Query psy16147
Match_columns 227
No_of_seqs 138 out of 1073
Neff 10.7
Searched_HMMs 46136
Date Fri Aug 16 22:01:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16147.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16147hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 3.4E-26 7.3E-31 167.7 4.0 139 38-217 127-265 (279)
2 KOG2462|consensus 99.9 4.2E-22 9.1E-27 146.3 6.1 87 137-226 159-245 (279)
3 KOG1074|consensus 99.8 6.4E-20 1.4E-24 152.1 5.5 87 138-224 604-697 (958)
4 KOG1074|consensus 99.8 1.9E-19 4.2E-24 149.3 4.6 209 15-223 607-935 (958)
5 KOG3623|consensus 99.7 8.9E-19 1.9E-23 143.4 2.2 93 135-227 890-982 (1007)
6 KOG3576|consensus 99.7 6.6E-18 1.4E-22 118.6 2.9 118 35-222 111-239 (267)
7 KOG3608|consensus 99.6 6.7E-17 1.5E-21 122.5 2.2 190 22-225 188-382 (467)
8 KOG3608|consensus 99.6 1.3E-16 2.9E-21 120.9 2.8 169 40-223 176-349 (467)
9 KOG3576|consensus 99.6 4.5E-17 9.8E-22 114.4 0.1 88 135-222 113-200 (267)
10 KOG3623|consensus 99.6 1.7E-15 3.6E-20 124.6 3.4 80 139-218 240-332 (1007)
11 PHA00733 hypothetical protein 99.2 4.8E-12 1E-16 85.7 2.8 87 135-223 36-127 (128)
12 PLN03086 PRLI-interacting fact 99.1 1.5E-10 3.3E-15 95.7 7.4 80 138-221 477-566 (567)
13 PHA00733 hypothetical protein 99.1 1.7E-10 3.7E-15 78.2 4.2 52 137-190 71-122 (128)
14 PHA02768 hypothetical protein; 98.9 9E-10 1.9E-14 61.8 1.9 42 140-183 6-47 (55)
15 PHA02768 hypothetical protein; 98.9 1.2E-09 2.7E-14 61.2 2.3 44 167-212 5-48 (55)
16 PLN03086 PRLI-interacting fact 98.8 1.1E-08 2.3E-13 84.9 7.8 76 138-218 452-537 (567)
17 KOG3993|consensus 98.8 3.1E-09 6.7E-14 83.2 3.5 172 11-222 268-485 (500)
18 PF13465 zf-H2C2_2: Zinc-finge 98.7 8.6E-09 1.9E-13 49.4 1.8 24 183-206 2-25 (26)
19 PF13465 zf-H2C2_2: Zinc-finge 98.6 4.6E-08 9.9E-13 46.9 2.0 26 154-179 1-26 (26)
20 KOG3993|consensus 98.5 3.4E-08 7.4E-13 77.5 0.1 87 138-224 266-385 (500)
21 PHA00616 hypothetical protein 98.4 1.3E-07 2.9E-12 50.5 1.6 33 139-171 1-33 (44)
22 PF00096 zf-C2H2: Zinc finger, 98.2 4.7E-07 1E-11 42.1 1.1 23 42-64 1-23 (23)
23 PHA00732 hypothetical protein 98.2 1.4E-06 3E-11 53.7 2.9 45 139-189 1-46 (79)
24 PHA00616 hypothetical protein 98.2 5.8E-07 1.3E-11 48.0 1.1 34 167-200 1-34 (44)
25 PHA00732 hypothetical protein 98.1 2.4E-06 5.3E-11 52.6 3.1 46 167-218 1-47 (79)
26 PF05605 zf-Di19: Drought indu 98.1 3.7E-06 8.1E-11 48.1 3.5 49 168-219 3-53 (54)
27 PF05605 zf-Di19: Drought indu 98.0 9.9E-06 2.1E-10 46.3 4.0 49 139-190 2-52 (54)
28 PF13894 zf-C2H2_4: C2H2-type 98.0 3E-06 6.6E-11 39.6 1.5 24 42-65 1-24 (24)
29 PF13912 zf-C2H2_6: C2H2-type 98.0 3.1E-06 6.8E-11 40.9 1.1 25 41-65 1-25 (27)
30 PF00096 zf-C2H2: Zinc finger, 97.9 7.7E-06 1.7E-10 37.9 1.7 23 140-162 1-23 (23)
31 PF12756 zf-C2H2_2: C2H2 type 97.9 6.3E-06 1.4E-10 53.6 1.9 77 141-222 1-77 (100)
32 PF13894 zf-C2H2_4: C2H2-type 97.8 7.9E-06 1.7E-10 38.1 1.0 24 196-219 1-24 (24)
33 PF13912 zf-C2H2_6: C2H2-type 97.8 1.2E-05 2.6E-10 38.8 1.3 26 195-220 1-26 (27)
34 COG5189 SFP1 Putative transcri 97.6 2.6E-05 5.7E-10 59.5 1.7 54 166-219 348-422 (423)
35 smart00355 ZnF_C2H2 zinc finge 97.4 0.00011 2.3E-09 34.8 2.0 24 42-65 1-24 (26)
36 PF12756 zf-C2H2_2: C2H2 type 97.4 0.00014 2.9E-09 47.3 2.3 24 139-162 50-73 (100)
37 PF12874 zf-met: Zinc-finger o 97.3 9.5E-05 2.1E-09 34.9 0.8 23 42-64 1-23 (25)
38 PF13909 zf-H2C2_5: C2H2-type 97.3 0.00012 2.6E-09 34.1 1.1 23 42-65 1-23 (24)
39 COG5189 SFP1 Putative transcri 97.1 0.00016 3.4E-09 55.4 1.0 52 137-188 347-419 (423)
40 PF09237 GAGA: GAGA factor; I 96.9 0.0013 2.8E-08 36.1 3.1 33 135-167 20-52 (54)
41 PF12874 zf-met: Zinc-finger o 96.9 0.00045 9.8E-09 32.5 1.0 23 196-218 1-23 (25)
42 PF09237 GAGA: GAGA factor; I 96.9 0.0015 3.2E-08 35.8 2.9 30 37-66 20-49 (54)
43 PF13909 zf-H2C2_5: C2H2-type 96.9 0.00045 9.7E-09 32.1 0.8 23 196-219 1-23 (24)
44 PF12171 zf-C2H2_jaz: Zinc-fin 96.8 0.00061 1.3E-08 32.7 1.1 23 196-218 2-24 (27)
45 smart00355 ZnF_C2H2 zinc finge 96.8 0.0012 2.7E-08 30.9 2.2 22 141-162 2-23 (26)
46 PF12171 zf-C2H2_jaz: Zinc-fin 96.8 0.00029 6.2E-09 33.9 -0.3 23 41-63 1-23 (27)
47 PRK04860 hypothetical protein; 96.3 0.0024 5.1E-08 45.1 1.7 37 167-207 119-155 (160)
48 PRK04860 hypothetical protein; 96.0 0.0035 7.6E-08 44.3 1.7 40 138-181 118-157 (160)
49 smart00451 ZnF_U1 U1-like zinc 95.9 0.0047 1E-07 31.5 1.4 24 40-63 2-25 (35)
50 KOG2231|consensus 95.7 0.011 2.4E-07 50.7 3.5 48 139-190 182-235 (669)
51 PF13913 zf-C2HC_2: zinc-finge 95.1 0.015 3.3E-07 27.2 1.5 21 42-63 3-23 (25)
52 KOG1146|consensus 94.9 0.015 3.3E-07 53.1 1.9 28 36-63 460-487 (1406)
53 COG5236 Uncharacterized conser 94.8 0.11 2.3E-06 40.8 6.1 77 139-220 220-306 (493)
54 smart00451 ZnF_U1 U1-like zinc 94.2 0.027 5.8E-07 28.6 1.2 24 195-218 3-26 (35)
55 KOG4173|consensus 93.9 0.021 4.6E-07 41.3 0.5 79 138-219 78-170 (253)
56 cd00350 rubredoxin_like Rubred 93.9 0.044 9.5E-07 27.6 1.6 9 140-148 2-10 (33)
57 KOG1146|consensus 93.8 0.034 7.5E-07 50.9 1.9 54 136-189 462-540 (1406)
58 KOG2893|consensus 93.4 0.024 5.2E-07 42.0 0.2 47 169-219 12-58 (341)
59 KOG2785|consensus 92.2 0.45 9.6E-06 38.1 5.6 51 168-218 167-243 (390)
60 KOG2482|consensus 90.5 0.37 7.9E-06 37.9 3.5 24 40-63 194-217 (423)
61 PF12013 DUF3505: Protein of u 90.1 0.58 1.3E-05 30.8 3.9 83 137-220 9-109 (109)
62 PF13719 zinc_ribbon_5: zinc-r 90.1 0.23 5E-06 25.7 1.6 33 140-177 3-35 (37)
63 PF12907 zf-met2: Zinc-binding 89.6 0.13 2.9E-06 27.0 0.4 28 196-223 2-32 (40)
64 PF13717 zinc_ribbon_4: zinc-r 89.5 0.3 6.4E-06 25.1 1.7 33 140-177 3-35 (36)
65 COG5048 FOG: Zn-finger [Genera 89.2 0.35 7.6E-06 39.8 2.9 157 40-201 288-452 (467)
66 COG5048 FOG: Zn-finger [Genera 89.0 0.17 3.8E-06 41.6 1.0 53 167-219 289-347 (467)
67 PF09538 FYDLN_acid: Protein o 89.0 0.31 6.8E-06 32.0 1.9 31 139-180 9-39 (108)
68 KOG2785|consensus 88.8 1.9 4E-05 34.7 6.3 52 138-189 165-242 (390)
69 COG4049 Uncharacterized protei 88.6 0.34 7.4E-06 27.2 1.6 30 34-63 10-39 (65)
70 PF10571 UPF0547: Uncharacteri 88.3 0.32 6.9E-06 22.9 1.2 9 169-177 16-24 (26)
71 PF09986 DUF2225: Uncharacteri 88.3 0.15 3.2E-06 38.1 0.1 13 196-208 49-61 (214)
72 cd00729 rubredoxin_SM Rubredox 87.9 0.36 7.8E-06 24.4 1.4 9 140-148 3-11 (34)
73 COG4049 Uncharacterized protei 87.5 0.2 4.3E-06 28.1 0.3 28 192-219 14-41 (65)
74 TIGR02098 MJ0042_CXXC MJ0042 f 87.1 0.42 9.1E-06 24.7 1.4 33 140-177 3-35 (38)
75 PF12013 DUF3505: Protein of u 86.7 1 2.2E-05 29.7 3.4 23 168-190 81-107 (109)
76 PF09986 DUF2225: Uncharacteri 86.6 0.18 3.9E-06 37.7 -0.3 43 138-180 4-61 (214)
77 KOG2186|consensus 86.6 0.38 8.2E-06 36.2 1.4 46 140-188 4-49 (276)
78 COG2888 Predicted Zn-ribbon RN 85.3 0.53 1.1E-05 26.9 1.2 9 139-147 27-35 (61)
79 COG1592 Rubrerythrin [Energy p 85.0 0.61 1.3E-05 33.1 1.7 23 167-202 134-156 (166)
80 PF02892 zf-BED: BED zinc fing 84.8 0.64 1.4E-05 25.0 1.4 26 38-63 13-42 (45)
81 COG1592 Rubrerythrin [Energy p 84.3 0.66 1.4E-05 33.0 1.7 24 139-175 134-157 (166)
82 PHA00626 hypothetical protein 83.7 0.41 8.9E-06 26.9 0.3 14 166-179 22-35 (59)
83 TIGR00622 ssl1 transcription f 83.6 2.1 4.6E-05 28.2 3.6 77 138-218 14-104 (112)
84 smart00734 ZnF_Rad18 Rad18-lik 82.1 1.1 2.4E-05 21.1 1.4 20 42-62 2-21 (26)
85 COG1997 RPL43A Ribosomal prote 81.5 0.83 1.8E-05 28.4 1.1 31 138-178 34-64 (89)
86 KOG4167|consensus 81.3 0.57 1.2E-05 40.7 0.5 27 39-65 790-816 (907)
87 PRK06266 transcription initiat 81.3 0.92 2E-05 32.8 1.5 34 137-179 115-148 (178)
88 TIGR00373 conserved hypothetic 81.2 1.1 2.4E-05 31.7 1.8 34 136-178 106-139 (158)
89 TIGR02605 CxxC_CxxC_SSSS putat 80.8 0.53 1.1E-05 26.3 0.1 13 140-152 6-18 (52)
90 TIGR02300 FYDLN_acid conserved 80.6 1.3 2.9E-05 29.7 1.9 34 139-183 9-42 (129)
91 COG5236 Uncharacterized conser 80.5 0.18 3.8E-06 39.7 -2.5 53 35-87 55-108 (493)
92 PRK00464 nrdR transcriptional 80.4 0.51 1.1E-05 33.2 -0.1 17 167-183 28-44 (154)
93 smart00614 ZnF_BED BED zinc fi 78.2 1.4 3E-05 24.4 1.3 23 197-219 20-47 (50)
94 smart00834 CxxC_CXXC_SSSS Puta 77.9 0.77 1.7E-05 24.0 0.1 13 140-152 6-18 (41)
95 smart00659 RPOLCX RNA polymera 77.1 1.8 3.9E-05 23.3 1.4 11 140-150 3-13 (44)
96 KOG3408|consensus 76.1 2.5 5.4E-05 28.1 2.1 30 34-63 50-79 (129)
97 KOG2071|consensus 75.9 4 8.7E-05 34.9 3.8 29 38-66 415-443 (579)
98 PF09723 Zn-ribbon_8: Zinc rib 75.8 1.1 2.3E-05 23.9 0.4 13 140-152 6-18 (42)
99 TIGR00373 conserved hypothetic 75.7 2.7 5.8E-05 29.8 2.4 34 164-206 106-139 (158)
100 smart00531 TFIIE Transcription 74.9 2.4 5.1E-05 29.7 2.0 37 137-177 97-133 (147)
101 PRK00398 rpoP DNA-directed RNA 74.1 1.4 3E-05 23.9 0.5 12 140-151 4-15 (46)
102 PF05443 ROS_MUCR: ROS/MUCR tr 74.0 1.9 4.1E-05 29.5 1.2 27 166-195 71-97 (132)
103 smart00531 TFIIE Transcription 73.8 3.6 7.9E-05 28.7 2.7 39 164-206 96-134 (147)
104 PF03604 DNA_RNApol_7kD: DNA d 73.6 2.1 4.5E-05 21.3 1.0 9 141-149 2-10 (32)
105 PRK14890 putative Zn-ribbon RN 72.1 1.9 4.1E-05 24.7 0.8 10 139-148 25-34 (59)
106 KOG2231|consensus 71.5 5.2 0.00011 35.0 3.6 75 142-219 118-206 (669)
107 PF04959 ARS2: Arsenite-resist 70.2 1.5 3.3E-05 32.6 0.2 23 167-189 77-99 (214)
108 PRK09678 DNA-binding transcrip 69.8 1.6 3.4E-05 26.4 0.1 42 140-183 2-45 (72)
109 PRK06266 transcription initiat 69.8 3.5 7.6E-05 29.8 1.9 33 165-206 115-147 (178)
110 PF05290 Baculo_IE-1: Baculovi 69.1 2.4 5.3E-05 28.7 0.9 58 135-209 76-135 (140)
111 KOG2893|consensus 68.7 1.8 3.9E-05 32.4 0.2 47 140-190 11-58 (341)
112 PF10013 DUF2256: Uncharacteri 68.7 2.4 5.1E-05 22.5 0.6 14 197-210 10-23 (42)
113 COG1996 RPC10 DNA-directed RNA 68.0 2.7 5.9E-05 23.2 0.8 11 139-149 6-16 (49)
114 KOG2186|consensus 67.4 2.9 6.4E-05 31.7 1.1 47 168-217 4-50 (276)
115 PF09845 DUF2072: Zn-ribbon co 67.1 4.1 8.8E-05 27.7 1.6 28 139-176 1-28 (131)
116 PF05191 ADK_lid: Adenylate ki 66.4 2.3 5.1E-05 21.8 0.3 10 141-150 3-12 (36)
117 PF08274 PhnA_Zn_Ribbon: PhnA 65.8 2.4 5.2E-05 20.7 0.3 24 141-175 4-27 (30)
118 KOG2071|consensus 65.1 6.2 0.00013 33.8 2.7 28 136-163 415-442 (579)
119 PF08790 zf-LYAR: LYAR-type C2 64.1 1.9 4E-05 20.7 -0.3 20 196-216 1-20 (28)
120 PF15269 zf-C2H2_7: Zinc-finge 63.7 4.4 9.5E-05 21.7 1.1 22 42-63 21-42 (54)
121 COG1198 PriA Primosomal protei 62.9 3 6.6E-05 37.1 0.6 13 192-204 472-484 (730)
122 KOG3408|consensus 61.3 4.4 9.6E-05 26.9 1.0 22 196-217 58-79 (129)
123 COG3357 Predicted transcriptio 61.0 3.6 7.8E-05 25.8 0.5 31 138-178 57-87 (97)
124 COG5112 UFD2 U1-like Zn-finger 59.3 7.5 0.00016 25.1 1.7 30 34-63 48-77 (126)
125 PF14446 Prok-RING_1: Prokaryo 59.1 2.5 5.4E-05 23.9 -0.4 27 140-178 6-32 (54)
126 PF07800 DUF1644: Protein of u 59.1 32 0.00069 24.3 4.8 57 167-225 80-138 (162)
127 PF02176 zf-TRAF: TRAF-type zi 58.7 7.2 0.00016 22.2 1.5 19 154-172 25-43 (60)
128 PRK03824 hypA hydrogenase nick 57.3 4.6 0.0001 27.8 0.6 16 137-152 68-83 (135)
129 COG3364 Zn-ribbon containing p 57.0 7.6 0.00016 25.0 1.5 27 139-175 2-28 (112)
130 KOG2482|consensus 54.6 17 0.00037 29.0 3.3 23 196-218 196-218 (423)
131 PF14353 CpXC: CpXC protein 53.9 1.4 3E-05 30.0 -2.4 13 140-152 2-14 (128)
132 PF03811 Zn_Tnp_IS1: InsA N-te 53.0 4 8.7E-05 20.9 -0.2 30 140-173 6-35 (36)
133 COG2331 Uncharacterized protei 52.1 5.5 0.00012 24.1 0.3 33 138-177 11-43 (82)
134 PF07754 DUF1610: Domain of un 52.0 6.6 0.00014 18.1 0.5 10 138-147 15-24 (24)
135 PRK00432 30S ribosomal protein 51.6 8.1 0.00018 21.4 0.9 11 166-176 36-46 (50)
136 TIGR01206 lysW lysine biosynth 51.5 6.1 0.00013 22.4 0.4 30 140-177 3-32 (54)
137 PF04780 DUF629: Protein of un 51.0 8.1 0.00018 32.4 1.2 27 196-222 58-84 (466)
138 smart00440 ZnF_C2C2 C2C2 Zinc 50.9 2.2 4.9E-05 22.4 -1.4 9 168-176 29-37 (40)
139 PF13878 zf-C2H2_3: zinc-finge 50.7 21 0.00045 18.8 2.3 25 139-163 13-39 (41)
140 COG1571 Predicted DNA-binding 50.4 12 0.00026 30.9 2.0 33 139-182 350-382 (421)
141 KOG1842|consensus 49.8 13 0.00029 30.8 2.1 27 40-66 14-40 (505)
142 KOG4727|consensus 48.8 13 0.00028 26.4 1.7 26 38-63 72-97 (193)
143 PF06524 NOA36: NOA36 protein; 48.8 8.1 0.00018 29.5 0.8 76 135-216 138-230 (314)
144 PF13453 zf-TFIIB: Transcripti 48.7 7.4 0.00016 20.4 0.4 17 167-183 19-35 (41)
145 COG4957 Predicted transcriptio 48.5 7.8 0.00017 26.4 0.6 21 196-219 77-97 (148)
146 KOG2907|consensus 48.2 17 0.00037 24.0 2.0 11 168-178 103-113 (116)
147 PF05495 zf-CHY: CHY zinc fing 48.1 4.5 9.8E-05 24.3 -0.5 59 139-205 10-71 (71)
148 TIGR00686 phnA alkylphosphonat 47.6 8.2 0.00018 25.2 0.5 29 141-180 4-32 (109)
149 COG1655 Uncharacterized protei 46.3 4.8 0.0001 30.1 -0.7 8 196-203 63-70 (267)
150 COG1773 Rubredoxin [Energy pro 46.3 6.4 0.00014 22.3 -0.1 11 41-51 3-13 (55)
151 PRK10220 hypothetical protein; 46.2 11 0.00023 24.7 0.9 30 141-181 5-34 (111)
152 COG0068 HypF Hydrogenase matur 45.6 4.8 0.0001 35.4 -0.9 57 141-204 125-182 (750)
153 KOG2807|consensus 44.4 33 0.00072 27.3 3.4 25 194-218 344-368 (378)
154 PTZ00255 60S ribosomal protein 43.7 9.6 0.00021 24.1 0.4 13 166-178 53-65 (90)
155 PRK12380 hydrogenase nickel in 43.4 13 0.00029 24.6 1.1 27 137-175 68-94 (113)
156 TIGR00280 L37a ribosomal prote 43.0 8.6 0.00019 24.4 0.1 13 166-178 52-64 (91)
157 KOG2593|consensus 42.6 16 0.00035 30.2 1.6 39 136-177 125-163 (436)
158 PF12760 Zn_Tnp_IS1595: Transp 41.8 30 0.00064 18.6 2.2 8 140-147 19-26 (46)
159 PF07282 OrfB_Zn_ribbon: Putat 41.6 18 0.00039 21.3 1.4 31 140-180 29-59 (69)
160 PF01780 Ribosomal_L37ae: Ribo 40.9 6.2 0.00014 24.9 -0.7 10 168-177 54-63 (90)
161 KOG0717|consensus 40.7 14 0.00029 30.9 0.9 22 42-63 293-314 (508)
162 PF08271 TF_Zn_Ribbon: TFIIB z 40.4 9.3 0.0002 20.2 0.0 10 167-176 19-28 (43)
163 KOG4173|consensus 40.1 6.5 0.00014 28.9 -0.8 52 140-191 107-171 (253)
164 KOG0717|consensus 39.8 13 0.00027 31.1 0.6 24 196-219 293-316 (508)
165 KOG2636|consensus 39.5 19 0.0004 30.0 1.5 24 39-62 399-423 (497)
166 PF11931 DUF3449: Domain of un 39.3 9.9 0.00021 27.9 0.0 24 39-62 99-123 (196)
167 PF14803 Nudix_N_2: Nudix N-te 39.3 7 0.00015 19.7 -0.6 9 167-175 22-30 (34)
168 TIGR00100 hypA hydrogenase nic 38.5 16 0.00035 24.3 0.9 28 137-176 68-95 (115)
169 TIGR00244 transcriptional regu 38.0 11 0.00023 26.3 -0.0 18 166-183 27-44 (147)
170 COG5151 SSL1 RNA polymerase II 38.0 1.2E+02 0.0025 24.2 5.5 24 167-190 388-411 (421)
171 smart00154 ZnF_AN1 AN1-like Zi 37.6 13 0.00028 19.4 0.3 15 41-55 12-26 (39)
172 TIGR01562 FdhE formate dehydro 37.3 24 0.00052 28.1 1.8 12 138-149 183-194 (305)
173 KOG2593|consensus 37.0 32 0.0007 28.5 2.5 37 164-203 125-161 (436)
174 PF14311 DUF4379: Domain of un 36.7 25 0.00055 19.7 1.4 12 140-151 29-40 (55)
175 PRK03976 rpl37ae 50S ribosomal 36.5 12 0.00025 23.7 0.0 13 166-178 53-65 (90)
176 PF04959 ARS2: Arsenite-resist 36.2 15 0.00032 27.5 0.5 29 37-65 73-101 (214)
177 COG1327 Predicted transcriptio 35.5 11 0.00025 26.2 -0.2 13 168-180 29-41 (156)
178 cd00730 rubredoxin Rubredoxin; 35.4 14 0.00029 20.6 0.1 11 42-52 2-12 (50)
179 PF00628 PHD: PHD-finger; Int 34.2 8 0.00017 21.2 -0.9 14 165-178 12-25 (51)
180 PF06220 zf-U1: U1 zinc finger 33.7 25 0.00055 18.2 1.0 23 40-62 2-26 (38)
181 PRK03564 formate dehydrogenase 33.7 28 0.0006 27.7 1.7 12 138-149 186-197 (309)
182 COG4530 Uncharacterized protei 33.5 23 0.0005 23.2 1.0 26 141-177 11-36 (129)
183 PF01286 XPA_N: XPA protein N- 32.7 16 0.00034 18.5 0.1 11 141-151 5-15 (34)
184 PRK03681 hypA hydrogenase nick 32.1 23 0.0005 23.5 0.9 29 137-176 68-96 (114)
185 PRK12496 hypothetical protein; 31.9 21 0.00045 25.5 0.7 11 168-178 128-138 (164)
186 PRK00564 hypA hydrogenase nick 31.7 23 0.0005 23.6 0.8 16 137-152 69-84 (117)
187 PF01096 TFIIS_C: Transcriptio 30.7 2.1 4.5E-05 22.4 -3.4 7 168-174 29-35 (39)
188 PF01155 HypA: Hydrogenase exp 30.7 25 0.00054 23.3 0.9 27 138-176 69-95 (113)
189 PF07975 C1_4: TFIIH C1-like d 30.7 9.2 0.0002 21.3 -1.0 26 39-64 19-44 (51)
190 PRK04023 DNA polymerase II lar 30.6 70 0.0015 30.0 3.7 9 168-176 664-672 (1121)
191 PF13451 zf-trcl: Probable zin 30.2 19 0.00042 19.9 0.2 16 193-208 2-17 (49)
192 PF04423 Rad50_zn_hook: Rad50 29.2 20 0.00044 20.0 0.2 12 197-208 22-33 (54)
193 PF13824 zf-Mss51: Zinc-finger 29.2 44 0.00096 19.0 1.5 13 165-177 12-24 (55)
194 COG5188 PRP9 Splicing factor 3 29.0 32 0.0007 27.7 1.3 25 38-62 371-396 (470)
195 PF14369 zf-RING_3: zinc-finge 28.9 45 0.00097 16.9 1.4 8 170-177 24-31 (35)
196 PF07295 DUF1451: Protein of u 28.7 24 0.00051 24.7 0.5 7 168-174 113-119 (146)
197 KOG4167|consensus 28.5 5.2 0.00011 35.2 -3.2 27 195-221 792-818 (907)
198 TIGR00595 priA primosomal prot 28.5 24 0.00052 30.3 0.6 10 194-203 252-261 (505)
199 KOG1280|consensus 28.3 59 0.0013 26.2 2.6 21 139-159 79-99 (381)
200 COG4338 Uncharacterized protei 28.3 19 0.00042 19.6 0.0 15 197-211 14-28 (54)
201 PF00301 Rubredoxin: Rubredoxi 28.1 23 0.00049 19.4 0.2 13 140-152 2-14 (47)
202 PF01363 FYVE: FYVE zinc finge 27.2 32 0.00069 20.2 0.8 27 140-178 10-36 (69)
203 KOG4124|consensus 27.1 16 0.00036 29.2 -0.6 28 38-66 210-238 (442)
204 KOG1280|consensus 27.0 52 0.0011 26.5 2.1 40 164-203 76-117 (381)
205 PF10263 SprT-like: SprT-like 26.8 22 0.00047 24.9 0.0 11 139-149 123-133 (157)
206 PF01428 zf-AN1: AN1-like Zinc 26.7 17 0.00037 19.3 -0.4 16 40-55 12-27 (43)
207 COG3677 Transposase and inacti 26.2 36 0.00077 23.2 1.0 17 38-54 50-66 (129)
208 PF04780 DUF629: Protein of un 26.2 47 0.001 28.1 1.9 27 138-164 56-83 (466)
209 PRK04351 hypothetical protein; 25.9 33 0.00073 24.0 0.8 12 166-177 131-142 (149)
210 PF02318 FYVE_2: FYVE-type zin 25.7 14 0.00031 24.6 -1.0 49 139-203 54-102 (118)
211 PF10276 zf-CHCC: Zinc-finger 25.6 32 0.00069 18.1 0.5 12 138-149 28-39 (40)
212 PF01927 Mut7-C: Mut7-C RNAse 25.6 42 0.00091 23.4 1.3 17 196-212 125-141 (147)
213 cd00065 FYVE FYVE domain; Zinc 25.6 56 0.0012 18.1 1.6 27 141-179 4-30 (57)
214 KOG3507|consensus 24.8 27 0.00058 20.0 0.2 30 137-177 18-47 (62)
215 PRK14873 primosome assembly pr 24.1 31 0.00066 30.8 0.5 10 195-204 422-431 (665)
216 TIGR00416 sms DNA repair prote 23.8 38 0.00083 28.6 1.0 29 138-180 6-34 (454)
217 COG1326 Uncharacterized archae 23.8 66 0.0014 23.6 2.0 36 140-179 7-42 (201)
218 PF11672 DUF3268: Protein of u 23.8 39 0.00085 22.0 0.8 10 139-148 2-11 (102)
219 COG4888 Uncharacterized Zn rib 23.7 19 0.00042 23.2 -0.6 38 137-178 20-57 (104)
220 KOG2932|consensus 23.7 49 0.0011 26.2 1.4 30 191-220 140-172 (389)
221 COG1675 TFA1 Transcription ini 23.4 96 0.0021 22.5 2.8 16 138-153 112-127 (176)
222 KOG4118|consensus 23.2 41 0.00089 19.7 0.7 25 196-220 39-63 (74)
223 COG1998 RPS31 Ribosomal protei 23.2 40 0.00087 18.6 0.6 9 167-175 37-45 (51)
224 PF06397 Desulfoferrod_N: Desu 23.0 32 0.00069 17.6 0.2 12 40-51 5-16 (36)
225 cd01121 Sms Sms (bacterial rad 22.7 45 0.00098 27.4 1.1 24 140-177 1-24 (372)
226 KOG2636|consensus 22.6 61 0.0013 27.1 1.8 41 176-216 382-423 (497)
227 PRK11823 DNA repair protein Ra 22.3 48 0.001 28.0 1.3 28 138-179 6-33 (446)
228 cd00924 Cyt_c_Oxidase_Vb Cytoc 22.3 32 0.00068 22.2 0.1 14 40-53 78-91 (97)
229 COG1066 Sms Predicted ATP-depe 21.8 47 0.001 27.7 1.1 27 138-178 6-32 (456)
230 TIGR00627 tfb4 transcription f 21.7 59 0.0013 25.6 1.5 11 168-178 256-266 (279)
231 smart00064 FYVE Protein presen 21.6 61 0.0013 18.9 1.3 28 140-179 11-38 (68)
232 COG3091 SprT Zn-dependent meta 21.6 46 0.001 23.3 0.8 35 137-176 115-149 (156)
233 PRK00420 hypothetical protein; 21.5 58 0.0013 21.6 1.3 12 167-178 40-51 (112)
234 PRK05978 hypothetical protein; 21.4 39 0.00084 23.7 0.4 32 140-180 34-65 (148)
235 PRK05580 primosome assembly pr 21.4 34 0.00074 30.6 0.2 10 194-203 420-429 (679)
236 COG1594 RPB9 DNA-directed RNA 21.4 23 0.0005 23.5 -0.6 16 39-54 20-35 (113)
237 COG2879 Uncharacterized small 21.2 1E+02 0.0022 18.1 2.0 20 149-168 22-41 (65)
238 PTZ00448 hypothetical protein; 20.9 58 0.0013 26.5 1.4 23 195-217 314-336 (373)
239 PHA02998 RNA polymerase subuni 20.8 22 0.00047 25.6 -0.9 11 168-178 172-182 (195)
240 PRK00762 hypA hydrogenase nick 20.7 40 0.00088 22.8 0.4 15 137-152 68-82 (124)
241 PTZ00043 cytochrome c oxidase 20.6 31 0.00068 25.9 -0.1 12 195-206 181-192 (268)
242 smart00731 SprT SprT homologue 20.0 52 0.0011 22.8 0.9 11 139-149 112-122 (146)
No 1
>KOG2462|consensus
Probab=99.92 E-value=3.4e-26 Score=167.74 Aligned_cols=139 Identities=28% Similarity=0.530 Sum_probs=116.9
Q ss_pred CCCcccCCcchhhhcChhHHHHHHHhccccccCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCccCCCCCchHHHHh
Q psy16147 38 GEGQFLCDQCDKVFAKHSSLARHKYEHSVLQKCSSSYNYPRHSICNRPTASYPELSDMGSLEGDESLDRMDEDSSERKLK 117 (227)
Q Consensus 38 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 117 (227)
....|.|+.||+.+.+..+|-+|..+|-.... -....|..|++.+.....|.-|+
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s----~ka~~C~~C~K~YvSmpALkMHi--------------------- 181 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDS----KKAFSCKYCGKVYVSMPALKMHI--------------------- 181 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccc----cccccCCCCCceeeehHHHhhHh---------------------
Confidence 45679999999999999999999999966543 12335677777776554333332
Q ss_pred hhhhcCCCCcccccCCCCCCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcc
Q psy16147 118 SRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQ 197 (227)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~ 197 (227)
++|+ -++.|.+||+.|...=-|+-|+++|+|+|||.|..|++.|....+|+.|+.+|.+.+.|+
T Consensus 182 --------------rTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~q 245 (279)
T KOG2462|consen 182 --------------RTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQ 245 (279)
T ss_pred --------------hccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCcccc
Confidence 2333 568999999999999889999999999999999999999999999999999999999999
Q ss_pred cccccccccCchhHHHhhhc
Q psy16147 198 CCKCLKRFSHSGSYSQHMNH 217 (227)
Q Consensus 198 C~~C~~~f~~~~~l~~H~~~ 217 (227)
|..|+++|...+.|.+|..+
T Consensus 246 C~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 246 CPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred CcchhhHHHHHHHHHHhhhh
Confidence 99999999999999999873
No 2
>KOG2462|consensus
Probab=99.86 E-value=4.2e-22 Score=146.33 Aligned_cols=87 Identities=36% Similarity=0.645 Sum_probs=80.9
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHhhh
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQHMN 216 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 216 (227)
.+.+.|+.|+++|...-.|.+|+++|. -+.+|.+||+.|.+.+.|..|+|.|+||+||.|+.|++.|.++++|+.|++
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQ 236 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQ 236 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHH
Confidence 577899999999999999999999996 689999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCC
Q psy16147 217 HRYSYCKPYR 226 (227)
Q Consensus 217 ~~h~~~~~~~ 226 (227)
+| .+.++|.
T Consensus 237 TH-S~~K~~q 245 (279)
T KOG2462|consen 237 TH-SDVKKHQ 245 (279)
T ss_pred hh-cCCcccc
Confidence 65 6666663
No 3
>KOG1074|consensus
Probab=99.79 E-value=6.4e-20 Score=152.13 Aligned_cols=87 Identities=30% Similarity=0.566 Sum_probs=79.3
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCC----Ccccc---cccccccCchh
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEK----PFQCC---KCLKRFSHSGS 210 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~----~~~C~---~C~~~f~~~~~ 210 (227)
.+-.|-+|.++....+.|+.|.++|+|+++|+|.+|++.|.++.+|+.|+..|...- .+.|+ +|-+.|...-.
T Consensus 604 dPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~ 683 (958)
T KOG1074|consen 604 DPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVT 683 (958)
T ss_pred CccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccccccccc
Confidence 367899999999999999999999999999999999999999999999999987543 48999 99999999999
Q ss_pred HHHhhhcccccccC
Q psy16147 211 YSQHMNHRYSYCKP 224 (227)
Q Consensus 211 l~~H~~~~h~~~~~ 224 (227)
|..|++.|..+.+|
T Consensus 684 lpQhIriH~~~~~s 697 (958)
T KOG1074|consen 684 LPQHIRIHLGGQIS 697 (958)
T ss_pred ccceEEeecCCCCC
Confidence 99999977666655
No 4
>KOG1074|consensus
Probab=99.77 E-value=1.9e-19 Score=149.31 Aligned_cols=209 Identities=17% Similarity=0.294 Sum_probs=136.2
Q ss_pred HHHhhhhhccccCCccccCCCCCCCCcccCCcchhhhcChhHHHHHHHhccccccCCCCCCCCCCCCCCCCCCCCCCccc
Q psy16147 15 LVKLKSRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSVLQKCSSSYNYPRHSICNRPTASYPELSD 94 (227)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~ 94 (227)
-|.+..|++.=..-+.+|-..|+||+||+|.|||..|.+++||+.||-+|......+..+..+...+|...|...-.+..
T Consensus 607 qCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQ 686 (958)
T KOG1074|consen 607 QCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQ 686 (958)
T ss_pred ceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccc
Confidence 35555667777788889999999999999999999999999999999999776665555544444599999988877777
Q ss_pred CCCCCCCCCccCC-----------CCCchHHHH------hhhhhcCCC-----CcccccCCCCCCC----ccccCcCccc
Q psy16147 95 MGSLEGDESLDRM-----------DEDSSERKL------KSRLMMSSN-----GTMSCADDNSGEG----QFLCDQCDKV 148 (227)
Q Consensus 95 ~~~~~~~~~~~~~-----------~~~~~~~~~------~~~~~~~~~-----~~~~~~~~~~~~~----~~~C~~C~~~ 148 (227)
++..+....+... .+..+.... ......... ......+.+.... +..+..|+..
T Consensus 687 hIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~~ 766 (958)
T KOG1074|consen 687 HIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGRE 766 (958)
T ss_pred eEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCccccccccc
Confidence 6655332111111 111111111 000000000 0000011112212 3455666665
Q ss_pred cCChhHHHhHHhhh-----------------------cCC----------------------------------------
Q psy16147 149 FAKHSSLARHKYEH-----------------------SGQ---------------------------------------- 165 (227)
Q Consensus 149 f~~~~~l~~H~~~h-----------------------~~~---------------------------------------- 165 (227)
+.....+..+--.. +++
T Consensus 767 ~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~n 846 (958)
T KOG1074|consen 767 LEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKTN 846 (958)
T ss_pred cCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhcccccccccccccccc
Confidence 55544433321110 000
Q ss_pred -------------------------------CCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHh
Q psy16147 166 -------------------------------RPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQH 214 (227)
Q Consensus 166 -------------------------------~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 214 (227)
-...|.+|++.|....+|..|++.|++++||.|..|++.|..+.+|+.|
T Consensus 847 ~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvH 926 (958)
T KOG1074|consen 847 EITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVH 926 (958)
T ss_pred cccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhh
Confidence 0167999999999999999999999999999999999999999999999
Q ss_pred hhccccccc
Q psy16147 215 MNHRYSYCK 223 (227)
Q Consensus 215 ~~~~h~~~~ 223 (227)
+.+|+-..-
T Consensus 927 MgtH~w~q~ 935 (958)
T KOG1074|consen 927 MGTHMWVQP 935 (958)
T ss_pred hccccccCC
Confidence 997764443
No 5
>KOG3623|consensus
Probab=99.73 E-value=8.9e-19 Score=143.45 Aligned_cols=93 Identities=85% Similarity=1.500 Sum_probs=90.5
Q ss_pred CCCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHh
Q psy16147 135 SGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQH 214 (227)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 214 (227)
+.+..|.|..|.++|.-.+.|.+|...|+|.++|+|.+|.+.|+.+..|..|+|+|.|++||+|..|+++|...+.+.+|
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQH 969 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQH 969 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhh
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccccccCCCC
Q psy16147 215 MNHRYSYCKPYRE 227 (227)
Q Consensus 215 ~~~~h~~~~~~~~ 227 (227)
+.++-.-++||+|
T Consensus 970 MNHRYSYCKpyrE 982 (1007)
T KOG3623|consen 970 MNHRYSYCKPYRE 982 (1007)
T ss_pred hccchhcccchhh
Confidence 9999999999997
No 6
>KOG3576|consensus
Probab=99.70 E-value=6.6e-18 Score=118.59 Aligned_cols=118 Identities=32% Similarity=0.577 Sum_probs=102.4
Q ss_pred CCCCCCcccCCcchhhhcChhHHHHHHHhccccccCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCccCCCCCchHH
Q psy16147 35 DNSGEGQFLCDQCDKVFAKHSSLARHKYEHSVLQKCSSSYNYPRHSICNRPTASYPELSDMGSLEGDESLDRMDEDSSER 114 (227)
Q Consensus 35 ~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 114 (227)
+-++...|.|.+|++.|.-..-|++|++-|..
T Consensus 111 sssd~d~ftCrvCgK~F~lQRmlnrh~kch~~------------------------------------------------ 142 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRMLNRHLKCHSD------------------------------------------------ 142 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHHHHHhhhccH------------------------------------------------
Confidence 33456679999999999999999999986631
Q ss_pred HHhhhhhcCCCCcccccCCCCCCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhh-ccC-
Q psy16147 115 KLKSRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRL-HSG- 192 (227)
Q Consensus 115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~- 192 (227)
-+.+.|..||++|....+|.+|+++|+|.+||+|..|++.|.+.-.|..|.+. |..
T Consensus 143 ----------------------vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~ 200 (267)
T KOG3576|consen 143 ----------------------VKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQ 200 (267)
T ss_pred ----------------------HHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCch
Confidence 24578999999999999999999999999999999999999999999999774 532
Q ss_pred ---------CCCcccccccccccCchhHHHhhhcccccc
Q psy16147 193 ---------EKPFQCCKCLKRFSHSGSYSQHMNHRYSYC 222 (227)
Q Consensus 193 ---------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 222 (227)
++.|.|..||.+-.....+..|++.+|+..
T Consensus 201 ~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 201 HQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred HHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 456999999999999999999999888653
No 7
>KOG3608|consensus
Probab=99.64 E-value=6.7e-17 Score=122.48 Aligned_cols=190 Identities=21% Similarity=0.335 Sum_probs=129.0
Q ss_pred hccccCCccccCCCCCCCCcccCCcchhhhcChhHHHHHHHhccccccCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCC
Q psy16147 22 LMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSVLQKCSSSYNYPRHSICNRPTASYPELSDMGSLEGD 101 (227)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~ 101 (227)
.+.+...+..|+..|+++|...|..||..|.++..|.-|++..+...+. ...|..|.+.|++...|..|...+..
T Consensus 188 ~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n-----~fqC~~C~KrFaTeklL~~Hv~rHvn 262 (467)
T KOG3608|consen 188 HMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTN-----SFQCAQCFKRFATEKLLKSHVVRHVN 262 (467)
T ss_pred hhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCC-----chHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 5666677778888999999999999999999999999998866543321 22334444444443333222111100
Q ss_pred CCccCCCCCchHHHHhhhhhcCCCCcccccCCCCCCCccccCcCccccCChhHHHhHHhhhcCCCCccCCC--CCcccCC
Q psy16147 102 ESLDRMDEDSSERKLKSRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVE--CPKAFKH 179 (227)
Q Consensus 102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~ 179 (227)
.. ++..+.-.......... +..-.|..+++|+|..|.+.+.+.++|..|...|. +..|+|+. |.+.+.+
T Consensus 263 -~y---kCplCdmtc~~~ssL~~----H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~ 333 (467)
T KOG3608|consen 263 -CY---KCPLCDMTCSSASSLTT----HIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRT 333 (467)
T ss_pred -cc---cccccccCCCChHHHHH----HHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHH
Confidence 00 00000000000000000 11134567899999999999999999999999886 67899988 9999999
Q ss_pred chhHHHHHhh-ccCCCC--cccccccccccCchhHHHhhhcccccccCC
Q psy16147 180 KHHLTEHKRL-HSGEKP--FQCCKCLKRFSHSGSYSQHMNHRYSYCKPY 225 (227)
Q Consensus 180 ~~~l~~H~~~-h~~~~~--~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 225 (227)
...+..|++. |.|..| |.|..|++.|.+-.+|..|++..|.=.-|+
T Consensus 334 ~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~Ps 382 (467)
T KOG3608|consen 334 YTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPS 382 (467)
T ss_pred HHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCC
Confidence 9999999886 657665 999999999999999999999888655553
No 8
>KOG3608|consensus
Probab=99.62 E-value=1.3e-16 Score=120.87 Aligned_cols=169 Identities=20% Similarity=0.297 Sum_probs=92.3
Q ss_pred CcccCCc--chhhhcChhHHHHHHHhccccccCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCccCCCCCchHHHHh
Q psy16147 40 GQFLCDQ--CDKVFAKHSSLARHKYEHSVLQKCSSSYNYPRHSICNRPTASYPELSDMGSLEGDESLDRMDEDSSERKLK 117 (227)
Q Consensus 40 ~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 117 (227)
..+.|.. |.+.+.++++|+.|++.|.++.. ..|+.|+.-|+....+-+|..-..........+..+...+
T Consensus 176 pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKv-------vACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrF- 247 (467)
T KOG3608|consen 176 PVTMCNWAMCTKHMGNKYRLREHIRTHSNEKV-------VACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRF- 247 (467)
T ss_pred ceeeccchhhhhhhccHHHHHHHHHhcCCCeE-------EecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHH-
Confidence 4577876 99999999999999999988763 3467778778776554444221111100000000011000
Q ss_pred hhhhcCCCCcccccCCCCCCCccccCcCccccCChhHHHhHHhh-hcCCCCccCCCCCcccCCchhHHHHHhhccCCCCc
Q psy16147 118 SRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYE-HSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPF 196 (227)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 196 (227)
.+...+..++..|. .-|+|+.|..+.+..+.|..|++. |..+++|+|+.|+..|.+...|..|...|. +-.|
T Consensus 248 ----aTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y 320 (467)
T KOG3608|consen 248 ----ATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVY 320 (467)
T ss_pred ----hHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccce
Confidence 00001111111111 235566666666666666666543 334566666666666666666666666555 4446
Q ss_pred cccc--ccccccCchhHHHhhhccccccc
Q psy16147 197 QCCK--CLKRFSHSGSYSQHMNHRYSYCK 223 (227)
Q Consensus 197 ~C~~--C~~~f~~~~~l~~H~~~~h~~~~ 223 (227)
.|.. |.++|.+..++++|.+-+|.+..
T Consensus 321 ~C~h~~C~~s~r~~~q~~~H~~evhEg~n 349 (467)
T KOG3608|consen 321 QCEHPDCHYSVRTYTQMRRHFLEVHEGNN 349 (467)
T ss_pred ecCCCCCcHHHHHHHHHHHHHHHhccCCC
Confidence 6655 66666666666666665554433
No 9
>KOG3576|consensus
Probab=99.62 E-value=4.5e-17 Score=114.42 Aligned_cols=88 Identities=31% Similarity=0.591 Sum_probs=82.8
Q ss_pred CCCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHh
Q psy16147 135 SGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQH 214 (227)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H 214 (227)
.+...|.|.+|++.|....-|.+|++-|...+.+.|..|+++|...-.|.+|++.|+|.+||+|..|++.|+++-.|..|
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHH
Confidence 34567999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccccc
Q psy16147 215 MNHRYSYC 222 (227)
Q Consensus 215 ~~~~h~~~ 222 (227)
++..|+..
T Consensus 193 l~kvhgv~ 200 (267)
T KOG3576|consen 193 LKKVHGVQ 200 (267)
T ss_pred HHHHcCch
Confidence 99888543
No 10
>KOG3623|consensus
Probab=99.56 E-value=1.7e-15 Score=124.58 Aligned_cols=80 Identities=58% Similarity=1.022 Sum_probs=73.6
Q ss_pred ccccCcCccccCChhHHHhHHhhhcC-------------CCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSG-------------QRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRF 205 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~-------------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 205 (227)
.|.|..|.++|....+|.+|+..|.. .+.|+|.+|++.|+.+..|+.|+|+|.|++||.|+-|+++|
T Consensus 240 nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRF 319 (1007)
T KOG3623|consen 240 NFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRF 319 (1007)
T ss_pred CCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCccccccc
Confidence 47799999999999999999998763 25699999999999999999999999999999999999999
Q ss_pred cCchhHHHhhhcc
Q psy16147 206 SHSGSYSQHMNHR 218 (227)
Q Consensus 206 ~~~~~l~~H~~~~ 218 (227)
...+.+..|+.+.
T Consensus 320 SHSGSySSHmSSK 332 (1007)
T KOG3623|consen 320 SHSGSYSSHMSSK 332 (1007)
T ss_pred ccCCccccccccc
Confidence 9999999998754
No 11
>PHA00733 hypothetical protein
Probab=99.23 E-value=4.8e-12 Score=85.73 Aligned_cols=87 Identities=21% Similarity=0.385 Sum_probs=73.6
Q ss_pred CCCCccccCcCccccCChhHHHhH--Hh---hhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCch
Q psy16147 135 SGEGQFLCDQCDKVFAKHSSLARH--KY---EHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSG 209 (227)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 209 (227)
..++++.|.+|...|.....|..+ +. .+.++++|.|+.|++.|.....|..|++.| +.+|.|+.|++.|.+..
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~ 113 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTD 113 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHH
Confidence 446789999999998888777665 22 233578999999999999999999999987 45799999999999999
Q ss_pred hHHHhhhccccccc
Q psy16147 210 SYSQHMNHRYSYCK 223 (227)
Q Consensus 210 ~l~~H~~~~h~~~~ 223 (227)
.|..|+...|..+.
T Consensus 114 sL~~H~~~~h~~~~ 127 (128)
T PHA00733 114 STLDHVCKKHNICV 127 (128)
T ss_pred HHHHHHHHhcCccc
Confidence 99999999987653
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.13 E-value=1.5e-10 Score=95.69 Aligned_cols=80 Identities=16% Similarity=0.336 Sum_probs=66.4
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCC----------chhHHHHHhhccCCCCcccccccccccC
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKH----------KHHLTEHKRLHSGEKPFQCCKCLKRFSH 207 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~----------~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 207 (227)
.++.|+ ||+.+ ....|..|+..|.+.+++.|..|+..+.. ...|..|...+ |.+++.|..|++.+..
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrl 553 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVML 553 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeee
Confidence 357899 99755 56899999999999999999999999852 34788898885 8899999999988876
Q ss_pred chhHHHhhhccccc
Q psy16147 208 SGSYSQHMNHRYSY 221 (227)
Q Consensus 208 ~~~l~~H~~~~h~~ 221 (227)
..|..|+...|..
T Consensus 554 -rdm~~H~~~~h~~ 566 (567)
T PLN03086 554 -KEMDIHQIAVHQK 566 (567)
T ss_pred -hhHHHHHHHhhcC
Confidence 5788999887753
No 13
>PHA00733 hypothetical protein
Probab=99.06 E-value=1.7e-10 Score=78.18 Aligned_cols=52 Identities=21% Similarity=0.410 Sum_probs=47.1
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLH 190 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 190 (227)
.++|.|+.||+.|.....|..|++.+ +.+|.|+.|++.|.....|..|+...
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKK 122 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHh
Confidence 57899999999999999999999876 35799999999999999999998863
No 14
>PHA02768 hypothetical protein; Provisional
Probab=98.88 E-value=9e-10 Score=61.77 Aligned_cols=42 Identities=19% Similarity=0.458 Sum_probs=25.4
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhH
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHL 183 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 183 (227)
|.|+.||+.|...+.|..|++.|+ ++++|..|++.|...+.|
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 556666666666666666666665 456666666666554443
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.87 E-value=1.2e-09 Score=61.21 Aligned_cols=44 Identities=20% Similarity=0.521 Sum_probs=40.8
Q ss_pred CccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHH
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYS 212 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 212 (227)
.|.|+.|++.|.....|..|++.|. ++|+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4899999999999999999999998 7999999999999888765
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.85 E-value=1.1e-08 Score=84.95 Aligned_cols=76 Identities=17% Similarity=0.426 Sum_probs=64.8
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccC----------
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSH---------- 207 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~---------- 207 (227)
..+.|+.|++.|. ..+|..|++.++ +++.|+ |+..+ ....|..|+..|.+.+++.|+.|++.|..
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 4468999999996 678999999885 789999 99755 56899999999999999999999999952
Q ss_pred chhHHHhhhcc
Q psy16147 208 SGSYSQHMNHR 218 (227)
Q Consensus 208 ~~~l~~H~~~~ 218 (227)
.+.|..|...+
T Consensus 527 ~s~Lt~HE~~C 537 (567)
T PLN03086 527 LRGMSEHESIC 537 (567)
T ss_pred hhhHHHHHHhc
Confidence 35799998864
No 17
>KOG3993|consensus
Probab=98.81 E-value=3.1e-09 Score=83.19 Aligned_cols=172 Identities=22% Similarity=0.266 Sum_probs=106.1
Q ss_pred hhhHHHHhhhhhccccCCccccCCCCCCCCcccCCcchhhhcChhHHHHHHHhccccccCCCCCCCCCCCCCCCCCCCCC
Q psy16147 11 YFMVLVKLKSRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSVLQKCSSSYNYPRHSICNRPTASYP 90 (227)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~c~~~~~~~~ 90 (227)
|.|++|.-+..|. ..+-+|.=...---.|+|..|++.|+-.+||-.|.|.|.....-.+. .....
T Consensus 268 yiCqLCK~kYeD~---F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a------------~~~P~ 332 (500)
T KOG3993|consen 268 YICQLCKEKYEDA---FALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKA------------GSPPP 332 (500)
T ss_pred HHHHHHHHhhhhH---HHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhc------------CCCCh
Confidence 5677777666655 44554443333335599999999999999999999999543221000 00000
Q ss_pred CcccCCCCCCCCCccCCCCCchHHHHhhhhhcCCCCcccccCCCCCCCccccCcCccccCChhHHHhHHhhhcCCC----
Q psy16147 91 ELSDMGSLEGDESLDRMDEDSSERKLKSRLMMSSNGTMSCADDNSGEGQFLCDQCDKVFAKHSSLARHKYEHSGQR---- 166 (227)
Q Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~---- 166 (227)
... ...+....+.... -....+.-|.|.+|++.|....-|+.|+-+|....
T Consensus 333 ---------k~~--------~~~rae~~ea~rs--------g~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~ 387 (500)
T KOG3993|consen 333 ---------KQA--------VETRAEVQEAERS--------GDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKE 387 (500)
T ss_pred ---------hhh--------hhhhhhhhhcccc--------CCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchh
Confidence 000 0000000000000 01123357999999999999999999977665310
Q ss_pred ------------------------------------------CccCCCCCcccCCchhHHHHHhhccCCCCccccccccc
Q psy16147 167 ------------------------------------------PYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKR 204 (227)
Q Consensus 167 ------------------------------------------~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 204 (227)
...|+.|+..+..+..--.+.+.-..+..|.|.+|...
T Consensus 388 ~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~at 467 (500)
T KOG3993|consen 388 KAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPAT 467 (500)
T ss_pred cccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHh
Confidence 02356666666655544445555555667999999999
Q ss_pred ccCchhHHHhhhcccccc
Q psy16147 205 FSHSGSYSQHMNHRYSYC 222 (227)
Q Consensus 205 f~~~~~l~~H~~~~h~~~ 222 (227)
|-+.-.|.+|+...|..+
T Consensus 468 fyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 468 FYSSPGLTRHINKCHPSE 485 (500)
T ss_pred hhcCcchHhHhhhcChHH
Confidence 999999999999888765
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.70 E-value=8.6e-09 Score=49.44 Aligned_cols=24 Identities=54% Similarity=1.011 Sum_probs=15.8
Q ss_pred HHHHHhhccCCCCccccccccccc
Q psy16147 183 LTEHKRLHSGEKPFQCCKCLKRFS 206 (227)
Q Consensus 183 l~~H~~~h~~~~~~~C~~C~~~f~ 206 (227)
|..|++.|.+++||.|+.|+++|.
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 556666666666666666666664
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=98.55 E-value=4.6e-08 Score=46.90 Aligned_cols=26 Identities=46% Similarity=1.003 Sum_probs=23.5
Q ss_pred HHHhHHhhhcCCCCccCCCCCcccCC
Q psy16147 154 SLARHKYEHSGQRPYKCVECPKAFKH 179 (227)
Q Consensus 154 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 179 (227)
+|..|++.|.++++|.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47899999999999999999999863
No 20
>KOG3993|consensus
Probab=98.45 E-value=3.4e-08 Score=77.48 Aligned_cols=87 Identities=25% Similarity=0.552 Sum_probs=71.9
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccC-------------------------
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSG------------------------- 192 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~------------------------- 192 (227)
+-|+|..|-..|.....|.+|.-..--..-|+|++|++.|+-..+|..|.+-|..
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 3589999999999999999996544333459999999999999999999987731
Q ss_pred --------CCCcccccccccccCchhHHHhhhcccccccC
Q psy16147 193 --------EKPFQCCKCLKRFSHSGSYSQHMNHRYSYCKP 224 (227)
Q Consensus 193 --------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 224 (227)
+..|.|..|+++|.+...|++|+.+||-...+
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~ 385 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLA 385 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccc
Confidence 12489999999999999999999988865544
No 21
>PHA00616 hypothetical protein
Probab=98.41 E-value=1.3e-07 Score=50.45 Aligned_cols=33 Identities=18% Similarity=0.374 Sum_probs=23.1
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCC
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCV 171 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~ 171 (227)
+|.|+.||+.|...++|.+|++.|++++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 366777777777777777777777777666654
No 22
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.23 E-value=4.7e-07 Score=42.08 Aligned_cols=23 Identities=39% Similarity=0.798 Sum_probs=21.5
Q ss_pred ccCCcchhhhcChhHHHHHHHhc
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYEH 64 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~h 64 (227)
|.|++|++.|.+..+|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999874
No 23
>PHA00732 hypothetical protein
Probab=98.19 E-value=1.4e-06 Score=53.72 Aligned_cols=45 Identities=27% Similarity=0.500 Sum_probs=32.6
Q ss_pred ccccCcCccccCChhHHHhHHhh-hcCCCCccCCCCCcccCCchhHHHHHhh
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYE-HSGQRPYKCVECPKAFKHKHHLTEHKRL 189 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 189 (227)
+|.|+.|++.|.....|..|++. |. ++.|+.|++.|. .+..|...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 46788888888888888888774 44 357888888887 35566654
No 24
>PHA00616 hypothetical protein
Probab=98.19 E-value=5.8e-07 Score=48.02 Aligned_cols=34 Identities=21% Similarity=0.408 Sum_probs=22.0
Q ss_pred CccCCCCCcccCCchhHHHHHhhccCCCCccccc
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCK 200 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 200 (227)
+|+|..||..|.....|..|++.|++++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4566666666666666666666666666665543
No 25
>PHA00732 hypothetical protein
Probab=98.13 E-value=2.4e-06 Score=52.62 Aligned_cols=46 Identities=26% Similarity=0.474 Sum_probs=39.6
Q ss_pred CccCCCCCcccCCchhHHHHHhh-ccCCCCcccccccccccCchhHHHhhhcc
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRL-HSGEKPFQCCKCLKRFSHSGSYSQHMNHR 218 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 218 (227)
+|.|+.|++.|.....|..|++. |. ++.|+.|++.|. .|..|.+++
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 57899999999999999999985 65 358999999998 488888654
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=98.11 E-value=3.7e-06 Score=48.06 Aligned_cols=49 Identities=29% Similarity=0.514 Sum_probs=23.1
Q ss_pred ccCCCCCcccCCchhHHHHHhh-ccCC-CCcccccccccccCchhHHHhhhccc
Q psy16147 168 YKCVECPKAFKHKHHLTEHKRL-HSGE-KPFQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~-h~~~-~~~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
|.|+.|++. .+...|..|... |..+ +.+.|++|...+. .+|..|+...|
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 455555552 233445555443 4433 2355555555433 25666665544
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.02 E-value=9.9e-06 Score=46.30 Aligned_cols=49 Identities=24% Similarity=0.423 Sum_probs=38.6
Q ss_pred ccccCcCccccCChhHHHhHHhhhc-C-CCCccCCCCCcccCCchhHHHHHhhc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHS-G-QRPYKCVECPKAFKHKHHLTEHKRLH 190 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~-~-~~~~~C~~C~~~f~~~~~l~~H~~~h 190 (227)
.|.||.|++ ..+...|..|....+ . .+.+.|++|...+.. .|..|+..+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~--~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVTD--NLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhhh--HHHHHHHHh
Confidence 488999999 567789999976544 3 457999999987553 888898864
No 28
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.01 E-value=3e-06 Score=39.61 Aligned_cols=24 Identities=38% Similarity=0.708 Sum_probs=20.2
Q ss_pred ccCCcchhhhcChhHHHHHHHhcc
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYEHS 65 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~h~ 65 (227)
|.|++|++.|.+...|..|++.|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 689999999999999999999864
No 29
>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=97.96 E-value=3.1e-06 Score=40.93 Aligned_cols=25 Identities=44% Similarity=0.850 Sum_probs=23.3
Q ss_pred cccCCcchhhhcChhHHHHHHHhcc
Q psy16147 41 QFLCDQCDKVFAKHSSLARHKYEHS 65 (227)
Q Consensus 41 ~~~C~~C~~~f~~~~~L~~H~~~h~ 65 (227)
+|.|.+|++.|.+..+|..|++.|.
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 5899999999999999999999874
No 30
>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=97.90 E-value=7.7e-06 Score=37.86 Aligned_cols=23 Identities=39% Similarity=0.798 Sum_probs=16.6
Q ss_pred cccCcCccccCChhHHHhHHhhh
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEH 162 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h 162 (227)
|.|+.|++.|.....|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 46777777777777777777653
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.89 E-value=6.3e-06 Score=53.63 Aligned_cols=77 Identities=22% Similarity=0.328 Sum_probs=23.6
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHhhhcccc
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQHMNHRYS 220 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 220 (227)
.|..|+..|.....|..|+...++-..- ....+.....+..+.+.- ....+.|.+|++.|.+...|..|++.++.
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~-~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H 75 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKK-VKESFRCPYCNKTFRSREALQEHMRSKHH 75 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTTT
T ss_pred Cccccccccccccccccccccccccccc----cccccccccccccccccc-cCCCCCCCccCCCCcCHHHHHHHHcCccC
Confidence 4899999999999999999766652111 111222333333333321 22369999999999999999999997654
Q ss_pred cc
Q psy16147 221 YC 222 (227)
Q Consensus 221 ~~ 222 (227)
..
T Consensus 76 ~~ 77 (100)
T PF12756_consen 76 KK 77 (100)
T ss_dssp TC
T ss_pred CC
Confidence 33
No 32
>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=97.82 E-value=7.9e-06 Score=38.14 Aligned_cols=24 Identities=38% Similarity=0.620 Sum_probs=16.7
Q ss_pred cccccccccccCchhHHHhhhccc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
|.|++|++.|.+...|..|+..+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567788888888888888877654
No 33
>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=97.78 E-value=1.2e-05 Score=38.84 Aligned_cols=26 Identities=35% Similarity=0.677 Sum_probs=19.7
Q ss_pred CcccccccccccCchhHHHhhhcccc
Q psy16147 195 PFQCCKCLKRFSHSGSYSQHMNHRYS 220 (227)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 220 (227)
+|.|..|++.|.+...|..|++.++.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 46788888888888888888876553
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.62 E-value=2.6e-05 Score=59.50 Aligned_cols=54 Identities=33% Similarity=0.714 Sum_probs=41.2
Q ss_pred CCccCCC--CCcccCCchhHHHHHhh-c------------------cCCCCcccccccccccCchhHHHhhhccc
Q psy16147 166 RPYKCVE--CPKAFKHKHHLTEHKRL-H------------------SGEKPFQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 166 ~~~~C~~--C~~~f~~~~~l~~H~~~-h------------------~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
|+|+|++ |.+.+++...|+-|+.. | ..++||.|++|++++.....|+-|+.+-|
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~Hsh 422 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKHSH 422 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccccC
Confidence 6677766 66777777776666553 3 23589999999999999999999998654
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.43 E-value=0.00011 Score=34.75 Aligned_cols=24 Identities=38% Similarity=0.798 Sum_probs=21.9
Q ss_pred ccCCcchhhhcChhHHHHHHHhcc
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYEHS 65 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~h~ 65 (227)
|.|..|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999999763
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.35 E-value=0.00014 Score=47.25 Aligned_cols=24 Identities=29% Similarity=0.656 Sum_probs=20.3
Q ss_pred ccccCcCccccCChhHHHhHHhhh
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEH 162 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h 162 (227)
.+.|..|++.|.+...|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 588999999999999999998864
No 37
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.29 E-value=9.5e-05 Score=34.85 Aligned_cols=23 Identities=39% Similarity=0.821 Sum_probs=21.0
Q ss_pred ccCCcchhhhcChhHHHHHHHhc
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYEH 64 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~h 64 (227)
|.|++|+..|.+...|.+|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 67999999999999999999854
No 38
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.29 E-value=0.00012 Score=34.12 Aligned_cols=23 Identities=30% Similarity=0.621 Sum_probs=18.9
Q ss_pred ccCCcchhhhcChhHHHHHHHhcc
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYEHS 65 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~h~ 65 (227)
|+|+.|++..+ ..+|..|++.|+
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 78999999998 999999999864
No 39
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.14 E-value=0.00016 Score=55.35 Aligned_cols=52 Identities=25% Similarity=0.643 Sum_probs=44.5
Q ss_pred CCccccCc--CccccCChhHHHhHHhhhc-------------------CCCCccCCCCCcccCCchhHHHHHh
Q psy16147 137 EGQFLCDQ--CDKVFAKHSSLARHKYEHS-------------------GQRPYKCVECPKAFKHKHHLTEHKR 188 (227)
Q Consensus 137 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 188 (227)
+++|+|++ |.+.+.....|..|+..-+ .+|||+|++|++.+++...|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 48999987 9999999999999976422 1488999999999999999988765
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=96.95 E-value=0.0013 Score=36.10 Aligned_cols=33 Identities=24% Similarity=0.394 Sum_probs=19.5
Q ss_pred CCCCccccCcCccccCChhHHHhHHhhhcCCCC
Q psy16147 135 SGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRP 167 (227)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 167 (227)
..+.+..||+|+..+....+|.+|+...++.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 345667788888888888888888776666543
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.89 E-value=0.00045 Score=32.45 Aligned_cols=23 Identities=39% Similarity=0.709 Sum_probs=18.5
Q ss_pred cccccccccccCchhHHHhhhcc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHR 218 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~ 218 (227)
|.|.+|+..|.++..|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 56888888888888888888754
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.85 E-value=0.0015 Score=35.84 Aligned_cols=30 Identities=23% Similarity=0.361 Sum_probs=21.8
Q ss_pred CCCCcccCCcchhhhcChhHHHHHHHhccc
Q psy16147 37 SGEGQFLCDQCDKVFAKHSSLARHKYEHSV 66 (227)
Q Consensus 37 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 66 (227)
-.+.|-.|++|+..+....||+.|+.+.++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 357889999999999999999999987654
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.85 E-value=0.00045 Score=32.15 Aligned_cols=23 Identities=17% Similarity=0.498 Sum_probs=14.1
Q ss_pred cccccccccccCchhHHHhhhccc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
|.|+.|++... +..|..|++.+|
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 46777776666 667777776655
No 44
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.80 E-value=0.00061 Score=32.71 Aligned_cols=23 Identities=39% Similarity=0.700 Sum_probs=19.4
Q ss_pred cccccccccccCchhHHHhhhcc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHR 218 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~ 218 (227)
|.|..|++.|.++..|..|+++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 67888999999999999888753
No 45
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.80 E-value=0.0012 Score=30.90 Aligned_cols=22 Identities=41% Similarity=0.785 Sum_probs=13.9
Q ss_pred ccCcCccccCChhHHHhHHhhh
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEH 162 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h 162 (227)
.|+.|++.|.....|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4666666666666666666544
No 46
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.76 E-value=0.00029 Score=33.89 Aligned_cols=23 Identities=43% Similarity=0.891 Sum_probs=20.5
Q ss_pred cccCCcchhhhcChhHHHHHHHh
Q psy16147 41 QFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 41 ~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
.|.|..|++.|.+...|.+|++.
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCCcccCCCCcCCHHHHHHHHcc
Confidence 37899999999999999999875
No 47
>PRK04860 hypothetical protein; Provisional
Probab=96.27 E-value=0.0024 Score=45.13 Aligned_cols=37 Identities=30% Similarity=0.850 Sum_probs=21.1
Q ss_pred CccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccC
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSH 207 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 207 (227)
+|.|. |+. ....+..|.++|.++++|.|..|+..|..
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 45565 554 44455556666666666666666655543
No 48
>PRK04860 hypothetical protein; Provisional
Probab=96.05 E-value=0.0035 Score=44.27 Aligned_cols=40 Identities=23% Similarity=0.593 Sum_probs=34.5
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCch
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKH 181 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 181 (227)
-+|.|. |+. ....+.+|.+.+.++++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 579998 998 6677899999999999999999999887543
No 49
>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=95.91 E-value=0.0047 Score=31.53 Aligned_cols=24 Identities=29% Similarity=0.641 Sum_probs=21.6
Q ss_pred CcccCCcchhhhcChhHHHHHHHh
Q psy16147 40 GQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 40 ~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
.+|.|++|+..|.+..++.+|++.
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHCh
Confidence 368899999999999999999875
No 50
>KOG2231|consensus
Probab=95.69 E-value=0.011 Score=50.66 Aligned_cols=48 Identities=27% Similarity=0.418 Sum_probs=36.4
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCC------cccCCchhHHHHHhhc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECP------KAFKHKHHLTEHKRLH 190 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~------~~f~~~~~l~~H~~~h 190 (227)
...|..|...|.....|..|++.++ |.|..|+ .-|.....|..|.+.+
T Consensus 182 hp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 182 HPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKG 235 (669)
T ss_pred CccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhc
Confidence 3569999999999999999988665 5666664 4466667788887763
No 51
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.12 E-value=0.015 Score=27.22 Aligned_cols=21 Identities=24% Similarity=0.562 Sum_probs=18.3
Q ss_pred ccCCcchhhhcChhHHHHHHHh
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
.+|..||..| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 88889999864
No 52
>KOG1146|consensus
Probab=94.87 E-value=0.015 Score=53.12 Aligned_cols=28 Identities=18% Similarity=0.271 Sum_probs=25.1
Q ss_pred CCCCCcccCCcchhhhcChhHHHHHHHh
Q psy16147 36 NSGEGQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 36 ~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
++-.+.|.|..|+..|+....|..|||.
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRs 487 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRS 487 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccc
Confidence 3445899999999999999999999997
No 53
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.79 E-value=0.11 Score=40.84 Aligned_cols=77 Identities=22% Similarity=0.277 Sum_probs=53.4
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCC----cccCCchhHHHHHhhccCCCCccccc--cc----ccccCc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECP----KAFKHKHHLTEHKRLHSGEKPFQCCK--CL----KRFSHS 208 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~----~~f~~~~~l~~H~~~h~~~~~~~C~~--C~----~~f~~~ 208 (227)
...|..|...|-.-+.|..|++..+. +-+.|+.-+ .-|.+...|..|.+. .-|.|.. |. ..|...
T Consensus 220 HP~C~FC~~~FYdDDEL~~HcR~~HE-~ChICD~v~p~~~QYFK~Y~~Le~HF~~----~hy~ct~qtc~~~k~~vf~~~ 294 (493)
T COG5236 220 HPLCIFCKIYFYDDDELRRHCRLRHE-ACHICDMVGPIRYQYFKSYEDLEAHFRN----AHYCCTFQTCRVGKCYVFPYH 294 (493)
T ss_pred CchhhhccceecChHHHHHHHHhhhh-hhhhhhccCccchhhhhCHHHHHHHhhc----CceEEEEEEEecCcEEEeccH
Confidence 35799999999999999999986653 334444322 236677777777764 2255533 32 578889
Q ss_pred hhHHHhhhcccc
Q psy16147 209 GSYSQHMNHRYS 220 (227)
Q Consensus 209 ~~l~~H~~~~h~ 220 (227)
..|..|+..-|.
T Consensus 295 ~el~~h~~~~h~ 306 (493)
T COG5236 295 TELLEHLTRFHK 306 (493)
T ss_pred HHHHHHHHHHhh
Confidence 999999976663
No 54
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.22 E-value=0.027 Score=28.60 Aligned_cols=24 Identities=25% Similarity=0.466 Sum_probs=18.9
Q ss_pred CcccccccccccCchhHHHhhhcc
Q psy16147 195 PFQCCKCLKRFSHSGSYSQHMNHR 218 (227)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~~ 218 (227)
+|.|.+|+..|.....+..|++..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChH
Confidence 477888888888888888888744
No 55
>KOG4173|consensus
Probab=93.86 E-value=0.021 Score=41.25 Aligned_cols=79 Identities=29% Similarity=0.540 Sum_probs=62.3
Q ss_pred CccccCc--CccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhh-c---------cCCCCccccc--ccc
Q psy16147 138 GQFLCDQ--CDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRL-H---------SGEKPFQCCK--CLK 203 (227)
Q Consensus 138 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~~~C~~--C~~ 203 (227)
..+.|++ |...|...+.+..|.-+-++ -.|.+|.+.|.+...|..|+-- | .|...|+|-+ |+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4577887 77888888888888654444 3899999999999999988763 4 3445699955 999
Q ss_pred cccCchhHHHhhhccc
Q psy16147 204 RFSHSGSYSQHMNHRY 219 (227)
Q Consensus 204 ~f~~~~~l~~H~~~~h 219 (227)
.|.+...-+.|+...|
T Consensus 155 KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhhHHHHhc
Confidence 9999999999997666
No 56
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=93.86 E-value=0.044 Score=27.57 Aligned_cols=9 Identities=22% Similarity=1.065 Sum_probs=4.3
Q ss_pred cccCcCccc
Q psy16147 140 FLCDQCDKV 148 (227)
Q Consensus 140 ~~C~~C~~~ 148 (227)
|+|..||..
T Consensus 2 ~~C~~CGy~ 10 (33)
T cd00350 2 YVCPVCGYI 10 (33)
T ss_pred EECCCCCCE
Confidence 345555544
No 57
>KOG1146|consensus
Probab=93.84 E-value=0.034 Score=50.94 Aligned_cols=54 Identities=19% Similarity=0.359 Sum_probs=39.7
Q ss_pred CCCccccCcCccccCChhHHHhHHhhhcC-------------------------CCCccCCCCCcccCCchhHHHHHhh
Q psy16147 136 GEGQFLCDQCDKVFAKHSSLARHKYEHSG-------------------------QRPYKCVECPKAFKHKHHLTEHKRL 189 (227)
Q Consensus 136 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-------------------------~~~~~C~~C~~~f~~~~~l~~H~~~ 189 (227)
-.+.++|+.|+..|.....|..|++.-+. .++|.|..|...++....|.+|+..
T Consensus 462 ~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 462 FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 34678899999999999999999887221 1457777777777777777777653
No 58
>KOG2893|consensus
Probab=93.43 E-value=0.024 Score=41.99 Aligned_cols=47 Identities=26% Similarity=0.499 Sum_probs=33.3
Q ss_pred cCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHhhhccc
Q psy16147 169 KCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 169 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
.|..|.+.|....-|..|++. +-|+|.+|.+..-+--.|..|-.+.|
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhh
Confidence 466788888888888877774 44788888777666666666665554
No 59
>KOG2785|consensus
Probab=92.24 E-value=0.45 Score=38.09 Aligned_cols=51 Identities=25% Similarity=0.397 Sum_probs=35.3
Q ss_pred ccCCCCCcccCCchhHHHHHhhccC-----------------------CCCccccccc---ccccCchhHHHhhhcc
Q psy16147 168 YKCVECPKAFKHKHHLTEHKRLHSG-----------------------EKPFQCCKCL---KRFSHSGSYSQHMNHR 218 (227)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~h~~-----------------------~~~~~C~~C~---~~f~~~~~l~~H~~~~ 218 (227)
-.|..|+..+++...-..||..++| ...+.|-.|. +.|.+....+.|+...
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 3577788777777777777777654 1235677776 7777777778887644
No 60
>KOG2482|consensus
Probab=90.46 E-value=0.37 Score=37.95 Aligned_cols=24 Identities=25% Similarity=0.621 Sum_probs=21.9
Q ss_pred CcccCCcchhhhcChhHHHHHHHh
Q psy16147 40 GQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 40 ~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
..++|-.|.+.|..+.-|+.|||.
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHh
Confidence 358899999999999999999986
No 61
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=90.13 E-value=0.58 Score=30.82 Aligned_cols=83 Identities=12% Similarity=0.121 Sum_probs=47.0
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCC-CccCCCCCccc-------CCchhHHH------HHhhccCCCCccc----
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQR-PYKCVECPKAF-------KHKHHLTE------HKRLHSGEKPFQC---- 198 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~-~~~C~~C~~~f-------~~~~~l~~------H~~~h~~~~~~~C---- 198 (227)
-+...|..|+.+... +++..|++..+... ...-..=...+ .....+.. -..--.....|.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 356789999998777 78899988443221 11000000000 00000000 0000001234899
Q ss_pred ccccccccCchhHHHhhhcccc
Q psy16147 199 CKCLKRFSHSGSYSQHMNHRYS 220 (227)
Q Consensus 199 ~~C~~~f~~~~~l~~H~~~~h~ 220 (227)
..|++.+.+...+.+|++..|.
T Consensus 88 ~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999998774
No 62
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=90.09 E-value=0.23 Score=25.65 Aligned_cols=33 Identities=24% Similarity=0.619 Sum_probs=19.7
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
..||.|+..|....+- ...+....+|+.|+..|
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcEEECCCCCcEe
Confidence 3577777777666542 12234466777777665
No 63
>PF12907 zf-met2: Zinc-binding
Probab=89.58 E-value=0.13 Score=27.02 Aligned_cols=28 Identities=14% Similarity=0.337 Sum_probs=21.5
Q ss_pred ccccccccccc---CchhHHHhhhccccccc
Q psy16147 196 FQCCKCLKRFS---HSGSYSQHMNHRYSYCK 223 (227)
Q Consensus 196 ~~C~~C~~~f~---~~~~l~~H~~~~h~~~~ 223 (227)
+.|.+|..+|. +...|..|...+|+...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~ 32 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNT 32 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCC
Confidence 57889987665 45679999998888753
No 64
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=89.50 E-value=0.3 Score=25.08 Aligned_cols=33 Identities=18% Similarity=0.555 Sum_probs=19.7
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
..|+.|+..|...++.. -......+|..|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~i-----p~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKI-----PPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHC-----CCCCcEEECCCCCCEe
Confidence 45777777776665532 2233456777777655
No 65
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.19 E-value=0.35 Score=39.81 Aligned_cols=157 Identities=23% Similarity=0.328 Sum_probs=72.7
Q ss_pred CcccCCcchhhhcChhHHHHHHH--hcccc--ccCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCCCccCCCCCchHHH
Q psy16147 40 GQFLCDQCDKVFAKHSSLARHKY--EHSVL--QKCSSSYNYPRHSICNRPTASYPELSDMGSLEGDESLDRMDEDSSERK 115 (227)
Q Consensus 40 ~~~~C~~C~~~f~~~~~L~~H~~--~h~~~--~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (227)
.++.|..|...|+....|..|.+ .|.++ ......+. .|++.+.....+..+....................
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYS-----LCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSK 362 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeecc-----CCCccccccccccCCcccccCCCccccccccCccc
Confidence 35777777777777777777777 56555 22111111 46666666555544443333222111111111111
Q ss_pred HhhhhhcCCCCcccccCCCCCCCcccc--CcCccccCChhHHHhHHhhhcCCC--CccCCCCCcccCCchhHHHHHhhcc
Q psy16147 116 LKSRLMMSSNGTMSCADDNSGEGQFLC--DQCDKVFAKHSSLARHKYEHSGQR--PYKCVECPKAFKHKHHLTEHKRLHS 191 (227)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~~~~C--~~C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~ 191 (227)
..........................+ ..|-..+.....+..|...+.... .+.+..|...+.....+..|++.|.
T Consensus 363 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 442 (467)
T COG5048 363 FSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHT 442 (467)
T ss_pred cccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccc
Confidence 000000000000000001111122223 224445555555555555554433 4566777788887777777777777
Q ss_pred CCCCcccccc
Q psy16147 192 GEKPFQCCKC 201 (227)
Q Consensus 192 ~~~~~~C~~C 201 (227)
...++.|..+
T Consensus 443 ~~~~~~~~~~ 452 (467)
T COG5048 443 NHAPLLCSIL 452 (467)
T ss_pred cCCceeeccc
Confidence 6665555443
No 66
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.00 E-value=0.17 Score=41.63 Aligned_cols=53 Identities=40% Similarity=0.663 Sum_probs=44.6
Q ss_pred CccCCCCCcccCCchhHHHHHh--hccCC--CCcccc--cccccccCchhHHHhhhccc
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKR--LHSGE--KPFQCC--KCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~h 219 (227)
++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.+...+..|...+.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccccc
Confidence 5788888888888888888888 78888 888888 79999998888888888543
No 67
>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=88.97 E-value=0.31 Score=32.01 Aligned_cols=31 Identities=23% Similarity=0.598 Sum_probs=22.8
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHK 180 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 180 (227)
...|+.||..|-... ..|..|+.|+..|.-.
T Consensus 9 KR~Cp~CG~kFYDLn-----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLN-----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCC-----------CCCccCCCCCCccCcc
Confidence 457888888886642 3677888888888755
No 68
>KOG2785|consensus
Probab=88.76 E-value=1.9 Score=34.72 Aligned_cols=52 Identities=21% Similarity=0.347 Sum_probs=44.3
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCC-----------------------CCccCCCCC---cccCCchhHHHHHhh
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQ-----------------------RPYKCVECP---KAFKHKHHLTEHKRL 189 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 189 (227)
.|-.|-.|++.+.+......||..++|- ..+.|..|. +.|.+....+.||..
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4567999999999999999999988872 237788888 999999999999885
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=88.59 E-value=0.34 Score=27.17 Aligned_cols=30 Identities=30% Similarity=0.623 Sum_probs=26.3
Q ss_pred CCCCCCCcccCCcchhhhcChhHHHHHHHh
Q psy16147 34 DDNSGEGQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 34 ~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
.+..||.-+.|+-||..|....+...|++.
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 345678889999999999999999999875
No 70
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=88.34 E-value=0.32 Score=22.95 Aligned_cols=9 Identities=33% Similarity=0.789 Sum_probs=4.9
Q ss_pred cCCCCCccc
Q psy16147 169 KCVECPKAF 177 (227)
Q Consensus 169 ~C~~C~~~f 177 (227)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 455555555
No 71
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=88.30 E-value=0.15 Score=38.14 Aligned_cols=13 Identities=15% Similarity=0.283 Sum_probs=9.3
Q ss_pred cccccccccccCc
Q psy16147 196 FQCCKCLKRFSHS 208 (227)
Q Consensus 196 ~~C~~C~~~f~~~ 208 (227)
+.||.||++|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5788888777644
No 72
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=87.95 E-value=0.36 Score=24.41 Aligned_cols=9 Identities=22% Similarity=1.010 Sum_probs=4.3
Q ss_pred cccCcCccc
Q psy16147 140 FLCDQCDKV 148 (227)
Q Consensus 140 ~~C~~C~~~ 148 (227)
|+|..||..
T Consensus 3 ~~C~~CG~i 11 (34)
T cd00729 3 WVCPVCGYI 11 (34)
T ss_pred EECCCCCCE
Confidence 445555443
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=87.53 E-value=0.2 Score=28.07 Aligned_cols=28 Identities=29% Similarity=0.586 Sum_probs=18.0
Q ss_pred CCCCcccccccccccCchhHHHhhhccc
Q psy16147 192 GEKPFQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 192 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
|+--+.|+.|+..|.+..++.+|.+.-|
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 4444667777777777777777766444
No 74
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=87.06 E-value=0.42 Score=24.71 Aligned_cols=33 Identities=18% Similarity=0.483 Sum_probs=17.5
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
..|+.|+..|....+... .......|+.|+..|
T Consensus 3 ~~CP~C~~~~~v~~~~~~-----~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLG-----ANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHcC-----CCCCEEECCCCCCEE
Confidence 457777776665544211 112245677776655
No 75
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=86.65 E-value=1 Score=29.65 Aligned_cols=23 Identities=26% Similarity=0.590 Sum_probs=15.8
Q ss_pred ccC----CCCCcccCCchhHHHHHhhc
Q psy16147 168 YKC----VECPKAFKHKHHLTEHKRLH 190 (227)
Q Consensus 168 ~~C----~~C~~~f~~~~~l~~H~~~h 190 (227)
|.| ..|++.+.+...+..|.+.+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~ 107 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKE 107 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHh
Confidence 667 66777777777777776654
No 76
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=86.64 E-value=0.18 Score=37.65 Aligned_cols=43 Identities=21% Similarity=0.360 Sum_probs=28.7
Q ss_pred CccccCcCccccCChhHHHhHHhh---hc-------CCC-----CccCCCCCcccCCc
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYE---HS-------GQR-----PYKCVECPKAFKHK 180 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~---h~-------~~~-----~~~C~~C~~~f~~~ 180 (227)
+...||+|+..|....-.....+. .. +.- .+.|+.|++++...
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 567899999999987554443332 11 111 26899999987755
No 77
>KOG2186|consensus
Probab=86.58 E-value=0.38 Score=36.22 Aligned_cols=46 Identities=22% Similarity=0.631 Sum_probs=21.6
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHh
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKR 188 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 188 (227)
|.|..||-...-. .+..|+..-.+ ..|.|..|+..|.. ..+..|..
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 4555555543332 33445443333 44555555555554 34444444
No 78
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=85.35 E-value=0.53 Score=26.90 Aligned_cols=9 Identities=33% Similarity=1.128 Sum_probs=4.5
Q ss_pred ccccCcCcc
Q psy16147 139 QFLCDQCDK 147 (227)
Q Consensus 139 ~~~C~~C~~ 147 (227)
.|.||.||.
T Consensus 27 ~F~CPnCGe 35 (61)
T COG2888 27 KFPCPNCGE 35 (61)
T ss_pred EeeCCCCCc
Confidence 355555553
No 79
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=84.97 E-value=0.61 Score=33.15 Aligned_cols=23 Identities=30% Similarity=0.613 Sum_probs=13.8
Q ss_pred CccCCCCCcccCCchhHHHHHhhccCCCCccccccc
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCL 202 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 202 (227)
.|.|++||..+ .++-|..||+||
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 46777776543 234566777776
No 80
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=84.83 E-value=0.64 Score=24.99 Aligned_cols=26 Identities=31% Similarity=0.494 Sum_probs=17.4
Q ss_pred CCCcccCCcchhhhcCh----hHHHHHHHh
Q psy16147 38 GEGQFLCDQCDKVFAKH----SSLARHKYE 63 (227)
Q Consensus 38 ~~~~~~C~~C~~~f~~~----~~L~~H~~~ 63 (227)
++....|..|++.+... .+|..|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 45668899999988874 889999953
No 81
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=84.35 E-value=0.66 Score=32.97 Aligned_cols=24 Identities=29% Similarity=0.782 Sum_probs=19.9
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPK 175 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 175 (227)
.|+|++||.. +.++-|.+|+.|+.
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCCC
Confidence 7999999986 34567899999994
No 82
>PHA00626 hypothetical protein
Probab=83.74 E-value=0.41 Score=26.93 Aligned_cols=14 Identities=21% Similarity=0.548 Sum_probs=8.7
Q ss_pred CCccCCCCCcccCC
Q psy16147 166 RPYKCVECPKAFKH 179 (227)
Q Consensus 166 ~~~~C~~C~~~f~~ 179 (227)
..|.|+.|++.|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 35677777766653
No 83
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.57 E-value=2.1 Score=28.20 Aligned_cols=77 Identities=17% Similarity=0.256 Sum_probs=46.5
Q ss_pred CccccCcCccccCChhHHHhHHhhhc--CCCC------------ccCCCCCcccCCchhHHHHHhhccCCCCcccccccc
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHS--GQRP------------YKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLK 203 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~------------~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 203 (227)
-|..|++||........|.+. .|+ .-++ ..|--|...|....... ...-.....|.|+.|..
T Consensus 14 LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~ 89 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARS--YHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKN 89 (112)
T ss_pred CCCcCCcCCCEEeccchHHHh--hhccCCCcccccccccccCCCCcccCcCCCCCCccccc--ccccccccceeCCCCCC
Confidence 356788998887777776653 122 1111 23777888776543211 00011234588999988
Q ss_pred cccCchhHHHhhhcc
Q psy16147 204 RFSHSGSYSQHMNHR 218 (227)
Q Consensus 204 ~f~~~~~l~~H~~~~ 218 (227)
.|--.-+.-.|...|
T Consensus 90 ~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 90 VFCVDCDVFVHESLH 104 (112)
T ss_pred ccccccchhhhhhcc
Confidence 888777777777644
No 84
>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=82.12 E-value=1.1 Score=21.07 Aligned_cols=20 Identities=15% Similarity=0.296 Sum_probs=16.5
Q ss_pred ccCCcchhhhcChhHHHHHHH
Q psy16147 42 FLCDQCDKVFAKHSSLARHKY 62 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~ 62 (227)
..|++|++.+ ....+..|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999998 6678888875
No 85
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=81.48 E-value=0.83 Score=28.39 Aligned_cols=31 Identities=23% Similarity=0.595 Sum_probs=17.2
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
..|.||.|++. .. .+ .+...|.|..|+..|.
T Consensus 34 ~~~~Cp~C~~~-~V-------kR--~a~GIW~C~kCg~~fA 64 (89)
T COG1997 34 AKHVCPFCGRT-TV-------KR--IATGIWKCRKCGAKFA 64 (89)
T ss_pred cCCcCCCCCCc-ce-------ee--eccCeEEcCCCCCeec
Confidence 34677777764 11 11 1234577777777665
No 86
>KOG4167|consensus
Probab=81.34 E-value=0.57 Score=40.75 Aligned_cols=27 Identities=41% Similarity=0.661 Sum_probs=25.0
Q ss_pred CCcccCCcchhhhcChhHHHHHHHhcc
Q psy16147 39 EGQFLCDQCDKVFAKHSSLARHKYEHS 65 (227)
Q Consensus 39 ~~~~~C~~C~~~f~~~~~L~~H~~~h~ 65 (227)
...|.|..|++.|-...+++.||++|-
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 577999999999999999999999984
No 87
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=81.26 E-value=0.92 Score=32.84 Aligned_cols=34 Identities=18% Similarity=0.605 Sum_probs=23.4
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCC
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKH 179 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 179 (227)
..-|.|+.|+..|.....+. ..|.|+.|+.....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 35577888888877776652 35788888866543
No 88
>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=81.19 E-value=1.1 Score=31.74 Aligned_cols=34 Identities=15% Similarity=0.411 Sum_probs=22.1
Q ss_pred CCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 136 GEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 136 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
...-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 345577777777777766653 2577777776543
No 89
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=80.84 E-value=0.53 Score=26.30 Aligned_cols=13 Identities=23% Similarity=0.713 Sum_probs=8.0
Q ss_pred cccCcCccccCCh
Q psy16147 140 FLCDQCDKVFAKH 152 (227)
Q Consensus 140 ~~C~~C~~~f~~~ 152 (227)
|.|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (52)
T TIGR02605 6 YRCTACGHRFEVL 18 (52)
T ss_pred EEeCCCCCEeEEE
Confidence 5666666666544
No 90
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=80.57 E-value=1.3 Score=29.72 Aligned_cols=34 Identities=18% Similarity=0.285 Sum_probs=23.7
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhH
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHL 183 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 183 (227)
+..|+.||..|-.. +..|..|+.|+..|.-...+
T Consensus 9 Kr~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 9 KRICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred cccCCCcCcccccc-----------CCCCccCCCcCCccCcchhh
Confidence 45788888888654 33678888888887655333
No 91
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.53 E-value=0.18 Score=39.71 Aligned_cols=53 Identities=13% Similarity=0.189 Sum_probs=29.6
Q ss_pred CCCCCCcccCCcchhhhcChhHHHHHHHhccccccC-CCCCCCCCCCCCCCCCC
Q psy16147 35 DNSGEGQFLCDQCDKVFAKHSSLARHKYEHSVLQKC-SSSYNYPRHSICNRPTA 87 (227)
Q Consensus 35 ~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~-~~~~~~~~~~~c~~~~~ 87 (227)
+.+.|..--|.||....+....+--|-++.+.|... ..-+....|++|.....
T Consensus 55 ddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 55 DDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 334455567999999888887776555554433211 11223344566655443
No 92
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=80.37 E-value=0.51 Score=33.18 Aligned_cols=17 Identities=24% Similarity=0.600 Sum_probs=11.3
Q ss_pred CccCCCCCcccCCchhH
Q psy16147 167 PYKCVECPKAFKHKHHL 183 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l 183 (227)
.++|+.|++.|.....+
T Consensus 28 ~~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 28 RRECLACGKRFTTFERV 44 (154)
T ss_pred eeeccccCCcceEeEec
Confidence 46777777777765443
No 93
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=78.23 E-value=1.4 Score=24.40 Aligned_cols=23 Identities=26% Similarity=0.593 Sum_probs=13.2
Q ss_pred ccccccccccCc-----hhHHHhhhccc
Q psy16147 197 QCCKCLKRFSHS-----GSYSQHMNHRY 219 (227)
Q Consensus 197 ~C~~C~~~f~~~-----~~l~~H~~~~h 219 (227)
.|..|++.+... +.|.+|++..|
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 466666655443 46777776433
No 94
>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=77.86 E-value=0.77 Score=24.04 Aligned_cols=13 Identities=23% Similarity=0.861 Sum_probs=7.7
Q ss_pred cccCcCccccCCh
Q psy16147 140 FLCDQCDKVFAKH 152 (227)
Q Consensus 140 ~~C~~C~~~f~~~ 152 (227)
|.|+.||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (41)
T smart00834 6 YRCEDCGHTFEVL 18 (41)
T ss_pred EEcCCCCCEEEEE
Confidence 5666666665543
No 95
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=77.05 E-value=1.8 Score=23.35 Aligned_cols=11 Identities=18% Similarity=0.924 Sum_probs=6.1
Q ss_pred cccCcCccccC
Q psy16147 140 FLCDQCDKVFA 150 (227)
Q Consensus 140 ~~C~~C~~~f~ 150 (227)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 55666665544
No 96
>KOG3408|consensus
Probab=76.14 E-value=2.5 Score=28.09 Aligned_cols=30 Identities=33% Similarity=0.630 Sum_probs=26.7
Q ss_pred CCCCCCCcccCCcchhhhcChhHHHHHHHh
Q psy16147 34 DDNSGEGQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 34 ~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
.+.+|-++|-|-.|.+-|.+...|..|.++
T Consensus 50 ~dlPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 50 PDLPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 455688899999999999999999999875
No 97
>KOG2071|consensus
Probab=75.93 E-value=4 Score=34.92 Aligned_cols=29 Identities=17% Similarity=0.329 Sum_probs=25.0
Q ss_pred CCCcccCCcchhhhcChhHHHHHHHhccc
Q psy16147 38 GEGQFLCDQCDKVFAKHSSLARHKYEHSV 66 (227)
Q Consensus 38 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 66 (227)
.+.+-+|..||..|.+......||..|..
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhh
Confidence 45678999999999999999999888853
No 98
>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=75.84 E-value=1.1 Score=23.87 Aligned_cols=13 Identities=23% Similarity=0.833 Sum_probs=7.4
Q ss_pred cccCcCccccCCh
Q psy16147 140 FLCDQCDKVFAKH 152 (227)
Q Consensus 140 ~~C~~C~~~f~~~ 152 (227)
|.|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 5566666555444
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=75.67 E-value=2.7 Score=29.82 Aligned_cols=34 Identities=15% Similarity=0.350 Sum_probs=27.1
Q ss_pred CCCCccCCCCCcccCCchhHHHHHhhccCCCCccccccccccc
Q psy16147 164 GQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFS 206 (227)
Q Consensus 164 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 206 (227)
+..-|.|+.|+..|+...++. ..|.|+.||....
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 445699999999999888874 3699999997543
No 100
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=74.86 E-value=2.4 Score=29.65 Aligned_cols=37 Identities=11% Similarity=0.405 Sum_probs=19.2
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
..-|.||.|+..|.....+..- . .+..|.|+.|+...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~---d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLL---D-MDGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhc---C-CCCcEECCCCCCEE
Confidence 3456677777666654433210 1 12336676666554
No 101
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=74.12 E-value=1.4 Score=23.93 Aligned_cols=12 Identities=17% Similarity=0.725 Sum_probs=6.8
Q ss_pred cccCcCccccCC
Q psy16147 140 FLCDQCDKVFAK 151 (227)
Q Consensus 140 ~~C~~C~~~f~~ 151 (227)
|.|+.||..|..
T Consensus 4 y~C~~CG~~~~~ 15 (46)
T PRK00398 4 YKCARCGREVEL 15 (46)
T ss_pred EECCCCCCEEEE
Confidence 556666655543
No 102
>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=73.99 E-value=1.9 Score=29.49 Aligned_cols=27 Identities=44% Similarity=0.770 Sum_probs=14.1
Q ss_pred CCccCCCCCcccCCchhHHHHHhhccCCCC
Q psy16147 166 RPYKCVECPKAFKHKHHLTEHKRLHSGEKP 195 (227)
Q Consensus 166 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 195 (227)
....|-+||+.|.. |.+|++.|.|-.|
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred CeeEEccCCcccch---HHHHHHHccCCCH
Confidence 34677777777763 4677777777654
No 103
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.82 E-value=3.6 Score=28.71 Aligned_cols=39 Identities=21% Similarity=0.518 Sum_probs=26.4
Q ss_pred CCCCccCCCCCcccCCchhHHHHHhhccCCCCccccccccccc
Q psy16147 164 GQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFS 206 (227)
Q Consensus 164 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 206 (227)
+..-|.|+.|+..|.....+.. ... +..|.|+.||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~---~d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL---LDM-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh---cCC-CCcEECCCCCCEEE
Confidence 3456999999999986544321 112 44499999997653
No 104
>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=73.64 E-value=2.1 Score=21.30 Aligned_cols=9 Identities=22% Similarity=0.944 Sum_probs=4.4
Q ss_pred ccCcCcccc
Q psy16147 141 LCDQCDKVF 149 (227)
Q Consensus 141 ~C~~C~~~f 149 (227)
.|..||..+
T Consensus 2 ~C~~Cg~~~ 10 (32)
T PF03604_consen 2 ICGECGAEV 10 (32)
T ss_dssp BESSSSSSE
T ss_pred CCCcCCCee
Confidence 455555444
No 105
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=72.15 E-value=1.9 Score=24.75 Aligned_cols=10 Identities=50% Similarity=1.338 Sum_probs=5.4
Q ss_pred ccccCcCccc
Q psy16147 139 QFLCDQCDKV 148 (227)
Q Consensus 139 ~~~C~~C~~~ 148 (227)
.|.||.||..
T Consensus 25 ~F~CPnCG~~ 34 (59)
T PRK14890 25 KFLCPNCGEV 34 (59)
T ss_pred EeeCCCCCCe
Confidence 3556666543
No 106
>KOG2231|consensus
Probab=71.50 E-value=5.2 Score=35.05 Aligned_cols=75 Identities=20% Similarity=0.404 Sum_probs=39.3
Q ss_pred cCcCccccCChhHHHhHHhhhcCCCCccCCCCCc---cc------CCchhHHHHHhhccC-CCC----cccccccccccC
Q psy16147 142 CDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPK---AF------KHKHHLTEHKRLHSG-EKP----FQCCKCLKRFSH 207 (227)
Q Consensus 142 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---~f------~~~~~l~~H~~~h~~-~~~----~~C~~C~~~f~~ 207 (227)
|..| ..|.....|+.|+...+ +.+.|..|.. .| -....|..|+..-.. +.. -.|..|...|..
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H--~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld 194 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQH--KLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLD 194 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhh--hhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhcc
Confidence 4444 44447788899985433 2233333321 12 223344455554221 221 346777777777
Q ss_pred chhHHHhhhccc
Q psy16147 208 SGSYSQHMNHRY 219 (227)
Q Consensus 208 ~~~l~~H~~~~h 219 (227)
...|..|++..|
T Consensus 195 ~~el~rH~~~~h 206 (669)
T KOG2231|consen 195 DDELYRHLRFDH 206 (669)
T ss_pred HHHHHHhhccce
Confidence 777777777554
No 107
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=70.16 E-value=1.5 Score=32.61 Aligned_cols=23 Identities=26% Similarity=0.493 Sum_probs=12.1
Q ss_pred CccCCCCCcccCCchhHHHHHhh
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRL 189 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~ 189 (227)
.|.|..|++.|.....+..|+..
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHH
T ss_pred EECCCCCCcccCChHHHHHHHhh
Confidence 45566666666655555555554
No 108
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=69.78 E-value=1.6 Score=26.38 Aligned_cols=42 Identities=19% Similarity=0.399 Sum_probs=21.5
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCC--CCCcccCCchhH
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCV--ECPKAFKHKHHL 183 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~--~C~~~f~~~~~l 183 (227)
+.|+.||......+.-..... ..+..++|. .|+..|.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEE
Confidence 457777766533322111111 224456776 677777655443
No 109
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=69.78 E-value=3.5 Score=29.85 Aligned_cols=33 Identities=18% Similarity=0.492 Sum_probs=26.0
Q ss_pred CCCccCCCCCcccCCchhHHHHHhhccCCCCccccccccccc
Q psy16147 165 QRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFS 206 (227)
Q Consensus 165 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 206 (227)
..-|.|+.|+..|+...++. ..|.|+.||....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 45699999999998877763 3699999997554
No 110
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=69.12 E-value=2.4 Score=28.71 Aligned_cols=58 Identities=21% Similarity=0.426 Sum_probs=34.4
Q ss_pred CCCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCc--hhHHHHHhhccCCCCcccccccccccCch
Q psy16147 135 SGEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHK--HHLTEHKRLHSGEKPFQCCKCLKRFSHSG 209 (227)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~--~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 209 (227)
...+.|.|.+|..++....= -||-.| ||....+. ..|..|-..|+ .||+|.-+|.+.+
T Consensus 76 ~d~~lYeCnIC~etS~ee~F----------LKPneC--CgY~iCn~Cya~LWK~~~~yp-----vCPvCkTSFKss~ 135 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERF----------LKPNEC--CGYSICNACYANLWKFCNLYP-----VCPVCKTSFKSSS 135 (140)
T ss_pred cCCCceeccCcccccchhhc----------CCcccc--cchHHHHHHHHHHHHHcccCC-----CCCcccccccccc
Confidence 44578999999887654321 134444 55443333 23444444444 6899988887654
No 111
>KOG2893|consensus
Probab=68.71 E-value=1.8 Score=32.41 Aligned_cols=47 Identities=26% Similarity=0.511 Sum_probs=35.8
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHH-Hhhc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEH-KRLH 190 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H-~~~h 190 (227)
-+|=.|+.-|-...-|.+|++ .+-|+|-+|-+..-+-..|..| +.+|
T Consensus 11 pwcwycnrefddekiliqhqk----akhfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQK----AKHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred ceeeecccccchhhhhhhhhh----hccceeeeehhhhccCCCceeehhhhh
Confidence 458899999999999998876 3568999998776666666666 4444
No 112
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=68.66 E-value=2.4 Score=22.46 Aligned_cols=14 Identities=21% Similarity=0.482 Sum_probs=7.8
Q ss_pred ccccccccccCchh
Q psy16147 197 QCCKCLKRFSHSGS 210 (227)
Q Consensus 197 ~C~~C~~~f~~~~~ 210 (227)
.|+.|++.|+.+..
T Consensus 10 ~C~~C~rpf~WRKK 23 (42)
T PF10013_consen 10 ICPVCGRPFTWRKK 23 (42)
T ss_pred cCcccCCcchHHHH
Confidence 46666666655443
No 113
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=67.96 E-value=2.7 Score=23.17 Aligned_cols=11 Identities=18% Similarity=0.905 Sum_probs=6.9
Q ss_pred ccccCcCcccc
Q psy16147 139 QFLCDQCDKVF 149 (227)
Q Consensus 139 ~~~C~~C~~~f 149 (227)
.|.|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 46666666665
No 114
>KOG2186|consensus
Probab=67.41 E-value=2.9 Score=31.66 Aligned_cols=47 Identities=26% Similarity=0.555 Sum_probs=31.9
Q ss_pred ccCCCCCcccCCchhHHHHHhhccCCCCcccccccccccCchhHHHhhhc
Q psy16147 168 YKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRFSHSGSYSQHMNH 217 (227)
Q Consensus 168 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 217 (227)
|.|..|+....-. .+..|+...++ .-|.|..|+..|.. -+++.|..-
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 5677787776543 44557777666 45778888888877 567777653
No 115
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=67.14 E-value=4.1 Score=27.66 Aligned_cols=28 Identities=29% Similarity=0.578 Sum_probs=18.1
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKA 176 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 176 (227)
|++|..||..|..-+.- ..--|+.||..
T Consensus 1 PH~Ct~Cg~~f~dgs~e----------il~GCP~CGg~ 28 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKE----------ILSGCPECGGN 28 (131)
T ss_pred CcccCcCCCCcCCCcHH----------HHccCcccCCc
Confidence 46788888888876521 11258888743
No 116
>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=66.45 E-value=2.3 Score=21.77 Aligned_cols=10 Identities=20% Similarity=1.225 Sum_probs=5.7
Q ss_pred ccCcCccccC
Q psy16147 141 LCDQCDKVFA 150 (227)
Q Consensus 141 ~C~~C~~~f~ 150 (227)
.|+.||..|.
T Consensus 3 ~C~~Cg~~Yh 12 (36)
T PF05191_consen 3 ICPKCGRIYH 12 (36)
T ss_dssp EETTTTEEEE
T ss_pred CcCCCCCccc
Confidence 4666666553
No 117
>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=65.80 E-value=2.4 Score=20.74 Aligned_cols=24 Identities=21% Similarity=0.556 Sum_probs=8.9
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCccCCCCCc
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPK 175 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 175 (227)
.|+.|+..+.. .....+.|+.|+.
T Consensus 4 ~Cp~C~se~~y-----------~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGELLVCPECGH 27 (30)
T ss_dssp --TTT-----E-----------E-SSSEEETTTTE
T ss_pred CCCCCCCccee-----------ccCCEEeCCcccc
Confidence 46666655433 2334566666654
No 118
>KOG2071|consensus
Probab=65.09 E-value=6.2 Score=33.84 Aligned_cols=28 Identities=18% Similarity=0.375 Sum_probs=22.6
Q ss_pred CCCccccCcCccccCChhHHHhHHhhhc
Q psy16147 136 GEGQFLCDQCDKVFAKHSSLARHKYEHS 163 (227)
Q Consensus 136 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 163 (227)
.+.+..|..||.+|........||-.|-
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3467889999999999988777776654
No 119
>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=64.05 E-value=1.9 Score=20.71 Aligned_cols=20 Identities=40% Similarity=0.914 Sum_probs=10.5
Q ss_pred cccccccccccCchhHHHhhh
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMN 216 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~ 216 (227)
|.|..|++.| .....+.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 4567777777 4455555554
No 120
>PF15269 zf-C2H2_7: Zinc-finger
Probab=63.70 E-value=4.4 Score=21.66 Aligned_cols=22 Identities=27% Similarity=0.375 Sum_probs=19.5
Q ss_pred ccCCcchhhhcChhHHHHHHHh
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
|+|-+|..+...++.|-+||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 7899999999999999999874
No 121
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=62.93 E-value=3 Score=37.10 Aligned_cols=13 Identities=23% Similarity=0.488 Sum_probs=9.1
Q ss_pred CCCCccccccccc
Q psy16147 192 GEKPFQCCKCLKR 204 (227)
Q Consensus 192 ~~~~~~C~~C~~~ 204 (227)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 3456788888754
No 122
>KOG3408|consensus
Probab=61.33 E-value=4.4 Score=26.95 Aligned_cols=22 Identities=23% Similarity=0.652 Sum_probs=12.5
Q ss_pred cccccccccccCchhHHHhhhc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNH 217 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~ 217 (227)
|-|..|.+-|.+...|..|.++
T Consensus 58 fyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eehhhhhhhhcchHHHHHHHhc
Confidence 5555555555555555555543
No 123
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=60.96 E-value=3.6 Score=25.81 Aligned_cols=31 Identities=19% Similarity=0.571 Sum_probs=17.3
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
.|..|..||+.|... . -.+|-.|+.|.....
T Consensus 57 ~Pa~CkkCGfef~~~-~---------ik~pSRCP~CKSE~I 87 (97)
T COG3357 57 RPARCKKCGFEFRDD-K---------IKKPSRCPKCKSEWI 87 (97)
T ss_pred cChhhcccCcccccc-c---------cCCcccCCcchhhcc
Confidence 356677777776551 1 124566777664443
No 124
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=59.27 E-value=7.5 Score=25.15 Aligned_cols=30 Identities=30% Similarity=0.584 Sum_probs=26.1
Q ss_pred CCCCCCCcccCCcchhhhcChhHHHHHHHh
Q psy16147 34 DDNSGEGQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 34 ~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
++.+|-+++-|-.|.+-|.+...|..|.+.
T Consensus 48 p~lPGlGqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 48 PELPGLGQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred CCCCCCceeeeehhHHHHHHHHHHHHHhcc
Confidence 445677889999999999999999999874
No 125
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=59.12 E-value=2.5 Score=23.86 Aligned_cols=27 Identities=26% Similarity=0.613 Sum_probs=18.5
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
.+|+.||+.|....+ ...|+.|+..+.
T Consensus 6 ~~C~~Cg~~~~~~dD------------iVvCp~CgapyH 32 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDD------------IVVCPECGAPYH 32 (54)
T ss_pred ccChhhCCcccCCCC------------EEECCCCCCccc
Confidence 468888888765433 457888886653
No 126
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=59.07 E-value=32 Score=24.33 Aligned_cols=57 Identities=16% Similarity=0.248 Sum_probs=38.1
Q ss_pred CccCCCCCcccCCchhHHHHHhhccCCCCccccc--ccccccCchhHHHhhhcccccccCC
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCK--CLKRFSHSGSYSQHMNHRYSYCKPY 225 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~ 225 (227)
...|+.|-.......... --+.+...|+-.|.. |... .+-..|++|.+..|+..+|-
T Consensus 80 ~L~CPLCRG~V~GWtvve-~AR~~LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~rP~ 138 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVVE-PARRFLNAKKRSCSQESCSFS-GTYSELRKHARSEHPSARPS 138 (162)
T ss_pred cccCccccCceeceEEch-HHHHHhccCCccCcccccccc-cCHHHHHHHHHhhCCCCCCc
Confidence 367898887666554432 244556666666655 5432 35678999999999988874
No 127
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=58.74 E-value=7.2 Score=22.20 Aligned_cols=19 Identities=26% Similarity=0.417 Sum_probs=7.6
Q ss_pred HHHhHHhhhcCCCCccCCC
Q psy16147 154 SLARHKYEHSGQRPYKCVE 172 (227)
Q Consensus 154 ~l~~H~~~h~~~~~~~C~~ 172 (227)
+|..|+...-..++..|..
T Consensus 25 ~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 25 ELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHccCCCCcEECCC
Confidence 4444544333333444444
No 128
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=57.28 E-value=4.6 Score=27.79 Aligned_cols=16 Identities=19% Similarity=0.586 Sum_probs=12.1
Q ss_pred CCccccCcCccccCCh
Q psy16147 137 EGQFLCDQCDKVFAKH 152 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~ 152 (227)
+..+.|..||..|...
T Consensus 68 p~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 68 EAVLKCRNCGNEWSLK 83 (135)
T ss_pred ceEEECCCCCCEEecc
Confidence 3568899999887664
No 129
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=57.02 E-value=7.6 Score=24.98 Aligned_cols=27 Identities=26% Similarity=0.551 Sum_probs=18.2
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPK 175 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 175 (227)
++.|..||..|..-+... .--|+.|+.
T Consensus 2 pH~CtrCG~vf~~g~~~i----------l~GCp~CG~ 28 (112)
T COG3364 2 PHQCTRCGEVFDDGSEEI----------LSGCPKCGC 28 (112)
T ss_pred CceecccccccccccHHH----------HccCccccc
Confidence 578999999988854322 125777773
No 130
>KOG2482|consensus
Probab=54.56 E-value=17 Score=29.04 Aligned_cols=23 Identities=26% Similarity=0.664 Sum_probs=17.2
Q ss_pred cccccccccccCchhHHHhhhcc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHR 218 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~ 218 (227)
+.|-.|.+.|..+..|+.|++.+
T Consensus 196 ~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred heeeeeccccCCcHHHHHHHHhc
Confidence 67777888888888888887643
No 131
>PF14353 CpXC: CpXC protein
Probab=53.89 E-value=1.4 Score=29.95 Aligned_cols=13 Identities=23% Similarity=0.669 Sum_probs=8.0
Q ss_pred cccCcCccccCCh
Q psy16147 140 FLCDQCDKVFAKH 152 (227)
Q Consensus 140 ~~C~~C~~~f~~~ 152 (227)
..||.|+..|...
T Consensus 2 itCP~C~~~~~~~ 14 (128)
T PF14353_consen 2 ITCPHCGHEFEFE 14 (128)
T ss_pred cCCCCCCCeeEEE
Confidence 3577777766443
No 132
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=53.04 E-value=4 Score=20.91 Aligned_cols=30 Identities=23% Similarity=0.731 Sum_probs=16.5
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCC
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVEC 173 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C 173 (227)
..||.|+..- .+..|=+...|...|.|..|
T Consensus 6 v~CP~C~s~~----~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQSTE----GVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCC----cceeCCCCCCCCEeEecCcC
Confidence 3577776652 13334344445566777766
No 133
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.06 E-value=5.5 Score=24.08 Aligned_cols=33 Identities=18% Similarity=0.496 Sum_probs=20.0
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
..|.|..|+..| ++.+++. .+..-.|+.|+..+
T Consensus 11 Y~Y~c~~cg~~~----dvvq~~~---ddplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRF----DVVQAMT---DDPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHH----HHHHhcc---cCccccChhhChHH
Confidence 457888888765 4455544 22334677777644
No 134
>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=51.96 E-value=6.6 Score=18.08 Aligned_cols=10 Identities=30% Similarity=0.700 Sum_probs=7.9
Q ss_pred CccccCcCcc
Q psy16147 138 GQFLCDQCDK 147 (227)
Q Consensus 138 ~~~~C~~C~~ 147 (227)
..|.||.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4689999984
No 135
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=51.57 E-value=8.1 Score=21.44 Aligned_cols=11 Identities=18% Similarity=0.646 Sum_probs=6.9
Q ss_pred CCccCCCCCcc
Q psy16147 166 RPYKCVECPKA 176 (227)
Q Consensus 166 ~~~~C~~C~~~ 176 (227)
..+.|..|+..
T Consensus 36 ~r~~C~~Cgyt 46 (50)
T PRK00432 36 DRWHCGKCGYT 46 (50)
T ss_pred CcEECCCcCCE
Confidence 45667777654
No 136
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=51.47 E-value=6.1 Score=22.36 Aligned_cols=30 Identities=23% Similarity=0.523 Sum_probs=15.1
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
+.|+.||..+....... | ....|+.|+..+
T Consensus 3 ~~CP~CG~~iev~~~~~-------G-eiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPEL-------G-ELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCcc-------C-CEEeCCCCCCEE
Confidence 45677766554432210 1 244666666544
No 137
>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=50.97 E-value=8.1 Score=32.44 Aligned_cols=27 Identities=30% Similarity=0.551 Sum_probs=19.6
Q ss_pred cccccccccccCchhHHHhhhcccccc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHRYSYC 222 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~h~~~ 222 (227)
|.|+.|.+.|.....+..|+...|.+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 667777777877777777777666443
No 138
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=50.92 E-value=2.2 Score=22.38 Aligned_cols=9 Identities=33% Similarity=1.062 Sum_probs=4.1
Q ss_pred ccCCCCCcc
Q psy16147 168 YKCVECPKA 176 (227)
Q Consensus 168 ~~C~~C~~~ 176 (227)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 444444433
No 139
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=50.70 E-value=21 Score=18.80 Aligned_cols=25 Identities=20% Similarity=0.394 Sum_probs=16.8
Q ss_pred ccccCcCccccCCh--hHHHhHHhhhc
Q psy16147 139 QFLCDQCDKVFAKH--SSLARHKYEHS 163 (227)
Q Consensus 139 ~~~C~~C~~~f~~~--~~l~~H~~~h~ 163 (227)
.-.|+.||..|... .+-..|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 35799999776554 55666766653
No 140
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=50.40 E-value=12 Score=30.95 Aligned_cols=33 Identities=15% Similarity=0.543 Sum_probs=23.1
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchh
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHH 182 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 182 (227)
...|+.||.+..+ .|..-|+|+.|+..+.....
T Consensus 350 ~p~Cp~Cg~~m~S-----------~G~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 350 NPVCPRCGGRMKS-----------AGRNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCCCccCCchhh-----------cCCCCcccccccccCCcccc
Confidence 3579999986433 34458999999988775543
No 141
>KOG1842|consensus
Probab=49.79 E-value=13 Score=30.77 Aligned_cols=27 Identities=26% Similarity=0.347 Sum_probs=23.9
Q ss_pred CcccCCcchhhhcChhHHHHHHHhccc
Q psy16147 40 GQFLCDQCDKVFAKHSSLARHKYEHSV 66 (227)
Q Consensus 40 ~~~~C~~C~~~f~~~~~L~~H~~~h~~ 66 (227)
..|.|++|...|.+...|..|+..-|.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcc
Confidence 569999999999999999999987443
No 142
>KOG4727|consensus
Probab=48.83 E-value=13 Score=26.45 Aligned_cols=26 Identities=27% Similarity=0.561 Sum_probs=22.8
Q ss_pred CCCcccCCcchhhhcChhHHHHHHHh
Q psy16147 38 GEGQFLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 38 ~~~~~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
....|-|.+|+-+|+...|+.-|++.
T Consensus 72 q~~GyyCdVCdcvvKDSinflDHiNg 97 (193)
T KOG4727|consen 72 QKGGYYCDVCDCVVKDSINFLDHING 97 (193)
T ss_pred ccCceeeeecceeehhhHHHHHHhcc
Confidence 45679999999999999999999873
No 143
>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=48.80 E-value=8.1 Score=29.52 Aligned_cols=76 Identities=24% Similarity=0.494 Sum_probs=42.4
Q ss_pred CCCCccccCcCccccCChhHHHhHHhhhc--CCCCccCCCCCc-----------ccCCchhHHHHHhh----ccCCCCcc
Q psy16147 135 SGEGQFLCDQCDKVFAKHSSLARHKYEHS--GQRPYKCVECPK-----------AFKHKHHLTEHKRL----HSGEKPFQ 197 (227)
Q Consensus 135 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~-----------~f~~~~~l~~H~~~----h~~~~~~~ 197 (227)
.+.+.|.|..|....---++ -.|+.+-. ....|+|.-|.+ -|.. .|.+. -...+++.
T Consensus 138 hGGrif~CsfC~~flCEDDQ-FEHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK~cfCd-----dHvrrKg~ky~k~k~~P 211 (314)
T PF06524_consen 138 HGGRIFKCSFCDNFLCEDDQ-FEHQASCQVLESETFKCQSCNRLGQYSCLRCKICFCD-----DHVRRKGFKYEKGKPIP 211 (314)
T ss_pred CCCeEEEeecCCCeeeccch-hhhhhhhhhhhcccccccccccccchhhhheeeeehh-----hhhhhcccccccCCCCC
Confidence 45578999999875444333 34554321 234555555443 3332 23322 22347899
Q ss_pred cccccccccCchhHHHhhh
Q psy16147 198 CCKCLKRFSHSGSYSQHMN 216 (227)
Q Consensus 198 C~~C~~~f~~~~~l~~H~~ 216 (227)
||.|+........|..-.+
T Consensus 212 CPKCg~et~eTkdLSmStR 230 (314)
T PF06524_consen 212 CPKCGYETQETKDLSMSTR 230 (314)
T ss_pred CCCCCCcccccccceeeee
Confidence 9999987766555554333
No 144
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=48.69 E-value=7.4 Score=20.41 Aligned_cols=17 Identities=18% Similarity=0.278 Sum_probs=8.7
Q ss_pred CccCCCCCcccCCchhH
Q psy16147 167 PYKCVECPKAFKHKHHL 183 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l 183 (227)
...|+.|+..+.....|
T Consensus 19 id~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGEL 35 (41)
T ss_pred EEECCCCCeEEccHHHH
Confidence 34555555555544444
No 145
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=48.52 E-value=7.8 Score=26.38 Aligned_cols=21 Identities=24% Similarity=0.548 Sum_probs=12.7
Q ss_pred cccccccccccCchhHHHhhhccc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
..|-.+|+.|.+ |++|+.+|+
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~ 97 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHY 97 (148)
T ss_pred EEEeccCcchHH---HHHHHhccc
Confidence 456666666654 666666554
No 146
>KOG2907|consensus
Probab=48.18 E-value=17 Score=23.95 Aligned_cols=11 Identities=36% Similarity=1.038 Sum_probs=6.1
Q ss_pred ccCCCCCcccC
Q psy16147 168 YKCVECPKAFK 178 (227)
Q Consensus 168 ~~C~~C~~~f~ 178 (227)
|.|+.|++.|+
T Consensus 103 YTC~kC~~k~~ 113 (116)
T KOG2907|consen 103 YTCPKCKYKFT 113 (116)
T ss_pred EEcCccceeee
Confidence 55655655554
No 147
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=48.09 E-value=4.5 Score=24.32 Aligned_cols=59 Identities=17% Similarity=0.321 Sum_probs=29.1
Q ss_pred ccccCcCccccCChh---HHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccccc
Q psy16147 139 QFLCDQCDKVFAKHS---SLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKRF 205 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~---~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 205 (227)
.++|+-|++.|+-.. ++..|-......+...|..|.....-... ..+ ..|.|++|+..|
T Consensus 10 ~~~~~cC~~~y~C~~CHde~~~H~~~~~~~~~v~Cg~C~~~~~~~~~-------~c~-~~~~C~~C~~~~ 71 (71)
T PF05495_consen 10 AIRFPCCGKYYPCRFCHDELEDHPFDRWPVKRVICGKCRTEQPIDEY-------SCG-ADYFCPICGLYF 71 (71)
T ss_dssp EEEETTTTEEESSHHHHHHCSSS---TTT--EEEETTT--EEES-SB-------TT---SEEETTTTEEE
T ss_pred EEECCcccCeecHHHHHHHhccCccccccccCeECCCCCCccChhhh-------hcC-CCccCcCcCCCC
Confidence 456777777776652 22333332333346778888876654433 111 457888887654
No 148
>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=47.58 E-value=8.2 Score=25.21 Aligned_cols=29 Identities=17% Similarity=0.588 Sum_probs=19.8
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCc
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHK 180 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 180 (227)
.||.|+..|.... ...|.|++|+..+...
T Consensus 4 ~CP~C~seytY~d-----------g~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHD-----------GTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEec-----------CCeeECcccccccccc
Confidence 5888887665442 3468888888777644
No 149
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.32 E-value=4.8 Score=30.14 Aligned_cols=8 Identities=25% Similarity=0.596 Sum_probs=5.9
Q ss_pred cccccccc
Q psy16147 196 FQCCKCLK 203 (227)
Q Consensus 196 ~~C~~C~~ 203 (227)
+.||.|.+
T Consensus 63 vvCP~C~y 70 (267)
T COG1655 63 VVCPICYY 70 (267)
T ss_pred EEcchhhH
Confidence 57888874
No 150
>COG1773 Rubredoxin [Energy production and conversion]
Probab=46.32 E-value=6.4 Score=22.31 Aligned_cols=11 Identities=27% Similarity=0.951 Sum_probs=8.7
Q ss_pred cccCCcchhhh
Q psy16147 41 QFLCDQCDKVF 51 (227)
Q Consensus 41 ~~~C~~C~~~f 51 (227)
.|+|..||+.|
T Consensus 3 ~~~C~~CG~vY 13 (55)
T COG1773 3 RWRCSVCGYVY 13 (55)
T ss_pred ceEecCCceEe
Confidence 57888888876
No 151
>PRK10220 hypothetical protein; Provisional
Probab=46.21 E-value=11 Score=24.71 Aligned_cols=30 Identities=20% Similarity=0.670 Sum_probs=20.9
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCch
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKH 181 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 181 (227)
.||.|+..|.... ...|.|++|+..+....
T Consensus 5 ~CP~C~seytY~d-----------~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 5 HCPKCNSEYTYED-----------NGMYICPECAHEWNDAE 34 (111)
T ss_pred cCCCCCCcceEcC-----------CCeEECCcccCcCCccc
Confidence 5888887765543 34688999987776553
No 152
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=45.62 E-value=4.8 Score=35.37 Aligned_cols=57 Identities=26% Similarity=0.606 Sum_probs=37.4
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCc-cCCCCCcccCCchhHHHHHhhccCCCCccccccccc
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPY-KCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLKR 204 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 204 (227)
.|+.||-+|+....|-.= +..+.-..| .|+.|...+.+..+ .|.|. .|..|+.||-.
T Consensus 125 ~CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~n----RRfHA--Qp~aCp~CGP~ 182 (750)
T COG0068 125 NCTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLN----RRFHA--QPIACPKCGPH 182 (750)
T ss_pred ccCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCccc----ccccc--ccccCcccCCC
Confidence 499999999887665432 112221222 69999998887765 44454 46799999853
No 153
>KOG2807|consensus
Probab=44.40 E-value=33 Score=27.33 Aligned_cols=25 Identities=16% Similarity=0.313 Sum_probs=16.4
Q ss_pred CCcccccccccccCchhHHHhhhcc
Q psy16147 194 KPFQCCKCLKRFSHSGSYSQHMNHR 218 (227)
Q Consensus 194 ~~~~C~~C~~~f~~~~~l~~H~~~~ 218 (227)
..|.|..|...|----+.-.|-..|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 3477788877777666666665533
No 154
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=43.74 E-value=9.6 Score=24.10 Aligned_cols=13 Identities=23% Similarity=0.682 Sum_probs=7.6
Q ss_pred CCccCCCCCcccC
Q psy16147 166 RPYKCVECPKAFK 178 (227)
Q Consensus 166 ~~~~C~~C~~~f~ 178 (227)
..|.|..|++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PTZ00255 53 GIWRCKGCKKTVA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 3466666666554
No 155
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=43.40 E-value=13 Score=24.64 Aligned_cols=27 Identities=26% Similarity=0.576 Sum_probs=17.5
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPK 175 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 175 (227)
+....|..||..|.... ..+.|+.|+.
T Consensus 68 p~~~~C~~Cg~~~~~~~------------~~~~CP~Cgs 94 (113)
T PRK12380 68 PAQAWCWDCSQVVEIHQ------------HDAQCPHCHG 94 (113)
T ss_pred CcEEEcccCCCEEecCC------------cCccCcCCCC
Confidence 34577888887765532 3356888874
No 156
>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=43.04 E-value=8.6 Score=24.35 Aligned_cols=13 Identities=23% Similarity=0.692 Sum_probs=7.5
Q ss_pred CCccCCCCCcccC
Q psy16147 166 RPYKCVECPKAFK 178 (227)
Q Consensus 166 ~~~~C~~C~~~f~ 178 (227)
..|.|..|+..|.
T Consensus 52 GIW~C~~C~~~~A 64 (91)
T TIGR00280 52 GIWTCRKCGAKFA 64 (91)
T ss_pred EEEEcCCCCCEEe
Confidence 3466666666554
No 157
>KOG2593|consensus
Probab=42.60 E-value=16 Score=30.17 Aligned_cols=39 Identities=15% Similarity=0.524 Sum_probs=24.9
Q ss_pred CCCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 136 GEGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 136 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
...-|.||.|++.|.....++-- -...-.|.|..|+...
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L~---~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQLL---DNETGEFHCENCGGEL 163 (436)
T ss_pred ccccccCCccccchhhhHHHHhh---cccCceEEEecCCCch
Confidence 34568888888888777665432 2223467888887553
No 158
>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=41.77 E-value=30 Score=18.61 Aligned_cols=8 Identities=38% Similarity=1.352 Sum_probs=4.0
Q ss_pred cccCcCcc
Q psy16147 140 FLCDQCDK 147 (227)
Q Consensus 140 ~~C~~C~~ 147 (227)
+.||.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 44555554
No 159
>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=41.64 E-value=18 Score=21.32 Aligned_cols=31 Identities=19% Similarity=0.502 Sum_probs=18.9
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHK 180 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 180 (227)
-.|+.||..-.. ....+.|.|+.|+..+...
T Consensus 29 q~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 29 QTCPRCGHRNKK----------RRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred cCccCccccccc----------ccccceEEcCCCCCEECcH
Confidence 357888776433 1234567888888765544
No 160
>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=40.86 E-value=6.2 Score=24.92 Aligned_cols=10 Identities=50% Similarity=1.265 Sum_probs=4.9
Q ss_pred ccCCCCCccc
Q psy16147 168 YKCVECPKAF 177 (227)
Q Consensus 168 ~~C~~C~~~f 177 (227)
|.|..|+..|
T Consensus 54 W~C~~C~~~~ 63 (90)
T PF01780_consen 54 WKCKKCGKKF 63 (90)
T ss_dssp EEETTTTEEE
T ss_pred eecCCCCCEE
Confidence 4555555444
No 161
>KOG0717|consensus
Probab=40.65 E-value=14 Score=30.94 Aligned_cols=22 Identities=27% Similarity=0.641 Sum_probs=20.2
Q ss_pred ccCCcchhhhcChhHHHHHHHh
Q psy16147 42 FLCDQCDKVFAKHSSLARHKYE 63 (227)
Q Consensus 42 ~~C~~C~~~f~~~~~L~~H~~~ 63 (227)
+.|-+|++.|++...|.+|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999764
No 162
>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=40.38 E-value=9.3 Score=20.25 Aligned_cols=10 Identities=20% Similarity=0.544 Sum_probs=4.8
Q ss_pred CccCCCCCcc
Q psy16147 167 PYKCVECPKA 176 (227)
Q Consensus 167 ~~~C~~C~~~ 176 (227)
-+.|..||..
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 3566666544
No 163
>KOG4173|consensus
Probab=40.15 E-value=6.5 Score=28.89 Aligned_cols=52 Identities=29% Similarity=0.576 Sum_probs=41.3
Q ss_pred cccCcCccccCChhHHHhHHhhhc----------CCCCccCCC--CCcccCCchhHHHHHhh-cc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHS----------GQRPYKCVE--CPKAFKHKHHLTEHKRL-HS 191 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~----------~~~~~~C~~--C~~~f~~~~~l~~H~~~-h~ 191 (227)
..|..|.+.|++..-|..|+..-+ |...|+|-+ |+..|.+...-..|+.. |.
T Consensus 107 ~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 107 NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 379999999999999999976433 345689955 99999999888888654 53
No 164
>KOG0717|consensus
Probab=39.76 E-value=13 Score=31.10 Aligned_cols=24 Identities=25% Similarity=0.512 Sum_probs=21.5
Q ss_pred cccccccccccCchhHHHhhhccc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHRY 219 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~h 219 (227)
+-|.+|.++|.+...|..|..+.-
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKK 316 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKK 316 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHH
Confidence 789999999999999999987653
No 165
>KOG2636|consensus
Probab=39.50 E-value=19 Score=29.98 Aligned_cols=24 Identities=21% Similarity=0.560 Sum_probs=21.3
Q ss_pred CCcccCCcch-hhhcChhHHHHHHH
Q psy16147 39 EGQFLCDQCD-KVFAKHSSLARHKY 62 (227)
Q Consensus 39 ~~~~~C~~C~-~~f~~~~~L~~H~~ 62 (227)
...|.|.||| +++..+..+.+|-.
T Consensus 399 ~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 399 DIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CcccceeeccCccccCcHHHHHHhH
Confidence 4679999999 99999999999965
No 166
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=39.33 E-value=9.9 Score=27.94 Aligned_cols=24 Identities=13% Similarity=0.502 Sum_probs=0.0
Q ss_pred CCcccCCcch-hhhcChhHHHHHHH
Q psy16147 39 EGQFLCDQCD-KVFAKHSSLARHKY 62 (227)
Q Consensus 39 ~~~~~C~~C~-~~f~~~~~L~~H~~ 62 (227)
...|.|.||| .+|..+..+..|-.
T Consensus 99 ~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 99 GVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp -------------------------
T ss_pred CCeeeeEeCCCcceecHHHHHHhcC
Confidence 3569999998 66778888888854
No 167
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=39.29 E-value=7 Score=19.73 Aligned_cols=9 Identities=22% Similarity=0.508 Sum_probs=4.7
Q ss_pred CccCCCCCc
Q psy16147 167 PYKCVECPK 175 (227)
Q Consensus 167 ~~~C~~C~~ 175 (227)
.+.|+.|++
T Consensus 22 R~vC~~Cg~ 30 (34)
T PF14803_consen 22 RLVCPACGF 30 (34)
T ss_dssp EEEETTTTE
T ss_pred ceECCCCCC
Confidence 455555553
No 168
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=38.51 E-value=16 Score=24.32 Aligned_cols=28 Identities=18% Similarity=0.563 Sum_probs=17.6
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKA 176 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 176 (227)
+....|+.||..|.... ..+.|+.|+..
T Consensus 68 p~~~~C~~Cg~~~~~~~------------~~~~CP~Cgs~ 95 (115)
T TIGR00100 68 PVECECEDCSEEVSPEI------------DLYRCPKCHGI 95 (115)
T ss_pred CcEEEcccCCCEEecCC------------cCccCcCCcCC
Confidence 34577888887765532 13567777743
No 169
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=38.02 E-value=11 Score=26.30 Aligned_cols=18 Identities=28% Similarity=0.637 Sum_probs=12.7
Q ss_pred CCccCCCCCcccCCchhH
Q psy16147 166 RPYKCVECPKAFKHKHHL 183 (227)
Q Consensus 166 ~~~~C~~C~~~f~~~~~l 183 (227)
+.-.|..|++.|++....
T Consensus 27 RRReC~~C~~RFTTyErv 44 (147)
T TIGR00244 27 RRRECLECHERFTTFERA 44 (147)
T ss_pred ecccCCccCCccceeeec
Confidence 346788888888876543
No 170
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=37.97 E-value=1.2e+02 Score=24.22 Aligned_cols=24 Identities=29% Similarity=0.616 Sum_probs=11.6
Q ss_pred CccCCCCCcccCCchhHHHHHhhc
Q psy16147 167 PYKCVECPKAFKHKHHLTEHKRLH 190 (227)
Q Consensus 167 ~~~C~~C~~~f~~~~~l~~H~~~h 190 (227)
.|+|+.|...|...-....|..+|
T Consensus 388 rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 388 RYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceechhhhhhhhhhhHHHHHHHHh
Confidence 455555555555444444444443
No 171
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=37.64 E-value=13 Score=19.36 Aligned_cols=15 Identities=27% Similarity=0.824 Sum_probs=12.2
Q ss_pred cccCCcchhhhcChh
Q psy16147 41 QFLCDQCDKVFAKHS 55 (227)
Q Consensus 41 ~~~C~~C~~~f~~~~ 55 (227)
+|.|..|+..|-...
T Consensus 12 ~f~C~~C~~~FC~~H 26 (39)
T smart00154 12 GFKCRHCGNLFCGEH 26 (39)
T ss_pred CeECCccCCcccccc
Confidence 689999999886654
No 172
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=37.33 E-value=24 Score=28.06 Aligned_cols=12 Identities=25% Similarity=0.567 Sum_probs=8.6
Q ss_pred CccccCcCcccc
Q psy16147 138 GQFLCDQCDKVF 149 (227)
Q Consensus 138 ~~~~C~~C~~~f 149 (227)
..-.||+||..-
T Consensus 183 ~~~~CPvCGs~P 194 (305)
T TIGR01562 183 SRTLCPACGSPP 194 (305)
T ss_pred CCCcCCCCCChh
Confidence 345799999763
No 173
>KOG2593|consensus
Probab=36.99 E-value=32 Score=28.51 Aligned_cols=37 Identities=24% Similarity=0.519 Sum_probs=26.2
Q ss_pred CCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccc
Q psy16147 164 GQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLK 203 (227)
Q Consensus 164 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 203 (227)
....|.|+.|.+.|.....+.. +-.....|.|..|+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 3457999999999998776532 122234589999974
No 174
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=36.72 E-value=25 Score=19.68 Aligned_cols=12 Identities=17% Similarity=0.747 Sum_probs=6.8
Q ss_pred cccCcCccccCC
Q psy16147 140 FLCDQCDKVFAK 151 (227)
Q Consensus 140 ~~C~~C~~~f~~ 151 (227)
++|+.||..|..
T Consensus 29 W~C~~Cgh~w~~ 40 (55)
T PF14311_consen 29 WKCPKCGHEWKA 40 (55)
T ss_pred EECCCCCCeeEc
Confidence 556666655544
No 175
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=36.50 E-value=12 Score=23.71 Aligned_cols=13 Identities=23% Similarity=0.721 Sum_probs=7.4
Q ss_pred CCccCCCCCcccC
Q psy16147 166 RPYKCVECPKAFK 178 (227)
Q Consensus 166 ~~~~C~~C~~~f~ 178 (227)
..|.|..|+..|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PRK03976 53 GIWECRKCGAKFA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 3466666665554
No 176
>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=36.21 E-value=15 Score=27.49 Aligned_cols=29 Identities=21% Similarity=0.560 Sum_probs=22.1
Q ss_pred CCCCcccCCcchhhhcChhHHHHHHHhcc
Q psy16147 37 SGEGQFLCDQCDKVFAKHSSLARHKYEHS 65 (227)
Q Consensus 37 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 65 (227)
..+.-|.|..|++.|+-..-.+.|+..-|
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH 101 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKH 101 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcC
Confidence 34556999999999999999999998733
No 177
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=35.51 E-value=11 Score=26.23 Aligned_cols=13 Identities=31% Similarity=0.777 Sum_probs=7.3
Q ss_pred ccCCCCCcccCCc
Q psy16147 168 YKCVECPKAFKHK 180 (227)
Q Consensus 168 ~~C~~C~~~f~~~ 180 (227)
-.|..|+..|++-
T Consensus 29 ReC~~C~~RFTTf 41 (156)
T COG1327 29 RECLECGERFTTF 41 (156)
T ss_pred hcccccccccchh
Confidence 4566666665544
No 178
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=35.40 E-value=14 Score=20.57 Aligned_cols=11 Identities=18% Similarity=0.878 Sum_probs=7.5
Q ss_pred ccCCcchhhhc
Q psy16147 42 FLCDQCDKVFA 52 (227)
Q Consensus 42 ~~C~~C~~~f~ 52 (227)
|+|.+||+.+.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 67777777653
No 179
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=34.22 E-value=8 Score=21.17 Aligned_cols=14 Identities=14% Similarity=0.508 Sum_probs=9.4
Q ss_pred CCCccCCCCCcccC
Q psy16147 165 QRPYKCVECPKAFK 178 (227)
Q Consensus 165 ~~~~~C~~C~~~f~ 178 (227)
.....|+.|+..|.
T Consensus 12 ~~~i~C~~C~~~~H 25 (51)
T PF00628_consen 12 GDMIQCDSCNRWYH 25 (51)
T ss_dssp SSEEEBSTTSCEEE
T ss_pred CCeEEcCCCChhhC
Confidence 45567777777664
No 180
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=33.75 E-value=25 Score=18.16 Aligned_cols=23 Identities=26% Similarity=0.701 Sum_probs=9.8
Q ss_pred CcccCCcchhhhc-ChhHH-HHHHH
Q psy16147 40 GQFLCDQCDKVFA-KHSSL-ARHKY 62 (227)
Q Consensus 40 ~~~~C~~C~~~f~-~~~~L-~~H~~ 62 (227)
+.|-|+.|+..|. +..+- +.|.+
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT-
T ss_pred cCeecccccceecCCChHHHHHhhc
Confidence 3588999999994 44333 66754
No 181
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=33.67 E-value=28 Score=27.73 Aligned_cols=12 Identities=17% Similarity=0.520 Sum_probs=9.0
Q ss_pred CccccCcCcccc
Q psy16147 138 GQFLCDQCDKVF 149 (227)
Q Consensus 138 ~~~~C~~C~~~f 149 (227)
....||+||..-
T Consensus 186 ~~~~CPvCGs~P 197 (309)
T PRK03564 186 QRQFCPVCGSMP 197 (309)
T ss_pred CCCCCCCCCCcc
Confidence 456799999763
No 182
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.51 E-value=23 Score=23.19 Aligned_cols=26 Identities=15% Similarity=0.192 Sum_probs=14.7
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
.||.||+.|-.. +..|..|+.|+..|
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~ 36 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSY 36 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccc
Confidence 466666665432 23556666666666
No 183
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=32.72 E-value=16 Score=18.47 Aligned_cols=11 Identities=45% Similarity=1.078 Sum_probs=3.4
Q ss_pred ccCcCccccCC
Q psy16147 141 LCDQCDKVFAK 151 (227)
Q Consensus 141 ~C~~C~~~f~~ 151 (227)
.|..|++.|..
T Consensus 5 ~C~eC~~~f~d 15 (34)
T PF01286_consen 5 KCDECGKPFMD 15 (34)
T ss_dssp E-TTT--EES-
T ss_pred hHhHhCCHHHH
Confidence 35555555443
No 184
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=32.09 E-value=23 Score=23.52 Aligned_cols=29 Identities=21% Similarity=0.620 Sum_probs=17.5
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKA 176 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 176 (227)
+....|..||..|..... ..+.|+.|+..
T Consensus 68 p~~~~C~~Cg~~~~~~~~-----------~~~~CP~Cgs~ 96 (114)
T PRK03681 68 EAECWCETCQQYVTLLTQ-----------RVRRCPQCHGD 96 (114)
T ss_pred CcEEEcccCCCeeecCCc-----------cCCcCcCcCCC
Confidence 345778888876644211 12568888843
No 185
>PRK12496 hypothetical protein; Provisional
Probab=31.95 E-value=21 Score=25.50 Aligned_cols=11 Identities=27% Similarity=0.709 Sum_probs=7.3
Q ss_pred ccCCCCCcccC
Q psy16147 168 YKCVECPKAFK 178 (227)
Q Consensus 168 ~~C~~C~~~f~ 178 (227)
|.|.-|++.|.
T Consensus 128 ~~C~gC~~~~~ 138 (164)
T PRK12496 128 KVCKGCKKKYP 138 (164)
T ss_pred EECCCCCcccc
Confidence 56777776664
No 186
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.67 E-value=23 Score=23.65 Aligned_cols=16 Identities=25% Similarity=0.727 Sum_probs=10.9
Q ss_pred CCccccCcCccccCCh
Q psy16147 137 EGQFLCDQCDKVFAKH 152 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~ 152 (227)
+..+.|..||..|...
T Consensus 69 p~~~~C~~Cg~~~~~~ 84 (117)
T PRK00564 69 KVELECKDCSHVFKPN 84 (117)
T ss_pred CCEEEhhhCCCccccC
Confidence 3457788888776553
No 187
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=30.75 E-value=2.1 Score=22.36 Aligned_cols=7 Identities=43% Similarity=1.350 Sum_probs=2.8
Q ss_pred ccCCCCC
Q psy16147 168 YKCVECP 174 (227)
Q Consensus 168 ~~C~~C~ 174 (227)
|.|..|+
T Consensus 29 y~C~~C~ 35 (39)
T PF01096_consen 29 YVCCNCG 35 (39)
T ss_dssp EEESSST
T ss_pred EEeCCCC
Confidence 3444443
No 188
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=30.74 E-value=25 Score=23.29 Aligned_cols=27 Identities=19% Similarity=0.605 Sum_probs=16.2
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcc
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKA 176 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 176 (227)
....|..||..|..... .+.|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEF------------DFSCPRCGSP 95 (113)
T ss_dssp -EEEETTTS-EEECHHC------------CHH-SSSSSS
T ss_pred CcEECCCCCCEEecCCC------------CCCCcCCcCC
Confidence 45778888888866432 2568888754
No 189
>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=30.73 E-value=9.2 Score=21.34 Aligned_cols=26 Identities=19% Similarity=0.515 Sum_probs=16.7
Q ss_pred CCcccCCcchhhhcChhHHHHHHHhc
Q psy16147 39 EGQFLCDQCDKVFAKHSSLARHKYEH 64 (227)
Q Consensus 39 ~~~~~C~~C~~~f~~~~~L~~H~~~h 64 (227)
...|+|+.|...|-..-.+-.|..+|
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CCeEECCCCCCccccCcChhhhcccc
Confidence 46799999999999998888887777
No 190
>PRK04023 DNA polymerase II large subunit; Validated
Probab=30.60 E-value=70 Score=29.95 Aligned_cols=9 Identities=22% Similarity=0.807 Sum_probs=4.3
Q ss_pred ccCCCCCcc
Q psy16147 168 YKCVECPKA 176 (227)
Q Consensus 168 ~~C~~C~~~ 176 (227)
+.|+.|++.
T Consensus 664 y~CPKCG~E 672 (1121)
T PRK04023 664 DECEKCGRE 672 (1121)
T ss_pred CcCCCCCCC
Confidence 345555544
No 191
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=30.22 E-value=19 Score=19.86 Aligned_cols=16 Identities=25% Similarity=0.661 Sum_probs=11.6
Q ss_pred CCCcccccccccccCc
Q psy16147 193 EKPFQCCKCLKRFSHS 208 (227)
Q Consensus 193 ~~~~~C~~C~~~f~~~ 208 (227)
++.+.|..||..|...
T Consensus 2 Dk~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFT 17 (49)
T ss_pred CeeEEcccCCCeEEEe
Confidence 4567888898877643
No 192
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=29.18 E-value=20 Score=20.02 Aligned_cols=12 Identities=17% Similarity=0.443 Sum_probs=6.1
Q ss_pred ccccccccccCc
Q psy16147 197 QCCKCLKRFSHS 208 (227)
Q Consensus 197 ~C~~C~~~f~~~ 208 (227)
.||+|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 889999888744
No 193
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=29.17 E-value=44 Score=18.99 Aligned_cols=13 Identities=15% Similarity=0.588 Sum_probs=7.6
Q ss_pred CCCccCCCCCccc
Q psy16147 165 QRPYKCVECPKAF 177 (227)
Q Consensus 165 ~~~~~C~~C~~~f 177 (227)
.-.|.|+.||..+
T Consensus 12 ~v~~~Cp~cGipt 24 (55)
T PF13824_consen 12 HVNFECPDCGIPT 24 (55)
T ss_pred ccCCcCCCCCCcC
Confidence 3456666666443
No 194
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=28.97 E-value=32 Score=27.66 Aligned_cols=25 Identities=24% Similarity=0.454 Sum_probs=21.4
Q ss_pred CCCcccCCcch-hhhcChhHHHHHHH
Q psy16147 38 GEGQFLCDQCD-KVFAKHSSLARHKY 62 (227)
Q Consensus 38 ~~~~~~C~~C~-~~f~~~~~L~~H~~ 62 (227)
-.+.|.|.+|| +++-.+..+..|-.
T Consensus 371 Ld~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 371 LDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred CCcceeeeecccccccchHHHHhhhh
Confidence 45779999999 89999999998864
No 195
>PF14369 zf-RING_3: zinc-finger
Probab=28.90 E-value=45 Score=16.86 Aligned_cols=8 Identities=38% Similarity=1.119 Sum_probs=3.8
Q ss_pred CCCCCccc
Q psy16147 170 CVECPKAF 177 (227)
Q Consensus 170 C~~C~~~f 177 (227)
|+.|+.+|
T Consensus 24 CP~C~~gF 31 (35)
T PF14369_consen 24 CPRCHGGF 31 (35)
T ss_pred CcCCCCcE
Confidence 44444444
No 196
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=28.72 E-value=24 Score=24.71 Aligned_cols=7 Identities=29% Similarity=0.890 Sum_probs=3.5
Q ss_pred ccCCCCC
Q psy16147 168 YKCVECP 174 (227)
Q Consensus 168 ~~C~~C~ 174 (227)
|.|..|+
T Consensus 113 l~C~~Cg 119 (146)
T PF07295_consen 113 LVCENCG 119 (146)
T ss_pred EecccCC
Confidence 4455554
No 197
>KOG4167|consensus
Probab=28.54 E-value=5.2 Score=35.18 Aligned_cols=27 Identities=30% Similarity=0.422 Sum_probs=20.7
Q ss_pred CcccccccccccCchhHHHhhhccccc
Q psy16147 195 PFQCCKCLKRFSHSGSYSQHMNHRYSY 221 (227)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~~h~~ 221 (227)
-|.|..|++.|.-..++..|+++|.-.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 478888888888888888888876533
No 198
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.50 E-value=24 Score=30.30 Aligned_cols=10 Identities=30% Similarity=0.643 Sum_probs=6.6
Q ss_pred CCcccccccc
Q psy16147 194 KPFQCCKCLK 203 (227)
Q Consensus 194 ~~~~C~~C~~ 203 (227)
-|..|+.|+.
T Consensus 252 ~~~~Cp~C~s 261 (505)
T TIGR00595 252 IPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCC
Confidence 3567777765
No 199
>KOG1280|consensus
Probab=28.31 E-value=59 Score=26.21 Aligned_cols=21 Identities=19% Similarity=0.409 Sum_probs=10.3
Q ss_pred ccccCcCccccCChhHHHhHH
Q psy16147 139 QFLCDQCDKVFAKHSSLARHK 159 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~ 159 (227)
.|.|+.|+..=.+...+..|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv 99 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHV 99 (381)
T ss_pred cccCCcccccccchhHHHHHh
Confidence 455555554444444444443
No 200
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.30 E-value=19 Score=19.62 Aligned_cols=15 Identities=27% Similarity=0.618 Sum_probs=10.0
Q ss_pred ccccccccccCchhH
Q psy16147 197 QCCKCLKRFSHSGSY 211 (227)
Q Consensus 197 ~C~~C~~~f~~~~~l 211 (227)
.|++|++-|.++...
T Consensus 14 ICpvCqRPFsWRkKW 28 (54)
T COG4338 14 ICPVCQRPFSWRKKW 28 (54)
T ss_pred hhhhhcCchHHHHHH
Confidence 577777777766443
No 201
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=28.12 E-value=23 Score=19.39 Aligned_cols=13 Identities=23% Similarity=0.777 Sum_probs=7.3
Q ss_pred cccCcCccccCCh
Q psy16147 140 FLCDQCDKVFAKH 152 (227)
Q Consensus 140 ~~C~~C~~~f~~~ 152 (227)
|+|.+|+..+-..
T Consensus 2 y~C~~CgyvYd~~ 14 (47)
T PF00301_consen 2 YQCPVCGYVYDPE 14 (47)
T ss_dssp EEETTTSBEEETT
T ss_pred cCCCCCCEEEcCC
Confidence 5566666655443
No 202
>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=27.20 E-value=32 Score=20.20 Aligned_cols=27 Identities=26% Similarity=0.543 Sum_probs=11.0
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
-.|..|++.|... .+.+-|..||..|-
T Consensus 10 ~~C~~C~~~F~~~------------~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 10 SNCMICGKKFSLF------------RRRHHCRNCGRVVC 36 (69)
T ss_dssp SB-TTT--B-BSS------------S-EEE-TTT--EEE
T ss_pred CcCcCcCCcCCCc------------eeeEccCCCCCEEC
Confidence 4588888888542 23455666666554
No 203
>KOG4124|consensus
Probab=27.14 E-value=16 Score=29.23 Aligned_cols=28 Identities=14% Similarity=-0.065 Sum_probs=21.1
Q ss_pred CCCcccCCcchhhhcChhHHHHH-HHhccc
Q psy16147 38 GEGQFLCDQCDKVFAKHSSLARH-KYEHSV 66 (227)
Q Consensus 38 ~~~~~~C~~C~~~f~~~~~L~~H-~~~h~~ 66 (227)
..++|.| .|++.+.+...|..| +..|.+
T Consensus 210 ~~~p~k~-~~~~~~~T~~~l~~HS~N~~~~ 238 (442)
T KOG4124|consen 210 TGTPKKM-PESLVMDTSSPLSDHSMNIDVG 238 (442)
T ss_pred ccCCccC-cccccccccchhhhccccCCCC
Confidence 4578888 689999999998888 344543
No 204
>KOG1280|consensus
Probab=26.96 E-value=52 Score=26.48 Aligned_cols=40 Identities=15% Similarity=0.304 Sum_probs=29.9
Q ss_pred CCCCccCCCCCcccCCchhHHHHHhh-ccCCCC-cccccccc
Q psy16147 164 GQRPYKCVECPKAFKHKHHLTEHKRL-HSGEKP-FQCCKCLK 203 (227)
Q Consensus 164 ~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~-~~C~~C~~ 203 (227)
....|.|++|+.+-.+...|..|.-. |....+ ..|++|+.
T Consensus 76 ~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~ 117 (381)
T KOG1280|consen 76 DPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA 117 (381)
T ss_pred ccccccCCcccccccchhHHHHHhhhcCcccCcceeeecccc
Confidence 34589999999888888899999765 554332 56888863
No 205
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=26.77 E-value=22 Score=24.87 Aligned_cols=11 Identities=18% Similarity=0.905 Sum_probs=6.3
Q ss_pred ccccCcCcccc
Q psy16147 139 QFLCDQCDKVF 149 (227)
Q Consensus 139 ~~~C~~C~~~f 149 (227)
.|.|+.|+..+
T Consensus 123 ~~~C~~C~~~~ 133 (157)
T PF10263_consen 123 VYRCPSCGREY 133 (157)
T ss_pred EEEcCCCCCEe
Confidence 45566666554
No 206
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=26.68 E-value=17 Score=19.26 Aligned_cols=16 Identities=31% Similarity=0.690 Sum_probs=10.1
Q ss_pred CcccCCcchhhhcChh
Q psy16147 40 GQFLCDQCDKVFAKHS 55 (227)
Q Consensus 40 ~~~~C~~C~~~f~~~~ 55 (227)
-++.|..|+..|-...
T Consensus 12 ~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH 27 (43)
T ss_dssp SHEE-TTTS-EE-TTT
T ss_pred CCeECCCCCcccCccc
Confidence 3689999999986654
No 207
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=26.19 E-value=36 Score=23.24 Aligned_cols=17 Identities=24% Similarity=0.798 Sum_probs=11.5
Q ss_pred CCCcccCCcchhhhcCh
Q psy16147 38 GEGQFLCDQCDKVFAKH 54 (227)
Q Consensus 38 ~~~~~~C~~C~~~f~~~ 54 (227)
+...|.|..|++.|...
T Consensus 50 ~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 50 GHQRYKCKSCGSTFTVE 66 (129)
T ss_pred cccccccCCcCcceeee
Confidence 35667777777777554
No 208
>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=26.18 E-value=47 Score=28.11 Aligned_cols=27 Identities=26% Similarity=0.573 Sum_probs=22.6
Q ss_pred CccccCcCccccCChhHHHhHHhh-hcC
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYE-HSG 164 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~-h~~ 164 (227)
+-+.|+.|.+.|.....+..|+.. |.+
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 457899999999999999999864 443
No 209
>PRK04351 hypothetical protein; Provisional
Probab=25.90 E-value=33 Score=24.04 Aligned_cols=12 Identities=25% Similarity=0.910 Sum_probs=6.2
Q ss_pred CCccCCCCCccc
Q psy16147 166 RPYKCVECPKAF 177 (227)
Q Consensus 166 ~~~~C~~C~~~f 177 (227)
..|.|..|+..+
T Consensus 131 ~~yrCg~C~g~L 142 (149)
T PRK04351 131 KRYRCGKCRGKL 142 (149)
T ss_pred CcEEeCCCCcEe
Confidence 445555555443
No 210
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=25.68 E-value=14 Score=24.64 Aligned_cols=49 Identities=27% Similarity=0.480 Sum_probs=26.5
Q ss_pred ccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCchhHHHHHhhccCCCCcccccccc
Q psy16147 139 QFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHKHHLTEHKRLHSGEKPFQCCKCLK 203 (227)
Q Consensus 139 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 203 (227)
...|..|+..|....+ ....|..|...+-..=... ..++..|.|.+|.+
T Consensus 54 ~~~C~~C~~~fg~l~~-----------~~~~C~~C~~~VC~~C~~~-----~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFN-----------RGRVCVDCKHRVCKKCGVY-----SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTST-----------TCEEETTTTEEEETTSEEE-----TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCC-----------CCCcCCcCCccccCccCCc-----CCCCCCEEChhhHH
Confidence 4579999988765432 2245555554443332111 34566789999854
No 211
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=25.63 E-value=32 Score=18.08 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=9.7
Q ss_pred CccccCcCcccc
Q psy16147 138 GQFLCDQCDKVF 149 (227)
Q Consensus 138 ~~~~C~~C~~~f 149 (227)
++..|+.|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 467899999876
No 212
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=25.58 E-value=42 Score=23.36 Aligned_cols=17 Identities=18% Similarity=0.530 Sum_probs=11.1
Q ss_pred cccccccccccCchhHH
Q psy16147 196 FQCCKCLKRFSHSGSYS 212 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~ 212 (227)
|.|+.|++.|..=+.+.
T Consensus 125 ~~C~~C~kiyW~GsH~~ 141 (147)
T PF01927_consen 125 WRCPGCGKIYWEGSHWR 141 (147)
T ss_pred EECCCCCCEecccccHH
Confidence 67888887776544443
No 213
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=25.56 E-value=56 Score=18.13 Aligned_cols=27 Identities=30% Similarity=0.661 Sum_probs=15.3
Q ss_pred ccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCC
Q psy16147 141 LCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKH 179 (227)
Q Consensus 141 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 179 (227)
.|..|++.|... .+.+.|..|+..|-.
T Consensus 4 ~C~~C~~~F~~~------------~rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 4 SCMGCGKPFTLT------------RRRHHCRNCGRIFCS 30 (57)
T ss_pred cCcccCccccCC------------ccccccCcCcCCcCh
Confidence 477777776652 233456666655543
No 214
>KOG3507|consensus
Probab=24.84 E-value=27 Score=20.01 Aligned_cols=30 Identities=17% Similarity=0.460 Sum_probs=18.2
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
...|.|..|+..-... ....++|.+|+...
T Consensus 18 ~miYiCgdC~~en~lk-----------~~D~irCReCG~RI 47 (62)
T KOG3507|consen 18 TMIYICGDCGQENTLK-----------RGDVIRCRECGYRI 47 (62)
T ss_pred cEEEEecccccccccc-----------CCCcEehhhcchHH
Confidence 3458888887642111 23467888888654
No 215
>PRK14873 primosome assembly protein PriA; Provisional
Probab=24.06 E-value=31 Score=30.81 Aligned_cols=10 Identities=20% Similarity=0.746 Sum_probs=7.4
Q ss_pred Cccccccccc
Q psy16147 195 PFQCCKCLKR 204 (227)
Q Consensus 195 ~~~C~~C~~~ 204 (227)
++.|+.|+..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 5688888754
No 216
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=23.84 E-value=38 Score=28.64 Aligned_cols=29 Identities=24% Similarity=0.480 Sum_probs=20.9
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCc
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHK 180 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 180 (227)
..|.|..||..+.. ..++|+.|+.+=+-.
T Consensus 6 ~~y~C~~Cg~~~~~--------------~~g~Cp~C~~w~t~~ 34 (454)
T TIGR00416 6 SKFVCQHCGADSPK--------------WQGKCPACHAWNTIT 34 (454)
T ss_pred CeEECCcCCCCCcc--------------ccEECcCCCCccccc
Confidence 35999999987544 346999998665443
No 217
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=23.79 E-value=66 Score=23.61 Aligned_cols=36 Identities=17% Similarity=0.345 Sum_probs=19.4
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCC
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKH 179 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 179 (227)
+.|+.|+ .-.....+ ++.-..+-.+.|..|+..+..
T Consensus 7 ~~Cp~Cg-~eev~hEV---ik~~g~~~lvrC~eCG~V~~~ 42 (201)
T COG1326 7 IECPSCG-SEEVSHEV---IKERGREPLVRCEECGTVHPA 42 (201)
T ss_pred EECCCCC-cchhhHHH---HHhcCCceEEEccCCCcEeec
Confidence 5688888 21111111 232233346788888877743
No 218
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=23.78 E-value=39 Score=21.98 Aligned_cols=10 Identities=20% Similarity=0.713 Sum_probs=6.6
Q ss_pred ccccCcCccc
Q psy16147 139 QFLCDQCDKV 148 (227)
Q Consensus 139 ~~~C~~C~~~ 148 (227)
|-.|+.||..
T Consensus 2 p~~CpYCg~~ 11 (102)
T PF11672_consen 2 PIICPYCGGP 11 (102)
T ss_pred CcccCCCCCe
Confidence 4567777754
No 219
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=23.74 E-value=19 Score=23.17 Aligned_cols=38 Identities=16% Similarity=0.406 Sum_probs=21.3
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
++.|.|+.||..-...-.+. .-.+.-...|..|+..|.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvk----k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVK----KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CceEecCccCCeeeeEEEEE----ecCceeEEEcccCcceEE
Confidence 46788999987644422211 111222357888887664
No 220
>KOG2932|consensus
Probab=23.73 E-value=49 Score=26.20 Aligned_cols=30 Identities=27% Similarity=0.555 Sum_probs=24.9
Q ss_pred cCCCCccccc---ccccccCchhHHHhhhcccc
Q psy16147 191 SGEKPFQCCK---CLKRFSHSGSYSQHMNHRYS 220 (227)
Q Consensus 191 ~~~~~~~C~~---C~~~f~~~~~l~~H~~~~h~ 220 (227)
.-...|-|.. |.++|....+|..|+..+|.
T Consensus 140 ~~g~iFmC~~~~GC~RTyLsqrDlqAHInhrH~ 172 (389)
T KOG2932|consen 140 MMGGIFMCAAPHGCLRTYLSQRDLQAHINHRHG 172 (389)
T ss_pred cccceEEeecchhHHHHHhhHHHHHHHhhhhhc
Confidence 3345588865 99999999999999998886
No 221
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.45 E-value=96 Score=22.49 Aligned_cols=16 Identities=13% Similarity=0.607 Sum_probs=7.8
Q ss_pred CccccCcCccccCChh
Q psy16147 138 GQFLCDQCDKVFAKHS 153 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~ 153 (227)
.-|.|+.|...|+.-.
T Consensus 112 ~~y~C~~~~~r~sfde 127 (176)
T COG1675 112 NYYVCPNCHVKYSFDE 127 (176)
T ss_pred CceeCCCCCCcccHHH
Confidence 3455555555444433
No 222
>KOG4118|consensus
Probab=23.18 E-value=41 Score=19.74 Aligned_cols=25 Identities=16% Similarity=0.620 Sum_probs=12.2
Q ss_pred cccccccccccCchhHHHhhhcccc
Q psy16147 196 FQCCKCLKRFSHSGSYSQHMNHRYS 220 (227)
Q Consensus 196 ~~C~~C~~~f~~~~~l~~H~~~~h~ 220 (227)
|.|.+|.........++.|....|+
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHp 63 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHP 63 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCC
Confidence 4455554444444445555544443
No 223
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=23.17 E-value=40 Score=18.63 Aligned_cols=9 Identities=22% Similarity=0.741 Sum_probs=5.4
Q ss_pred CccCCCCCc
Q psy16147 167 PYKCVECPK 175 (227)
Q Consensus 167 ~~~C~~C~~ 175 (227)
.|.|-.|+.
T Consensus 37 R~~CGkCgy 45 (51)
T COG1998 37 RWACGKCGY 45 (51)
T ss_pred eeEeccccc
Confidence 566666664
No 224
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=23.03 E-value=32 Score=17.62 Aligned_cols=12 Identities=17% Similarity=0.850 Sum_probs=6.4
Q ss_pred CcccCCcchhhh
Q psy16147 40 GQFLCDQCDKVF 51 (227)
Q Consensus 40 ~~~~C~~C~~~f 51 (227)
+.|.|.+||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 458899998654
No 225
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=22.73 E-value=45 Score=27.40 Aligned_cols=24 Identities=33% Similarity=0.656 Sum_probs=14.2
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCccc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAF 177 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 177 (227)
|.|..||..+.. ...+|+.|+.+=
T Consensus 1 ~~c~~cg~~~~~--------------~~g~cp~c~~w~ 24 (372)
T cd01121 1 YVCSECGYVSPK--------------WLGKCPECGEWN 24 (372)
T ss_pred CCCCCCCCCCCC--------------ccEECcCCCCce
Confidence 567777765433 234677776543
No 226
>KOG2636|consensus
Probab=22.58 E-value=61 Score=27.14 Aligned_cols=41 Identities=17% Similarity=0.300 Sum_probs=27.3
Q ss_pred ccCCchhHHHHHhhccCCCCccccccc-ccccCchhHHHhhh
Q psy16147 176 AFKHKHHLTEHKRLHSGEKPFQCCKCL-KRFSHSGSYSQHMN 216 (227)
Q Consensus 176 ~f~~~~~l~~H~~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 216 (227)
+........+--+.|.-...|.|.+|| +++.=+..+.+|..
T Consensus 382 GwDGkPiPyWLyKLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 382 GWDGKPIPYWLYKLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CCCCCcCchHHHhhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 333343344446677777788888888 77777777777763
No 227
>PRK11823 DNA repair protein RadA; Provisional
Probab=22.34 E-value=48 Score=27.99 Aligned_cols=28 Identities=21% Similarity=0.463 Sum_probs=20.1
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCC
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKH 179 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 179 (227)
..|.|..||..+.. .-++|+.|+.+=+-
T Consensus 6 ~~y~C~~Cg~~~~~--------------~~g~Cp~C~~w~t~ 33 (446)
T PRK11823 6 TAYVCQECGAESPK--------------WLGRCPECGAWNTL 33 (446)
T ss_pred CeEECCcCCCCCcc--------------cCeeCcCCCCccce
Confidence 46999999987544 34689999866443
No 228
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=22.28 E-value=32 Score=22.20 Aligned_cols=14 Identities=29% Similarity=0.615 Sum_probs=11.9
Q ss_pred CcccCCcchhhhcC
Q psy16147 40 GQFLCDQCDKVFAK 53 (227)
Q Consensus 40 ~~~~C~~C~~~f~~ 53 (227)
++++|..||..|.-
T Consensus 78 ~~~rC~eCG~~fkL 91 (97)
T cd00924 78 KPKRCPECGHVFKL 91 (97)
T ss_pred CceeCCCCCcEEEE
Confidence 78999999998853
No 229
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=21.82 E-value=47 Score=27.69 Aligned_cols=27 Identities=30% Similarity=0.599 Sum_probs=19.8
Q ss_pred CccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccC
Q psy16147 138 GQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFK 178 (227)
Q Consensus 138 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 178 (227)
..|.|..||..++.+.. +|+.|+.+-+
T Consensus 6 t~f~C~~CG~~s~KW~G--------------kCp~Cg~Wns 32 (456)
T COG1066 6 TAFVCQECGYVSPKWLG--------------KCPACGAWNT 32 (456)
T ss_pred cEEEcccCCCCCccccc--------------cCCCCCCccc
Confidence 56999999988655432 7999986543
No 230
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.71 E-value=59 Score=25.55 Aligned_cols=11 Identities=18% Similarity=0.625 Sum_probs=6.0
Q ss_pred ccCCCCCcccC
Q psy16147 168 YKCVECPKAFK 178 (227)
Q Consensus 168 ~~C~~C~~~f~ 178 (227)
|.|+.|...|.
T Consensus 256 yvCs~Clsi~C 266 (279)
T TIGR00627 256 FVCSVCLSVLC 266 (279)
T ss_pred EECCCccCCcC
Confidence 55555555544
No 231
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.57 E-value=46 Score=23.35 Aligned_cols=35 Identities=23% Similarity=0.667 Sum_probs=17.9
Q ss_pred CCccccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcc
Q psy16147 137 EGQFLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKA 176 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 176 (227)
..+|.|. |+..|.+.. +|-..-.|+ .|.|..|+..
T Consensus 115 ~~~Y~C~-C~q~~l~~R---Rhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 115 TYPYRCQ-CQQHYLRIR---RHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred ceeEEee-cCCccchhh---hcccccccc-eEEeccCCce
Confidence 3456677 776654432 232222233 5666666644
No 233
>PRK00420 hypothetical protein; Validated
Probab=21.51 E-value=58 Score=21.64 Aligned_cols=12 Identities=17% Similarity=0.221 Sum_probs=7.0
Q ss_pred CccCCCCCcccC
Q psy16147 167 PYKCVECPKAFK 178 (227)
Q Consensus 167 ~~~C~~C~~~f~ 178 (227)
...|+.|+....
T Consensus 40 ~~~Cp~Cg~~~~ 51 (112)
T PRK00420 40 EVVCPVHGKVYI 51 (112)
T ss_pred ceECCCCCCeee
Confidence 456676665443
No 234
>PRK05978 hypothetical protein; Provisional
Probab=21.39 E-value=39 Score=23.71 Aligned_cols=32 Identities=22% Similarity=0.423 Sum_probs=18.8
Q ss_pred cccCcCccccCChhHHHhHHhhhcCCCCccCCCCCcccCCc
Q psy16147 140 FLCDQCDKVFAKHSSLARHKYEHSGQRPYKCVECPKAFKHK 180 (227)
Q Consensus 140 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 180 (227)
-+||.||+.=....-| .-.-.|+.|+..|...
T Consensus 34 grCP~CG~G~LF~g~L---------kv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 34 GRCPACGEGKLFRAFL---------KPVDHCAACGEDFTHH 65 (148)
T ss_pred CcCCCCCCCccccccc---------ccCCCccccCCccccC
Confidence 4689998763332211 1233788888777644
No 235
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.39 E-value=34 Score=30.61 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=5.9
Q ss_pred CCcccccccc
Q psy16147 194 KPFQCCKCLK 203 (227)
Q Consensus 194 ~~~~C~~C~~ 203 (227)
-+..|+.|+.
T Consensus 420 ~~~~Cp~Cg~ 429 (679)
T PRK05580 420 IPKACPECGS 429 (679)
T ss_pred CCCCCCCCcC
Confidence 3456777754
No 236
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=21.39 E-value=23 Score=23.51 Aligned_cols=16 Identities=19% Similarity=0.561 Sum_probs=10.8
Q ss_pred CCcccCCcchhhhcCh
Q psy16147 39 EGQFLCDQCDKVFAKH 54 (227)
Q Consensus 39 ~~~~~C~~C~~~f~~~ 54 (227)
...+.|..||+.+...
T Consensus 20 ~~~l~C~kCgye~~~~ 35 (113)
T COG1594 20 GGKLVCRKCGYEEEAS 35 (113)
T ss_pred CcEEECCCCCcchhcc
Confidence 3468888888765444
No 237
>COG2879 Uncharacterized small protein [Function unknown]
Probab=21.15 E-value=1e+02 Score=18.06 Aligned_cols=20 Identities=10% Similarity=0.193 Sum_probs=15.4
Q ss_pred cCChhHHHhHHhhhcCCCCc
Q psy16147 149 FAKHSSLARHKYEHSGQRPY 168 (227)
Q Consensus 149 f~~~~~l~~H~~~h~~~~~~ 168 (227)
.+..++++.||+.++.+++.
T Consensus 22 vpdYdnYVehmr~~hPd~p~ 41 (65)
T COG2879 22 VPDYDNYVEHMRKKHPDKPP 41 (65)
T ss_pred CCcHHHHHHHHHHhCcCCCc
Confidence 45678899999988877663
No 238
>PTZ00448 hypothetical protein; Provisional
Probab=20.90 E-value=58 Score=26.54 Aligned_cols=23 Identities=22% Similarity=0.501 Sum_probs=0.0
Q ss_pred CcccccccccccCchhHHHhhhc
Q psy16147 195 PFQCCKCLKRFSHSGSYSQHMNH 217 (227)
Q Consensus 195 ~~~C~~C~~~f~~~~~l~~H~~~ 217 (227)
.|.|..|+-.|.+....+.|.++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
No 239
>PHA02998 RNA polymerase subunit; Provisional
Probab=20.78 E-value=22 Score=25.61 Aligned_cols=11 Identities=45% Similarity=1.002 Sum_probs=6.2
Q ss_pred ccCCCCCcccC
Q psy16147 168 YKCVECPKAFK 178 (227)
Q Consensus 168 ~~C~~C~~~f~ 178 (227)
|.|..|+..|.
T Consensus 172 YkC~~CG~~wk 182 (195)
T PHA02998 172 HACRDCKKHFK 182 (195)
T ss_pred EEcCCCCCccC
Confidence 55666665554
No 240
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.69 E-value=40 Score=22.76 Aligned_cols=15 Identities=13% Similarity=0.235 Sum_probs=9.8
Q ss_pred CCccccCcCccccCCh
Q psy16147 137 EGQFLCDQCDKVFAKH 152 (227)
Q Consensus 137 ~~~~~C~~C~~~f~~~ 152 (227)
+....| .||..|...
T Consensus 68 p~~~~C-~Cg~~~~~~ 82 (124)
T PRK00762 68 PVEIEC-ECGYEGVVD 82 (124)
T ss_pred CeeEEe-eCcCccccc
Confidence 345778 888776554
No 241
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=20.61 E-value=31 Score=25.87 Aligned_cols=12 Identities=25% Similarity=0.755 Sum_probs=6.7
Q ss_pred Cccccccccccc
Q psy16147 195 PFQCCKCLKRFS 206 (227)
Q Consensus 195 ~~~C~~C~~~f~ 206 (227)
+..|+.||..|.
T Consensus 181 pqRCpECGqVFK 192 (268)
T PTZ00043 181 LYRCGECDQIFM 192 (268)
T ss_pred CccCCCCCcEEE
Confidence 455666655554
No 242
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.05 E-value=52 Score=22.82 Aligned_cols=11 Identities=18% Similarity=0.890 Sum_probs=6.2
Q ss_pred ccccCcCcccc
Q psy16147 139 QFLCDQCDKVF 149 (227)
Q Consensus 139 ~~~C~~C~~~f 149 (227)
.|.|..|+..+
T Consensus 112 ~y~C~~C~~~~ 122 (146)
T smart00731 112 PYRCTGCGQRY 122 (146)
T ss_pred EEECCCCCCCC
Confidence 45566666554
Done!