| ..+|..... .-.+.|+ +|.+.|.+
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH-~~vHka~p~~R~q~ScP~~~ic~~kftn- 680 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAH-MSVHKAKPPARVQFSCPSTFICQKKFTN- 680 (958)
T ss_pred CCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhc-ccccccCccccccccCCchhhhcccccc-
Confidence 56799999999999999999999999999999999999999999999999 577754322 2467899 99999998
Q ss_pred chHHHHHhhhcCCCC-----------CCcccccccchhhccCHHHHHHHHHhhh----------------CCC----CcC
Q psy1798 188 DESFLLKHCKYCPSL-----------RTVGFQCYLCLYITRQSAHMRQHLRKHT----------------GRR----PFP 236 (353)
Q Consensus 188 ~~~~l~~h~~~~~~~-----------~~~~~~C~~C~~~f~~~~~l~~H~~~h~----------------~~~----~~~ 236 (353)
...|.+|++.|.+. ....-+|..|.+.|...-.+..++..|. ++. +..
T Consensus 681 -~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~ 759 (958)
T KOG1074|consen 681 -AVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPP 759 (958)
T ss_pred -cccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcc
Confidence 88999998887621 1122579999999977777776766552 222 355
Q ss_pred CCCCCccccchhHHHHhh------------------------------hh-ccccCCCCcCCCCcc---ccccccc----
Q psy1798 237 CDMCEYSAAQKWNLKMHM------------------------------HF-LCHHCNRFGSRDIGD---LIEHSTQ---- 278 (353)
Q Consensus 237 C~~C~~~f~~~~~l~~H~------------------------------~~-~C~~C~~~~~~~~~~---l~~h~~~---- 278 (353)
+..|+..+.....+..+- +. .+..++..-....-. |......
T Consensus 760 e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~e 839 (958)
T KOG1074|consen 760 ENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNE 839 (958)
T ss_pred ccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccc
Confidence 666776665544332221 11 222222211111100 0000000
Q ss_pred cccccc-----------hhccc----------CCCc--ceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccC
Q psy1798 279 CSVMGI-----------AYLND----------RRNV--IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQ 335 (353)
Q Consensus 279 ~~~~~~-----------~~~~~----------~~~~--~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 335 (353)
....+. .++.. .... ....|.+||+.|...++|+.|+++|++++||.|.+|++.|+.
T Consensus 840 g~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFtt 919 (958)
T KOG1074|consen 840 GLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTT 919 (958)
T ss_pred ccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhh
Confidence 000000 00000 0000 126799999999999999999999999999999999999999
Q ss_pred chHHHHHHhhhcCCCCC
Q psy1798 336 NSSIHFHMKLKHNMPFI 352 (353)
Q Consensus 336 ~~~l~~H~~~~h~~~~~ 352 (353)
+.+|.+||.+|+.+.|+
T Consensus 920 rgnLKvHMgtH~w~q~~ 936 (958)
T KOG1074|consen 920 RGNLKVHMGTHMWVQPP 936 (958)
T ss_pred hhhhhhhhccccccCCC
Confidence 99999999999887664
No 2
>KOG2462|consensus
Probab=99.93 E-value=2.8e-26 Score=183.71 Aligned_cols=136 Identities=23% Similarity=0.499 Sum_probs=113.7
Q ss_pred CCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccchHHHHHhhhcCCCCCCcccccccchhhccCHH
Q psy1798 141 KPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDESFLLKHCKYCPSLRTVGFQCYLCLYITRQSA 220 (353)
Q Consensus 141 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~ 220 (353)
..|+|++||+.+.+.++|.+| ++.|-..+. .+.+.|..|++.|.+-.
T Consensus 129 ~r~~c~eCgk~ysT~snLsrH-kQ~H~~~~s--------------------------------~ka~~C~~C~K~YvSmp 175 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRH-KQTHRSLDS--------------------------------KKAFSCKYCGKVYVSMP 175 (279)
T ss_pred Cceeccccccccccccccchh-hcccccccc--------------------------------cccccCCCCCceeeehH
Confidence 348888888888888888888 777755322 45577888888888888
Q ss_pred HHHHHHHhhhCCCCcCCCCCCccccchhHHHHhhhhccccCCCCcCCCCccccccccccccccchhcccCCCcceeeCCC
Q psy1798 221 HMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCNRFGSRDIGDLIEHSTQCSVMGIAYLNDRRNVIMYRCFV 300 (353)
Q Consensus 221 ~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~~~C~~ 300 (353)
.|+.|+++|+ -+.+|.+|||.|..+|.|+.|++ .|++|+||.|+.
T Consensus 176 ALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiR---------------------------------THTGEKPF~C~h 220 (279)
T KOG2462|consen 176 ALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIR---------------------------------THTGEKPFSCPH 220 (279)
T ss_pred HHhhHhhccC--CCcccccccccccchHHhhcccc---------------------------------cccCCCCccCCc
Confidence 8899998886 57889999999999888888863 289999999999
Q ss_pred CCCccCCcchHHHHHHHhcCCCCccCCCCcccccCchHHHHHHh
Q psy1798 301 CPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMK 344 (353)
Q Consensus 301 C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 344 (353)
|+++|.+.++|..||++|.+.++|.|+.|+|.|...+-|..|..
T Consensus 221 C~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 221 CGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred ccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999998888865
No 3
>KOG3608|consensus
Probab=99.92 E-value=2.3e-25 Score=183.01 Aligned_cols=195 Identities=26% Similarity=0.507 Sum_probs=171.5
Q ss_pred eec--CCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccchHHH
Q psy1798 115 FQC--FRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDESFL 192 (353)
Q Consensus 115 ~~C--~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~~~l 192 (353)
+.| .-|.+.+.++..|++|++.|.+++...|+.||..|.++..|..|+++.-. ....+|+|..|.+.|.. +..|
T Consensus 178 ~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~--l~~n~fqC~~C~KrFaT--eklL 253 (467)
T KOG3608|consen 178 TMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTE--LNTNSFQCAQCFKRFAT--EKLL 253 (467)
T ss_pred eeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhh--hcCCchHHHHHHHHHhH--HHHH
Confidence 455 45999999999999999999999999999999999999999999654432 22569999999999999 9999
Q ss_pred HHhhhcCCCCCCcccccccchhhccCHHHHHHHHHh-hhCCCCcCCCCCCccccchhHHHHhhhhccccCCCCcCCCCcc
Q psy1798 193 LKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRK-HTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCNRFGSRDIGD 271 (353)
Q Consensus 193 ~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~~~~~~~~ 271 (353)
..|...|. .-|+|+.|..+....+.|..|++. |...+||+|..|++.|...+.|.+|+.+
T Consensus 254 ~~Hv~rHv----n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~--------------- 314 (467)
T KOG3608|consen 254 KSHVVRHV----NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQV--------------- 314 (467)
T ss_pred HHHHHHhh----hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHh---------------
Confidence 99998884 469999999999999999999985 7788999999999999999999999732
Q ss_pred ccccccccccccchhcccCCCcceeeCCC--CCCccCCcchHHHHHHHhc-C--CCCccCCCCcccccCchHHHHHHhhh
Q psy1798 272 LIEHSTQCSVMGIAYLNDRRNVIMYRCFV--CPYLSRHKGDVKKHVRKHT-G--EKPYECNLCDYKATQNSSIHFHMKLK 346 (353)
Q Consensus 272 l~~h~~~~~~~~~~~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~--~~~~~C~~C~~~f~~~~~l~~H~~~~ 346 (353)
|. +..|.|.. |.++|.+...|.+|++.++ | ..+|.|-+|++.|++..+|.+|+...
T Consensus 315 ------------------HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kk 375 (467)
T KOG3608|consen 315 ------------------HS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKK 375 (467)
T ss_pred ------------------cc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHh
Confidence 44 45699988 9999999999999998554 4 45699999999999999999999998
Q ss_pred cCCCC
Q psy1798 347 HNMPF 351 (353)
Q Consensus 347 h~~~~ 351 (353)
|+.+.
T Consensus 376 H~f~~ 380 (467)
T KOG3608|consen 376 HGFRL 380 (467)
T ss_pred hcccC
Confidence 88653
No 4
>KOG3608|consensus
Probab=99.91 E-value=4e-24 Score=175.74 Aligned_cols=198 Identities=24% Similarity=0.476 Sum_probs=177.2
Q ss_pred eec--CCCCccCCCchhHHHHHhhhcC------------CCC-ccCC--CCCccccChHHHHHHHHHhcCCccccCcccC
Q psy1798 115 FQC--FRCRYSNKFRSNFLRHIRTHTG------------HKP-YACT--ECGYASILSTDLRKHIERIHMPQFVEDVRHC 177 (353)
Q Consensus 115 ~~C--~~C~~~f~~~~~l~~H~~~h~~------------~~~-~~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c 177 (353)
|.| +.|+..|.+...|..|.-.|.. ++| +.|. .|-..+.+++.|+.| .+.|.. ++...|
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH-~r~Hs~---eKvvAC 210 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREH-IRTHSN---EKVVAC 210 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHH-HHhcCC---CeEEec
Confidence 666 5799999999999999887742 222 4554 488999999999999 789988 999999
Q ss_pred ccccccccccchHHHHHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhhhhc
Q psy1798 178 VHCNKEMHNLDESFLLKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHMHFL 257 (353)
Q Consensus 178 ~~c~~~~~~~~~~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 257 (353)
+.||..|.+ ...|..|++..+.....+|+|..|.+.|.+...|..|+..|. .-|+|+.|+.....+++|..|+.|+
T Consensus 211 p~Cg~~F~~--~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~r 286 (467)
T KOG3608|consen 211 PHCGELFRT--KTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYR 286 (467)
T ss_pred chHHHHhcc--ccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhh
Confidence 999999999 999999999998888899999999999999999999999996 5799999999999999999999763
Q ss_pred cccCCCCcCCCCccccccccccccccchhcccCCCcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCC--CcccccC
Q psy1798 258 CHHCNRFGSRDIGDLIEHSTQCSVMGIAYLNDRRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNL--CDYKATQ 335 (353)
Q Consensus 258 C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~ 335 (353)
|..++||+|..|...|.+.+.|.+|+.+|. +..|.|.. |.++|.+
T Consensus 287 --------------------------------Hs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~ 333 (467)
T KOG3608|consen 287 --------------------------------HSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRT 333 (467)
T ss_pred --------------------------------hccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHH
Confidence 777899999999999999999999999988 67899976 9999999
Q ss_pred chHHHHHHhhhc-CCCCCC
Q psy1798 336 NSSIHFHMKLKH-NMPFIP 353 (353)
Q Consensus 336 ~~~l~~H~~~~h-~~~~~~ 353 (353)
..++.+|++.+| |..|.|
T Consensus 334 ~~q~~~H~~evhEg~np~~ 352 (467)
T KOG3608|consen 334 YTQMRRHFLEVHEGNNPIL 352 (467)
T ss_pred HHHHHHHHHHhccCCCCCc
Confidence 999999999999 666653
No 5
>KOG3623|consensus
Probab=99.90 E-value=8.8e-25 Score=194.96 Aligned_cols=120 Identities=24% Similarity=0.488 Sum_probs=96.1
Q ss_pred ceeecCCCCCccCchhhhhhHhhhhcC--CCCcccCCCCcccccchhhhhhhhcccccccccccccccCccccccccCCC
Q psy1798 13 IMYRCFVCPYLSRHKGDVKKHVRKHTG--EKPYECNLCDYKATQNSSIHFHMKVGVQAIFTSENVVLSGLHSCVHCYGDL 90 (353)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~--~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~c~~c~~~~ 90 (353)
....|+.|++.+.....|+.|++-.+. +-.|.|.+|.++|.++..|.+||..|...-....
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~----------------- 271 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAI----------------- 271 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccc-----------------
Confidence 446899999999999999999875433 2349999999999999999999988543321110
Q ss_pred cccchhHHHHHHhhcCCCCcCCCceecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHH
Q psy1798 91 SSATETELLDHCMQCSRDTCIPGWFQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIE 163 (353)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 163 (353)
..+.... -..|+|.+|++.|.-+-.|.+|+++|.|++||.|+-|++.|........||.
T Consensus 272 -sltqsa~-------------lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 272 -SLTQSAL-------------LRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred -cccchhh-------------hccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 0000000 1239999999999999999999999999999999999999999999999963
No 6
>KOG2462|consensus
Probab=99.89 E-value=1.2e-23 Score=168.64 Aligned_cols=141 Identities=26% Similarity=0.428 Sum_probs=129.2
Q ss_pred CCceecCCCCccCCCchhHHHHHhhhcC---CCCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccc
Q psy1798 112 PGWFQCFRCRYSNKFRSNFLRHIRTHTG---HKPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLD 188 (353)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~ 188 (353)
...|.|..|++.|.+.++|.+|.+.|.. .+.+.|+.|++.|.....|..| .+.| .-+.+|++|||.|+.
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMH-irTH-----~l~c~C~iCGKaFSR-- 199 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMH-IRTH-----TLPCECGICGKAFSR-- 199 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhH-hhcc-----CCCcccccccccccc--
Confidence 4579999999999999999999999864 4569999999999999999999 6778 568999999999997
Q ss_pred hHHHHHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhhhhccccCC
Q psy1798 189 ESFLLKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCN 262 (353)
Q Consensus 189 ~~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~ 262 (353)
.=.|+-|++.|.+ ++||.|+.|++.|.++++|+.|+++|.+.++|+|..|+|.|...+-|.+|..-.|....
T Consensus 200 PWLLQGHiRTHTG--EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~C~~~~ 271 (279)
T KOG2462|consen 200 PWLLQGHIRTHTG--EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESACLKYL 271 (279)
T ss_pred hHHhhcccccccC--CCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhcccccc
Confidence 7788999999998 99999999999999999999999999999999999999999999999999866665544
No 7
>KOG1074|consensus
Probab=99.89 E-value=3.1e-24 Score=194.62 Aligned_cols=115 Identities=25% Similarity=0.413 Sum_probs=85.0
Q ss_pred CCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhh-----------hhccc---cCCCCcCCC
Q psy1798 203 RTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHM-----------HFLCH---HCNRFGSRD 268 (353)
Q Consensus 203 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~-----------~~~C~---~C~~~~~~~ 268 (353)
...+-+|-.|.+.+.=++.|+.|.+.|+||+||+|.+||+.|+++.+|+.|+ .+.|. .|.+.| .+
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kf-tn 680 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKF-TN 680 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccc-cc
Confidence 3345789999999999999999999999999999999999999999999998 57899 999999 78
Q ss_pred Cccccccccccccc--cchhcccCCCcceeeCCCCCCccCCcchHHHHHHHh
Q psy1798 269 IGDLIEHSTQCSVM--GIAYLNDRRNVIMYRCFVCPYLSRHKGDVKKHVRKH 318 (353)
Q Consensus 269 ~~~l~~h~~~~~~~--~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 318 (353)
...|..|++..... .....-+-.....-+|..|.+.|.+...|..++..|
T Consensus 681 ~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~ 732 (958)
T KOG1074|consen 681 AVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQ 732 (958)
T ss_pred cccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhcc
Confidence 88888888863211 111111111122345666666666655555555444
No 8
>KOG3623|consensus
Probab=99.85 E-value=8.2e-23 Score=182.50 Aligned_cols=120 Identities=25% Similarity=0.496 Sum_probs=79.4
Q ss_pred CCceecCCCCccCCCchhHHHHHhh-hcC-CCCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccch
Q psy1798 112 PGWFQCFRCRYSNKFRSNFLRHIRT-HTG-HKPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDE 189 (353)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~l~~H~~~-h~~-~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~ 189 (353)
.....|+.|.+.+..-..|..|++. |.. +..|.|..|.++|..+..|.+| ...|..-. .....
T Consensus 208 sqlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErh-m~~hkpg~-----------dqa~s--- 272 (1007)
T KOG3623|consen 208 SQLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERH-MQLHKPGG-----------DQAIS--- 272 (1007)
T ss_pred hhhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHH-HHhhcCCC-----------ccccc---
Confidence 3458999999999999999999985 432 3459999999999999999999 56664310 00000
Q ss_pred HHHHHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhh
Q psy1798 190 SFLLKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHM 254 (353)
Q Consensus 190 ~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 254 (353)
.-.+...+.|+|+.|++.|..+-+|++|+|+|.|++||.|+.|++.|.....+..||
T Consensus 273 --------ltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHm 329 (1007)
T KOG3623|consen 273 --------LTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHM 329 (1007)
T ss_pred --------ccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccc
Confidence 000111234666666666666666666666666666666666666666666666665
No 9
>KOG3576|consensus
Probab=99.57 E-value=7.7e-16 Score=117.62 Aligned_cols=115 Identities=23% Similarity=0.494 Sum_probs=90.2
Q ss_pred CcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhhhhccccCCCCcCCCCcccccccccccccc
Q psy1798 204 TVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCNRFGSRDIGDLIEHSTQCSVMG 283 (353)
Q Consensus 204 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~ 283 (353)
...|.|.+|++.|.-.--|.+|+.-|...+.|-|..||++|...-.|++|. +.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~----------------------rt----- 167 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHT----------------------RT----- 167 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhh----------------------cc-----
Confidence 455788888888887777888888887777777777777777776666664 33
Q ss_pred chhcccCCCcceeeCCCCCCccCCcchHHHHHHHhcCC-----------CCccCCCCcccccCchHHHHHHhhhcCCCC
Q psy1798 284 IAYLNDRRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGE-----------KPYECNLCDYKATQNSSIHFHMKLKHNMPF 351 (353)
Q Consensus 284 ~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 351 (353)
|++.+||+|..|+++|++.-+|..|++.-++. +.|.|..||+.......+..|++.||...|
T Consensus 168 ------htgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 168 ------HTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred ------ccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 88888899999999998888888888644442 558899999888888888899888887654
No 10
>KOG3576|consensus
Probab=99.55 E-value=2.4e-15 Score=114.93 Aligned_cols=124 Identities=25% Similarity=0.449 Sum_probs=92.4
Q ss_pred CCCcccCCCCcccccchhhhhhhhcccccccccccccccCccccccccCCCcccchhHHHHHHhhcCCCCcCCCceecCC
Q psy1798 40 EKPYECNLCDYKATQNSSIHFHMKVGVQAIFTSENVVLSGLHSCVHCYGDLSSATETELLDHCMQCSRDTCIPGWFQCFR 119 (353)
Q Consensus 40 ~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~ 119 (353)
...|.|.+|++.|.....|.+||+-|. .-+ ++-|..
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~-----~vk---------------------------------------r~lct~ 150 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHS-----DVK---------------------------------------RHLCTF 150 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhcc-----HHH---------------------------------------HHHHhh
Confidence 345889999999999888988988632 222 388999
Q ss_pred CCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccchHHHHHhhhcC
Q psy1798 120 CRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDESFLLKHCKYC 199 (353)
Q Consensus 120 C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~~~l~~h~~~~ 199 (353)
||+.|.+..+|.+|+++|++.+||+|..|++.|..+-.|..|+..+|.... .+.-..
T Consensus 151 cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~-------------------~yayke---- 207 (267)
T KOG3576|consen 151 CGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQH-------------------QYAYKE---- 207 (267)
T ss_pred ccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchH-------------------HHHHHH----
Confidence 999999999999999999999999999999999999999999888886521 111111
Q ss_pred CCCCCcccccccchhhccCHHHHHHHHHhhhCC
Q psy1798 200 PSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGR 232 (353)
Q Consensus 200 ~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 232 (353)
-+.+.|.|..||.+-.....+..|+..|+..
T Consensus 208 --rr~kl~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 208 --RRAKLYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred --hhhheeeecccCCCCCChhHHHHHHHhcCCC
Confidence 1245567777777766666667777666543
No 11
>PHA00733 hypothetical protein
Probab=99.23 E-value=6e-12 Score=93.31 Aligned_cols=102 Identities=18% Similarity=0.207 Sum_probs=78.7
Q ss_pred CHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhhhhccccCCCCcCCCCccccccccccccccchhcccCCCcceee
Q psy1798 218 QSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCNRFGSRDIGDLIEHSTQCSVMGIAYLNDRRNVIMYR 297 (353)
Q Consensus 218 ~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~~~ 297 (353)
+...|.++-.+-...+++.|.+|.+.|..+..|..+ ..|..|+. ....+||+
T Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~----------------~~l~~~~~------------~~~~kPy~ 75 (128)
T PHA00733 24 TLEELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDES----------------SYLYKLLT------------SKAVSPYV 75 (128)
T ss_pred CHHHhhhhhcCChhhhhHHHHHHhhhccChhhhcch----------------HHHHhhcc------------cCCCCCcc
Confidence 345566665555556788899998888887777444 22333322 33467899
Q ss_pred CCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccCchHHHHHHhhhcCC
Q psy1798 298 CFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKLKHNM 349 (353)
Q Consensus 298 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 349 (353)
|..|++.|.+...|..|++.| ..+|.|++|++.|.....|..|+...|++
T Consensus 76 C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 76 CPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 999999999999999999876 46799999999999999999999999986
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.20 E-value=7.4e-11 Score=107.36 Aligned_cols=147 Identities=16% Similarity=0.324 Sum_probs=103.2
Q ss_pred ccCCCCCccccChHHHHHHHHHhcCCccccCcccCcc--ccccccccchHHHHHhhhcCCCCCCcccccccchhhccCHH
Q psy1798 143 YACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVH--CNKEMHNLDESFLLKHCKYCPSLRTVGFQCYLCLYITRQSA 220 (353)
Q Consensus 143 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~--c~~~~~~~~~~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~ 220 (353)
..|+-|....... +|..| ...-. -....|+. |+..|.. ..+ ...+.|+.|+..|. ..
T Consensus 408 V~C~NC~~~i~l~-~l~lH-e~~C~----r~~V~Cp~~~Cg~v~~r---~el-----------~~H~~C~~Cgk~f~-~s 466 (567)
T PLN03086 408 VECRNCKHYIPSR-SIALH-EAYCS----RHNVVCPHDGCGIVLRV---EEA-----------KNHVHCEKCGQAFQ-QG 466 (567)
T ss_pred EECCCCCCccchh-HHHHH-HhhCC----CcceeCCcccccceeec---ccc-----------ccCccCCCCCCccc-hH
Confidence 4566666554433 34455 22222 23345663 7766642 222 33368999999985 67
Q ss_pred HHHHHHHhhhCCCCcCCCCCCccccchhHHHHhhhhccccCCCCcCCCCccccccccccccccchhcccCCCcceeeCCC
Q psy1798 221 HMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCNRFGSRDIGDLIEHSTQCSVMGIAYLNDRRNVIMYRCFV 300 (353)
Q Consensus 221 ~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~~~~~~C~~ 300 (353)
.|..|+..++ .++.|+ |++.+ ....|..|+. . +.+.+++.|..
T Consensus 467 ~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~----------------------t-----------hCp~Kpi~C~f 509 (567)
T PLN03086 467 EMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQA----------------------S-----------TCPLRLITCRF 509 (567)
T ss_pred HHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhh----------------------c-----------cCCCCceeCCC
Confidence 7999999875 789999 99755 5578878752 1 66778899999
Q ss_pred CCCccCC----------cchHHHHHHHhcCCCCccCCCCcccccCchHHHHHHhhhcCC
Q psy1798 301 CPYLSRH----------KGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKLKHNM 349 (353)
Q Consensus 301 C~~~f~~----------~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 349 (353)
|+..|.. ...|..|..+. +.+++.|..||+.+.. .++..|+...|..
T Consensus 510 C~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~~ 566 (567)
T PLN03086 510 CGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVML-KEMDIHQIAVHQK 566 (567)
T ss_pred CCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeee-hhHHHHHHHhhcC
Confidence 9999952 34799998885 8899999999988765 4688899888864
No 13
>KOG3993|consensus
Probab=99.16 E-value=1.4e-11 Score=104.83 Aligned_cols=216 Identities=16% Similarity=0.150 Sum_probs=126.3
Q ss_pred CceecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccchHHH
Q psy1798 113 GWFQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDESFL 192 (353)
Q Consensus 113 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~~~l 192 (353)
+.|.|..|...|.+...|.+|.........|+|++|++.|+.-.+|..| ++.|.+..+...---+.-.+.... ....
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASH-RRWHKPR~eaa~a~~~P~k~~~~~--rae~ 342 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASH-RRWHKPRPEAAKAGSPPPKQAVET--RAEV 342 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhh-hcccCCchhhhhcCCCChhhhhhh--hhhh
Confidence 3499999999999999999998766656679999999999999999999 999976322110000000000000 1111
Q ss_pred HHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhH-HHHhhhhccccCCCCcCCCCcc
Q psy1798 193 LKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWN-LKMHMHFLCHHCNRFGSRDIGD 271 (353)
Q Consensus 193 ~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~-l~~H~~~~C~~C~~~~~~~~~~ 271 (353)
+.-.+...-.....|.|..|++.|.+..-|+.|+.+|+.-..-.=. .-.|..... -..| .+..+.-
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~--a~~f~~s~~~~l~~---~~~~~a~-------- 409 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEK--APKFLLSRVIPLMH---FNQAVAT-------- 409 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhc--ccCcchhhcccccc---ccccccc--------
Confidence 1111111111244799999999999999999999888643221110 111211111 0111 1111111
Q ss_pred ccccccccccccchhcccCCCcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccCchHHHHHHhhhc
Q psy1798 272 LIEHSTQCSVMGIAYLNDRRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKLKH 347 (353)
Q Consensus 272 l~~h~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 347 (353)
|....+..+...+........-.|..||..+..+..=..+.+--..+..|.|.+|.-.|.+..+|.+|++.-|
T Consensus 410 ---h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~H 482 (500)
T KOG3993|consen 410 ---HSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCH 482 (500)
T ss_pred ---ccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcC
Confidence 1111111111111111111234578888888877766666554445677889999999999999999987766
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.05 E-value=1e-09 Score=99.98 Aligned_cols=107 Identities=21% Similarity=0.477 Sum_probs=65.1
Q ss_pred eecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccccccccchHHHHH
Q psy1798 115 FQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDESFLLK 194 (353)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~~~l~~ 194 (353)
+.|+.|++.|. ...|..|++.++ .++.|+ ||+.+ .+..|..| ...|-+ .+++.|+.|+..+..-..
T Consensus 454 ~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H-~~thCp---~Kpi~C~fC~~~v~~g~~----- 519 (567)
T PLN03086 454 VHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQH-QASTCP---LRLITCRFCGDMVQAGGS----- 519 (567)
T ss_pred ccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhh-hhccCC---CCceeCCCCCCccccCcc-----
Confidence 56888888875 577888888764 678888 88644 56777778 455555 445555555544421000
Q ss_pred hhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhh
Q psy1798 195 HCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHM 254 (353)
Q Consensus 195 h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 254 (353)
...+. ...+.|..|.... +.+++.|..|++.+..+. +..|+
T Consensus 520 ---------~~d~~--------d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlrd-m~~H~ 560 (567)
T PLN03086 520 ---------AMDVR--------DRLRGMSEHESIC-GSRTAPCDSCGRSVMLKE-MDIHQ 560 (567)
T ss_pred ---------ccchh--------hhhhhHHHHHHhc-CCcceEccccCCeeeehh-HHHHH
Confidence 00000 0235677887774 778888888888777653 34443
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.97 E-value=2.3e-10 Score=69.33 Aligned_cols=44 Identities=18% Similarity=0.381 Sum_probs=40.6
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccCchHHH
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIH 340 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 340 (353)
.|+|+.||+.|+..++|..|+++|+ ++|+|..|++.|...+.|+
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 3899999999999999999999998 7999999999999877765
No 16
>PHA00733 hypothetical protein
Probab=98.90 E-value=2.3e-09 Score=79.52 Aligned_cols=82 Identities=17% Similarity=0.268 Sum_probs=63.8
Q ss_pred CcccccccchhhccCHHHHHHH--HH---hhhCCCCcCCCCCCccccchhHHHHhhhhccccCCCCcCCCCccccccccc
Q psy1798 204 TVGFQCYLCLYITRQSAHMRQH--LR---KHTGRRPFPCDMCEYSAAQKWNLKMHMHFLCHHCNRFGSRDIGDLIEHSTQ 278 (353)
Q Consensus 204 ~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~~~~~~~~l~~h~~~ 278 (353)
++++.|..|...|.....|..+ +. .+.+++||.|+.|++.|.+...|..|+..
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~---------------------- 95 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRY---------------------- 95 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhc----------------------
Confidence 6778888888888776666655 22 23457899999999999999999998621
Q ss_pred cccccchhcccCCCcceeeCCCCCCccCCcchHHHHHHHhcC
Q psy1798 279 CSVMGIAYLNDRRNVIMYRCFVCPYLSRHKGDVKKHVRKHTG 320 (353)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 320 (353)
+ ..+|.|.+|++.|.....|..|+...++
T Consensus 96 -----------h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 96 -----------T--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred -----------C--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 1 2358999999999999999999986665
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.74 E-value=4.8e-09 Score=63.65 Aligned_cols=44 Identities=18% Similarity=0.381 Sum_probs=40.0
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccchhhh
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIH 59 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~ 59 (353)
.|+|+.||+.|...+.|..|+++|+ ++|+|..|++.|.....|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4899999999999999999999997 6999999999998777663
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.69 E-value=1e-08 Score=53.10 Aligned_cols=26 Identities=42% Similarity=1.030 Sum_probs=23.9
Q ss_pred hHHHHHHHhcCCCCccCCCCcccccC
Q psy1798 310 DVKKHVRKHTGEKPYECNLCDYKATQ 335 (353)
Q Consensus 310 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 335 (353)
+|..|+++|++++||.|++|++.|.+
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 58899999999999999999999974
No 19
>KOG3993|consensus
Probab=98.53 E-value=1.2e-08 Score=87.28 Aligned_cols=112 Identities=17% Similarity=0.228 Sum_probs=73.6
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccchhhhhhhhccccccccc--ccccccCccccccccCCCc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKVGVQAIFTS--ENVVLSGLHSCVHCYGDLS 91 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~--~~~~~~~~~~c~~c~~~~~ 91 (353)
.|.|..|...|.....|.+|-=.......|+|++|+|.|..-.+|..|.+=|....... ..+.. .....
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~---------k~~~~ 337 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPP---------KQAVE 337 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCCh---------hhhhh
Confidence 48899999999999999999644444456999999999999999999988644322111 00000 00000
Q ss_pred ccchhHHHHHHhhcCCCCcCCCceecCCCCccCCCchhHHHHHhhhc
Q psy1798 92 SATETELLDHCMQCSRDTCIPGWFQCFRCRYSNKFRSNFLRHIRTHT 138 (353)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 138 (353)
+..+... -+. +.+.++++-|.|.+|++.|..+.-|..|+.+|.
T Consensus 338 ~rae~~e---a~r-sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 338 TRAEVQE---AER-SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred hhhhhhh---ccc-cCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 0111100 010 222344567999999999999999999988765
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.47 E-value=8.2e-08 Score=49.67 Aligned_cols=26 Identities=38% Similarity=0.961 Sum_probs=23.7
Q ss_pred HHHHHHHhhhCCCCcCCCCCCccccc
Q psy1798 221 HMRQHLRKHTGRRPFPCDMCEYSAAQ 246 (353)
Q Consensus 221 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 246 (353)
+|.+|+++|++++||.|+.|++.|.+
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 47899999999999999999999863
No 21
>PHA00616 hypothetical protein
Probab=98.47 E-value=5e-08 Score=56.21 Aligned_cols=34 Identities=24% Similarity=0.463 Sum_probs=26.7
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCC
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNL 328 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 328 (353)
||+|..||..|.+++.|..|+++|++++++.|.+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5778888888888888888888888888777653
No 22
>PHA00732 hypothetical protein
Probab=98.40 E-value=2e-07 Score=62.48 Aligned_cols=48 Identities=23% Similarity=0.566 Sum_probs=39.9
Q ss_pred eeeCCCCCCccCCcchHHHHHHH-hcCCCCccCCCCcccccCchHHHHHHhhhcC
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRK-HTGEKPYECNLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
||.|.+|++.|.+..+|..|++. |. ++.|+.||+.|. .|..|+.+..+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCC
Confidence 58999999999999999999984 64 468999999998 57788866543
No 23
>PHA00616 hypothetical protein
Probab=98.35 E-value=2.3e-07 Score=53.50 Aligned_cols=30 Identities=17% Similarity=0.260 Sum_probs=28.8
Q ss_pred CccCCCCcccccCchHHHHHHhhhcCCCCC
Q psy1798 323 PYECNLCDYKATQNSSIHFHMKLKHNMPFI 352 (353)
Q Consensus 323 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 352 (353)
||+|+.||+.|.+..+|..|++.|||.+++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 699999999999999999999999999886
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.27 E-value=1.5e-06 Score=54.16 Aligned_cols=51 Identities=22% Similarity=0.510 Sum_probs=41.7
Q ss_pred eeeCCCCCCccCCcchHHHHHH-HhcCC-CCccCCCCcccccCchHHHHHHhhhcC
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVR-KHTGE-KPYECNLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~-~h~~~-~~~~C~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
.|.|+.|++ -.+...|..|.. .|..+ +.+.|++|...+. .+|..||..+|+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 389999999 566789999987 55443 5699999998755 599999999885
No 25
>PHA00732 hypothetical protein
Probab=98.07 E-value=3.5e-06 Score=56.53 Aligned_cols=46 Identities=24% Similarity=0.581 Sum_probs=39.5
Q ss_pred eeecCCCCCccCchhhhhhHhhh-hcCCCCcccCCCCcccccchhhhhhhhcc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRK-HTGEKPYECNLCDYKATQNSSIHFHMKVG 65 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~~~~~~~l~~H~~~~ 65 (353)
+|.|..|++.|.+...|..|++. |. ++.|+.|++.|. .|..|+++.
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 58899999999999999999985 54 468999999997 688888653
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.93 E-value=4.5e-06 Score=41.89 Aligned_cols=22 Identities=27% Similarity=0.702 Sum_probs=12.2
Q ss_pred ccCCCCcccccCchHHHHHHhh
Q psy1798 324 YECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
|.|++|++.|.+...|..||+.
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 3455555555555555555554
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.89 E-value=7.3e-06 Score=41.10 Aligned_cols=23 Identities=35% Similarity=0.845 Sum_probs=21.6
Q ss_pred eeCCCCCCccCCcchHHHHHHHh
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKH 318 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h 318 (353)
|+|++|++.|.++..|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.85 E-value=9.3e-06 Score=41.16 Aligned_cols=24 Identities=25% Similarity=0.692 Sum_probs=13.6
Q ss_pred ccCCCCcccccCchHHHHHHhhhc
Q psy1798 324 YECNLCDYKATQNSSIHFHMKLKH 347 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~~h 347 (353)
|.|++|++.|.+...|..|+.++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 456666666666666666666654
No 29
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.76 E-value=2.6e-05 Score=48.49 Aligned_cols=50 Identities=20% Similarity=0.451 Sum_probs=38.9
Q ss_pred eeecCCCCCccCchhhhhhHhhh-hcCC-CCcccCCCCcccccchhhhhhhhccc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRK-HTGE-KPYECNLCDYKATQNSSIHFHMKVGV 66 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~-~~~~C~~C~~~~~~~~~l~~H~~~~~ 66 (353)
.|.|+.|++ ..+...|..|... |..+ +.+.||+|...+. .+|..||...|
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 589999999 5667899999766 4433 4699999998655 48999997644
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.70 E-value=1.9e-05 Score=56.55 Aligned_cols=24 Identities=21% Similarity=0.580 Sum_probs=20.3
Q ss_pred CccCCCCcccccCchHHHHHHhhh
Q psy1798 323 PYECNLCDYKATQNSSIHFHMKLK 346 (353)
Q Consensus 323 ~~~C~~C~~~f~~~~~l~~H~~~~ 346 (353)
.+.|.+|++.|.+...|..||+.+
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 588999999999999999999875
No 31
>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=97.68 E-value=1.8e-05 Score=41.42 Aligned_cols=26 Identities=23% Similarity=0.531 Sum_probs=16.8
Q ss_pred CccCCCCcccccCchHHHHHHhhhcC
Q psy1798 323 PYECNLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 323 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
||.|..|++.|.+...|..|++.|++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 45666666666666666666666543
No 32
>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=97.61 E-value=2.1e-05 Score=46.34 Aligned_cols=33 Identities=21% Similarity=0.486 Sum_probs=23.2
Q ss_pred cCCCCccCCCCcccccCchHHHHHHhhhcCCCC
Q psy1798 319 TGEKPYECNLCDYKATQNSSIHFHMKLKHNMPF 351 (353)
Q Consensus 319 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 351 (353)
..+.|-.|++|+..+.+..+|++|+.+.|+++|
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 346788899999999999999999999998886
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=97.60 E-value=4.8e-05 Score=38.42 Aligned_cols=24 Identities=29% Similarity=0.767 Sum_probs=20.4
Q ss_pred eeCCCCCCccCCcchHHHHHHHhc
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHT 319 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~ 319 (353)
|.|++|+..|.+...|..|+.+|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999998874
No 34
>KOG1146|consensus
Probab=97.52 E-value=5.6e-05 Score=74.55 Aligned_cols=101 Identities=16% Similarity=0.246 Sum_probs=61.4
Q ss_pred cCCCCCccCchhhhhhHhh-hhcCCCCcccCCCCcccccchhhhhhhhcccccccccccccccCccccccccCCCcccch
Q psy1798 17 CFVCPYLSRHKGDVKKHVR-KHTGEKPYECNLCDYKATQNSSIHFHMKVGVQAIFTSENVVLSGLHSCVHCYGDLSSATE 95 (353)
Q Consensus 17 C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~c~~c~~~~~~~~~ 95 (353)
|.-|+..+.....+..|++ .+.-.+.|.|+.|++.|.....|..|||..|..... .+|....+....
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~------------~~c~~gq~~~~~ 506 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS------------AYCKAGQNHPRL 506 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch------------hHhHhccccccc
Confidence 4445555555555555543 355567899999999999999999999884321110 111000000000
Q ss_pred hHHHHHHhhcCCCCcCCCceecCCCCccCCCchhHHHHHhh
Q psy1798 96 TELLDHCMQCSRDTCIPGWFQCFRCRYSNKFRSNFLRHIRT 136 (353)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 136 (353)
... ......-++|.|..|+..+....+|.+|++.
T Consensus 507 arg-------~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 507 ARG-------EVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccc-------ccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 000 0001123579999999999999999999875
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=97.43 E-value=4.9e-05 Score=39.72 Aligned_cols=25 Identities=20% Similarity=0.398 Sum_probs=23.2
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHT 319 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~ 319 (353)
||+|.+|++.|.+...|..|++.|.
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 5899999999999999999998775
No 36
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.32 E-value=0.00012 Score=36.94 Aligned_cols=24 Identities=33% Similarity=0.823 Sum_probs=15.8
Q ss_pred ccCCCCcccccCchHHHHHHhhhcC
Q psy1798 324 YECNLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
|.|+.|++... ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 56777777766 7777777777764
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.20 E-value=0.00015 Score=60.37 Aligned_cols=36 Identities=33% Similarity=0.624 Sum_probs=29.3
Q ss_pred CCCcccCC--CCcccccchhhhhhhhcccccccccccc
Q psy1798 40 EKPYECNL--CDYKATQNSSIHFHMKVGVQAIFTSENV 75 (353)
Q Consensus 40 ~~~~~C~~--C~~~~~~~~~l~~H~~~~~~~~~~~~~~ 75 (353)
++||+|++ |+|.|.....|.-||...|+...+-+.|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p 384 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP 384 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC
Confidence 59999997 9999999999999998877655444444
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.14 E-value=0.00022 Score=59.47 Aligned_cols=52 Identities=27% Similarity=0.615 Sum_probs=45.4
Q ss_pred CceeecCC--CCCccCchhhhhhHhhhhc-------------------CCCCcccCCCCcccccchhhhhhhh
Q psy1798 12 VIMYRCFV--CPYLSRHKGDVKKHVRKHT-------------------GEKPYECNLCDYKATQNSSIHFHMK 63 (353)
Q Consensus 12 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~-------------------~~~~~~C~~C~~~~~~~~~l~~H~~ 63 (353)
+++|+|++ |++.|.+...|+=|+..-+ ..+||+|..|+|+|.....|.-|..
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 49999998 9999999999999876422 3589999999999999999998875
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.95 E-value=0.00076 Score=34.50 Aligned_cols=22 Identities=27% Similarity=0.563 Sum_probs=12.1
Q ss_pred ccCCCCcccccCchHHHHHHhh
Q psy1798 324 YECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
|.|..|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 3455555555555555555553
No 40
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.94 E-value=0.0005 Score=49.04 Aligned_cols=24 Identities=25% Similarity=0.553 Sum_probs=20.6
Q ss_pred ceecCCCCccCCCchhHHHHHhhh
Q psy1798 114 WFQCFRCRYSNKFRSNFLRHIRTH 137 (353)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~h 137 (353)
.+.|..|++.|.+...|..|++.+
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 389999999999999999999964
No 41
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.90 E-value=0.00096 Score=39.45 Aligned_cols=34 Identities=18% Similarity=0.390 Sum_probs=18.1
Q ss_pred CCCCceeecCCCCCccCchhhhhhHhhhhcCCCC
Q psy1798 9 RRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKP 42 (353)
Q Consensus 9 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 42 (353)
..+..+-.|++|+.+++...+|++|+.+.++.+|
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3445566677777777777777777766665544
No 42
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.78 E-value=0.0012 Score=33.76 Aligned_cols=24 Identities=38% Similarity=0.721 Sum_probs=22.0
Q ss_pred eeCCCCCCccCCcchHHHHHHHhc
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHT 319 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~ 319 (353)
|+|..|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999999775
No 43
>PRK04860 hypothetical protein; Provisional
Probab=96.62 E-value=0.0015 Score=50.45 Aligned_cols=40 Identities=33% Similarity=0.639 Sum_probs=35.1
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccCch
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNS 337 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 337 (353)
-+|.|. |+. ....+.+|.++|+++++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 479998 998 7778899999999999999999999886543
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.61 E-value=0.00095 Score=33.98 Aligned_cols=22 Identities=18% Similarity=0.670 Sum_probs=13.5
Q ss_pred ccCCCCcccccCchHHHHHHhh
Q psy1798 324 YECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
|.|.+|++.|.+...|..|++.
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 4566666666666666666554
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.56 E-value=0.0017 Score=32.64 Aligned_cols=24 Identities=33% Similarity=0.915 Sum_probs=19.4
Q ss_pred eeCCCCCCccCCcchHHHHHHHhcC
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHTG 320 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~~ 320 (353)
|+|..|.+... ...|.+|++.|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999999998 9999999998753
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.56 E-value=0.001 Score=33.88 Aligned_cols=23 Identities=17% Similarity=0.550 Sum_probs=21.1
Q ss_pred eeCCCCCCccCCcchHHHHHHHh
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKH 318 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h 318 (353)
|.|.+|+..|.+...|..|++.+
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 68999999999999999999754
No 47
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.21 E-value=0.0013 Score=34.24 Aligned_cols=22 Identities=27% Similarity=0.614 Sum_probs=16.2
Q ss_pred ccCCCCcccccCchHHHHHHhh
Q psy1798 324 YECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
|.|.+|++.|.+...|..|++.
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 5677777777777777777654
No 48
>KOG2785|consensus
Probab=96.12 E-value=0.013 Score=50.65 Aligned_cols=53 Identities=25% Similarity=0.411 Sum_probs=44.9
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhcCC-----------------------CCccCCCCc---ccccCchHHHHHHhhh
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHTGE-----------------------KPYECNLCD---YKATQNSSIHFHMKLK 346 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~~ 346 (353)
.|-.|-.|+..+.+...-..||..+++- .-+.|-.|. +.|.+-..++.||...
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 3578999999999999999999988862 236788888 9999999999999754
No 49
>PRK04860 hypothetical protein; Provisional
Probab=96.10 E-value=0.0043 Score=47.96 Aligned_cols=41 Identities=32% Similarity=0.625 Sum_probs=35.4
Q ss_pred ceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccchh
Q psy1798 13 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSS 57 (353)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~ 57 (353)
-+|.|. |+. ....++.|.+++.+.++|.|..|+..+.....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~~ 158 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKGE 158 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEecc
Confidence 468998 988 77888999999999999999999998876543
No 50
>KOG2231|consensus
Probab=95.88 E-value=0.02 Score=54.07 Aligned_cols=66 Identities=17% Similarity=0.440 Sum_probs=40.5
Q ss_pred ccCccccccccccchHHHHHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCcc---cc------
Q psy1798 175 RHCVHCNKEMHNLDESFLLKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYS---AA------ 245 (353)
Q Consensus 175 ~~c~~c~~~~~~~~~~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~---f~------ 245 (353)
+.|.+|+..+.- ....-.|..| ..|.+...|+.|++.-+ +.+.|..|-.. |.
T Consensus 100 ~~C~~C~~~~~~----------------~~~~~~~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Y 160 (669)
T KOG2231|consen 100 HSCHICDRRFRA----------------LYNKKECLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLY 160 (669)
T ss_pred hhcCccccchhh----------------hcccCCCccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehe
Confidence 567788776642 1223468888 77888899999985432 24555554422 22
Q ss_pred chhHHHHhhhhccc
Q psy1798 246 QKWNLKMHMHFLCH 259 (353)
Q Consensus 246 ~~~~l~~H~~~~C~ 259 (353)
+...|..|+...+.
T Consensus 161 t~~el~~h~~~gd~ 174 (669)
T KOG2231|consen 161 TRAELNLHLMFGDP 174 (669)
T ss_pred hHHHHHHHHhcCCC
Confidence 34577788754444
No 51
>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=95.61 E-value=0.0062 Score=31.60 Aligned_cols=22 Identities=18% Similarity=0.535 Sum_probs=13.0
Q ss_pred eecCCCCCccCchhhhhhHhhh
Q psy1798 15 YRCFVCPYLSRHKGDVKKHVRK 36 (353)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~ 36 (353)
|-|..|++.|.+...|..|+++
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 4566666666666666666543
No 52
>KOG2231|consensus
Probab=95.35 E-value=0.031 Score=52.78 Aligned_cols=48 Identities=23% Similarity=0.272 Sum_probs=32.7
Q ss_pred eecCCCCccCCCchhHHHHHhhhcCCCCccCCCC------CccccChHHHHHHHHHhc
Q psy1798 115 FQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTEC------GYASILSTDLRKHIERIH 166 (353)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~~H 166 (353)
-.|..|...|.+...|..|++.++ |.|-.| +.-|....+|..|....|
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 567778888888888888877654 344444 345666777777766655
No 53
>KOG1146|consensus
Probab=95.09 E-value=0.0034 Score=62.61 Aligned_cols=141 Identities=18% Similarity=0.313 Sum_probs=83.8
Q ss_pred ceeecCCCCCccCchhhhhhHhhhhc-------------------------CCCCcccCCCCcccccchhhhhhhhcccc
Q psy1798 13 IMYRCFVCPYLSRHKGDVKKHVRKHT-------------------------GEKPYECNLCDYKATQNSSIHFHMKVGVQ 67 (353)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~-------------------------~~~~~~C~~C~~~~~~~~~l~~H~~~~~~ 67 (353)
+.++|+.|++.|.....|..|||.-+ +.++|.|..|...++.+..|.+||+..-.
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~~h 543 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSDLH 543 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHHhh
Confidence 77999999999999999999999721 24779999999999999999999976211
Q ss_pred ccccc---cccc----ccCccccccccCCCcccchhHHHHHHhhcCCCCcCCCceecCCCCccCCCchhHHHHHhh-hcC
Q psy1798 68 AIFTS---ENVV----LSGLHSCVHCYGDLSSATETELLDHCMQCSRDTCIPGWFQCFRCRYSNKFRSNFLRHIRT-HTG 139 (353)
Q Consensus 68 ~~~~~---~~~~----~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~ 139 (353)
..... +... ......+..+...-....... ...........|++|++...-..+|+.|+.. ++-
T Consensus 544 ~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ag--------s~~pktkP~~~C~vc~yetniarnlrihmtss~~s 615 (1406)
T KOG1146|consen 544 RNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAG--------SSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSS 615 (1406)
T ss_pred HHHHHHHHhccccchhhhhhhhcccCcccccCCCCCC--------CCCCCCCCCcchhhhcchhhhhhccccccccCCCC
Confidence 00000 0000 000001111111111110000 0001123458999999999999999999875 333
Q ss_pred CCCccCCCCCccccChHHHHHH
Q psy1798 140 HKPYACTECGYASILSTDLRKH 161 (353)
Q Consensus 140 ~~~~~C~~C~~~f~~~~~l~~H 161 (353)
..|..+-.+...+.....+..+
T Consensus 616 ~~p~~~Lq~~it~~l~~~~~~~ 637 (1406)
T KOG1146|consen 616 SPPSLVLQQNITSSLASLLGGQ 637 (1406)
T ss_pred CChHHHhhhcchhhccccccCc
Confidence 3335555555555554444444
No 54
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.20 E-value=0.039 Score=27.95 Aligned_cols=20 Identities=20% Similarity=0.424 Sum_probs=13.7
Q ss_pred eeCCCCCCccCCcchHHHHHH
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVR 316 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~ 316 (353)
..|+.||+.| ....|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3577777777 5666777754
No 55
>KOG2482|consensus
Probab=93.97 E-value=0.14 Score=43.67 Aligned_cols=87 Identities=17% Similarity=0.277 Sum_probs=53.8
Q ss_pred hhHHHHHhhhcCC-CCccCCCCCccc-cChHHHHHHHHHhcCCccccCcccCccccccccccchHHHHHhhhcCCCCCCc
Q psy1798 128 SNFLRHIRTHTGH-KPYACTECGYAS-ILSTDLRKHIERIHMPQFVEDVRHCVHCNKEMHNLDESFLLKHCKYCPSLRTV 205 (353)
Q Consensus 128 ~~l~~H~~~h~~~-~~~~C~~C~~~f-~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~~~~~~~~~~l~~h~~~~~~~~~~ 205 (353)
..|..|++...+. ...+|-.|...+ .+++.+..|+-.+|.-+.... - ... .-..+..|++.. -.
T Consensus 129 eaLeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlp-D-------niV--yvnelLehLkek----L~ 194 (423)
T KOG2482|consen 129 EALEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLP-D-------NIV--YVNELLEHLKEK----LE 194 (423)
T ss_pred HHHHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCC-c-------cee--eHHHHHHHHHHH----Hh
Confidence 4455555544322 236788898655 678889999888885332110 0 000 033455554432 23
Q ss_pred ccccccchhhccCHHHHHHHHHh
Q psy1798 206 GFQCYLCLYITRQSAHMRQHLRK 228 (353)
Q Consensus 206 ~~~C~~C~~~f~~~~~l~~H~~~ 228 (353)
.++|..|.+.|..+..|+.||+.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999874
No 56
>KOG2482|consensus
Probab=93.85 E-value=0.09 Score=44.88 Aligned_cols=52 Identities=15% Similarity=0.437 Sum_probs=40.7
Q ss_pred ceeecCCCCCcc-CchhhhhhHhhhhcC----------------------CCCcccCCCCcccccchhhhhhhhc
Q psy1798 13 IMYRCFVCPYLS-RHKGDVKKHVRKHTG----------------------EKPYECNLCDYKATQNSSIHFHMKV 64 (353)
Q Consensus 13 ~~~~C~~C~~~f-~~~~~l~~H~~~h~~----------------------~~~~~C~~C~~~~~~~~~l~~H~~~ 64 (353)
....|..|...+ .+.+.+..|+-.-++ ...+.|-.|.+.|..+..|+.||+.
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHh
Confidence 345799998887 777888888754332 1347899999999999999999975
No 57
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.84 E-value=0.035 Score=30.72 Aligned_cols=23 Identities=30% Similarity=0.595 Sum_probs=16.7
Q ss_pred CccCCCCcccccCchHHHHHHhh
Q psy1798 323 PYECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 323 ~~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
+|.|.+|+..|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46777777777777777777654
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.83 E-value=0.052 Score=27.47 Aligned_cols=21 Identities=24% Similarity=0.517 Sum_probs=18.1
Q ss_pred ccCCCCcccccCchHHHHHHhh
Q psy1798 324 YECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
..|+.||+.| ....|..|++.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 77889999864
No 59
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=93.73 E-value=0.058 Score=29.43 Aligned_cols=24 Identities=33% Similarity=0.908 Sum_probs=15.9
Q ss_pred eeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
|+|.+||..+.... .++.|++||.
T Consensus 2 ~~C~~CGy~y~~~~------------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE------------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc------------CCCcCcCCCC
Confidence 67777777765432 5677777775
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.27 E-value=0.098 Score=44.69 Aligned_cols=136 Identities=23% Similarity=0.353 Sum_probs=77.9
Q ss_pred eeecCC--CCCccCchhhhhhHhhhhcCCCCcccCCCC---cccc------cchhhhhhhhcccccccccccccccCccc
Q psy1798 14 MYRCFV--CPYLSRHKGDVKKHVRKHTGEKPYECNLCD---YKAT------QNSSIHFHMKVGVQAIFTSENVVLSGLHS 82 (353)
Q Consensus 14 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~~~------~~~~l~~H~~~~~~~~~~~~~~~~~~~~~ 82 (353)
.|.|+. |+.+......|..|.+..++. +.|.+|- +.|. ++..|+.|..... +.....+-=.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~------~e~GFKGHP~ 222 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGL------EEEGFKGHPL 222 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCc------cccCcCCCch
Confidence 478887 888888888999998876553 5677762 2343 3455666643211 1112333346
Q ss_pred cccccCCCcccchhH-----HHHHHhhcCCCCcCCCceecCCCCccCCCchhHHHHHhhhcCCCCccCCC--C---C-cc
Q psy1798 83 CVHCYGDLSSATETE-----LLDHCMQCSRDTCIPGWFQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTE--C---G-YA 151 (353)
Q Consensus 83 c~~c~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C---~-~~ 151 (353)
|..|...|-..++.- .+..|..|.+.. +.-.+.|.++..|..|.+..+ |-|.+ | . ..
T Consensus 223 C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~--------p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~v 290 (493)
T COG5236 223 CIFCKIYFYDDDELRRHCRLRHEACHICDMVG--------PIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYV 290 (493)
T ss_pred hhhccceecChHHHHHHHHhhhhhhhhhhccC--------ccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEE
Confidence 777776666666533 233344443321 222345777777777776422 22221 1 1 46
Q ss_pred ccChHHHHHHHHHhcCCc
Q psy1798 152 SILSTDLRKHIERIHMPQ 169 (353)
Q Consensus 152 f~~~~~l~~H~~~~H~~~ 169 (353)
|.....|..|+.+.|...
T Consensus 291 f~~~~el~~h~~~~h~~~ 308 (493)
T COG5236 291 FPYHTELLEHLTRFHKVN 308 (493)
T ss_pred eccHHHHHHHHHHHhhcc
Confidence 777778888877777554
No 61
>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=93.04 E-value=0.082 Score=29.17 Aligned_cols=23 Identities=17% Similarity=0.271 Sum_probs=18.6
Q ss_pred ceecCCCCccCCCchhHHHHHhh
Q psy1798 114 WFQCFRCRYSNKFRSNFLRHIRT 136 (353)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~ 136 (353)
+|.|++|+..|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788888888888888888764
No 62
>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=92.56 E-value=0.25 Score=35.78 Aligned_cols=55 Identities=24% Similarity=0.548 Sum_probs=44.5
Q ss_pred cceeeCCCCCCccCCcchHHHHHH-HhcCC-----------------------------------------CCccC----
Q psy1798 293 VIMYRCFVCPYLSRHKGDVKKHVR-KHTGE-----------------------------------------KPYEC---- 326 (353)
Q Consensus 293 ~~~~~C~~C~~~f~~~~~l~~H~~-~h~~~-----------------------------------------~~~~C---- 326 (353)
-+...|..|+.+..- +++..|++ .|+.. .-|.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 355789999998876 78889987 44310 11889
Q ss_pred CCCcccccCchHHHHHHhhhcC
Q psy1798 327 NLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 327 ~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
..|++...+...+..|++.+||
T Consensus 88 ~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999999986
No 63
>KOG2785|consensus
Probab=92.29 E-value=0.25 Score=43.11 Aligned_cols=25 Identities=16% Similarity=0.236 Sum_probs=20.4
Q ss_pred CCceecCCCCccCCCchhHHHHHhh
Q psy1798 112 PGWFQCFRCRYSNKFRSNFLRHIRT 136 (353)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~l~~H~~~ 136 (353)
..++.|..|++.|.+......|++.
T Consensus 66 ~~~~~c~~c~k~~~s~~a~~~hl~S 90 (390)
T KOG2785|consen 66 ESVVYCEACNKSFASPKAHENHLKS 90 (390)
T ss_pred ccceehHHhhccccChhhHHHHHHH
Confidence 4468899999999888888888865
No 64
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.15 E-value=0.35 Score=34.66 Aligned_cols=26 Identities=31% Similarity=0.356 Sum_probs=22.4
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhc
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHT 319 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 319 (353)
..|+|..|+..|--.-.+.-|...|+
T Consensus 80 ~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 80 HRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cceeCCCCCCccccccchhhhhhccC
Confidence 45999999999998888888988885
No 65
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.47 E-value=0.063 Score=49.50 Aligned_cols=60 Identities=23% Similarity=0.513 Sum_probs=54.5
Q ss_pred ceeeCCCCCCccCCcchHHHHHH--HhcCC--CCccCC--CCcccccCchHHHHHHhhhcCCCCCC
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVR--KHTGE--KPYECN--LCDYKATQNSSIHFHMKLKHNMPFIP 353 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~h~~~~~~ 353 (353)
.++.|..|...|.....|.+|.+ .|.++ +++.|+ +|++.|.....+..|..+|.+.++++
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAK 353 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccc
Confidence 46899999999999999999999 89999 999999 89999999999999999999888653
No 66
>KOG4173|consensus
Probab=90.09 E-value=0.14 Score=40.36 Aligned_cols=51 Identities=20% Similarity=0.405 Sum_probs=30.5
Q ss_pred CCceeecCC--CCCccCchhhhhhHhhhhcCCCCcccCCCCcccccchhhhhhhhc
Q psy1798 11 NVIMYRCFV--CPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKV 64 (353)
Q Consensus 11 ~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~ 64 (353)
....|.|++ |-++|.+......|...-++. .|..|.+.|.+...|..|+..
T Consensus 76 ~~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E 128 (253)
T KOG4173|consen 76 RVPAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILE 128 (253)
T ss_pred ccccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHH
Confidence 344566665 666666666666665443332 477777777777777666644
No 67
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=90.09 E-value=0.34 Score=29.93 Aligned_cols=50 Identities=22% Similarity=0.532 Sum_probs=32.7
Q ss_pred cccCccccccccccchHHHHHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCc
Q psy1798 174 VRHCVHCNKEMHNLDESFLLKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEY 242 (353)
Q Consensus 174 ~~~c~~c~~~~~~~~~~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 242 (353)
+-.|..||.... +......|.|+.||...... -.+-.....+|.|+.||.
T Consensus 9 ~~~CtSCg~~i~--------------p~e~~v~F~CPnCGe~~I~R-----c~~CRk~g~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIA--------------PGETAVKFPCPNCGEVEIYR-----CAKCRKLGNPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEec--------------cCCceeEeeCCCCCceeeeh-----hhhHHHcCCceECCCcCc
Confidence 567888887653 12235568899999765443 233344567999999984
No 68
>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=90.08 E-value=0.26 Score=27.04 Aligned_cols=24 Identities=33% Similarity=0.913 Sum_probs=16.3
Q ss_pred eeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
|+|.+||..+... +.|..|++||.
T Consensus 3 ~~C~~CG~i~~g~------------~~p~~CP~Cg~ 26 (34)
T cd00729 3 WVCPVCGYIHEGE------------EAPEKCPICGA 26 (34)
T ss_pred EECCCCCCEeECC------------cCCCcCcCCCC
Confidence 7788888776533 14567888875
No 69
>KOG2893|consensus
Probab=89.98 E-value=0.073 Score=42.91 Aligned_cols=50 Identities=16% Similarity=0.350 Sum_probs=41.7
Q ss_pred eecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHHHHHhcCC
Q psy1798 115 FQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKHIERIHMP 168 (353)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 168 (353)
-.|+.|++.|.+...|+.|++.- -|+|..|-+..-+-..|..|-.++|.+
T Consensus 11 pwcwycnrefddekiliqhqkak----hfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred ceeeecccccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhhhh
Confidence 46999999999999999998753 389999998777777788887778854
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.95 E-value=0.3 Score=41.85 Aligned_cols=24 Identities=25% Similarity=0.546 Sum_probs=13.2
Q ss_pred ccCCC--CCccccChHHHHHHHHHhc
Q psy1798 143 YACTE--CGYASILSTDLRKHIERIH 166 (353)
Q Consensus 143 ~~C~~--C~~~f~~~~~l~~H~~~~H 166 (353)
|.||. |......+.+|..|....|
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H 177 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQH 177 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhc
Confidence 45554 4555555666666655444
No 71
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.71 E-value=0.16 Score=30.67 Aligned_cols=32 Identities=31% Similarity=0.509 Sum_probs=21.6
Q ss_pred ccCCCCceeecCCCCCccCchhhhhhHhhhhc
Q psy1798 7 NDRRNVIMYRCFVCPYLSRHKGDVKKHVRKHT 38 (353)
Q Consensus 7 ~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 38 (353)
....++.-++|+-||..|....+..+|+...+
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 34445666778888887777777777765433
No 72
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=88.99 E-value=0.41 Score=29.58 Aligned_cols=33 Identities=24% Similarity=0.604 Sum_probs=21.9
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCccc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 332 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 332 (353)
.|.|+.||..-...-.- -+.+ ..+|.|+.||+.
T Consensus 27 ~F~CPnCGe~~I~Rc~~---CRk~--g~~Y~Cp~CGF~ 59 (61)
T COG2888 27 KFPCPNCGEVEIYRCAK---CRKL--GNPYRCPKCGFE 59 (61)
T ss_pred EeeCCCCCceeeehhhh---HHHc--CCceECCCcCcc
Confidence 49999999765543211 1222 378999999973
No 73
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=88.55 E-value=0.56 Score=29.11 Aligned_cols=33 Identities=24% Similarity=0.655 Sum_probs=21.8
Q ss_pred ceeeCCCCCCc-cCCcchHHHHHHHhcCCCCccCCCCccc
Q psy1798 294 IMYRCFVCPYL-SRHKGDVKKHVRKHTGEKPYECNLCDYK 332 (353)
Q Consensus 294 ~~~~C~~C~~~-f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 332 (353)
-.|.|+.||.. ...-.. -+.. ..+|.|+.||+.
T Consensus 24 ~~F~CPnCG~~~I~RC~~----CRk~--~~~Y~CP~CGF~ 57 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEK----CRKQ--SNPYTCPKCGFE 57 (59)
T ss_pred CEeeCCCCCCeeEeechh----HHhc--CCceECCCCCCc
Confidence 45999999988 433221 2222 368999999973
No 74
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=88.30 E-value=0.24 Score=45.64 Aligned_cols=52 Identities=21% Similarity=0.239 Sum_probs=30.8
Q ss_pred HHHHHhhhcCCCCCCcccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCC
Q psy1798 190 SFLLKHCKYCPSLRTVGFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCE 241 (353)
Q Consensus 190 ~~l~~h~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 241 (353)
..+..+...+.......+.+..|...+.....+..|++.+....++.|..+.
T Consensus 402 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 453 (467)
T COG5048 402 SNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILK 453 (467)
T ss_pred cccccccccccccCCcCCCCCcchhhccCcccccccccccccCCceeecccc
Confidence 3333343334333344566777777777777777777777666655554443
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=86.94 E-value=0.32 Score=29.45 Aligned_cols=29 Identities=31% Similarity=0.508 Sum_probs=20.4
Q ss_pred CCCcceeeCCCCCCccCCcchHHHHHHHh
Q psy1798 290 RRNVIMYRCFVCPYLSRHKGDVKKHVRKH 318 (353)
Q Consensus 290 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h 318 (353)
..++.-+.|+.|+..|.+.....+|++.-
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 45566677777777777777777777533
No 76
>KOG2893|consensus
Probab=86.54 E-value=0.18 Score=40.69 Aligned_cols=47 Identities=19% Similarity=0.481 Sum_probs=38.8
Q ss_pred CCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccCchHHHHHHhhhcC
Q psy1798 298 CFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 298 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
|=.|++.|-+..-|..|++ .+-|+|-+|.+...+...|..|--..|.
T Consensus 13 cwycnrefddekiliqhqk----akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeecccccchhhhhhhhhh----hccceeeeehhhhccCCCceeehhhhhh
Confidence 7789999999999999987 3458999999998888888888444443
No 77
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.32 E-value=2.4 Score=30.48 Aligned_cols=44 Identities=18% Similarity=0.309 Sum_probs=23.9
Q ss_pred ecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccccChHHHHHH
Q psy1798 116 QCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYASILSTDLRKH 161 (353)
Q Consensus 116 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 161 (353)
.|..|+..|....... ...-.....|+|+.|...|-..-++..|
T Consensus 57 ~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~FC~dCD~fiH 100 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNVFCVDCDVFVH 100 (112)
T ss_pred cccCcCCCCCCccccc--ccccccccceeCCCCCCccccccchhhh
Confidence 3666666665432111 0001223457777777777777777777
No 78
>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=84.18 E-value=0.61 Score=23.80 Aligned_cols=11 Identities=27% Similarity=0.301 Sum_probs=7.4
Q ss_pred cccccchhhcc
Q psy1798 207 FQCYLCLYITR 217 (353)
Q Consensus 207 ~~C~~C~~~f~ 217 (353)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 45777777764
No 79
>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=83.16 E-value=0.94 Score=26.57 Aligned_cols=25 Identities=28% Similarity=0.483 Sum_probs=11.5
Q ss_pred CCccCCCCcccccC----chHHHHHHhhh
Q psy1798 322 KPYECNLCDYKATQ----NSSIHFHMKLK 346 (353)
Q Consensus 322 ~~~~C~~C~~~f~~----~~~l~~H~~~~ 346 (353)
....|.+|++.+.. -++|.+|++..
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~ 43 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKK 43 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHT
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhh
Confidence 34456666655543 35666666443
No 80
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=82.93 E-value=0.78 Score=25.73 Aligned_cols=13 Identities=31% Similarity=0.442 Sum_probs=9.7
Q ss_pred ceeeCCCCCCccC
Q psy1798 294 IMYRCFVCPYLSR 306 (353)
Q Consensus 294 ~~~~C~~C~~~f~ 306 (353)
...+|+.|+..|.
T Consensus 24 ~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 24 RKVRCPKCGHVFR 36 (37)
T ss_pred cEEECCCCCcEee
Confidence 3478888888774
No 81
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.78 E-value=0.62 Score=38.28 Aligned_cols=44 Identities=25% Similarity=0.418 Sum_probs=29.2
Q ss_pred CceeecCCCCCccCchhhhhhHhhhh----------cCCCC-----cccCCCCcccccc
Q psy1798 12 VIMYRCFVCPYLSRHKGDVKKHVRKH----------TGEKP-----YECNLCDYKATQN 55 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h----------~~~~~-----~~C~~C~~~~~~~ 55 (353)
++.++||+|+..|.+..-.....+.- .+..| ..||.||+++...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 46788999999998876655554421 12233 4699998887655
No 82
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=82.62 E-value=1.1 Score=26.28 Aligned_cols=25 Identities=28% Similarity=0.606 Sum_probs=17.0
Q ss_pred eeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
|.|..||..|.-. ...+..|+.||.
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~ 27 (44)
T smart00659 3 YICGECGRENEIK-----------SKDVVRCRECGY 27 (44)
T ss_pred EECCCCCCEeecC-----------CCCceECCCCCc
Confidence 7788888877633 235577888875
No 83
>PHA00626 hypothetical protein
Probab=81.09 E-value=1.3 Score=27.04 Aligned_cols=15 Identities=27% Similarity=0.510 Sum_probs=12.1
Q ss_pred ceeeCCCCCCccCCc
Q psy1798 294 IMYRCFVCPYLSRHK 308 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~ 308 (353)
..|+|+.||+.|+..
T Consensus 22 nrYkCkdCGY~ft~~ 36 (59)
T PHA00626 22 DDYVCCDCGYNDSKD 36 (59)
T ss_pred cceEcCCCCCeechh
Confidence 459999999998754
No 84
>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=80.53 E-value=0.88 Score=26.01 Aligned_cols=31 Identities=19% Similarity=0.342 Sum_probs=21.0
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 51 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 51 (353)
.|+|..||..|........ ...-.|+.||..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~-------~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISD-------DPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecCC-------CCCCCCCCCCCc
Confidence 5789999998875544321 345679988863
No 85
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=80.49 E-value=0.98 Score=26.73 Aligned_cols=32 Identities=19% Similarity=0.388 Sum_probs=22.5
Q ss_pred ceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCccccc
Q psy1798 13 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQ 54 (353)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~ 54 (353)
..|+|+.||..|...... ....|+.||..+..
T Consensus 2 ~~y~C~~CG~~~~~~~~~----------~~~~Cp~CG~~~~~ 33 (46)
T PRK00398 2 AEYKCARCGREVELDEYG----------TGVRCPYCGYRILF 33 (46)
T ss_pred CEEECCCCCCEEEECCCC----------CceECCCCCCeEEE
Confidence 468999999988664332 15789999876543
No 86
>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=80.46 E-value=0.75 Score=28.05 Aligned_cols=30 Identities=20% Similarity=0.373 Sum_probs=19.5
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
.|+|..||..|.-...+.. ..+-.|+.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~-------~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSD-------DPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecCC-------CCCCCCCCCCC
Confidence 3788888888875543321 34456888885
No 87
>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=80.14 E-value=1.3 Score=31.75 Aligned_cols=31 Identities=16% Similarity=0.287 Sum_probs=22.5
Q ss_pred ccccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccch
Q psy1798 206 GFQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQK 247 (353)
Q Consensus 206 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 247 (353)
...|+.||..|... +..|..||.||..|...
T Consensus 9 KR~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 35688888887655 34678888888887765
No 88
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=79.96 E-value=1.3 Score=24.71 Aligned_cols=13 Identities=23% Similarity=0.265 Sum_probs=9.8
Q ss_pred ceeeCCCCCCccC
Q psy1798 294 IMYRCFVCPYLSR 306 (353)
Q Consensus 294 ~~~~C~~C~~~f~ 306 (353)
...+|..|+..|.
T Consensus 24 ~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 24 RKVRCSKCGHVFF 36 (36)
T ss_pred cEEECCCCCCEeC
Confidence 4578999988773
No 89
>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=79.34 E-value=0.93 Score=25.49 Aligned_cols=12 Identities=25% Similarity=0.312 Sum_probs=8.8
Q ss_pred eeeCCCCCCccC
Q psy1798 295 MYRCFVCPYLSR 306 (353)
Q Consensus 295 ~~~C~~C~~~f~ 306 (353)
...|+.|+..|.
T Consensus 25 ~v~C~~C~~~~~ 36 (38)
T TIGR02098 25 KVRCGKCGHVWY 36 (38)
T ss_pred EEECCCCCCEEE
Confidence 477888887764
No 90
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=79.26 E-value=1.6 Score=31.40 Aligned_cols=34 Identities=15% Similarity=0.238 Sum_probs=27.1
Q ss_pred CceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccch
Q psy1798 12 VIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNS 56 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~ 56 (353)
+.+-.|+.||..|-.. +..|..|+.||..|....
T Consensus 7 GtKR~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~~ 40 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPEP 40 (108)
T ss_pred CCcccCCCCcchhccC-----------CCCCccCCCCCCccCccc
Confidence 4567899999999664 346888999999988773
No 91
>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=79.08 E-value=0.58 Score=38.51 Aligned_cols=40 Identities=28% Similarity=0.698 Sum_probs=22.1
Q ss_pred eeCCCCCCccCCcchHHHHHHHh----cCCCCccCCCCcccccCchHHH
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKH----TGEKPYECNLCDYKATQNSSIH 340 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h----~~~~~~~C~~C~~~f~~~~~l~ 340 (353)
|.|..|.-.|-+ .|+++- ...+++.|+.||+....-.+|.
T Consensus 183 ~sCLRCK~cfCd-----dHvrrKg~ky~k~k~~PCPKCg~et~eTkdLS 226 (314)
T PF06524_consen 183 YSCLRCKICFCD-----DHVRRKGFKYEKGKPIPCPKCGYETQETKDLS 226 (314)
T ss_pred hhhhheeeeehh-----hhhhhcccccccCCCCCCCCCCCcccccccce
Confidence 556666666553 344432 2236777888877655444443
No 92
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=78.71 E-value=1.2 Score=26.68 Aligned_cols=29 Identities=17% Similarity=0.511 Sum_probs=20.2
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCccc
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 332 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 332 (353)
..|.|..||..|... .......|++||..
T Consensus 5 ~~Y~C~~Cg~~~~~~----------~~~~~irCp~Cg~r 33 (49)
T COG1996 5 MEYKCARCGREVELD----------QETRGIRCPYCGSR 33 (49)
T ss_pred EEEEhhhcCCeeehh----------hccCceeCCCCCcE
Confidence 459999999998211 12355789999964
No 93
>KOG1842|consensus
Probab=78.53 E-value=1.5 Score=39.30 Aligned_cols=22 Identities=23% Similarity=0.315 Sum_probs=14.8
Q ss_pred eecCCCCccCCCchhHHHHHhh
Q psy1798 115 FQCFRCRYSNKFRSNFLRHIRT 136 (353)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~ 136 (353)
|.|++|...|.+...|..|+..
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~ 37 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDV 37 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhh
Confidence 6666666666666666666664
No 94
>PF15269 zf-C2H2_7: Zinc-finger
Probab=77.66 E-value=1.4 Score=25.41 Aligned_cols=22 Identities=32% Similarity=0.747 Sum_probs=16.7
Q ss_pred cccCCCCcccccchhhhhhhhc
Q psy1798 43 YECNLCDYKATQNSSIHFHMKV 64 (353)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~H~~~ 64 (353)
|+|-+|......++.|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6677788777777888888764
No 95
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.49 E-value=0.44 Score=39.14 Aligned_cols=43 Identities=26% Similarity=0.481 Sum_probs=28.9
Q ss_pred ceeeCCCCCCccCCcchHHHHHHH---hc-------CCCC-----ccCCCCcccccCc
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRK---HT-------GEKP-----YECNLCDYKATQN 336 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~---h~-------~~~~-----~~C~~C~~~f~~~ 336 (353)
+.++|++|+..|..+..+....+. .. +..| ..|+.||++|...
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 457899999999988766555432 11 2233 4699999987643
No 96
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=76.14 E-value=2.4 Score=25.60 Aligned_cols=21 Identities=19% Similarity=0.540 Sum_probs=11.7
Q ss_pred eeCCCCCCccCCc-----chHHHHHH
Q psy1798 296 YRCFVCPYLSRHK-----GDVKKHVR 316 (353)
Q Consensus 296 ~~C~~C~~~f~~~-----~~l~~H~~ 316 (353)
-.|..|++.++.. +.|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4566666666544 25555554
No 97
>PF12907 zf-met2: Zinc-binding
Probab=74.12 E-value=1.8 Score=24.71 Aligned_cols=25 Identities=24% Similarity=0.458 Sum_probs=11.2
Q ss_pred cCCCCcccc---cCchHHHHHHhhhcCC
Q psy1798 325 ECNLCDYKA---TQNSSIHFHMKLKHNM 349 (353)
Q Consensus 325 ~C~~C~~~f---~~~~~l~~H~~~~h~~ 349 (353)
.|.+|...| .....|..|....|..
T Consensus 3 ~C~iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 3 ICKICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred CcHHhhHHHHhcCCHHHHHHHHHccCCC
Confidence 455555333 2234455555444444
No 98
>KOG2186|consensus
Probab=73.98 E-value=2.1 Score=35.32 Aligned_cols=48 Identities=23% Similarity=0.443 Sum_probs=38.8
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccchhhhhhhhc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHMKV 64 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~~~ 64 (353)
.|.|..||....- ..+..|+...++ .-|.|-.|++.|.. .++..|.+-
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 5899999998875 566679988877 56999999999988 667777653
No 99
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=73.31 E-value=2.8 Score=32.66 Aligned_cols=24 Identities=38% Similarity=0.930 Sum_probs=19.0
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
.|.|.+||+.+. ++.|-.||+||-
T Consensus 134 ~~vC~vCGy~~~-------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE-------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc-------------CCCCCcCCCCCC
Confidence 699999988753 457888999983
No 100
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=72.08 E-value=1.5 Score=33.82 Aligned_cols=45 Identities=16% Similarity=0.261 Sum_probs=26.1
Q ss_pred eecCCCCCccCc---hhhhhhHhhhhcCCCCcccCCCCcccccchhhhhhh
Q psy1798 15 YRCFVCPYLSRH---KGDVKKHVRKHTGEKPYECNLCDYKATQNSSIHFHM 62 (353)
Q Consensus 15 ~~C~~C~~~f~~---~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~~H~ 62 (353)
.+||.||-.... ...+.. ... -.+.++|+.||++|.+...+..=|
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~--~~~-~~~~~~c~~c~~~f~~~e~~~~~~ 48 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAED--GNA-IRRRRECLACGKRFTTFERVELVP 48 (154)
T ss_pred CcCCCCCCCCCEeEeccccCC--CCc-eeeeeeccccCCcceEeEeccCcc
Confidence 379999975521 111111 001 122389999999999887654433
No 101
>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=71.60 E-value=4.1 Score=21.95 Aligned_cols=27 Identities=26% Similarity=0.493 Sum_probs=16.3
Q ss_pred eecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCccc
Q psy1798 15 YRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKA 52 (353)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~ 52 (353)
|.|..||..+.-.. ..+..|+.||..-
T Consensus 1 Y~C~~Cg~~~~~~~-----------~~~irC~~CG~RI 27 (32)
T PF03604_consen 1 YICGECGAEVELKP-----------GDPIRCPECGHRI 27 (32)
T ss_dssp EBESSSSSSE-BST-----------SSTSSBSSSS-SE
T ss_pred CCCCcCCCeeEcCC-----------CCcEECCcCCCeE
Confidence 57888888776221 2356788888653
No 102
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=71.44 E-value=0.94 Score=26.23 Aligned_cols=7 Identities=29% Similarity=0.615 Sum_probs=2.8
Q ss_pred eCCCCCC
Q psy1798 297 RCFVCPY 303 (353)
Q Consensus 297 ~C~~C~~ 303 (353)
.|+.||.
T Consensus 28 ~CP~Cg~ 34 (42)
T PF09723_consen 28 PCPECGS 34 (42)
T ss_pred cCCCCCC
Confidence 3444443
No 103
>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=71.24 E-value=4.1 Score=24.24 Aligned_cols=38 Identities=18% Similarity=0.411 Sum_probs=19.0
Q ss_pred eeecCCCCCccCchhhhhhHhhh-----hcCCCCcccCCCCcc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRK-----HTGEKPYECNLCDYK 51 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~-----h~~~~~~~C~~C~~~ 51 (353)
+|+|..|+.+|.....-..+-.. ..-...|.|+.|+..
T Consensus 1 ky~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred CcCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 47888888888655543222110 011223788888743
No 104
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=69.46 E-value=3.4 Score=32.15 Aligned_cols=42 Identities=14% Similarity=0.210 Sum_probs=31.0
Q ss_pred CCCcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccc--cCchHHH
Q psy1798 290 RRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKA--TQNSSIH 340 (353)
Q Consensus 290 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f--~~~~~l~ 340 (353)
..+..-|.|+.|+..|+...+|. .-|.|+.||... .+.+.+.
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~~~dn~~~i 147 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLDYLDNSEAI 147 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEeeeccCHHHH
Confidence 44456699999999999888875 269999999754 3344443
No 105
>KOG1280|consensus
Probab=69.46 E-value=2.6 Score=36.45 Aligned_cols=39 Identities=18% Similarity=0.441 Sum_probs=28.6
Q ss_pred CccCCCCCccccChHHHHHHHHHhcCCccccCcccCccccc
Q psy1798 142 PYACTECGYASILSTDLRKHIERIHMPQFVEDVRHCVHCNK 182 (353)
Q Consensus 142 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~c~~c~~ 182 (353)
.|.|+.|+.-=-+...+..|+..+|.+.. ....|+.|+-
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~--~~~icp~c~~ 117 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEAS--TSVICPLCAA 117 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccC--cceeeecccc
Confidence 58999999877777788889888887642 4455666653
No 106
>KOG2807|consensus
Probab=69.06 E-value=6.2 Score=33.98 Aligned_cols=19 Identities=21% Similarity=0.613 Sum_probs=11.2
Q ss_pred CcccCCCCcccccchhhhh
Q psy1798 42 PYECNLCDYKATQNSSIHF 60 (353)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~ 60 (353)
|-.|+.|+-.......|.+
T Consensus 290 P~eCpiC~ltLVss~hLAR 308 (378)
T KOG2807|consen 290 PIECPICSLTLVSSPHLAR 308 (378)
T ss_pred CccCCccceeEecchHHHH
Confidence 5566666666665555543
No 107
>KOG4118|consensus
Probab=68.87 E-value=2.9 Score=26.32 Aligned_cols=30 Identities=20% Similarity=0.451 Sum_probs=22.9
Q ss_pred ccCCCCcccccCchHHHHHHhhhcCCCCCC
Q psy1798 324 YECNLCDYKATQNSSIHFHMKLKHNMPFIP 353 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 353 (353)
|.|.+|-....+.-.+..|..+.|...|+|
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~~~P 68 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKEPLP 68 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCCCCC
Confidence 677777777777777777777777777776
No 108
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=68.58 E-value=1.9 Score=28.32 Aligned_cols=43 Identities=19% Similarity=0.352 Sum_probs=28.8
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccC--CCCcccccchhh
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECN--LCDYKATQNSSI 58 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~~~~~~~~~l 58 (353)
++.|+.||..-....+-..... ..++-+.|. .||.+|+....+
T Consensus 1 mm~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 1 MFHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred CccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEE
Confidence 3689999987744333322222 345568898 899999987665
No 109
>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=68.30 E-value=2.4 Score=31.67 Aligned_cols=22 Identities=32% Similarity=0.708 Sum_probs=9.7
Q ss_pred eeCCCCCCccCCcchHHHHHHHhcC
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHTG 320 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~~ 320 (353)
-.|-+||+.|. .|.+|+..|+|
T Consensus 73 i~clecGk~~k---~LkrHL~~~~g 94 (132)
T PF05443_consen 73 IICLECGKKFK---TLKRHLRTHHG 94 (132)
T ss_dssp EE-TBT--EES---BHHHHHHHTT-
T ss_pred eEEccCCcccc---hHHHHHHHccC
Confidence 45666666554 33556665544
No 110
>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=68.17 E-value=4 Score=29.40 Aligned_cols=26 Identities=46% Similarity=0.882 Sum_probs=23.5
Q ss_pred eeeC----CCCCCccCCcchHHHHHHHhcC
Q psy1798 295 MYRC----FVCPYLSRHKGDVKKHVRKHTG 320 (353)
Q Consensus 295 ~~~C----~~C~~~f~~~~~l~~H~~~h~~ 320 (353)
.|.| ..|++.+.+...|..|++.+++
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3999 9999999999999999997764
No 111
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=67.49 E-value=6.2 Score=30.27 Aligned_cols=14 Identities=36% Similarity=0.522 Sum_probs=7.7
Q ss_pred CcccCCCCcccccc
Q psy1798 42 PYECNLCDYKATQN 55 (353)
Q Consensus 42 ~~~C~~C~~~~~~~ 55 (353)
-|.|+.|+..|...
T Consensus 99 ~Y~Cp~C~~~y~~~ 112 (147)
T smart00531 99 YYKCPNCQSKYTFL 112 (147)
T ss_pred EEECcCCCCEeeHH
Confidence 35566666555543
No 112
>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=65.64 E-value=5.7 Score=29.16 Aligned_cols=37 Identities=5% Similarity=-0.075 Sum_probs=28.2
Q ss_pred CceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccchhhh
Q psy1798 12 VIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNSSIH 59 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~~l~ 59 (353)
+.+..|+.||..|-.. +..|..|+.||..|.....+.
T Consensus 7 GtKr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 7 GTKRICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred CccccCCCcCcccccc-----------CCCCccCCCcCCccCcchhhc
Confidence 4567899999998654 346889999999987664443
No 113
>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=65.17 E-value=3.8 Score=24.75 Aligned_cols=14 Identities=29% Similarity=0.833 Sum_probs=10.3
Q ss_pred eeecCCCCCccCch
Q psy1798 14 MYRCFVCPYLSRHK 27 (353)
Q Consensus 14 ~~~C~~C~~~f~~~ 27 (353)
.|+|..||.+|...
T Consensus 1 ~y~C~~CgyiYd~~ 14 (50)
T cd00730 1 KYECRICGYIYDPA 14 (50)
T ss_pred CcCCCCCCeEECCC
Confidence 36788888888654
No 114
>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=64.97 E-value=5 Score=29.44 Aligned_cols=31 Identities=13% Similarity=-0.109 Sum_probs=20.7
Q ss_pred cccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchh
Q psy1798 207 FQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKW 248 (353)
Q Consensus 207 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 248 (353)
..|+.||..|... +..|..|+.||..|....
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~ 40 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEE 40 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcch
Confidence 5677777777544 346777777777776553
No 115
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=64.68 E-value=4.4 Score=32.18 Aligned_cols=34 Identities=15% Similarity=0.366 Sum_probs=26.6
Q ss_pred CCcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccc
Q psy1798 291 RNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKA 333 (353)
Q Consensus 291 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 333 (353)
.+..-|.|+.|+..|+...++. .-|.|+.||-..
T Consensus 113 ~~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 113 ENNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred cCCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 3445699999999999887763 369999999744
No 116
>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=64.45 E-value=4.8 Score=31.31 Aligned_cols=16 Identities=19% Similarity=0.266 Sum_probs=8.5
Q ss_pred cccCCCCcccccchhh
Q psy1798 43 YECNLCDYKATQNSSI 58 (353)
Q Consensus 43 ~~C~~C~~~~~~~~~l 58 (353)
|.|+.|+..|+....+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 5555555555555444
No 117
>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=64.06 E-value=5.9 Score=20.13 Aligned_cols=19 Identities=21% Similarity=0.558 Sum_probs=11.1
Q ss_pred cCCCCcccccCchHHHHHHh
Q psy1798 325 ECNLCDYKATQNSSIHFHMK 344 (353)
Q Consensus 325 ~C~~C~~~f~~~~~l~~H~~ 344 (353)
.|++|++.+ ....+..|+-
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466777665 4455555553
No 118
>KOG2186|consensus
Probab=62.76 E-value=4 Score=33.74 Aligned_cols=45 Identities=20% Similarity=0.470 Sum_probs=25.2
Q ss_pred cccccchhhccCHHHHHHHHHhhhCCCCcCCCCCCccccchhHHHHhh
Q psy1798 207 FQCYLCLYITRQSAHMRQHLRKHTGRRPFPCDMCEYSAAQKWNLKMHM 254 (353)
Q Consensus 207 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 254 (353)
|.|..||.+..- ..+.+|+-.-++ .-|.|-.|++.|.. .....|.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 566666666542 345556544333 45666666666666 4555554
No 119
>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=62.72 E-value=5 Score=32.83 Aligned_cols=30 Identities=27% Similarity=0.362 Sum_probs=23.5
Q ss_pred CCCccCCCCCccccChHHHHHHHHHhcCCc
Q psy1798 140 HKPYACTECGYASILSTDLRKHIERIHMPQ 169 (353)
Q Consensus 140 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 169 (353)
+..|.|++|++.|.-...+.+||...|.+.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 345999999999999999999999999753
No 120
>KOG4173|consensus
Probab=62.41 E-value=2.8 Score=33.40 Aligned_cols=54 Identities=24% Similarity=0.400 Sum_probs=39.1
Q ss_pred eCCCCCCccCCcchHHHHHH-Hhc---------CCCCccC--CCCcccccCchHHHHHHhhhcCCC
Q psy1798 297 RCFVCPYLSRHKGDVKKHVR-KHT---------GEKPYEC--NLCDYKATQNSSIHFHMKLKHNMP 350 (353)
Q Consensus 297 ~C~~C~~~f~~~~~l~~H~~-~h~---------~~~~~~C--~~C~~~f~~~~~l~~H~~~~h~~~ 350 (353)
.|..|.+.|.+...|.-|+. .|. |...|.| .-|+-.|++...-..||...|.-+
T Consensus 108 sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk~P 173 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHKYP 173 (253)
T ss_pred hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhccCC
Confidence 57888888888888877764 332 3456888 558888888888888888777543
No 121
>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=61.51 E-value=3.9 Score=30.56 Aligned_cols=23 Identities=22% Similarity=0.475 Sum_probs=14.8
Q ss_pred CCCCcccccCchHHHHHHhhhcCCCC
Q psy1798 326 CNLCDYKATQNSSIHFHMKLKHNMPF 351 (353)
Q Consensus 326 C~~C~~~f~~~~~l~~H~~~~h~~~~ 351 (353)
|-.||+.|.. |.+|+..|||+.|
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 7789998874 5899999999754
No 122
>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=60.78 E-value=4.3 Score=24.61 Aligned_cols=22 Identities=23% Similarity=0.505 Sum_probs=12.4
Q ss_pred CCCccCCCCCccccChHHHHHH
Q psy1798 140 HKPYACTECGYASILSTDLRKH 161 (353)
Q Consensus 140 ~~~~~C~~C~~~f~~~~~l~~H 161 (353)
...|+|+.|...|-..-++-.|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiH 40 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIH 40 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTT
T ss_pred CCeEECCCCCCccccCcChhhh
Confidence 3458888888888888887777
No 123
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=60.28 E-value=6 Score=31.42 Aligned_cols=16 Identities=19% Similarity=0.548 Sum_probs=8.1
Q ss_pred cccCCCCcccccchhh
Q psy1798 43 YECNLCDYKATQNSSI 58 (353)
Q Consensus 43 ~~C~~C~~~~~~~~~l 58 (353)
|.|+.|+..|+....+
T Consensus 118 Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 118 FFCPNCHIRFTFDEAM 133 (178)
T ss_pred EECCCCCcEEeHHHHh
Confidence 5555555555544443
No 124
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=60.23 E-value=11 Score=28.95 Aligned_cols=39 Identities=15% Similarity=0.294 Sum_probs=26.2
Q ss_pred CCcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccc
Q psy1798 291 RNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKA 333 (353)
Q Consensus 291 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 333 (353)
.+..-|.|+.|+..|+...++.- . . ....|.|+.||...
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~--~-d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQL--L-D-MDGTFTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHh--c-C-CCCcEECCCCCCEE
Confidence 34456999999999986543322 0 1 23449999999855
No 125
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=59.83 E-value=5 Score=32.82 Aligned_cols=26 Identities=23% Similarity=0.387 Sum_probs=15.2
Q ss_pred CccCCCCcccccCchHHHHHHhhhcC
Q psy1798 323 PYECNLCDYKATQNSSIHFHMKLKHN 348 (353)
Q Consensus 323 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 348 (353)
.|.|++|+|.|.-..=+..|+.+.|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 36666677777666666666666654
No 126
>KOG3408|consensus
Probab=59.65 E-value=5.8 Score=28.69 Aligned_cols=31 Identities=16% Similarity=0.212 Sum_probs=20.0
Q ss_pred eccCCCCceeecCCCCCccCchhhhhhHhhh
Q psy1798 6 LNDRRNVIMYRCFVCPYLSRHKGDVKKHVRK 36 (353)
Q Consensus 6 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 36 (353)
..+.+|...|-|..|.+.|.+...|..|.++
T Consensus 49 D~dlPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 49 DPDLPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 3445566666777777777777777766654
No 127
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=59.59 E-value=4.9 Score=31.33 Aligned_cols=12 Identities=25% Similarity=0.454 Sum_probs=6.5
Q ss_pred cccCcccccccc
Q psy1798 174 VRHCVHCNKEMH 185 (353)
Q Consensus 174 ~~~c~~c~~~~~ 185 (353)
.|.|++||..+.
T Consensus 134 ~~vC~vCGy~~~ 145 (166)
T COG1592 134 VWVCPVCGYTHE 145 (166)
T ss_pred EEEcCCCCCccc
Confidence 455666655444
No 128
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=57.70 E-value=6.8 Score=24.47 Aligned_cols=40 Identities=15% Similarity=0.449 Sum_probs=25.8
Q ss_pred ceeeCCC--CCCccCCcchHHHHHHHhcCCCCccCCC----Cccccc
Q psy1798 294 IMYRCFV--CPYLSRHKGDVKKHVRKHTGEKPYECNL----CDYKAT 334 (353)
Q Consensus 294 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 334 (353)
.+-.|+. |...+. ...|..|+...-..++..|++ |+..+.
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 3467887 444454 668899999777778889999 987754
No 129
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=57.19 E-value=21 Score=31.16 Aligned_cols=27 Identities=19% Similarity=0.477 Sum_probs=22.5
Q ss_pred CCCcceeeCCCCC-CccCCcchHHHHHH
Q psy1798 290 RRNVIMYRCFVCP-YLSRHKGDVKKHVR 316 (353)
Q Consensus 290 ~~~~~~~~C~~C~-~~f~~~~~l~~H~~ 316 (353)
|.-++.|.|.+|| +++--...|.+|..
T Consensus 369 hgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 369 HGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred cCCCcceeeeecccccccchHHHHhhhh
Confidence 5566779999999 88888889999974
No 130
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=57.10 E-value=13 Score=31.78 Aligned_cols=25 Identities=28% Similarity=0.321 Sum_probs=16.0
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHh
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKH 318 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h 318 (353)
..|+|..|...|-..-...-|-..|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 3477777777777666666664433
No 131
>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=57.03 E-value=11 Score=24.40 Aligned_cols=32 Identities=13% Similarity=0.429 Sum_probs=20.9
Q ss_pred CceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccc
Q psy1798 12 VIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKAT 53 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~ 53 (353)
...-.|+.||..... -...+.|.|+.||..+.
T Consensus 26 ~TSq~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 26 YTSQTCPRCGHRNKK----------RRSGRVFTCPNCGFEMD 57 (69)
T ss_pred CCccCccCccccccc----------ccccceEEcCCCCCEEC
Confidence 344568888877665 12345688888887643
No 132
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=55.07 E-value=10 Score=26.05 Aligned_cols=14 Identities=21% Similarity=0.387 Sum_probs=9.6
Q ss_pred ceeeCCCCCCccCC
Q psy1798 294 IMYRCFVCPYLSRH 307 (353)
Q Consensus 294 ~~~~C~~C~~~f~~ 307 (353)
..+.|.-|++.|.-
T Consensus 53 GIW~C~~C~~~~AG 66 (90)
T PTZ00255 53 GIWRCKGCKKTVAG 66 (90)
T ss_pred EEEEcCCCCCEEeC
Confidence 44777777777753
No 133
>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=54.99 E-value=7.2 Score=32.41 Aligned_cols=21 Identities=38% Similarity=0.844 Sum_probs=13.8
Q ss_pred CCCccCCCCCccccChHHHHH
Q psy1798 140 HKPYACTECGYASILSTDLRK 160 (353)
Q Consensus 140 ~~~~~C~~C~~~f~~~~~l~~ 160 (353)
.+++.||-|+.......+|..
T Consensus 207 ~k~~PCPKCg~et~eTkdLSm 227 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSM 227 (314)
T ss_pred CCCCCCCCCCCccccccccee
Confidence 356778888777666665543
No 134
>PRK04023 DNA polymerase II large subunit; Validated
Probab=54.78 E-value=9.9 Score=38.28 Aligned_cols=12 Identities=17% Similarity=0.221 Sum_probs=7.1
Q ss_pred eeCCCCCCccCC
Q psy1798 296 YRCFVCPYLSRH 307 (353)
Q Consensus 296 ~~C~~C~~~f~~ 307 (353)
+.|+.||..-..
T Consensus 664 y~CPKCG~El~~ 675 (1121)
T PRK04023 664 DECEKCGREPTP 675 (1121)
T ss_pred CcCCCCCCCCCc
Confidence 556666665543
No 135
>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=54.72 E-value=6.6 Score=20.82 Aligned_cols=25 Identities=16% Similarity=0.370 Sum_probs=9.8
Q ss_pred ecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcc
Q psy1798 16 RCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 51 (353)
Q Consensus 16 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 51 (353)
+|+.|+..+.. .....|.|+.|+..
T Consensus 4 ~Cp~C~se~~y-----------~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----E-----------E-SSSEEETTTTEE
T ss_pred CCCCCCCccee-----------ccCCEEeCCccccc
Confidence 56667666554 23344667777643
No 136
>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=54.32 E-value=7.8 Score=23.84 Aligned_cols=32 Identities=16% Similarity=0.311 Sum_probs=21.5
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKAT 53 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~ 53 (353)
.++|+.||..+.-..... + -...|+.||..+-
T Consensus 2 ~~~CP~CG~~iev~~~~~-------G-eiV~Cp~CGaele 33 (54)
T TIGR01206 2 QFECPDCGAEIELENPEL-------G-ELVICDECGAELE 33 (54)
T ss_pred ccCCCCCCCEEecCCCcc-------C-CEEeCCCCCCEEE
Confidence 578999999775443321 2 2468999987754
No 137
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=54.20 E-value=8.9 Score=37.70 Aligned_cols=10 Identities=20% Similarity=0.139 Sum_probs=4.4
Q ss_pred ccccccchhh
Q psy1798 206 GFQCYLCLYI 215 (353)
Q Consensus 206 ~~~C~~C~~~ 215 (353)
|..|+.||..
T Consensus 475 p~~Cp~Cgs~ 484 (730)
T COG1198 475 PQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCC
Confidence 3444444443
No 138
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=54.19 E-value=3.6 Score=30.35 Aligned_cols=21 Identities=19% Similarity=0.577 Sum_probs=14.6
Q ss_pred hCCCCcCCCCCCccccchhHH
Q psy1798 230 TGRRPFPCDMCEYSAAQKWNL 250 (353)
Q Consensus 230 ~~~~~~~C~~C~~~f~~~~~l 250 (353)
.+.+.|+|.+|......+..|
T Consensus 76 ~d~~lYeCnIC~etS~ee~FL 96 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERFL 96 (140)
T ss_pred cCCCceeccCcccccchhhcC
Confidence 345778888888777666554
No 139
>KOG2807|consensus
Probab=53.98 E-value=15 Score=31.82 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=13.2
Q ss_pred ccCCCCCccccChHHHHHH
Q psy1798 143 YACTECGYASILSTDLRKH 161 (353)
Q Consensus 143 ~~C~~C~~~f~~~~~l~~H 161 (353)
|.|..|...|-.--+...|
T Consensus 346 y~C~~Ck~~FCldCDv~iH 364 (378)
T KOG2807|consen 346 YRCESCKNVFCLDCDVFIH 364 (378)
T ss_pred EEchhccceeeccchHHHH
Confidence 6677777777766666666
No 140
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=53.58 E-value=7.7 Score=28.67 Aligned_cols=23 Identities=22% Similarity=0.338 Sum_probs=14.1
Q ss_pred eeCCCCCCccCCcchHHHHHHHhcCC
Q psy1798 296 YRCFVCPYLSRHKGDVKKHVRKHTGE 321 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~~~h~~~ 321 (353)
-.|-++|+.|. +|.+|+.+|.+.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCC
Confidence 45666676664 556666666543
No 141
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=52.91 E-value=8.5 Score=29.01 Aligned_cols=40 Identities=15% Similarity=0.241 Sum_probs=22.8
Q ss_pred CceeecCCCCCccCchh---hh------hhHhhhhcCCCCcccCCCCcc
Q psy1798 12 VIMYRCFVCPYLSRHKG---DV------KKHVRKHTGEKPYECNLCDYK 51 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~---~l------~~H~~~h~~~~~~~C~~C~~~ 51 (353)
...+.|..||..|.... .| ..|...-....-+.||.||..
T Consensus 68 p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~ 116 (135)
T PRK03824 68 EAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSR 116 (135)
T ss_pred ceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCC
Confidence 35688999998886641 11 112222222334679999843
No 142
>KOG2071|consensus
Probab=52.70 E-value=20 Score=33.78 Aligned_cols=27 Identities=22% Similarity=0.273 Sum_probs=22.3
Q ss_pred CcccccccchhhccCHHHHHHHHHhhh
Q psy1798 204 TVGFQCYLCLYITRQSAHMRQHLRKHT 230 (353)
Q Consensus 204 ~~~~~C~~C~~~f~~~~~l~~H~~~h~ 230 (353)
..+-+|..||..|........|+..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 456789999999999888888888774
No 143
>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=52.39 E-value=11 Score=25.97 Aligned_cols=14 Identities=14% Similarity=0.223 Sum_probs=9.6
Q ss_pred ceeeCCCCCCccCC
Q psy1798 294 IMYRCFVCPYLSRH 307 (353)
Q Consensus 294 ~~~~C~~C~~~f~~ 307 (353)
..+.|.-|++.|.-
T Consensus 52 GIW~C~~C~~~~AG 65 (91)
T TIGR00280 52 GIWTCRKCGAKFAG 65 (91)
T ss_pred EEEEcCCCCCEEeC
Confidence 44777777777753
No 144
>PF14353 CpXC: CpXC protein
Probab=51.04 E-value=2.1 Score=31.93 Aligned_cols=49 Identities=14% Similarity=0.196 Sum_probs=30.2
Q ss_pred eecCCCCCccCchhhhhhHhh--------hhcCC-CCcccCCCCcccccchhhhhhhh
Q psy1798 15 YRCFVCPYLSRHKGDVKKHVR--------KHTGE-KPYECNLCDYKATQNSSIHFHMK 63 (353)
Q Consensus 15 ~~C~~C~~~f~~~~~l~~H~~--------~h~~~-~~~~C~~C~~~~~~~~~l~~H~~ 63 (353)
..|+.|+..|...-....-.. +-.|. ..+.|+.||..|.-...+.-|-.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcC
Confidence 479999998865432211111 11222 34899999999887777666643
No 145
>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=49.89 E-value=7.2 Score=26.82 Aligned_cols=13 Identities=15% Similarity=0.429 Sum_probs=8.9
Q ss_pred eeeCCCCCCccCC
Q psy1798 295 MYRCFVCPYLSRH 307 (353)
Q Consensus 295 ~~~C~~C~~~f~~ 307 (353)
-++|.-|++.|.-
T Consensus 53 IW~C~~C~~~~AG 65 (90)
T PF01780_consen 53 IWKCKKCGKKFAG 65 (90)
T ss_dssp EEEETTTTEEEE-
T ss_pred EeecCCCCCEEeC
Confidence 3788888877753
No 146
>KOG2272|consensus
Probab=49.37 E-value=6.2 Score=32.53 Aligned_cols=52 Identities=13% Similarity=0.309 Sum_probs=27.9
Q ss_pred cccCCCCcccccchhhhhhhhcccccccccccccccCccccccccCCCcccc
Q psy1798 43 YECNLCDYKATQNSSIHFHMKVGVQAIFTSENVVLSGLHSCVHCYGDLSSAT 94 (353)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~c~~c~~~~~~~~ 94 (353)
|.|.+|.+......-++.--+.-...-...+++.+.+.|.|..|...+....
T Consensus 100 F~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~ 151 (332)
T KOG2272|consen 100 FRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQP 151 (332)
T ss_pred chhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccccc
Confidence 7778887766655544332211111112334555566778887766665543
No 147
>PRK04023 DNA polymerase II large subunit; Validated
Probab=48.93 E-value=17 Score=36.82 Aligned_cols=11 Identities=18% Similarity=0.507 Sum_probs=6.1
Q ss_pred CcCCCCCCccc
Q psy1798 234 PFPCDMCEYSA 244 (353)
Q Consensus 234 ~~~C~~C~~~f 244 (353)
++.|+.|+..-
T Consensus 663 ~y~CPKCG~El 673 (1121)
T PRK04023 663 EDECEKCGREP 673 (1121)
T ss_pred CCcCCCCCCCC
Confidence 35566666443
No 148
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=48.54 E-value=13 Score=25.53 Aligned_cols=14 Identities=14% Similarity=0.237 Sum_probs=9.8
Q ss_pred ceeeCCCCCCccCC
Q psy1798 294 IMYRCFVCPYLSRH 307 (353)
Q Consensus 294 ~~~~C~~C~~~f~~ 307 (353)
..+.|.-|++.|.-
T Consensus 53 GIW~C~~C~~~~AG 66 (90)
T PRK03976 53 GIWECRKCGAKFAG 66 (90)
T ss_pred EEEEcCCCCCEEeC
Confidence 44778888877754
No 149
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=48.51 E-value=8.7 Score=37.77 Aligned_cols=13 Identities=31% Similarity=0.547 Sum_probs=8.0
Q ss_pred cccCCCCcccccc
Q psy1798 43 YECNLCDYKATQN 55 (353)
Q Consensus 43 ~~C~~C~~~~~~~ 55 (353)
..|..||+.+...
T Consensus 436 l~C~~Cg~v~~Cp 448 (730)
T COG1198 436 LLCRDCGYIAECP 448 (730)
T ss_pred eecccCCCcccCC
Confidence 3578887775433
No 150
>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=48.15 E-value=12 Score=24.16 Aligned_cols=9 Identities=22% Similarity=0.718 Sum_probs=2.3
Q ss_pred eCCCCCCcc
Q psy1798 297 RCFVCPYLS 305 (353)
Q Consensus 297 ~C~~C~~~f 305 (353)
.|.+|+..|
T Consensus 11 ~C~~C~~~F 19 (69)
T PF01363_consen 11 NCMICGKKF 19 (69)
T ss_dssp B-TTT--B-
T ss_pred cCcCcCCcC
Confidence 344444444
No 151
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=47.82 E-value=11 Score=25.65 Aligned_cols=14 Identities=29% Similarity=0.816 Sum_probs=8.1
Q ss_pred CCccCCCCCccccC
Q psy1798 141 KPYACTECGYASIL 154 (353)
Q Consensus 141 ~~~~C~~C~~~f~~ 154 (353)
+|..|..||+.|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34566666666654
No 152
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=47.74 E-value=11 Score=19.74 Aligned_cols=21 Identities=14% Similarity=0.523 Sum_probs=6.0
Q ss_pred hcCCCCcCCCceecCCCCccC
Q psy1798 104 QCSRDTCIPGWFQCFRCRYSN 124 (353)
Q Consensus 104 ~~~~~~~~~~~~~C~~C~~~f 124 (353)
.|++...+...|.|.+|++.+
T Consensus 5 ~C~~~~~~~~~Y~C~~Cdf~l 25 (30)
T PF07649_consen 5 ACGKPIDGGWFYRCSECDFDL 25 (30)
T ss_dssp TTS----S--EEE-TTT----
T ss_pred cCCCcCCCCceEECccCCCcc
Confidence 333333333457787777644
No 153
>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=47.32 E-value=5.9 Score=22.03 Aligned_cols=8 Identities=25% Similarity=0.517 Sum_probs=3.6
Q ss_pred ccCCCCcc
Q psy1798 324 YECNLCDY 331 (353)
Q Consensus 324 ~~C~~C~~ 331 (353)
-.|..||-
T Consensus 22 ~~Cd~cg~ 29 (36)
T PF05191_consen 22 GVCDNCGG 29 (36)
T ss_dssp TBCTTTTE
T ss_pred CccCCCCC
Confidence 34444444
No 154
>KOG3362|consensus
Probab=46.55 E-value=11 Score=28.30 Aligned_cols=23 Identities=22% Similarity=0.407 Sum_probs=20.0
Q ss_pred CcccCCCCcccccchhhhhhhhc
Q psy1798 42 PYECNLCDYKATQNSSIHFHMKV 64 (353)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~H~~~ 64 (353)
+|.|.-||..|-+...+..|..+
T Consensus 129 ~ysC~~CG~kyCsv~C~~~HneT 151 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTHNET 151 (156)
T ss_pred hhHHHhcCCceeechhhhhcccc
Confidence 48899999999999999998754
No 155
>KOG1280|consensus
Probab=45.97 E-value=19 Score=31.41 Aligned_cols=41 Identities=20% Similarity=0.391 Sum_probs=30.5
Q ss_pred CCCcceeeCCCCCCccCCcchHHHHHHHhcCCCCc--cCCCCc
Q psy1798 290 RRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPY--ECNLCD 330 (353)
Q Consensus 290 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~--~C~~C~ 330 (353)
+-....|.|+.|+.-=.+...|..|+..-+.+.++ .|++|+
T Consensus 74 ~y~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 74 HYDPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 33345799999999999999999999866655443 456665
No 156
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=45.49 E-value=19 Score=20.49 Aligned_cols=11 Identities=36% Similarity=0.615 Sum_probs=8.6
Q ss_pred eeCCCCCCccC
Q psy1798 296 YRCFVCPYLSR 306 (353)
Q Consensus 296 ~~C~~C~~~f~ 306 (353)
|.|..|+..+.
T Consensus 29 y~C~~C~~~w~ 39 (40)
T smart00440 29 YVCTKCGHRWR 39 (40)
T ss_pred EEeCCCCCEeC
Confidence 88888887764
No 157
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=45.41 E-value=25 Score=36.65 Aligned_cols=21 Identities=19% Similarity=0.501 Sum_probs=13.0
Q ss_pred cCCCCCCccccchhHHHHhhhhccccCCCC
Q psy1798 235 FPCDMCEYSAAQKWNLKMHMHFLCHHCNRF 264 (353)
Q Consensus 235 ~~C~~C~~~f~~~~~l~~H~~~~C~~C~~~ 264 (353)
+.|+.||..-.. ..|+.||..
T Consensus 668 rkCPkCG~~t~~---------~fCP~CGs~ 688 (1337)
T PRK14714 668 RRCPSCGTETYE---------NRCPDCGTH 688 (1337)
T ss_pred EECCCCCCcccc---------ccCcccCCc
Confidence 678888864211 267777764
No 158
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=44.03 E-value=15 Score=38.10 Aligned_cols=8 Identities=38% Similarity=1.115 Sum_probs=4.8
Q ss_pred ccCccccc
Q psy1798 175 RHCVHCNK 182 (353)
Q Consensus 175 ~~c~~c~~ 182 (353)
..|+.||.
T Consensus 668 rkCPkCG~ 675 (1337)
T PRK14714 668 RRCPSCGT 675 (1337)
T ss_pred EECCCCCC
Confidence 45666665
No 159
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=43.86 E-value=87 Score=24.21 Aligned_cols=54 Identities=22% Similarity=0.212 Sum_probs=32.3
Q ss_pred ceecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCccc-cChHHHHHHHHHhcCC
Q psy1798 114 WFQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGYAS-ILSTDLRKHIERIHMP 168 (353)
Q Consensus 114 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f-~~~~~l~~H~~~~H~~ 168 (353)
...|+.|.-.......... .+.+.+.++-.|..-+=.| .+...|++|.+..|+.
T Consensus 80 ~L~CPLCRG~V~GWtvve~-AR~~LN~K~RsC~~e~C~F~GtY~eLrKHar~~HP~ 134 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVVEP-ARRFLNAKKRSCSQESCSFSGTYSELRKHARSEHPS 134 (162)
T ss_pred cccCccccCceeceEEchH-HHHHhccCCccCcccccccccCHHHHHHHHHhhCCC
Confidence 3789998543333332222 4555555555565533344 4566899999999976
No 160
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=43.69 E-value=6.2 Score=24.37 Aligned_cols=13 Identities=23% Similarity=0.427 Sum_probs=6.9
Q ss_pred CcceeeCCCCCCc
Q psy1798 292 NVIMYRCFVCPYL 304 (353)
Q Consensus 292 ~~~~~~C~~C~~~ 304 (353)
+...|-|..|...
T Consensus 28 Pi~tYmC~eC~~R 40 (56)
T PF09963_consen 28 PIHTYMCDECKER 40 (56)
T ss_pred CCcceeChhHHHH
Confidence 3345666666543
No 161
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=43.69 E-value=21 Score=24.24 Aligned_cols=13 Identities=15% Similarity=0.429 Sum_probs=8.1
Q ss_pred eeeCCCCCCccCC
Q psy1798 295 MYRCFVCPYLSRH 307 (353)
Q Consensus 295 ~~~C~~C~~~f~~ 307 (353)
-+.|.-||..|.-
T Consensus 53 IW~C~kCg~~fAG 65 (89)
T COG1997 53 IWKCRKCGAKFAG 65 (89)
T ss_pred eEEcCCCCCeecc
Confidence 3667777766653
No 162
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=43.23 E-value=10 Score=26.58 Aligned_cols=34 Identities=12% Similarity=0.205 Sum_probs=22.8
Q ss_pred cceeccCCCCceeecCCCCCccCchhhhhhHhhh
Q psy1798 3 IAYLNDRRNVIMYRCFVCPYLSRHKGDVKKHVRK 36 (353)
Q Consensus 3 ~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 36 (353)
+.+..+.++...+=|-.|.+.|.+...|+.|.+.
T Consensus 44 lp~Dp~lPGlGqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 44 LPYDPELPGLGQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred CCCCCCCCCCceeeeehhHHHHHHHHHHHHHhcc
Confidence 3455566666667777777777777777777653
No 163
>PRK14873 primosome assembly protein PriA; Provisional
Probab=42.16 E-value=19 Score=35.32 Aligned_cols=9 Identities=22% Similarity=0.586 Sum_probs=4.9
Q ss_pred eecCCCCcc
Q psy1798 115 FQCFRCRYS 123 (353)
Q Consensus 115 ~~C~~C~~~ 123 (353)
.+|+.|+-.
T Consensus 393 ~~C~~C~~~ 401 (665)
T PRK14873 393 ARCRHCTGP 401 (665)
T ss_pred eECCCCCCc
Confidence 556666543
No 164
>KOG3507|consensus
Probab=41.54 E-value=27 Score=21.70 Aligned_cols=36 Identities=22% Similarity=0.465 Sum_probs=24.0
Q ss_pred CCCCceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccc
Q psy1798 9 RRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQN 55 (353)
Q Consensus 9 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~ 55 (353)
......|.|..|+..-.-+ ...++.|..||+.--.+
T Consensus 15 r~~~miYiCgdC~~en~lk-----------~~D~irCReCG~RIlyK 50 (62)
T KOG3507|consen 15 RTATMIYICGDCGQENTLK-----------RGDVIRCRECGYRILYK 50 (62)
T ss_pred CcccEEEEecccccccccc-----------CCCcEehhhcchHHHHH
Confidence 4456789999998743221 23468899999875433
No 165
>COG4640 Predicted membrane protein [Function unknown]
Probab=41.33 E-value=18 Score=32.14 Aligned_cols=25 Identities=8% Similarity=0.102 Sum_probs=19.3
Q ss_pred CCCcceeeCCCCCCccCCcchHHHH
Q psy1798 290 RRNVIMYRCFVCPYLSRHKGDVKKH 314 (353)
Q Consensus 290 ~~~~~~~~C~~C~~~f~~~~~l~~H 314 (353)
+..+..++|..||..|.+.+++..-
T Consensus 10 qk~Ed~~qC~qCG~~~t~~~sqan~ 34 (465)
T COG4640 10 QKAEDDVQCTQCGHKFTSRQSQANK 34 (465)
T ss_pred ccccccccccccCCcCCchhhhhhH
Confidence 4445556799999999998887663
No 166
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=40.50 E-value=4.3 Score=39.02 Aligned_cols=28 Identities=21% Similarity=0.488 Sum_probs=17.4
Q ss_pred CCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 298 CFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 298 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
|+.|.+.+.+...-. .| .+|.-|+.||=
T Consensus 154 C~~C~~EY~dP~nRR----fH--AQp~aCp~CGP 181 (750)
T COG0068 154 CPFCDKEYKDPLNRR----FH--AQPIACPKCGP 181 (750)
T ss_pred CHHHHHHhcCccccc----cc--cccccCcccCC
Confidence 777777777665422 23 35667777773
No 167
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=40.39 E-value=13 Score=28.37 Aligned_cols=36 Identities=31% Similarity=0.575 Sum_probs=24.6
Q ss_pred CcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCccc
Q psy1798 292 NVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 332 (353)
Q Consensus 292 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 332 (353)
..-+|.|. |+..|-+.. +|-.+-.++ .|.|..|+-.
T Consensus 114 ~~~~Y~C~-C~q~~l~~R---Rhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 114 TTYPYRCQ-CQQHYLRIR---RHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred cceeEEee-cCCccchhh---hcccccccc-eEEeccCCce
Confidence 44579999 999986553 343333444 7999999853
No 168
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=39.82 E-value=31 Score=19.76 Aligned_cols=9 Identities=22% Similarity=0.552 Sum_probs=3.7
Q ss_pred ccccchhhc
Q psy1798 208 QCYLCLYIT 216 (353)
Q Consensus 208 ~C~~C~~~f 216 (353)
+|+.||..|
T Consensus 15 ~C~~CgM~Y 23 (41)
T PF13878_consen 15 TCPTCGMLY 23 (41)
T ss_pred CCCCCCCEE
Confidence 344444443
No 169
>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=39.71 E-value=25 Score=17.53 Aligned_cols=7 Identities=29% Similarity=1.132 Sum_probs=3.5
Q ss_pred cccCCCC
Q psy1798 43 YECNLCD 49 (353)
Q Consensus 43 ~~C~~C~ 49 (353)
|.|+.||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 4555554
No 170
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=39.02 E-value=30 Score=21.28 Aligned_cols=13 Identities=15% Similarity=0.053 Sum_probs=8.4
Q ss_pred cceeeCCCCCCcc
Q psy1798 293 VIMYRCFVCPYLS 305 (353)
Q Consensus 293 ~~~~~C~~C~~~f 305 (353)
+....|+.|+..+
T Consensus 19 dDiVvCp~Cgapy 31 (54)
T PF14446_consen 19 DDIVVCPECGAPY 31 (54)
T ss_pred CCEEECCCCCCcc
Confidence 3346777777764
No 171
>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=38.64 E-value=23 Score=21.70 Aligned_cols=13 Identities=15% Similarity=0.219 Sum_probs=7.2
Q ss_pred eeeCCCCCCccCC
Q psy1798 295 MYRCFVCPYLSRH 307 (353)
Q Consensus 295 ~~~C~~C~~~f~~ 307 (353)
.+.|..||..|-.
T Consensus 18 k~~Cr~Cg~~~C~ 30 (57)
T cd00065 18 RHHCRNCGRIFCS 30 (57)
T ss_pred ccccCcCcCCcCh
Confidence 3556666666543
No 172
>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=37.36 E-value=34 Score=17.91 Aligned_cols=9 Identities=33% Similarity=1.121 Sum_probs=6.3
Q ss_pred eeeCCCCCC
Q psy1798 295 MYRCFVCPY 303 (353)
Q Consensus 295 ~~~C~~C~~ 303 (353)
.|.|..|..
T Consensus 15 ~Y~C~~c~f 23 (30)
T PF03107_consen 15 FYHCSECCF 23 (30)
T ss_pred eEEeCCCCC
Confidence 577877773
No 173
>KOG2593|consensus
Probab=37.05 E-value=30 Score=31.35 Aligned_cols=21 Identities=24% Similarity=0.419 Sum_probs=16.3
Q ss_pred CCCCcccCCCCcccccchhhh
Q psy1798 39 GEKPYECNLCDYKATQNSSIH 59 (353)
Q Consensus 39 ~~~~~~C~~C~~~~~~~~~l~ 59 (353)
....|.|+.|++.|+....++
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~ 145 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQ 145 (436)
T ss_pred ccccccCCccccchhhhHHHH
Confidence 345599999999998887663
No 174
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.16 E-value=16 Score=24.05 Aligned_cols=31 Identities=23% Similarity=0.554 Sum_probs=20.3
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCc-cCCCCcccc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPY-ECNLCDYKA 333 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~-~C~~C~~~f 333 (353)
.|+|..|+..|. +.+|+ .+.|+ .|+.|+..+
T Consensus 12 ~Y~c~~cg~~~d----vvq~~----~ddplt~ce~c~a~~ 43 (82)
T COG2331 12 SYECTECGNRFD----VVQAM----TDDPLTTCEECGARL 43 (82)
T ss_pred EEeecccchHHH----HHHhc----ccCccccChhhChHH
Confidence 499999998874 22332 34554 688888644
No 175
>KOG2593|consensus
Probab=35.62 E-value=25 Score=31.87 Aligned_cols=38 Identities=18% Similarity=0.345 Sum_probs=26.9
Q ss_pred CCCcceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCc
Q psy1798 290 RRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCD 330 (353)
Q Consensus 290 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 330 (353)
.++...|.|+.|.+.|+...++. ..-.....|.|..|+
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCG 160 (436)
T ss_pred ccccccccCCccccchhhhHHHH---hhcccCceEEEecCC
Confidence 55666799999999998665443 223334578999998
No 176
>KOG3408|consensus
Probab=35.60 E-value=27 Score=25.40 Aligned_cols=27 Identities=22% Similarity=0.267 Sum_probs=22.8
Q ss_pred cCCCceecCCCCccCCCchhHHHHHhh
Q psy1798 110 CIPGWFQCFRCRYSNKFRSNFLRHIRT 136 (353)
Q Consensus 110 ~~~~~~~C~~C~~~f~~~~~l~~H~~~ 136 (353)
.+-+.|.|-.|.+.|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 344569999999999999999999875
No 177
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=35.36 E-value=26 Score=19.84 Aligned_cols=12 Identities=25% Similarity=0.404 Sum_probs=7.5
Q ss_pred ceecCCCCccCC
Q psy1798 114 WFQCFRCRYSNK 125 (353)
Q Consensus 114 ~~~C~~C~~~f~ 125 (353)
++.|..|+..|=
T Consensus 12 ~f~C~~C~~~FC 23 (39)
T smart00154 12 GFKCRHCGNLFC 23 (39)
T ss_pred CeECCccCCccc
Confidence 466666666664
No 178
>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=35.16 E-value=21 Score=20.57 Aligned_cols=14 Identities=21% Similarity=0.403 Sum_probs=8.2
Q ss_pred cCCCCcccccCchH
Q psy1798 325 ECNLCDYKATQNSS 338 (353)
Q Consensus 325 ~C~~C~~~f~~~~~ 338 (353)
.|.+||..|++...
T Consensus 10 ~C~~C~rpf~WRKK 23 (42)
T PF10013_consen 10 ICPVCGRPFTWRKK 23 (42)
T ss_pred cCcccCCcchHHHH
Confidence 46666666665443
No 179
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=35.08 E-value=24 Score=26.15 Aligned_cols=12 Identities=17% Similarity=0.855 Sum_probs=6.6
Q ss_pred ccCccccccccc
Q psy1798 175 RHCVHCNKEMHN 186 (353)
Q Consensus 175 ~~c~~c~~~~~~ 186 (353)
.+|..||+.|.+
T Consensus 2 H~Ct~Cg~~f~d 13 (131)
T PF09845_consen 2 HQCTKCGRVFED 13 (131)
T ss_pred cccCcCCCCcCC
Confidence 455556655554
No 180
>KOG4167|consensus
Probab=33.92 E-value=8.3 Score=37.13 Aligned_cols=25 Identities=16% Similarity=0.390 Sum_probs=23.1
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHT 319 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~ 319 (353)
-|.|.+|++.|....++..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4999999999999999999999985
No 181
>KOG4124|consensus
Probab=33.80 E-value=14 Score=32.27 Aligned_cols=53 Identities=25% Similarity=0.572 Sum_probs=39.0
Q ss_pred CCceeecCC--CCCccCchhhhhhHhhh-h------------------cCCCCcccCCCCcccccchhhhhhhh
Q psy1798 11 NVIMYRCFV--CPYLSRHKGDVKKHVRK-H------------------TGEKPYECNLCDYKATQNSSIHFHMK 63 (353)
Q Consensus 11 ~~~~~~C~~--C~~~f~~~~~l~~H~~~-h------------------~~~~~~~C~~C~~~~~~~~~l~~H~~ 63 (353)
.+++|+|++ |++.+.+...|..|-.. | ...++|+|++|.+++.....|..|+.
T Consensus 346 ~~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 346 VDKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred ecCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceee
Confidence 367788865 99999888888766432 2 12578999999999888877776653
No 182
>PRK04351 hypothetical protein; Provisional
Probab=33.61 E-value=27 Score=26.87 Aligned_cols=33 Identities=30% Similarity=0.593 Sum_probs=23.1
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcccccC
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQ 335 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 335 (353)
.|.|..||..+... +++ +...|.|..|+-.+..
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKRYRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCcEEeCCCCcEeee
Confidence 59999999877532 233 3477999999976543
No 183
>PRK12496 hypothetical protein; Provisional
Probab=33.56 E-value=26 Score=27.46 Aligned_cols=8 Identities=25% Similarity=0.600 Sum_probs=3.8
Q ss_pred eCCCCCCc
Q psy1798 297 RCFVCPYL 304 (353)
Q Consensus 297 ~C~~C~~~ 304 (353)
.|++||..
T Consensus 145 ~C~~CG~~ 152 (164)
T PRK12496 145 VCEICGSP 152 (164)
T ss_pred cCCCCCCh
Confidence 35555544
No 184
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.44 E-value=32 Score=32.61 Aligned_cols=8 Identities=38% Similarity=1.007 Sum_probs=4.4
Q ss_pred ccCCCCcc
Q psy1798 44 ECNLCDYK 51 (353)
Q Consensus 44 ~C~~C~~~ 51 (353)
.|..||+.
T Consensus 215 ~C~~Cg~~ 222 (505)
T TIGR00595 215 LCRSCGYI 222 (505)
T ss_pred EhhhCcCc
Confidence 45556554
No 185
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=32.92 E-value=19 Score=27.40 Aligned_cols=18 Identities=22% Similarity=0.320 Sum_probs=13.8
Q ss_pred CCcccCCCCcccccchhh
Q psy1798 41 KPYECNLCDYKATQNSSI 58 (353)
Q Consensus 41 ~~~~C~~C~~~~~~~~~l 58 (353)
+.-.|..|+..|++-...
T Consensus 27 RRReC~~C~~RFTTfE~~ 44 (156)
T COG1327 27 RRRECLECGERFTTFERA 44 (156)
T ss_pred hhhcccccccccchhhee
Confidence 446799999999887653
No 186
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=32.68 E-value=24 Score=21.22 Aligned_cols=15 Identities=20% Similarity=0.784 Sum_probs=7.3
Q ss_pred CccCCCCCccccChH
Q psy1798 142 PYACTECGYASILST 156 (353)
Q Consensus 142 ~~~C~~C~~~f~~~~ 156 (353)
.+.|..||..|....
T Consensus 4 ~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 4 TLTCKDCGAEFVFTA 18 (49)
T ss_pred eEEcccCCCeEEEeh
Confidence 344555555554443
No 187
>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=32.57 E-value=30 Score=32.72 Aligned_cols=9 Identities=44% Similarity=1.228 Sum_probs=4.4
Q ss_pred CccCCCCCc
Q psy1798 142 PYACTECGY 150 (353)
Q Consensus 142 ~~~C~~C~~ 150 (353)
...|..||.
T Consensus 240 ~l~Ch~Cg~ 248 (505)
T TIGR00595 240 KLRCHYCGY 248 (505)
T ss_pred eEEcCCCcC
Confidence 345555544
No 188
>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=32.02 E-value=10 Score=19.73 Aligned_cols=17 Identities=24% Similarity=0.380 Sum_probs=6.9
Q ss_pred CCCCcccccCchHHHHHH
Q psy1798 326 CNLCDYKATQNSSIHFHM 343 (353)
Q Consensus 326 C~~C~~~f~~~~~l~~H~ 343 (353)
|-.|++.| +......|.
T Consensus 3 CiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 3 CIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp ETTTTEEE-EGGGTTT--
T ss_pred eecCCCCc-CcCCcCCCC
Confidence 44555555 333344443
No 189
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=31.91 E-value=19 Score=25.24 Aligned_cols=40 Identities=18% Similarity=0.217 Sum_probs=26.1
Q ss_pred CceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccc
Q psy1798 12 VIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQN 55 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~ 55 (353)
++.|.|+.||..-...-.++.- .+.....|..||.+|...
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk~----~~~g~~~Cg~CGls~e~e 59 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKKT----VNIGTAVCGNCGLSFECE 59 (104)
T ss_pred CceEecCccCCeeeeEEEEEec----CceeEEEcccCcceEEEe
Confidence 6789999999876665443322 122336799998887544
No 190
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=31.81 E-value=26 Score=31.80 Aligned_cols=14 Identities=36% Similarity=0.802 Sum_probs=8.1
Q ss_pred ccccccchhhccCH
Q psy1798 206 GFQCYLCLYITRQS 219 (353)
Q Consensus 206 ~~~C~~C~~~f~~~ 219 (353)
.|+|+.|++.+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 56666666665543
No 191
>KOG4727|consensus
Probab=31.51 E-value=26 Score=27.18 Aligned_cols=25 Identities=36% Similarity=0.511 Sum_probs=22.0
Q ss_pred CCceecCCCCccCCCchhHHHHHhh
Q psy1798 112 PGWFQCFRCRYSNKFRSNFLRHIRT 136 (353)
Q Consensus 112 ~~~~~C~~C~~~f~~~~~l~~H~~~ 136 (353)
...|.|.+|+-++.+..++..|++-
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHiNg 97 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHING 97 (193)
T ss_pred cCceeeeecceeehhhHHHHHHhcc
Confidence 3459999999999999999999863
No 192
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=31.28 E-value=31 Score=31.97 Aligned_cols=34 Identities=12% Similarity=0.280 Sum_probs=24.6
Q ss_pred cccCCCcceeeCCCCCCccCCcchHHHHHH-HhcC
Q psy1798 287 LNDRRNVIMYRCFVCPYLSRHKGDVKKHVR-KHTG 320 (353)
Q Consensus 287 ~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~-~h~~ 320 (353)
.......+-+.|+.|.+.|.+...+..|+. .|.+
T Consensus 49 ak~n~sWrFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 49 AKENKSWRFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred HHhcCceeEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 333555566888888888888888888886 5543
No 193
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=30.95 E-value=24 Score=19.93 Aligned_cols=10 Identities=30% Similarity=0.550 Sum_probs=8.1
Q ss_pred eeCCCCCCcc
Q psy1798 296 YRCFVCPYLS 305 (353)
Q Consensus 296 ~~C~~C~~~f 305 (353)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 8888888765
No 194
>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 KOG0978|consensus
Probab=30.15 E-value=29 Score=33.82 Aligned_cols=50 Identities=20% Similarity=0.330 Sum_probs=31.9
Q ss_pred ceeecCCCCCccCchhhhh-hHhh------hhcCCCCcccCCCCcccccchhhhhhh
Q psy1798 13 IMYRCFVCPYLSRHKGDVK-KHVR------KHTGEKPYECNLCDYKATQNSSIHFHM 62 (353)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~-~H~~------~h~~~~~~~C~~C~~~~~~~~~l~~H~ 62 (353)
...+|+.|+..+...--.. .|+- ....-+.-+||.|+..|+..+.+..|+
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccCC
Confidence 4578999996665443322 2432 222334568999999999887766653
No 196
>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=30.15 E-value=24 Score=26.88 Aligned_cols=19 Identities=21% Similarity=0.315 Sum_probs=14.7
Q ss_pred CCcccCCCCcccccchhhh
Q psy1798 41 KPYECNLCDYKATQNSSIH 59 (353)
Q Consensus 41 ~~~~C~~C~~~~~~~~~l~ 59 (353)
+.-.|..|++.|++...+.
T Consensus 27 RRReC~~C~~RFTTyErve 45 (147)
T TIGR00244 27 RRRECLECHERFTTFERAE 45 (147)
T ss_pred ecccCCccCCccceeeecc
Confidence 3467999999999887653
No 197
>PRK14873 primosome assembly protein PriA; Provisional
Probab=30.01 E-value=30 Score=33.98 Aligned_cols=10 Identities=20% Similarity=0.428 Sum_probs=5.8
Q ss_pred ccccccchhh
Q psy1798 206 GFQCYLCLYI 215 (353)
Q Consensus 206 ~~~C~~C~~~ 215 (353)
+..|+.|+..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 4566666654
No 198
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=29.68 E-value=26 Score=25.44 Aligned_cols=25 Identities=16% Similarity=0.430 Sum_probs=15.3
Q ss_pred eeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 295 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 295 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
.+.|..||..|.... ..+.|+.||.
T Consensus 70 ~~~C~~Cg~~~~~~~------------~~~~CP~Cgs 94 (113)
T PRK12380 70 QAWCWDCSQVVEIHQ------------HDAQCPHCHG 94 (113)
T ss_pred EEEcccCCCEEecCC------------cCccCcCCCC
Confidence 467777777776432 2345777773
No 199
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=29.43 E-value=43 Score=20.19 Aligned_cols=9 Identities=33% Similarity=0.951 Sum_probs=4.2
Q ss_pred eeCCCCCCc
Q psy1798 296 YRCFVCPYL 304 (353)
Q Consensus 296 ~~C~~C~~~ 304 (353)
+.|..||..
T Consensus 38 ~~C~~Cgyt 46 (50)
T PRK00432 38 WHCGKCGYT 46 (50)
T ss_pred EECCCcCCE
Confidence 444444443
No 200
>PF12773 DZR: Double zinc ribbon
Probab=29.36 E-value=50 Score=19.56 Aligned_cols=11 Identities=18% Similarity=0.033 Sum_probs=6.3
Q ss_pred cccccchhhcc
Q psy1798 207 FQCYLCLYITR 217 (353)
Q Consensus 207 ~~C~~C~~~f~ 217 (353)
-.|+.||..+.
T Consensus 13 ~fC~~CG~~l~ 23 (50)
T PF12773_consen 13 KFCPHCGTPLP 23 (50)
T ss_pred cCChhhcCChh
Confidence 34666666554
No 201
>KOG2907|consensus
Probab=29.34 E-value=35 Score=24.48 Aligned_cols=12 Identities=33% Similarity=0.766 Sum_probs=7.9
Q ss_pred eeCCCCCCccCC
Q psy1798 296 YRCFVCPYLSRH 307 (353)
Q Consensus 296 ~~C~~C~~~f~~ 307 (353)
|.|..|++.|+.
T Consensus 103 YTC~kC~~k~~e 114 (116)
T KOG2907|consen 103 YTCPKCKYKFTE 114 (116)
T ss_pred EEcCccceeeec
Confidence 677777776653
No 202
>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=29.23 E-value=41 Score=18.93 Aligned_cols=12 Identities=33% Similarity=0.750 Sum_probs=5.0
Q ss_pred CccCCCCccccc
Q psy1798 323 PYECNLCDYKAT 334 (353)
Q Consensus 323 ~~~C~~C~~~f~ 334 (353)
.|.|.+|+.-|+
T Consensus 3 ryyCdyC~~~~~ 14 (38)
T PF06220_consen 3 RYYCDYCKKYLT 14 (38)
T ss_dssp S-B-TTT--B-S
T ss_pred Ceecccccceec
Confidence 477888888773
No 203
>KOG4167|consensus
Probab=28.92 E-value=14 Score=35.69 Aligned_cols=25 Identities=24% Similarity=0.293 Sum_probs=16.1
Q ss_pred CcccCCCCcccccchhhhhhhhccc
Q psy1798 42 PYECNLCDYKATQNSSIHFHMKVGV 66 (353)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~H~~~~~ 66 (353)
-|-|.+|++.|.-...+..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3666666666666666666666643
No 204
>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=28.75 E-value=30 Score=25.12 Aligned_cols=27 Identities=19% Similarity=0.272 Sum_probs=17.5
Q ss_pred ceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcc
Q psy1798 13 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 51 (353)
Q Consensus 13 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 51 (353)
..++|..||..|...... +.||.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~~------------~~CP~Cgs~ 95 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEFD------------FSCPRCGSP 95 (113)
T ss_dssp -EEEETTTS-EEECHHCC------------HH-SSSSSS
T ss_pred CcEECCCCCCEEecCCCC------------CCCcCCcCC
Confidence 457899999999765332 459999865
No 205
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=27.95 E-value=52 Score=24.87 Aligned_cols=11 Identities=36% Similarity=1.053 Sum_probs=6.6
Q ss_pred cCCCCCCcccc
Q psy1798 235 FPCDMCEYSAA 245 (353)
Q Consensus 235 ~~C~~C~~~f~ 245 (353)
|.|..||..-.
T Consensus 82 ~~CE~CG~~I~ 92 (137)
T TIGR03826 82 YPCERCGTSIR 92 (137)
T ss_pred CcccccCCcCC
Confidence 56666665543
No 206
>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=27.84 E-value=29 Score=19.82 Aligned_cols=20 Identities=25% Similarity=0.178 Sum_probs=11.2
Q ss_pred hcccCCCcceeeCCCCCCcc
Q psy1798 286 YLNDRRNVIMYRCFVCPYLS 305 (353)
Q Consensus 286 ~~~~~~~~~~~~C~~C~~~f 305 (353)
+++-....++-.|+.|+..|
T Consensus 20 yl~l~~~~~~~~CpYCg~~y 39 (40)
T PF10276_consen 20 YLNLDDEPGPVVCPYCGTRY 39 (40)
T ss_dssp EEE-TTTTCEEEETTTTEEE
T ss_pred EEecCCCCCeEECCCCCCEE
Confidence 33334433466777777665
No 207
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.70 E-value=36 Score=24.20 Aligned_cols=13 Identities=0% Similarity=-0.481 Sum_probs=6.2
Q ss_pred Ccccccccchhhc
Q psy1798 204 TVGFQCYLCLYIT 216 (353)
Q Consensus 204 ~~~~~C~~C~~~f 216 (353)
+.|..|+.||++|
T Consensus 24 rdPiVsPytG~s~ 36 (129)
T COG4530 24 RDPIVSPYTGKSY 36 (129)
T ss_pred CCccccCcccccc
Confidence 3344455555554
No 208
>KOG0402|consensus
Probab=27.29 E-value=38 Score=22.76 Aligned_cols=12 Identities=17% Similarity=0.656 Sum_probs=7.3
Q ss_pred eeeCCCCCCccC
Q psy1798 295 MYRCFVCPYLSR 306 (353)
Q Consensus 295 ~~~C~~C~~~f~ 306 (353)
-+.|.-|.+.|.
T Consensus 54 iW~C~~C~kv~a 65 (92)
T KOG0402|consen 54 IWKCGSCKKVVA 65 (92)
T ss_pred EEecCCccceec
Confidence 366666666653
No 209
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=26.99 E-value=19 Score=20.69 Aligned_cols=6 Identities=33% Similarity=1.231 Sum_probs=1.2
Q ss_pred eeCCCC
Q psy1798 296 YRCFVC 301 (353)
Q Consensus 296 ~~C~~C 301 (353)
+.|++|
T Consensus 37 ~~CP~C 42 (42)
T PF15227_consen 37 FSCPEC 42 (42)
T ss_dssp ---SSS
T ss_pred CCCcCC
Confidence 444433
No 210
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=26.85 E-value=32 Score=19.58 Aligned_cols=18 Identities=11% Similarity=0.100 Sum_probs=11.4
Q ss_pred CcccCCCCcccccchhhh
Q psy1798 42 PYECNLCDYKATQNSSIH 59 (353)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~ 59 (353)
...|+.|+-.+.....|.
T Consensus 19 id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGELE 36 (41)
T ss_pred EEECCCCCeEEccHHHHH
Confidence 356777776666665553
No 211
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=26.54 E-value=49 Score=30.66 Aligned_cols=29 Identities=24% Similarity=0.370 Sum_probs=24.5
Q ss_pred CCccCCCCcccccCchHHHHHHhhhcCCC
Q psy1798 322 KPYECNLCDYKATQNSSIHFHMKLKHNMP 350 (353)
Q Consensus 322 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 350 (353)
+-+.|+.|.+.|.+...+..|+...|-..
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 34789999999999999999998777544
No 212
>COG1773 Rubredoxin [Energy production and conversion]
Probab=26.49 E-value=28 Score=21.46 Aligned_cols=17 Identities=29% Similarity=0.641 Sum_probs=10.9
Q ss_pred eeecCCCCCccCchhhh
Q psy1798 14 MYRCFVCPYLSRHKGDV 30 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l 30 (353)
.|+|..||.+|.....-
T Consensus 3 ~~~C~~CG~vYd~e~Gd 19 (55)
T COG1773 3 RWRCSVCGYVYDPEKGD 19 (55)
T ss_pred ceEecCCceEeccccCC
Confidence 56777777777655443
No 213
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=26.27 E-value=27 Score=33.93 Aligned_cols=30 Identities=33% Similarity=0.464 Sum_probs=21.4
Q ss_pred eecCCCCccCCCchhHHHHHhhhcCCCCccCCCCCc
Q psy1798 115 FQCFRCRYSNKFRSNFLRHIRTHTGHKPYACTECGY 150 (353)
Q Consensus 115 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 150 (353)
-.|+.|.+.|.++.+-+-|. +|..|+.||-
T Consensus 152 ~lC~~C~~EY~dP~nRRfHA------Qp~aCp~CGP 181 (750)
T COG0068 152 PLCPFCDKEYKDPLNRRFHA------QPIACPKCGP 181 (750)
T ss_pred cCCHHHHHHhcCcccccccc------ccccCcccCC
Confidence 46888888888777744442 3678888885
No 214
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.22 E-value=19 Score=22.49 Aligned_cols=16 Identities=19% Similarity=0.291 Sum_probs=9.2
Q ss_pred CcceeeCCCCCCccCC
Q psy1798 292 NVIMYRCFVCPYLSRH 307 (353)
Q Consensus 292 ~~~~~~C~~C~~~f~~ 307 (353)
+.+.|-|+.|......
T Consensus 28 PIrtymC~eC~~Rva~ 43 (68)
T COG4896 28 PIRTYMCPECEHRVAI 43 (68)
T ss_pred CceeEechhhHhhhch
Confidence 3445777777655443
No 215
>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=26.19 E-value=63 Score=18.90 Aligned_cols=8 Identities=38% Similarity=0.978 Sum_probs=4.2
Q ss_pred cCCCCCCc
Q psy1798 235 FPCDMCEY 242 (353)
Q Consensus 235 ~~C~~C~~ 242 (353)
+.||.|+.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 44555553
No 216
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=26.13 E-value=68 Score=19.59 Aligned_cols=14 Identities=14% Similarity=0.368 Sum_probs=7.9
Q ss_pred eeecCCCCCccCch
Q psy1798 14 MYRCFVCPYLSRHK 27 (353)
Q Consensus 14 ~~~C~~C~~~f~~~ 27 (353)
..+|+.||..|...
T Consensus 28 ~W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 28 WWKCPKCGHEWKAS 41 (55)
T ss_pred EEECCCCCCeeEcc
Confidence 34666666655444
No 217
>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=26.06 E-value=34 Score=24.93 Aligned_cols=26 Identities=23% Similarity=0.431 Sum_probs=17.0
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCcc
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDY 331 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 331 (353)
....|..|+..|.-... .+.|+.||.
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs 94 (115)
T TIGR00100 69 VECECEDCSEEVSPEID------------LYRCPKCHG 94 (115)
T ss_pred cEEEcccCCCEEecCCc------------CccCcCCcC
Confidence 34778888888865432 356888874
No 218
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=25.94 E-value=41 Score=16.90 Aligned_cols=9 Identities=33% Similarity=0.896 Sum_probs=5.1
Q ss_pred ccCcccccc
Q psy1798 175 RHCVHCNKE 183 (353)
Q Consensus 175 ~~c~~c~~~ 183 (353)
..|+.||..
T Consensus 3 ~~Cp~Cg~~ 11 (26)
T PF13248_consen 3 MFCPNCGAE 11 (26)
T ss_pred CCCcccCCc
Confidence 346666663
No 219
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=25.90 E-value=56 Score=28.15 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=14.9
Q ss_pred CccCCCCCccccChHHHHHHHHHhc
Q psy1798 142 PYACTECGYASILSTDLRKHIERIH 166 (353)
Q Consensus 142 ~~~C~~C~~~f~~~~~l~~H~~~~H 166 (353)
.|+|+.|...|-..-++..| ...|
T Consensus 388 rY~Ce~CK~~FC~dCdvfiH-e~Lh 411 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIH-ETLH 411 (421)
T ss_pred ceechhhhhhhhhhhHHHHH-HHHh
Confidence 46666666666666666666 4444
No 220
>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=25.48 E-value=11 Score=32.78 Aligned_cols=8 Identities=25% Similarity=0.783 Sum_probs=2.4
Q ss_pred ccCCCCcc
Q psy1798 44 ECNLCDYK 51 (353)
Q Consensus 44 ~C~~C~~~ 51 (353)
.||.||..
T Consensus 174 ~CPvCGs~ 181 (290)
T PF04216_consen 174 YCPVCGSP 181 (290)
T ss_dssp S-TTT---
T ss_pred cCCCCCCc
Confidence 46666643
No 221
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=25.45 E-value=46 Score=30.34 Aligned_cols=30 Identities=20% Similarity=0.497 Sum_probs=22.5
Q ss_pred ecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccch
Q psy1798 16 RCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQNS 56 (353)
Q Consensus 16 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~~ 56 (353)
.|+.||....+. |..-|+|+.|++.+....
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 699998877665 334799999998876554
No 222
>KOG0717|consensus
Probab=25.35 E-value=32 Score=31.51 Aligned_cols=22 Identities=14% Similarity=0.339 Sum_probs=16.6
Q ss_pred ccCCCCcccccCchHHHHHHhh
Q psy1798 324 YECNLCDYKATQNSSIHFHMKL 345 (353)
Q Consensus 324 ~~C~~C~~~f~~~~~l~~H~~~ 345 (353)
+.|.+|.++|.+...|..|.+.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6688888888888888777543
No 223
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=24.90 E-value=40 Score=24.65 Aligned_cols=15 Identities=13% Similarity=0.399 Sum_probs=10.8
Q ss_pred ceeeCCCCCCccCCc
Q psy1798 294 IMYRCFVCPYLSRHK 308 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~ 308 (353)
..+.|..||..|.-.
T Consensus 70 ~~~~C~~Cg~~~~~~ 84 (117)
T PRK00564 70 VELECKDCSHVFKPN 84 (117)
T ss_pred CEEEhhhCCCccccC
Confidence 347788888888654
No 224
>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=24.90 E-value=33 Score=19.45 Aligned_cols=32 Identities=28% Similarity=0.520 Sum_probs=14.5
Q ss_pred eeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcc
Q psy1798 14 MYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYK 51 (353)
Q Consensus 14 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 51 (353)
+.+|..|+-.+.....+. .+.+.+.|..|+..
T Consensus 2 p~rC~~C~aylNp~~~~~------~~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQFD------DGGKTWICNFCGTK 33 (40)
T ss_dssp S-B-TTT--BS-TTSEEE------TTTTEEEETTT--E
T ss_pred ccccCCCCCEECCcceEc------CCCCEEECcCCCCc
Confidence 456777766554443332 24456888888764
No 225
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=24.80 E-value=34 Score=26.08 Aligned_cols=34 Identities=24% Similarity=0.429 Sum_probs=22.5
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCccccc
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKAT 334 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 334 (353)
-.|.|..|+..+. ++. .+.+...|.|..|+-.+.
T Consensus 111 ~~y~C~~C~~~~~------~~r-r~~~~~~y~C~~C~g~l~ 144 (146)
T smart00731 111 YPYRCTGCGQRYL------RVR-RSNNVSRYRCGKCGGKLI 144 (146)
T ss_pred EEEECCCCCCCCc------eEc-cccCcceEEcCCCCCEEE
Confidence 3689988998874 222 233336689999986653
No 226
>KOG2636|consensus
Probab=24.54 E-value=40 Score=30.65 Aligned_cols=24 Identities=33% Similarity=0.494 Sum_probs=19.7
Q ss_pred CceecCCCC-ccCCCchhHHHHHhh
Q psy1798 113 GWFQCFRCR-YSNKFRSNFLRHIRT 136 (353)
Q Consensus 113 ~~~~C~~C~-~~f~~~~~l~~H~~~ 136 (353)
..|.|++|| +++..+..+.+|...
T Consensus 400 ~ey~CEICGNy~Y~GrkaF~RHF~E 424 (497)
T KOG2636|consen 400 IEYNCEICGNYVYKGRKAFDRHFNE 424 (497)
T ss_pred cccceeeccCccccCcHHHHHHhHH
Confidence 348899997 888888888888875
No 227
>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=24.35 E-value=24 Score=27.23 Aligned_cols=33 Identities=30% Similarity=0.615 Sum_probs=22.3
Q ss_pred ceeeCCCCCCccCCcchHHHHHHHhcCCCCccCCCCccccc
Q psy1798 294 IMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKAT 334 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 334 (353)
-.|.|..|+..+.. |.++ +...|.|+.|+-.+.
T Consensus 122 ~~~~C~~C~~~~~r------~~~~--~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKR------HRRS--KRKRYRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeee------eccc--chhhEECCCCCCEEE
Confidence 35899999988743 3333 234489999986654
No 228
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=24.11 E-value=50 Score=28.63 Aligned_cols=38 Identities=24% Similarity=0.395 Sum_probs=26.0
Q ss_pred CCCCceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccc
Q psy1798 9 RRNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQN 55 (353)
Q Consensus 9 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~ 55 (353)
-+.+.+.+|+.|+...-.+. |. ...+.|+.|+..|.-.
T Consensus 33 ~p~~lw~kc~~C~~~~~~~~-l~--------~~~~vcp~c~~h~rlt 70 (296)
T CHL00174 33 KYKHLWVQCENCYGLNYKKF-LK--------SKMNICEQCGYHLKMS 70 (296)
T ss_pred CCCCCeeECCCccchhhHHH-HH--------HcCCCCCCCCCCcCCC
Confidence 34557889999998765543 32 2347899999877644
No 229
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=23.87 E-value=41 Score=20.15 Aligned_cols=9 Identities=33% Similarity=1.172 Sum_probs=4.7
Q ss_pred CcCCCCCCc
Q psy1798 234 PFPCDMCEY 242 (353)
Q Consensus 234 ~~~C~~C~~ 242 (353)
.+.|..|+.
T Consensus 37 R~~CGkCgy 45 (51)
T COG1998 37 RWACGKCGY 45 (51)
T ss_pred eeEeccccc
Confidence 455555554
No 230
>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=23.70 E-value=67 Score=20.61 Aligned_cols=11 Identities=27% Similarity=0.636 Sum_probs=7.6
Q ss_pred ceeeCCCCCCc
Q psy1798 294 IMYRCFVCPYL 304 (353)
Q Consensus 294 ~~~~C~~C~~~ 304 (353)
....|..||++
T Consensus 35 ~~v~C~~CGYT 45 (64)
T PF09855_consen 35 TTVSCTNCGYT 45 (64)
T ss_pred EEEECCCCCCE
Confidence 34668888875
No 231
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=23.48 E-value=51 Score=23.55 Aligned_cols=29 Identities=21% Similarity=0.360 Sum_probs=20.4
Q ss_pred ecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccc
Q psy1798 16 RCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQN 55 (353)
Q Consensus 16 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~ 55 (353)
.|+.|+..|.... ...|.|+.|+..+...
T Consensus 4 ~CP~C~seytY~d-----------g~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHD-----------GTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEec-----------CCeeECcccccccccc
Confidence 5888888776652 2348899988877654
No 232
>PF14369 zf-RING_3: zinc-finger
Probab=23.45 E-value=70 Score=17.57 Aligned_cols=10 Identities=30% Similarity=0.710 Sum_probs=6.9
Q ss_pred cCCCCCcccc
Q psy1798 144 ACTECGYASI 153 (353)
Q Consensus 144 ~C~~C~~~f~ 153 (353)
.||.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 5777777664
No 233
>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=22.99 E-value=18 Score=21.38 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=22.8
Q ss_pred ecCCCCCccCchhhhhhHhhhhcCCCCcccCC--CCcccccchh
Q psy1798 16 RCFVCPYLSRHKGDVKKHVRKHTGEKPYECNL--CDYKATQNSS 57 (353)
Q Consensus 16 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~~~~~~~ 57 (353)
.|+.||.......+...+... .+.-++|.. ||..|.....
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~--~~~Y~qC~N~~Cg~tfv~~~~ 42 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLT--RELYCQCTNPECGHTFVANLE 42 (47)
T ss_pred CcCCCCCeeEEEEchhhCcce--EEEEEEECCCcCCCEEEEEEE
Confidence 488888876554443332211 123377865 8888875543
No 234
>KOG2636|consensus
Probab=22.80 E-value=57 Score=29.77 Aligned_cols=27 Identities=22% Similarity=0.549 Sum_probs=22.8
Q ss_pred CCCcceeeCCCCC-CccCCcchHHHHHH
Q psy1798 290 RRNVIMYRCFVCP-YLSRHKGDVKKHVR 316 (353)
Q Consensus 290 ~~~~~~~~C~~C~-~~f~~~~~l~~H~~ 316 (353)
|.-.+.|.|.+|| +++.-..+|.+|..
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHhH
Confidence 4455669999999 99999999999964
No 235
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.78 E-value=43 Score=24.38 Aligned_cols=13 Identities=15% Similarity=0.258 Sum_probs=8.8
Q ss_pred eeeCCCCCCccCC
Q psy1798 295 MYRCFVCPYLSRH 307 (353)
Q Consensus 295 ~~~C~~C~~~f~~ 307 (353)
.+.|..||..|.-
T Consensus 70 ~~~C~~Cg~~~~~ 82 (114)
T PRK03681 70 ECWCETCQQYVTL 82 (114)
T ss_pred EEEcccCCCeeec
Confidence 4677777777754
No 236
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=22.75 E-value=66 Score=17.49 Aligned_cols=19 Identities=26% Similarity=0.497 Sum_probs=7.6
Q ss_pred cCCCCcccccCchHHHHHHh
Q psy1798 325 ECNLCDYKATQNSSIHFHMK 344 (353)
Q Consensus 325 ~C~~C~~~f~~~~~l~~H~~ 344 (353)
.|+.|++. .....+..|+.
T Consensus 6 ~C~nC~R~-v~a~RfA~HLe 24 (33)
T PF08209_consen 6 ECPNCGRP-VAASRFAPHLE 24 (33)
T ss_dssp E-TTTSSE-EEGGGHHHHHH
T ss_pred ECCCCcCC-cchhhhHHHHH
Confidence 45555543 22334444443
No 237
>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=22.19 E-value=15 Score=24.85 Aligned_cols=40 Identities=15% Similarity=0.327 Sum_probs=13.9
Q ss_pred CceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccc
Q psy1798 12 VIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQN 55 (353)
Q Consensus 12 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~ 55 (353)
...|.|+.|+..=.-.-.| ..-.+.....|..|+..|...
T Consensus 20 ~~~F~CPfC~~~~sV~v~i----dkk~~~~~~~C~~Cg~~~~~~ 59 (81)
T PF05129_consen 20 PKVFDCPFCNHEKSVSVKI----DKKEGIGILSCRVCGESFQTK 59 (81)
T ss_dssp SS----TTT--SS-EEEEE----ETTTTEEEEEESSS--EEEEE
T ss_pred CceEcCCcCCCCCeEEEEE----EccCCEEEEEecCCCCeEEEc
Confidence 4567788877322111111 111222235677777776554
No 238
>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=22.06 E-value=51 Score=23.71 Aligned_cols=17 Identities=12% Similarity=0.159 Sum_probs=8.5
Q ss_pred ceeeCCCCCCccCCcch
Q psy1798 294 IMYRCFVCPYLSRHKGD 310 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~~~ 310 (353)
+...|..|+...+-..+
T Consensus 84 r~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 84 RVDACMHCKEPLTLDPS 100 (114)
T ss_pred hhhccCcCCCcCccCch
Confidence 33456666555544333
No 239
>KOG4727|consensus
Probab=21.83 E-value=41 Score=26.13 Aligned_cols=20 Identities=25% Similarity=0.600 Sum_probs=13.6
Q ss_pred eeCCCCCCccCCcchHHHHH
Q psy1798 296 YRCFVCPYLSRHKGDVKKHV 315 (353)
Q Consensus 296 ~~C~~C~~~f~~~~~l~~H~ 315 (353)
|-|.+|.-+|.+..++..|+
T Consensus 76 yyCdVCdcvvKDSinflDHi 95 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHI 95 (193)
T ss_pred eeeeecceeehhhHHHHHHh
Confidence 66777777777666666664
No 240
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=21.63 E-value=76 Score=22.45 Aligned_cols=13 Identities=31% Similarity=0.772 Sum_probs=9.6
Q ss_pred eeeCCCCCCccCC
Q psy1798 295 MYRCFVCPYLSRH 307 (353)
Q Consensus 295 ~~~C~~C~~~f~~ 307 (353)
.+.|..|++.+..
T Consensus 16 ~~~C~~C~~~~~~ 28 (104)
T TIGR01384 16 VYVCPSCGYEKEK 28 (104)
T ss_pred eEECcCCCCcccc
Confidence 4788888877664
No 241
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.42 E-value=37 Score=25.39 Aligned_cols=12 Identities=17% Similarity=0.634 Sum_probs=5.6
Q ss_pred CcCCCCCCcccc
Q psy1798 234 PFPCDMCEYSAA 245 (353)
Q Consensus 234 ~~~C~~C~~~f~ 245 (353)
.|.|+.|++.|.
T Consensus 53 RyrC~~C~~tf~ 64 (129)
T COG3677 53 RYKCKSCGSTFT 64 (129)
T ss_pred ccccCCcCccee
Confidence 344444444444
No 242
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=20.83 E-value=65 Score=30.30 Aligned_cols=41 Identities=15% Similarity=0.284 Sum_probs=22.8
Q ss_pred CCCceeecCCCCCccCchhhhhhHhhhhcC------CCCcccCCCCcc
Q psy1798 10 RNVIMYRCFVCPYLSRHKGDVKKHVRKHTG------EKPYECNLCDYK 51 (353)
Q Consensus 10 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~------~~~~~C~~C~~~ 51 (353)
.....|+|..||..|.....-...- +-.| ...|.||.|+..
T Consensus 421 ~~~~~~~c~~c~~~yd~~~g~~~~~-~~~gt~~~~lp~~~~cp~c~~~ 467 (479)
T PRK05452 421 DLGPRMQCSVCQWIYDPAKGEPMQD-VAPGTPWSEVPDNFLCPECSLG 467 (479)
T ss_pred CCCCeEEECCCCeEECCCCCCcccC-CCCCCChhhCCCCCcCcCCCCc
Confidence 3466788888888886543321111 1111 123788888754
No 243
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=20.71 E-value=47 Score=18.40 Aligned_cols=14 Identities=21% Similarity=0.259 Sum_probs=8.3
Q ss_pred cCCCCcccccCchH
Q psy1798 325 ECNLCDYKATQNSS 338 (353)
Q Consensus 325 ~C~~C~~~f~~~~~ 338 (353)
.|+.|++.|.+.++
T Consensus 4 ~CprC~kg~Hwa~~ 17 (36)
T PF14787_consen 4 LCPRCGKGFHWASE 17 (36)
T ss_dssp C-TTTSSSCS-TTT
T ss_pred cCcccCCCcchhhh
Confidence 47778887776554
No 244
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.69 E-value=35 Score=20.17 Aligned_cols=14 Identities=14% Similarity=0.399 Sum_probs=8.2
Q ss_pred cCCCCcccccCchH
Q psy1798 325 ECNLCDYKATQNSS 338 (353)
Q Consensus 325 ~C~~C~~~f~~~~~ 338 (353)
.|++|+..|++...
T Consensus 14 ICpvCqRPFsWRkK 27 (54)
T COG4338 14 ICPVCQRPFSWRKK 27 (54)
T ss_pred hhhhhcCchHHHHH
Confidence 46666666665443
No 245
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=20.68 E-value=79 Score=27.35 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=25.2
Q ss_pred CCCceeecCCCCCccCchhhhhhHhhhhcCCCCcccCCCCcccccc
Q psy1798 10 RNVIMYRCFVCPYLSRHKGDVKKHVRKHTGEKPYECNLCDYKATQN 55 (353)
Q Consensus 10 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~~~~~ 55 (353)
+.+.+.+|+.|+...-.+. |. ..-+.|+.|++.|.-.
T Consensus 22 ~~~~~~~c~~c~~~~~~~~-l~--------~~~~vc~~c~~h~rl~ 58 (285)
T TIGR00515 22 PEGVWTKCPKCGQVLYTKE-LE--------RNLEVCPKCDHHMRMD 58 (285)
T ss_pred CCCCeeECCCCcchhhHHH-HH--------hhCCCCCCCCCcCcCC
Confidence 4456889999998765543 32 2237899999877644
No 246
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=20.63 E-value=40 Score=20.58 Aligned_cols=19 Identities=16% Similarity=0.347 Sum_probs=9.3
Q ss_pred cCCCCcccccC--chHHHHHH
Q psy1798 325 ECNLCDYKATQ--NSSIHFHM 343 (353)
Q Consensus 325 ~C~~C~~~f~~--~~~l~~H~ 343 (353)
.|++|+..|.. ...|..++
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~ 42 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKY 42 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHH
Confidence 79999998865 34444443
No 247
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=20.57 E-value=64 Score=26.92 Aligned_cols=69 Identities=16% Similarity=0.264 Sum_probs=39.2
Q ss_pred HHHHHHHHHhhhC-----CCCcCCCCCCccccchhHHHHhh-----hhccccCCCCcCCCCccccccccccccccchhcc
Q psy1798 219 SAHMRQHLRKHTG-----RRPFPCDMCEYSAAQKWNLKMHM-----HFLCHHCNRFGSRDIGDLIEHSTQCSVMGIAYLN 288 (353)
Q Consensus 219 ~~~l~~H~~~h~~-----~~~~~C~~C~~~f~~~~~l~~H~-----~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~ 288 (353)
..+|......+.+ .+.|.|..|... +++.. .-.|..|.+.|.......
T Consensus 92 e~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~------WwRrvp~rKeVSRCr~C~~rYDPVP~dk---------------- 149 (278)
T PF15135_consen 92 EENLRMFDDAQENLIPSVDRQFACSSCDHM------WWRRVPQRKEVSRCRKCRKRYDPVPCDK---------------- 149 (278)
T ss_pred HHHHHHhhhhhhccccccceeeeccccchH------HHhccCcccccccccccccccCCCcccc----------------
Confidence 3455555555443 367999999633 22232 246777777662211110
Q ss_pred cCCCcceeeCCCCCCccCCcch
Q psy1798 289 DRRNVIMYRCFVCPYLSRHKGD 310 (353)
Q Consensus 289 ~~~~~~~~~C~~C~~~f~~~~~ 310 (353)
--+...|.|..|+..|.....
T Consensus 150 -mwG~aef~C~~C~h~F~G~~q 170 (278)
T PF15135_consen 150 -MWGIAEFHCPKCRHNFRGFAQ 170 (278)
T ss_pred -ccceeeeecccccccchhhhh
Confidence 112235999999999986543
No 248
>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=20.38 E-value=21 Score=19.81 Aligned_cols=16 Identities=25% Similarity=0.765 Sum_probs=7.5
Q ss_pred HHHHhcCCCCccCCCC
Q psy1798 314 HVRKHTGEKPYECNLC 329 (353)
Q Consensus 314 H~~~h~~~~~~~C~~C 329 (353)
|-+...+...|.|..|
T Consensus 20 ~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 20 NGKSPSGHQRYRCKDC 35 (36)
T ss_pred CCCCCCCCEeEecCcC
Confidence 3333344444555555
No 249
>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=20.37 E-value=46 Score=18.52 Aligned_cols=12 Identities=25% Similarity=0.703 Sum_probs=6.7
Q ss_pred ceeeCCCCCCcc
Q psy1798 294 IMYRCFVCPYLS 305 (353)
Q Consensus 294 ~~~~C~~C~~~f 305 (353)
+-|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 458999998775
No 250
>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=20.33 E-value=42 Score=19.36 Aligned_cols=15 Identities=20% Similarity=0.365 Sum_probs=9.7
Q ss_pred ceeeCCCCCCccCCc
Q psy1798 294 IMYRCFVCPYLSRHK 308 (353)
Q Consensus 294 ~~~~C~~C~~~f~~~ 308 (353)
.|+.|..|+..|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 479999999999754
Done!