Query psy2876
Match_columns 367
No_of_seqs 455 out of 3364
Neff 10.0
Searched_HMMs 46136
Date Fri Aug 16 19:07:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2876.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2876hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3608|consensus 100.0 6.7E-28 1.4E-32 206.0 14.3 242 33-277 69-376 (467)
2 KOG1074|consensus 100.0 1E-29 2.2E-34 238.9 1.7 52 34-85 354-405 (958)
3 KOG3608|consensus 99.9 8.1E-28 1.8E-32 205.5 11.4 218 6-226 135-377 (467)
4 KOG2462|consensus 99.9 1.3E-27 2.9E-32 199.4 6.0 132 88-222 130-264 (279)
5 KOG2462|consensus 99.9 1.5E-27 3.3E-32 199.1 5.2 128 116-247 130-263 (279)
6 KOG1074|consensus 99.9 1.6E-27 3.6E-32 224.1 4.7 196 88-284 605-937 (958)
7 KOG3623|consensus 99.9 4E-23 8.7E-28 191.6 10.5 105 5-109 210-330 (1007)
8 KOG3623|consensus 99.9 1.2E-22 2.5E-27 188.6 7.6 104 62-165 211-330 (1007)
9 KOG3576|consensus 99.7 8.5E-18 1.8E-22 133.7 2.9 111 141-252 114-237 (267)
10 KOG3576|consensus 99.7 4.6E-17 1E-21 129.5 3.8 109 4-112 116-236 (267)
11 PLN03086 PRLI-interacting fact 99.3 2.5E-12 5.5E-17 121.3 7.9 60 118-182 455-514 (567)
12 PLN03086 PRLI-interacting fact 99.3 6.8E-12 1.5E-16 118.4 9.1 147 33-197 407-565 (567)
13 PHA00733 hypothetical protein 99.0 2.3E-10 5E-15 88.4 5.0 82 142-226 38-124 (128)
14 PHA00733 hypothetical protein 99.0 3.3E-10 7.2E-15 87.5 5.0 57 140-198 69-125 (128)
15 KOG3993|consensus 99.0 4.8E-11 1.1E-15 105.7 -0.6 52 34-85 268-319 (500)
16 KOG3993|consensus 98.9 1.5E-10 3.3E-15 102.6 -1.8 194 61-254 267-485 (500)
17 PHA02768 hypothetical protein; 98.8 2.2E-09 4.7E-14 68.1 2.0 42 6-49 6-47 (55)
18 PHA02768 hypothetical protein; 98.7 6.4E-09 1.4E-13 66.0 2.2 42 145-188 6-47 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.5 6.4E-08 1.4E-12 52.4 2.2 24 21-44 2-25 (26)
20 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.8E-07 3.8E-12 50.7 2.5 26 48-73 1-26 (26)
21 PHA00616 hypothetical protein 98.4 1.9E-07 4.2E-12 56.3 1.9 33 5-37 1-33 (44)
22 PHA00732 hypothetical protein 98.3 6.7E-07 1.5E-11 62.6 2.8 37 173-212 2-38 (79)
23 PHA00732 hypothetical protein 98.2 7.6E-07 1.7E-11 62.3 2.9 47 5-57 1-48 (79)
24 PHA00616 hypothetical protein 98.2 6.4E-07 1.4E-11 54.0 1.3 40 33-72 1-40 (44)
25 PF05605 zf-Di19: Drought indu 98.1 4.4E-06 9.5E-11 54.2 4.0 49 228-277 3-52 (54)
26 PF05605 zf-Di19: Drought indu 98.0 7.3E-06 1.6E-10 53.2 3.9 51 172-225 2-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 97.8 1.3E-05 2.9E-10 41.9 2.1 22 6-27 1-22 (23)
28 PF00096 zf-C2H2: Zinc finger, 97.7 2.7E-05 5.8E-10 40.7 1.7 22 34-55 1-22 (23)
29 PF12756 zf-C2H2_2: C2H2 type 97.6 5E-05 1.1E-09 56.3 2.5 21 8-28 2-22 (100)
30 PF12756 zf-C2H2_2: C2H2 type 97.5 6.8E-05 1.5E-09 55.6 2.9 73 35-111 1-73 (100)
31 PF13894 zf-C2H2_4: C2H2-type 97.5 8.4E-05 1.8E-09 39.1 2.2 23 6-28 1-23 (24)
32 PF13912 zf-C2H2_6: C2H2-type 97.4 6.1E-05 1.3E-09 41.1 1.3 24 5-28 1-24 (27)
33 PF13894 zf-C2H2_4: C2H2-type 97.4 0.00011 2.3E-09 38.7 2.0 23 34-56 1-23 (24)
34 PF13912 zf-C2H2_6: C2H2-type 97.3 0.00017 3.7E-09 39.3 1.7 25 33-57 1-25 (27)
35 COG5189 SFP1 Putative transcri 97.1 0.00013 2.8E-09 63.2 0.0 21 227-247 398-418 (423)
36 COG5189 SFP1 Putative transcri 97.0 0.00016 3.5E-09 62.6 -0.2 21 254-274 396-418 (423)
37 KOG2231|consensus 96.8 0.0034 7.5E-08 61.1 6.7 98 17-120 126-240 (669)
38 COG5236 Uncharacterized conser 96.8 0.0018 3.8E-08 56.9 4.3 128 117-253 152-307 (493)
39 smart00355 ZnF_C2H2 zinc finge 96.7 0.0017 3.6E-08 34.6 2.5 23 6-28 1-23 (26)
40 PF09237 GAGA: GAGA factor; I 96.7 0.0019 4.2E-08 39.9 2.8 32 30-61 21-52 (54)
41 KOG1146|consensus 96.7 0.00043 9.3E-09 71.0 -0.1 50 145-194 735-791 (1406)
42 KOG1146|consensus 96.6 0.0031 6.7E-08 65.1 5.7 105 139-243 460-634 (1406)
43 KOG2231|consensus 96.4 0.018 3.9E-07 56.3 9.2 118 117-251 100-236 (669)
44 smart00355 ZnF_C2H2 zinc finge 96.4 0.0031 6.8E-08 33.5 2.5 23 173-195 1-23 (26)
45 PF13909 zf-H2C2_5: C2H2-type 96.4 0.0028 6.1E-08 33.3 2.1 23 173-196 1-23 (24)
46 PF13909 zf-H2C2_5: C2H2-type 96.4 0.0024 5.2E-08 33.6 1.7 22 6-28 1-22 (24)
47 PF12874 zf-met: Zinc-finger o 96.3 0.0022 4.8E-08 34.0 1.3 21 6-26 1-21 (25)
48 PF09237 GAGA: GAGA factor; I 96.2 0.0069 1.5E-07 37.6 3.3 30 142-171 22-51 (54)
49 COG5236 Uncharacterized conser 96.2 0.0044 9.5E-08 54.5 3.3 126 33-168 151-305 (493)
50 KOG2482|consensus 96.1 0.022 4.8E-07 50.2 7.2 67 157-223 128-217 (423)
51 PF12874 zf-met: Zinc-finger o 96.1 0.0035 7.5E-08 33.3 1.3 21 34-54 1-21 (25)
52 PRK04860 hypothetical protein; 95.5 0.0062 1.3E-07 49.0 1.4 36 33-72 119-154 (160)
53 KOG2785|consensus 95.4 0.069 1.5E-06 48.1 7.5 23 116-138 3-25 (390)
54 KOG2785|consensus 95.4 0.077 1.7E-06 47.8 7.7 72 145-222 167-241 (390)
55 KOG4173|consensus 95.2 0.009 1.9E-07 48.7 1.4 78 172-253 79-172 (253)
56 PRK04860 hypothetical protein; 95.0 0.01 2.3E-07 47.7 1.3 37 144-184 119-155 (160)
57 PF12171 zf-C2H2_jaz: Zinc-fin 94.9 0.0061 1.3E-07 33.1 -0.2 21 173-193 2-22 (27)
58 KOG2482|consensus 94.3 0.091 2E-06 46.5 5.2 19 257-275 335-355 (423)
59 PF12171 zf-C2H2_jaz: Zinc-fin 93.9 0.041 8.9E-07 29.7 1.6 21 117-137 2-22 (27)
60 COG5048 FOG: Zn-finger [Genera 93.7 0.012 2.5E-07 56.0 -1.4 61 5-65 289-355 (467)
61 COG5048 FOG: Zn-finger [Genera 93.5 0.01 2.2E-07 56.5 -2.1 143 143-287 288-451 (467)
62 PF13913 zf-C2HC_2: zinc-finge 93.3 0.085 1.8E-06 27.9 2.1 19 7-26 4-22 (25)
63 PF13913 zf-C2HC_2: zinc-finge 92.4 0.16 3.4E-06 26.9 2.4 8 175-182 5-12 (25)
64 smart00451 ZnF_U1 U1-like zinc 92.3 0.097 2.1E-06 30.1 1.7 22 5-26 3-24 (35)
65 smart00451 ZnF_U1 U1-like zinc 91.8 0.13 2.8E-06 29.6 1.8 23 172-194 3-25 (35)
66 cd00350 rubredoxin_like Rubred 90.4 0.12 2.7E-06 29.4 0.8 24 6-41 2-25 (33)
67 TIGR00622 ssl1 transcription f 90.4 0.38 8.3E-06 35.8 3.5 23 200-222 80-102 (112)
68 KOG2893|consensus 89.8 0.075 1.6E-06 44.5 -0.6 47 175-226 13-59 (341)
69 KOG4173|consensus 89.6 0.24 5.2E-06 40.6 2.1 73 34-109 80-167 (253)
70 KOG2893|consensus 89.4 0.08 1.7E-06 44.3 -0.8 44 229-277 12-58 (341)
71 PF12013 DUF3505: Protein of u 89.0 0.85 1.8E-05 34.2 4.6 21 116-137 11-31 (109)
72 PF12013 DUF3505: Protein of u 87.7 0.94 2E-05 34.0 4.2 25 227-251 80-108 (109)
73 TIGR00622 ssl1 transcription f 87.4 0.54 1.2E-05 35.1 2.6 22 256-277 81-104 (112)
74 COG4049 Uncharacterized protei 85.8 0.36 7.8E-06 30.5 0.8 26 227-252 17-42 (65)
75 COG4049 Uncharacterized protei 84.6 0.51 1.1E-05 29.9 1.0 26 30-55 14-39 (65)
76 cd00729 rubredoxin_SM Rubredox 83.3 0.71 1.5E-05 26.5 1.2 13 5-17 2-14 (34)
77 KOG2186|consensus 83.2 0.76 1.6E-05 39.2 1.8 47 5-54 3-49 (276)
78 PF09986 DUF2225: Uncharacteri 82.8 0.16 3.5E-06 43.2 -2.3 41 200-240 4-61 (214)
79 PF06524 NOA36: NOA36 protein; 78.0 0.84 1.8E-05 39.1 0.5 91 83-196 137-233 (314)
80 PF09538 FYDLN_acid: Protein o 76.7 1.4 3E-05 32.9 1.3 29 202-239 10-38 (108)
81 COG2888 Predicted Zn-ribbon RN 76.1 1.9 4.1E-05 27.9 1.5 9 173-181 28-36 (61)
82 PF09538 FYDLN_acid: Protein o 75.7 1.5 3.3E-05 32.7 1.3 29 35-74 11-39 (108)
83 PHA00626 hypothetical protein 75.7 0.51 1.1E-05 30.0 -1.0 10 228-237 24-33 (59)
84 PF09986 DUF2225: Uncharacteri 74.7 1.4 3.1E-05 37.5 1.0 22 115-136 4-25 (214)
85 smart00659 RPOLCX RNA polymera 74.6 1.5 3.2E-05 26.8 0.8 11 6-16 3-13 (44)
86 PF10571 UPF0547: Uncharacteri 72.6 2.4 5.1E-05 22.6 1.2 8 147-154 17-24 (26)
87 TIGR00373 conserved hypothetic 72.1 2.3 5E-05 34.3 1.6 39 25-72 101-139 (158)
88 smart00531 TFIIE Transcription 70.9 2.5 5.5E-05 33.6 1.6 40 29-72 95-134 (147)
89 PF15269 zf-C2H2_7: Zinc-finge 70.6 3.2 7E-05 25.0 1.5 22 6-27 21-42 (54)
90 PF13719 zinc_ribbon_5: zinc-r 70.5 4.5 9.7E-05 23.6 2.2 10 145-154 26-35 (37)
91 PRK06266 transcription initiat 69.6 2.6 5.7E-05 34.7 1.4 35 29-72 113-147 (178)
92 KOG2186|consensus 69.2 3.6 7.7E-05 35.3 2.1 45 34-81 4-48 (276)
93 PF13717 zinc_ribbon_4: zinc-r 68.5 6 0.00013 22.9 2.4 11 118-128 4-14 (36)
94 PRK14890 putative Zn-ribbon RN 68.5 2 4.3E-05 27.9 0.4 9 173-181 26-34 (59)
95 TIGR02098 MJ0042_CXXC MJ0042 f 68.3 4.8 0.0001 23.5 2.0 10 118-127 4-13 (38)
96 TIGR02605 CxxC_CxxC_SSSS putat 68.2 1 2.2E-05 28.6 -1.0 12 6-17 6-17 (52)
97 PRK09678 DNA-binding transcrip 68.2 5.8 0.00013 27.2 2.6 59 283-343 2-62 (72)
98 smart00834 CxxC_CXXC_SSSS Puta 68.0 1 2.2E-05 26.9 -1.0 12 6-17 6-17 (41)
99 TIGR00373 conserved hypothetic 66.5 6.5 0.00014 31.7 3.1 39 52-98 100-138 (158)
100 KOG2807|consensus 65.6 9.6 0.00021 34.0 4.1 20 171-190 289-308 (378)
101 PF02892 zf-BED: BED zinc fing 64.8 5.4 0.00012 24.2 1.8 22 4-25 15-40 (45)
102 smart00734 ZnF_Rad18 Rad18-lik 64.8 7.3 0.00016 20.7 2.1 19 174-193 3-21 (26)
103 smart00531 TFIIE Transcription 64.4 7.9 0.00017 30.8 3.2 39 57-98 95-133 (147)
104 PF02176 zf-TRAF: TRAF-type zi 63.8 5.8 0.00013 25.8 2.0 27 129-155 23-53 (60)
105 TIGR02300 FYDLN_acid conserved 63.4 4.3 9.2E-05 31.0 1.4 30 201-239 9-38 (129)
106 PRK06266 transcription initiat 63.3 6.6 0.00014 32.4 2.6 30 171-210 116-145 (178)
107 PF03604 DNA_RNApol_7kD: DNA d 63.3 3.7 8.1E-05 23.1 0.8 11 6-16 1-11 (32)
108 COG1592 Rubrerythrin [Energy p 62.7 5.3 0.00011 32.3 1.9 9 171-179 148-156 (166)
109 PRK00464 nrdR transcriptional 62.6 3.4 7.5E-05 33.0 0.8 21 308-328 27-47 (154)
110 PF02176 zf-TRAF: TRAF-type zi 62.3 5.1 0.00011 26.1 1.5 39 33-72 9-53 (60)
111 PF12907 zf-met2: Zinc-binding 62.3 4.6 0.0001 24.1 1.1 9 259-267 4-12 (40)
112 COG5151 SSL1 RNA polymerase II 61.9 4.7 0.0001 35.6 1.6 22 201-222 388-409 (421)
113 COG1592 Rubrerythrin [Energy p 61.6 4.4 9.5E-05 32.8 1.2 24 172-209 134-157 (166)
114 COG1996 RPC10 DNA-directed RNA 61.4 3.6 7.7E-05 25.7 0.5 11 5-15 6-16 (49)
115 PF15269 zf-C2H2_7: Zinc-finge 61.2 6.2 0.00013 23.8 1.5 23 33-55 20-42 (54)
116 PF06524 NOA36: NOA36 protein; 60.5 2.7 5.8E-05 36.1 -0.2 93 29-139 138-232 (314)
117 PRK00398 rpoP DNA-directed RNA 59.6 4.8 0.0001 24.7 0.9 10 117-126 4-13 (46)
118 TIGR02300 FYDLN_acid conserved 57.8 6.1 0.00013 30.1 1.4 29 35-74 11-39 (129)
119 smart00614 ZnF_BED BED zinc fi 57.5 7.8 0.00017 24.3 1.6 23 229-251 20-47 (50)
120 COG5188 PRP9 Splicing factor 3 54.6 10 0.00022 34.2 2.4 21 227-247 374-395 (470)
121 PF08274 PhnA_Zn_Ribbon: PhnA 52.1 4.7 0.0001 22.3 -0.0 8 33-40 19-26 (30)
122 COG1997 RPL43A Ribosomal prote 51.1 6.7 0.00014 27.7 0.6 12 227-238 53-64 (89)
123 PF09723 Zn-ribbon_8: Zinc rib 50.5 5.9 0.00013 23.9 0.2 12 117-128 6-17 (42)
124 PF04959 ARS2: Arsenite-resist 49.5 12 0.00025 31.8 1.9 26 227-252 77-102 (214)
125 PF04959 ARS2: Arsenite-resist 49.0 11 0.00023 32.1 1.6 27 200-226 76-102 (214)
126 KOG2071|consensus 48.5 15 0.00033 35.7 2.7 25 171-195 417-441 (579)
127 COG5151 SSL1 RNA polymerase II 48.3 21 0.00046 31.7 3.3 25 171-195 387-411 (421)
128 PF05290 Baculo_IE-1: Baculovi 47.0 13 0.00029 28.6 1.7 55 3-75 78-135 (140)
129 PF05443 ROS_MUCR: ROS/MUCR tr 45.6 13 0.00029 28.8 1.5 23 6-31 73-95 (132)
130 KOG2807|consensus 45.0 35 0.00076 30.7 4.2 89 86-208 274-374 (378)
131 KOG2593|consensus 44.9 29 0.00063 32.5 3.8 36 31-69 126-161 (436)
132 PF14353 CpXC: CpXC protein 44.9 16 0.00035 28.1 2.0 20 116-135 38-57 (128)
133 PRK04023 DNA polymerase II lar 44.3 21 0.00045 37.3 3.0 8 118-125 628-635 (1121)
134 KOG2593|consensus 43.6 20 0.00043 33.6 2.6 36 170-209 126-161 (436)
135 PF14446 Prok-RING_1: Prokaryo 43.4 15 0.00033 23.5 1.3 10 7-16 7-16 (54)
136 PF09845 DUF2072: Zn-ribbon co 43.0 12 0.00025 28.9 0.9 14 5-18 1-14 (131)
137 COG1198 PriA Primosomal protei 41.1 24 0.00051 36.0 2.9 27 140-181 458-484 (730)
138 PRK04023 DNA polymerase II lar 40.2 24 0.00052 36.9 2.8 10 5-14 626-635 (1121)
139 PF13453 zf-TFIIB: Transcripti 39.5 26 0.00055 20.8 1.8 19 143-161 18-36 (41)
140 KOG4167|consensus 37.9 9.6 0.00021 37.9 -0.3 26 4-29 791-816 (907)
141 COG1198 PriA Primosomal protei 37.5 13 0.00029 37.7 0.5 38 228-289 445-482 (730)
142 PRK05978 hypothetical protein; 35.6 24 0.00052 28.0 1.6 31 283-321 34-64 (148)
143 PF13451 zf-trcl: Probable zin 34.8 24 0.00052 22.1 1.2 17 3-19 2-18 (49)
144 COG3357 Predicted transcriptio 33.9 26 0.00056 25.0 1.4 13 172-184 58-70 (97)
145 KOG1280|consensus 33.0 37 0.0008 30.8 2.5 39 170-208 77-116 (381)
146 smart00661 RPOL9 RNA polymeras 32.6 41 0.00088 20.9 2.1 22 309-330 20-42 (52)
147 PF07754 DUF1610: Domain of un 32.6 20 0.00043 18.7 0.5 10 32-41 15-24 (24)
148 COG4888 Uncharacterized Zn rib 32.5 13 0.00029 27.0 -0.2 40 280-322 20-59 (104)
149 PF01780 Ribosomal_L37ae: Ribo 32.1 9.3 0.0002 27.3 -1.1 12 227-238 53-64 (90)
150 smart00440 ZnF_C2C2 C2C2 Zinc 31.3 22 0.00047 21.1 0.6 10 145-154 29-38 (40)
151 PF13878 zf-C2H2_3: zinc-finge 30.2 55 0.0012 19.5 2.2 24 6-29 14-39 (41)
152 PF07975 C1_4: TFIIH C1-like d 29.4 14 0.00031 23.3 -0.5 26 308-333 20-45 (51)
153 PRK14873 primosome assembly pr 29.3 35 0.00076 34.6 2.0 10 172-181 422-431 (665)
154 KOG4124|consensus 29.2 7.3 0.00016 35.0 -2.4 27 200-226 348-376 (442)
155 PF12760 Zn_Tnp_IS1595: Transp 29.1 46 0.001 20.3 1.8 8 34-41 19-26 (46)
156 PRK14714 DNA polymerase II lar 28.9 60 0.0013 35.0 3.6 9 117-125 668-676 (1337)
157 KOG4167|consensus 28.7 39 0.00085 33.9 2.1 23 257-279 793-817 (907)
158 PRK03824 hypA hydrogenase nick 28.2 31 0.00066 27.0 1.1 11 117-127 71-81 (135)
159 PF05191 ADK_lid: Adenylate ki 28.0 33 0.00071 19.9 0.9 8 119-126 4-11 (36)
160 KOG1842|consensus 27.0 35 0.00076 32.1 1.4 27 228-254 16-42 (505)
161 KOG3408|consensus 26.9 37 0.0008 25.7 1.3 24 171-194 56-79 (129)
162 PF04780 DUF629: Protein of un 26.6 42 0.0009 32.2 1.9 26 228-253 58-83 (466)
163 COG3364 Zn-ribbon containing p 26.4 40 0.00087 24.6 1.3 12 62-73 3-14 (112)
164 PF07649 C1_3: C1-like domain; 26.2 30 0.00065 18.9 0.5 12 32-43 14-25 (30)
165 PTZ00255 60S ribosomal protein 26.1 23 0.00049 25.4 0.0 11 227-237 54-64 (90)
166 PF04780 DUF629: Protein of un 25.7 45 0.00098 31.9 1.9 26 201-226 57-82 (466)
167 TIGR01206 lysW lysine biosynth 25.5 24 0.00053 22.6 0.1 10 6-15 3-12 (54)
168 COG4530 Uncharacterized protei 25.3 52 0.0011 24.4 1.7 27 35-72 11-37 (129)
169 smart00154 ZnF_AN1 AN1-like Zi 24.8 31 0.00066 20.4 0.4 13 5-17 12-24 (39)
170 TIGR00280 L37a ribosomal prote 24.5 20 0.00043 25.7 -0.5 11 227-237 53-63 (91)
171 PF01096 TFIIS_C: Transcriptio 24.5 16 0.00035 21.5 -0.8 10 145-154 29-38 (39)
172 PF05495 zf-CHY: CHY zinc fing 23.9 20 0.00043 24.5 -0.6 13 116-128 41-53 (71)
173 PF08271 TF_Zn_Ribbon: TFIIB z 23.9 59 0.0013 19.4 1.6 10 144-153 19-28 (43)
174 KOG2272|consensus 23.5 49 0.0011 28.5 1.5 39 227-272 280-318 (332)
175 COG1655 Uncharacterized protei 23.4 33 0.00072 29.2 0.5 22 116-137 19-40 (267)
176 TIGR03826 YvyF flagellar opero 22.4 1E+02 0.0022 24.2 3.0 32 227-274 81-112 (137)
177 PF07282 OrfB_Zn_ribbon: Putat 22.3 50 0.0011 22.1 1.2 29 35-73 30-58 (69)
178 TIGR00686 phnA alkylphosphonat 22.3 33 0.00071 25.4 0.2 12 201-212 19-30 (109)
179 PF08790 zf-LYAR: LYAR-type C2 22.2 40 0.00088 18.3 0.5 18 118-136 2-19 (28)
180 PRK12380 hydrogenase nickel in 22.1 43 0.00094 25.2 0.9 13 33-45 70-82 (113)
181 COG1773 Rubredoxin [Energy pro 22.0 36 0.00079 21.9 0.4 12 5-16 3-14 (55)
182 PRK00432 30S ribosomal protein 21.5 57 0.0012 20.5 1.2 6 146-151 39-44 (50)
183 KOG0717|consensus 21.2 51 0.0011 31.3 1.3 23 173-195 293-315 (508)
184 PRK10220 hypothetical protein; 20.9 42 0.00092 24.9 0.6 12 201-212 20-31 (111)
185 KOG1280|consensus 20.9 88 0.0019 28.5 2.6 24 34-57 80-103 (381)
186 KOG3408|consensus 20.6 63 0.0014 24.5 1.4 21 34-54 58-78 (129)
187 PRK03976 rpl37ae 50S ribosomal 20.3 27 0.00058 25.0 -0.5 11 227-237 54-64 (90)
188 COG1571 Predicted DNA-binding 20.2 53 0.0012 30.9 1.2 14 61-74 367-380 (421)
189 PF01363 FYVE: FYVE zinc finge 20.0 64 0.0014 21.5 1.3 8 36-43 12-19 (69)
No 1
>KOG3608|consensus
Probab=99.95 E-value=6.7e-28 Score=206.01 Aligned_cols=242 Identities=26% Similarity=0.546 Sum_probs=208.3
Q ss_pred cccccc--cccccCC-HHHHHHHHHhcCC----------------------------------CCceec--ccccccccC
Q psy2876 33 LHKCHL--CTKAYPS-EKNLDRHLLTHNV----------------------------------RRSFRC--KSCGRRFES 73 (367)
Q Consensus 33 ~~~C~~--C~~~f~~-~~~l~~H~~~h~~----------------------------------~~~~~C--~~C~~~f~~ 73 (367)
-++|.. |++...+ ...|.+|...|-- ...|.| ..|+..|.+
T Consensus 69 e~qC~w~~C~f~~~~~s~~l~RHvy~H~y~~~l~q~G~~al~~~~dig~c~~~f~~~~~ip~~g~~f~C~WedCe~~F~s 148 (467)
T KOG3608|consen 69 EHQCTWNSCDFRTENSSADLIRHVYFHCYHTKLKQQGKLALDLHPDIGACTAPFRLMEKIPALGQNFRCGWEDCEREFVS 148 (467)
T ss_pred ceeEEeccCCccccchHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCcCcccCCcchhhccccchhhhccChhhcCCcccC
Confidence 366664 8877766 5889999876620 122556 359999999
Q ss_pred HHHHHHHHHHhc-------------C-ccccccc--cccccCCHHHHHHHHHHccCCcceeCCCCCCccCChhhhhhhhh
Q psy2876 74 EELLIVHQVIHE-------------R-KFHKCTQ--CEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVI 137 (367)
Q Consensus 74 ~~~L~~H~~~h~-------------~-~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 137 (367)
...|..|+..|. + ..+.|.. |-+.+.++..|++|++.|.++|...|+.||..|+++..|..|++
T Consensus 149 ~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~r 228 (467)
T KOG3608|consen 149 IVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLR 228 (467)
T ss_pred HHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHH
Confidence 999999987763 1 2355654 88999999999999999999999999999999999999999986
Q ss_pred c--cCCCcceeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCChHHHHHHHHHHhccCCcccccccccccCCHH
Q psy2876 138 V--HDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDL 215 (367)
Q Consensus 138 ~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~ 215 (367)
. -....+|.|..|.+.|.+...|..|+..|- .-|+|++|+.+....+.|.+|++..+..++||+|+.|++.|.+.+
T Consensus 229 Rqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~es 306 (467)
T KOG3608|consen 229 RQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRES 306 (467)
T ss_pred hhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHH
Confidence 4 345668999999999999999999999994 569999999999999999999998887789999999999999999
Q ss_pred HHHHHHHhcCC--cccccc--cccccCCHHHHHHhHhhhcCC--CCCcchhHhHHHHHH--HHHHHH-hhh
Q psy2876 216 KLKAHIKIIHN--LFTCIH--CGDTLNNAKDYASHLLIIHNI--ESSQQVEKNLNNMYN--LLTTHI-EYH 277 (367)
Q Consensus 216 ~l~~H~~~~H~--~~~C~~--C~~~f~~~~~l~~H~~~~H~~--~~~~~C~~C~~~~~~--~l~~H~-~~h 277 (367)
+|.+|+. +|. .|.|.. |.++|++..+|++|++.+|.| +.+|.|-.|++.|.+ .|..|+ +.|
T Consensus 307 dL~kH~~-~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 307 DLAKHVQ-VHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKH 376 (467)
T ss_pred HHHHHHH-hccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhh
Confidence 9999999 887 899998 999999999999999888854 457999999999999 899996 444
No 2
>KOG1074|consensus
Probab=99.95 E-value=1e-29 Score=238.86 Aligned_cols=52 Identities=40% Similarity=0.818 Sum_probs=38.1
Q ss_pred ccccccccccCCHHHHHHHHHhcCCCCceecccccccccCHHHHHHHHHHhc
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHE 85 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 85 (367)
.+|.+|.+.|.+.+.|+.|+++|++++||+|.+||..|+++.+|+.|...|.
T Consensus 354 hkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~ 405 (958)
T KOG1074|consen 354 HKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHR 405 (958)
T ss_pred chhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeecc
Confidence 4677777777777777777777777777777777777777777777766554
No 3
>KOG3608|consensus
Probab=99.95 E-value=8.1e-28 Score=205.50 Aligned_cols=218 Identities=27% Similarity=0.538 Sum_probs=181.3
Q ss_pred cccc--ccccccCCHHHHHHHHHHhCC------------C-ccccccc--cccccCCHHHHHHHHHhcCCCCceeccccc
Q psy2876 6 YKCL--YCHKVFKKSTSFDKHMEHHNR------------N-VLHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCG 68 (367)
Q Consensus 6 ~~C~--~C~~~f~~~~~l~~H~~~h~~------------~-~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 68 (367)
|.|. .|+..|.+...|..|...|.. + ..+.|.. |-+.+.+++.|++|++.|++++...|+.||
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg 214 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCG 214 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHH
Confidence 4554 499999999999999887742 1 2356665 999999999999999999999999999999
Q ss_pred ccccCHHHHHHHHHHhc---CccccccccccccCCHHHHHHHHHHccCCcceeCCCCCCccCChhhhhhhhhc-cCCCcc
Q psy2876 69 RRFESEELLIVHQVIHE---RKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIV-HDESEV 144 (367)
Q Consensus 69 ~~f~~~~~L~~H~~~h~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~ 144 (367)
..|++...|-.|.+..+ ..+|.|..|.+.|.+...|..|+..|- .-|+|+.|+.+....++|..|++. |..++|
T Consensus 215 ~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkp 292 (467)
T KOG3608|consen 215 ELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKP 292 (467)
T ss_pred HHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCC
Confidence 99999999999987765 678999999999999999999999885 458899999998888999988875 677888
Q ss_pred eeccccccccCCHHHHHHHHHHhCCCCCccCCc--cccccCChHHHHHHHHHHhcc--CCcccccccccccCCHHHHHHH
Q psy2876 145 HKCLYCFKVFVHKAHLDKHLILHETSEMHNCDF--CHLTFTTDNDLIRHMRSHEEY--HTKHTCDICGEKFINDLKLKAH 220 (367)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~--~~~~~C~~C~~~f~~~~~l~~H 220 (367)
|+|+.|++.+.+.+.|.+|..+|. +..|+|.. |.+.|.+...|++|++.++.. .-+|.|..|++.|.+-.+|..|
T Consensus 293 fKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~H 371 (467)
T KOG3608|consen 293 FKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAH 371 (467)
T ss_pred ccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHH
Confidence 888888888888888888888887 66788877 888888888888888876632 2457788888777777777777
Q ss_pred HHhcCC
Q psy2876 221 IKIIHN 226 (367)
Q Consensus 221 ~~~~H~ 226 (367)
+...|+
T Consensus 372 L~kkH~ 377 (467)
T KOG3608|consen 372 LMKKHG 377 (467)
T ss_pred HHHhhc
Confidence 775555
No 4
>KOG2462|consensus
Probab=99.94 E-value=1.3e-27 Score=199.44 Aligned_cols=132 Identities=28% Similarity=0.555 Sum_probs=71.3
Q ss_pred cccccccccccCCHHHHHHHHHHccC---CcceeCCCCCCccCChhhhhhhhhccCCCcceeccccccccCCHHHHHHHH
Q psy2876 88 FHKCTQCEESFKNKKHLKQHLLAHEK---VKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHL 164 (367)
Q Consensus 88 ~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 164 (367)
.|+|+.|++.+.+.++|.+|.++|-. .+.+.|+.|++.|.+...|..|+++|. -+.+|.+||+.|.....|+-|+
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHi 207 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHI 207 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhccc
Confidence 34555555555555555555554432 234555555555555555555555554 3455555555555555555555
Q ss_pred HHhCCCCCccCCccccccCChHHHHHHHHHHhccCCcccccccccccCCHHHHHHHHH
Q psy2876 165 ILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIK 222 (367)
Q Consensus 165 ~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~ 222 (367)
++|+|++||.|+.|++.|.++++|+.||++|.+. ++|+|..|++.|..++.|.+|..
T Consensus 208 RTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~-K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 208 RTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDV-KKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred ccccCCCCccCCcccchhcchHHHHHHHHhhcCC-ccccCcchhhHHHHHHHHHHhhh
Confidence 5555555555555555555555555555555555 45555555555555555555544
No 5
>KOG2462|consensus
Probab=99.94 E-value=1.5e-27 Score=199.13 Aligned_cols=128 Identities=28% Similarity=0.597 Sum_probs=78.3
Q ss_pred ceeCCCCCCccCChhhhhhhhhccCC---CcceeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCChHHHHHHH
Q psy2876 116 VFHCPKCPKLFRHESHLQNHVIVHDE---SEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHM 192 (367)
Q Consensus 116 ~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 192 (367)
.|.|+.|++.+.+.++|.+|.++|-. .+.+.|++|++.|.+...|..|+++|. -+..|.+||+.|...+.|..|+
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHi 207 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHI 207 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhccc
Confidence 45666666666666666666665532 344566666666666666666666664 4556666666666666666666
Q ss_pred HHHhccCCcccccccccccCCHHHHHHHHHhcCC---cccccccccccCCHHHHHHhH
Q psy2876 193 RSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHN---LFTCIHCGDTLNNAKDYASHL 247 (367)
Q Consensus 193 ~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~---~~~C~~C~~~f~~~~~l~~H~ 247 (367)
|+|+|+ +||.|+.|++.|.++++|+.|++ +|. +|+|..|+++|...+-|.+|.
T Consensus 208 RTHTGE-KPF~C~hC~kAFADRSNLRAHmQ-THS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 208 RTHTGE-KPFSCPHCGKAFADRSNLRAHMQ-THSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred ccccCC-CCccCCcccchhcchHHHHHHHH-hhcCCccccCcchhhHHHHHHHHHHhh
Confidence 666666 66666666666666666666666 554 566666666666666666665
No 6
>KOG1074|consensus
Probab=99.94 E-value=1.6e-27 Score=224.13 Aligned_cols=196 Identities=17% Similarity=0.340 Sum_probs=159.0
Q ss_pred cccccccccccCCHHHHHHHHHHccCCcceeCCCCCCccCChhhhhhhhhccCCC----cceecc---ccccccCCHHHH
Q psy2876 88 FHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDES----EVHKCL---YCFKVFVHKAHL 160 (367)
Q Consensus 88 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~----~~~~C~---~C~~~f~~~~~l 160 (367)
+-+|-+|.++.+-.+.|+.|.++|+|++||+|.+||+.|.++.+|+.||.+|... -.+.|+ +|.+.|.....|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 3569999999999999999999999999999999999999999999999988654 347899 999999999999
Q ss_pred HHHHHHhCCC-C------------CccCCccccccCChHHHHHHHHHHhcc---------------CC----cccccccc
Q psy2876 161 DKHLILHETS-E------------MHNCDFCHLTFTTDNDLIRHMRSHEEY---------------HT----KHTCDICG 208 (367)
Q Consensus 161 ~~H~~~h~~~-~------------~~~C~~C~~~f~~~~~L~~H~~~h~~~---------------~~----~~~C~~C~ 208 (367)
..|++.|.+. . .-+|..|.+.|.....+..++-.|.+. .. +..+..|+
T Consensus 685 pQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~ 764 (958)
T KOG1074|consen 685 PQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCG 764 (958)
T ss_pred cceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccccc
Confidence 9999998732 1 146999999999888888887766111 01 34455566
Q ss_pred cccCCHHHHHHHHHhc--CC------------------------------------------------------------
Q psy2876 209 EKFINDLKLKAHIKII--HN------------------------------------------------------------ 226 (367)
Q Consensus 209 ~~f~~~~~l~~H~~~~--H~------------------------------------------------------------ 226 (367)
..+.....+..+-... +.
T Consensus 765 ~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~ 844 (958)
T KOG1074|consen 765 RELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATK 844 (958)
T ss_pred cccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccccc
Confidence 5555444333322200 00
Q ss_pred ----------------------------------cccccccccccCCHHHHHHhHhhhcCCCCCcchhHhHHHHHH--HH
Q psy2876 227 ----------------------------------LFTCIHCGDTLNNAKDYASHLLIIHNIESSQQVEKNLNNMYN--LL 270 (367)
Q Consensus 227 ----------------------------------~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~--~l 270 (367)
...|.+|++.|.+.+.|..|+ ++|++++||.|..|++.|.. .|
T Consensus 845 ~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~-rTHtg~KPF~C~fC~~aFttrgnL 923 (958)
T KOG1074|consen 845 TNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHM-RTHTGPKPFFCHFCEEAFTTRGNL 923 (958)
T ss_pred cccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhh-hcCCCCCCccchhhhhhhhhhhhh
Confidence 168999999999999999999 99999999999999999999 99
Q ss_pred HHHHhhhcCCCCCC
Q psy2876 271 TTHIEYHHSQNNIE 284 (367)
Q Consensus 271 ~~H~~~h~~~~~~~ 284 (367)
+.||.+|....|+.
T Consensus 924 KvHMgtH~w~q~~s 937 (958)
T KOG1074|consen 924 KVHMGTHMWVQPPS 937 (958)
T ss_pred hhhhccccccCCCc
Confidence 99999999877653
No 7
>KOG3623|consensus
Probab=99.89 E-value=4e-23 Score=191.63 Aligned_cols=105 Identities=29% Similarity=0.669 Sum_probs=88.2
Q ss_pred cccccccccccCCHHHHHHHHHHh--CCCccccccccccccCCHHHHHHHHHhcCC-------------CCceecccccc
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHMEHH--NRNVLHKCHLCTKAYPSEKNLDRHLLTHNV-------------RRSFRCKSCGR 69 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-------------~~~~~C~~C~~ 69 (367)
...|++|++.+.....|+.|++.- ..+..|.|..|.++|..+..|.+||.+|.. .+.|+|.+||+
T Consensus 210 lltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccch
Confidence 357999999999999999997633 345568999999999999999999998853 25588888888
Q ss_pred cccCHHHHHHHHHHhc-CccccccccccccCCHHHHHHHHH
Q psy2876 70 RFESEELLIVHQVIHE-RKFHKCTQCEESFKNKKHLKQHLL 109 (367)
Q Consensus 70 ~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~~~~~l~~H~~ 109 (367)
.|..+-.|+.|+|+|. ++||.|+.|++.|+....+..||.
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 8888888888888887 888888888888888888888874
No 8
>KOG3623|consensus
Probab=99.87 E-value=1.2e-22 Score=188.60 Aligned_cols=104 Identities=25% Similarity=0.594 Sum_probs=94.1
Q ss_pred eecccccccccCHHHHHHHHHHhc---CccccccccccccCCHHHHHHHHHHccC-------------CcceeCCCCCCc
Q psy2876 62 FRCKSCGRRFESEELLIVHQVIHE---RKFHKCTQCEESFKNKKHLKQHLLAHEK-------------VKVFHCPKCPKL 125 (367)
Q Consensus 62 ~~C~~C~~~f~~~~~L~~H~~~h~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~-------------~~~~~C~~C~~~ 125 (367)
..|+.|++.+.....|+.|++..+ +..|.|..|.++|.....|.+||.+|.. .+.|+|++|++.
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKA 290 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKA 290 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchh
Confidence 579999999999999999987654 5679999999999999999999998753 245999999999
Q ss_pred cCChhhhhhhhhccCCCcceeccccccccCCHHHHHHHHH
Q psy2876 126 FRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLI 165 (367)
Q Consensus 126 f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 165 (367)
|..+..|+.|+++|.|++||.|+-|+++|+....+..||.
T Consensus 291 FKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 291 FKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 9999999999999999999999999999999988888874
No 9
>KOG3576|consensus
Probab=99.69 E-value=8.5e-18 Score=133.69 Aligned_cols=111 Identities=32% Similarity=0.622 Sum_probs=95.0
Q ss_pred CCcceeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCChHHHHHHHHHHhccCCcccccccccccCCHHHHHHH
Q psy2876 141 ESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAH 220 (367)
Q Consensus 141 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 220 (367)
+...|.|.+|++.|.....|.+|++-|...+.|-|..||+.|.+..+|.+|+++|+|. +||+|..|++.|...-+|..|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgv-rpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGV-RPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCc-cccchhhhhHHHHhhccHHHH
Confidence 3456888899999988888889998888888888999999998888999999999888 889999999999988889999
Q ss_pred HHhcCC-------------cccccccccccCCHHHHHHhHhhhcC
Q psy2876 221 IKIIHN-------------LFTCIHCGDTLNNAKDYASHLLIIHN 252 (367)
Q Consensus 221 ~~~~H~-------------~~~C~~C~~~f~~~~~l~~H~~~~H~ 252 (367)
++.+|+ .|.|+.||++-.....+..|+...|.
T Consensus 193 l~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 193 LKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 888887 58899999999999999999844443
No 10
>KOG3576|consensus
Probab=99.66 E-value=4.6e-17 Score=129.52 Aligned_cols=109 Identities=26% Similarity=0.519 Sum_probs=79.0
Q ss_pred ccccccccccccCCHHHHHHHHHHhCCCccccccccccccCCHHHHHHHHHhcCCCCceecccccccccCHHHHHHHHH-
Q psy2876 4 TLYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQV- 82 (367)
Q Consensus 4 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~- 82 (367)
..|.|.+|++.|.-..-|.+||+-|..-+.|.|..||+.|....+|.+|+++|+|.+||+|..|++.|...-.|..|++
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 3577888888888888888888888877778888888888888888888888888888888888888888888888864
Q ss_pred Hhc-----------CccccccccccccCCHHHHHHHHHHcc
Q psy2876 83 IHE-----------RKFHKCTQCEESFKNKKHLKQHLLAHE 112 (367)
Q Consensus 83 ~h~-----------~~~~~C~~C~~~f~~~~~l~~H~~~h~ 112 (367)
+|. .+.|.|+.||.+......+..|++.++
T Consensus 196 vhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 196 VHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred HcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcC
Confidence 332 344555555555555555555555544
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.33 E-value=2.5e-12 Score=121.30 Aligned_cols=60 Identities=27% Similarity=0.579 Sum_probs=27.8
Q ss_pred eCCCCCCccCChhhhhhhhhccCCCcceeccccccccCCHHHHHHHHHHhCCCCCccCCcccccc
Q psy2876 118 HCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTF 182 (367)
Q Consensus 118 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 182 (367)
.|+.|++.|. ...|..|+.+++ .++.|+ |++.+ .+..|..|+..|.+.+++.|..|++.|
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v 514 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMV 514 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCcc
Confidence 4445544443 344444444442 344454 54322 334444454444444555555555444
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.31 E-value=6.8e-12 Score=118.43 Aligned_cols=147 Identities=18% Similarity=0.437 Sum_probs=113.7
Q ss_pred cccccccccccCCHHHHHHHHHhcCCCCceeccc--ccccccCHHHHHHHHHHhcCccccccccccccCCHHHHHHHHHH
Q psy2876 33 LHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKS--CGRRFESEELLIVHQVIHERKFHKCTQCEESFKNKKHLKQHLLA 110 (367)
Q Consensus 33 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~ 110 (367)
.-.|+.|...... ..|..|..... .....|+. |+..|.. ..+..| +.|+.|++.|. ...|..|+.+
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~-r~~V~Cp~~~Cg~v~~r-~el~~H--------~~C~~Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCS-RHNVVCPHDGCGIVLRV-EEAKNH--------VHCEKCGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCC-CcceeCCcccccceeec-cccccC--------ccCCCCCCccc-hHHHHHHHHh
Confidence 3479999887765 56778885543 34467884 9998853 334444 58999999996 6789999999
Q ss_pred ccCCcceeCCCCCCccCChhhhhhhhhccCCCcceeccccccccC----------CHHHHHHHHHHhCCCCCccCCcccc
Q psy2876 111 HEKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFV----------HKAHLDKHLILHETSEMHNCDFCHL 180 (367)
Q Consensus 111 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~~~~C~~C~~ 180 (367)
++ +++.|+ |+..+ ....|..|+.+|.+.+++.|+.|++.|. ....|..|.... +.+++.|..|++
T Consensus 475 ~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk 549 (567)
T PLN03086 475 FH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGR 549 (567)
T ss_pred cC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCC
Confidence 85 789999 99755 6689999999999999999999999885 245788898885 888899999998
Q ss_pred ccCChHHHHHHHHHHhc
Q psy2876 181 TFTTDNDLIRHMRSHEE 197 (367)
Q Consensus 181 ~f~~~~~L~~H~~~h~~ 197 (367)
.|..+ .|..|+-..|.
T Consensus 550 ~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 550 SVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eeeeh-hHHHHHHHhhc
Confidence 88765 57778765543
No 13
>PHA00733 hypothetical protein
Probab=99.05 E-value=2.3e-10 Score=88.41 Aligned_cols=82 Identities=21% Similarity=0.354 Sum_probs=40.4
Q ss_pred CcceeccccccccCCHHHHHHH--HH---HhCCCCCccCCccccccCChHHHHHHHHHHhccCCcccccccccccCCHHH
Q psy2876 142 SEVHKCLYCFKVFVHKAHLDKH--LI---LHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLK 216 (367)
Q Consensus 142 ~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~ 216 (367)
.+++.|.+|...|.....|..+ +. .+.+.+||.|+.|++.|.+...|..|++.+ . .+|.|+.|++.|.....
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~-~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--E-HSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--C-cCccCCCCCCccCCHHH
Confidence 3445555555555544433333 11 122345555555555555555555555543 1 34555555555555555
Q ss_pred HHHHHHhcCC
Q psy2876 217 LKAHIKIIHN 226 (367)
Q Consensus 217 l~~H~~~~H~ 226 (367)
|..|+...|+
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 5555554443
No 14
>PHA00733 hypothetical protein
Probab=99.02 E-value=3.3e-10 Score=87.55 Aligned_cols=57 Identities=16% Similarity=0.385 Sum_probs=42.5
Q ss_pred CCCcceeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCChHHHHHHHHHHhcc
Q psy2876 140 DESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEY 198 (367)
Q Consensus 140 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~ 198 (367)
.+.+||.|+.|++.|.+...|..|++.+ ..+|.|+.|++.|.....|..|+...|+.
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 3466777888888888888887777765 34678888888888888888887776653
No 15
>KOG3993|consensus
Probab=99.00 E-value=4.8e-11 Score=105.67 Aligned_cols=52 Identities=27% Similarity=0.556 Sum_probs=36.0
Q ss_pred ccccccccccCCHHHHHHHHHhcCCCCceecccccccccCHHHHHHHHHHhc
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHE 85 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 85 (367)
|.|..|...|.+...|.+|.-.-.....|+|++|++.|+...+|..|.+.|.
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccC
Confidence 6777777777777777777644334455777777777777777777777664
No 16
>KOG3993|consensus
Probab=98.88 E-value=1.5e-10 Score=102.55 Aligned_cols=194 Identities=18% Similarity=0.212 Sum_probs=121.5
Q ss_pred ceecccccccccCHHHHHHHHHHhc-CccccccccccccCCHHHHHHHHHHccCCccee---CCCCCCccCChhhhhhhh
Q psy2876 61 SFRCKSCGRRFESEELLIVHQVIHE-RKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFH---CPKCPKLFRHESHLQNHV 136 (367)
Q Consensus 61 ~~~C~~C~~~f~~~~~L~~H~~~h~-~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~---C~~C~~~f~~~~~l~~H~ 136 (367)
.|.|..|...|.+...|.+|.-..- .-.|+|+.|+++|+-..+|..|.+.|.....-. -+.=.....+....+.-.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 4889999999999999999953322 345899999999999999999998875321100 000000000111111101
Q ss_pred hc--cCCCcceeccccccccCCHHHHHHHHHHhCCCC-----------------CccCCccccccCChHHHHHHHHHHhc
Q psy2876 137 IV--HDESEVHKCLYCFKVFVHKAHLDKHLILHETSE-----------------MHNCDFCHLTFTTDNDLIRHMRSHEE 197 (367)
Q Consensus 137 ~~--h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~-----------------~~~C~~C~~~f~~~~~L~~H~~~h~~ 197 (367)
+. ...+..|.|..|++.|.....|++|+.+|+... .+.|..|.-.+...+.-..+...+.+
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~ 426 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAG 426 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeec
Confidence 10 123447999999999999999999988875321 13355555544444333333333333
Q ss_pred cCCcccccccccccCCHHHHHHHHHhcCC--cccccccccccCCHHHHHHhHhhhcCCC
Q psy2876 198 YHTKHTCDICGEKFINDLKLKAHIKIIHN--LFTCIHCGDTLNNAKDYASHLLIIHNIE 254 (367)
Q Consensus 198 ~~~~~~C~~C~~~f~~~~~l~~H~~~~H~--~~~C~~C~~~f~~~~~l~~H~~~~H~~~ 254 (367)
......|++|+..+.++..--.+.+.-+. .|.|.+|.-.|.+...|.+|+...|..+
T Consensus 427 sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 427 SAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred cccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHH
Confidence 33445677888777766555444432222 6889999999999999999987778654
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.80 E-value=2.2e-09 Score=68.10 Aligned_cols=42 Identities=24% Similarity=0.478 Sum_probs=25.5
Q ss_pred ccccccccccCCHHHHHHHHHHhCCCccccccccccccCCHHHH
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNL 49 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 49 (367)
|+|+.||+.|...++|..||++|+ ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 566666666666666666666665 456666666666554443
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.72 E-value=6.4e-09 Score=65.99 Aligned_cols=42 Identities=14% Similarity=0.328 Sum_probs=22.6
Q ss_pred eeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCChHHH
Q psy2876 145 HKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDL 188 (367)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L 188 (367)
|.|+.||+.|...+.|..|++.|+ ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 455555555555555555555554 455555555555544433
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.52 E-value=6.4e-08 Score=52.40 Aligned_cols=24 Identities=29% Similarity=0.678 Sum_probs=14.0
Q ss_pred HHHHHHHhCCCccccccccccccC
Q psy2876 21 FDKHMEHHNRNVLHKCHLCTKAYP 44 (367)
Q Consensus 21 l~~H~~~h~~~~~~~C~~C~~~f~ 44 (367)
|.+||++|++++||.|+.|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 555555666666666666655554
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=98.43 E-value=1.8e-07 Score=50.66 Aligned_cols=26 Identities=38% Similarity=0.942 Sum_probs=23.2
Q ss_pred HHHHHHHhcCCCCceecccccccccC
Q psy2876 48 NLDRHLLTHNVRRSFRCKSCGRRFES 73 (367)
Q Consensus 48 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 73 (367)
+|.+||++|++++||.|+.|++.|.+
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 48899999999999999999999863
No 21
>PHA00616 hypothetical protein
Probab=98.37 E-value=1.9e-07 Score=56.29 Aligned_cols=33 Identities=21% Similarity=0.505 Sum_probs=18.9
Q ss_pred cccccccccccCCHHHHHHHHHHhCCCcccccc
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCH 37 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~ 37 (367)
||+|..||+.|...+.|..|++.|++++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 455555555555555555555555555555544
No 22
>PHA00732 hypothetical protein
Probab=98.25 E-value=6.7e-07 Score=62.57 Aligned_cols=37 Identities=24% Similarity=0.561 Sum_probs=17.1
Q ss_pred ccCCccccccCChHHHHHHHHHHhccCCcccccccccccC
Q psy2876 173 HNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFI 212 (367)
Q Consensus 173 ~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~ 212 (367)
|.|+.|++.|.+...|..|++.++. ++.|+.|++.|.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~ 38 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR 38 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC
Confidence 4455555555555555555443211 234555555544
No 23
>PHA00732 hypothetical protein
Probab=98.24 E-value=7.6e-07 Score=62.28 Aligned_cols=47 Identities=28% Similarity=0.680 Sum_probs=32.5
Q ss_pred cccccccccccCCHHHHHHHHHH-hCCCccccccccccccCCHHHHHHHHHhcC
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHMEH-HNRNVLHKCHLCTKAYPSEKNLDRHLLTHN 57 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 57 (367)
||+|+.|++.|.+...|..|++. |. ++.|+.|++.|. .|..|+.+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 57777888888777777777774 44 246777777776 4667775543
No 24
>PHA00616 hypothetical protein
Probab=98.18 E-value=6.4e-07 Score=54.03 Aligned_cols=40 Identities=18% Similarity=0.325 Sum_probs=34.3
Q ss_pred cccccccccccCCHHHHHHHHHhcCCCCceeccccccccc
Q psy2876 33 LHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFE 72 (367)
Q Consensus 33 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 72 (367)
||+|+.||+.|...++|..|++.|++++++.|+.=-..|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y~~f~ 40 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFYIYFR 40 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEEEEEE
Confidence 6899999999999999999999999999998876544443
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.10 E-value=4.4e-06 Score=54.25 Aligned_cols=49 Identities=20% Similarity=0.248 Sum_probs=24.6
Q ss_pred ccccccccccCCHHHHHHhHhhhcCCC-CCcchhHhHHHHHHHHHHHHhhh
Q psy2876 228 FTCIHCGDTLNNAKDYASHLLIIHNIE-SSQQVEKNLNNMYNLLTTHIEYH 277 (367)
Q Consensus 228 ~~C~~C~~~f~~~~~l~~H~~~~H~~~-~~~~C~~C~~~~~~~l~~H~~~h 277 (367)
|.|++|++ ..+...|..|+...|..+ +.+.|+.|...+...|..|+..+
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~~l~~Hl~~~ 52 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVTDNLIRHLNSQ 52 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhhhHHHHHHHHh
Confidence 45555555 333445555554555443 34555555554444555555443
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.02 E-value=7.3e-06 Score=53.19 Aligned_cols=51 Identities=20% Similarity=0.491 Sum_probs=33.8
Q ss_pred CccCCccccccCChHHHHHHHHHHhc-cCCcccccccccccCCHHHHHHHHHhcC
Q psy2876 172 MHNCDFCHLTFTTDNDLIRHMRSHEE-YHTKHTCDICGEKFINDLKLKAHIKIIH 225 (367)
Q Consensus 172 ~~~C~~C~~~f~~~~~L~~H~~~h~~-~~~~~~C~~C~~~f~~~~~l~~H~~~~H 225 (367)
.|.||.|++. .+...|..|....|. +.+.+.||+|...+. .+|..|+...|
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 4778888884 456678888665443 335677888877544 36777777555
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=97.83 E-value=1.3e-05 Score=41.94 Aligned_cols=22 Identities=36% Similarity=0.878 Sum_probs=13.5
Q ss_pred ccccccccccCCHHHHHHHHHH
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEH 27 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~ 27 (367)
|+|+.|++.|.++..|..||+.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666654
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.66 E-value=2.7e-05 Score=40.74 Aligned_cols=22 Identities=41% Similarity=0.868 Sum_probs=12.2
Q ss_pred ccccccccccCCHHHHHHHHHh
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLLT 55 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~~ 55 (367)
|.|+.|++.|.+...|..|++.
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 4455555555555555555544
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.55 E-value=5e-05 Score=56.34 Aligned_cols=21 Identities=29% Similarity=0.819 Sum_probs=0.0
Q ss_pred ccccccccCCHHHHHHHHHHh
Q psy2876 8 CLYCHKVFKKSTSFDKHMEHH 28 (367)
Q Consensus 8 C~~C~~~f~~~~~l~~H~~~h 28 (367)
|..|+..|.+...|..||...
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~ 22 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKK 22 (100)
T ss_dssp ---------------------
T ss_pred ccccccccccccccccccccc
Confidence 555555555555555555433
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.53 E-value=6.8e-05 Score=55.62 Aligned_cols=73 Identities=15% Similarity=0.375 Sum_probs=21.9
Q ss_pred cccccccccCCHHHHHHHHHhcCCCCceecccccccccCHHHHHHHHHHhcCccccccccccccCCHHHHHHHHHHc
Q psy2876 35 KCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHERKFHKCTQCEESFKNKKHLKQHLLAH 111 (367)
Q Consensus 35 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h 111 (367)
+|..|+..|.+...|..||...++-..- ....+.....+..+.+......+.|..|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 5999999999999999999775543211 112223444455554443445799999999999999999999864
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.49 E-value=8.4e-05 Score=39.12 Aligned_cols=23 Identities=30% Similarity=0.849 Sum_probs=11.1
Q ss_pred ccccccccccCCHHHHHHHHHHh
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEHH 28 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~h 28 (367)
|.|++|++.|.+...|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 34555555555555555555543
No 32
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.45 E-value=6.1e-05 Score=41.11 Aligned_cols=24 Identities=25% Similarity=0.605 Sum_probs=13.6
Q ss_pred cccccccccccCCHHHHHHHHHHh
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHMEHH 28 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~~h 28 (367)
||.|..|++.|.+...|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 455555555555555555555544
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=97.41 E-value=0.00011 Score=38.69 Aligned_cols=23 Identities=35% Similarity=0.843 Sum_probs=13.3
Q ss_pred ccccccccccCCHHHHHHHHHhc
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLLTH 56 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~~h 56 (367)
|.|++|++.|.+...|..|+..|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45666666666666666666554
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.26 E-value=0.00017 Score=39.32 Aligned_cols=25 Identities=28% Similarity=0.511 Sum_probs=15.3
Q ss_pred cccccccccccCCHHHHHHHHHhcC
Q psy2876 33 LHKCHLCTKAYPSEKNLDRHLLTHN 57 (367)
Q Consensus 33 ~~~C~~C~~~f~~~~~l~~H~~~h~ 57 (367)
||.|..|++.|.+...|..|++.|.
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 3566666666666666666665553
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.08 E-value=0.00013 Score=63.19 Aligned_cols=21 Identities=19% Similarity=0.431 Sum_probs=14.5
Q ss_pred cccccccccccCCHHHHHHhH
Q psy2876 227 LFTCIHCGDTLNNAKDYASHL 247 (367)
Q Consensus 227 ~~~C~~C~~~f~~~~~l~~H~ 247 (367)
||+|++|++++++...|+.|.
T Consensus 398 PYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 398 PYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ceeccccchhhccCccceecc
Confidence 677777777777766666664
No 36
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.99 E-value=0.00016 Score=62.59 Aligned_cols=21 Identities=19% Similarity=0.052 Sum_probs=14.2
Q ss_pred CCCcchhHhHHHHHH--HHHHHH
Q psy2876 254 ESSQQVEKNLNNMYN--LLTTHI 274 (367)
Q Consensus 254 ~~~~~C~~C~~~~~~--~l~~H~ 274 (367)
.+||+|+.|+|++.+ .|+.|.
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CCceeccccchhhccCccceecc
Confidence 467777777777776 666664
No 37
>KOG2231|consensus
Probab=96.76 E-value=0.0034 Score=61.06 Aligned_cols=98 Identities=26% Similarity=0.505 Sum_probs=55.0
Q ss_pred CHHHHHHHHHHhCCCccccccccc---------cccCCHHHHHHHHHhcCC-CC----ceecccccccccCHHHHHHHHH
Q psy2876 17 KSTSFDKHMEHHNRNVLHKCHLCT---------KAYPSEKNLDRHLLTHNV-RR----SFRCKSCGRRFESEELLIVHQV 82 (367)
Q Consensus 17 ~~~~l~~H~~~h~~~~~~~C~~C~---------~~f~~~~~l~~H~~~h~~-~~----~~~C~~C~~~f~~~~~L~~H~~ 82 (367)
+...|+.||..-++ .+.|.+|- ....+...|..|+..--. +. --.|..|...|-....|..|++
T Consensus 126 s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 126 SVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLR 203 (669)
T ss_pred HHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhc
Confidence 66777777754332 34455442 223455667777654211 11 1357777777777777777776
Q ss_pred HhcCccccc---cccccccCCHHHHHHHHHHccCCcceeCC
Q psy2876 83 IHERKFHKC---TQCEESFKNKKHLKQHLLAHEKVKVFHCP 120 (367)
Q Consensus 83 ~h~~~~~~C---~~C~~~f~~~~~l~~H~~~h~~~~~~~C~ 120 (367)
.++.--.-| +.++.-|.....|..|.+..+ |.|.
T Consensus 204 ~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE 240 (669)
T KOG2231|consen 204 FDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCE 240 (669)
T ss_pred cceeheeecCcccccchhcccchHHHHHhhhcC----cccc
Confidence 655332233 123345666677777776654 5555
No 38
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.76 E-value=0.0018 Score=56.94 Aligned_cols=128 Identities=29% Similarity=0.535 Sum_probs=81.3
Q ss_pred eeCCC--CCCccCChhhhhhhhhccCCCcceeccccc---ccc------CCHHHHHHHHHHhCCCCCc----cCCccccc
Q psy2876 117 FHCPK--CPKLFRHESHLQNHVIVHDESEVHKCLYCF---KVF------VHKAHLDKHLILHETSEMH----NCDFCHLT 181 (367)
Q Consensus 117 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~f------~~~~~l~~H~~~h~~~~~~----~C~~C~~~ 181 (367)
|.|+. |.........|..|.+..++. +.|.+|- +.| -++..|+.|...-..+..| .|..|+..
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 55654 444444455666666654432 4555553 222 2355677776544333233 58999999
Q ss_pred cCChHHHHHHHHHHhccCCcccccccc-------cccCCHHHHHHHHHhcCCcccccc--cc----cccCCHHHHHHhHh
Q psy2876 182 FTTDNDLIRHMRSHEEYHTKHTCDICG-------EKFINDLKLKAHIKIIHNLFTCIH--CG----DTLNNAKDYASHLL 248 (367)
Q Consensus 182 f~~~~~L~~H~~~h~~~~~~~~C~~C~-------~~f~~~~~l~~H~~~~H~~~~C~~--C~----~~f~~~~~l~~H~~ 248 (367)
|.+.+.|..|++..|. .|-+|+ ..|.+-.+|..|.+..|- .|.+ |- ..|.....|..|+.
T Consensus 230 FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy--~ct~qtc~~~k~~vf~~~~el~~h~~ 302 (493)
T COG5236 230 FYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRNAHY--CCTFQTCRVGKCYVFPYHTELLEHLT 302 (493)
T ss_pred ecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhcCce--EEEEEEEecCcEEEeccHHHHHHHHH
Confidence 9999999999987664 255554 468888899999886653 3322 21 46888899999997
Q ss_pred hhcCC
Q psy2876 249 IIHNI 253 (367)
Q Consensus 249 ~~H~~ 253 (367)
..|..
T Consensus 303 ~~h~~ 307 (493)
T COG5236 303 RFHKV 307 (493)
T ss_pred HHhhc
Confidence 77743
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.71 E-value=0.0017 Score=34.59 Aligned_cols=23 Identities=43% Similarity=0.967 Sum_probs=13.1
Q ss_pred ccccccccccCCHHHHHHHHHHh
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEHH 28 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~h 28 (367)
|+|+.|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 35555666666555555555544
No 40
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.67 E-value=0.0019 Score=39.94 Aligned_cols=32 Identities=22% Similarity=0.496 Sum_probs=20.3
Q ss_pred CCccccccccccccCCHHHHHHHHHhcCCCCc
Q psy2876 30 RNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRS 61 (367)
Q Consensus 30 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 61 (367)
.+.|-.|++|+..+....+|++|+...++.+|
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 35577888888888888888888877776654
No 41
>KOG1146|consensus
Probab=96.67 E-value=0.00043 Score=71.02 Aligned_cols=50 Identities=14% Similarity=0.230 Sum_probs=28.2
Q ss_pred eeccccccccC-CHHHHHHHHHHh------CCCCCccCCccccccCChHHHHHHHHH
Q psy2876 145 HKCLYCFKVFV-HKAHLDKHLILH------ETSEMHNCDFCHLTFTTDNDLIRHMRS 194 (367)
Q Consensus 145 ~~C~~C~~~f~-~~~~l~~H~~~h------~~~~~~~C~~C~~~f~~~~~L~~H~~~ 194 (367)
+.|-.|+.-.. +...|..|..+- .....|.|.+|.+....+.++..|.++
T Consensus 735 ~~civcd~~st~~l~~l~~h~~~~rs~ke~v~g~~~~c~l~~y~t~~kanfqlh~Kt 791 (1406)
T KOG1146|consen 735 FDCIVCDVFSTDRLDQLWFHNTRERSRKEQVPGDVPSCKLKPYATNTKANFQLHNKT 791 (1406)
T ss_pred HHHhhhhhhhhhhHHHHhhcchhhhhhhhcccCCCCcceecccccccchhhhhhccc
Confidence 55777764333 233444454221 123357788888777777777776543
No 42
>KOG1146|consensus
Probab=96.64 E-value=0.0031 Score=65.06 Aligned_cols=105 Identities=18% Similarity=0.249 Sum_probs=67.3
Q ss_pred cCCCcceeccccccccCCHHHHHHHHHHhC-------------------------CCCCccCCccccccCChHHHHHHHH
Q psy2876 139 HDESEVHKCLYCFKVFVHKAHLDKHLILHE-------------------------TSEMHNCDFCHLTFTTDNDLIRHMR 193 (367)
Q Consensus 139 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~-------------------------~~~~~~C~~C~~~f~~~~~L~~H~~ 193 (367)
+...+.++|+.|+..|.....|..|++..+ +.++|.|..|...+..+.+|.+|+.
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 334466777777777777777777776621 2256888888888888888888876
Q ss_pred HH--hc----------------------------------------cCCcccccccccccCCHHHHHHHHHhcCC---cc
Q psy2876 194 SH--EE----------------------------------------YHTKHTCDICGEKFINDLKLKAHIKIIHN---LF 228 (367)
Q Consensus 194 ~h--~~----------------------------------------~~~~~~C~~C~~~f~~~~~l~~H~~~~H~---~~ 228 (367)
+- .. ..-.|.|.+|++...-...|+.|+...+. |.
T Consensus 540 S~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~p~ 619 (1406)
T KOG1146|consen 540 SDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPS 619 (1406)
T ss_pred HHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCChH
Confidence 42 00 01237888888888888888888875443 23
Q ss_pred cccccccccCCHHHH
Q psy2876 229 TCIHCGDTLNNAKDY 243 (367)
Q Consensus 229 ~C~~C~~~f~~~~~l 243 (367)
.+..++..+.....+
T Consensus 620 ~~Lq~~it~~l~~~~ 634 (1406)
T KOG1146|consen 620 LVLQQNITSSLASLL 634 (1406)
T ss_pred HHhhhcchhhccccc
Confidence 444444444333333
No 43
>KOG2231|consensus
Probab=96.44 E-value=0.018 Score=56.26 Aligned_cols=118 Identities=25% Similarity=0.499 Sum_probs=77.1
Q ss_pred eeCCCCCCccCChhhhhhhhhccCCCcceeccccccccCCHHHHHHHHHHhCCCCCccCCccc---------cccCChHH
Q psy2876 117 FHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCH---------LTFTTDND 187 (367)
Q Consensus 117 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---------~~f~~~~~ 187 (367)
+.|.+|++.|.-... .-.|..| -.|.+...|+.|+..-+ +.+.|.+|- ....+...
T Consensus 100 ~~C~~C~~~~~~~~~------------~~~~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Yt~~e 164 (669)
T KOG2231|consen 100 HSCHICDRRFRALYN------------KKECLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLYTRAE 164 (669)
T ss_pred hhcCccccchhhhcc------------cCCCccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehehHHH
Confidence 578888877643211 1258888 77888889999984332 234455443 22234567
Q ss_pred HHHHHHHHhc-c---CCcccccccccccCCHHHHHHHHHhcCCcccccc------cccccCCHHHHHHhHhhhc
Q psy2876 188 LIRHMRSHEE-Y---HTKHTCDICGEKFINDLKLKAHIKIIHNLFTCIH------CGDTLNNAKDYASHLLIIH 251 (367)
Q Consensus 188 L~~H~~~h~~-~---~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~C~~------C~~~f~~~~~l~~H~~~~H 251 (367)
|..|+..-.. + +..-.|..|...|.....|..|++..|. .|-. ++.-|.....|..|.+..|
T Consensus 165 l~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~--~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 165 LNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHE--FCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred HHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhcccee--heeecCcccccchhcccchHHHHHhhhcC
Confidence 7888765322 1 0124688899999999999999886654 3444 4566788888999986666
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.43 E-value=0.0031 Score=33.48 Aligned_cols=23 Identities=35% Similarity=0.688 Sum_probs=13.8
Q ss_pred ccCCccccccCChHHHHHHHHHH
Q psy2876 173 HNCDFCHLTFTTDNDLIRHMRSH 195 (367)
Q Consensus 173 ~~C~~C~~~f~~~~~L~~H~~~h 195 (367)
|.|+.|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 35666666666666666666544
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.39 E-value=0.0028 Score=33.28 Aligned_cols=23 Identities=26% Similarity=0.714 Sum_probs=10.1
Q ss_pred ccCCccccccCChHHHHHHHHHHh
Q psy2876 173 HNCDFCHLTFTTDNDLIRHMRSHE 196 (367)
Q Consensus 173 ~~C~~C~~~f~~~~~L~~H~~~h~ 196 (367)
|+|+.|++... ...|..|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 34555555444 445555554443
No 46
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.38 E-value=0.0024 Score=33.55 Aligned_cols=22 Identities=27% Similarity=0.733 Sum_probs=10.0
Q ss_pred ccccccccccCCHHHHHHHHHHh
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEHH 28 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~h 28 (367)
|+|+.|+.... ...|.+|++.+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 44555555554 44555555443
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.27 E-value=0.0022 Score=34.04 Aligned_cols=21 Identities=29% Similarity=0.749 Sum_probs=11.1
Q ss_pred ccccccccccCCHHHHHHHHH
Q psy2876 6 YKCLYCHKVFKKSTSFDKHME 26 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~ 26 (367)
|.|++|++.|.+...|..|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555555555555555554
No 48
>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=96.21 E-value=0.0069 Score=37.55 Aligned_cols=30 Identities=20% Similarity=0.387 Sum_probs=13.3
Q ss_pred CcceeccccccccCCHHHHHHHHHHhCCCC
Q psy2876 142 SEVHKCLYCFKVFVHKAHLDKHLILHETSE 171 (367)
Q Consensus 142 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 171 (367)
+.|-.|++|+..+....+|++|+...++.+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 344555555555555555555555544443
No 49
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.19 E-value=0.0044 Score=54.54 Aligned_cols=126 Identities=23% Similarity=0.389 Sum_probs=69.3
Q ss_pred cccccc--cccccCCHHHHHHHHHhcCCCCceeccccc---cccc------CHHHHHHHHHHhc-----Ccccccccccc
Q psy2876 33 LHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCG---RRFE------SEELLIVHQVIHE-----RKFHKCTQCEE 96 (367)
Q Consensus 33 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~f~------~~~~L~~H~~~h~-----~~~~~C~~C~~ 96 (367)
.|.|+. |..+......|..|.+..++ .+.|.+|- +.|. +...|..|...-. ..--.|..|..
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~ 228 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKI 228 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccc
Confidence 355664 55555556666666665443 24555552 2222 2344555544322 11225777777
Q ss_pred ccCCHHHHHHHHHHccCCcceeCCCCCC-------ccCChhhhhhhhhccCCCcceeccc--cc----cccCCHHHHHHH
Q psy2876 97 SFKNKKHLKQHLLAHEKVKVFHCPKCPK-------LFRHESHLQNHVIVHDESEVHKCLY--CF----KVFVHKAHLDKH 163 (367)
Q Consensus 97 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~h~~~~~~~C~~--C~----~~f~~~~~l~~H 163 (367)
.|-+-+.|..|++..+. .|-+|++ -|.+..+|..|.+..+ |.|.. |. .+|.....|..|
T Consensus 229 ~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~vf~~~~el~~h 300 (493)
T COG5236 229 YFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYVFPYHTELLEH 300 (493)
T ss_pred eecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEEeccHHHHHHH
Confidence 77777777777765432 3444443 2566667777765432 44433 32 567788888888
Q ss_pred HHHhC
Q psy2876 164 LILHE 168 (367)
Q Consensus 164 ~~~h~ 168 (367)
+..-+
T Consensus 301 ~~~~h 305 (493)
T COG5236 301 LTRFH 305 (493)
T ss_pred HHHHh
Confidence 76543
No 50
>KOG2482|consensus
Probab=96.12 E-value=0.022 Score=50.23 Aligned_cols=67 Identities=19% Similarity=0.354 Sum_probs=41.2
Q ss_pred HHHHHHHHHHhCC-CCCccCCcccccc-CChHHHHHHHHHHhccC---------------------CcccccccccccCC
Q psy2876 157 KAHLDKHLILHET-SEMHNCDFCHLTF-TTDNDLIRHMRSHEEYH---------------------TKHTCDICGEKFIN 213 (367)
Q Consensus 157 ~~~l~~H~~~h~~-~~~~~C~~C~~~f-~~~~~L~~H~~~h~~~~---------------------~~~~C~~C~~~f~~ 213 (367)
+..|..+++.-.+ ....+|-.|+..+ ..++....|+-..|+-. ..+.|-.|.+.|..
T Consensus 128 ~eaLeqqQ~Eredt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrd 207 (423)
T KOG2482|consen 128 KEALEQQQKEREDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRD 207 (423)
T ss_pred HHHHHHHHHHhcCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCC
Confidence 3445555554432 2345799998766 45667778876544321 23667777777777
Q ss_pred HHHHHHHHHh
Q psy2876 214 DLKLKAHIKI 223 (367)
Q Consensus 214 ~~~l~~H~~~ 223 (367)
+..|+.||+.
T Consensus 208 kntLkeHMrk 217 (423)
T KOG2482|consen 208 KNTLKEHMRK 217 (423)
T ss_pred cHHHHHHHHh
Confidence 7777777764
No 51
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.05 E-value=0.0035 Score=33.27 Aligned_cols=21 Identities=38% Similarity=0.869 Sum_probs=11.3
Q ss_pred ccccccccccCCHHHHHHHHH
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLL 54 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~ 54 (367)
|.|.+|+..|.+...|..|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555555555555555554
No 52
>PRK04860 hypothetical protein; Provisional
Probab=95.55 E-value=0.0062 Score=48.99 Aligned_cols=36 Identities=22% Similarity=0.611 Sum_probs=19.9
Q ss_pred cccccccccccCCHHHHHHHHHhcCCCCceeccccccccc
Q psy2876 33 LHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFE 72 (367)
Q Consensus 33 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 72 (367)
+|.|. |+. ....+.+|.++|.++++|.|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 35555 554 3345555555555555566655555554
No 53
>KOG2785|consensus
Probab=95.38 E-value=0.069 Score=48.13 Aligned_cols=23 Identities=22% Similarity=0.430 Sum_probs=18.7
Q ss_pred ceeCCCCCCccCChhhhhhhhhc
Q psy2876 116 VFHCPKCPKLFRHESHLQNHVIV 138 (367)
Q Consensus 116 ~~~C~~C~~~f~~~~~l~~H~~~ 138 (367)
.|.|.-|...|.+...-+.|+++
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKS 25 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKS 25 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhh
Confidence 37899999999988888888764
No 54
>KOG2785|consensus
Probab=95.35 E-value=0.077 Score=47.84 Aligned_cols=72 Identities=18% Similarity=0.292 Sum_probs=38.1
Q ss_pred eeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCChHHHHHHHHHHhccCCcccccccc---cccCCHHHHHHHH
Q psy2876 145 HKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICG---EKFINDLKLKAHI 221 (367)
Q Consensus 145 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~---~~f~~~~~l~~H~ 221 (367)
-.|-.|++.+.+...-..||..+++-..- . -.-......|..-+...-+ .-+.|-.|+ +.|.+....+.||
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIP---d-reYL~D~~GLl~YLgeKV~--~~~~CL~CN~~~~~f~sleavr~HM 240 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIP---D-REYLTDEKGLLKYLGEKVG--IGFICLFCNELGRPFSSLEAVRAHM 240 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCC---c-hHhhhchhHHHHHHHHHhc--cCceEEEeccccCcccccHHHHHHH
Confidence 45666666666666666666655542100 0 0001222333333322222 347777777 7888888888887
Q ss_pred H
Q psy2876 222 K 222 (367)
Q Consensus 222 ~ 222 (367)
.
T Consensus 241 ~ 241 (390)
T KOG2785|consen 241 R 241 (390)
T ss_pred h
Confidence 7
No 55
>KOG4173|consensus
Probab=95.23 E-value=0.009 Score=48.71 Aligned_cols=78 Identities=23% Similarity=0.591 Sum_probs=52.9
Q ss_pred CccCCc--cccccCChHHHHHHHHHHhccCCcccccccccccCCHHHHHHHHHhcCC------------cccccc--ccc
Q psy2876 172 MHNCDF--CHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHN------------LFTCIH--CGD 235 (367)
Q Consensus 172 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~------------~~~C~~--C~~ 235 (367)
.|.|.+ |...|.....+..|...-|+. .|..|.+.|.+...|..|+...|. .|.|-+ |+.
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 466766 777777777777777665553 688888888888888888776664 356643 666
Q ss_pred ccCCHHHHHHhHhhhcCC
Q psy2876 236 TLNNAKDYASHLLIIHNI 253 (367)
Q Consensus 236 ~f~~~~~l~~H~~~~H~~ 253 (367)
.|.+...-..|+...|.-
T Consensus 155 KFkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMHKY 172 (253)
T ss_pred hhhhhhhhhhHHHHhccC
Confidence 666666666666555543
No 56
>PRK04860 hypothetical protein; Provisional
Probab=95.05 E-value=0.01 Score=47.67 Aligned_cols=37 Identities=19% Similarity=0.412 Sum_probs=25.0
Q ss_pred ceeccccccccCCHHHHHHHHHHhCCCCCccCCccccccCC
Q psy2876 144 VHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLTFTT 184 (367)
Q Consensus 144 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 184 (367)
+|.|. |+. ....+.+|.++|.++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 57776 765 45556677777777777777777766654
No 57
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=94.93 E-value=0.0061 Score=33.06 Aligned_cols=21 Identities=38% Similarity=0.858 Sum_probs=11.8
Q ss_pred ccCCccccccCChHHHHHHHH
Q psy2876 173 HNCDFCHLTFTTDNDLIRHMR 193 (367)
Q Consensus 173 ~~C~~C~~~f~~~~~L~~H~~ 193 (367)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 445555555555555555554
No 58
>KOG2482|consensus
Probab=94.28 E-value=0.091 Score=46.53 Aligned_cols=19 Identities=11% Similarity=0.104 Sum_probs=11.9
Q ss_pred cchhHhHHHHHH--HHHHHHh
Q psy2876 257 QQVEKNLNNMYN--LLTTHIE 275 (367)
Q Consensus 257 ~~C~~C~~~~~~--~l~~H~~ 275 (367)
-.|..|.-.|-. .|..||.
T Consensus 335 ~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 335 SRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred cccccccccccCcchhhhhcc
Confidence 346666666665 6777764
No 59
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=93.89 E-value=0.041 Score=29.71 Aligned_cols=21 Identities=38% Similarity=0.844 Sum_probs=12.2
Q ss_pred eeCCCCCCccCChhhhhhhhh
Q psy2876 117 FHCPKCPKLFRHESHLQNHVI 137 (367)
Q Consensus 117 ~~C~~C~~~f~~~~~l~~H~~ 137 (367)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 445566666666666655554
No 60
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.72 E-value=0.012 Score=56.02 Aligned_cols=61 Identities=26% Similarity=0.524 Sum_probs=35.9
Q ss_pred cccccccccccCCHHHHHHHHH--HhCCC--cccccc--ccccccCCHHHHHHHHHhcCCCCceecc
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHME--HHNRN--VLHKCH--LCTKAYPSEKNLDRHLLTHNVRRSFRCK 65 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~ 65 (367)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 4556666666666666666665 56555 566666 4666666666666666665555544443
No 61
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.55 E-value=0.01 Score=56.46 Aligned_cols=143 Identities=17% Similarity=0.235 Sum_probs=83.4
Q ss_pred cceeccccccccCCHHHHHHHHH--HhCCC--CCccCC--ccccccCChHHHHHHHHHHhccCCcccccc--cccccCCH
Q psy2876 143 EVHKCLYCFKVFVHKAHLDKHLI--LHETS--EMHNCD--FCHLTFTTDNDLIRHMRSHEEYHTKHTCDI--CGEKFIND 214 (367)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~--C~~~f~~~ 214 (367)
.++.|..|...|.....|..|.. .|.++ +++.|+ .|++.|.....+..|...|.+. .++.+.. +...+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSI-SPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCC-CccccccccCccccccc
Confidence 35677777777777777777777 67777 777777 6777777777777777777665 4454443 33322222
Q ss_pred HHHHHHHH-----hcCC--cccccc--cccccCCHHHHHHhHhhhcCCCC--CcchhHhHHHHHH--HHHHHHhhhcCCC
Q psy2876 215 LKLKAHIK-----IIHN--LFTCIH--CGDTLNNAKDYASHLLIIHNIES--SQQVEKNLNNMYN--LLTTHIEYHHSQN 281 (367)
Q Consensus 215 ~~l~~H~~-----~~H~--~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~--~~~C~~C~~~~~~--~l~~H~~~h~~~~ 281 (367)
..-..+.. ..+. .+.+.. |...+.....+..|. ..|.... .+.+..|...+.. .+..|++.|....
T Consensus 367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 445 (467)
T COG5048 367 LNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHI-ITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHA 445 (467)
T ss_pred cCCCCccchhhccCccCCccccccccchhhhhcccccccccc-ccccccCCcCCCCCcchhhccCcccccccccccccCC
Confidence 21100000 0111 333332 555666666666666 5554444 4556677777666 6666677766666
Q ss_pred CCCCCc
Q psy2876 282 NIESES 287 (367)
Q Consensus 282 ~~~c~~ 287 (367)
++-+..
T Consensus 446 ~~~~~~ 451 (467)
T COG5048 446 PLLCSI 451 (467)
T ss_pred ceeecc
Confidence 554443
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.26 E-value=0.085 Score=27.93 Aligned_cols=19 Identities=26% Similarity=0.704 Sum_probs=10.8
Q ss_pred cccccccccCCHHHHHHHHH
Q psy2876 7 KCLYCHKVFKKSTSFDKHME 26 (367)
Q Consensus 7 ~C~~C~~~f~~~~~l~~H~~ 26 (367)
.|+.||+.| ....|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 466666666 3455555554
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.36 E-value=0.16 Score=26.88 Aligned_cols=8 Identities=38% Similarity=1.115 Sum_probs=3.1
Q ss_pred CCcccccc
Q psy2876 175 CDFCHLTF 182 (367)
Q Consensus 175 C~~C~~~f 182 (367)
|+.|++.|
T Consensus 5 C~~CgR~F 12 (25)
T PF13913_consen 5 CPICGRKF 12 (25)
T ss_pred CCCCCCEE
Confidence 33333333
No 64
>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=92.28 E-value=0.097 Score=30.12 Aligned_cols=22 Identities=23% Similarity=0.619 Sum_probs=13.8
Q ss_pred cccccccccccCCHHHHHHHHH
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHME 26 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~ 26 (367)
+|.|++|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4566666666666666666653
No 65
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.82 E-value=0.13 Score=29.60 Aligned_cols=23 Identities=26% Similarity=0.671 Sum_probs=16.0
Q ss_pred CccCCccccccCChHHHHHHHHH
Q psy2876 172 MHNCDFCHLTFTTDNDLIRHMRS 194 (367)
Q Consensus 172 ~~~C~~C~~~f~~~~~L~~H~~~ 194 (367)
+|.|.+|+..|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46677777777777777777654
No 66
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=90.44 E-value=0.12 Score=29.41 Aligned_cols=24 Identities=21% Similarity=0.659 Sum_probs=14.0
Q ss_pred ccccccccccCCHHHHHHHHHHhCCCcccccccccc
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTK 41 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 41 (367)
|+|..||..+.... .++.|+.|+.
T Consensus 2 ~~C~~CGy~y~~~~------------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE------------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc------------CCCcCcCCCC
Confidence 56667766664421 4566666654
No 67
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.39 E-value=0.38 Score=35.85 Aligned_cols=23 Identities=22% Similarity=0.486 Sum_probs=12.9
Q ss_pred CcccccccccccCCHHHHHHHHH
Q psy2876 200 TKHTCDICGEKFINDLKLKAHIK 222 (367)
Q Consensus 200 ~~~~C~~C~~~f~~~~~l~~H~~ 222 (367)
..|.|+.|...|-..=++-.|..
T Consensus 80 ~~y~C~~C~~~FC~dCD~fiHe~ 102 (112)
T TIGR00622 80 HRYVCAVCKNVFCVDCDVFVHES 102 (112)
T ss_pred cceeCCCCCCccccccchhhhhh
Confidence 34666666666655555555544
No 68
>KOG2893|consensus
Probab=89.83 E-value=0.075 Score=44.50 Aligned_cols=47 Identities=28% Similarity=0.662 Sum_probs=31.5
Q ss_pred CCccccccCChHHHHHHHHHHhccCCcccccccccccCCHHHHHHHHHhcCC
Q psy2876 175 CDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEKFINDLKLKAHIKIIHN 226 (367)
Q Consensus 175 C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 226 (367)
|-.|++.|.....|..|++. +-|+|.+|-+...+-..|..|-..+|+
T Consensus 13 cwycnrefddekiliqhqka-----khfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCceeehhhhhh
Confidence 66777777777777777654 457777777766666666666544554
No 69
>KOG4173|consensus
Probab=89.56 E-value=0.24 Score=40.65 Aligned_cols=73 Identities=25% Similarity=0.587 Sum_probs=34.6
Q ss_pred ccccc--cccccCCHHHHHHHHHhcCCCCceecccccccccCHHHHHHHHHHhc-----------Cccccc--ccccccc
Q psy2876 34 HKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHE-----------RKFHKC--TQCEESF 98 (367)
Q Consensus 34 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~-----------~~~~~C--~~C~~~f 98 (367)
|.|++ |-..|.+...+..|...-++ -.|.+|.+.|.+...|..|....+ ...|.| +.|+..|
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KF 156 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKF 156 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhh
Confidence 44444 44455544444444433222 235555555555555555543221 233555 3366666
Q ss_pred CCHHHHHHHHH
Q psy2876 99 KNKKHLKQHLL 109 (367)
Q Consensus 99 ~~~~~l~~H~~ 109 (367)
.+...-..|+-
T Consensus 157 kT~r~RkdH~I 167 (253)
T KOG4173|consen 157 KTSRDRKDHMI 167 (253)
T ss_pred hhhhhhhhHHH
Confidence 66666666654
No 70
>KOG2893|consensus
Probab=89.38 E-value=0.08 Score=44.35 Aligned_cols=44 Identities=18% Similarity=0.347 Sum_probs=27.9
Q ss_pred cccccccccCCHHHHHHhHhhhcCCCCCcchhHhHHHHHH--HHHHH-Hhhh
Q psy2876 229 TCIHCGDTLNNAKDYASHLLIIHNIESSQQVEKNLNNMYN--LLTTH-IEYH 277 (367)
Q Consensus 229 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~--~l~~H-~~~h 277 (367)
-|.+|++.|.+..-|.+|+...| |+|.+|-+..-+ .|..| |.+|
T Consensus 12 wcwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceeehhhhh
Confidence 36677777777777777764444 677777666554 66666 3444
No 71
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=88.99 E-value=0.85 Score=34.23 Aligned_cols=21 Identities=24% Similarity=0.575 Sum_probs=12.1
Q ss_pred ceeCCCCCCccCChhhhhhhhh
Q psy2876 116 VFHCPKCPKLFRHESHLQNHVI 137 (367)
Q Consensus 116 ~~~C~~C~~~f~~~~~l~~H~~ 137 (367)
...|..|+..... +++..|++
T Consensus 11 vlIC~~C~~av~~-~~v~~HL~ 31 (109)
T PF12013_consen 11 VLICRQCQYAVQP-SEVESHLR 31 (109)
T ss_pred EEEeCCCCcccCc-hHHHHHHH
Confidence 3456666665544 55666665
No 72
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=87.74 E-value=0.94 Score=33.99 Aligned_cols=25 Identities=28% Similarity=0.486 Sum_probs=17.6
Q ss_pred cccc----cccccccCCHHHHHHhHhhhc
Q psy2876 227 LFTC----IHCGDTLNNAKDYASHLLIIH 251 (367)
Q Consensus 227 ~~~C----~~C~~~f~~~~~l~~H~~~~H 251 (367)
-|.| ..|++.+.+...|.+|++..|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 3677 777777777777777775554
No 73
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=87.42 E-value=0.54 Score=35.09 Aligned_cols=22 Identities=14% Similarity=-0.049 Sum_probs=12.3
Q ss_pred CcchhHhHHHHHH--HHHHHHhhh
Q psy2876 256 SQQVEKNLNNMYN--LLTTHIEYH 277 (367)
Q Consensus 256 ~~~C~~C~~~~~~--~l~~H~~~h 277 (367)
.|.|+.|...|-. +.-.|...|
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred ceeCCCCCCccccccchhhhhhcc
Confidence 4556666665554 555555544
No 74
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=85.80 E-value=0.36 Score=30.53 Aligned_cols=26 Identities=31% Similarity=0.685 Sum_probs=19.7
Q ss_pred cccccccccccCCHHHHHHhHhhhcC
Q psy2876 227 LFTCIHCGDTLNNAKDYASHLLIIHN 252 (367)
Q Consensus 227 ~~~C~~C~~~f~~~~~l~~H~~~~H~ 252 (367)
.+.|+.|+..|....+..+|+...|.
T Consensus 17 ~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 17 FLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred eeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 46788888888888888888866663
No 75
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=84.63 E-value=0.51 Score=29.88 Aligned_cols=26 Identities=19% Similarity=0.433 Sum_probs=16.6
Q ss_pred CCccccccccccccCCHHHHHHHHHh
Q psy2876 30 RNVLHKCHLCTKAYPSEKNLDRHLLT 55 (367)
Q Consensus 30 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 55 (367)
|+..++||-|+..|....+..+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 45556666666666666666666644
No 76
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=83.30 E-value=0.71 Score=26.47 Aligned_cols=13 Identities=15% Similarity=0.600 Sum_probs=7.8
Q ss_pred cccccccccccCC
Q psy2876 5 LYKCLYCHKVFKK 17 (367)
Q Consensus 5 ~~~C~~C~~~f~~ 17 (367)
.|+|..||..+..
T Consensus 2 ~~~C~~CG~i~~g 14 (34)
T cd00729 2 VWVCPVCGYIHEG 14 (34)
T ss_pred eEECCCCCCEeEC
Confidence 3566666666543
No 77
>KOG2186|consensus
Probab=83.19 E-value=0.76 Score=39.20 Aligned_cols=47 Identities=23% Similarity=0.530 Sum_probs=32.1
Q ss_pred cccccccccccCCHHHHHHHHHHhCCCccccccccccccCCHHHHHHHHH
Q psy2876 5 LYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCHLCTKAYPSEKNLDRHLL 54 (367)
Q Consensus 5 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 54 (367)
.|.|..||.+... ..+.+||...++ .-|.|-.|+..|.. .+...|..
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 4677788777764 456667777776 56777777777766 55666653
No 78
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.76 E-value=0.16 Score=43.22 Aligned_cols=41 Identities=29% Similarity=0.704 Sum_probs=23.7
Q ss_pred CcccccccccccCCHHHHHHHHHhcCC-----------------cccccccccccCCH
Q psy2876 200 TKHTCDICGEKFINDLKLKAHIKIIHN-----------------LFTCIHCGDTLNNA 240 (367)
Q Consensus 200 ~~~~C~~C~~~f~~~~~l~~H~~~~H~-----------------~~~C~~C~~~f~~~ 240 (367)
+.+.||+|+..|..+.......+.... +..|+.||++|...
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 445666666666655444333332111 35899999988754
No 79
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=77.98 E-value=0.84 Score=39.06 Aligned_cols=91 Identities=25% Similarity=0.465 Sum_probs=46.2
Q ss_pred HhcCccccccccccccCCHHHHHHHHHHc--cCCcceeCCCCCCccCChhhhhhhhhccCCCcceeccccccccCCHHHH
Q psy2876 83 IHERKFHKCTQCEESFKNKKHLKQHLLAH--EKVKVFHCPKCPKLFRHESHLQNHVIVHDESEVHKCLYCFKVFVHKAHL 160 (367)
Q Consensus 83 ~h~~~~~~C~~C~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 160 (367)
.|..+.|+|..|.. |--...--.|+..- -....|+|..|++.- .|.|-.|.-.|-.
T Consensus 137 ~hGGrif~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~SCNrlG-----------------q~sCLRCK~cfCd---- 194 (314)
T PF06524_consen 137 DHGGRIFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQSCNRLG-----------------QYSCLRCKICFCD---- 194 (314)
T ss_pred cCCCeEEEeecCCC-eeeccchhhhhhhhhhhhccccccccccccc-----------------chhhhheeeeehh----
Confidence 34567777777764 33333333454321 112347777776532 1334444333332
Q ss_pred HHHHHH----hCCCCCccCCccccccCChHHHHHHHHHHh
Q psy2876 161 DKHLIL----HETSEMHNCDFCHLTFTTDNDLIRHMRSHE 196 (367)
Q Consensus 161 ~~H~~~----h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 196 (367)
.|.+. -...+++.||.|+........|..-.|+|.
T Consensus 195 -dHvrrKg~ky~k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 195 -DHVRRKGFKYEKGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred -hhhhhcccccccCCCCCCCCCCCcccccccceeeeecch
Confidence 22221 122367778888877777666666555553
No 80
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=76.73 E-value=1.4 Score=32.92 Aligned_cols=29 Identities=31% Similarity=0.739 Sum_probs=14.0
Q ss_pred ccccccccccCCHHHHHHHHHhcCCcccccccccccCC
Q psy2876 202 HTCDICGEKFINDLKLKAHIKIIHNLFTCIHCGDTLNN 239 (367)
Q Consensus 202 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~C~~C~~~f~~ 239 (367)
..|+.||..|... ...|-.|++||..|.-
T Consensus 10 R~Cp~CG~kFYDL---------nk~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 10 RTCPSCGAKFYDL---------NKDPIVCPKCGTEFPP 38 (108)
T ss_pred ccCCCCcchhccC---------CCCCccCCCCCCccCc
Confidence 4555555555543 2234455555554443
No 81
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=76.08 E-value=1.9 Score=27.92 Aligned_cols=9 Identities=22% Similarity=0.519 Sum_probs=4.4
Q ss_pred ccCCccccc
Q psy2876 173 HNCDFCHLT 181 (367)
Q Consensus 173 ~~C~~C~~~ 181 (367)
|.|+.||..
T Consensus 28 F~CPnCGe~ 36 (61)
T COG2888 28 FPCPNCGEV 36 (61)
T ss_pred eeCCCCCce
Confidence 455555533
No 82
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=75.71 E-value=1.5 Score=32.69 Aligned_cols=29 Identities=24% Similarity=0.657 Sum_probs=15.1
Q ss_pred cccccccccCCHHHHHHHHHhcCCCCceecccccccccCH
Q psy2876 35 KCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESE 74 (367)
Q Consensus 35 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 74 (367)
.|+.||..|... +..|..|+.||..|.-.
T Consensus 11 ~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 455566555442 23455566666555543
No 83
>PHA00626 hypothetical protein
Probab=75.67 E-value=0.51 Score=29.97 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=3.7
Q ss_pred cccccccccc
Q psy2876 228 FTCIHCGDTL 237 (367)
Q Consensus 228 ~~C~~C~~~f 237 (367)
|+|+.||+.|
T Consensus 24 YkCkdCGY~f 33 (59)
T PHA00626 24 YVCCDCGYND 33 (59)
T ss_pred eEcCCCCCee
Confidence 3333333333
No 84
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=74.69 E-value=1.4 Score=37.52 Aligned_cols=22 Identities=27% Similarity=0.617 Sum_probs=13.0
Q ss_pred cceeCCCCCCccCChhhhhhhh
Q psy2876 115 KVFHCPKCPKLFRHESHLQNHV 136 (367)
Q Consensus 115 ~~~~C~~C~~~f~~~~~l~~H~ 136 (367)
+.+.||.|+..|.+..-.....
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCc
Confidence 4466777777776655444433
No 85
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=74.62 E-value=1.5 Score=26.82 Aligned_cols=11 Identities=27% Similarity=0.579 Sum_probs=5.5
Q ss_pred ccccccccccC
Q psy2876 6 YKCLYCHKVFK 16 (367)
Q Consensus 6 ~~C~~C~~~f~ 16 (367)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 45555555444
No 86
>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=72.61 E-value=2.4 Score=22.63 Aligned_cols=8 Identities=38% Similarity=0.637 Sum_probs=3.6
Q ss_pred cccccccc
Q psy2876 147 CLYCFKVF 154 (367)
Q Consensus 147 C~~C~~~f 154 (367)
|+.||..|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 44444444
No 87
>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=72.08 E-value=2.3 Score=34.29 Aligned_cols=39 Identities=18% Similarity=0.537 Sum_probs=28.3
Q ss_pred HHHhCCCccccccccccccCCHHHHHHHHHhcCCCCceeccccccccc
Q psy2876 25 MEHHNRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFE 72 (367)
Q Consensus 25 ~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 72 (367)
+....+..-|.|+.|+..|+...++. ..|.|+.||....
T Consensus 101 l~~e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 101 LEFETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred HhhccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 33445566788999998888877774 2588999987644
No 88
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=70.89 E-value=2.5 Score=33.60 Aligned_cols=40 Identities=28% Similarity=0.595 Sum_probs=26.2
Q ss_pred CCCccccccccccccCCHHHHHHHHHhcCCCCceeccccccccc
Q psy2876 29 NRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFE 72 (367)
Q Consensus 29 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 72 (367)
.+...|.|+.|+..|.....+.. . . ....|.|+.||....
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEELE 134 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEEE
Confidence 44567899999998886544332 0 1 134499999987653
No 89
>PF15269 zf-C2H2_7: Zinc-finger
Probab=70.57 E-value=3.2 Score=25.01 Aligned_cols=22 Identities=27% Similarity=0.608 Sum_probs=17.6
Q ss_pred ccccccccccCCHHHHHHHHHH
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEH 27 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~ 27 (367)
|+|-.|..+...++.|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6788888888888888888863
No 90
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=70.46 E-value=4.5 Score=23.60 Aligned_cols=10 Identities=40% Similarity=0.836 Sum_probs=4.4
Q ss_pred eecccccccc
Q psy2876 145 HKCLYCFKVF 154 (367)
Q Consensus 145 ~~C~~C~~~f 154 (367)
.+|+.|+..|
T Consensus 26 vrC~~C~~~f 35 (37)
T PF13719_consen 26 VRCPKCGHVF 35 (37)
T ss_pred EECCCCCcEe
Confidence 4444444433
No 91
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=69.56 E-value=2.6 Score=34.72 Aligned_cols=35 Identities=26% Similarity=0.728 Sum_probs=25.2
Q ss_pred CCCccccccccccccCCHHHHHHHHHhcCCCCceeccccccccc
Q psy2876 29 NRNVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFE 72 (367)
Q Consensus 29 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 72 (367)
....-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 113 ~~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 113 ENNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred cCCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 3445688888888888776653 3588888887654
No 92
>KOG2186|consensus
Probab=69.17 E-value=3.6 Score=35.27 Aligned_cols=45 Identities=22% Similarity=0.587 Sum_probs=29.9
Q ss_pred ccccccccccCCHHHHHHHHHhcCCCCceecccccccccCHHHHHHHH
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEELLIVHQ 81 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~ 81 (367)
|.|..||.....+ .+.+|+...++ .-|.|-.|++.|.. .+...|.
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~ 48 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHT 48 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhh
Confidence 6777777776654 46667766665 45777777777776 4555554
No 93
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=68.52 E-value=6 Score=22.93 Aligned_cols=11 Identities=27% Similarity=0.960 Sum_probs=4.8
Q ss_pred eCCCCCCccCC
Q psy2876 118 HCPKCPKLFRH 128 (367)
Q Consensus 118 ~C~~C~~~f~~ 128 (367)
.|+.|+..|.-
T Consensus 4 ~Cp~C~~~y~i 14 (36)
T PF13717_consen 4 TCPNCQAKYEI 14 (36)
T ss_pred ECCCCCCEEeC
Confidence 34444444433
No 94
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=68.46 E-value=2 Score=27.89 Aligned_cols=9 Identities=22% Similarity=0.442 Sum_probs=4.1
Q ss_pred ccCCccccc
Q psy2876 173 HNCDFCHLT 181 (367)
Q Consensus 173 ~~C~~C~~~ 181 (367)
|.|+.||..
T Consensus 26 F~CPnCG~~ 34 (59)
T PRK14890 26 FLCPNCGEV 34 (59)
T ss_pred eeCCCCCCe
Confidence 444444443
No 95
>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=68.28 E-value=4.8 Score=23.49 Aligned_cols=10 Identities=50% Similarity=1.388 Sum_probs=4.7
Q ss_pred eCCCCCCccC
Q psy2876 118 HCPKCPKLFR 127 (367)
Q Consensus 118 ~C~~C~~~f~ 127 (367)
.|+.|+..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4455554443
No 96
>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=68.20 E-value=1 Score=28.61 Aligned_cols=12 Identities=33% Similarity=0.935 Sum_probs=6.7
Q ss_pred ccccccccccCC
Q psy2876 6 YKCLYCHKVFKK 17 (367)
Q Consensus 6 ~~C~~C~~~f~~ 17 (367)
|+|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 556666655543
No 97
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=68.15 E-value=5.8 Score=27.15 Aligned_cols=59 Identities=10% Similarity=0.050 Sum_probs=34.9
Q ss_pred CCCCcccccCccccCCCchhhhhhcccCccc--cccccccccccccccccCCCCCCCCCCCCC
Q psy2876 283 IESESNQSSGFMYNDETSSYSHIKQEDDSCD--TYMDDTTENSNTYLKQETPDNEDIDTTPVP 343 (367)
Q Consensus 283 ~~c~~c~~~~~~~~~~~~~~~H~~~~~~~C~--~c~~~~~~~~~l~~H~~~h~~~~~~~~~~~ 343 (367)
+.|+.||.-. .-.+...+..-..+.-++|. .||..|...-. ..|..+..+..++..+.+
T Consensus 2 m~CP~Cg~~a-~irtSr~~s~~~~~~Y~qC~N~eCg~tF~t~es-~s~tis~p~~~~~~~~~~ 62 (72)
T PRK09678 2 FHCPLCQHAA-HARTSRYITDTTKERYHQCQNVNCSATFITYES-VQRYIVKPGEVHAVRPHP 62 (72)
T ss_pred ccCCCCCCcc-EEEEChhcChhhheeeeecCCCCCCCEEEEEEE-EEEEEcCCCCCCCCCCCC
Confidence 5688886422 22222233334667788998 99999986533 345555555555555544
No 98
>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=67.97 E-value=1 Score=26.87 Aligned_cols=12 Identities=33% Similarity=0.933 Sum_probs=6.7
Q ss_pred ccccccccccCC
Q psy2876 6 YKCLYCHKVFKK 17 (367)
Q Consensus 6 ~~C~~C~~~f~~ 17 (367)
|+|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (41)
T smart00834 6 YRCEDCGHTFEV 17 (41)
T ss_pred EEcCCCCCEEEE
Confidence 556666655543
No 99
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=66.51 E-value=6.5 Score=31.72 Aligned_cols=39 Identities=21% Similarity=0.318 Sum_probs=28.5
Q ss_pred HHHhcCCCCceecccccccccCHHHHHHHHHHhcCcccccccccccc
Q psy2876 52 HLLTHNVRRSFRCKSCGRRFESEELLIVHQVIHERKFHKCTQCEESF 98 (367)
Q Consensus 52 H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f 98 (367)
=+.......-|.|+.|+..|+....+. ..|.|+.||...
T Consensus 100 ~l~~e~~~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 100 KLEFETNNMFFICPNMCVRFTFNEAME--------LNFTCPRCGAML 138 (158)
T ss_pred HHhhccCCCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCEe
Confidence 334445566788999999888877774 258999998754
No 100
>KOG2807|consensus
Probab=65.55 E-value=9.6 Score=34.05 Aligned_cols=20 Identities=30% Similarity=0.575 Sum_probs=11.2
Q ss_pred CCccCCccccccCChHHHHH
Q psy2876 171 EMHNCDFCHLTFTTDNDLIR 190 (367)
Q Consensus 171 ~~~~C~~C~~~f~~~~~L~~ 190 (367)
-|-.|+.|+.+......|.+
T Consensus 289 LP~eCpiC~ltLVss~hLAR 308 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLAR 308 (378)
T ss_pred CCccCCccceeEecchHHHH
Confidence 35556666666555555543
No 101
>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=64.81 E-value=5.4 Score=24.22 Aligned_cols=22 Identities=41% Similarity=0.812 Sum_probs=10.1
Q ss_pred ccccccccccccCCH----HHHHHHH
Q psy2876 4 TLYKCLYCHKVFKKS----TSFDKHM 25 (367)
Q Consensus 4 ~~~~C~~C~~~f~~~----~~l~~H~ 25 (367)
...+|.+|++.+... +.|..|+
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHH
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 344566666665442 4555555
No 102
>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=64.75 E-value=7.3 Score=20.70 Aligned_cols=19 Identities=21% Similarity=0.557 Sum_probs=9.5
Q ss_pred cCCccccccCChHHHHHHHH
Q psy2876 174 NCDFCHLTFTTDNDLIRHMR 193 (367)
Q Consensus 174 ~C~~C~~~f~~~~~L~~H~~ 193 (367)
.||+|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 355555555 3344555543
No 103
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=64.41 E-value=7.9 Score=30.76 Aligned_cols=39 Identities=15% Similarity=0.427 Sum_probs=25.6
Q ss_pred CCCCceecccccccccCHHHHHHHHHHhcCcccccccccccc
Q psy2876 57 NVRRSFRCKSCGRRFESEELLIVHQVIHERKFHKCTQCEESF 98 (367)
Q Consensus 57 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f 98 (367)
....-|.|+.|+..|.....+..- .....|.|+.||...
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~~---d~~~~f~Cp~Cg~~l 133 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQLL---DMDGTFTCPRCGEEL 133 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHhc---CCCCcEECCCCCCEE
Confidence 445678899999888865443320 123448899998765
No 104
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=63.77 E-value=5.8 Score=25.79 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=12.1
Q ss_pred hhhhhhhhhccCCCcceeccc----cccccC
Q psy2876 129 ESHLQNHVIVHDESEVHKCLY----CFKVFV 155 (367)
Q Consensus 129 ~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 155 (367)
...|..|+...=+.++..|++ |+..+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 345555555444444555555 555443
No 105
>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=63.44 E-value=4.3 Score=30.96 Aligned_cols=30 Identities=20% Similarity=0.257 Sum_probs=15.7
Q ss_pred cccccccccccCCHHHHHHHHHhcCCcccccccccccCC
Q psy2876 201 KHTCDICGEKFINDLKLKAHIKIIHNLFTCIHCGDTLNN 239 (367)
Q Consensus 201 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~C~~C~~~f~~ 239 (367)
...|+.||..|... ...|-.|+.||..|..
T Consensus 9 Kr~Cp~cg~kFYDL---------nk~p~vcP~cg~~~~~ 38 (129)
T TIGR02300 9 KRICPNTGSKFYDL---------NRRPAVSPYTGEQFPP 38 (129)
T ss_pred cccCCCcCcccccc---------CCCCccCCCcCCccCc
Confidence 34566666666543 2235555555555543
No 106
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=63.31 E-value=6.6 Score=32.36 Aligned_cols=30 Identities=33% Similarity=0.698 Sum_probs=16.3
Q ss_pred CCccCCccccccCChHHHHHHHHHHhccCCcccccccccc
Q psy2876 171 EMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGEK 210 (367)
Q Consensus 171 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~~ 210 (367)
.-|.|+.|+..|+...++. ..|.||.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~----------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME----------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh----------cCCcCCCCCCC
Confidence 3456666666665555442 24666666643
No 107
>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=63.31 E-value=3.7 Score=23.11 Aligned_cols=11 Identities=27% Similarity=0.582 Sum_probs=5.0
Q ss_pred ccccccccccC
Q psy2876 6 YKCLYCHKVFK 16 (367)
Q Consensus 6 ~~C~~C~~~f~ 16 (367)
|.|..|+..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 44555555443
No 108
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=62.73 E-value=5.3 Score=32.31 Aligned_cols=9 Identities=22% Similarity=0.656 Sum_probs=3.9
Q ss_pred CCccCCccc
Q psy2876 171 EMHNCDFCH 179 (367)
Q Consensus 171 ~~~~C~~C~ 179 (367)
.|-.||+||
T Consensus 148 ~P~~CPiCg 156 (166)
T COG1592 148 APEVCPICG 156 (166)
T ss_pred CCCcCCCCC
Confidence 344444444
No 109
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=62.64 E-value=3.4 Score=33.03 Aligned_cols=21 Identities=14% Similarity=0.026 Sum_probs=15.7
Q ss_pred ccCcccccccccccccccccc
Q psy2876 308 EDDSCDTYMDDTTENSNTYLK 328 (367)
Q Consensus 308 ~~~~C~~c~~~~~~~~~l~~H 328 (367)
+.++|..||+.|+.+-.+..=
T Consensus 27 ~~~~c~~c~~~f~~~e~~~~~ 47 (154)
T PRK00464 27 RRRECLACGKRFTTFERVELV 47 (154)
T ss_pred eeeeccccCCcceEeEeccCc
Confidence 348999999999887655443
No 110
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=62.30 E-value=5.1 Score=26.06 Aligned_cols=39 Identities=31% Similarity=0.602 Sum_probs=16.5
Q ss_pred cccccc--cccccCCHHHHHHHHHhcCCCCceeccc----cccccc
Q psy2876 33 LHKCHL--CTKAYPSEKNLDRHLLTHNVRRSFRCKS----CGRRFE 72 (367)
Q Consensus 33 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 72 (367)
+..|+. |...+. +..|..|+...=..++..|+. |+..+.
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 445555 333333 345555655444445555555 555544
No 111
>PF12907 zf-met2: Zinc-binding
Probab=62.27 E-value=4.6 Score=24.06 Aligned_cols=9 Identities=0% Similarity=-0.082 Sum_probs=3.9
Q ss_pred hhHhHHHHH
Q psy2876 259 VEKNLNNMY 267 (367)
Q Consensus 259 C~~C~~~~~ 267 (367)
|..|...|.
T Consensus 4 C~iC~qtF~ 12 (40)
T PF12907_consen 4 CKICRQTFM 12 (40)
T ss_pred cHHhhHHHH
Confidence 444444443
No 112
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=61.93 E-value=4.7 Score=35.55 Aligned_cols=22 Identities=23% Similarity=0.603 Sum_probs=10.4
Q ss_pred cccccccccccCCHHHHHHHHH
Q psy2876 201 KHTCDICGEKFINDLKLKAHIK 222 (367)
Q Consensus 201 ~~~C~~C~~~f~~~~~l~~H~~ 222 (367)
.|.|+.|...|-.--+.-.|..
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~ 409 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHET 409 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHH
Confidence 3555555555544444444433
No 113
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=61.59 E-value=4.4 Score=32.78 Aligned_cols=24 Identities=29% Similarity=0.718 Sum_probs=18.5
Q ss_pred CccCCccccccCChHHHHHHHHHHhccCCccccccccc
Q psy2876 172 MHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209 (367)
Q Consensus 172 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~ 209 (367)
.|.|++||+.+. ++ .|-.||+||-
T Consensus 134 ~~vC~vCGy~~~-------------ge-~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE-------------GE-APEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc-------------CC-CCCcCCCCCC
Confidence 689999987753 32 7889999983
No 114
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=61.41 E-value=3.6 Score=25.71 Aligned_cols=11 Identities=36% Similarity=0.839 Sum_probs=6.2
Q ss_pred ccccccccccc
Q psy2876 5 LYKCLYCHKVF 15 (367)
Q Consensus 5 ~~~C~~C~~~f 15 (367)
.|+|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 45555555555
No 115
>PF15269 zf-C2H2_7: Zinc-finger
Probab=61.20 E-value=6.2 Score=23.81 Aligned_cols=23 Identities=22% Similarity=0.342 Sum_probs=20.1
Q ss_pred cccccccccccCCHHHHHHHHHh
Q psy2876 33 LHKCHLCTKAYPSEKNLDRHLLT 55 (367)
Q Consensus 33 ~~~C~~C~~~f~~~~~l~~H~~~ 55 (367)
.|+|-+|..+...++.|-.||+-
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred cceeecCCcccchHHHHHHHHHH
Confidence 37899999999999999999864
No 116
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=60.48 E-value=2.7 Score=36.10 Aligned_cols=93 Identities=24% Similarity=0.445 Sum_probs=48.0
Q ss_pred CCCccccccccccccCCHHHHHHHHHhcC--CCCceecccccccccCHHHHHHHHHHhcCccccccccccccCCHHHHHH
Q psy2876 29 NRNVLHKCHLCTKAYPSEKNLDRHLLTHN--VRRSFRCKSCGRRFESEELLIVHQVIHERKFHKCTQCEESFKNKKHLKQ 106 (367)
Q Consensus 29 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~C~~C~~~f~~~~~l~~ 106 (367)
+|.+.|+|..|..-. -...--.|+.+-. ....|+|.-|++.= .|.|-.|...|-.....+.
T Consensus 138 hGGrif~CsfC~~fl-CEDDQFEHQAsCQvLe~E~~KC~SCNrlG----------------q~sCLRCK~cfCddHvrrK 200 (314)
T PF06524_consen 138 HGGRIFKCSFCDNFL-CEDDQFEHQASCQVLESETFKCQSCNRLG----------------QYSCLRCKICFCDDHVRRK 200 (314)
T ss_pred CCCeEEEeecCCCee-eccchhhhhhhhhhhhccccccccccccc----------------chhhhheeeeehhhhhhhc
Confidence 577889999986533 3333335554321 12347777776532 2344444444433222111
Q ss_pred HHHHccCCcceeCCCCCCccCChhhhhhhhhcc
Q psy2876 107 HLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVH 139 (367)
Q Consensus 107 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 139 (367)
=++. ...+++.||.|+........|..-.++|
T Consensus 201 g~ky-~k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 201 GFKY-EKGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred cccc-ccCCCCCCCCCCCcccccccceeeeecc
Confidence 1111 2336677777777766666665554444
No 117
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=59.63 E-value=4.8 Score=24.73 Aligned_cols=10 Identities=20% Similarity=1.002 Sum_probs=4.7
Q ss_pred eeCCCCCCcc
Q psy2876 117 FHCPKCPKLF 126 (367)
Q Consensus 117 ~~C~~C~~~f 126 (367)
|.|+.||..|
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4455554443
No 118
>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=57.83 E-value=6.1 Score=30.12 Aligned_cols=29 Identities=21% Similarity=0.260 Sum_probs=15.0
Q ss_pred cccccccccCCHHHHHHHHHhcCCCCceecccccccccCH
Q psy2876 35 KCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESE 74 (367)
Q Consensus 35 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 74 (367)
.|+.||+.|... +..|..|+.||..|.-.
T Consensus 11 ~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 11 ICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 455555555432 23455566666555433
No 119
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=57.54 E-value=7.8 Score=24.28 Aligned_cols=23 Identities=30% Similarity=0.625 Sum_probs=10.4
Q ss_pred cccccccccCCH-----HHHHHhHhhhc
Q psy2876 229 TCIHCGDTLNNA-----KDYASHLLIIH 251 (367)
Q Consensus 229 ~C~~C~~~f~~~-----~~l~~H~~~~H 251 (367)
.|..|++.+... +.|.+|+...|
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 344444444332 45555553344
No 120
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=54.58 E-value=10 Score=34.21 Aligned_cols=21 Identities=24% Similarity=0.591 Sum_probs=18.4
Q ss_pred cccccccc-cccCCHHHHHHhH
Q psy2876 227 LFTCIHCG-DTLNNAKDYASHL 247 (367)
Q Consensus 227 ~~~C~~C~-~~f~~~~~l~~H~ 247 (367)
.|.|.+|| +.+.....+.+|.
T Consensus 374 ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 374 EFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred ceeeeecccccccchHHHHhhh
Confidence 59999999 8888888888887
No 121
>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=52.06 E-value=4.7 Score=22.33 Aligned_cols=8 Identities=38% Similarity=0.767 Sum_probs=3.8
Q ss_pred cccccccc
Q psy2876 33 LHKCHLCT 40 (367)
Q Consensus 33 ~~~C~~C~ 40 (367)
.|.|+.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 44454444
No 122
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=51.13 E-value=6.7 Score=27.68 Aligned_cols=12 Identities=25% Similarity=0.994 Sum_probs=6.5
Q ss_pred cccccccccccC
Q psy2876 227 LFTCIHCGDTLN 238 (367)
Q Consensus 227 ~~~C~~C~~~f~ 238 (367)
.+.|..|+..|.
T Consensus 53 IW~C~kCg~~fA 64 (89)
T COG1997 53 IWKCRKCGAKFA 64 (89)
T ss_pred eEEcCCCCCeec
Confidence 455555555554
No 123
>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=50.51 E-value=5.9 Score=23.85 Aligned_cols=12 Identities=25% Similarity=0.861 Sum_probs=7.0
Q ss_pred eeCCCCCCccCC
Q psy2876 117 FHCPKCPKLFRH 128 (367)
Q Consensus 117 ~~C~~C~~~f~~ 128 (367)
|.|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 566666665543
No 124
>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=49.51 E-value=12 Score=31.82 Aligned_cols=26 Identities=19% Similarity=0.452 Sum_probs=17.2
Q ss_pred cccccccccccCCHHHHHHhHhhhcC
Q psy2876 227 LFTCIHCGDTLNNAKDYASHLLIIHN 252 (367)
Q Consensus 227 ~~~C~~C~~~f~~~~~l~~H~~~~H~ 252 (367)
.|.|+.|+|.|....-..+|+...|.
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 47777777777777777777767775
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=48.99 E-value=11 Score=32.08 Aligned_cols=27 Identities=30% Similarity=0.525 Sum_probs=21.6
Q ss_pred CcccccccccccCCHHHHHHHHHhcCC
Q psy2876 200 TKHTCDICGEKFINDLKLKAHIKIIHN 226 (367)
Q Consensus 200 ~~~~C~~C~~~f~~~~~l~~H~~~~H~ 226 (367)
..|.|++|++.|.-..-...|+...|.
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCH
Confidence 569999999999999999999997776
No 126
>KOG2071|consensus
Probab=48.50 E-value=15 Score=35.72 Aligned_cols=25 Identities=28% Similarity=0.624 Sum_probs=15.2
Q ss_pred CCccCCccccccCChHHHHHHHHHH
Q psy2876 171 EMHNCDFCHLTFTTDNDLIRHMRSH 195 (367)
Q Consensus 171 ~~~~C~~C~~~f~~~~~L~~H~~~h 195 (367)
.|-+|..||.+|........||..|
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred CcchhcccccccccchhhhhHhhhh
Confidence 4456666666666666655555554
No 127
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=48.35 E-value=21 Score=31.66 Aligned_cols=25 Identities=32% Similarity=0.646 Sum_probs=15.2
Q ss_pred CCccCCccccccCChHHHHHHHHHH
Q psy2876 171 EMHNCDFCHLTFTTDNDLIRHMRSH 195 (367)
Q Consensus 171 ~~~~C~~C~~~f~~~~~L~~H~~~h 195 (367)
..|+|+.|...|-..-+...|...|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 3466777777666666665665443
No 128
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=46.96 E-value=13 Score=28.57 Aligned_cols=55 Identities=24% Similarity=0.509 Sum_probs=32.7
Q ss_pred CccccccccccccCCHHHHHHHHHHhCCCcccccc---ccccccCCHHHHHHHHHhcCCCCceecccccccccCHH
Q psy2876 3 KTLYKCLYCHKVFKKSTSFDKHMEHHNRNVLHKCH---LCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFESEE 75 (367)
Q Consensus 3 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~---~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 75 (367)
.+.|+|.+|..+.....-| +|-.|- +|+.-+ ..|+.|-..| -.|+.|..+|.+.+
T Consensus 78 ~~lYeCnIC~etS~ee~FL----------KPneCCgY~iCn~Cy---a~LWK~~~~y-----pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFL----------KPNECCGYSICNACY---ANLWKFCNLY-----PVCPVCKTSFKSSS 135 (140)
T ss_pred CCceeccCcccccchhhcC----------CcccccchHHHHHHH---HHHHHHcccC-----CCCCcccccccccc
Confidence 4679999998877654322 232221 132222 4666666544 26888888887754
No 129
>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=45.60 E-value=13 Score=28.82 Aligned_cols=23 Identities=35% Similarity=0.713 Sum_probs=12.3
Q ss_pred ccccccccccCCHHHHHHHHHHhCCC
Q psy2876 6 YKCLYCHKVFKKSTSFDKHMEHHNRN 31 (367)
Q Consensus 6 ~~C~~C~~~f~~~~~l~~H~~~h~~~ 31 (367)
..|-+||+.|.. |.+|++.|+|-
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eEEccCCcccch---HHHHHHHccCC
Confidence 357777777765 46777777654
No 130
>KOG2807|consensus
Probab=45.02 E-value=35 Score=30.66 Aligned_cols=89 Identities=22% Similarity=0.369 Sum_probs=51.0
Q ss_pred CccccccccccccCCHHHHHHHHHHccCCcceeCCCCCCccCChhhhhhhhhccCC----------C--cceeccccccc
Q psy2876 86 RKFHKCTQCEESFKNKKHLKQHLLAHEKVKVFHCPKCPKLFRHESHLQNHVIVHDE----------S--EVHKCLYCFKV 153 (367)
Q Consensus 86 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~----------~--~~~~C~~C~~~ 153 (367)
..-|.|+.|.... -.-|..|+.|+....+...|.+-..---+ + +.-.|-.|+..
T Consensus 274 ~~Gy~CP~Ckakv--------------CsLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~ 339 (378)
T KOG2807|consen 274 GGGYFCPQCKAKV--------------CSLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE 339 (378)
T ss_pred cCceeCCcccCee--------------ecCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc
Confidence 4568888886532 23467888888887777666543221101 1 11125556211
Q ss_pred cCCHHHHHHHHHHhCCCCCccCCccccccCChHHHHHHHHHHhccCCcccccccc
Q psy2876 154 FVHKAHLDKHLILHETSEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICG 208 (367)
Q Consensus 154 f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~ 208 (367)
-.+...|.|..|...|-..-+...|...| .|+.|.
T Consensus 340 -------------~~~~~~y~C~~Ck~~FCldCDv~iHesLh-------~CpgCe 374 (378)
T KOG2807|consen 340 -------------LLSSGRYRCESCKNVFCLDCDVFIHESLH-------NCPGCE 374 (378)
T ss_pred -------------cCCCCcEEchhccceeeccchHHHHhhhh-------cCCCcC
Confidence 12344588888888887776666665443 466664
No 131
>KOG2593|consensus
Probab=44.93 E-value=29 Score=32.50 Aligned_cols=36 Identities=33% Similarity=0.618 Sum_probs=20.4
Q ss_pred CccccccccccccCCHHHHHHHHHhcCCCCceecccccc
Q psy2876 31 NVLHKCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGR 69 (367)
Q Consensus 31 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 69 (367)
...|.|+.|++.|+....++ ..-.....|.|..|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHH---hhcccCceEEEecCCC
Confidence 34577777777776544332 2222334577777764
No 132
>PF14353 CpXC: CpXC protein
Probab=44.86 E-value=16 Score=28.14 Aligned_cols=20 Identities=45% Similarity=0.845 Sum_probs=11.7
Q ss_pred ceeCCCCCCccCChhhhhhh
Q psy2876 116 VFHCPKCPKLFRHESHLQNH 135 (367)
Q Consensus 116 ~~~C~~C~~~f~~~~~l~~H 135 (367)
.|.|+.||..|.-...+.-|
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EEECCCCCCceecCCCEEEE
Confidence 46677777666555444444
No 133
>PRK04023 DNA polymerase II large subunit; Validated
Probab=44.25 E-value=21 Score=37.28 Aligned_cols=8 Identities=50% Similarity=1.252 Sum_probs=3.9
Q ss_pred eCCCCCCc
Q psy2876 118 HCPKCPKL 125 (367)
Q Consensus 118 ~C~~C~~~ 125 (367)
.|+.||..
T Consensus 628 fCpsCG~~ 635 (1121)
T PRK04023 628 KCPSCGKE 635 (1121)
T ss_pred cCCCCCCc
Confidence 45555544
No 134
>KOG2593|consensus
Probab=43.65 E-value=20 Score=33.55 Aligned_cols=36 Identities=19% Similarity=0.392 Sum_probs=17.6
Q ss_pred CCCccCCccccccCChHHHHHHHHHHhccCCccccccccc
Q psy2876 170 SEMHNCDFCHLTFTTDNDLIRHMRSHEEYHTKHTCDICGE 209 (367)
Q Consensus 170 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~C~~C~~ 209 (367)
...|.|+.|++.|+....+.- -......|.|..|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L----~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQL----LDNETGEFHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHHh----hcccCceEEEecCCC
Confidence 345666666666655544421 111113466666653
No 135
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=43.36 E-value=15 Score=23.49 Aligned_cols=10 Identities=60% Similarity=1.102 Sum_probs=5.5
Q ss_pred cccccccccC
Q psy2876 7 KCLYCHKVFK 16 (367)
Q Consensus 7 ~C~~C~~~f~ 16 (367)
+|+.|++.|.
T Consensus 7 ~C~~Cg~~~~ 16 (54)
T PF14446_consen 7 KCPVCGKKFK 16 (54)
T ss_pred cChhhCCccc
Confidence 4555555554
No 136
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=42.96 E-value=12 Score=28.85 Aligned_cols=14 Identities=29% Similarity=0.724 Sum_probs=8.9
Q ss_pred cccccccccccCCH
Q psy2876 5 LYKCLYCHKVFKKS 18 (367)
Q Consensus 5 ~~~C~~C~~~f~~~ 18 (367)
|++|..||+.|.+.
T Consensus 1 PH~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 1 PHQCTKCGRVFEDG 14 (131)
T ss_pred CcccCcCCCCcCCC
Confidence 46666677666654
No 137
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=41.08 E-value=24 Score=36.01 Aligned_cols=27 Identities=19% Similarity=0.405 Sum_probs=16.5
Q ss_pred CCCcceeccccccccCCHHHHHHHHHHhCCCCCccCCccccc
Q psy2876 140 DESEVHKCLYCFKVFVHKAHLDKHLILHETSEMHNCDFCHLT 181 (367)
Q Consensus 140 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 181 (367)
.......|.+||.. ...|..|+.|+..
T Consensus 458 ~~~~~L~CH~Cg~~---------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 458 KATGQLRCHYCGYQ---------------EPIPQSCPECGSE 484 (730)
T ss_pred cCCCeeEeCCCCCC---------------CCCCCCCCCCCCC
Confidence 33455677777753 2456777777754
No 138
>PRK04023 DNA polymerase II large subunit; Validated
Probab=40.18 E-value=24 Score=36.87 Aligned_cols=10 Identities=40% Similarity=0.597 Sum_probs=6.4
Q ss_pred cccccccccc
Q psy2876 5 LYKCLYCHKV 14 (367)
Q Consensus 5 ~~~C~~C~~~ 14 (367)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 3467777766
No 139
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=39.49 E-value=26 Score=20.84 Aligned_cols=19 Identities=21% Similarity=0.567 Sum_probs=11.9
Q ss_pred cceeccccccccCCHHHHH
Q psy2876 143 EVHKCLYCFKVFVHKAHLD 161 (367)
Q Consensus 143 ~~~~C~~C~~~f~~~~~l~ 161 (367)
....|+.|+-.+.....|.
T Consensus 18 ~id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 18 EIDVCPSCGGIWFDAGELE 36 (41)
T ss_pred EEEECCCCCeEEccHHHHH
Confidence 4456777776666666554
No 140
>KOG4167|consensus
Probab=37.88 E-value=9.6 Score=37.91 Aligned_cols=26 Identities=38% Similarity=0.680 Sum_probs=22.0
Q ss_pred ccccccccccccCCHHHHHHHHHHhC
Q psy2876 4 TLYKCLYCHKVFKKSTSFDKHMEHHN 29 (367)
Q Consensus 4 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 29 (367)
..|.|.+|++.|.....+..||+.|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 45889999999988888889998885
No 141
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=37.45 E-value=13 Score=37.74 Aligned_cols=38 Identities=11% Similarity=0.138 Sum_probs=26.0
Q ss_pred ccccccccccCCHHHHHHhHhhhcCCCCCcchhHhHHHHHHHHHHHHhhhcCCCCCCCCccc
Q psy2876 228 FTCIHCGDTLNNAKDYASHLLIIHNIESSQQVEKNLNNMYNLLTTHIEYHHSQNNIESESNQ 289 (367)
Q Consensus 228 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~l~~H~~~h~~~~~~~c~~c~ 289 (367)
++|+.|+..+ ..|.......|..||+. ...|..|+.||
T Consensus 445 ~~Cp~Cd~~l-----------t~H~~~~~L~CH~Cg~~-------------~~~p~~Cp~Cg 482 (730)
T COG1198 445 AECPNCDSPL-----------TLHKATGQLRCHYCGYQ-------------EPIPQSCPECG 482 (730)
T ss_pred ccCCCCCcce-----------EEecCCCeeEeCCCCCC-------------CCCCCCCCCCC
Confidence 4677776653 44556667888888843 56778888886
No 142
>PRK05978 hypothetical protein; Provisional
Probab=35.57 E-value=24 Score=28.04 Aligned_cols=31 Identities=16% Similarity=0.195 Sum_probs=21.4
Q ss_pred CCCCcccccCccccCCCchhhhhhcccCccccccccccc
Q psy2876 283 IESESNQSSGFMYNDETSSYSHIKQEDDSCDTYMDDTTE 321 (367)
Q Consensus 283 ~~c~~c~~~~~~~~~~~~~~~H~~~~~~~C~~c~~~~~~ 321 (367)
-+|+.||+ |..|..-..+ ...|+.||..|..
T Consensus 34 grCP~CG~-G~LF~g~Lkv-------~~~C~~CG~~~~~ 64 (148)
T PRK05978 34 GRCPACGE-GKLFRAFLKP-------VDHCAACGEDFTH 64 (148)
T ss_pred CcCCCCCC-Cccccccccc-------CCCccccCCcccc
Confidence 36999987 8887633222 3369999988764
No 143
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=34.76 E-value=24 Score=22.10 Aligned_cols=17 Identities=18% Similarity=0.352 Sum_probs=10.1
Q ss_pred CccccccccccccCCHH
Q psy2876 3 KTLYKCLYCHKVFKKST 19 (367)
Q Consensus 3 ~~~~~C~~C~~~f~~~~ 19 (367)
++++.|..||..|.-..
T Consensus 2 Dk~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTA 18 (49)
T ss_pred CeeEEcccCCCeEEEeh
Confidence 35566777776665433
No 144
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=33.95 E-value=26 Score=24.98 Aligned_cols=13 Identities=23% Similarity=0.631 Sum_probs=7.1
Q ss_pred CccCCccccccCC
Q psy2876 172 MHNCDFCHLTFTT 184 (367)
Q Consensus 172 ~~~C~~C~~~f~~ 184 (367)
|-.|..||+.|.+
T Consensus 58 Pa~CkkCGfef~~ 70 (97)
T COG3357 58 PARCKKCGFEFRD 70 (97)
T ss_pred ChhhcccCccccc
Confidence 4455555555544
No 145
>KOG1280|consensus
Probab=32.97 E-value=37 Score=30.79 Aligned_cols=39 Identities=21% Similarity=0.483 Sum_probs=23.7
Q ss_pred CCCccCCccccccCChHHHHHHHHHHhccC-Ccccccccc
Q psy2876 170 SEMHNCDFCHLTFTTDNDLIRHMRSHEEYH-TKHTCDICG 208 (367)
Q Consensus 170 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~-~~~~C~~C~ 208 (367)
...|.|+.|+..=.+...|..|+...|.+. ....|++|+
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 346777777777666777777776655441 123455554
No 146
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=32.64 E-value=41 Score=20.94 Aligned_cols=22 Identities=9% Similarity=0.096 Sum_probs=15.0
Q ss_pred cCcccccccccccccc-cccccc
Q psy2876 309 DDSCDTYMDDTTENSN-TYLKQE 330 (367)
Q Consensus 309 ~~~C~~c~~~~~~~~~-l~~H~~ 330 (367)
.+.|..||+.+...+. .+.+..
T Consensus 20 ~~vC~~Cg~~~~~~~~~~~~~~~ 42 (52)
T smart00661 20 RFVCRKCGYEEPIEQKYVYKEKL 42 (52)
T ss_pred EEECCcCCCeEECCCcEEEEEEe
Confidence 6789999987776655 444433
No 147
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=32.57 E-value=20 Score=18.71 Aligned_cols=10 Identities=30% Similarity=0.497 Sum_probs=6.8
Q ss_pred cccccccccc
Q psy2876 32 VLHKCHLCTK 41 (367)
Q Consensus 32 ~~~~C~~C~~ 41 (367)
..|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3577777764
No 148
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=32.47 E-value=13 Score=26.97 Aligned_cols=40 Identities=3% Similarity=-0.075 Sum_probs=21.2
Q ss_pred CCCCCCCcccccCccccCCCchhhhhhcccCcccccccccccc
Q psy2876 280 QNNIESESNQSSGFMYNDETSSYSHIKQEDDSCDTYMDDTTEN 322 (367)
Q Consensus 280 ~~~~~c~~c~~~~~~~~~~~~~~~H~~~~~~~C~~c~~~~~~~ 322 (367)
.+.|.|+.|+ ....+.-.+..-.+.-.-.|..||.+|...
T Consensus 20 ~k~FtCp~Cg---he~vs~ctvkk~~~~g~~~Cg~CGls~e~e 59 (104)
T COG4888 20 PKTFTCPRCG---HEKVSSCTVKKTVNIGTAVCGNCGLSFECE 59 (104)
T ss_pred CceEecCccC---CeeeeEEEEEecCceeEEEcccCcceEEEe
Confidence 3457788874 333322223332233344688888887643
No 149
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=32.11 E-value=9.3 Score=27.33 Aligned_cols=12 Identities=25% Similarity=1.024 Sum_probs=6.9
Q ss_pred cccccccccccC
Q psy2876 227 LFTCIHCGDTLN 238 (367)
Q Consensus 227 ~~~C~~C~~~f~ 238 (367)
.+.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (90)
T PF01780_consen 53 IWKCKKCGKKFA 64 (90)
T ss_dssp EEEETTTTEEEE
T ss_pred EeecCCCCCEEe
Confidence 556666665554
No 150
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=31.29 E-value=22 Score=21.15 Aligned_cols=10 Identities=20% Similarity=0.424 Sum_probs=6.0
Q ss_pred eecccccccc
Q psy2876 145 HKCLYCFKVF 154 (367)
Q Consensus 145 ~~C~~C~~~f 154 (367)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5666666554
No 151
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=30.20 E-value=55 Score=19.52 Aligned_cols=24 Identities=17% Similarity=0.396 Sum_probs=16.0
Q ss_pred ccccccccccC--CHHHHHHHHHHhC
Q psy2876 6 YKCLYCHKVFK--KSTSFDKHMEHHN 29 (367)
Q Consensus 6 ~~C~~C~~~f~--~~~~l~~H~~~h~ 29 (367)
-.|+.||..|. ...+-..|.+-|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 57888888774 4455666666553
No 152
>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=29.40 E-value=14 Score=23.34 Aligned_cols=26 Identities=4% Similarity=0.226 Sum_probs=17.5
Q ss_pred ccCccccccccccccccccccccCCC
Q psy2876 308 EDDSCDTYMDDTTENSNTYLKQETPD 333 (367)
Q Consensus 308 ~~~~C~~c~~~~~~~~~l~~H~~~h~ 333 (367)
..|+|..|..-|-..-++..|+.+|.
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CeEECCCCCCccccCcChhhhccccC
Confidence 57899999999999999999998884
No 153
>PRK14873 primosome assembly protein PriA; Provisional
Probab=29.31 E-value=35 Score=34.59 Aligned_cols=10 Identities=20% Similarity=0.404 Sum_probs=5.7
Q ss_pred CccCCccccc
Q psy2876 172 MHNCDFCHLT 181 (367)
Q Consensus 172 ~~~C~~C~~~ 181 (367)
|..|+.|+..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 4556666643
No 154
>KOG4124|consensus
Probab=29.17 E-value=7.3 Score=35.05 Aligned_cols=27 Identities=26% Similarity=0.391 Sum_probs=18.3
Q ss_pred Ccccccc--cccccCCHHHHHHHHHhcCC
Q psy2876 200 TKHTCDI--CGEKFINDLKLKAHIKIIHN 226 (367)
Q Consensus 200 ~~~~C~~--C~~~f~~~~~l~~H~~~~H~ 226 (367)
++|+|++ |.+.+.+...|..|....|.
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~ 376 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHC 376 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcC
Confidence 5677765 77777777777777665553
No 155
>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=29.12 E-value=46 Score=20.31 Aligned_cols=8 Identities=25% Similarity=0.717 Sum_probs=4.6
Q ss_pred cccccccc
Q psy2876 34 HKCHLCTK 41 (367)
Q Consensus 34 ~~C~~C~~ 41 (367)
+.|+.|+.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 45666654
No 156
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=28.91 E-value=60 Score=35.04 Aligned_cols=9 Identities=33% Similarity=0.881 Sum_probs=5.3
Q ss_pred eeCCCCCCc
Q psy2876 117 FHCPKCPKL 125 (367)
Q Consensus 117 ~~C~~C~~~ 125 (367)
+.|+.||..
T Consensus 668 rkCPkCG~~ 676 (1337)
T PRK14714 668 RRCPSCGTE 676 (1337)
T ss_pred EECCCCCCc
Confidence 556666653
No 157
>KOG4167|consensus
Probab=28.65 E-value=39 Score=33.88 Aligned_cols=23 Identities=9% Similarity=0.148 Sum_probs=20.8
Q ss_pred cchhHhHHHHHH--HHHHHHhhhcC
Q psy2876 257 QQVEKNLNNMYN--LLTTHIEYHHS 279 (367)
Q Consensus 257 ~~C~~C~~~~~~--~l~~H~~~h~~ 279 (367)
|.|.+|++.|-. .+..||+.|.-
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHH
Confidence 899999999988 99999999854
No 158
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.20 E-value=31 Score=26.99 Aligned_cols=11 Identities=18% Similarity=0.767 Sum_probs=5.4
Q ss_pred eeCCCCCCccC
Q psy2876 117 FHCPKCPKLFR 127 (367)
Q Consensus 117 ~~C~~C~~~f~ 127 (367)
+.|..||..|.
T Consensus 71 ~~C~~CG~~~~ 81 (135)
T PRK03824 71 LKCRNCGNEWS 81 (135)
T ss_pred EECCCCCCEEe
Confidence 44555554443
No 159
>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=27.96 E-value=33 Score=19.89 Aligned_cols=8 Identities=50% Similarity=1.780 Sum_probs=3.5
Q ss_pred CCCCCCcc
Q psy2876 119 CPKCPKLF 126 (367)
Q Consensus 119 C~~C~~~f 126 (367)
|+.||..|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 44444443
No 160
>KOG1842|consensus
Probab=27.00 E-value=35 Score=32.06 Aligned_cols=27 Identities=33% Similarity=0.389 Sum_probs=13.1
Q ss_pred ccccccccccCCHHHHHHhHhhhcCCC
Q psy2876 228 FTCIHCGDTLNNAKDYASHLLIIHNIE 254 (367)
Q Consensus 228 ~~C~~C~~~f~~~~~l~~H~~~~H~~~ 254 (367)
|.||+|...|.+...|..|+-..|.++
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 444444444444445555544455443
No 161
>KOG3408|consensus
Probab=26.87 E-value=37 Score=25.68 Aligned_cols=24 Identities=21% Similarity=0.379 Sum_probs=16.9
Q ss_pred CCccCCccccccCChHHHHHHHHH
Q psy2876 171 EMHNCDFCHLTFTTDNDLIRHMRS 194 (367)
Q Consensus 171 ~~~~C~~C~~~f~~~~~L~~H~~~ 194 (367)
..|.|-.|.+-|.+...|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 346777777777777777777664
No 162
>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=26.59 E-value=42 Score=32.15 Aligned_cols=26 Identities=23% Similarity=0.519 Sum_probs=14.7
Q ss_pred ccccccccccCCHHHHHHhHhhhcCC
Q psy2876 228 FTCIHCGDTLNNAKDYASHLLIIHNI 253 (367)
Q Consensus 228 ~~C~~C~~~f~~~~~l~~H~~~~H~~ 253 (367)
+.|+.|++.|.+...+..|+...|.+
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhh
Confidence 35555566666666666665555543
No 163
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=26.38 E-value=40 Score=24.61 Aligned_cols=12 Identities=33% Similarity=1.096 Sum_probs=5.4
Q ss_pred eecccccccccC
Q psy2876 62 FRCKSCGRRFES 73 (367)
Q Consensus 62 ~~C~~C~~~f~~ 73 (367)
.+|..||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 344444444444
No 164
>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=26.21 E-value=30 Score=18.87 Aligned_cols=12 Identities=17% Similarity=0.454 Sum_probs=4.2
Q ss_pred cccccccccccc
Q psy2876 32 VLHKCHLCTKAY 43 (367)
Q Consensus 32 ~~~~C~~C~~~f 43 (367)
..|.|.+|+..+
T Consensus 14 ~~Y~C~~Cdf~l 25 (30)
T PF07649_consen 14 WFYRCSECDFDL 25 (30)
T ss_dssp -EEE-TTT----
T ss_pred ceEECccCCCcc
Confidence 357777776543
No 165
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=26.13 E-value=23 Score=25.43 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=4.7
Q ss_pred ccccccccccc
Q psy2876 227 LFTCIHCGDTL 237 (367)
Q Consensus 227 ~~~C~~C~~~f 237 (367)
++.|..|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PTZ00255 54 IWRCKGCKKTV 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 34444444443
No 166
>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=25.71 E-value=45 Score=31.91 Aligned_cols=26 Identities=23% Similarity=0.413 Sum_probs=22.1
Q ss_pred cccccccccccCCHHHHHHHHHhcCC
Q psy2876 201 KHTCDICGEKFINDLKLKAHIKIIHN 226 (367)
Q Consensus 201 ~~~C~~C~~~f~~~~~l~~H~~~~H~ 226 (367)
-+.|+.|.+.|.+...+..|+...|.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~ 82 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHP 82 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhh
Confidence 47789999999999999999887775
No 167
>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=25.46 E-value=24 Score=22.59 Aligned_cols=10 Identities=20% Similarity=0.717 Sum_probs=4.7
Q ss_pred cccccccccc
Q psy2876 6 YKCLYCHKVF 15 (367)
Q Consensus 6 ~~C~~C~~~f 15 (367)
++|+.||..+
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 3455555444
No 168
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.31 E-value=52 Score=24.36 Aligned_cols=27 Identities=11% Similarity=0.053 Sum_probs=15.1
Q ss_pred cccccccccCCHHHHHHHHHhcCCCCceeccccccccc
Q psy2876 35 KCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFE 72 (367)
Q Consensus 35 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 72 (367)
.|+.|++.|... +..|..|+.||++|.
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccch
Confidence 356666666432 345666666666663
No 169
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=24.80 E-value=31 Score=20.38 Aligned_cols=13 Identities=31% Similarity=0.687 Sum_probs=8.9
Q ss_pred cccccccccccCC
Q psy2876 5 LYKCLYCHKVFKK 17 (367)
Q Consensus 5 ~~~C~~C~~~f~~ 17 (367)
|++|..|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 6677777777743
No 170
>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=24.53 E-value=20 Score=25.73 Aligned_cols=11 Identities=36% Similarity=1.165 Sum_probs=5.1
Q ss_pred ccccccccccc
Q psy2876 227 LFTCIHCGDTL 237 (367)
Q Consensus 227 ~~~C~~C~~~f 237 (367)
++.|..|++.|
T Consensus 53 IW~C~~C~~~~ 63 (91)
T TIGR00280 53 IWTCRKCGAKF 63 (91)
T ss_pred EEEcCCCCCEE
Confidence 44444444444
No 171
>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=24.52 E-value=16 Score=21.54 Aligned_cols=10 Identities=20% Similarity=0.441 Sum_probs=6.8
Q ss_pred eecccccccc
Q psy2876 145 HKCLYCFKVF 154 (367)
Q Consensus 145 ~~C~~C~~~f 154 (367)
|.|..|+..|
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 6777777654
No 172
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=23.93 E-value=20 Score=24.46 Aligned_cols=13 Identities=23% Similarity=0.289 Sum_probs=5.7
Q ss_pred ceeCCCCCCccCC
Q psy2876 116 VFHCPKCPKLFRH 128 (367)
Q Consensus 116 ~~~C~~C~~~f~~ 128 (367)
...|..|+..+..
T Consensus 41 ~v~Cg~C~~~~~~ 53 (71)
T PF05495_consen 41 RVICGKCRTEQPI 53 (71)
T ss_dssp EEEETTT--EEES
T ss_pred CeECCCCCCccCh
Confidence 4556666555443
No 173
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=23.93 E-value=59 Score=19.45 Aligned_cols=10 Identities=30% Similarity=0.331 Sum_probs=4.6
Q ss_pred ceeccccccc
Q psy2876 144 VHKCLYCFKV 153 (367)
Q Consensus 144 ~~~C~~C~~~ 153 (367)
.+.|+.||..
T Consensus 19 ~~vC~~CG~V 28 (43)
T PF08271_consen 19 ELVCPNCGLV 28 (43)
T ss_dssp EEEETTT-BB
T ss_pred eEECCCCCCE
Confidence 3455555543
No 174
>KOG2272|consensus
Probab=23.45 E-value=49 Score=28.53 Aligned_cols=39 Identities=15% Similarity=0.278 Sum_probs=19.8
Q ss_pred cccccccccccCCHHHHHHhHhhhcCCCCCcchhHhHHHHHHHHHH
Q psy2876 227 LFTCIHCGDTLNNAKDYASHLLIIHNIESSQQVEKNLNNMYNLLTT 272 (367)
Q Consensus 227 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~l~~ 272 (367)
-|.|..|++....+..+..= ..+ -.|..|--.|...|++
T Consensus 280 cf~Cs~Cdkkl~~K~Kf~E~------Dmk-P~CKkCy~rfp~elkk 318 (332)
T KOG2272|consen 280 CFSCSTCDKKLTQKNKFYEF------DMK-PVCKKCYDRFPLELKK 318 (332)
T ss_pred cccccccccccccccceeee------ccc-hHHHHHHhhccHHHHH
Confidence 36777777765544333211 111 2466666666554433
No 175
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.43 E-value=33 Score=29.18 Aligned_cols=22 Identities=23% Similarity=0.581 Sum_probs=11.3
Q ss_pred ceeCCCCCCccCChhhhhhhhh
Q psy2876 116 VFHCPKCPKLFRHESHLQNHVI 137 (367)
Q Consensus 116 ~~~C~~C~~~f~~~~~l~~H~~ 137 (367)
.+.||.|+..|.....+..-.+
T Consensus 19 ~ieCPvC~tkFkkeev~tgsiR 40 (267)
T COG1655 19 TIECPVCNTKFKKEEVKTGSIR 40 (267)
T ss_pred eeccCcccchhhhhheecccee
Confidence 3556666666655444333333
No 176
>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=22.40 E-value=1e+02 Score=24.20 Aligned_cols=32 Identities=13% Similarity=0.335 Sum_probs=21.8
Q ss_pred cccccccccccCCHHHHHHhHhhhcCCCCCcchhHhHHHHHHHHHHHH
Q psy2876 227 LFTCIHCGDTLNNAKDYASHLLIIHNIESSQQVEKNLNNMYNLLTTHI 274 (367)
Q Consensus 227 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~~~~~~~l~~H~ 274 (367)
.|.|..||... ..| --|+.|...+...|..-.
T Consensus 81 ~~~CE~CG~~I-------------~~G---r~C~~C~~~l~~~l~~~~ 112 (137)
T TIGR03826 81 GYPCERCGTSI-------------REG---RLCDSCAGELKRQLSAGE 112 (137)
T ss_pred cCcccccCCcC-------------CCC---CccHHHHHHHHHHHHHHh
Confidence 47888888743 334 458888888877665543
No 177
>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=22.32 E-value=50 Score=22.07 Aligned_cols=29 Identities=24% Similarity=0.660 Sum_probs=18.6
Q ss_pred cccccccccCCHHHHHHHHHhcCCCCceecccccccccC
Q psy2876 35 KCHLCTKAYPSEKNLDRHLLTHNVRRSFRCKSCGRRFES 73 (367)
Q Consensus 35 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 73 (367)
.|+.||..-.. -...+.|.|+.||..+..
T Consensus 30 ~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 30 TCPRCGHRNKK----------RRSGRVFTCPNCGFEMDR 58 (69)
T ss_pred CccCccccccc----------ccccceEEcCCCCCEECc
Confidence 47777776554 123456788888877554
No 178
>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=22.26 E-value=33 Score=25.44 Aligned_cols=12 Identities=17% Similarity=0.401 Sum_probs=6.3
Q ss_pred cccccccccccC
Q psy2876 201 KHTCDICGEKFI 212 (367)
Q Consensus 201 ~~~C~~C~~~f~ 212 (367)
.|.||.|+..+.
T Consensus 19 ~~iCpeC~~EW~ 30 (109)
T TIGR00686 19 QLICPSCLYEWN 30 (109)
T ss_pred eeECcccccccc
Confidence 455555555444
No 179
>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=22.24 E-value=40 Score=18.31 Aligned_cols=18 Identities=28% Similarity=0.659 Sum_probs=8.1
Q ss_pred eCCCCCCccCChhhhhhhh
Q psy2876 118 HCPKCPKLFRHESHLQNHV 136 (367)
Q Consensus 118 ~C~~C~~~f~~~~~l~~H~ 136 (367)
.|-.|++.| .....+.|.
T Consensus 2 sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 2 SCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EETTTTEEE-EGGGTTT--
T ss_pred eeecCCCCc-CcCCcCCCC
Confidence 455566665 333444443
No 180
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=22.11 E-value=43 Score=25.21 Aligned_cols=13 Identities=15% Similarity=0.309 Sum_probs=8.4
Q ss_pred cccccccccccCC
Q psy2876 33 LHKCHLCTKAYPS 45 (367)
Q Consensus 33 ~~~C~~C~~~f~~ 45 (367)
.+.|..|+..|..
T Consensus 70 ~~~C~~Cg~~~~~ 82 (113)
T PRK12380 70 QAWCWDCSQVVEI 82 (113)
T ss_pred EEEcccCCCEEec
Confidence 3667777766654
No 181
>COG1773 Rubredoxin [Energy production and conversion]
Probab=22.03 E-value=36 Score=21.87 Aligned_cols=12 Identities=25% Similarity=0.830 Sum_probs=7.7
Q ss_pred cccccccccccC
Q psy2876 5 LYKCLYCHKVFK 16 (367)
Q Consensus 5 ~~~C~~C~~~f~ 16 (367)
.|+|..||.+|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 466666666664
No 182
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=21.54 E-value=57 Score=20.50 Aligned_cols=6 Identities=33% Similarity=0.661 Sum_probs=2.3
Q ss_pred eccccc
Q psy2876 146 KCLYCF 151 (367)
Q Consensus 146 ~C~~C~ 151 (367)
.|..|+
T Consensus 39 ~C~~Cg 44 (50)
T PRK00432 39 HCGKCG 44 (50)
T ss_pred ECCCcC
Confidence 333333
No 183
>KOG0717|consensus
Probab=21.16 E-value=51 Score=31.28 Aligned_cols=23 Identities=26% Similarity=0.577 Sum_probs=20.9
Q ss_pred ccCCccccccCChHHHHHHHHHH
Q psy2876 173 HNCDFCHLTFTTDNDLIRHMRSH 195 (367)
Q Consensus 173 ~~C~~C~~~f~~~~~L~~H~~~h 195 (367)
+.|.+|+++|.+...|..|..+.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSK 315 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSK 315 (508)
T ss_pred eEEeeccccccchHHHHhhHHHH
Confidence 78999999999999999998763
No 184
>PRK10220 hypothetical protein; Provisional
Probab=20.93 E-value=42 Score=24.89 Aligned_cols=12 Identities=17% Similarity=0.509 Sum_probs=6.0
Q ss_pred cccccccccccC
Q psy2876 201 KHTCDICGEKFI 212 (367)
Q Consensus 201 ~~~C~~C~~~f~ 212 (367)
.|.|+.|+..+.
T Consensus 20 ~~vCpeC~hEW~ 31 (111)
T PRK10220 20 MYICPECAHEWN 31 (111)
T ss_pred eEECCcccCcCC
Confidence 355555554444
No 185
>KOG1280|consensus
Probab=20.93 E-value=88 Score=28.48 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=13.1
Q ss_pred ccccccccccCCHHHHHHHHHhcC
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLLTHN 57 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~~h~ 57 (367)
|.|++|+..=.+...|..|...-+
T Consensus 80 ftCPyC~~~Gfte~~f~~Hv~s~H 103 (381)
T KOG1280|consen 80 FTCPYCGIMGFTERQFGTHVLSQH 103 (381)
T ss_pred ccCCcccccccchhHHHHHhhhcC
Confidence 555555555555555555554433
No 186
>KOG3408|consensus
Probab=20.60 E-value=63 Score=24.48 Aligned_cols=21 Identities=24% Similarity=0.524 Sum_probs=11.0
Q ss_pred ccccccccccCCHHHHHHHHH
Q psy2876 34 HKCHLCTKAYPSEKNLDRHLL 54 (367)
Q Consensus 34 ~~C~~C~~~f~~~~~l~~H~~ 54 (367)
|-|-.|.+-|.+...|..|.+
T Consensus 58 fyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred eehhhhhhhhcchHHHHHHHh
Confidence 455555555555555555543
No 187
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=20.33 E-value=27 Score=25.04 Aligned_cols=11 Identities=27% Similarity=1.087 Sum_probs=5.0
Q ss_pred ccccccccccc
Q psy2876 227 LFTCIHCGDTL 237 (367)
Q Consensus 227 ~~~C~~C~~~f 237 (367)
++.|..|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PRK03976 54 IWECRKCGAKF 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 44444444444
No 188
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=20.20 E-value=53 Score=30.93 Aligned_cols=14 Identities=50% Similarity=1.134 Sum_probs=7.3
Q ss_pred ceecccccccccCH
Q psy2876 61 SFRCKSCGRRFESE 74 (367)
Q Consensus 61 ~~~C~~C~~~f~~~ 74 (367)
-|+|+.|+..+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 45555555555443
No 189
>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=20.05 E-value=64 Score=21.49 Aligned_cols=8 Identities=38% Similarity=1.302 Sum_probs=1.8
Q ss_pred cccccccc
Q psy2876 36 CHLCTKAY 43 (367)
Q Consensus 36 C~~C~~~f 43 (367)
|..|++.|
T Consensus 12 C~~C~~~F 19 (69)
T PF01363_consen 12 CMICGKKF 19 (69)
T ss_dssp -TTT--B-
T ss_pred CcCcCCcC
Confidence 44444444
Done!