Query psy9959
Match_columns 330
No_of_seqs 443 out of 3388
Neff 10.0
Searched_HMMs 46136
Date Sat Aug 17 00:01:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9959.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9959hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 4E-33 8.7E-38 227.8 7.0 131 183-329 129-262 (279)
2 KOG2462|consensus 100.0 1.7E-31 3.6E-36 218.4 6.1 137 152-304 126-265 (279)
3 KOG1074|consensus 99.9 3.6E-28 7.9E-33 223.9 7.1 57 213-270 606-662 (958)
4 KOG3623|consensus 99.9 4.3E-25 9.4E-30 200.5 1.2 108 155-263 209-331 (1007)
5 KOG3608|consensus 99.9 1.7E-23 3.8E-28 175.7 4.7 158 156-329 207-371 (467)
6 KOG3608|consensus 99.9 6.1E-22 1.3E-26 166.5 6.7 158 156-329 177-340 (467)
7 KOG1074|consensus 99.8 5.1E-22 1.1E-26 183.6 1.5 76 241-329 605-687 (958)
8 KOG3576|consensus 99.8 1.7E-19 3.6E-24 140.7 2.7 117 154-270 115-241 (267)
9 KOG3623|consensus 99.8 1.8E-19 3.8E-24 164.4 3.1 117 213-329 211-328 (1007)
10 KOG3576|consensus 99.8 2.3E-19 4.9E-24 140.0 2.7 126 181-310 114-240 (267)
11 PLN03086 PRLI-interacting fact 99.5 7.3E-14 1.6E-18 128.8 9.0 135 157-323 408-554 (567)
12 PLN03086 PRLI-interacting fact 99.3 2.9E-12 6.2E-17 118.4 5.9 117 158-305 435-563 (567)
13 PHA02768 hypothetical protein; 99.3 2.2E-12 4.8E-17 80.2 1.7 45 282-328 5-49 (55)
14 PHA00733 hypothetical protein 99.2 8.6E-12 1.9E-16 94.4 5.2 83 210-307 38-124 (128)
15 PHA00733 hypothetical protein 99.2 3.3E-11 7.2E-16 91.2 5.2 84 181-267 37-125 (128)
16 KOG3993|consensus 99.1 3.9E-12 8.4E-17 110.3 -2.4 113 153-266 264-381 (500)
17 PF13465 zf-H2C2_2: Zinc-finge 99.0 2.6E-10 5.7E-15 60.7 1.4 26 297-322 1-26 (26)
18 PHA02768 hypothetical protein; 98.9 5.9E-10 1.3E-14 69.4 2.1 42 242-298 6-47 (55)
19 PHA00616 hypothetical protein 98.8 1.6E-09 3.5E-14 64.1 1.7 36 282-317 1-36 (44)
20 KOG3993|consensus 98.6 4E-09 8.8E-14 91.9 -0.8 28 153-180 292-319 (500)
21 PHA00732 hypothetical protein 98.6 2.6E-08 5.6E-13 68.3 2.5 42 282-329 1-43 (79)
22 PHA00732 hypothetical protein 98.5 7.9E-08 1.7E-12 65.9 3.0 21 242-262 2-22 (79)
23 PF13465 zf-H2C2_2: Zinc-finge 98.5 1.1E-07 2.4E-12 50.5 2.7 24 172-195 2-25 (26)
24 PF05605 zf-Di19: Drought indu 98.4 5.6E-07 1.2E-11 57.3 4.5 52 212-266 2-54 (54)
25 PHA00616 hypothetical protein 98.4 2E-07 4.3E-12 55.2 2.1 30 241-270 1-30 (44)
26 PF05605 zf-Di19: Drought indu 98.4 7.5E-07 1.6E-11 56.8 4.7 53 241-307 2-54 (54)
27 PF00096 zf-C2H2: Zinc finger, 98.2 8.5E-07 1.8E-11 45.7 1.9 23 283-305 1-23 (23)
28 COG5189 SFP1 Putative transcri 98.0 1.5E-06 3.3E-11 73.3 1.4 52 279-330 346-418 (423)
29 PF00096 zf-C2H2: Zinc finger, 98.0 5.1E-06 1.1E-10 42.8 2.3 23 242-264 1-23 (23)
30 PF13894 zf-C2H2_4: C2H2-type 98.0 5.2E-06 1.1E-10 43.1 2.1 24 283-306 1-24 (24)
31 PF12756 zf-C2H2_2: C2H2 type 97.9 8.2E-06 1.8E-10 59.3 3.0 22 283-304 51-72 (100)
32 PF13912 zf-C2H2_6: C2H2-type 97.8 9.7E-06 2.1E-10 43.5 1.8 26 282-307 1-26 (27)
33 PF12756 zf-C2H2_2: C2H2 type 97.8 1.8E-05 3.9E-10 57.5 2.8 73 186-264 1-73 (100)
34 COG5189 SFP1 Putative transcri 97.7 7.9E-06 1.7E-10 69.1 0.4 26 278-303 394-419 (423)
35 PF13894 zf-C2H2_4: C2H2-type 97.7 3E-05 6.4E-10 40.2 2.5 24 242-265 1-24 (24)
36 KOG2231|consensus 97.7 7.2E-05 1.6E-09 70.8 5.8 47 214-265 184-236 (669)
37 PF09237 GAGA: GAGA factor; I 97.6 4.3E-05 9.3E-10 46.3 2.4 41 229-269 12-52 (54)
38 PF09237 GAGA: GAGA factor; I 97.6 5.4E-05 1.2E-09 45.8 2.8 32 279-310 21-52 (54)
39 PF13912 zf-C2H2_6: C2H2-type 97.5 3.7E-05 8.1E-10 41.2 1.2 25 241-265 1-25 (27)
40 smart00355 ZnF_C2H2 zinc finge 97.4 0.00012 2.7E-09 38.5 2.4 24 283-306 1-24 (26)
41 COG5048 FOG: Zn-finger [Genera 97.4 5.3E-05 1.1E-09 70.4 1.0 155 156-321 289-457 (467)
42 PRK04860 hypothetical protein; 97.4 9.1E-05 2E-09 58.2 1.9 39 282-324 119-157 (160)
43 KOG1146|consensus 97.3 0.0001 2.2E-09 73.8 1.6 141 188-328 440-636 (1406)
44 KOG2231|consensus 97.2 0.00059 1.3E-08 64.8 5.9 121 157-314 100-240 (669)
45 PF12874 zf-met: Zinc-finger o 97.1 0.00028 6.1E-09 36.9 1.4 23 283-305 1-23 (25)
46 PF13909 zf-H2C2_5: C2H2-type 97.1 0.00034 7.3E-09 36.2 1.6 24 283-307 1-24 (24)
47 smart00355 ZnF_C2H2 zinc finge 97.0 0.0007 1.5E-08 35.4 2.6 24 242-265 1-24 (26)
48 COG5236 Uncharacterized conser 96.8 0.0022 4.7E-08 55.3 5.3 125 157-305 152-304 (493)
49 KOG1146|consensus 96.8 0.00054 1.2E-08 68.9 1.9 116 215-330 439-609 (1406)
50 PF13909 zf-H2C2_5: C2H2-type 96.6 0.0019 4.1E-08 33.3 2.2 23 242-265 1-23 (24)
51 PF12171 zf-C2H2_jaz: Zinc-fin 96.4 0.00074 1.6E-08 36.1 -0.0 22 283-304 2-23 (27)
52 PF12874 zf-met: Zinc-finger o 96.4 0.0017 3.6E-08 33.9 1.2 23 242-264 1-23 (25)
53 PRK04860 hypothetical protein; 96.1 0.0024 5.2E-08 50.3 1.1 38 212-254 119-156 (160)
54 COG5048 FOG: Zn-finger [Genera 95.8 0.002 4.3E-08 59.8 -0.5 138 183-329 288-437 (467)
55 COG5236 Uncharacterized conser 95.7 0.0074 1.6E-07 52.2 2.6 122 184-329 151-300 (493)
56 PF13913 zf-C2HC_2: zinc-finge 95.6 0.011 2.3E-07 30.8 2.1 21 283-304 3-23 (25)
57 PF12171 zf-C2H2_jaz: Zinc-fin 95.6 0.0079 1.7E-07 32.0 1.5 22 185-206 2-23 (27)
58 KOG2482|consensus 95.5 0.013 2.8E-07 50.6 3.4 147 155-305 143-357 (423)
59 KOG2785|consensus 95.4 0.03 6.5E-07 49.4 5.3 49 282-330 166-240 (390)
60 TIGR00622 ssl1 transcription f 95.0 0.029 6.3E-07 40.9 3.4 80 183-265 14-105 (112)
61 KOG2482|consensus 95.0 0.032 7E-07 48.3 4.2 48 283-330 280-354 (423)
62 smart00451 ZnF_U1 U1-like zinc 94.9 0.019 4.2E-07 32.5 1.9 23 282-304 3-25 (35)
63 KOG2893|consensus 94.8 0.013 2.8E-07 48.0 1.2 43 159-205 13-55 (341)
64 KOG2893|consensus 94.7 0.0061 1.3E-07 49.9 -0.9 43 215-262 13-55 (341)
65 PF13913 zf-C2HC_2: zinc-finge 94.7 0.034 7.5E-07 28.9 2.2 19 243-262 4-22 (25)
66 cd00350 rubredoxin_like Rubred 94.6 0.018 3.9E-07 32.3 1.1 25 283-319 2-26 (33)
67 KOG2785|consensus 94.5 0.081 1.8E-06 46.8 5.4 52 212-263 166-242 (390)
68 KOG4173|consensus 94.2 0.019 4.2E-07 46.0 1.0 46 185-233 80-127 (253)
69 TIGR00622 ssl1 transcription f 94.2 0.049 1.1E-06 39.7 2.9 96 185-317 2-110 (112)
70 PF12013 DUF3505: Protein of u 93.7 0.13 2.8E-06 37.9 4.5 26 282-307 80-109 (109)
71 PF09538 FYDLN_acid: Protein o 93.7 0.04 8.7E-07 40.3 1.7 30 283-323 10-39 (108)
72 KOG4173|consensus 93.4 0.029 6.3E-07 45.0 0.7 80 156-238 79-172 (253)
73 COG4049 Uncharacterized protei 93.0 0.05 1.1E-06 33.7 1.1 32 275-306 10-41 (65)
74 smart00451 ZnF_U1 U1-like zinc 93.0 0.076 1.6E-06 30.0 1.8 23 241-263 3-25 (35)
75 cd00729 rubredoxin_SM Rubredox 92.2 0.073 1.6E-06 30.0 1.1 26 282-319 2-27 (34)
76 PF12013 DUF3505: Protein of u 91.9 0.34 7.3E-06 35.7 4.6 25 242-266 81-109 (109)
77 TIGR02300 FYDLN_acid conserved 91.2 0.13 2.8E-06 38.2 1.7 30 283-323 10-39 (129)
78 COG4049 Uncharacterized protei 89.6 0.18 3.9E-06 31.3 1.1 26 238-263 14-39 (65)
79 KOG2186|consensus 89.0 0.2 4.4E-06 41.7 1.3 50 213-266 4-53 (276)
80 PF06524 NOA36: NOA36 protein; 88.8 0.32 6.9E-06 40.7 2.3 13 309-321 208-220 (314)
81 COG5151 SSL1 RNA polymerase II 88.5 0.29 6.3E-06 42.0 1.9 80 183-265 321-412 (421)
82 smart00531 TFIIE Transcription 87.9 0.26 5.6E-06 38.5 1.2 36 281-320 98-133 (147)
83 TIGR02098 MJ0042_CXXC MJ0042 f 87.8 0.21 4.6E-06 28.8 0.5 34 283-321 3-36 (38)
84 PF09538 FYDLN_acid: Protein o 87.7 0.44 9.5E-06 34.9 2.2 13 183-195 25-37 (108)
85 PF10571 UPF0547: Uncharacteri 87.3 0.29 6.2E-06 25.7 0.8 10 284-293 16-25 (26)
86 smart00659 RPOLCX RNA polymera 87.3 0.34 7.4E-06 29.1 1.2 26 283-319 3-28 (44)
87 PF15269 zf-C2H2_7: Zinc-finge 86.9 0.51 1.1E-05 27.9 1.7 22 283-304 21-42 (54)
88 TIGR00373 conserved hypothetic 86.9 0.38 8.3E-06 38.0 1.7 29 282-319 109-137 (158)
89 PRK06266 transcription initiat 86.4 0.32 6.9E-06 39.2 1.0 30 282-320 117-146 (178)
90 PF09986 DUF2225: Uncharacteri 86.4 0.14 3.1E-06 42.6 -1.0 13 242-254 49-61 (214)
91 PF13719 zinc_ribbon_5: zinc-r 86.0 0.43 9.4E-06 27.4 1.2 34 283-321 3-36 (37)
92 COG1996 RPC10 DNA-directed RNA 85.8 0.35 7.5E-06 29.6 0.7 28 282-319 6-33 (49)
93 COG1592 Rubrerythrin [Energy p 85.8 0.51 1.1E-05 37.3 1.8 23 282-317 134-156 (166)
94 KOG2807|consensus 85.2 1.1 2.3E-05 39.0 3.6 26 240-265 344-369 (378)
95 PF02892 zf-BED: BED zinc fing 85.0 0.76 1.7E-05 27.5 2.0 25 280-304 14-42 (45)
96 COG2888 Predicted Zn-ribbon RN 84.7 0.73 1.6E-05 29.2 1.8 33 282-319 27-59 (61)
97 smart00614 ZnF_BED BED zinc fi 84.3 0.8 1.7E-05 28.3 1.9 24 283-306 19-48 (50)
98 COG4530 Uncharacterized protei 84.2 0.6 1.3E-05 33.5 1.4 29 284-323 11-39 (129)
99 PRK00398 rpoP DNA-directed RNA 84.1 0.22 4.7E-06 30.3 -0.8 30 282-321 3-32 (46)
100 PF09986 DUF2225: Uncharacteri 84.0 0.51 1.1E-05 39.3 1.2 43 183-225 4-61 (214)
101 TIGR02605 CxxC_CxxC_SSSS putat 84.0 0.24 5.1E-06 30.9 -0.6 29 283-318 6-34 (52)
102 TIGR02300 FYDLN_acid conserved 84.0 0.58 1.3E-05 34.8 1.3 10 213-222 27-36 (129)
103 smart00834 CxxC_CXXC_SSSS Puta 83.8 0.23 5E-06 29.1 -0.7 29 283-318 6-34 (41)
104 smart00531 TFIIE Transcription 83.3 1.5 3.2E-05 34.2 3.5 36 182-222 97-133 (147)
105 COG1198 PriA Primosomal protei 83.2 1.1 2.4E-05 44.2 3.3 13 238-250 472-484 (730)
106 PF13717 zinc_ribbon_4: zinc-r 82.9 1.2 2.6E-05 25.4 2.1 33 213-251 3-35 (36)
107 COG1198 PriA Primosomal protei 82.4 0.37 7.9E-06 47.5 -0.3 36 284-319 446-484 (730)
108 COG1997 RPL43A Ribosomal prote 82.1 0.43 9.3E-06 32.9 0.0 11 242-252 54-64 (89)
109 PRK00464 nrdR transcriptional 81.7 0.37 7.9E-06 37.7 -0.5 20 184-203 28-47 (154)
110 TIGR00373 conserved hypothetic 81.6 1.6 3.5E-05 34.5 3.1 31 182-221 107-137 (158)
111 KOG2186|consensus 81.5 0.69 1.5E-05 38.7 1.0 48 157-207 4-51 (276)
112 PRK00464 nrdR transcriptional 81.4 0.59 1.3E-05 36.6 0.6 16 213-228 29-44 (154)
113 PF09723 Zn-ribbon_8: Zinc rib 81.0 0.43 9.3E-06 28.3 -0.2 29 283-318 6-34 (42)
114 PF08274 PhnA_Zn_Ribbon: PhnA 80.8 0.49 1.1E-05 25.7 -0.1 26 284-320 4-29 (30)
115 PF03604 DNA_RNApol_7kD: DNA d 78.4 1.9 4.1E-05 23.9 1.8 27 283-320 1-27 (32)
116 PHA00626 hypothetical protein 77.8 0.35 7.7E-06 30.1 -1.3 14 282-295 23-36 (59)
117 smart00734 ZnF_Rad18 Rad18-lik 77.3 2.2 4.8E-05 22.3 1.8 19 284-303 3-21 (26)
118 PRK14890 putative Zn-ribbon RN 77.2 2 4.2E-05 27.4 1.8 32 282-319 25-57 (59)
119 KOG4124|consensus 76.8 0.52 1.1E-05 41.2 -1.1 63 240-302 348-418 (442)
120 PRK06266 transcription initiat 76.8 2.6 5.7E-05 34.0 3.0 30 183-221 116-145 (178)
121 PF05443 ROS_MUCR: ROS/MUCR tr 76.6 1.3 2.9E-05 33.6 1.2 29 279-310 69-97 (132)
122 KOG2807|consensus 75.7 4 8.8E-05 35.6 3.9 72 240-317 289-374 (378)
123 PRK04023 DNA polymerase II lar 75.0 2.6 5.7E-05 42.6 3.0 11 241-251 663-673 (1121)
124 COG5188 PRP9 Splicing factor 3 74.7 1.9 4E-05 38.0 1.7 29 275-303 367-396 (470)
125 COG5151 SSL1 RNA polymerase II 73.9 3.8 8.3E-05 35.4 3.3 23 283-305 389-411 (421)
126 COG1592 Rubrerythrin [Energy p 72.6 2.6 5.7E-05 33.3 2.0 11 209-219 146-156 (166)
127 PRK09678 DNA-binding transcrip 72.1 0.84 1.8E-05 30.6 -0.8 41 283-325 2-44 (72)
128 PF14353 CpXC: CpXC protein 71.5 0.31 6.8E-06 37.0 -3.4 19 185-203 39-57 (128)
129 PF09416 UPF1_Zn_bind: RNA hel 71.1 3.9 8.4E-05 31.8 2.5 51 239-290 12-68 (152)
130 KOG2071|consensus 70.5 2.9 6.2E-05 39.7 2.0 23 211-233 417-439 (579)
131 PF09845 DUF2072: Zn-ribbon co 70.2 2.2 4.8E-05 32.1 1.0 13 213-225 2-14 (131)
132 KOG2593|consensus 70.2 1.6 3.4E-05 39.7 0.2 38 278-318 124-161 (436)
133 PF05443 ROS_MUCR: ROS/MUCR tr 70.1 2.7 5.8E-05 32.0 1.5 23 242-267 73-95 (132)
134 KOG2636|consensus 69.9 4.6 9.9E-05 36.9 3.1 39 139-177 384-423 (497)
135 PRK09678 DNA-binding transcrip 69.6 1.6 3.5E-05 29.2 0.2 17 183-199 26-44 (72)
136 PF13878 zf-C2H2_3: zinc-finge 69.6 4.7 0.0001 23.7 2.1 24 283-306 14-39 (41)
137 PF07754 DUF1610: Domain of un 69.1 1.9 4.2E-05 22.0 0.4 8 310-317 16-23 (24)
138 PF11931 DUF3449: Domain of un 68.7 2.4 5.2E-05 34.5 1.0 44 134-177 79-123 (196)
139 COG4957 Predicted transcriptio 67.1 3.2 6.9E-05 31.2 1.3 25 283-310 77-101 (148)
140 KOG4124|consensus 67.0 1.3 2.9E-05 38.8 -0.8 51 279-329 346-417 (442)
141 KOG2593|consensus 66.6 5.2 0.00011 36.5 2.7 39 180-221 124-162 (436)
142 PF15269 zf-C2H2_7: Zinc-finge 65.6 5 0.00011 23.8 1.6 22 242-263 21-42 (54)
143 PRK03824 hypA hydrogenase nick 65.5 2.1 4.5E-05 32.8 0.1 41 279-319 67-116 (135)
144 PRK12380 hydrogenase nickel in 65.5 2.7 5.8E-05 31.1 0.6 29 279-319 67-95 (113)
145 COG3364 Zn-ribbon containing p 64.8 4.1 9E-05 29.0 1.4 26 282-317 2-27 (112)
146 COG3091 SprT Zn-dependent meta 63.9 2.8 6.2E-05 32.3 0.5 34 281-319 116-149 (156)
147 PF13240 zinc_ribbon_2: zinc-r 63.8 2.5 5.4E-05 21.4 0.1 6 313-318 16-21 (23)
148 TIGR00100 hypA hydrogenase nic 63.5 2.8 6.1E-05 31.1 0.4 55 253-319 40-95 (115)
149 PF04959 ARS2: Arsenite-resist 63.1 4.9 0.00011 33.4 1.8 30 278-307 73-102 (214)
150 KOG4167|consensus 62.9 1.7 3.7E-05 42.0 -1.0 25 282-306 792-816 (907)
151 PRK14873 primosome assembly pr 62.8 6.8 0.00015 38.7 3.0 10 241-250 422-431 (665)
152 KOG4377|consensus 62.6 3.9 8.5E-05 36.8 1.2 24 283-306 402-427 (480)
153 PRK14714 DNA polymerase II lar 61.3 8.6 0.00019 40.1 3.4 28 212-251 692-719 (1337)
154 PF01363 FYVE: FYVE zinc finge 60.9 3.6 7.9E-05 27.2 0.6 27 284-322 11-37 (69)
155 COG3357 Predicted transcriptio 60.2 4.5 9.7E-05 28.2 0.9 31 282-322 58-88 (97)
156 KOG3408|consensus 60.1 5.4 0.00012 29.4 1.4 26 279-304 54-79 (129)
157 PRK00564 hypA hydrogenase nick 59.7 3.6 7.8E-05 30.6 0.4 30 278-319 67-97 (117)
158 PF12907 zf-met2: Zinc-binding 59.5 6.1 0.00013 23.1 1.3 31 283-313 2-36 (40)
159 PF05191 ADK_lid: Adenylate ki 59.3 6 0.00013 22.5 1.2 8 187-194 4-11 (36)
160 PF14311 DUF4379: Domain of un 59.1 6.1 0.00013 24.8 1.4 27 283-316 29-55 (55)
161 PF06524 NOA36: NOA36 protein; 59.1 3.4 7.3E-05 34.8 0.2 28 238-265 206-233 (314)
162 PF13453 zf-TFIIB: Transcripti 58.6 2.9 6.4E-05 24.5 -0.2 21 307-327 16-36 (41)
163 cd00065 FYVE FYVE domain; Zinc 57.6 6.6 0.00014 24.7 1.4 27 284-322 4-30 (57)
164 KOG4167|consensus 56.6 3.2 6.9E-05 40.3 -0.4 26 241-266 792-817 (907)
165 smart00064 FYVE Protein presen 56.4 5.6 0.00012 26.1 0.9 27 284-322 12-38 (68)
166 smart00440 ZnF_C2C2 C2C2 Zinc 56.3 4.6 9.9E-05 23.6 0.4 9 213-221 29-37 (40)
167 KOG1280|consensus 56.3 9.7 0.00021 33.6 2.5 32 239-270 77-108 (381)
168 PF09332 Mcm10: Mcm10 replicat 56.1 0.8 1.7E-05 40.8 -4.1 14 212-225 252-265 (344)
169 PRK03564 formate dehydrogenase 56.0 2.4 5.2E-05 37.3 -1.2 12 238-249 209-220 (309)
170 PF04959 ARS2: Arsenite-resist 55.4 9.2 0.0002 31.8 2.2 28 210-237 75-102 (214)
171 KOG1280|consensus 54.1 14 0.00029 32.8 3.0 36 282-317 79-116 (381)
172 PRK03824 hypA hydrogenase nick 53.8 7.7 0.00017 29.7 1.4 12 157-168 71-82 (135)
173 PF01096 TFIIS_C: Transcriptio 53.7 3.3 7.2E-05 24.0 -0.5 10 213-222 29-38 (39)
174 PF08271 TF_Zn_Ribbon: TFIIB z 53.4 4.3 9.3E-05 24.1 -0.0 28 283-319 1-28 (43)
175 PRK03681 hypA hydrogenase nick 53.2 4.1 9E-05 30.2 -0.2 30 279-319 67-96 (114)
176 PF01155 HypA: Hydrogenase exp 53.1 4.9 0.00011 29.7 0.2 57 252-320 39-96 (113)
177 KOG2272|consensus 52.2 10 0.00022 31.9 1.9 15 311-325 281-295 (332)
178 PF13451 zf-trcl: Probable zin 51.2 11 0.00024 23.2 1.5 15 211-225 3-17 (49)
179 COG1571 Predicted DNA-binding 51.0 7 0.00015 35.8 0.9 29 284-323 352-380 (421)
180 PF02176 zf-TRAF: TRAF-type zi 50.5 5.7 0.00012 25.3 0.2 41 282-323 9-55 (60)
181 PF12760 Zn_Tnp_IS1595: Transp 50.1 22 0.00047 21.4 2.7 8 185-192 19-26 (46)
182 PF07282 OrfB_Zn_ribbon: Putat 49.8 8.6 0.00019 25.4 1.0 27 284-320 30-56 (69)
183 PF05495 zf-CHY: CHY zinc fing 49.6 11 0.00024 25.2 1.4 58 185-251 11-71 (71)
184 COG4888 Uncharacterized Zn rib 49.4 5.8 0.00013 28.2 0.1 41 151-195 17-57 (104)
185 TIGR00595 priA primosomal prot 48.6 14 0.00029 35.4 2.4 10 240-249 252-261 (505)
186 PRK00432 30S ribosomal protein 48.2 7.1 0.00015 24.1 0.3 26 284-320 22-47 (50)
187 cd00924 Cyt_c_Oxidase_Vb Cytoc 47.6 4.7 0.0001 28.8 -0.6 21 302-323 72-92 (97)
188 PF12773 DZR: Double zinc ribb 47.5 10 0.00023 23.1 1.0 25 284-319 14-38 (50)
189 PF13824 zf-Mss51: Zinc-finger 47.4 14 0.00031 23.2 1.6 13 281-293 13-25 (55)
190 smart00154 ZnF_AN1 AN1-like Zi 47.1 8.3 0.00018 22.4 0.5 14 310-323 12-25 (39)
191 PF10013 DUF2256: Uncharacteri 47.0 12 0.00026 22.0 1.1 15 284-298 10-24 (42)
192 PRK00762 hypA hydrogenase nick 46.5 6.7 0.00015 29.5 0.1 36 278-319 66-101 (124)
193 PF10263 SprT-like: SprT-like 46.1 5.1 0.00011 31.4 -0.7 32 282-321 123-154 (157)
194 KOG3408|consensus 46.0 14 0.00031 27.3 1.6 28 151-178 52-79 (129)
195 COG1655 Uncharacterized protei 45.9 4.6 0.0001 33.5 -1.0 39 281-319 18-71 (267)
196 TIGR00686 phnA alkylphosphonat 45.2 8.7 0.00019 27.8 0.4 29 284-323 4-32 (109)
197 PF15135 UPF0515: Uncharacteri 45.2 19 0.00042 30.3 2.5 61 152-225 108-168 (278)
198 PF07975 C1_4: TFIIH C1-like d 45.0 12 0.00027 23.2 1.0 40 285-330 2-41 (51)
199 COG0068 HypF Hydrogenase matur 44.8 3 6.5E-05 40.5 -2.5 79 157-250 102-182 (750)
200 TIGR00595 priA primosomal prot 44.8 5.5 0.00012 38.0 -0.8 14 306-319 249-262 (505)
201 PRK05580 primosome assembly pr 44.4 5.9 0.00013 39.3 -0.7 15 305-319 416-430 (679)
202 PF05290 Baculo_IE-1: Baculovi 44.3 15 0.00033 27.7 1.6 43 278-325 76-136 (140)
203 PRK14559 putative protein seri 44.1 20 0.00044 35.3 2.9 10 285-294 44-53 (645)
204 PRK14714 DNA polymerase II lar 44.1 15 0.00033 38.5 2.0 26 283-319 693-718 (1337)
205 PF08790 zf-LYAR: LYAR-type C2 44.0 16 0.00034 19.5 1.2 19 185-204 1-19 (28)
206 COG3677 Transposase and inacti 43.5 6.1 0.00013 30.0 -0.6 16 308-323 51-66 (129)
207 PRK14873 primosome assembly pr 43.4 4.7 0.0001 39.8 -1.5 11 309-319 421-431 (665)
208 KOG2907|consensus 42.4 15 0.00033 26.8 1.3 38 157-196 75-114 (116)
209 TIGR00244 transcriptional regu 41.1 6.4 0.00014 30.4 -0.8 18 185-202 29-46 (147)
210 KOG3362|consensus 40.9 9.9 0.00021 29.0 0.2 21 283-303 130-150 (156)
211 KOG2907|consensus 40.9 13 0.00028 27.1 0.8 40 185-224 75-114 (116)
212 COG1327 Predicted transcriptio 40.7 7.2 0.00016 30.1 -0.5 18 185-202 29-46 (156)
213 PF04423 Rad50_zn_hook: Rad50 40.3 18 0.00038 22.6 1.3 20 284-303 22-43 (54)
214 PF10276 zf-CHCC: Zinc-finger 40.2 15 0.00033 21.4 0.9 11 282-292 29-39 (40)
215 PF06220 zf-U1: U1 zinc finger 40.1 22 0.00047 20.5 1.5 22 282-303 3-26 (38)
216 KOG2071|consensus 40.1 18 0.00039 34.6 1.8 28 279-306 415-442 (579)
217 PRK14892 putative transcriptio 39.8 7.6 0.00016 27.9 -0.5 36 281-323 20-55 (99)
218 COG4957 Predicted transcriptio 39.4 20 0.00042 27.1 1.5 25 157-184 77-101 (148)
219 PF01780 Ribosomal_L37ae: Ribo 39.3 7.5 0.00016 27.3 -0.6 31 183-223 34-64 (90)
220 COG1675 TFA1 Transcription ini 39.0 20 0.00043 28.8 1.7 28 283-319 114-141 (176)
221 PRK04351 hypothetical protein; 39.0 13 0.00028 29.0 0.6 34 282-323 112-145 (149)
222 COG0068 HypF Hydrogenase matur 38.6 8.7 0.00019 37.5 -0.5 59 157-222 124-183 (750)
223 PF07295 DUF1451: Protein of u 38.5 15 0.00033 28.5 0.9 8 213-220 113-120 (146)
224 smart00731 SprT SprT homologue 38.4 21 0.00045 27.7 1.7 33 282-321 112-144 (146)
225 PTZ00255 60S ribosomal protein 38.1 12 0.00026 26.3 0.2 14 211-224 53-66 (90)
226 PF01428 zf-AN1: AN1-like Zinc 37.7 8.8 0.00019 22.7 -0.4 14 310-323 13-26 (43)
227 PTZ00448 hypothetical protein; 37.6 23 0.00049 31.9 1.9 23 282-304 314-336 (373)
228 COG4306 Uncharacterized protei 37.5 13 0.00029 27.5 0.4 14 211-224 67-80 (160)
229 TIGR00280 L37a ribosomal prote 37.4 10 0.00023 26.6 -0.1 13 211-223 52-64 (91)
230 PF09332 Mcm10: Mcm10 replicat 37.3 4.1 8.9E-05 36.4 -2.7 43 281-323 251-298 (344)
231 KOG3214|consensus 37.0 13 0.00029 26.3 0.3 43 152-198 19-61 (109)
232 KOG4317|consensus 36.9 8.7 0.00019 33.4 -0.7 20 283-302 20-39 (383)
233 COG1773 Rubredoxin [Energy pro 36.8 15 0.00032 23.2 0.5 36 282-318 3-44 (55)
234 PF04780 DUF629: Protein of un 36.6 24 0.00051 33.1 2.0 27 282-308 57-84 (466)
235 KOG2461|consensus 36.4 22 0.00048 32.7 1.7 24 242-265 332-355 (396)
236 KOG0717|consensus 36.2 19 0.00042 33.3 1.3 22 283-304 293-314 (508)
237 PF03811 Zn_Tnp_IS1: InsA N-te 35.8 5.7 0.00012 22.6 -1.3 29 284-316 7-35 (36)
238 COG5188 PRP9 Splicing factor 3 35.4 43 0.00092 29.8 3.2 23 154-176 372-395 (470)
239 PF08882 Acetone_carb_G: Aceto 34.9 9.8 0.00021 27.7 -0.6 24 282-306 24-48 (112)
240 PF15135 UPF0515: Uncharacteri 34.6 32 0.0007 29.0 2.2 36 213-254 133-168 (278)
241 PF01286 XPA_N: XPA protein N- 34.2 4.4 9.6E-05 22.7 -1.9 25 284-318 5-29 (34)
242 PF04606 Ogr_Delta: Ogr/Delta- 34.1 7.1 0.00015 23.7 -1.2 8 187-194 2-9 (47)
243 PLN02294 cytochrome c oxidase 33.8 19 0.0004 28.6 0.7 20 303-323 135-154 (174)
244 PRK05580 primosome assembly pr 33.2 30 0.00065 34.5 2.2 9 241-249 421-429 (679)
245 smart00661 RPOL9 RNA polymeras 33.2 30 0.00065 21.1 1.5 11 212-222 20-30 (52)
246 COG5112 UFD2 U1-like Zn-finger 32.7 20 0.00042 25.8 0.6 26 279-304 52-77 (126)
247 PRK10220 hypothetical protein; 32.4 21 0.00045 26.0 0.7 29 284-323 5-33 (111)
248 PF13248 zf-ribbon_3: zinc-rib 32.3 15 0.00033 19.0 0.0 6 285-290 19-24 (26)
249 PRK12496 hypothetical protein; 32.0 28 0.00062 27.6 1.5 28 283-322 128-155 (164)
250 COG1571 Predicted DNA-binding 32.0 27 0.00059 32.1 1.6 15 184-198 367-381 (421)
251 KOG0696|consensus 31.9 29 0.00063 32.0 1.7 60 181-249 70-129 (683)
252 PRK03976 rpl37ae 50S ribosomal 31.4 14 0.0003 26.0 -0.3 32 183-224 35-66 (90)
253 KOG1842|consensus 30.2 28 0.00062 32.0 1.4 26 282-307 15-41 (505)
254 COG3091 SprT Zn-dependent meta 29.9 27 0.00058 27.1 1.0 8 212-219 140-147 (156)
255 KOG2272|consensus 29.8 73 0.0016 27.0 3.5 35 282-322 280-314 (332)
256 COG1675 TFA1 Transcription ini 29.4 63 0.0014 26.0 3.1 8 213-220 133-140 (176)
257 cd01410 SIRT7 SIRT7: Eukaryoti 29.3 59 0.0013 26.9 3.1 40 276-318 89-128 (206)
258 PF13821 DUF4187: Domain of un 29.2 58 0.0012 20.5 2.3 18 242-259 28-45 (55)
259 PTZ00303 phosphatidylinositol 29.1 23 0.00049 35.1 0.6 34 283-323 461-494 (1374)
260 KOG0978|consensus 28.9 26 0.00056 34.5 0.9 17 213-229 679-695 (698)
261 PF09082 DUF1922: Domain of un 28.3 11 0.00023 24.9 -1.2 17 305-322 15-31 (68)
262 PF02591 DUF164: Putative zinc 28.2 43 0.00093 21.0 1.6 32 284-319 24-55 (56)
263 KOG0782|consensus 28.0 16 0.00034 34.7 -0.6 27 199-225 240-266 (1004)
264 KOG1842|consensus 28.0 31 0.00068 31.7 1.2 23 184-206 15-37 (505)
265 PRK00420 hypothetical protein; 28.0 36 0.00078 25.1 1.4 27 284-321 25-51 (112)
266 COG1998 RPS31 Ribosomal protei 27.8 28 0.00061 21.3 0.6 10 241-250 37-46 (51)
267 PHA02998 RNA polymerase subuni 27.0 25 0.00055 28.0 0.4 10 242-251 172-181 (195)
268 PRK05978 hypothetical protein; 26.9 16 0.00035 28.4 -0.6 9 285-293 55-63 (148)
269 PF04780 DUF629: Protein of un 26.9 45 0.00098 31.3 2.1 27 212-238 57-83 (466)
270 COG1594 RPB9 DNA-directed RNA 26.7 25 0.00055 26.0 0.4 39 157-195 73-111 (113)
271 PF11789 zf-Nse: Zinc-finger o 26.5 32 0.0007 21.8 0.8 30 282-315 24-53 (57)
272 COG4640 Predicted membrane pro 26.4 45 0.00098 30.2 1.9 20 240-259 14-33 (465)
273 KOG2636|consensus 26.3 44 0.00095 30.8 1.8 29 275-303 394-423 (497)
274 KOG1813|consensus 25.6 42 0.00091 29.2 1.5 15 211-225 240-254 (313)
275 PF10071 DUF2310: Zn-ribbon-co 25.4 45 0.00097 28.6 1.7 66 250-322 184-253 (258)
276 smart00132 LIM Zinc-binding do 25.3 33 0.00071 19.0 0.6 8 213-220 28-35 (39)
277 PF05129 Elf1: Transcription e 25.2 26 0.00057 24.1 0.2 11 153-163 19-29 (81)
278 smart00504 Ubox Modified RING 23.8 82 0.0018 19.8 2.4 30 287-322 18-47 (63)
279 KOG1729|consensus 23.8 26 0.00056 30.6 -0.0 11 187-197 188-198 (288)
280 COG1439 Predicted nucleic acid 23.8 42 0.00092 26.9 1.2 23 283-319 140-162 (177)
281 PF14446 Prok-RING_1: Prokaryo 23.8 57 0.0012 20.5 1.5 9 158-166 7-15 (54)
282 PF00301 Rubredoxin: Rubredoxi 23.5 31 0.00068 21.0 0.3 36 283-319 2-43 (47)
283 COG1779 C4-type Zn-finger prot 23.5 34 0.00073 27.9 0.5 13 185-197 44-56 (201)
284 COG5216 Uncharacterized conser 23.5 34 0.00073 21.7 0.4 30 283-319 23-53 (67)
285 COG4391 Uncharacterized protei 23.3 31 0.00067 22.2 0.2 12 283-294 49-60 (62)
286 TIGR03831 YgiT_finger YgiT-typ 23.0 37 0.00081 19.9 0.6 10 213-222 33-42 (46)
287 PF06397 Desulfoferrod_N: Desu 22.5 33 0.00071 19.5 0.2 10 310-319 6-15 (36)
288 cd01413 SIR2_Af2 SIR2_Af2: Arc 22.4 78 0.0017 26.5 2.6 38 276-318 107-144 (222)
289 COG4896 Uncharacterized protei 22.3 44 0.00095 21.4 0.8 6 185-190 32-37 (68)
290 PRK14138 NAD-dependent deacety 22.2 77 0.0017 27.0 2.6 39 276-318 113-151 (244)
291 PF05876 Terminase_GpA: Phage 22.1 37 0.00079 33.0 0.6 37 283-323 201-242 (557)
292 KOG2461|consensus 22.0 54 0.0012 30.2 1.6 61 162-222 188-248 (396)
293 cd00730 rubredoxin Rubredoxin; 22.0 39 0.00084 20.9 0.5 36 283-319 2-43 (50)
294 PF14255 Cys_rich_CPXG: Cystei 21.7 36 0.00079 21.2 0.3 11 311-321 1-11 (52)
295 COG0675 Transposase and inacti 21.5 40 0.00086 30.0 0.7 22 284-320 311-332 (364)
296 KOG3002|consensus 21.3 69 0.0015 28.2 2.1 60 239-315 78-141 (299)
297 COG0846 SIR2 NAD-dependent pro 21.2 51 0.0011 28.2 1.2 38 277-318 117-154 (250)
298 smart00109 C1 Protein kinase C 21.2 73 0.0016 18.7 1.7 30 282-323 11-40 (49)
299 KOG1701|consensus 20.6 23 0.00049 32.4 -1.0 45 158-202 276-320 (468)
300 PTZ00448 hypothetical protein; 20.6 71 0.0015 28.9 2.0 24 241-264 314-337 (373)
301 PF09963 DUF2197: Uncharacteri 20.3 39 0.00086 21.4 0.3 9 186-194 4-12 (56)
302 PF07649 C1_3: C1-like domain; 20.1 37 0.00081 18.1 0.1 8 283-290 16-23 (30)
303 KOG2923|consensus 20.0 68 0.0015 20.8 1.3 30 283-319 23-53 (67)
No 1
>KOG2462|consensus
Probab=99.98 E-value=4e-33 Score=227.82 Aligned_cols=131 Identities=32% Similarity=0.618 Sum_probs=97.1
Q ss_pred CCeeeccCcccccchhhhhhccccccC---cCceecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHH
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINTHTG---VKPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRN 259 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~ 259 (330)
..|+|..||+.+.+.++|.+|.++|.. .+.+.|.+|++.|.+...|..|+++ |+ -+++|.+|||.|...+.|+-
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirT-H~--l~c~C~iCGKaFSRPWLLQG 205 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRT-HT--LPCECGICGKAFSRPWLLQG 205 (279)
T ss_pred CceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhc-cC--CCcccccccccccchHHhhc
Confidence 346666666666666666666666643 3557777888888888778888775 64 56778888888888888877
Q ss_pred HHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhhhhHhhc
Q psy9959 260 HMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILICVIIAI 329 (330)
Q Consensus 260 H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~~~l~~H 329 (330)
|+|+|+||||| .|+.|+|+|..+++|+.||++|.+.|+|+|..|+|+|..++.|.+|
T Consensus 206 HiRTHTGEKPF-------------~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH 262 (279)
T KOG2462|consen 206 HIRTHTGEKPF-------------SCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKH 262 (279)
T ss_pred ccccccCCCCc-------------cCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHh
Confidence 77777777664 5888888888888888888888877788888888888888887777
No 2
>KOG2462|consensus
Probab=99.97 E-value=1.7e-31 Score=218.36 Aligned_cols=137 Identities=28% Similarity=0.551 Sum_probs=127.4
Q ss_pred cCCCcccccccCcccCChhHHHHHHhhhCC---CCCeeeccCcccccchhhhhhccccccCcCceecCccccccCChHHH
Q psy9959 152 VVAPAHMCNYCNYTSPKRYLLARHLKSHSE---ERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGEL 228 (330)
Q Consensus 152 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 228 (330)
...+.|.|+.|++.+.+..+|.+|.+.|.. .+.+.|..|++.|.+...|.+|+++|+ .++.|.+|||.|.+.+.|
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLL 203 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLL 203 (279)
T ss_pred ccCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHh
Confidence 345569999999999999999999999854 567999999999999999999999996 689999999999999999
Q ss_pred HHHHhhhcCCCCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHH
Q psy9959 229 VRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 229 ~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
..|+|+ |+|||||.|+.|+|+|+++++|+.||++|.+.++ |+|..|+|+|..++.|.+|...
T Consensus 204 QGHiRT-HTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~-------------~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 204 QGHIRT-HTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKK-------------HQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred hccccc-ccCCCCccCCcccchhcchHHHHHHHHhhcCCcc-------------ccCcchhhHHHHHHHHHHhhhh
Confidence 999996 9999999999999999999999999999988876 5799999999999999999864
No 3
>KOG1074|consensus
Probab=99.95 E-value=3.6e-28 Score=223.89 Aligned_cols=57 Identities=32% Similarity=0.614 Sum_probs=52.6
Q ss_pred eecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHHHHHhcCCCCc
Q psy9959 213 HKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRSHTGERPY 270 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~ 270 (330)
-+|-+|.+...-.+.|+.|.|+ |+|++||+|.+||++|.++.+|+.||.+|...-++
T Consensus 606 NqCiiC~rVlSC~saLqmHyrt-HtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~ 662 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRT-HTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPA 662 (958)
T ss_pred cceeeeeecccchhhhhhhhhc-ccCcCccccccccchhccccchhhcccccccCccc
Confidence 6799999999999999999996 99999999999999999999999999998765443
No 4
>KOG3623|consensus
Probab=99.90 E-value=4.3e-25 Score=200.55 Aligned_cols=108 Identities=28% Similarity=0.546 Sum_probs=92.7
Q ss_pred CcccccccCcccCChhHHHHHHhh-h-CCCCCeeeccCcccccchhhhhhccccccC-------------cCceecCccc
Q psy9959 155 PAHMCNYCNYTSPKRYLLARHLKS-H-SEERPHKCSVCERGFKTIASLQNHINTHTG-------------VKPHKCKYCE 219 (330)
Q Consensus 155 ~~~~C~~C~~~f~~~~~l~~H~~~-h-~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-------------~~~~~C~~C~ 219 (330)
....|++|.+.+.+...|+.|++. | ..+..|.|..|..+|.++..|.+||.+|.. .+.|+|..||
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECg 288 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECG 288 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccc
Confidence 346799999999999999999876 3 234459999999999999999999988743 2459999999
Q ss_pred cccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHHHHH
Q psy9959 220 SRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRS 263 (330)
Q Consensus 220 ~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~ 263 (330)
|.|..+-.|+.|+|+ |+|+|||.|+.|+|.|....++..||..
T Consensus 289 KAFKfKHHLKEHlRI-HSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 289 KAFKFKHHLKEHLRI-HSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred hhhhhHHHHHhhhee-ecCCCCcCCcccccccccCCcccccccc
Confidence 999999999999996 9999999999999999999999999854
No 5
>KOG3608|consensus
Probab=99.88 E-value=1.7e-23 Score=175.71 Aligned_cols=158 Identities=26% Similarity=0.560 Sum_probs=115.1
Q ss_pred cccccccCcccCChhHHHHHHhhhC--CCCCeeeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHh
Q psy9959 156 AHMCNYCNYTSPKRYLLARHLKSHS--EERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVR 233 (330)
Q Consensus 156 ~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 233 (330)
...|+.||..|.++..|-.|++..+ ...+|.|..|.+.|.+...|..|++.|- .-|+|+.|+.+....+.|.+|++
T Consensus 207 vvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r 284 (467)
T KOG3608|consen 207 VVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIR 284 (467)
T ss_pred EEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHH
Confidence 3445555555555555555544322 2335666666666666666666666653 45778888888888888888888
Q ss_pred hhcCCCCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCC--CccccCChHHHHHHHHHcC-CC--
Q psy9959 234 YKHTHEKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCEL--CPYASSSQRHLESHMLIHT-DQ-- 308 (330)
Q Consensus 234 ~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~--C~~~F~~~~~L~~H~~~H~-~~-- 308 (330)
..|+..+||+|..|++.|.+.+.|.+|...|. ++ .|+|.. |..+|.+...|++|++.|+ |.
T Consensus 285 ~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS--~~------------~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np 350 (467)
T KOG3608|consen 285 YRHSKDKPFKCDECDTRCVRESDLAKHVQVHS--KT------------VYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNP 350 (467)
T ss_pred hhhccCCCccccchhhhhccHHHHHHHHHhcc--cc------------ceecCCCCCcHHHHHHHHHHHHHHHhccCCCC
Confidence 88888888888888888888888888888775 22 278988 9999999999999997755 54
Q ss_pred CCcccccCChhhHhhhhHhhc
Q psy9959 309 KPYLCDHCDQIRILICVIIAI 329 (330)
Q Consensus 309 ~p~~C~~C~~~f~~~~~l~~H 329 (330)
-+|.|-.|++.|.+-.+|.+|
T Consensus 351 ~~Y~CH~Cdr~ft~G~~L~~H 371 (467)
T KOG3608|consen 351 ILYACHCCDRFFTSGKSLSAH 371 (467)
T ss_pred CceeeecchhhhccchhHHHH
Confidence 459999999999999998877
No 6
>KOG3608|consensus
Probab=99.85 E-value=6.1e-22 Score=166.49 Aligned_cols=158 Identities=28% Similarity=0.570 Sum_probs=141.5
Q ss_pred ccccc--ccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhcccccc--CcCceecCccccccCChHHHHHH
Q psy9959 156 AHMCN--YCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTHT--GVKPHKCKYCESRFTTSGELVRH 231 (330)
Q Consensus 156 ~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H 231 (330)
.+.|. .|.+.|.+++.|+.|++.|++++...|+.||..|.++..|..|++.-+ ...+|.|..|.|.|.+...|..|
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~H 256 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSH 256 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHH
Confidence 35564 489999999999999999999999999999999999999999987533 45689999999999999999999
Q ss_pred HhhhcCCCCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCCc
Q psy9959 232 VRYKHTHEKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPY 311 (330)
Q Consensus 232 ~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~ 311 (330)
+.. |- .-|+|+.|+.+....++|..|++..+ ...|||+|..|.+.|.+.+.|.+|..+|. +..|
T Consensus 257 v~r-Hv--n~ykCplCdmtc~~~ssL~~H~r~rH------------s~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y 320 (467)
T KOG3608|consen 257 VVR-HV--NCYKCPLCDMTCSSASSLTTHIRYRH------------SKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVY 320 (467)
T ss_pred HHH-hh--hcccccccccCCCChHHHHHHHHhhh------------ccCCCccccchhhhhccHHHHHHHHHhcc-ccce
Confidence 986 64 45999999999999999999999743 33566899999999999999999999998 7779
Q ss_pred cccc--CChhhHhhhhHhhc
Q psy9959 312 LCDH--CDQIRILICVIIAI 329 (330)
Q Consensus 312 ~C~~--C~~~f~~~~~l~~H 329 (330)
+|.. |..+|.++..|.+|
T Consensus 321 ~C~h~~C~~s~r~~~q~~~H 340 (467)
T KOG3608|consen 321 QCEHPDCHYSVRTYTQMRRH 340 (467)
T ss_pred ecCCCCCcHHHHHHHHHHHH
Confidence 9988 99999999999988
No 7
>KOG1074|consensus
Probab=99.83 E-value=5.1e-22 Score=183.64 Aligned_cols=76 Identities=32% Similarity=0.652 Sum_probs=67.5
Q ss_pred CccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCC----cccc--
Q psy9959 241 PHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKP----YLCD-- 314 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p----~~C~-- 314 (330)
|-+|-+|.++..-+++|+.|.|+|+|+|| |+|++||++|+++.+|+.||-+|....| |.|+
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERP-------------FkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~ 671 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERP-------------FKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPST 671 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCc-------------cccccccchhccccchhhcccccccCccccccccCCch
Confidence 45799999999999999999999988887 5799999999999999999999976544 7899
Q ss_pred -cCChhhHhhhhHhhc
Q psy9959 315 -HCDQIRILICVIIAI 329 (330)
Q Consensus 315 -~C~~~f~~~~~l~~H 329 (330)
+|-+.|.....|..|
T Consensus 672 ~ic~~kftn~V~lpQh 687 (958)
T KOG1074|consen 672 FICQKKFTNAVTLPQH 687 (958)
T ss_pred hhhcccccccccccce
Confidence 999999988887766
No 8
>KOG3576|consensus
Probab=99.76 E-value=1.7e-19 Score=140.70 Aligned_cols=117 Identities=33% Similarity=0.611 Sum_probs=108.4
Q ss_pred CCcccccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHh
Q psy9959 154 APAHMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVR 233 (330)
Q Consensus 154 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 233 (330)
...|.|.+|++.|.-...|.+|++-|...+.|.|..||+.|.....|++|+++|+|.+||+|..|++.|+..-.|..|++
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 44589999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhcC----------CCCCccccccCccccCHHHHHHHHHHhcCCCCc
Q psy9959 234 YKHT----------HEKPHKCSICDYASVELSKMRNHMRSHTGERPY 270 (330)
Q Consensus 234 ~~H~----------~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~ 270 (330)
..|. ..+.|.|..||.+-.....+..|+..|+...|+
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 7774 346799999999999999999999999876554
No 9
>KOG3623|consensus
Probab=99.76 E-value=1.8e-19 Score=164.42 Aligned_cols=117 Identities=23% Similarity=0.503 Sum_probs=105.5
Q ss_pred eecCccccccCChHHHHHHHhhhcC-CCCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccc
Q psy9959 213 HKCKYCESRFTTSGELVRHVRYKHT-HEKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYA 291 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l~~H~~~~H~-~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~ 291 (330)
..|++|.+.|.....|+.|++..|. .+..|.|..|.++|+++..|.+||.+|....+-..+...-.+.+.|+|..|||+
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKA 290 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKA 290 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchh
Confidence 6899999999999999999998775 456799999999999999999999999877766566666677889999999999
Q ss_pred cCChHHHHHHHHHcCCCCCcccccCChhhHhhhhHhhc
Q psy9959 292 SSSQRHLESHMLIHTDQKPYLCDHCDQIRILICVIIAI 329 (330)
Q Consensus 292 F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~~~l~~H 329 (330)
|+.+-+|+.|+|+|.|+|||.|+.|+|+|.+.-++--|
T Consensus 291 FKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSH 328 (1007)
T KOG3623|consen 291 FKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSH 328 (1007)
T ss_pred hhhHHHHHhhheeecCCCCcCCcccccccccCCccccc
Confidence 99999999999999999999999999999988776655
No 10
>KOG3576|consensus
Probab=99.76 E-value=2.3e-19 Score=139.99 Aligned_cols=126 Identities=29% Similarity=0.614 Sum_probs=110.6
Q ss_pred CCCCeeeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHH
Q psy9959 181 EERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNH 260 (330)
Q Consensus 181 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H 260 (330)
+...|.|.+|++.|....-|.+|++-|...+.|-|..||+.|.....|++|+++ |+|.+||+|..|+|+|+.+-+|..|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rt-htgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRT-HTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhcc-ccCccccchhhhhHHHHhhccHHHH
Confidence 456799999999999999999999999999999999999999999999999996 9999999999999999999999999
Q ss_pred HHHhcCCCC-ceeeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCC
Q psy9959 261 MRSHTGERP-YQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKP 310 (330)
Q Consensus 261 ~~~h~~~~~-~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p 310 (330)
++.-+|... |... ....|.|.|..||.+-.....+..|++.|+-..|
T Consensus 193 l~kvhgv~~~yayk---err~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 193 LKKVHGVQHQYAYK---ERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHHcCchHHHHHH---HhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 998777532 2111 1234668999999999999999999999886544
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.49 E-value=7.3e-14 Score=128.78 Aligned_cols=135 Identities=24% Similarity=0.483 Sum_probs=105.9
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCCeeecc--CcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHhh
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERPHKCSV--CERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRY 234 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 234 (330)
..|+.|.+.... ..|..|.... ....-.|+. |+..|. +..+..| +.|+.|++.|. ...|..|++.
T Consensus 408 V~C~NC~~~i~l-~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~-r~el~~H---------~~C~~Cgk~f~-~s~LekH~~~ 474 (567)
T PLN03086 408 VECRNCKHYIPS-RSIALHEAYC-SRHNVVCPHDGCGIVLR-VEEAKNH---------VHCEKCGQAFQ-QGEMEKHMKV 474 (567)
T ss_pred EECCCCCCccch-hHHHHHHhhC-CCcceeCCcccccceee-ccccccC---------ccCCCCCCccc-hHHHHHHHHh
Confidence 579999987754 4566787543 233457884 999883 3444444 48999999996 6789999998
Q ss_pred hcCCCCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccC----------ChHHHHHHHHH
Q psy9959 235 KHTHEKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASS----------SQRHLESHMLI 304 (330)
Q Consensus 235 ~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~----------~~~~L~~H~~~ 304 (330)
+| +++.|+ ||+.+ .+..|..|+++|.+.++ +.|..|++.|. ..+.|..|..+
T Consensus 475 ~H---kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp-------------i~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 475 FH---EPLQCP-CGVVL-EKEQMVQHQASTCPLRL-------------ITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred cC---CCccCC-CCCCc-chhHHHhhhhccCCCCc-------------eeCCCCCCccccCccccchhhhhhhHHHHHHh
Confidence 54 789999 99755 67999999999888777 57999999995 24689999998
Q ss_pred cCCCCCcccccCChhhHhh
Q psy9959 305 HTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 305 H~~~~p~~C~~C~~~f~~~ 323 (330)
+ |.+++.|..||+.+..+
T Consensus 537 C-G~rt~~C~~Cgk~Vrlr 554 (567)
T PLN03086 537 C-GSRTAPCDSCGRSVMLK 554 (567)
T ss_pred c-CCcceEccccCCeeeeh
Confidence 6 99999999999988654
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.30 E-value=2.9e-12 Score=118.39 Aligned_cols=117 Identities=18% Similarity=0.417 Sum_probs=92.8
Q ss_pred cccc--cCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHhhh
Q psy9959 158 MCNY--CNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRYK 235 (330)
Q Consensus 158 ~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 235 (330)
.|+. |+..|.. ..+.. .+.|+.|++.|. ...|..|++.|+ +++.|+ |++.+ ....|..|+..
T Consensus 435 ~Cp~~~Cg~v~~r-~el~~---------H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~t- 498 (567)
T PLN03086 435 VCPHDGCGIVLRV-EEAKN---------HVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQAS- 498 (567)
T ss_pred eCCcccccceeec-ccccc---------CccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhc-
Confidence 5774 8888832 33333 368999999995 688999999985 789999 99755 66899999985
Q ss_pred cCCCCCccccccCcccc----------CHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHHc
Q psy9959 236 HTHEKPHKCSICDYASV----------ELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIH 305 (330)
Q Consensus 236 H~~~~~~~C~~C~k~f~----------~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H 305 (330)
|...+++.|.+|++.|. ..+.|..|.... |.++ +.|..||+.|..+ .|..|+..-
T Consensus 499 hCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt-------------~~C~~Cgk~Vrlr-dm~~H~~~~ 563 (567)
T PLN03086 499 TCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRT-------------APCDSCGRSVMLK-EMDIHQIAV 563 (567)
T ss_pred cCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcc-------------eEccccCCeeeeh-hHHHHHHHh
Confidence 99999999999999995 245788888874 5555 5799999998865 788998653
No 13
>PHA02768 hypothetical protein; Provisional
Probab=99.25 E-value=2.2e-12 Score=80.16 Aligned_cols=45 Identities=16% Similarity=0.375 Sum_probs=41.4
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhhhhHhh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILICVIIA 328 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~~~l~~ 328 (330)
.|.|+.||+.|.+.++|..|+++|+ ++|+|..|++.|...+.|+.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~~ 49 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYIE 49 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeEE
Confidence 3889999999999999999999998 79999999999998887753
No 14
>PHA00733 hypothetical protein
Probab=99.25 E-value=8.6e-12 Score=94.39 Aligned_cols=83 Identities=12% Similarity=0.169 Sum_probs=48.5
Q ss_pred cCceecCccccccCChHHHHHH--Hh--hhcCCCCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCcccc
Q psy9959 210 VKPHKCKYCESRFTTSGELVRH--VR--YKHTHEKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKC 285 (330)
Q Consensus 210 ~~~~~C~~C~~~f~~~~~l~~H--~~--~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C 285 (330)
.+++.|.+|.+.|.+...|..| ++ ..+.+.+||.|+.|++.|.+...|..|++.|. .+ |.|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~--~~-------------~~C 102 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTE--HS-------------KVC 102 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCC--cC-------------ccC
Confidence 3445555555555544444433 10 11234667777777777777777777776541 11 467
Q ss_pred CCCccccCChHHHHHHHHHcCC
Q psy9959 286 ELCPYASSSQRHLESHMLIHTD 307 (330)
Q Consensus 286 ~~C~~~F~~~~~L~~H~~~H~~ 307 (330)
..|+++|.....|..|+...++
T Consensus 103 ~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 103 PVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCCCccCCHHHHHHHHHHhcC
Confidence 7777777777777777765443
No 15
>PHA00733 hypothetical protein
Probab=99.17 E-value=3.3e-11 Score=91.20 Aligned_cols=84 Identities=21% Similarity=0.358 Sum_probs=67.8
Q ss_pred CCCCeeeccCcccccchhhhhhc--c---ccccCcCceecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHH
Q psy9959 181 EERPHKCSVCERGFKTIASLQNH--I---NTHTGVKPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELS 255 (330)
Q Consensus 181 ~~~~~~C~~C~~~f~~~~~l~~H--~---~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~ 255 (330)
..+++.|.+|.+.|.....|..| + ..+++.+||.|..|++.|.+...|..|++. | ..+|.|..|++.|....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~-h--~~~~~C~~CgK~F~~~~ 113 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRY-T--EHSKVCPVCGKEFRNTD 113 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhc-C--CcCccCCCCCCccCCHH
Confidence 45678888888887776665554 1 123457899999999999999999999985 5 35799999999999999
Q ss_pred HHHHHHHHhcCC
Q psy9959 256 KMRNHMRSHTGE 267 (330)
Q Consensus 256 ~L~~H~~~h~~~ 267 (330)
.|..|+...++.
T Consensus 114 sL~~H~~~~h~~ 125 (128)
T PHA00733 114 STLDHVCKKHNI 125 (128)
T ss_pred HHHHHHHHhcCc
Confidence 999999887763
No 16
>KOG3993|consensus
Probab=99.12 E-value=3.9e-12 Score=110.32 Aligned_cols=113 Identities=19% Similarity=0.273 Sum_probs=71.8
Q ss_pred CCCcccccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccccccCcCceec--Ccccc-ccCChHHHH
Q psy9959 153 VAPAHMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTHTGVKPHKC--KYCES-RFTTSGELV 229 (330)
Q Consensus 153 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C--~~C~~-~f~~~~~l~ 229 (330)
....|.|..|...|.+...|.+|.-.-.-..-|+|+.|+|.|....+|..|.|+|....--.= ..=.+ ...+. .+.
T Consensus 264 ~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~r-ae~ 342 (500)
T KOG3993|consen 264 VIGDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETR-AEV 342 (500)
T ss_pred cHHHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhh-hhh
Confidence 344599999999999999999997543334569999999999999999999999964221000 00000 00000 111
Q ss_pred HHH-hh-hcCCCCCccccccCccccCHHHHHHHHHHhcC
Q psy9959 230 RHV-RY-KHTHEKPHKCSICDYASVELSKMRNHMRSHTG 266 (330)
Q Consensus 230 ~H~-~~-~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~ 266 (330)
+-. +. .-...-.|.|.+|+|.|.....|+.|+.+|+.
T Consensus 343 ~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 343 QEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 000 00 00122357888888888888888888777753
No 17
>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=98.95 E-value=2.6e-10 Score=60.72 Aligned_cols=26 Identities=38% Similarity=0.662 Sum_probs=23.9
Q ss_pred HHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 297 HLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 297 ~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
+|.+|+++|+|++||.|+.|+++|.+
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 58999999999999999999999963
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.91 E-value=5.9e-10 Score=69.39 Aligned_cols=42 Identities=24% Similarity=0.403 Sum_probs=26.6
Q ss_pred ccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHH
Q psy9959 242 HKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHL 298 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L 298 (330)
|.|+.||+.|...++|..|+++|+ ++ |+|..|++.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~-------------~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TN-------------LKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--Cc-------------ccCCcccceeccccee
Confidence 566666666666666666666665 22 4566666666665544
No 19
>PHA00616 hypothetical protein
Probab=98.82 E-value=1.6e-09 Score=64.07 Aligned_cols=36 Identities=14% Similarity=0.219 Sum_probs=33.0
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCD 317 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~ 317 (330)
+|+|..||+.|.+++.|.+|++.|||+++|.|+.=-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y 36 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFY 36 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEE
Confidence 588999999999999999999999999999997633
No 20
>KOG3993|consensus
Probab=98.63 E-value=4e-09 Score=91.89 Aligned_cols=28 Identities=25% Similarity=0.247 Sum_probs=24.8
Q ss_pred CCCcccccccCcccCChhHHHHHHhhhC
Q psy9959 153 VAPAHMCNYCNYTSPKRYLLARHLKSHS 180 (330)
Q Consensus 153 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 180 (330)
+.-.|+|+.|++.|+-..+|..|.|+|.
T Consensus 292 V~vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 292 VHVEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred EEeeecCCcccccccCchhhhhhhcccC
Confidence 3445899999999999999999999984
No 21
>PHA00732 hypothetical protein
Probab=98.60 E-value=2.6e-08 Score=68.30 Aligned_cols=42 Identities=21% Similarity=0.425 Sum_probs=35.9
Q ss_pred ccccCCCccccCChHHHHHHHHH-cCCCCCcccccCChhhHhhhhHhhc
Q psy9959 282 CWKCELCPYASSSQRHLESHMLI-HTDQKPYLCDHCDQIRILICVIIAI 329 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~-H~~~~p~~C~~C~~~f~~~~~l~~H 329 (330)
+|.|..||+.|.+...|..|++. |+ ++.|+.||+.|.. |.+|
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~~---l~~H 43 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYRR---LNQH 43 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeCC---hhhh
Confidence 47899999999999999999985 64 4789999999984 5555
No 22
>PHA00732 hypothetical protein
Probab=98.51 E-value=7.9e-08 Score=65.92 Aligned_cols=21 Identities=38% Similarity=0.922 Sum_probs=11.9
Q ss_pred ccccccCccccCHHHHHHHHH
Q psy9959 242 HKCSICDYASVELSKMRNHMR 262 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~ 262 (330)
|.|..|++.|.+...|..|++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhh
Confidence 455555555555555555555
No 23
>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=98.49 E-value=1.1e-07 Score=50.51 Aligned_cols=24 Identities=42% Similarity=1.032 Sum_probs=14.4
Q ss_pred HHHHHhhhCCCCCeeeccCccccc
Q psy9959 172 LARHLKSHSEERPHKCSVCERGFK 195 (330)
Q Consensus 172 l~~H~~~h~~~~~~~C~~C~~~f~ 195 (330)
|.+|++.|+++++|.|+.|++.|.
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 555666666666666666666554
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.39 E-value=5.6e-07 Score=57.32 Aligned_cols=52 Identities=27% Similarity=0.531 Sum_probs=41.7
Q ss_pred ceecCccccccCChHHHHHHHhhhcCCC-CCccccccCccccCHHHHHHHHHHhcC
Q psy9959 212 PHKCKYCESRFTTSGELVRHVRYKHTHE-KPHKCSICDYASVELSKMRNHMRSHTG 266 (330)
Q Consensus 212 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~-~~~~C~~C~k~f~~~~~L~~H~~~h~~ 266 (330)
.|.|++|++ ..+...|..|....|..+ +.+.|++|...+. .+|..|+..+++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 488999999 566778999988888765 5689999998655 489999988763
No 25
>PHA00616 hypothetical protein
Probab=98.38 E-value=2e-07 Score=55.24 Aligned_cols=30 Identities=13% Similarity=0.149 Sum_probs=25.0
Q ss_pred CccccccCccccCHHHHHHHHHHhcCCCCc
Q psy9959 241 PHKCSICDYASVELSKMRNHMRSHTGERPY 270 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~ 270 (330)
||+|+.||+.|...+.|..|++.|+|++++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 578888888888888888888888888775
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=98.36 E-value=7.5e-07 Score=56.75 Aligned_cols=53 Identities=17% Similarity=0.357 Sum_probs=39.3
Q ss_pred CccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHHcCC
Q psy9959 241 PHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTD 307 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~ 307 (330)
.|.|++|++ ..+...|..|....+...+ +.+.|++|...+. .+|..|+..+++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~-----------~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSES-----------KNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCC-----------CCccCCCchhhhh--hHHHHHHHHhcC
Confidence 488999999 5667889999877554322 2368999998655 489999987653
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.20 E-value=8.5e-07 Score=45.75 Aligned_cols=23 Identities=39% Similarity=0.736 Sum_probs=21.4
Q ss_pred cccCCCccccCChHHHHHHHHHc
Q psy9959 283 WKCELCPYASSSQRHLESHMLIH 305 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H 305 (330)
|.|+.|++.|.++..|.+|++.|
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 67999999999999999999875
No 28
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.05 E-value=1.5e-06 Score=73.29 Aligned_cols=52 Identities=33% Similarity=0.557 Sum_probs=45.3
Q ss_pred CCCccccCC--CccccCChHHHHHHHHH-cC------------------CCCCcccccCChhhHhhhhHhhcC
Q psy9959 279 GEKCWKCEL--CPYASSSQRHLESHMLI-HT------------------DQKPYLCDHCDQIRILICVIIAIR 330 (330)
Q Consensus 279 ~~k~~~C~~--C~~~F~~~~~L~~H~~~-H~------------------~~~p~~C~~C~~~f~~~~~l~~H~ 330 (330)
++|||+|++ |.|+|++...|+-|+.- |. ..|||+|++|+|++.....|.-||
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 359999998 99999999999999973 31 248999999999999999998886
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.99 E-value=5.1e-06 Score=42.77 Aligned_cols=23 Identities=39% Similarity=0.745 Sum_probs=16.3
Q ss_pred ccccccCccccCHHHHHHHHHHh
Q psy9959 242 HKCSICDYASVELSKMRNHMRSH 264 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h 264 (330)
|.|+.|++.|.+...|..|++.|
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 56777777777777777777654
No 30
>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=97.97 E-value=5.2e-06 Score=43.13 Aligned_cols=24 Identities=29% Similarity=0.646 Sum_probs=20.3
Q ss_pred cccCCCccccCChHHHHHHHHHcC
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHT 306 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~ 306 (330)
|.|++|++.|.+...|..|+++|+
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 679999999999999999999875
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.91 E-value=8.2e-06 Score=59.34 Aligned_cols=22 Identities=27% Similarity=0.590 Sum_probs=11.9
Q ss_pred cccCCCccccCChHHHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
|.|..|++.|.+...|..||+.
T Consensus 51 ~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 51 FRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp EEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCccCCCCcCHHHHHHHHcC
Confidence 4455555555555555555554
No 32
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.84 E-value=9.7e-06 Score=43.53 Aligned_cols=26 Identities=27% Similarity=0.408 Sum_probs=23.5
Q ss_pred ccccCCCccccCChHHHHHHHHHcCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTD 307 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~ 307 (330)
+|.|..|++.|.+...|..|++.|.+
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 47899999999999999999998864
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.76 E-value=1.8e-05 Score=57.49 Aligned_cols=73 Identities=19% Similarity=0.491 Sum_probs=18.6
Q ss_pred eeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHHHHHh
Q psy9959 186 KCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRSH 264 (330)
Q Consensus 186 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h 264 (330)
.|..|+..|.+...|..|+...++.. .. ....+.....+..+.+. .-...+.|..|++.|.+...|..||+.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~---~~-~~~~l~~~~~~~~~~~~--~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD---IP-DQKYLVDPNRLLNYLRK--KVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccc---cc-ccccccccccccccccc--ccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 37777777777777777776544421 11 11222233344444432 1223577888888888888888888765
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.73 E-value=7.9e-06 Score=69.13 Aligned_cols=26 Identities=23% Similarity=0.455 Sum_probs=22.6
Q ss_pred CCCCccccCCCccccCChHHHHHHHH
Q psy9959 278 EGEKCWKCELCPYASSSQRHLESHML 303 (330)
Q Consensus 278 ~~~k~~~C~~C~~~F~~~~~L~~H~~ 303 (330)
...|||+|.+|+|+|++...|+-|..
T Consensus 394 ~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 394 AKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ccCCceeccccchhhccCccceeccc
Confidence 35678999999999999999999864
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.73 E-value=3e-05 Score=40.16 Aligned_cols=24 Identities=38% Similarity=0.764 Sum_probs=15.3
Q ss_pred ccccccCccccCHHHHHHHHHHhc
Q psy9959 242 HKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
|.|++|++.|.+...|..|++.|+
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 567777777777777777776653
No 36
>KOG2231|consensus
Probab=97.67 E-value=7.2e-05 Score=70.82 Aligned_cols=47 Identities=32% Similarity=0.771 Sum_probs=26.6
Q ss_pred ecCccccccCChHHHHHHHhhhcCCCCCcccccc------CccccCHHHHHHHHHHhc
Q psy9959 214 KCKYCESRFTTSGELVRHVRYKHTHEKPHKCSIC------DYASVELSKMRNHMRSHT 265 (330)
Q Consensus 214 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C------~k~f~~~~~L~~H~~~h~ 265 (330)
.|..|...|.....|.+|++..| |.|.+| +..|.....|..|.+.+|
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 46666666666666666665533 344444 234555566666666554
No 37
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.63 E-value=4.3e-05 Score=46.26 Aligned_cols=41 Identities=22% Similarity=0.494 Sum_probs=23.8
Q ss_pred HHHHhhhcCCCCCccccccCccccCHHHHHHHHHHhcCCCC
Q psy9959 229 VRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRSHTGERP 269 (330)
Q Consensus 229 ~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~ 269 (330)
..+.+.++..+.|..|+.|+..+.+..+|++|+.++|+.+|
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 44555455567788888888888888888888888777665
No 38
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.63 E-value=5.4e-05 Score=45.85 Aligned_cols=32 Identities=28% Similarity=0.491 Sum_probs=23.5
Q ss_pred CCCccccCCCccccCChHHHHHHHHHcCCCCC
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLIHTDQKP 310 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p 310 (330)
.+.|..|++|+..+.+..+|++|+.++|+.+|
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 45567899999999999999999999888776
No 39
>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=97.54 E-value=3.7e-05 Score=41.20 Aligned_cols=25 Identities=40% Similarity=0.743 Sum_probs=15.2
Q ss_pred CccccccCccccCHHHHHHHHHHhc
Q psy9959 241 PHKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
+|.|..|++.|.+..+|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 3566666666666666666665553
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.43 E-value=0.00012 Score=38.45 Aligned_cols=24 Identities=29% Similarity=0.531 Sum_probs=22.0
Q ss_pred cccCCCccccCChHHHHHHHHHcC
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHT 306 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~ 306 (330)
|.|..|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999999875
No 41
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=97.39 E-value=5.3e-05 Score=70.42 Aligned_cols=155 Identities=27% Similarity=0.415 Sum_probs=103.0
Q ss_pred cccccccCcccCChhHHHHHHh--hhCCC--CCeeec--cCcccccchhhhhhccccccCcCceecCc--cccccCChHH
Q psy9959 156 AHMCNYCNYTSPKRYLLARHLK--SHSEE--RPHKCS--VCERGFKTIASLQNHINTHTGVKPHKCKY--CESRFTTSGE 227 (330)
Q Consensus 156 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~ 227 (330)
.+.|..|...|.....|.+|.+ .|.+. +++.|+ .|++.|.....+..|...|++..++.|.. |...+.....
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 368 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccC
Confidence 4677888888888888888888 67777 788888 68888888888888888887777666654 3333332222
Q ss_pred HH----HHHhhhcCCCCCccccc--cCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHH
Q psy9959 228 LV----RHVRYKHTHEKPHKCSI--CDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESH 301 (330)
Q Consensus 228 l~----~H~~~~H~~~~~~~C~~--C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H 301 (330)
-. .+..........+.|.. |...+.....+..|...|....++. +.|..|.+.|.....|..|
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~ 437 (467)
T COG5048 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYN-----------CKNPPCSKSFNRHYNLIPH 437 (467)
T ss_pred CCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcC-----------CCCCcchhhccCccccccc
Confidence 10 00000011223334433 6666666666666666665554433 7789999999999999999
Q ss_pred HHHcCCCCCcccccCChhhH
Q psy9959 302 MLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 302 ~~~H~~~~p~~C~~C~~~f~ 321 (330)
++.|....++.|..++....
T Consensus 438 ~~~~~~~~~~~~~~~~~~~~ 457 (467)
T COG5048 438 KKIHTNHAPLLCSILKSFRR 457 (467)
T ss_pred ccccccCCceeeccccccch
Confidence 99998888777766665544
No 42
>PRK04860 hypothetical protein; Provisional
Probab=97.37 E-value=9.1e-05 Score=58.25 Aligned_cols=39 Identities=18% Similarity=0.497 Sum_probs=34.8
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhhh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILIC 324 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~~ 324 (330)
+|.|. |+. ....+++|.++|+++++|.|..|++.|....
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 69998 997 7788999999999999999999999987543
No 43
>KOG1146|consensus
Probab=97.28 E-value=0.0001 Score=73.81 Aligned_cols=141 Identities=23% Similarity=0.431 Sum_probs=95.8
Q ss_pred ccCcccccchhhhhhcccc-ccCcCceecCccccccCChHHHHHHHhhhcC------------------------CCCCc
Q psy9959 188 SVCERGFKTIASLQNHINT-HTGVKPHKCKYCESRFTTSGELVRHVRYKHT------------------------HEKPH 242 (330)
Q Consensus 188 ~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~------------------------~~~~~ 242 (330)
.-|+..|.....+..|+.. |...+.|.|+.|+..|.....|..|+|.+|. +.++|
T Consensus 440 ~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~ 519 (1406)
T KOG1146|consen 440 TKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPY 519 (1406)
T ss_pred cchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcc
Confidence 3345555556666666543 5555778888888888888888888876442 23689
Q ss_pred cccccCccccCHHHHHHHHHHhcCCCCce-------eeecc-----------------------cCCCCccccCCCcccc
Q psy9959 243 KCSICDYASVELSKMRNHMRSHTGERPYQ-------LHCKS-----------------------HEGEKCWKCELCPYAS 292 (330)
Q Consensus 243 ~C~~C~k~f~~~~~L~~H~~~h~~~~~~~-------~h~~~-----------------------~~~~k~~~C~~C~~~F 292 (330)
.|..|...+....+|.+|+..-......+ .+.++ ....-.|.|.+|+..-
T Consensus 520 ~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yet 599 (1406)
T KOG1146|consen 520 PCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYET 599 (1406)
T ss_pred cceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchh
Confidence 99999999999999999987532111010 00000 1112358999999999
Q ss_pred CChHHHHHHHHH-cCCCCCcccccCChhhHhhhhHhh
Q psy9959 293 SSQRHLESHMLI-HTDQKPYLCDHCDQIRILICVIIA 328 (330)
Q Consensus 293 ~~~~~L~~H~~~-H~~~~p~~C~~C~~~f~~~~~l~~ 328 (330)
+-..+|+.||.. ++-..|--|-.|+..+.....|.-
T Consensus 600 niarnlrihmtss~~s~~p~~~Lq~~it~~l~~~~~~ 636 (1406)
T KOG1146|consen 600 NIARNLRIHMTASPSSSPPSLVLQQNITSSLASLLGG 636 (1406)
T ss_pred hhhhccccccccCCCCCChHHHhhhcchhhccccccC
Confidence 999999999965 555555788888887777666543
No 44
>KOG2231|consensus
Probab=97.22 E-value=0.00059 Score=64.83 Aligned_cols=121 Identities=25% Similarity=0.567 Sum_probs=84.1
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhcccc-ccCcCceecCccc---------cccCChH
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINT-HTGVKPHKCKYCE---------SRFTTSG 226 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~---------~~f~~~~ 226 (330)
+.|.+|+..|...+ ..-.|..| -.|.+...|+.|+.. |. .+.|..|- ....+..
T Consensus 100 ~~C~~C~~~~~~~~------------~~~~~~~c-~~~~s~~~Lk~H~~~~H~---~~~c~lC~~~~kif~~e~k~Yt~~ 163 (669)
T KOG2231|consen 100 HSCHICDRRFRALY------------NKKECLHC-TEFKSVENLKNHMRDQHK---LHLCSLCLQNLKIFINERKLYTRA 163 (669)
T ss_pred hhcCccccchhhhc------------ccCCCccc-cchhHHHHHHHHHHHhhh---hhccccccccceeeeeeeehehHH
Confidence 67999988774321 12368888 778888999999854 42 24444432 2234556
Q ss_pred HHHHHHhhhcCCCC----CccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCC------ccccCChH
Q psy9959 227 ELVRHVRYKHTHEK----PHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELC------PYASSSQR 296 (330)
Q Consensus 227 ~l~~H~~~~H~~~~----~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C------~~~F~~~~ 296 (330)
.|..|+..--.+++ .-.|..|...|.....|.+|++.++ |.|..| +..|....
T Consensus 164 el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h-----------------~~chfC~~~~~~neyy~~~~ 226 (669)
T KOG2231|consen 164 ELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH-----------------EFCHFCDYKTGQNEYYNDYD 226 (669)
T ss_pred HHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce-----------------eheeecCcccccchhcccch
Confidence 77888764222111 2469999999999999999999876 456666 46788889
Q ss_pred HHHHHHHHcCCCCCcccc
Q psy9959 297 HLESHMLIHTDQKPYLCD 314 (330)
Q Consensus 297 ~L~~H~~~H~~~~p~~C~ 314 (330)
.|..|.+.+| |.|.
T Consensus 227 dLe~HfR~~H----flCE 240 (669)
T KOG2231|consen 227 DLEEHFRKGH----FLCE 240 (669)
T ss_pred HHHHHhhhcC----cccc
Confidence 9999998876 6676
No 45
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.09 E-value=0.00028 Score=36.90 Aligned_cols=23 Identities=26% Similarity=0.602 Sum_probs=20.9
Q ss_pred cccCCCccccCChHHHHHHHHHc
Q psy9959 283 WKCELCPYASSSQRHLESHMLIH 305 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H 305 (330)
|.|.+|++.|.+...|..|++.+
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 57999999999999999999764
No 46
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.07 E-value=0.00034 Score=36.23 Aligned_cols=24 Identities=33% Similarity=0.801 Sum_probs=19.3
Q ss_pred cccCCCccccCChHHHHHHHHHcCC
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTD 307 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~ 307 (330)
|+|+.|+.... ...|.+|++.|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 68999999998 9999999998753
No 47
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.01 E-value=0.0007 Score=35.43 Aligned_cols=24 Identities=29% Similarity=0.556 Sum_probs=18.3
Q ss_pred ccccccCccccCHHHHHHHHHHhc
Q psy9959 242 HKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 567888888888888888887653
No 48
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.84 E-value=0.0022 Score=55.35 Aligned_cols=125 Identities=26% Similarity=0.496 Sum_probs=85.9
Q ss_pred ccccc--cCcccCChhHHHHHHhhhCCCCCeeeccCcc---cc------cchhhhhhccccccCc---C-ceecCccccc
Q psy9959 157 HMCNY--CNYTSPKRYLLARHLKSHSEERPHKCSVCER---GF------KTIASLQNHINTHTGV---K-PHKCKYCESR 221 (330)
Q Consensus 157 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---~f------~~~~~l~~H~~~h~~~---~-~~~C~~C~~~ 221 (330)
|.|+. |..+......|..|.+..++ .+.|.+|-. .| .+...|..|...-..+ + .-.|..|...
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~ 229 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIY 229 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccce
Confidence 66765 55555567788999887443 367888743 33 3456677776542211 1 1369999999
Q ss_pred cCChHHHHHHHhhhcCCCCCccccccCc-------cccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCC--Cc---
Q psy9959 222 FTTSGELVRHVRYKHTHEKPHKCSICDY-------ASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCEL--CP--- 289 (330)
Q Consensus 222 f~~~~~l~~H~~~~H~~~~~~~C~~C~k-------~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~--C~--- 289 (330)
|..-..|.+|++..|. .|-+|++ -|.+...|..|.+.-| |.|.+ |.
T Consensus 230 FYdDDEL~~HcR~~HE-----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h-----------------y~ct~qtc~~~k 287 (493)
T COG5236 230 FYDDDELRRHCRLRHE-----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH-----------------YCCTFQTCRVGK 287 (493)
T ss_pred ecChHHHHHHHHhhhh-----hhhhhhccCccchhhhhCHHHHHHHhhcCc-----------------eEEEEEEEecCc
Confidence 9999999999997663 4666665 4788889999986543 44543 42
Q ss_pred -cccCChHHHHHHHHHc
Q psy9959 290 -YASSSQRHLESHMLIH 305 (330)
Q Consensus 290 -~~F~~~~~L~~H~~~H 305 (330)
..|.....|..|+..-
T Consensus 288 ~~vf~~~~el~~h~~~~ 304 (493)
T COG5236 288 CYVFPYHTELLEHLTRF 304 (493)
T ss_pred EEEeccHHHHHHHHHHH
Confidence 4789999999998543
No 49
>KOG1146|consensus
Probab=96.82 E-value=0.00054 Score=68.91 Aligned_cols=116 Identities=20% Similarity=0.332 Sum_probs=88.1
Q ss_pred cCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHHHHHhcCCC--Cce----eeec------ccCCCCc
Q psy9959 215 CKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRSHTGER--PYQ----LHCK------SHEGEKC 282 (330)
Q Consensus 215 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~--~~~----~h~~------~~~~~k~ 282 (330)
|..|+..+.+...+..|+...|+..+.|+|+.|+..|.....|-.|||..|.+- .|. .|.+ ...+.++
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 445666677777777777777888899999999999999999999999844321 121 1221 1235678
Q ss_pred cccCCCccccCChHHHHHHHHH--cCC-----------------------------------------CCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLI--HTD-----------------------------------------QKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~--H~~-----------------------------------------~~p~~C~~C~~~ 319 (330)
|.|..|...|+....|.+|+.. |-. +.++.|.+|++-
T Consensus 519 ~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~ye 598 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYE 598 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcch
Confidence 9999999999999999999863 211 123789999999
Q ss_pred hHhhhhHhhcC
Q psy9959 320 RILICVIIAIR 330 (330)
Q Consensus 320 f~~~~~l~~H~ 330 (330)
-....+|+.|+
T Consensus 599 tniarnlrihm 609 (1406)
T KOG1146|consen 599 TNIARNLRIHM 609 (1406)
T ss_pred hhhhhcccccc
Confidence 99999999885
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.61 E-value=0.0019 Score=33.31 Aligned_cols=23 Identities=30% Similarity=0.808 Sum_probs=15.1
Q ss_pred ccccccCccccCHHHHHHHHHHhc
Q psy9959 242 HKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
|+|+.|+.... ...|..|++.|+
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 56777777776 777777777765
No 51
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.44 E-value=0.00074 Score=36.05 Aligned_cols=22 Identities=32% Similarity=0.570 Sum_probs=19.9
Q ss_pred cccCCCccccCChHHHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6799999999999999999865
No 52
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.41 E-value=0.0017 Score=33.89 Aligned_cols=23 Identities=30% Similarity=0.661 Sum_probs=15.5
Q ss_pred ccccccCccccCHHHHHHHHHHh
Q psy9959 242 HKCSICDYASVELSKMRNHMRSH 264 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h 264 (330)
|.|..|++.|.+...|..|++.+
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 45777777777777777776543
No 53
>PRK04860 hypothetical protein; Provisional
Probab=96.08 E-value=0.0024 Score=50.29 Aligned_cols=38 Identities=29% Similarity=0.488 Sum_probs=27.0
Q ss_pred ceecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCH
Q psy9959 212 PHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVEL 254 (330)
Q Consensus 212 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~ 254 (330)
+|.|. |+. ....+.+|.++ |+++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri-~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRV-VRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHH-hcCCccEECCCCCceeEEe
Confidence 57776 776 45567777775 7777778888887776543
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.82 E-value=0.002 Score=59.80 Aligned_cols=138 Identities=22% Similarity=0.331 Sum_probs=88.4
Q ss_pred CCeeeccCcccccchhhhhhccc--cccCc--CceecC--ccccccCChHHHHHHHhhhcCCCCCccccc--cCccccCH
Q psy9959 183 RPHKCSVCERGFKTIASLQNHIN--THTGV--KPHKCK--YCESRFTTSGELVRHVRYKHTHEKPHKCSI--CDYASVEL 254 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~--C~k~f~~~ 254 (330)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+.+|... |.+..++.|.. |.+.+...
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 366 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL-HTSISPAKEKLLNSSSKFSPL 366 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccc-ccCCCccccccccCccccccc
Confidence 35777777777777777777777 67777 777777 677777777777777774 66666665544 33333322
Q ss_pred HHHHHHHHHhcCCCCceeeecccCCCCccccCC--CccccCChHHHHHHHHHcCCCCC--cccccCChhhHhhhhHhhc
Q psy9959 255 SKMRNHMRSHTGERPYQLHCKSHEGEKCWKCEL--CPYASSSQRHLESHMLIHTDQKP--YLCDHCDQIRILICVIIAI 329 (330)
Q Consensus 255 ~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~--C~~~F~~~~~L~~H~~~H~~~~p--~~C~~C~~~f~~~~~l~~H 329 (330)
..-..+.... ........+.+.|.. |-..+.+...+..|...|...++ +.|..|++.|.....+..|
T Consensus 367 ~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 (467)
T COG5048 367 LNNEPPQSLQ--------QYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPH 437 (467)
T ss_pred cCCCCccchh--------hccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccc
Confidence 2211011110 011111223344544 88888899999999988887774 6778899999887777665
No 55
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.71 E-value=0.0074 Score=52.16 Aligned_cols=122 Identities=23% Similarity=0.423 Sum_probs=81.5
Q ss_pred Ceeecc--CcccccchhhhhhccccccCcCceecCccc---ccc------CChHHHHHHHhhhcCCCC----CccccccC
Q psy9959 184 PHKCSV--CERGFKTIASLQNHINTHTGVKPHKCKYCE---SRF------TTSGELVRHVRYKHTHEK----PHKCSICD 248 (330)
Q Consensus 184 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~---~~f------~~~~~l~~H~~~~H~~~~----~~~C~~C~ 248 (330)
.|.|+. |..+......|+.|.+..++ .+-|..|- +.| .+...|..|... -..+. .-.|.+|.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~-G~~e~GFKGHP~C~FC~ 227 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNG-GLEEEGFKGHPLCIFCK 227 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccC-CccccCcCCCchhhhcc
Confidence 488885 77777778889999887544 36787774 233 344556666543 11111 22599999
Q ss_pred ccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCcc-------ccCChHHHHHHHHHcCCCCCccccc--CC--
Q psy9959 249 YASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPY-------ASSSQRHLESHMLIHTDQKPYLCDH--CD-- 317 (330)
Q Consensus 249 k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~-------~F~~~~~L~~H~~~H~~~~p~~C~~--C~-- 317 (330)
+.|.+...|..|+|..|. .|-+|++ -|.+...|..|.+.- .|.|.+ |-
T Consensus 228 ~~FYdDDEL~~HcR~~HE-----------------~ChICD~v~p~~~QYFK~Y~~Le~HF~~~----hy~ct~qtc~~~ 286 (493)
T COG5236 228 IYFYDDDELRRHCRLRHE-----------------ACHICDMVGPIRYQYFKSYEDLEAHFRNA----HYCCTFQTCRVG 286 (493)
T ss_pred ceecChHHHHHHHHhhhh-----------------hhhhhhccCccchhhhhCHHHHHHHhhcC----ceEEEEEEEecC
Confidence 999999999999998653 3777765 588888999998642 277743 32
Q ss_pred --hhhHhhhhHhhc
Q psy9959 318 --QIRILICVIIAI 329 (330)
Q Consensus 318 --~~f~~~~~l~~H 329 (330)
..|.....|..|
T Consensus 287 k~~vf~~~~el~~h 300 (493)
T COG5236 287 KCYVFPYHTELLEH 300 (493)
T ss_pred cEEEeccHHHHHHH
Confidence 345555555554
No 56
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.64 E-value=0.011 Score=30.82 Aligned_cols=21 Identities=29% Similarity=0.479 Sum_probs=17.6
Q ss_pred cccCCCccccCChHHHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3699999999 67789999864
No 57
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.58 E-value=0.0079 Score=31.97 Aligned_cols=22 Identities=23% Similarity=0.691 Sum_probs=13.8
Q ss_pred eeeccCcccccchhhhhhcccc
Q psy9959 185 HKCSVCERGFKTIASLQNHINT 206 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~H~~~ 206 (330)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5566666666666666666654
No 58
>KOG2482|consensus
Probab=95.53 E-value=0.013 Score=50.64 Aligned_cols=147 Identities=19% Similarity=0.290 Sum_probs=86.5
Q ss_pred CcccccccCcccC-ChhHHHHHHhh-hCC---------------------CCCeeeccCcccccchhhhhhcccc--ccC
Q psy9959 155 PAHMCNYCNYTSP-KRYLLARHLKS-HSE---------------------ERPHKCSVCERGFKTIASLQNHINT--HTG 209 (330)
Q Consensus 155 ~~~~C~~C~~~f~-~~~~l~~H~~~-h~~---------------------~~~~~C~~C~~~f~~~~~l~~H~~~--h~~ 209 (330)
....|-.|...+. .++....|+-. |.- -..+.|-.|.+.|..+..|+.||+. |..
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrr 222 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRR 222 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCcc
Confidence 3457999976554 44555566643 321 1247899999999999999999974 544
Q ss_pred cCc--------eecC--ccccccCChHHHHHHH--hh--hcC------------CCCC--ccccccCccccCHHHHHHHH
Q psy9959 210 VKP--------HKCK--YCESRFTTSGELVRHV--RY--KHT------------HEKP--HKCSICDYASVELSKMRNHM 261 (330)
Q Consensus 210 ~~~--------~~C~--~C~~~f~~~~~l~~H~--~~--~H~------------~~~~--~~C~~C~k~f~~~~~L~~H~ 261 (330)
..| |.=. .-|++.. ....|. .+ .+. +..+ ..|-.|...+-+...|..||
T Consensus 223 inPknreYDkfyiINY~ev~ks~t---~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHm 299 (423)
T KOG2482|consen 223 INPKNREYDKFYIINYLEVGKSWT---IVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHM 299 (423)
T ss_pred cCCCccccceEEEEeHhhcCCccc---hhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHH
Confidence 333 1111 1122211 111111 00 000 1122 58999999999999999999
Q ss_pred HHhcCC------C-----Cceeeecc----cCCCCccccCCCccccCChHHHHHHHHHc
Q psy9959 262 RSHTGE------R-----PYQLHCKS----HEGEKCWKCELCPYASSSQRHLESHMLIH 305 (330)
Q Consensus 262 ~~h~~~------~-----~~~~h~~~----~~~~k~~~C~~C~~~F~~~~~L~~H~~~H 305 (330)
...|.= . -|+ ..++ ....+.-.|-.|.-.|.....|..||.-+
T Consensus 300 k~vHe~Dl~Ki~sd~~Ln~Yq-rvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 300 KIVHEFDLLKIQSDYSLNFYQ-RVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVED 357 (423)
T ss_pred HHHHHhhHHhhccccccchhh-hhhHHHHHHHHhhccccccccccccCcchhhhhcccc
Confidence 876531 1 111 0000 00112246889999999999999999643
No 59
>KOG2785|consensus
Probab=95.44 E-value=0.03 Score=49.39 Aligned_cols=49 Identities=18% Similarity=0.239 Sum_probs=41.8
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCC-----------------------CCcccccCC---hhhHhhhhHhhcC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQ-----------------------KPYLCDHCD---QIRILICVIIAIR 330 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~-----------------------~p~~C~~C~---~~f~~~~~l~~H~ 330 (330)
|-.|-.|++.|.+...-..||..|||- .-|.|-.|+ +.|.+....++|.
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM 240 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHM 240 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHH
Confidence 457999999999999999999988873 237899999 9999988888883
No 60
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.02 E-value=0.029 Score=40.89 Aligned_cols=80 Identities=14% Similarity=0.222 Sum_probs=45.7
Q ss_pred CCeeeccCcccccchhhhhhccccccCc------------CceecCccccccCChHHHHHHHhhhcCCCCCccccccCcc
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINTHTGV------------KPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYA 250 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~------------~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~ 250 (330)
-|..|+.|+-+.-....|.+-...-... ..-.|--|...|........- .-.....|.|+.|...
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~---~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD---ELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc---ccccccceeCCCCCCc
Confidence 3566777766665555444321100001 112488888888754311100 0122346899999999
Q ss_pred ccCHHHHHHHHHHhc
Q psy9959 251 SVELSKMRNHMRSHT 265 (330)
Q Consensus 251 f~~~~~L~~H~~~h~ 265 (330)
|-..-++..|...|.
T Consensus 91 FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 91 FCVDCDVFVHESLHC 105 (112)
T ss_pred cccccchhhhhhccC
Confidence 988888888887763
No 61
>KOG2482|consensus
Probab=95.00 E-value=0.032 Score=48.29 Aligned_cols=48 Identities=21% Similarity=0.232 Sum_probs=38.8
Q ss_pred cccCCCccccCChHHHHHHHHHcCC---------------------------CCCcccccCChhhHhhhhHhhcC
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTD---------------------------QKPYLCDHCDQIRILICVIIAIR 330 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~---------------------------~~p~~C~~C~~~f~~~~~l~~H~ 330 (330)
..|-.|....-+...|..||++-|. .+.-.|-.|+..|-....|+.|.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm 354 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHM 354 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhc
Confidence 5899999999999999999986432 11235999999999999998873
No 62
>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=94.92 E-value=0.019 Score=32.49 Aligned_cols=23 Identities=22% Similarity=0.483 Sum_probs=20.5
Q ss_pred ccccCCCccccCChHHHHHHHHH
Q psy9959 282 CWKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
+|.|.+|++.|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 37799999999999999999864
No 63
>KOG2893|consensus
Probab=94.79 E-value=0.013 Score=48.03 Aligned_cols=43 Identities=28% Similarity=0.572 Sum_probs=36.1
Q ss_pred ccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccc
Q psy9959 159 CNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHIN 205 (330)
Q Consensus 159 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 205 (330)
|.+|++.|.....|..|++. +-|+|.+|.+.+.+--.|..|..
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehh
Confidence 99999999999999888764 45999999998888888888743
No 64
>KOG2893|consensus
Probab=94.68 E-value=0.0061 Score=49.89 Aligned_cols=43 Identities=30% Similarity=0.611 Sum_probs=28.4
Q ss_pred cCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHHHH
Q psy9959 215 CKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNHMR 262 (330)
Q Consensus 215 C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~ 262 (330)
|.+|++.|....-|..|++..| |+|.+|.|...+-..|..|..
T Consensus 13 cwycnrefddekiliqhqkakh-----fkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKH-----FKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred eeecccccchhhhhhhhhhhcc-----ceeeeehhhhccCCCceeehh
Confidence 6677777777777766666533 677777776666666666643
No 65
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.67 E-value=0.034 Score=28.89 Aligned_cols=19 Identities=21% Similarity=0.604 Sum_probs=11.3
Q ss_pred cccccCccccCHHHHHHHHH
Q psy9959 243 KCSICDYASVELSKMRNHMR 262 (330)
Q Consensus 243 ~C~~C~k~f~~~~~L~~H~~ 262 (330)
.|+.||+.| ....|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 466666666 5555666654
No 66
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=94.60 E-value=0.018 Score=32.28 Aligned_cols=25 Identities=24% Similarity=0.852 Sum_probs=20.3
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|..||..+.... .++.||.||-.
T Consensus 2 ~~C~~CGy~y~~~~------------~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEE------------APWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCc------------CCCcCcCCCCc
Confidence 78999998876543 78999999864
No 67
>KOG2785|consensus
Probab=94.46 E-value=0.081 Score=46.77 Aligned_cols=52 Identities=25% Similarity=0.533 Sum_probs=43.5
Q ss_pred ceecCccccccCChHHHHHHHhhhcCCC----------------------CCccccccC---ccccCHHHHHHHHHH
Q psy9959 212 PHKCKYCESRFTTSGELVRHVRYKHTHE----------------------KPHKCSICD---YASVELSKMRNHMRS 263 (330)
Q Consensus 212 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~----------------------~~~~C~~C~---k~f~~~~~L~~H~~~ 263 (330)
|-.|-.|++.|.+...-..||...|.-- .-|.|-.|+ +.|.+..+.+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4679999999999999999998766422 347899998 999999999999976
No 68
>KOG4173|consensus
Probab=94.25 E-value=0.019 Score=45.97 Aligned_cols=46 Identities=28% Similarity=0.665 Sum_probs=21.9
Q ss_pred eeecc--CcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHh
Q psy9959 185 HKCSV--CERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVR 233 (330)
Q Consensus 185 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 233 (330)
|.|++ |...|.....+..|..+-++ -.|..|.+.|.+...|..|+.
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~ 127 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHIL 127 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHH
Confidence 44544 44455555444444433222 235555555555555555544
No 69
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.18 E-value=0.049 Score=39.73 Aligned_cols=96 Identities=21% Similarity=0.361 Sum_probs=57.9
Q ss_pred eeeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHhhhcC------CCCC-------ccccccCccc
Q psy9959 185 HKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRYKHT------HEKP-------HKCSICDYAS 251 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~------~~~~-------~~C~~C~k~f 251 (330)
|.|+.|+... -+-|..|+.|+-+......|.|-. +|- .+.+ ..|--|.+.|
T Consensus 2 Y~CPrC~skv--------------C~LP~~CpiCgLtLVss~HLARSy--HHLfPl~~f~ev~~~~~~~~~~C~~C~~~f 65 (112)
T TIGR00622 2 YFCPQCRAKV--------------CELPVECPICGLTLILSTHLARSY--HHLFPLKAFQEIPLEEYNGSRFCFGCQGPF 65 (112)
T ss_pred ccCCCCCCCc--------------cCCCCcCCcCCCEEeccchHHHhh--hccCCCcccccccccccCCCCcccCcCCCC
Confidence 6777776543 235678999998888888887764 231 1111 1377777777
Q ss_pred cCHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCC
Q psy9959 252 VELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCD 317 (330)
Q Consensus 252 ~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~ 317 (330)
....... .++ -.....|.|+.|...|--.-.+-.|..+| .|+.|.
T Consensus 66 ~~~~~~~------~~~---------~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh------~CPGC~ 110 (112)
T TIGR00622 66 PKPPVSP------FDE---------LKDSHRYVCAVCKNVFCVDCDVFVHESLH------CCPGCI 110 (112)
T ss_pred CCccccc------ccc---------cccccceeCCCCCCccccccchhhhhhcc------CCcCCC
Confidence 6543111 010 11223477888888888777777777666 366664
No 70
>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=93.71 E-value=0.13 Score=37.89 Aligned_cols=26 Identities=19% Similarity=0.544 Sum_probs=23.7
Q ss_pred cccc----CCCccccCChHHHHHHHHHcCC
Q psy9959 282 CWKC----ELCPYASSSQRHLESHMLIHTD 307 (330)
Q Consensus 282 ~~~C----~~C~~~F~~~~~L~~H~~~H~~ 307 (330)
-|.| ..|+..+.+...+++|++.+||
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3889 9999999999999999998775
No 71
>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=93.67 E-value=0.04 Score=40.26 Aligned_cols=30 Identities=17% Similarity=0.349 Sum_probs=25.2
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
..|+.||++|... +..|-.||+||..|...
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4699999999864 45799999999998765
No 72
>KOG4173|consensus
Probab=93.43 E-value=0.029 Score=44.97 Aligned_cols=80 Identities=28% Similarity=0.429 Sum_probs=57.5
Q ss_pred cccccc--cCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhcccc-c---------cCcCceecC--ccccc
Q psy9959 156 AHMCNY--CNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINT-H---------TGVKPHKCK--YCESR 221 (330)
Q Consensus 156 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~~~C~--~C~~~ 221 (330)
.+.|+. |...|.....+..|...-++ ..|..|.+.|.+..-|..|+.. | .|.-.|.|- -|+..
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 377876 77788777777777655333 4799999999999999999853 2 244457774 37777
Q ss_pred cCChHHHHHHHhhhcCC
Q psy9959 222 FTTSGELVRHVRYKHTH 238 (330)
Q Consensus 222 f~~~~~l~~H~~~~H~~ 238 (330)
|.+....+.|+-..|.-
T Consensus 156 FkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRMHKY 172 (253)
T ss_pred hhhhhhhhhHHHHhccC
Confidence 77777777777666643
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.01 E-value=0.05 Score=33.68 Aligned_cols=32 Identities=16% Similarity=0.393 Sum_probs=26.0
Q ss_pred cccCCCCccccCCCccccCChHHHHHHHHHcC
Q psy9959 275 KSHEGEKCWKCELCPYASSSQRHLESHMLIHT 306 (330)
Q Consensus 275 ~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~ 306 (330)
....|+--+.|+.||+.|.....+.+|...-|
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 34456777899999999999999999995433
No 74
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=92.95 E-value=0.076 Score=29.98 Aligned_cols=23 Identities=13% Similarity=0.476 Sum_probs=17.8
Q ss_pred CccccccCccccCHHHHHHHHHH
Q psy9959 241 PHKCSICDYASVELSKMRNHMRS 263 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~ 263 (330)
+|.|..|++.|.+...+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788888888888888888754
No 75
>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=92.25 E-value=0.073 Score=29.99 Aligned_cols=26 Identities=27% Similarity=0.843 Sum_probs=19.7
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.|.|..||..+... ..|..||.||..
T Consensus 2 ~~~C~~CG~i~~g~------------~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGE------------EAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECC------------cCCCcCcCCCCc
Confidence 37899999876543 267899999963
No 76
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=91.88 E-value=0.34 Score=35.67 Aligned_cols=25 Identities=32% Similarity=0.706 Sum_probs=23.4
Q ss_pred ccc----cccCccccCHHHHHHHHHHhcC
Q psy9959 242 HKC----SICDYASVELSKMRNHMRSHTG 266 (330)
Q Consensus 242 ~~C----~~C~k~f~~~~~L~~H~~~h~~ 266 (330)
|.| ..|++.+.+...+.+|++.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999998875
No 77
>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=91.23 E-value=0.13 Score=38.17 Aligned_cols=30 Identities=7% Similarity=-0.069 Sum_probs=24.9
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
..|+.||++|... +..|-.|++||..|...
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 4699999999754 45799999999998655
No 78
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.64 E-value=0.18 Score=31.28 Aligned_cols=26 Identities=15% Similarity=0.272 Sum_probs=15.9
Q ss_pred CCCCccccccCccccCHHHHHHHHHH
Q psy9959 238 HEKPHKCSICDYASVELSKMRNHMRS 263 (330)
Q Consensus 238 ~~~~~~C~~C~k~f~~~~~L~~H~~~ 263 (330)
|+.-+.|+.||..|....++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 44556666666666666666666544
No 79
>KOG2186|consensus
Probab=88.99 E-value=0.2 Score=41.72 Aligned_cols=50 Identities=16% Similarity=0.349 Sum_probs=29.4
Q ss_pred eecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCHHHHHHHHHHhcC
Q psy9959 213 HKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVELSKMRNHMRSHTG 266 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~~~L~~H~~~h~~ 266 (330)
|.|..||....-. .+.+|+...+. ..|.|-.|++.|.. .++..|...-+.
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn--~~fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN--AYFSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC--CeeEEeeccccccc-chhhhhhhhcch
Confidence 6666666665433 45566665332 45667777777766 566666655443
No 80
>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=88.77 E-value=0.32 Score=40.73 Aligned_cols=13 Identities=31% Similarity=0.623 Sum_probs=7.6
Q ss_pred CCcccccCChhhH
Q psy9959 309 KPYLCDHCDQIRI 321 (330)
Q Consensus 309 ~p~~C~~C~~~f~ 321 (330)
+++.||.||.-..
T Consensus 208 k~~PCPKCg~et~ 220 (314)
T PF06524_consen 208 KPIPCPKCGYETQ 220 (314)
T ss_pred CCCCCCCCCCccc
Confidence 5566666665443
No 81
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=88.46 E-value=0.29 Score=42.02 Aligned_cols=80 Identities=18% Similarity=0.311 Sum_probs=47.4
Q ss_pred CCeeeccCcccccchhhhhhcccc----------ccCc--CceecCccccccCChHHHHHHHhhhcCCCCCccccccCcc
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINT----------HTGV--KPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYA 250 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~----------h~~~--~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~ 250 (330)
-|..|+.|.-..-....|.+-... -.+. +.-.|-.|...|..... |.--.-+....|+|+.|...
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~---~~~~~~~ss~rY~Ce~CK~~ 397 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPV---SPFDESTSSGRYQCELCKST 397 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCC---Ccccccccccceechhhhhh
Confidence 356788887655444333322111 1111 12347778777765432 11111223456999999999
Q ss_pred ccCHHHHHHHHHHhc
Q psy9959 251 SVELSKMRNHMRSHT 265 (330)
Q Consensus 251 f~~~~~L~~H~~~h~ 265 (330)
|-..-+...|...|.
T Consensus 398 FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 398 FCSDCDVFIHETLHF 412 (421)
T ss_pred hhhhhHHHHHHHHhh
Confidence 999999999998873
No 82
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=87.88 E-value=0.26 Score=38.47 Aligned_cols=36 Identities=14% Similarity=0.380 Sum_probs=25.1
Q ss_pred CccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 281 KCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 281 k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
.-|.|+.|+..|.....+.. .+. ...|.||.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~---~d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL---LDM-DGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh---cCC-CCcEECCCCCCEE
Confidence 34899999999996555432 011 3349999999754
No 83
>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=87.78 E-value=0.21 Score=28.81 Aligned_cols=34 Identities=12% Similarity=0.282 Sum_probs=24.3
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhH
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~ 321 (330)
+.|+.|+..|.-..... ........|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEECCCCCCEEE
Confidence 57999999998665532 12223589999998874
No 84
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=87.71 E-value=0.44 Score=34.87 Aligned_cols=13 Identities=31% Similarity=0.761 Sum_probs=6.0
Q ss_pred CCeeeccCccccc
Q psy9959 183 RPHKCSVCERGFK 195 (330)
Q Consensus 183 ~~~~C~~C~~~f~ 195 (330)
.|..|+.||..|.
T Consensus 25 ~PivCP~CG~~~~ 37 (108)
T PF09538_consen 25 DPIVCPKCGTEFP 37 (108)
T ss_pred CCccCCCCCCccC
Confidence 3444555544443
No 85
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=87.34 E-value=0.29 Score=25.67 Aligned_cols=10 Identities=30% Similarity=0.687 Sum_probs=6.4
Q ss_pred ccCCCccccC
Q psy9959 284 KCELCPYASS 293 (330)
Q Consensus 284 ~C~~C~~~F~ 293 (330)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 3777776664
No 86
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=87.26 E-value=0.34 Score=29.06 Aligned_cols=26 Identities=15% Similarity=0.453 Sum_probs=20.8
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|..||..|.-. ...+..|+.||..
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----------SKDVVRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----------CCCceECCCCCce
Confidence 7899999988844 3456899999964
No 87
>PF15269 zf-C2H2_7: Zinc-finger
Probab=86.89 E-value=0.51 Score=27.87 Aligned_cols=22 Identities=36% Similarity=0.834 Sum_probs=20.4
Q ss_pred cccCCCccccCChHHHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
|+|-.|..+..-+++|..||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 8899999999999999999974
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=86.89 E-value=0.38 Score=37.99 Aligned_cols=29 Identities=14% Similarity=0.365 Sum_probs=24.7
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
-|.|+.|+..|+.-.++. --|.||.||..
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred eEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 388999999999988885 25999999965
No 89
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=86.45 E-value=0.32 Score=39.23 Aligned_cols=30 Identities=17% Similarity=0.492 Sum_probs=24.5
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
-|.|+.|++.|+.-..+. --|.|+.||...
T Consensus 117 ~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred EEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 388999999999888763 259999999643
No 90
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=86.37 E-value=0.14 Score=42.64 Aligned_cols=13 Identities=38% Similarity=0.795 Sum_probs=9.9
Q ss_pred ccccccCccccCH
Q psy9959 242 HKCSICDYASVEL 254 (330)
Q Consensus 242 ~~C~~C~k~f~~~ 254 (330)
..|+.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 4799999887644
No 91
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=86.03 E-value=0.43 Score=27.41 Aligned_cols=34 Identities=12% Similarity=0.303 Sum_probs=25.1
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhH
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~ 321 (330)
..|+.|+..|.-...- +-.+.+..+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcEEECCCCCcEee
Confidence 3699999999876542 123455789999998884
No 92
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=85.83 E-value=0.35 Score=29.58 Aligned_cols=28 Identities=18% Similarity=0.454 Sum_probs=20.7
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.|.|..||+.|.. -.......|++||..
T Consensus 6 ~Y~C~~Cg~~~~~----------~~~~~~irCp~Cg~r 33 (49)
T COG1996 6 EYKCARCGREVEL----------DQETRGIRCPYCGSR 33 (49)
T ss_pred EEEhhhcCCeeeh----------hhccCceeCCCCCcE
Confidence 4899999999921 123456899999964
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=85.80 E-value=0.51 Score=37.29 Aligned_cols=23 Identities=35% Similarity=1.126 Sum_probs=19.9
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCD 317 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~ 317 (330)
.|.|++||.. |.|+.|-.||.||
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 6899999963 5678899999999
No 94
>KOG2807|consensus
Probab=85.24 E-value=1.1 Score=39.02 Aligned_cols=26 Identities=15% Similarity=0.180 Sum_probs=22.4
Q ss_pred CCccccccCccccCHHHHHHHHHHhc
Q psy9959 240 KPHKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 240 ~~~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
..|.|..|...|-..-+...|...|.
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLHN 369 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhhc
Confidence 45899999999999999999988873
No 95
>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=84.97 E-value=0.76 Score=27.53 Aligned_cols=25 Identities=24% Similarity=0.388 Sum_probs=16.5
Q ss_pred CCccccCCCccccCCh----HHHHHHHHH
Q psy9959 280 EKCWKCELCPYASSSQ----RHLESHMLI 304 (330)
Q Consensus 280 ~k~~~C~~C~~~F~~~----~~L~~H~~~ 304 (330)
....+|.+|++.+... +.|.+|++.
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 4446899999998874 899999943
No 96
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=84.70 E-value=0.73 Score=29.22 Aligned_cols=33 Identities=18% Similarity=0.303 Sum_probs=21.7
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.|.|+.||..-..+..-- |.+ ..+|.|+.||..
T Consensus 27 ~F~CPnCGe~~I~Rc~~C---Rk~--g~~Y~Cp~CGF~ 59 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKC---RKL--GNPYRCPKCGFE 59 (61)
T ss_pred EeeCCCCCceeeehhhhH---HHc--CCceECCCcCcc
Confidence 388999996555443221 222 458999999953
No 97
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=84.32 E-value=0.8 Score=28.28 Aligned_cols=24 Identities=29% Similarity=0.495 Sum_probs=19.6
Q ss_pred cccCCCccccCCh-----HHHHHHHH-HcC
Q psy9959 283 WKCELCPYASSSQ-----RHLESHML-IHT 306 (330)
Q Consensus 283 ~~C~~C~~~F~~~-----~~L~~H~~-~H~ 306 (330)
-.|.+|++.+... ++|.+|++ .|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4699999999765 69999998 563
No 98
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.23 E-value=0.6 Score=33.52 Aligned_cols=29 Identities=3% Similarity=-0.204 Sum_probs=23.6
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
.|+.||+.|... +..|..||+||++|+..
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~P~s 39 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSYPRS 39 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccchHH
Confidence 499999999743 46799999999999654
No 99
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=84.10 E-value=0.22 Score=30.26 Aligned_cols=30 Identities=17% Similarity=0.281 Sum_probs=21.9
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhH
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~ 321 (330)
.|.|+.||..|...... ....|+.||..+.
T Consensus 3 ~y~C~~CG~~~~~~~~~----------~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYG----------TGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCC----------CceECCCCCCeEE
Confidence 48899999988754221 1689999997654
No 100
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=84.02 E-value=0.51 Score=39.35 Aligned_cols=43 Identities=28% Similarity=0.518 Sum_probs=24.2
Q ss_pred CCeeeccCcccccchhhhhhcccc----------ccCcCc-----eecCccccccCCh
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINT----------HTGVKP-----HKCKYCESRFTTS 225 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~----------h~~~~~-----~~C~~C~~~f~~~ 225 (330)
+.+.|+.|++.|.+..-+....+. ..+..| ..|+.||..|...
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 445677777766665444433332 112222 5799999876644
No 101
>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=84.00 E-value=0.24 Score=30.93 Aligned_cols=29 Identities=14% Similarity=0.460 Sum_probs=21.1
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
|+|..||..|.....+ +. ..+-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~------~~-~~~~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQKM------SD-DPLATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEec------CC-CCCCCCCCCCC
Confidence 8999999999855322 11 35567999996
No 102
>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=83.97 E-value=0.58 Score=34.84 Aligned_cols=10 Identities=20% Similarity=0.408 Sum_probs=3.9
Q ss_pred eecCcccccc
Q psy9959 213 HKCKYCESRF 222 (330)
Q Consensus 213 ~~C~~C~~~f 222 (330)
..|++||..|
T Consensus 27 ~vcP~cg~~~ 36 (129)
T TIGR02300 27 AVSPYTGEQF 36 (129)
T ss_pred ccCCCcCCcc
Confidence 3344444333
No 103
>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=83.79 E-value=0.23 Score=29.12 Aligned_cols=29 Identities=21% Similarity=0.537 Sum_probs=21.5
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
|+|..||..|.-.... . ....-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~------~-~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKI------S-DDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEec------C-CCCCCCCCCCCC
Confidence 8899999998755433 1 145678999997
No 104
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=83.33 E-value=1.5 Score=34.20 Aligned_cols=36 Identities=17% Similarity=0.416 Sum_probs=19.5
Q ss_pred CCCeeeccCcccccchhhhhh-ccccccCcCceecCcccccc
Q psy9959 182 ERPHKCSVCERGFKTIASLQN-HINTHTGVKPHKCKYCESRF 222 (330)
Q Consensus 182 ~~~~~C~~C~~~f~~~~~l~~-H~~~h~~~~~~~C~~C~~~f 222 (330)
...|.|+.|+..|.....+.. +. ...|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d~-----~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLDM-----DGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcCC-----CCcEECCCCCCEE
Confidence 345777777776665443332 11 1237777776554
No 105
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=83.20 E-value=1.1 Score=44.19 Aligned_cols=13 Identities=23% Similarity=0.657 Sum_probs=7.8
Q ss_pred CCCCccccccCcc
Q psy9959 238 HEKPHKCSICDYA 250 (330)
Q Consensus 238 ~~~~~~C~~C~k~ 250 (330)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 3456667777654
No 106
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=82.91 E-value=1.2 Score=25.39 Aligned_cols=33 Identities=18% Similarity=0.545 Sum_probs=16.1
Q ss_pred eecCccccccCChHHHHHHHhhhcCCCCCccccccCccc
Q psy9959 213 HKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYAS 251 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f 251 (330)
..|+.|+..|.-..... -......+|+.|+..|
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 35666666655444321 1223345666666555
No 107
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=82.44 E-value=0.37 Score=47.47 Aligned_cols=36 Identities=19% Similarity=0.424 Sum_probs=22.7
Q ss_pred ccCCCccccC---ChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 284 KCELCPYASS---SQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 284 ~C~~C~~~F~---~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
+|+.|+..++ ....|.-|.--|....|..|+.||-.
T Consensus 446 ~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 446 ECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred cCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 4666665443 23344445444566788999999965
No 108
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=82.08 E-value=0.43 Score=32.87 Aligned_cols=11 Identities=27% Similarity=0.543 Sum_probs=5.3
Q ss_pred ccccccCcccc
Q psy9959 242 HKCSICDYASV 252 (330)
Q Consensus 242 ~~C~~C~k~f~ 252 (330)
+.|..||..|.
T Consensus 54 W~C~kCg~~fA 64 (89)
T COG1997 54 WKCRKCGAKFA 64 (89)
T ss_pred EEcCCCCCeec
Confidence 45555554443
No 109
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=81.73 E-value=0.37 Score=37.75 Aligned_cols=20 Identities=20% Similarity=0.529 Sum_probs=14.6
Q ss_pred CeeeccCcccccchhhhhhc
Q psy9959 184 PHKCSVCERGFKTIASLQNH 203 (330)
Q Consensus 184 ~~~C~~C~~~f~~~~~l~~H 203 (330)
.+.|+.||++|.+...+..-
T Consensus 28 ~~~c~~c~~~f~~~e~~~~~ 47 (154)
T PRK00464 28 RRECLACGKRFTTFERVELV 47 (154)
T ss_pred eeeccccCCcceEeEeccCc
Confidence 37899999988877655433
No 110
>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=81.59 E-value=1.6 Score=34.47 Aligned_cols=31 Identities=13% Similarity=0.216 Sum_probs=17.7
Q ss_pred CCCeeeccCcccccchhhhhhccccccCcCceecCccccc
Q psy9959 182 ERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESR 221 (330)
Q Consensus 182 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 221 (330)
..-|.|+.|+..|.....+. ..|.|+.||..
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 34466666666665555553 13666666654
No 111
>KOG2186|consensus
Probab=81.50 E-value=0.69 Score=38.67 Aligned_cols=48 Identities=23% Similarity=0.474 Sum_probs=36.0
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccccc
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTH 207 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 207 (330)
|.|..||..... -.+.+|+..-++ .-|.|-.|++.|.. .++..|..--
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhc
Confidence 789999987754 456778877666 56899999999987 6677776543
No 112
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=81.42 E-value=0.59 Score=36.58 Aligned_cols=16 Identities=38% Similarity=0.731 Sum_probs=12.3
Q ss_pred eecCccccccCChHHH
Q psy9959 213 HKCKYCESRFTTSGEL 228 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l 228 (330)
++|+.||++|.+...+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 7888999888776544
No 113
>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=81.03 E-value=0.43 Score=28.31 Aligned_cols=29 Identities=21% Similarity=0.621 Sum_probs=22.2
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
|+|..||..|.....+ .. ..+-.|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~------~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSI------SE-DDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEc------CC-CCCCcCCCCCC
Confidence 8999999999865442 22 56689999997
No 114
>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=80.81 E-value=0.49 Score=25.73 Aligned_cols=26 Identities=27% Similarity=0.615 Sum_probs=13.9
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
+|+.|+..+.. ....-|.|+.|+..|
T Consensus 4 ~Cp~C~se~~y-----------~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGELLVCPECGHEW 29 (30)
T ss_dssp --TTT-----E-----------E-SSSEEETTTTEEE
T ss_pred CCCCCCCccee-----------ccCCEEeCCcccccC
Confidence 59999988877 345569999998654
No 115
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=78.39 E-value=1.9 Score=23.86 Aligned_cols=27 Identities=19% Similarity=0.481 Sum_probs=17.5
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
|.|..||..+.-. ...+-+|+.||..-
T Consensus 1 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~RI 27 (32)
T PF03604_consen 1 YICGECGAEVELK-----------PGDPIRCPECGHRI 27 (32)
T ss_dssp EBESSSSSSE-BS-----------TSSTSSBSSSS-SE
T ss_pred CCCCcCCCeeEcC-----------CCCcEECCcCCCeE
Confidence 5788899887722 23467899998653
No 116
>PHA00626 hypothetical protein
Probab=77.81 E-value=0.35 Score=30.13 Aligned_cols=14 Identities=29% Similarity=0.591 Sum_probs=11.5
Q ss_pred ccccCCCccccCCh
Q psy9959 282 CWKCELCPYASSSQ 295 (330)
Q Consensus 282 ~~~C~~C~~~F~~~ 295 (330)
.|.|+.||..|+.-
T Consensus 23 rYkCkdCGY~ft~~ 36 (59)
T PHA00626 23 DYVCCDCGYNDSKD 36 (59)
T ss_pred ceEcCCCCCeechh
Confidence 38999999999853
No 117
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=77.34 E-value=2.2 Score=22.28 Aligned_cols=19 Identities=21% Similarity=0.534 Sum_probs=15.7
Q ss_pred ccCCCccccCChHHHHHHHH
Q psy9959 284 KCELCPYASSSQRHLESHML 303 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~ 303 (330)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 599999998 6678888875
No 118
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=77.20 E-value=2 Score=27.39 Aligned_cols=32 Identities=19% Similarity=0.386 Sum_probs=20.6
Q ss_pred ccccCCCccc-cCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 282 CWKCELCPYA-SSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 282 ~~~C~~C~~~-F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.|.|+.||.. -.+-..- |.. -.+|.|+.||..
T Consensus 25 ~F~CPnCG~~~I~RC~~C----Rk~--~~~Y~CP~CGF~ 57 (59)
T PRK14890 25 KFLCPNCGEVIIYRCEKC----RKQ--SNPYTCPKCGFE 57 (59)
T ss_pred EeeCCCCCCeeEeechhH----Hhc--CCceECCCCCCc
Confidence 3889999987 3322221 222 368999999964
No 119
>KOG4124|consensus
Probab=76.77 E-value=0.52 Score=41.21 Aligned_cols=63 Identities=24% Similarity=0.352 Sum_probs=43.6
Q ss_pred CCccccc--cCccccCHHHHHHHHHHhcC------CCCceeeecccCCCCccccCCCccccCChHHHHHHH
Q psy9959 240 KPHKCSI--CDYASVELSKMRNHMRSHTG------ERPYQLHCKSHEGEKCWKCELCPYASSSQRHLESHM 302 (330)
Q Consensus 240 ~~~~C~~--C~k~f~~~~~L~~H~~~h~~------~~~~~~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~ 302 (330)
++|+|+. |.+.+.....|+.|...-|. .+.-.-|.......|+|+|++|.++++...+|.-|.
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 6788865 99999998888887644322 111122444556678899999999988777766654
No 120
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=76.75 E-value=2.6 Score=34.00 Aligned_cols=30 Identities=17% Similarity=0.371 Sum_probs=16.2
Q ss_pred CCeeeccCcccccchhhhhhccccccCcCceecCccccc
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESR 221 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 221 (330)
.-|.|+.|+..|.....+. ..|.|+.||..
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCC
Confidence 3466666666655555442 13666666644
No 121
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=76.62 E-value=1.3 Score=33.59 Aligned_cols=29 Identities=21% Similarity=0.340 Sum_probs=17.9
Q ss_pred CCCccccCCCccccCChHHHHHHHHHcCCCCC
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLIHTDQKP 310 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p 310 (330)
......|-.||+.|.. |.+|++.|+|-.|
T Consensus 69 ~~d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 69 TPDYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp -SS-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred ccCeeEEccCCcccch---HHHHHHHccCCCH
Confidence 3344689999999985 4899999988765
No 122
>KOG2807|consensus
Probab=75.72 E-value=4 Score=35.61 Aligned_cols=72 Identities=19% Similarity=0.427 Sum_probs=40.8
Q ss_pred CCccccccCccccCHHHHHHHHHHhcCCCCcee----------eeccc----CCCCccccCCCccccCChHHHHHHHHHc
Q psy9959 240 KPHKCSICDYASVELSKMRNHMRSHTGERPYQL----------HCKSH----EGEKCWKCELCPYASSSQRHLESHMLIH 305 (330)
Q Consensus 240 ~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~----------h~~~~----~~~k~~~C~~C~~~F~~~~~L~~H~~~H 305 (330)
-|-.|+.|+.+......|.+-.+---.-+||.. +...- .+.-.|.|..|.-.|-.--....|-..|
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhh
Confidence 356788888777777776654433333333321 11111 2233477777777777666666666555
Q ss_pred CCCCCcccccCC
Q psy9959 306 TDQKPYLCDHCD 317 (330)
Q Consensus 306 ~~~~p~~C~~C~ 317 (330)
.|+.|.
T Consensus 369 ------~CpgCe 374 (378)
T KOG2807|consen 369 ------NCPGCE 374 (378)
T ss_pred ------cCCCcC
Confidence 566664
No 123
>PRK04023 DNA polymerase II large subunit; Validated
Probab=75.01 E-value=2.6 Score=42.58 Aligned_cols=11 Identities=18% Similarity=0.634 Sum_probs=7.8
Q ss_pred CccccccCccc
Q psy9959 241 PHKCSICDYAS 251 (330)
Q Consensus 241 ~~~C~~C~k~f 251 (330)
++.|+.||..-
T Consensus 663 ~y~CPKCG~El 673 (1121)
T PRK04023 663 EDECEKCGREP 673 (1121)
T ss_pred CCcCCCCCCCC
Confidence 46788888654
No 124
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=74.68 E-value=1.9 Score=37.96 Aligned_cols=29 Identities=24% Similarity=0.549 Sum_probs=21.3
Q ss_pred cccCCCCccccCCCc-cccCChHHHHHHHH
Q psy9959 275 KSHEGEKCWKCELCP-YASSSQRHLESHML 303 (330)
Q Consensus 275 ~~~~~~k~~~C~~C~-~~F~~~~~L~~H~~ 303 (330)
+.|.-.+.|.|.+|| +.+.-+..+-+|..
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhhh
Confidence 455556678888888 77777778888763
No 125
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=73.91 E-value=3.8 Score=35.44 Aligned_cols=23 Identities=30% Similarity=0.587 Sum_probs=11.8
Q ss_pred cccCCCccccCChHHHHHHHHHc
Q psy9959 283 WKCELCPYASSSQRHLESHMLIH 305 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H 305 (330)
|+|..|...|-.--..-.|...|
T Consensus 389 Y~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 389 YQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred eechhhhhhhhhhhHHHHHHHHh
Confidence 55555555555555544544444
No 126
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=72.58 E-value=2.6 Score=33.34 Aligned_cols=11 Identities=36% Similarity=0.954 Sum_probs=5.2
Q ss_pred CcCceecCccc
Q psy9959 209 GVKPHKCKYCE 219 (330)
Q Consensus 209 ~~~~~~C~~C~ 219 (330)
|+.|-.|++||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 34444455554
No 127
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=72.08 E-value=0.84 Score=30.61 Aligned_cols=41 Identities=20% Similarity=0.348 Sum_probs=26.1
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccc--cCChhhHhhhh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCD--HCDQIRILICV 325 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~--~C~~~f~~~~~ 325 (330)
+.|+.||....-..+-..+-. ..++-|+|. .||.+|.....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEE
Confidence 569999977644333222222 445668898 89999976543
No 128
>PF14353 CpXC: CpXC protein
Probab=71.51 E-value=0.31 Score=37.01 Aligned_cols=19 Identities=26% Similarity=0.562 Sum_probs=9.2
Q ss_pred eeeccCcccccchhhhhhc
Q psy9959 185 HKCSVCERGFKTIASLQNH 203 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~H 203 (330)
|.|+.||..|.-...+.-|
T Consensus 39 ~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EECCCCCCceecCCCEEEE
Confidence 5555555555444433333
No 129
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=71.10 E-value=3.9 Score=31.78 Aligned_cols=51 Identities=24% Similarity=0.360 Sum_probs=23.4
Q ss_pred CCCccccccCcccc------CHHHHHHHHHHhcCCCCceeeecccCCCCccccCCCcc
Q psy9959 239 EKPHKCSICDYASV------ELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCELCPY 290 (330)
Q Consensus 239 ~~~~~C~~C~k~f~------~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~C~~ 290 (330)
.--.+|..|+|.|- ..+.+..|+.. +.-+....|.....|+-.++|-.||-
T Consensus 12 ~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~-srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 12 SCVVKCNTCNKWFCNGRGNTSGSHIVNHLVR-SRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp CCEEEETTTTEEEES--TTSSS-HHHHHHHH-HT---EEE-TTSTT-S-B---TTT--
T ss_pred ccEeEcCCCCcEeecCCCCCcccHHHHHHHH-ccCCceeeCCCCCCCCcEEEEEecCC
Confidence 33456777777773 44666777643 12223344555556777788988984
No 130
>KOG2071|consensus
Probab=70.54 E-value=2.9 Score=39.67 Aligned_cols=23 Identities=39% Similarity=0.801 Sum_probs=14.2
Q ss_pred CceecCccccccCChHHHHHHHh
Q psy9959 211 KPHKCKYCESRFTTSGELVRHVR 233 (330)
Q Consensus 211 ~~~~C~~C~~~f~~~~~l~~H~~ 233 (330)
.+..|..||.+|........|+.
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md 439 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMD 439 (579)
T ss_pred CcchhcccccccccchhhhhHhh
Confidence 44566666666666666655554
No 131
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=70.20 E-value=2.2 Score=32.07 Aligned_cols=13 Identities=31% Similarity=0.841 Sum_probs=6.7
Q ss_pred eecCccccccCCh
Q psy9959 213 HKCKYCESRFTTS 225 (330)
Q Consensus 213 ~~C~~C~~~f~~~ 225 (330)
++|..||+.|..-
T Consensus 2 H~Ct~Cg~~f~dg 14 (131)
T PF09845_consen 2 HQCTKCGRVFEDG 14 (131)
T ss_pred cccCcCCCCcCCC
Confidence 4555555555443
No 132
>KOG2593|consensus
Probab=70.16 E-value=1.6 Score=39.69 Aligned_cols=38 Identities=16% Similarity=0.462 Sum_probs=27.2
Q ss_pred CCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 278 EGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 278 ~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
+...-|.|+.|.+.|+....|+- +-...-.|.|..|+-
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHHh---hcccCceEEEecCCC
Confidence 44556899999999998776643 222234699999983
No 133
>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=70.11 E-value=2.7 Score=31.96 Aligned_cols=23 Identities=30% Similarity=0.557 Sum_probs=9.9
Q ss_pred ccccccCccccCHHHHHHHHHHhcCC
Q psy9959 242 HKCSICDYASVELSKMRNHMRSHTGE 267 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h~~~ 267 (330)
..|-.||+.|... ++|++.|+|-
T Consensus 73 i~clecGk~~k~L---krHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT-S
T ss_pred eEEccCCcccchH---HHHHHHccCC
Confidence 3455555555542 5555555554
No 134
>KOG2636|consensus
Probab=69.94 E-value=4.6 Score=36.87 Aligned_cols=39 Identities=28% Similarity=0.389 Sum_probs=21.0
Q ss_pred ccccchhccccCccCCCcccccccC-cccCChhHHHHHHh
Q psy9959 139 DEKPKLSKLNKKQVVAPAHMCNYCN-YTSPKRYLLARHLK 177 (330)
Q Consensus 139 ~~~~~~~~~~~~~~~~~~~~C~~C~-~~f~~~~~l~~H~~ 177 (330)
+.+|.+..+-+.......|.|.+|| +++..+.++.+|..
T Consensus 384 DGkPiPyWLyKLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 384 DGKPIPYWLYKLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred CCCcCchHHHhhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 3344444444444445556666666 56666666666653
No 135
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=69.60 E-value=1.6 Score=29.24 Aligned_cols=17 Identities=41% Similarity=0.735 Sum_probs=8.6
Q ss_pred CCeeec--cCcccccchhh
Q psy9959 183 RPHKCS--VCERGFKTIAS 199 (330)
Q Consensus 183 ~~~~C~--~C~~~f~~~~~ 199 (330)
.-+.|. .||.+|.+...
T Consensus 26 ~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 26 RYHQCQNVNCSATFITYES 44 (72)
T ss_pred eeeecCCCCCCCEEEEEEE
Confidence 335555 55555554443
No 136
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=69.55 E-value=4.7 Score=23.70 Aligned_cols=24 Identities=25% Similarity=0.307 Sum_probs=19.6
Q ss_pred cccCCCccccC--ChHHHHHHHHHcC
Q psy9959 283 WKCELCPYASS--SQRHLESHMLIHT 306 (330)
Q Consensus 283 ~~C~~C~~~F~--~~~~L~~H~~~H~ 306 (330)
-.|+.||..|. ....-..|.+.|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 47999999988 4777888888774
No 137
>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=69.11 E-value=1.9 Score=22.02 Aligned_cols=8 Identities=38% Similarity=1.414 Sum_probs=4.1
Q ss_pred CcccccCC
Q psy9959 310 PYLCDHCD 317 (330)
Q Consensus 310 p~~C~~C~ 317 (330)
+|.||.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 35555554
No 138
>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=68.72 E-value=2.4 Score=34.52 Aligned_cols=44 Identities=20% Similarity=0.275 Sum_probs=0.0
Q ss_pred cccccccccchhccccCccCCCcccccccCc-ccCChhHHHHHHh
Q psy9959 134 IEEDVDEKPKLSKLNKKQVVAPAHMCNYCNY-TSPKRYLLARHLK 177 (330)
Q Consensus 134 ~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~-~f~~~~~l~~H~~ 177 (330)
..-..+.+|.+..+-+.......|.|.+||. +|.-+..+.+|..
T Consensus 79 lPLG~DGkPIPyWLYKLhGL~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 79 LPLGWDGKPIPYWLYKLHGLGVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp ---------------------------------------------
T ss_pred CCCCCCCCcccHHHHHHhCCCCeeeeEeCCCcceecHHHHHHhcC
Confidence 3334445555555555555566677777753 3445556666653
No 139
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=67.10 E-value=3.2 Score=31.21 Aligned_cols=25 Identities=20% Similarity=0.189 Sum_probs=21.6
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCC
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKP 310 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p 310 (330)
..|-.||+.|. +|++|+.+|+|-.|
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCH
Confidence 57999999997 68999999998765
No 140
>KOG4124|consensus
Probab=66.98 E-value=1.3 Score=38.81 Aligned_cols=51 Identities=29% Similarity=0.486 Sum_probs=38.8
Q ss_pred CCCccccCC--CccccCChHHHHHHHHH-cC--------------C----CCCcccccCChhhHhhhhHhhc
Q psy9959 279 GEKCWKCEL--CPYASSSQRHLESHMLI-HT--------------D----QKPYLCDHCDQIRILICVIIAI 329 (330)
Q Consensus 279 ~~k~~~C~~--C~~~F~~~~~L~~H~~~-H~--------------~----~~p~~C~~C~~~f~~~~~l~~H 329 (330)
..++|+|.+ |.+.+.....|..|... |. + .|||+|++|.+.+.....|.-|
T Consensus 346 ~~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 346 VDKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred ecCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 357789977 99999998899888753 21 1 4789999999998876655444
No 141
>KOG2593|consensus
Probab=66.60 E-value=5.2 Score=36.46 Aligned_cols=39 Identities=18% Similarity=0.447 Sum_probs=25.8
Q ss_pred CCCCCeeeccCcccccchhhhhhccccccCcCceecCccccc
Q psy9959 180 SEERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESR 221 (330)
Q Consensus 180 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 221 (330)
+....|.|+.|.+.|.....++.--. ....|.|..|+..
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L~~~---~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQLLDN---ETGEFHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHHHhhcc---cCceEEEecCCCc
Confidence 34556899999998877766553321 1235889888744
No 142
>PF15269 zf-C2H2_7: Zinc-finger
Probab=65.65 E-value=5 Score=23.79 Aligned_cols=22 Identities=36% Similarity=0.621 Sum_probs=18.6
Q ss_pred ccccccCccccCHHHHHHHHHH
Q psy9959 242 HKCSICDYASVELSKMRNHMRS 263 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~ 263 (330)
|+|-+|..+...++.|..||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6788888888888999998864
No 143
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=65.54 E-value=2.1 Score=32.84 Aligned_cols=41 Identities=24% Similarity=0.357 Sum_probs=23.7
Q ss_pred CCCccccCCCccccCChH---HHH--HHHHHcC----CCCCcccccCChh
Q psy9959 279 GEKCWKCELCPYASSSQR---HLE--SHMLIHT----DQKPYLCDHCDQI 319 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~---~L~--~H~~~H~----~~~p~~C~~C~~~ 319 (330)
....|.|..||..|.... .|- .+.-+|- ....+.||.||..
T Consensus 67 ~p~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~ 116 (135)
T PRK03824 67 EEAVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSR 116 (135)
T ss_pred cceEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCC
Confidence 335589999999887641 110 0111121 1344789999954
No 144
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=65.51 E-value=2.7 Score=31.13 Aligned_cols=29 Identities=17% Similarity=0.268 Sum_probs=20.8
Q ss_pred CCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
-.-.+.|..||..|.... ..|.||.||..
T Consensus 67 vp~~~~C~~Cg~~~~~~~------------~~~~CP~Cgs~ 95 (113)
T PRK12380 67 KPAQAWCWDCSQVVEIHQ------------HDAQCPHCHGE 95 (113)
T ss_pred eCcEEEcccCCCEEecCC------------cCccCcCCCCC
Confidence 334478999998887542 34679999953
No 145
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=64.79 E-value=4.1 Score=28.96 Aligned_cols=26 Identities=15% Similarity=0.266 Sum_probs=18.6
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCD 317 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~ 317 (330)
|++|..||..|..-+.+.. --|+.||
T Consensus 2 pH~CtrCG~vf~~g~~~il----------~GCp~CG 27 (112)
T COG3364 2 PHQCTRCGEVFDDGSEEIL----------SGCPKCG 27 (112)
T ss_pred CceecccccccccccHHHH----------ccCcccc
Confidence 4689999999998543322 3588887
No 146
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=63.93 E-value=2.8 Score=32.32 Aligned_cols=34 Identities=18% Similarity=0.491 Sum_probs=25.8
Q ss_pred CccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 281 KCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 281 k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
-+|.|. |+..|.+. ++|-.+-.|+ -|.|..|+-.
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 358999 99987765 5565555566 7999999864
No 147
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=63.85 E-value=2.5 Score=21.38 Aligned_cols=6 Identities=33% Similarity=1.309 Sum_probs=3.5
Q ss_pred cccCCh
Q psy9959 313 CDHCDQ 318 (330)
Q Consensus 313 C~~C~~ 318 (330)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 666654
No 148
>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=63.47 E-value=2.8 Score=31.10 Aligned_cols=55 Identities=16% Similarity=0.261 Sum_probs=31.7
Q ss_pred CHHHHHHHHHHhcCCCCce-eeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 253 ELSKMRNHMRSHTGERPYQ-LHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 253 ~~~~L~~H~~~h~~~~~~~-~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
....|+.-...-....+.. ....+..-.-.+.|..||..|..... .+.||.||-.
T Consensus 40 ~p~~L~faf~~~~~~t~~ega~L~I~~~p~~~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (115)
T TIGR00100 40 NPSQLQFAFEVVREGTVAEGAKLNIEDEPVECECEDCSEEVSPEID------------LYRCPKCHGI 95 (115)
T ss_pred CHHHHHHHHHHHhCCCccCCCEEEEEeeCcEEEcccCCCEEecCCc------------CccCcCCcCC
Confidence 4445555544443333321 23333334445789999988876432 4789999964
No 149
>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=63.08 E-value=4.9 Score=33.38 Aligned_cols=30 Identities=23% Similarity=0.566 Sum_probs=22.8
Q ss_pred CCCCccccCCCccccCChHHHHHHHHHcCC
Q psy9959 278 EGEKCWKCELCPYASSSQRHLESHMLIHTD 307 (330)
Q Consensus 278 ~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~ 307 (330)
..+..|.|+.|+|.|.-..-.+.|+..-|.
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 455679999999999999999999976443
No 150
>KOG4167|consensus
Probab=62.90 E-value=1.7 Score=42.00 Aligned_cols=25 Identities=20% Similarity=0.364 Sum_probs=23.4
Q ss_pred ccccCCCccccCChHHHHHHHHHcC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHT 306 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~ 306 (330)
-|.|..|+|.|-...++..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4999999999999999999999995
No 151
>PRK14873 primosome assembly protein PriA; Provisional
Probab=62.80 E-value=6.8 Score=38.70 Aligned_cols=10 Identities=20% Similarity=0.670 Sum_probs=5.7
Q ss_pred CccccccCcc
Q psy9959 241 PHKCSICDYA 250 (330)
Q Consensus 241 ~~~C~~C~k~ 250 (330)
++.|+.||..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 4556666643
No 152
>KOG4377|consensus
Probab=62.57 E-value=3.9 Score=36.83 Aligned_cols=24 Identities=25% Similarity=0.480 Sum_probs=18.9
Q ss_pred cccCC--CccccCChHHHHHHHHHcC
Q psy9959 283 WKCEL--CPYASSSQRHLESHMLIHT 306 (330)
Q Consensus 283 ~~C~~--C~~~F~~~~~L~~H~~~H~ 306 (330)
|-|.. |+.+|.+.+.+..|.+.|.
T Consensus 402 fhc~r~Gc~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 402 FHCDRLGCEATLYSVSQMASHKRKHE 427 (480)
T ss_pred eeecccCCceEEEehhhhhhhhhhhh
Confidence 44654 8889999999999988875
No 153
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=61.31 E-value=8.6 Score=40.14 Aligned_cols=28 Identities=18% Similarity=0.427 Sum_probs=17.3
Q ss_pred ceecCccccccCChHHHHHHHhhhcCCCCCccccccCccc
Q psy9959 212 PHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYAS 251 (330)
Q Consensus 212 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f 251 (330)
.|.|+.||...... .. + ...|+.||...
T Consensus 692 vy~CPsCGaev~~d---------es-~--a~~CP~CGtpl 719 (1337)
T PRK14714 692 VYVCPDCGAEVPPD---------ES-G--RVECPRCDVEL 719 (1337)
T ss_pred ceeCccCCCccCCC---------cc-c--cccCCCCCCcc
Confidence 57888888764331 11 1 34699998543
No 154
>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=60.89 E-value=3.6 Score=27.17 Aligned_cols=27 Identities=19% Similarity=0.444 Sum_probs=13.3
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
.|..|++.|.- -.+.+.|..||..|-.
T Consensus 11 ~C~~C~~~F~~------------~~rrhhCr~CG~~vC~ 37 (69)
T PF01363_consen 11 NCMICGKKFSL------------FRRRHHCRNCGRVVCS 37 (69)
T ss_dssp B-TTT--B-BS------------SS-EEE-TTT--EEEC
T ss_pred cCcCcCCcCCC------------ceeeEccCCCCCEECC
Confidence 59999999963 2456788888887643
No 155
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=60.17 E-value=4.5 Score=28.16 Aligned_cols=31 Identities=23% Similarity=0.513 Sum_probs=22.8
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
|-.|..||+.|.+-. -.+|-.||.|---|+-
T Consensus 58 Pa~CkkCGfef~~~~----------ik~pSRCP~CKSE~Ie 88 (97)
T COG3357 58 PARCKKCGFEFRDDK----------IKKPSRCPKCKSEWIE 88 (97)
T ss_pred ChhhcccCccccccc----------cCCcccCCcchhhccc
Confidence 457999999998721 2468899999766543
No 156
>KOG3408|consensus
Probab=60.14 E-value=5.4 Score=29.42 Aligned_cols=26 Identities=19% Similarity=0.345 Sum_probs=22.8
Q ss_pred CCCccccCCCccccCChHHHHHHHHH
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
|.-.|.|-.|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44558899999999999999999975
No 157
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=59.69 E-value=3.6 Score=30.65 Aligned_cols=30 Identities=17% Similarity=0.523 Sum_probs=20.6
Q ss_pred CCCCccccCCCccccCChHHHHHHHHHcCCCCCc-ccccCChh
Q psy9959 278 EGEKCWKCELCPYASSSQRHLESHMLIHTDQKPY-LCDHCDQI 319 (330)
Q Consensus 278 ~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~-~C~~C~~~ 319 (330)
.-.-.+.|..||..|..... .| .||.||-.
T Consensus 67 ~vp~~~~C~~Cg~~~~~~~~------------~~~~CP~Cgs~ 97 (117)
T PRK00564 67 DEKVELECKDCSHVFKPNAL------------DYGVCEKCHSK 97 (117)
T ss_pred ecCCEEEhhhCCCccccCCc------------cCCcCcCCCCC
Confidence 33445789999988875422 34 59999964
No 158
>PF12907 zf-met2: Zinc-binding
Probab=59.54 E-value=6.1 Score=23.09 Aligned_cols=31 Identities=19% Similarity=0.372 Sum_probs=21.8
Q ss_pred cccCCCccccC---ChHHHHHHHHH-cCCCCCccc
Q psy9959 283 WKCELCPYASS---SQRHLESHMLI-HTDQKPYLC 313 (330)
Q Consensus 283 ~~C~~C~~~F~---~~~~L~~H~~~-H~~~~p~~C 313 (330)
+.|.+|..+|. +...|..|... |....+-.|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 57999996554 56789999975 655444445
No 159
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=59.27 E-value=6 Score=22.53 Aligned_cols=8 Identities=38% Similarity=1.090 Sum_probs=3.3
Q ss_pred eccCcccc
Q psy9959 187 CSVCERGF 194 (330)
Q Consensus 187 C~~C~~~f 194 (330)
|+.||+.|
T Consensus 4 C~~Cg~~Y 11 (36)
T PF05191_consen 4 CPKCGRIY 11 (36)
T ss_dssp ETTTTEEE
T ss_pred cCCCCCcc
Confidence 44444443
No 160
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=59.09 E-value=6.1 Score=24.82 Aligned_cols=27 Identities=22% Similarity=0.561 Sum_probs=19.8
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccC
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHC 316 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C 316 (330)
++|+.||..|...-..+. .+...|+.|
T Consensus 29 W~C~~Cgh~w~~~v~~R~-------~~~~~CP~C 55 (55)
T PF14311_consen 29 WKCPKCGHEWKASVNDRT-------RRGKGCPYC 55 (55)
T ss_pred EECCCCCCeeEccHhhhc-------cCCCCCCCC
Confidence 899999998887655544 334678877
No 161
>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=59.08 E-value=3.4 Score=34.84 Aligned_cols=28 Identities=32% Similarity=0.625 Sum_probs=21.2
Q ss_pred CCCCccccccCccccCHHHHHHHHHHhc
Q psy9959 238 HEKPHKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 238 ~~~~~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
..+++.|+.||.....-..|..-.|+|.
T Consensus 206 k~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 206 KGKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred cCCCCCCCCCCCcccccccceeeeecch
Confidence 4578999999998877777766666654
No 162
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=58.56 E-value=2.9 Score=24.49 Aligned_cols=21 Identities=19% Similarity=0.268 Sum_probs=14.7
Q ss_pred CCCCcccccCChhhHhhhhHh
Q psy9959 307 DQKPYLCDHCDQIRILICVII 327 (330)
Q Consensus 307 ~~~p~~C~~C~~~f~~~~~l~ 327 (330)
+-.-+.|+.|+-.|.....|.
T Consensus 16 ~~~id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 16 DVEIDVCPSCGGIWFDAGELE 36 (41)
T ss_pred CEEEEECCCCCeEEccHHHHH
Confidence 344577888888887776654
No 163
>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=57.65 E-value=6.6 Score=24.69 Aligned_cols=27 Identities=19% Similarity=0.399 Sum_probs=16.5
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
.|..|++.|.. ..+.+.|..||+.|-.
T Consensus 4 ~C~~C~~~F~~------------~~rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 4 SCMGCGKPFTL------------TRRRHHCRNCGRIFCS 30 (57)
T ss_pred cCcccCccccC------------CccccccCcCcCCcCh
Confidence 37777777774 1344666677666543
No 164
>KOG4167|consensus
Probab=56.64 E-value=3.2 Score=40.27 Aligned_cols=26 Identities=19% Similarity=0.437 Sum_probs=23.8
Q ss_pred CccccccCccccCHHHHHHHHHHhcC
Q psy9959 241 PHKCSICDYASVELSKMRNHMRSHTG 266 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~h~~ 266 (330)
.|.|..|+|.|....++..||++|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 48999999999999999999999963
No 165
>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 smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=56.35 E-value=4.6 Score=23.59 Aligned_cols=9 Identities=33% Similarity=0.770 Sum_probs=4.0
Q ss_pred eecCccccc
Q psy9959 213 HKCKYCESR 221 (330)
Q Consensus 213 ~~C~~C~~~ 221 (330)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 444444433
No 167
>KOG1280|consensus
Probab=56.28 E-value=9.7 Score=33.64 Aligned_cols=32 Identities=16% Similarity=0.326 Sum_probs=24.3
Q ss_pred CCCccccccCccccCHHHHHHHHHHhcCCCCc
Q psy9959 239 EKPHKCSICDYASVELSKMRNHMRSHTGERPY 270 (330)
Q Consensus 239 ~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~ 270 (330)
...|.|++|++.-.+...|..|....|.+.++
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~ 108 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEAST 108 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCc
Confidence 34688888888888888888888776655543
No 168
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=56.14 E-value=0.8 Score=40.79 Aligned_cols=14 Identities=21% Similarity=0.429 Sum_probs=6.1
Q ss_pred ceecCccccccCCh
Q psy9959 212 PHKCKYCESRFTTS 225 (330)
Q Consensus 212 ~~~C~~C~~~f~~~ 225 (330)
.+.|..|.+++...
T Consensus 252 av~C~~C~yt~~~~ 265 (344)
T PF09332_consen 252 AVTCKQCKYTAFKP 265 (344)
T ss_dssp EEEETTT--EESS-
T ss_pred EEEcCCCCCcccCc
Confidence 35666666544433
No 169
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=56.01 E-value=2.4 Score=37.29 Aligned_cols=12 Identities=17% Similarity=0.600 Sum_probs=5.5
Q ss_pred CCCCccccccCc
Q psy9959 238 HEKPHKCSICDY 249 (330)
Q Consensus 238 ~~~~~~C~~C~k 249 (330)
|.+...|..|+.
T Consensus 209 G~RyL~CslC~t 220 (309)
T PRK03564 209 GLRYLHCNLCES 220 (309)
T ss_pred CceEEEcCCCCC
Confidence 344444555543
No 170
>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=55.44 E-value=9.2 Score=31.78 Aligned_cols=28 Identities=21% Similarity=0.446 Sum_probs=21.0
Q ss_pred cCceecCccccccCChHHHHHHHhhhcC
Q psy9959 210 VKPHKCKYCESRFTTSGELVRHVRYKHT 237 (330)
Q Consensus 210 ~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 237 (330)
+..|.|..|+|.|....-+..|+...|.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 3458999999999999999999988775
No 171
>KOG1280|consensus
Probab=54.12 E-value=14 Score=32.78 Aligned_cols=36 Identities=19% Similarity=0.606 Sum_probs=26.8
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCc--ccccCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPY--LCDHCD 317 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~--~C~~C~ 317 (330)
.|.|++|++.=.+...|..|...-|-+-++ .|++|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 488999999988999999999765544332 355554
No 172
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=53.75 E-value=7.7 Score=29.70 Aligned_cols=12 Identities=17% Similarity=0.348 Sum_probs=6.9
Q ss_pred ccccccCcccCC
Q psy9959 157 HMCNYCNYTSPK 168 (330)
Q Consensus 157 ~~C~~C~~~f~~ 168 (330)
+.|..||..|..
T Consensus 71 ~~C~~CG~~~~~ 82 (135)
T PRK03824 71 LKCRNCGNEWSL 82 (135)
T ss_pred EECCCCCCEEec
Confidence 556666655543
No 173
>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=53.73 E-value=3.3 Score=24.02 Aligned_cols=10 Identities=30% Similarity=0.740 Sum_probs=4.9
Q ss_pred eecCcccccc
Q psy9959 213 HKCKYCESRF 222 (330)
Q Consensus 213 ~~C~~C~~~f 222 (330)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 4555555443
No 174
>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=53.44 E-value=4.3 Score=24.06 Aligned_cols=28 Identities=18% Similarity=0.584 Sum_probs=16.1
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|+.||.... ..-....-+.|+.||..
T Consensus 1 m~Cp~Cg~~~~---------~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 1 MKCPNCGSKEI---------VFDPERGELVCPNCGLV 28 (43)
T ss_dssp ESBTTTSSSEE---------EEETTTTEEEETTT-BB
T ss_pred CCCcCCcCCce---------EEcCCCCeEECCCCCCE
Confidence 46888887542 11122334789999864
No 175
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=53.16 E-value=4.1 Score=30.17 Aligned_cols=30 Identities=20% Similarity=0.331 Sum_probs=19.7
Q ss_pred CCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
-.-.+.|..||..|..... ..+.||.||..
T Consensus 67 ~p~~~~C~~Cg~~~~~~~~-----------~~~~CP~Cgs~ 96 (114)
T PRK03681 67 QEAECWCETCQQYVTLLTQ-----------RVRRCPQCHGD 96 (114)
T ss_pred eCcEEEcccCCCeeecCCc-----------cCCcCcCcCCC
Confidence 3444789999986654211 12679999954
No 176
>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=53.12 E-value=4.9 Score=29.72 Aligned_cols=57 Identities=14% Similarity=0.194 Sum_probs=28.7
Q ss_pred cCHHHHHHHHHHhcCCCCce-eeecccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 252 VELSKMRNHMRSHTGERPYQ-LHCKSHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 252 ~~~~~L~~H~~~h~~~~~~~-~h~~~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
.....|......-....+.. ....+..-.-.+.|..||..|.-.... |.||.||...
T Consensus 39 V~pe~L~f~f~~~~~~T~~e~a~L~Ie~~p~~~~C~~Cg~~~~~~~~~------------~~CP~Cgs~~ 96 (113)
T PF01155_consen 39 VEPEALRFAFEVLAEGTILEGAELEIEEVPARARCRDCGHEFEPDEFD------------FSCPRCGSPD 96 (113)
T ss_dssp --HHHHHHHHHHHHCCSTTTT-EEEEEEE--EEEETTTS-EEECHHCC------------HH-SSSSSS-
T ss_pred CCHHHHHHHHHHHhCCCCccCCEEEEEecCCcEECCCCCCEEecCCCC------------CCCcCCcCCC
Confidence 34555555555544433321 122222233347899999999865432 5699999753
No 177
>KOG2272|consensus
Probab=52.17 E-value=10 Score=31.89 Aligned_cols=15 Identities=20% Similarity=0.452 Sum_probs=10.5
Q ss_pred cccccCChhhHhhhh
Q psy9959 311 YLCDHCDQIRILICV 325 (330)
Q Consensus 311 ~~C~~C~~~f~~~~~ 325 (330)
|.|..|++....+..
T Consensus 281 f~Cs~Cdkkl~~K~K 295 (332)
T KOG2272|consen 281 FSCSTCDKKLTQKNK 295 (332)
T ss_pred ccccccccccccccc
Confidence 788888877665543
No 178
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=51.16 E-value=11 Score=23.16 Aligned_cols=15 Identities=33% Similarity=0.709 Sum_probs=8.1
Q ss_pred CceecCccccccCCh
Q psy9959 211 KPHKCKYCESRFTTS 225 (330)
Q Consensus 211 ~~~~C~~C~~~f~~~ 225 (330)
+.+.|..||..|...
T Consensus 3 k~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFT 17 (49)
T ss_pred eeEEcccCCCeEEEe
Confidence 345566666555443
No 179
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=50.98 E-value=7 Score=35.80 Aligned_cols=29 Identities=17% Similarity=0.371 Sum_probs=21.9
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
.|+.||.+..++ |..-|+|+.||+.+...
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCcc
Confidence 699999765543 44479999999988754
No 180
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=50.48 E-value=5.7 Score=25.30 Aligned_cols=41 Identities=17% Similarity=0.331 Sum_probs=27.5
Q ss_pred ccccCC--CccccCChHHHHHHHHHcCCCCCccccc----CChhhHhh
Q psy9959 282 CWKCEL--CPYASSSQRHLESHMLIHTDQKPYLCDH----CDQIRILI 323 (330)
Q Consensus 282 ~~~C~~--C~~~F~~~~~L~~H~~~H~~~~p~~C~~----C~~~f~~~ 323 (330)
+..|+. |...+. +..|..|+...-..++-.|++ |+..+...
T Consensus 9 ~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~ 55 (60)
T PF02176_consen 9 PVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVPRE 55 (60)
T ss_dssp EEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEEHH
T ss_pred EeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccchh
Confidence 457988 555566 558999999766778899999 99887654
No 181
>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=50.07 E-value=22 Score=21.36 Aligned_cols=8 Identities=25% Similarity=0.775 Sum_probs=3.8
Q ss_pred eeeccCcc
Q psy9959 185 HKCSVCER 192 (330)
Q Consensus 185 ~~C~~C~~ 192 (330)
+.|+.||.
T Consensus 19 ~~CP~Cg~ 26 (46)
T PF12760_consen 19 FVCPHCGS 26 (46)
T ss_pred CCCCCCCC
Confidence 44555543
No 182
>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=49.85 E-value=8.6 Score=25.36 Aligned_cols=27 Identities=15% Similarity=0.474 Sum_probs=19.0
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
.|+.||..-.. -...+-|.|+.||..+
T Consensus 30 ~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 30 TCPRCGHRNKK----------RRSGRVFTCPNCGFEM 56 (69)
T ss_pred CccCccccccc----------ccccceEEcCCCCCEE
Confidence 48999976554 2234669999999764
No 183
>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=49.59 E-value=11 Score=25.23 Aligned_cols=58 Identities=17% Similarity=0.267 Sum_probs=23.8
Q ss_pred eeeccCcccccch---hhhhhccccccCcCceecCccccccCChHHHHHHHhhhcCCCCCccccccCccc
Q psy9959 185 HKCSVCERGFKTI---ASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYAS 251 (330)
Q Consensus 185 ~~C~~C~~~f~~~---~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f 251 (330)
++|+-|++.|.-. ..+..|...........|..|+..+.-... ..+ ..|.|+.|+..|
T Consensus 11 ~~~~cC~~~y~C~~CHde~~~H~~~~~~~~~v~Cg~C~~~~~~~~~--------~c~-~~~~C~~C~~~~ 71 (71)
T PF05495_consen 11 IRFPCCGKYYPCRFCHDELEDHPFDRWPVKRVICGKCRTEQPIDEY--------SCG-ADYFCPICGLYF 71 (71)
T ss_dssp EEETTTTEEESSHHHHHHCSSS---TTT--EEEETTT--EEES-SB--------TT---SEEETTTTEEE
T ss_pred EECCcccCeecHHHHHHHhccCccccccccCeECCCCCCccChhhh--------hcC-CCccCcCcCCCC
Confidence 4444455544332 233345444334445677777665544322 111 346777776543
No 184
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=49.36 E-value=5.8 Score=28.22 Aligned_cols=41 Identities=20% Similarity=0.389 Sum_probs=21.8
Q ss_pred ccCCCcccccccCcccCChhHHHHHHhhhCCCCCeeeccCccccc
Q psy9959 151 QVVAPAHMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFK 195 (330)
Q Consensus 151 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 195 (330)
+.....|.|+.|+..-.....+ ..-.......|..||..|.
T Consensus 17 ~~L~k~FtCp~Cghe~vs~ctv----kk~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 17 QVLPKTFTCPRCGHEKVSSCTV----KKTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred ccCCceEecCccCCeeeeEEEE----EecCceeEEEcccCcceEE
Confidence 3355668888888554332221 1112223356777777664
No 185
>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=48.62 E-value=14 Score=35.39 Aligned_cols=10 Identities=30% Similarity=0.863 Sum_probs=5.7
Q ss_pred CCccccccCc
Q psy9959 240 KPHKCSICDY 249 (330)
Q Consensus 240 ~~~~C~~C~k 249 (330)
.|..|+.||.
T Consensus 252 ~~~~Cp~C~s 261 (505)
T TIGR00595 252 IPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCC
Confidence 3455666654
No 186
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=48.24 E-value=7.1 Score=24.11 Aligned_cols=26 Identities=19% Similarity=0.543 Sum_probs=17.0
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
.|+.||..| |.. | ...+.|..||..+
T Consensus 22 fCP~Cg~~~-----m~~----~--~~r~~C~~Cgyt~ 47 (50)
T PRK00432 22 FCPRCGSGF-----MAE----H--LDRWHCGKCGYTE 47 (50)
T ss_pred cCcCCCcch-----hec----c--CCcEECCCcCCEE
Confidence 599998432 222 2 2468999999764
No 187
>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=47.63 E-value=4.7 Score=28.83 Aligned_cols=21 Identities=29% Similarity=0.673 Sum_probs=15.3
Q ss_pred HHHcCCCCCcccccCChhhHhh
Q psy9959 302 MLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 302 ~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
+..+.| +|++|+.||..|...
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL~ 92 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKLV 92 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEEE
Confidence 345666 789999999888643
No 188
>PF12773 DZR: Double zinc ribbon
Probab=47.46 E-value=10 Score=23.06 Aligned_cols=25 Identities=24% Similarity=0.530 Sum_probs=16.3
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.|+.||.... -.......|+.||..
T Consensus 14 fC~~CG~~l~-----------~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 14 FCPHCGTPLP-----------PPDQSKKICPNCGAE 38 (50)
T ss_pred CChhhcCChh-----------hccCCCCCCcCCcCC
Confidence 3888887766 122345678888875
No 189
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=47.38 E-value=14 Score=23.23 Aligned_cols=13 Identities=15% Similarity=0.491 Sum_probs=7.5
Q ss_pred CccccCCCccccC
Q psy9959 281 KCWKCELCPYASS 293 (330)
Q Consensus 281 k~~~C~~C~~~F~ 293 (330)
-.|.|+.||..+-
T Consensus 13 v~~~Cp~cGipth 25 (55)
T PF13824_consen 13 VNFECPDCGIPTH 25 (55)
T ss_pred cCCcCCCCCCcCc
Confidence 3466666665444
No 190
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=47.10 E-value=8.3 Score=22.36 Aligned_cols=14 Identities=21% Similarity=0.532 Sum_probs=10.3
Q ss_pred CcccccCChhhHhh
Q psy9959 310 PYLCDHCDQIRILI 323 (330)
Q Consensus 310 p~~C~~C~~~f~~~ 323 (330)
||.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 67888888777543
No 191
>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=46.98 E-value=12 Score=22.03 Aligned_cols=15 Identities=13% Similarity=0.414 Sum_probs=10.2
Q ss_pred ccCCCccccCChHHH
Q psy9959 284 KCELCPYASSSQRHL 298 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L 298 (330)
.|..||+.|+-....
T Consensus 10 ~C~~C~rpf~WRKKW 24 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKW 24 (42)
T ss_pred cCcccCCcchHHHHH
Confidence 488888888765443
No 192
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=46.47 E-value=6.7 Score=29.54 Aligned_cols=36 Identities=17% Similarity=0.246 Sum_probs=20.7
Q ss_pred CCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 278 EGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 278 ~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.-.-.+.| .||..|.....-..| . .-.+.||.||-.
T Consensus 66 ~vp~~~~C-~Cg~~~~~~~~~~~~----~-~~~~~CP~Cgs~ 101 (124)
T PRK00762 66 MIPVEIEC-ECGYEGVVDEDEIDH----Y-AAVIECPVCGNK 101 (124)
T ss_pred ecCeeEEe-eCcCcccccccchhc----c-ccCCcCcCCCCC
Confidence 33444789 999888754211111 0 013689999943
No 193
>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=46.06 E-value=5.1 Score=31.42 Aligned_cols=32 Identities=22% Similarity=0.554 Sum_probs=22.0
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhH
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~ 321 (330)
.|.|..|+..+.. |.++ ....|.|..|+..+.
T Consensus 123 ~~~C~~C~~~~~r------~~~~--~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREYKR------HRRS--KRKRYRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEeee------eccc--chhhEECCCCCCEEE
Confidence 3899999987743 3333 223499999997654
No 194
>KOG3408|consensus
Probab=45.98 E-value=14 Score=27.29 Aligned_cols=28 Identities=18% Similarity=0.151 Sum_probs=23.1
Q ss_pred ccCCCcccccccCcccCChhHHHHHHhh
Q psy9959 151 QVVAPAHMCNYCNYTSPKRYLLARHLKS 178 (330)
Q Consensus 151 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 178 (330)
.++...|.|-.|.+.|.+...|..|.+.
T Consensus 52 lPG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 52 LPGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCCceeehhhhhhhhcchHHHHHHHhc
Confidence 3455568999999999999999999865
No 195
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.91 E-value=4.6 Score=33.46 Aligned_cols=39 Identities=21% Similarity=0.473 Sum_probs=26.9
Q ss_pred CccccCCCccccCChHHHHHHHHHcCCC----------CCc-----ccccCChh
Q psy9959 281 KCWKCELCPYASSSQRHLESHMLIHTDQ----------KPY-----LCDHCDQI 319 (330)
Q Consensus 281 k~~~C~~C~~~F~~~~~L~~H~~~H~~~----------~p~-----~C~~C~~~ 319 (330)
+.+.|++|+-.|....-+.--.|+-.|+ -|+ .||.|+.+
T Consensus 18 k~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 18 KTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred ceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 4478999999999876655555554443 232 59999864
No 196
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=45.17 E-value=8.7 Score=27.83 Aligned_cols=29 Identities=17% Similarity=0.300 Sum_probs=21.5
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
.|+.|+..|.+. ....|.||.|+..|...
T Consensus 4 ~CP~C~seytY~-----------dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYH-----------DGTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEe-----------cCCeeECcccccccccc
Confidence 489999888765 22358999999888644
No 197
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=45.16 E-value=19 Score=30.28 Aligned_cols=61 Identities=15% Similarity=0.451 Sum_probs=36.1
Q ss_pred cCCCcccccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccccccCcCceecCccccccCCh
Q psy9959 152 VVAPAHMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTS 225 (330)
Q Consensus 152 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 225 (330)
.....|.|..|+..... +.-.......|..|.+.|.-... ..--|...|.|+.|+..|...
T Consensus 108 ~~drqFaC~~Cd~~WwR--------rvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 108 SVDRQFACSSCDHMWWR--------RVPQRKEVSRCRKCRKRYDPVPC-----DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ccceeeeccccchHHHh--------ccCcccccccccccccccCCCcc-----ccccceeeeecccccccchhh
Confidence 34456888888754321 11112233678888887754431 112244568999999998765
No 198
>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=45.01 E-value=12 Score=23.15 Aligned_cols=40 Identities=18% Similarity=0.384 Sum_probs=18.6
Q ss_pred cCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhhhhHhhcC
Q psy9959 285 CELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILICVIIAIR 330 (330)
Q Consensus 285 C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~~~l~~H~ 330 (330)
|--|.+.|.....-.. +...|.|+.|...|-.--++..|.
T Consensus 2 CfgC~~~~~~~~~~~~------~~~~y~C~~C~~~FC~dCD~fiHE 41 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKA------DSSRYRCPKCKNHFCIDCDVFIHE 41 (51)
T ss_dssp ETTTTEE-TTS-------------EEE--TTTT--B-HHHHHTTTT
T ss_pred CccCCCCCCCcccccc------cCCeEECCCCCCccccCcChhhhc
Confidence 4456666665422100 134588999998888887777773
No 199
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=44.82 E-value=3 Score=40.52 Aligned_cols=79 Identities=19% Similarity=0.404 Sum_probs=44.4
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCCe-eeccCcccccchhhhhhccccccCcCc-eecCccccccCChHHHHHHHhh
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERPH-KCSVCERGFKTIASLQNHINTHTGVKP-HKCKYCESRFTTSGELVRHVRY 234 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~-~~C~~C~~~f~~~~~l~~H~~~ 234 (330)
-.|+.|-+.+.+..+-+-+ .|| .|..||-+|+-...|--- |-++.-+. --|+.|.+.|....+.+.|.
T Consensus 102 a~C~~Cl~Ei~dp~~rrY~-------YPF~~CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfHA-- 171 (750)
T COG0068 102 ATCEDCLEEIFDPNSRRYL-------YPFINCTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFHA-- 171 (750)
T ss_pred hhhHHHHHHhcCCCCccee-------ccccccCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCcccccccc--
Confidence 3588886655443322111 233 588899888776655321 11222222 35888888887776543332
Q ss_pred hcCCCCCccccccCcc
Q psy9959 235 KHTHEKPHKCSICDYA 250 (330)
Q Consensus 235 ~H~~~~~~~C~~C~k~ 250 (330)
.|..|+.||-.
T Consensus 172 -----Qp~aCp~CGP~ 182 (750)
T COG0068 172 -----QPIACPKCGPH 182 (750)
T ss_pred -----ccccCcccCCC
Confidence 24678888753
No 200
>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=44.79 E-value=5.5 Score=37.99 Aligned_cols=14 Identities=21% Similarity=0.612 Sum_probs=9.1
Q ss_pred CCCCCcccccCChh
Q psy9959 306 TDQKPYLCDHCDQI 319 (330)
Q Consensus 306 ~~~~p~~C~~C~~~ 319 (330)
...-|..|+.||-.
T Consensus 249 ~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 249 QEPIPKTCPQCGSE 262 (505)
T ss_pred cCCCCCCCCCCCCC
Confidence 33456788888753
No 201
>PRK05580 primosome assembly protein PriA; Validated
Probab=44.36 E-value=5.9 Score=39.34 Aligned_cols=15 Identities=20% Similarity=0.554 Sum_probs=9.1
Q ss_pred cCCCCCcccccCChh
Q psy9959 305 HTDQKPYLCDHCDQI 319 (330)
Q Consensus 305 H~~~~p~~C~~C~~~ 319 (330)
+....|..|+.||..
T Consensus 416 ~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 416 YQEPIPKACPECGST 430 (679)
T ss_pred CCCCCCCCCCCCcCC
Confidence 334456678888654
No 202
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=44.33 E-value=15 Score=27.71 Aligned_cols=43 Identities=19% Similarity=0.324 Sum_probs=28.2
Q ss_pred CCCCccccCCCccccCChHH------------------HHHHHHHcCCCCCcccccCChhhHhhhh
Q psy9959 278 EGEKCWKCELCPYASSSQRH------------------LESHMLIHTDQKPYLCDHCDQIRILICV 325 (330)
Q Consensus 278 ~~~k~~~C~~C~~~F~~~~~------------------L~~H~~~H~~~~p~~C~~C~~~f~~~~~ 325 (330)
...+-|+|.+|..+.....- |..|-.+| -.||+|..+|.+...
T Consensus 76 ~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~y-----pvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLY-----PVCPVCKTSFKSSSS 136 (140)
T ss_pred cCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccC-----CCCCccccccccccc
Confidence 34466899999987766533 33333222 379999999987653
No 203
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=44.12 E-value=20 Score=35.25 Aligned_cols=10 Identities=20% Similarity=0.637 Sum_probs=6.2
Q ss_pred cCCCccccCC
Q psy9959 285 CELCPYASSS 294 (330)
Q Consensus 285 C~~C~~~F~~ 294 (330)
|+.||.....
T Consensus 44 C~~CG~~~~~ 53 (645)
T PRK14559 44 CPNCGAETGT 53 (645)
T ss_pred ccccCCcccc
Confidence 7777765554
No 204
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=44.06 E-value=15 Score=38.48 Aligned_cols=26 Identities=19% Similarity=0.493 Sum_probs=15.1
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|+.||....... ++ ...|+.||..
T Consensus 693 y~CPsCGaev~~de---------s~--a~~CP~CGtp 718 (1337)
T PRK14714 693 YVCPDCGAEVPPDE---------SG--RVECPRCDVE 718 (1337)
T ss_pred eeCccCCCccCCCc---------cc--cccCCCCCCc
Confidence 56777877543311 11 3468888854
No 205
>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=44.01 E-value=16 Score=19.51 Aligned_cols=19 Identities=26% Similarity=0.588 Sum_probs=8.6
Q ss_pred eeeccCcccccchhhhhhcc
Q psy9959 185 HKCSVCERGFKTIASLQNHI 204 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~H~ 204 (330)
|.|-.|++.| .....+.|.
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEE-EGGGTTT--
T ss_pred CeeecCCCCc-CcCCcCCCC
Confidence 3455666666 333444443
No 206
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=43.49 E-value=6.1 Score=29.98 Aligned_cols=16 Identities=19% Similarity=0.538 Sum_probs=11.0
Q ss_pred CCCcccccCChhhHhh
Q psy9959 308 QKPYLCDHCDQIRILI 323 (330)
Q Consensus 308 ~~p~~C~~C~~~f~~~ 323 (330)
...|.|+.|++.|...
T Consensus 51 ~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccCCcCcceeee
Confidence 4458888888877643
No 207
>PRK14873 primosome assembly protein PriA; Provisional
Probab=43.41 E-value=4.7 Score=39.75 Aligned_cols=11 Identities=18% Similarity=0.606 Sum_probs=8.5
Q ss_pred CCcccccCChh
Q psy9959 309 KPYLCDHCDQI 319 (330)
Q Consensus 309 ~p~~C~~C~~~ 319 (330)
.|..|+.||-.
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 47889999864
No 208
>KOG2907|consensus
Probab=42.40 E-value=15 Score=26.75 Aligned_cols=38 Identities=24% Similarity=0.401 Sum_probs=18.7
Q ss_pred ccccccCcccCChhHHHHHHhhh-CC-CCCeeeccCcccccc
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSH-SE-ERPHKCSVCERGFKT 196 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h-~~-~~~~~C~~C~~~f~~ 196 (330)
.+|+.||..-.....|+ +|+- -| ..-|.|+.|+..|..
T Consensus 75 ~kCpkCghe~m~Y~T~Q--lRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQ--LRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhh--cccccCCceEEEEcCccceeeec
Confidence 56888875432222221 1221 11 123777777777653
No 209
>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=41.12 E-value=6.4 Score=30.35 Aligned_cols=18 Identities=22% Similarity=0.528 Sum_probs=12.5
Q ss_pred eeeccCcccccchhhhhh
Q psy9959 185 HKCSVCERGFKTIASLQN 202 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~ 202 (330)
-.|..|++.|++...+..
T Consensus 29 ReC~~C~~RFTTyErve~ 46 (147)
T TIGR00244 29 RECLECHERFTTFERAEL 46 (147)
T ss_pred ccCCccCCccceeeeccc
Confidence 468888888877765543
No 210
>KOG3362|consensus
Probab=40.90 E-value=9.9 Score=29.01 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=17.8
Q ss_pred cccCCCccccCChHHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHML 303 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~ 303 (330)
|.|.-||-.+-+..-|..|..
T Consensus 130 ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 130 YSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred hHHHhcCCceeechhhhhccc
Confidence 669999999999999888754
No 211
>KOG2907|consensus
Probab=40.90 E-value=13 Score=27.13 Aligned_cols=40 Identities=25% Similarity=0.424 Sum_probs=22.3
Q ss_pred eeeccCcccccchhhhhhccccccCcCceecCccccccCC
Q psy9959 185 HKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTT 224 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 224 (330)
.+|+.||..=.....|+.--.--..--.|.|+.|+..|..
T Consensus 75 ~kCpkCghe~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhhcccccCCceEEEEcCccceeeec
Confidence 5788888654343333322111111235889999888764
No 212
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=40.74 E-value=7.2 Score=30.12 Aligned_cols=18 Identities=22% Similarity=0.506 Sum_probs=13.2
Q ss_pred eeeccCcccccchhhhhh
Q psy9959 185 HKCSVCERGFKTIASLQN 202 (330)
Q Consensus 185 ~~C~~C~~~f~~~~~l~~ 202 (330)
-.|..|+..|++......
T Consensus 29 ReC~~C~~RFTTfE~~El 46 (156)
T COG1327 29 RECLECGERFTTFERAEL 46 (156)
T ss_pred hcccccccccchhheeee
Confidence 578888888888765443
No 213
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=40.30 E-value=18 Score=22.61 Aligned_cols=20 Identities=20% Similarity=0.373 Sum_probs=10.4
Q ss_pred ccCCCccccCC--hHHHHHHHH
Q psy9959 284 KCELCPYASSS--QRHLESHML 303 (330)
Q Consensus 284 ~C~~C~~~F~~--~~~L~~H~~ 303 (330)
.|++|++.|.. ...|..+++
T Consensus 22 ~CPlC~r~l~~e~~~~li~~~~ 43 (54)
T PF04423_consen 22 CCPLCGRPLDEEHRQELIKKYK 43 (54)
T ss_dssp E-TTT--EE-HHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHHHHHH
Confidence 69999999985 445555543
No 214
>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=40.21 E-value=15 Score=21.45 Aligned_cols=11 Identities=18% Similarity=0.277 Sum_probs=8.1
Q ss_pred ccccCCCcccc
Q psy9959 282 CWKCELCPYAS 292 (330)
Q Consensus 282 ~~~C~~C~~~F 292 (330)
+-.|++|+..|
T Consensus 29 ~~~CpYCg~~y 39 (40)
T PF10276_consen 29 PVVCPYCGTRY 39 (40)
T ss_dssp EEEETTTTEEE
T ss_pred eEECCCCCCEE
Confidence 45788888776
No 215
>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=40.09 E-value=22 Score=20.49 Aligned_cols=22 Identities=14% Similarity=0.294 Sum_probs=9.6
Q ss_pred ccccCCCccccC-Ch-HHHHHHHH
Q psy9959 282 CWKCELCPYASS-SQ-RHLESHML 303 (330)
Q Consensus 282 ~~~C~~C~~~F~-~~-~~L~~H~~ 303 (330)
.|-|.+|...|+ +. +.-+.|.+
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT-
T ss_pred CeecccccceecCCChHHHHHhhc
Confidence 377999999994 33 44466653
No 216
>KOG2071|consensus
Probab=40.05 E-value=18 Score=34.58 Aligned_cols=28 Identities=21% Similarity=0.358 Sum_probs=23.3
Q ss_pred CCCccccCCCccccCChHHHHHHHHHcC
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLIHT 306 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~H~ 306 (330)
..++.+|..||++|.+......||-+|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3455789999999999998888888774
No 217
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=39.83 E-value=7.6 Score=27.90 Aligned_cols=36 Identities=17% Similarity=0.362 Sum_probs=21.9
Q ss_pred CccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 281 KCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 281 k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
..|.|+.|+. ..-.-.+ ..+.-...|+.||..+...
T Consensus 20 t~f~CP~Cge-~~v~v~~------~k~~~h~~C~~CG~y~~~~ 55 (99)
T PRK14892 20 KIFECPRCGK-VSISVKI------KKNIAIITCGNCGLYTEFE 55 (99)
T ss_pred cEeECCCCCC-eEeeeec------CCCcceEECCCCCCccCEE
Confidence 4589999993 2222122 1133347899999887653
No 218
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=39.43 E-value=20 Score=27.15 Aligned_cols=25 Identities=28% Similarity=0.345 Sum_probs=18.7
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCC
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERP 184 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 184 (330)
..|-.+|+.|.+ |++|+..|.+-.|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 568888888864 8888888776443
No 219
>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=39.28 E-value=7.5 Score=27.28 Aligned_cols=31 Identities=29% Similarity=0.608 Sum_probs=18.1
Q ss_pred CCeeeccCcccccchhhhhhccccccCcCceecCccccccC
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFT 223 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 223 (330)
..|.|+.|++.-. .+.-.| -+.|..|++.|.
T Consensus 34 ~ky~Cp~Cgk~~v--------kR~a~G--IW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSV--------KRVATG--IWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSEE--------EEEETT--EEEETTTTEEEE
T ss_pred CCCcCCCCCCcee--------EEeeeE--EeecCCCCCEEe
Confidence 4578888887521 122223 477888887764
No 220
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=39.04 E-value=20 Score=28.78 Aligned_cols=28 Identities=18% Similarity=0.525 Sum_probs=20.7
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|+.|...|+.-.+. +.+ |.||.||-.
T Consensus 114 y~C~~~~~r~sfdeA~------~~~---F~Cp~Cg~~ 141 (176)
T COG1675 114 YVCPNCHVKYSFDEAM------ELG---FTCPKCGED 141 (176)
T ss_pred eeCCCCCCcccHHHHH------HhC---CCCCCCCch
Confidence 7899999888765543 222 999999953
No 221
>PRK04351 hypothetical protein; Provisional
Probab=39.03 E-value=13 Score=29.05 Aligned_cols=34 Identities=24% Similarity=0.466 Sum_probs=24.0
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
.|.|..||..+.+. +.| +...|.|..|+-.+...
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~yrCg~C~g~L~~~ 145 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKRYRCGKCRGKLKLI 145 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCcEEeCCCCcEeeec
Confidence 39999999777543 223 34679999999776543
No 222
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=38.57 E-value=8.7 Score=37.51 Aligned_cols=59 Identities=17% Similarity=0.406 Sum_probs=38.5
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCCe-eeccCcccccchhhhhhccccccCcCceecCcccccc
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERPH-KCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRF 222 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 222 (330)
..|..||-.|+--..|--- |.++..+.| .|+.|.+-+....+-+-| ..|..|+.||-..
T Consensus 124 ~~CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfH------AQp~aCp~CGP~~ 183 (750)
T COG0068 124 INCTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFH------AQPIACPKCGPHL 183 (750)
T ss_pred cccCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCccccccc------cccccCcccCCCe
Confidence 3699999998765544221 122222333 599999988877664444 3578999999643
No 223
>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=38.53 E-value=15 Score=28.52 Aligned_cols=8 Identities=25% Similarity=0.758 Sum_probs=4.1
Q ss_pred eecCcccc
Q psy9959 213 HKCKYCES 220 (330)
Q Consensus 213 ~~C~~C~~ 220 (330)
|.|..||.
T Consensus 113 l~C~~Cg~ 120 (146)
T PF07295_consen 113 LVCENCGH 120 (146)
T ss_pred EecccCCC
Confidence 55555553
No 224
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=38.40 E-value=21 Score=27.67 Aligned_cols=33 Identities=18% Similarity=0.370 Sum_probs=22.6
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhH
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~ 321 (330)
.|.|..|+..+.+ |.+ |.....|.|..|+-.+.
T Consensus 112 ~y~C~~C~~~~~~------~rr-~~~~~~y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYLR------VRR-SNNVSRYRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCce------Ecc-ccCcceEEcCCCCCEEE
Confidence 5999999987752 222 22225699999997654
No 225
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=38.12 E-value=12 Score=26.29 Aligned_cols=14 Identities=21% Similarity=0.503 Sum_probs=8.6
Q ss_pred CceecCccccccCC
Q psy9959 211 KPHKCKYCESRFTT 224 (330)
Q Consensus 211 ~~~~C~~C~~~f~~ 224 (330)
..+.|..|++.|.-
T Consensus 53 GIW~C~~C~~~~AG 66 (90)
T PTZ00255 53 GIWRCKGCKKTVAG 66 (90)
T ss_pred EEEEcCCCCCEEeC
Confidence 34667777766643
No 226
>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=37.74 E-value=8.8 Score=22.73 Aligned_cols=14 Identities=36% Similarity=0.892 Sum_probs=7.7
Q ss_pred CcccccCChhhHhh
Q psy9959 310 PYLCDHCDQIRILI 323 (330)
Q Consensus 310 p~~C~~C~~~f~~~ 323 (330)
||.|+.|++.|-..
T Consensus 13 ~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 13 PFKCKHCGKSFCLK 26 (43)
T ss_dssp HEE-TTTS-EE-TT
T ss_pred CeECCCCCcccCcc
Confidence 67788777777544
No 227
>PTZ00448 hypothetical protein; Provisional
Probab=37.63 E-value=23 Score=31.89 Aligned_cols=23 Identities=13% Similarity=0.273 Sum_probs=21.3
Q ss_pred ccccCCCccccCChHHHHHHHHH
Q psy9959 282 CWKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 48899999999999999999986
No 228
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.51 E-value=13 Score=27.55 Aligned_cols=14 Identities=43% Similarity=0.842 Sum_probs=7.1
Q ss_pred CceecCccccccCC
Q psy9959 211 KPHKCKYCESRFTT 224 (330)
Q Consensus 211 ~~~~C~~C~~~f~~ 224 (330)
.|--|..||+.|.+
T Consensus 67 ~psfchncgs~fpw 80 (160)
T COG4306 67 PPSFCHNCGSRFPW 80 (160)
T ss_pred CcchhhcCCCCCCc
Confidence 34445555555544
No 229
>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=37.42 E-value=10 Score=26.62 Aligned_cols=13 Identities=23% Similarity=0.764 Sum_probs=8.3
Q ss_pred CceecCccccccC
Q psy9959 211 KPHKCKYCESRFT 223 (330)
Q Consensus 211 ~~~~C~~C~~~f~ 223 (330)
..+.|..|++.|.
T Consensus 52 GIW~C~~C~~~~A 64 (91)
T TIGR00280 52 GIWTCRKCGAKFA 64 (91)
T ss_pred EEEEcCCCCCEEe
Confidence 3466777776664
No 230
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=37.32 E-value=4.1 Score=36.42 Aligned_cols=43 Identities=21% Similarity=0.472 Sum_probs=20.5
Q ss_pred CccccCCCccccCChHHHH---HHH-HHcCC-CCCcccccCChhhHhh
Q psy9959 281 KCWKCELCPYASSSQRHLE---SHM-LIHTD-QKPYLCDHCDQIRILI 323 (330)
Q Consensus 281 k~~~C~~C~~~F~~~~~L~---~H~-~~H~~-~~p~~C~~C~~~f~~~ 323 (330)
+.|.|..|.+++......- .|- ..|.. .+.|.|..|++.+.+.
T Consensus 251 kav~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~sl 298 (344)
T PF09332_consen 251 KAVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTISL 298 (344)
T ss_dssp EEEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEEES
T ss_pred EEEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeeeec
Confidence 3477999988777665543 233 12332 3568899999876654
No 231
>KOG3214|consensus
Probab=37.03 E-value=13 Score=26.35 Aligned_cols=43 Identities=21% Similarity=0.471 Sum_probs=21.5
Q ss_pred cCCCcccccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchh
Q psy9959 152 VVAPAHMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIA 198 (330)
Q Consensus 152 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 198 (330)
.....|.|+.|+..-.-...|. ..+......|.+|+..|.+..
T Consensus 19 ~ldt~FnClfcnHek~v~~~~D----k~~~iG~~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 19 PLDTQFNCLFCNHEKSVSCTLD----KKHNIGKASCRICEESFQTTI 61 (109)
T ss_pred chheeeccCccccccceeeeeh----hhcCcceeeeeehhhhhccch
Confidence 3445578888864322211121 111223356777777776543
No 232
>KOG4317|consensus
Probab=36.90 E-value=8.7 Score=33.41 Aligned_cols=20 Identities=20% Similarity=0.476 Sum_probs=16.4
Q ss_pred cccCCCccccCChHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHM 302 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~ 302 (330)
|+|+.|+..|-+..-++.|.
T Consensus 20 YtCPRCn~~YCsl~CYr~h~ 39 (383)
T KOG4317|consen 20 YTCPRCNLLYCSLKCYRNHK 39 (383)
T ss_pred ccCCCCCccceeeeeecCCC
Confidence 78999998888877777764
No 233
>COG1773 Rubredoxin [Energy production and conversion]
Probab=36.78 E-value=15 Score=23.17 Aligned_cols=36 Identities=17% Similarity=0.617 Sum_probs=21.2
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCC------CcccccCCh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQK------PYLCDHCDQ 318 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~------p~~C~~C~~ 318 (330)
.|+|..||..|.-...--.+-. --|.+ -..|+.||-
T Consensus 3 ~~~C~~CG~vYd~e~Gdp~~gi-~pgT~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 3 RWRCSVCGYVYDPEKGDPRCGI-APGTPFEDLPDDWVCPECGV 44 (55)
T ss_pred ceEecCCceEeccccCCccCCC-CCCCchhhCCCccCCCCCCC
Confidence 4889999999876543322211 11111 157999984
No 234
>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=36.62 E-value=24 Score=33.06 Aligned_cols=27 Identities=30% Similarity=0.466 Sum_probs=23.0
Q ss_pred ccccCCCccccCChHHHHHHHHH-cCCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLI-HTDQ 308 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~-H~~~ 308 (330)
-+.|+.|.+.|.+...+..|+.. |-+.
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 37899999999999999999964 6553
No 235
>KOG2461|consensus
Probab=36.36 E-value=22 Score=32.68 Aligned_cols=24 Identities=4% Similarity=-0.200 Sum_probs=10.2
Q ss_pred ccccccCccccCHHHHHHHHHHhc
Q psy9959 242 HKCSICDYASVELSKMRNHMRSHT 265 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~H~~~h~ 265 (330)
..++.+.+.+.....+..|...+.
T Consensus 332 ~~~~~~~~~~~~~~~~~~~~~~~~ 355 (396)
T KOG2461|consen 332 TGETIPVRTPAGQLIYTQSHSMEV 355 (396)
T ss_pred CcCcccccccccccchhhhhhccc
Confidence 334444444444444444444433
No 236
>KOG0717|consensus
Probab=36.19 E-value=19 Score=33.25 Aligned_cols=22 Identities=23% Similarity=0.434 Sum_probs=20.0
Q ss_pred cccCCCccccCChHHHHHHHHH
Q psy9959 283 WKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
+.|.+|.++|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6699999999999999999854
No 237
>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=35.77 E-value=5.7 Score=22.62 Aligned_cols=29 Identities=17% Similarity=0.540 Sum_probs=19.1
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccC
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHC 316 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C 316 (330)
.|+.|+..= .+.+|=+...|...|.|..|
T Consensus 7 ~CP~C~s~~----~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 7 HCPRCQSTE----GVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eCCCCCCCC----cceeCCCCCCCCEeEecCcC
Confidence 588887432 24555555666667888887
No 238
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=35.42 E-value=43 Score=29.84 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=10.0
Q ss_pred CCcccccccC-cccCChhHHHHHH
Q psy9959 154 APAHMCNYCN-YTSPKRYLLARHL 176 (330)
Q Consensus 154 ~~~~~C~~C~-~~f~~~~~l~~H~ 176 (330)
...|.|.+|| +++..+..+.+|.
T Consensus 372 d~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 372 DIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred CcceeeeecccccccchHHHHhhh
Confidence 3334444444 4444444444443
No 239
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=34.91 E-value=9.8 Score=27.71 Aligned_cols=24 Identities=17% Similarity=0.250 Sum_probs=16.5
Q ss_pred ccccCCCccccCC-hHHHHHHHHHcC
Q psy9959 282 CWKCELCPYASSS-QRHLESHMLIHT 306 (330)
Q Consensus 282 ~~~C~~C~~~F~~-~~~L~~H~~~H~ 306 (330)
.-+| .||..|.. +.+.+.|..++.
T Consensus 24 ~vkc-~CGh~f~d~r~NwK~~alv~v 48 (112)
T PF08882_consen 24 VVKC-DCGHEFCDARENWKLGALVYV 48 (112)
T ss_pred eeec-cCCCeecChhcChhhCcEEEe
Confidence 4556 49999986 567777765543
No 240
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=34.59 E-value=32 Score=29.01 Aligned_cols=36 Identities=17% Similarity=0.343 Sum_probs=18.5
Q ss_pred eecCccccccCChHHHHHHHhhhcCCCCCccccccCccccCH
Q psy9959 213 HKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDYASVEL 254 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k~f~~~ 254 (330)
-.|..|.+.|.--.. ..-.|---|.|+.|+..|...
T Consensus 133 SRCr~C~~rYDPVP~------dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 133 SRCRKCRKRYDPVPC------DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred ccccccccccCCCcc------ccccceeeeecccccccchhh
Confidence 456666666644321 011233346677777666543
No 241
>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=34.18 E-value=4.4 Score=22.72 Aligned_cols=25 Identities=24% Similarity=0.454 Sum_probs=11.6
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
.|..|++.|..+.-+ +.|-+++|++
T Consensus 5 ~C~eC~~~f~dSyL~----------~~F~~~VCD~ 29 (34)
T PF01286_consen 5 KCDECGKPFMDSYLL----------NNFDLPVCDK 29 (34)
T ss_dssp E-TTT--EES-SSCC----------CCTS-S--TT
T ss_pred hHhHhCCHHHHHHHH----------HhCCcccccc
Confidence 589999999876432 2377777765
No 242
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=34.07 E-value=7.1 Score=23.67 Aligned_cols=8 Identities=25% Similarity=0.708 Sum_probs=4.0
Q ss_pred eccCcccc
Q psy9959 187 CSVCERGF 194 (330)
Q Consensus 187 C~~C~~~f 194 (330)
|+.||...
T Consensus 2 CP~Cg~~a 9 (47)
T PF04606_consen 2 CPHCGSKA 9 (47)
T ss_pred cCCCCCee
Confidence 55555443
No 243
>PLN02294 cytochrome c oxidase subunit Vb
Probab=33.78 E-value=19 Score=28.56 Aligned_cols=20 Identities=25% Similarity=0.439 Sum_probs=14.2
Q ss_pred HHcCCCCCcccccCChhhHhh
Q psy9959 303 LIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 303 ~~H~~~~p~~C~~C~~~f~~~ 323 (330)
..+.| +|+.|+.||..|...
T Consensus 135 ~L~kG-kp~RCpeCG~~fkL~ 154 (174)
T PLN02294 135 WLEKG-KSFECPVCTQYFELE 154 (174)
T ss_pred EecCC-CceeCCCCCCEEEEE
Confidence 34544 688899999888653
No 244
>PRK05580 primosome assembly protein PriA; Validated
Probab=33.23 E-value=30 Score=34.47 Aligned_cols=9 Identities=33% Similarity=0.988 Sum_probs=4.9
Q ss_pred CccccccCc
Q psy9959 241 PHKCSICDY 249 (330)
Q Consensus 241 ~~~C~~C~k 249 (330)
+..|+.||.
T Consensus 421 ~~~Cp~Cg~ 429 (679)
T PRK05580 421 PKACPECGS 429 (679)
T ss_pred CCCCCCCcC
Confidence 445666654
No 245
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=33.22 E-value=30 Score=21.10 Aligned_cols=11 Identities=18% Similarity=0.446 Sum_probs=5.3
Q ss_pred ceecCcccccc
Q psy9959 212 PHKCKYCESRF 222 (330)
Q Consensus 212 ~~~C~~C~~~f 222 (330)
.+.|+.||..+
T Consensus 20 ~~vC~~Cg~~~ 30 (52)
T smart00661 20 RFVCRKCGYEE 30 (52)
T ss_pred EEECCcCCCeE
Confidence 34555555443
No 246
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=32.75 E-value=20 Score=25.80 Aligned_cols=26 Identities=19% Similarity=0.155 Sum_probs=21.9
Q ss_pred CCCccccCCCccccCChHHHHHHHHH
Q psy9959 279 GEKCWKCELCPYASSSQRHLESHMLI 304 (330)
Q Consensus 279 ~~k~~~C~~C~~~F~~~~~L~~H~~~ 304 (330)
|.-.|.|-.|.+-|.+...|..|.+.
T Consensus 52 GlGqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 52 GLGQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred CCceeeeehhHHHHHHHHHHHHHhcc
Confidence 44457799999999999999999863
No 247
>PRK10220 hypothetical protein; Provisional
Probab=32.36 E-value=21 Score=25.98 Aligned_cols=29 Identities=17% Similarity=0.424 Sum_probs=20.8
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
.|+.|+..|.+.. ...|.|+.|+.-|...
T Consensus 5 ~CP~C~seytY~d-----------~~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 5 HCPKCNSEYTYED-----------NGMYICPECAHEWNDA 33 (111)
T ss_pred cCCCCCCcceEcC-----------CCeEECCcccCcCCcc
Confidence 4899988887642 2348999999887643
No 248
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=32.26 E-value=15 Score=18.99 Aligned_cols=6 Identities=33% Similarity=0.872 Sum_probs=3.4
Q ss_pred cCCCcc
Q psy9959 285 CELCPY 290 (330)
Q Consensus 285 C~~C~~ 290 (330)
|+.||.
T Consensus 19 C~~CG~ 24 (26)
T PF13248_consen 19 CPNCGA 24 (26)
T ss_pred ChhhCC
Confidence 555654
No 249
>PRK12496 hypothetical protein; Provisional
Probab=32.04 E-value=28 Score=27.62 Aligned_cols=28 Identities=14% Similarity=0.264 Sum_probs=19.2
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
|.|.-|++.|... ...-.|+.||..-..
T Consensus 128 ~~C~gC~~~~~~~------------~~~~~C~~CG~~~~r 155 (164)
T PRK12496 128 KVCKGCKKKYPED------------YPDDVCEICGSPVKR 155 (164)
T ss_pred EECCCCCccccCC------------CCCCcCCCCCChhhh
Confidence 7899999988632 111369999965443
No 250
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=31.97 E-value=27 Score=32.12 Aligned_cols=15 Identities=13% Similarity=0.421 Sum_probs=9.0
Q ss_pred CeeeccCcccccchh
Q psy9959 184 PHKCSVCERGFKTIA 198 (330)
Q Consensus 184 ~~~C~~C~~~f~~~~ 198 (330)
-|+|+.||..+....
T Consensus 367 g~rC~kCg~~~~~~~ 381 (421)
T COG1571 367 GFRCKKCGTRARETL 381 (421)
T ss_pred CcccccccccCCccc
Confidence 566666666655443
No 251
>KOG0696|consensus
Probab=31.92 E-value=29 Score=31.97 Aligned_cols=60 Identities=22% Similarity=0.340 Sum_probs=42.1
Q ss_pred CCCCeeeccCcccccchhhhhhccccccCcCceecCccccccCChHHHHHHHhhhcCCCCCccccccCc
Q psy9959 181 EERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTTSGELVRHVRYKHTHEKPHKCSICDY 249 (330)
Q Consensus 181 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~C~~C~k 249 (330)
+...|+|..|. +..|.+-|.- -.|.|+--++.+.+-.....|.-..|+-..|--|.+||.
T Consensus 70 gKQGfQCqvC~--------fvvHkrChef-VtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhCGs 129 (683)
T KOG0696|consen 70 GKQGFQCQVCC--------FVVHKRCHEF-VTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHCGS 129 (683)
T ss_pred ccCceeeeEEe--------ehhhhhhcce-EEEECCCCCCCCCCCCcccccceeeeecCCCchhhhHHH
Confidence 55668888885 3457776642 458888888888777766667655577777777888874
No 252
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=31.36 E-value=14 Score=25.97 Aligned_cols=32 Identities=25% Similarity=0.561 Sum_probs=17.0
Q ss_pred CCeeeccCcccccchhhhhhccccccCcCceecCccccccCC
Q psy9959 183 RPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRFTT 224 (330)
Q Consensus 183 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 224 (330)
..|.|+.|++.-. .+.- ...+.|..|++.|.-
T Consensus 35 a~y~CpfCgk~~v--------kR~a--~GIW~C~~C~~~~AG 66 (90)
T PRK03976 35 AKHVCPVCGRPKV--------KRVG--TGIWECRKCGAKFAG 66 (90)
T ss_pred cCccCCCCCCCce--------EEEE--EEEEEcCCCCCEEeC
Confidence 3477777765311 1112 234677777776643
No 253
>KOG1842|consensus
Probab=30.19 E-value=28 Score=31.98 Aligned_cols=26 Identities=19% Similarity=0.496 Sum_probs=22.8
Q ss_pred ccccCCCccccCChHHHHHHHHH-cCC
Q psy9959 282 CWKCELCPYASSSQRHLESHMLI-HTD 307 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~-H~~ 307 (330)
.|.|++|.+.|.+...|..|+-. |.+
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccc
Confidence 48899999999999999999965 654
No 254
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=29.90 E-value=27 Score=27.12 Aligned_cols=8 Identities=25% Similarity=0.737 Sum_probs=3.8
Q ss_pred ceecCccc
Q psy9959 212 PHKCKYCE 219 (330)
Q Consensus 212 ~~~C~~C~ 219 (330)
.|.|..|+
T Consensus 140 ~YrC~~C~ 147 (156)
T COG3091 140 VYRCGKCG 147 (156)
T ss_pred eEEeccCC
Confidence 44444444
No 255
>KOG2272|consensus
Probab=29.78 E-value=73 Score=27.01 Aligned_cols=35 Identities=26% Similarity=0.643 Sum_probs=19.6
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
.|.|..|++....+..+.. -..+| .|..|--.|+.
T Consensus 280 cf~Cs~Cdkkl~~K~Kf~E-----~DmkP-~CKkCy~rfp~ 314 (332)
T KOG2272|consen 280 CFSCSTCDKKLTQKNKFYE-----FDMKP-VCKKCYDRFPL 314 (332)
T ss_pred cccccccccccccccceee-----eccch-HHHHHHhhccH
Confidence 4788888877665543321 12232 57666655553
No 256
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=29.37 E-value=63 Score=25.97 Aligned_cols=8 Identities=25% Similarity=0.820 Sum_probs=3.9
Q ss_pred eecCcccc
Q psy9959 213 HKCKYCES 220 (330)
Q Consensus 213 ~~C~~C~~ 220 (330)
|.|+.||.
T Consensus 133 F~Cp~Cg~ 140 (176)
T COG1675 133 FTCPKCGE 140 (176)
T ss_pred CCCCCCCc
Confidence 44555543
No 257
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=29.29 E-value=59 Score=26.87 Aligned_cols=40 Identities=15% Similarity=0.191 Sum_probs=24.3
Q ss_pred ccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 276 SHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 276 ~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
.|..-....|..|+..|.....+. ..........|+.||-
T Consensus 89 lHG~~~~~~C~~C~~~~~~~~~~~---~~~~~~~~p~C~~Cgg 128 (206)
T cd01410 89 LHGNMFIEVCKSCGPEYVRDDVVE---TRGDKETGRRCHACGG 128 (206)
T ss_pred ecCCcCcccCCCCCCccchHHHHH---HhhcCCCCCcCCCCcC
Confidence 344445578999998876554332 1222334567999984
No 258
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=29.23 E-value=58 Score=20.55 Aligned_cols=18 Identities=11% Similarity=0.272 Sum_probs=11.9
Q ss_pred ccccccCccccCHHHHHH
Q psy9959 242 HKCSICDYASVELSKMRN 259 (330)
Q Consensus 242 ~~C~~C~k~f~~~~~L~~ 259 (330)
+-|-.||..|.+...|..
T Consensus 28 ~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDLER 45 (55)
T ss_pred ceeeeeCCccCCHHHHHh
Confidence 557777777777666654
No 259
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=29.09 E-value=23 Score=35.13 Aligned_cols=34 Identities=18% Similarity=0.236 Sum_probs=19.6
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
-.|..|++.|.....+ .+.|.+.|..||..|...
T Consensus 461 dtC~~C~kkFfSlsK~-------L~~RKHHCRkCGrVFC~~ 494 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRP-------LGTRAHHCRSCGIRLCVF 494 (1374)
T ss_pred CcccCcCCcccccccc-------cccccccccCCccccCcc
Confidence 4599999999754210 022345566666655443
No 260
>KOG0978|consensus
Probab=28.86 E-value=26 Score=34.54 Aligned_cols=17 Identities=24% Similarity=0.534 Sum_probs=11.0
Q ss_pred eecCccccccCChHHHH
Q psy9959 213 HKCKYCESRFTTSGELV 229 (330)
Q Consensus 213 ~~C~~C~~~f~~~~~l~ 229 (330)
-+||.|+..|....-+.
T Consensus 679 RKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 679 RKCPKCNAAFGANDVHR 695 (698)
T ss_pred CCCCCCCCCCCcccccc
Confidence 35888888777655433
No 261
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=28.27 E-value=11 Score=24.90 Aligned_cols=17 Identities=18% Similarity=0.374 Sum_probs=9.4
Q ss_pred cCCCCCcccccCChhhHh
Q psy9959 305 HTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 305 H~~~~p~~C~~C~~~f~~ 322 (330)
..+.+.-+| +||+.-..
T Consensus 15 ~e~~kTkkC-~CG~~l~v 31 (68)
T PF09082_consen 15 KEGAKTKKC-VCGKTLKV 31 (68)
T ss_dssp ETT-SEEEE-TTTEEEE-
T ss_pred cCCcceeEe-cCCCeeee
Confidence 445566677 78765443
No 262
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=28.16 E-value=43 Score=21.01 Aligned_cols=32 Identities=25% Similarity=0.547 Sum_probs=21.9
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
.|.-|+.......... +..++....|+.||+.
T Consensus 24 ~C~gC~~~l~~~~~~~----i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 24 TCSGCHMELPPQELNE----IRKGDEIVFCPNCGRI 55 (56)
T ss_pred ccCCCCEEcCHHHHHH----HHcCCCeEECcCCCcc
Confidence 6999998777543322 2344678999999963
No 263
>KOG0782|consensus
Probab=28.01 E-value=16 Score=34.69 Aligned_cols=27 Identities=22% Similarity=0.425 Sum_probs=11.5
Q ss_pred hhhhccccccCcCceecCccccccCCh
Q psy9959 199 SLQNHINTHTGVKPHKCKYCESRFTTS 225 (330)
Q Consensus 199 ~l~~H~~~h~~~~~~~C~~C~~~f~~~ 225 (330)
.|.+|--+|.....-+|..|++.|..+
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQK 266 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQK 266 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhhh
Confidence 333443333333333455555555443
No 264
>KOG1842|consensus
Probab=28.00 E-value=31 Score=31.73 Aligned_cols=23 Identities=17% Similarity=0.618 Sum_probs=14.1
Q ss_pred CeeeccCcccccchhhhhhcccc
Q psy9959 184 PHKCSVCERGFKTIASLQNHINT 206 (330)
Q Consensus 184 ~~~C~~C~~~f~~~~~l~~H~~~ 206 (330)
.|.|++|...|.+...|..|.-.
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~ 37 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDV 37 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhh
Confidence 36666666666666666666544
No 265
>PRK00420 hypothetical protein; Validated
Probab=27.99 E-value=36 Score=25.08 Aligned_cols=27 Identities=15% Similarity=0.399 Sum_probs=18.0
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhH
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRI 321 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~ 321 (330)
.|+.||..+... ......|+.||....
T Consensus 25 ~CP~Cg~pLf~l-----------k~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 25 HCPVCGLPLFEL-----------KDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCCCCCcceec-----------CCCceECCCCCCeee
Confidence 499999665431 123578999997544
No 266
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=27.76 E-value=28 Score=21.29 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=6.1
Q ss_pred CccccccCcc
Q psy9959 241 PHKCSICDYA 250 (330)
Q Consensus 241 ~~~C~~C~k~ 250 (330)
.+.|..||.+
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 3666667654
No 267
>PHA02998 RNA polymerase subunit; Provisional
Probab=26.97 E-value=25 Score=28.00 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=4.3
Q ss_pred ccccccCccc
Q psy9959 242 HKCSICDYAS 251 (330)
Q Consensus 242 ~~C~~C~k~f 251 (330)
|.|..||+.|
T Consensus 172 YkC~~CG~~w 181 (195)
T PHA02998 172 HACRDCKKHF 181 (195)
T ss_pred EEcCCCCCcc
Confidence 3444444443
No 268
>PRK05978 hypothetical protein; Provisional
Probab=26.87 E-value=16 Score=28.38 Aligned_cols=9 Identities=22% Similarity=0.589 Sum_probs=4.7
Q ss_pred cCCCccccC
Q psy9959 285 CELCPYASS 293 (330)
Q Consensus 285 C~~C~~~F~ 293 (330)
|+.||..|.
T Consensus 55 C~~CG~~~~ 63 (148)
T PRK05978 55 CAACGEDFT 63 (148)
T ss_pred ccccCCccc
Confidence 555555444
No 269
>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=26.85 E-value=45 Score=31.26 Aligned_cols=27 Identities=19% Similarity=0.480 Sum_probs=17.9
Q ss_pred ceecCccccccCChHHHHHHHhhhcCC
Q psy9959 212 PHKCKYCESRFTTSGELVRHVRYKHTH 238 (330)
Q Consensus 212 ~~~C~~C~~~f~~~~~l~~H~~~~H~~ 238 (330)
-..|+.|.+.|.....+..|+...|.+
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 456666777777777777777665654
No 270
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=26.71 E-value=25 Score=25.96 Aligned_cols=39 Identities=21% Similarity=0.435 Sum_probs=17.8
Q ss_pred ccccccCcccCChhHHHHHHhhhCCCCCeeeccCccccc
Q psy9959 157 HMCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFK 195 (330)
Q Consensus 157 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 195 (330)
..|+.|+..=.....|+.-..--....-|.|..||.+|.
T Consensus 73 ~~CpkCg~~ea~y~~~QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYYWQLQTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEEEeeehhccCCCceEEEEecccCCEee
Confidence 567777754333222221111111122377777776654
No 271
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=26.50 E-value=32 Score=21.85 Aligned_cols=30 Identities=10% Similarity=0.092 Sum_probs=17.3
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCccccc
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDH 315 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~ 315 (330)
|++...||..|... .+..++ .+.+...||+
T Consensus 24 PV~s~~C~H~fek~-aI~~~i---~~~~~~~CPv 53 (57)
T PF11789_consen 24 PVKSKKCGHTFEKE-AILQYI---QRNGSKRCPV 53 (57)
T ss_dssp EEEESSS--EEEHH-HHHHHC---TTTS-EE-SC
T ss_pred CcCcCCCCCeecHH-HHHHHH---HhcCCCCCCC
Confidence 45678899999855 444555 3456789998
No 272
>COG4640 Predicted membrane protein [Function unknown]
Probab=26.41 E-value=45 Score=30.25 Aligned_cols=20 Identities=15% Similarity=0.286 Sum_probs=12.4
Q ss_pred CCccccccCccccCHHHHHH
Q psy9959 240 KPHKCSICDYASVELSKMRN 259 (330)
Q Consensus 240 ~~~~C~~C~k~f~~~~~L~~ 259 (330)
-.++|+.||..|....++.+
T Consensus 14 d~~qC~qCG~~~t~~~sqan 33 (465)
T COG4640 14 DDVQCTQCGHKFTSRQSQAN 33 (465)
T ss_pred ccccccccCCcCCchhhhhh
Confidence 33457777777766665554
No 273
>KOG2636|consensus
Probab=26.34 E-value=44 Score=30.84 Aligned_cols=29 Identities=24% Similarity=0.589 Sum_probs=24.0
Q ss_pred cccCCCCccccCCCc-cccCChHHHHHHHH
Q psy9959 275 KSHEGEKCWKCELCP-YASSSQRHLESHML 303 (330)
Q Consensus 275 ~~~~~~k~~~C~~C~-~~F~~~~~L~~H~~ 303 (330)
+.|.=...|.|.+|| +++.-+..+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 455566779999999 89999999999974
No 274
>KOG1813|consensus
Probab=25.62 E-value=42 Score=29.19 Aligned_cols=15 Identities=33% Similarity=0.702 Sum_probs=11.7
Q ss_pred CceecCccccccCCh
Q psy9959 211 KPHKCKYCESRFTTS 225 (330)
Q Consensus 211 ~~~~C~~C~~~f~~~ 225 (330)
-||.|.+|.+.|...
T Consensus 240 ~Pf~c~icr~~f~~p 254 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRP 254 (313)
T ss_pred CCccccccccccccc
Confidence 578888888888765
No 275
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=25.40 E-value=45 Score=28.58 Aligned_cols=66 Identities=23% Similarity=0.333 Sum_probs=42.9
Q ss_pred cccCHHHHHHHHHHhcCCCCceeeecc----cCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 250 ASVELSKMRNHMRSHTGERPYQLHCKS----HEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 250 ~f~~~~~L~~H~~~h~~~~~~~~h~~~----~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
-|..-..|.+-+..+++...|.--.++ -..+..-.|+.||....-...| | +--.|+|..|......
T Consensus 184 Ls~~G~~l~~~Ie~~T~iPtYYyLyrv~g~~~~~e~~r~CP~Cg~~W~L~~pl--h-----~iFdFKCD~CRLVSnl 253 (258)
T PF10071_consen 184 LSKRGRDLCKRIEKLTGIPTYYYLYRVGGESLASEQARKCPSCGGDWRLKEPL--H-----DIFDFKCDPCRLVSNL 253 (258)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEccCcchHHhhCCCCCCCCCccccCCch--h-----hceeccCCcceeeccc
Confidence 455566677777778877766432222 2223445799999988877776 2 3345999999865543
No 276
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=25.27 E-value=33 Score=18.97 Aligned_cols=8 Identities=38% Similarity=0.974 Sum_probs=3.3
Q ss_pred eecCcccc
Q psy9959 213 HKCKYCES 220 (330)
Q Consensus 213 ~~C~~C~~ 220 (330)
|.|..|++
T Consensus 28 f~C~~C~~ 35 (39)
T smart00132 28 FKCSKCGK 35 (39)
T ss_pred CCCcccCC
Confidence 34444443
No 277
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=25.23 E-value=26 Score=24.10 Aligned_cols=11 Identities=27% Similarity=0.893 Sum_probs=3.0
Q ss_pred CCCcccccccC
Q psy9959 153 VAPAHMCNYCN 163 (330)
Q Consensus 153 ~~~~~~C~~C~ 163 (330)
....|.|+.|+
T Consensus 19 l~~~F~CPfC~ 29 (81)
T PF05129_consen 19 LPKVFDCPFCN 29 (81)
T ss_dssp -SS----TTT-
T ss_pred CCceEcCCcCC
Confidence 34456677666
No 278
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=23.83 E-value=82 Score=19.85 Aligned_cols=30 Identities=13% Similarity=-0.084 Sum_probs=19.4
Q ss_pred CCccccCChHHHHHHHHHcCCCCCcccccCChhhHh
Q psy9959 287 LCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRIL 322 (330)
Q Consensus 287 ~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~ 322 (330)
-||..|. +..+..+++. ...||.|++.+..
T Consensus 18 ~~G~v~~-~~~i~~~~~~-----~~~cP~~~~~~~~ 47 (63)
T smart00504 18 PSGQTYE-RRAIEKWLLS-----HGTDPVTGQPLTH 47 (63)
T ss_pred CCCCEEe-HHHHHHHHHH-----CCCCCCCcCCCCh
Confidence 3566665 4456666654 2479999988744
No 279
>KOG1729|consensus
Probab=23.82 E-value=26 Score=30.64 Aligned_cols=11 Identities=18% Similarity=0.314 Sum_probs=6.9
Q ss_pred eccCcccccch
Q psy9959 187 CSVCERGFKTI 197 (330)
Q Consensus 187 C~~C~~~f~~~ 197 (330)
|..||..|...
T Consensus 188 CR~CG~ivC~~ 198 (288)
T KOG1729|consen 188 CRNCGDIVCAP 198 (288)
T ss_pred HHhcchHhhhh
Confidence 66677666553
No 280
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=23.78 E-value=42 Score=26.87 Aligned_cols=23 Identities=17% Similarity=0.478 Sum_probs=17.5
Q ss_pred cccCCCccccCChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|.-|++.|. ...-.|+.||-.
T Consensus 140 ~rC~GC~~~f~--------------~~~~~Cp~CG~~ 162 (177)
T COG1439 140 LRCHGCKRIFP--------------EPKDFCPICGSP 162 (177)
T ss_pred EEEecCceecC--------------CCCCcCCCCCCc
Confidence 68999999998 122579999854
No 281
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=23.78 E-value=57 Score=20.49 Aligned_cols=9 Identities=22% Similarity=0.563 Sum_probs=4.3
Q ss_pred cccccCccc
Q psy9959 158 MCNYCNYTS 166 (330)
Q Consensus 158 ~C~~C~~~f 166 (330)
.|..|++.|
T Consensus 7 ~C~~Cg~~~ 15 (54)
T PF14446_consen 7 KCPVCGKKF 15 (54)
T ss_pred cChhhCCcc
Confidence 345555444
No 282
>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=23.51 E-value=31 Score=20.95 Aligned_cols=36 Identities=17% Similarity=0.536 Sum_probs=19.2
Q ss_pred cccCCCccccCChHHHHHHHHHcCC------CCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTD------QKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~------~~p~~C~~C~~~ 319 (330)
|+|..||..|.-...-..+- +--| -.-|.|+.|+-.
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~-i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENG-IPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEETTTSBEEETTTBBGGGT-B-TT--GGGS-TT-B-TTTSSB
T ss_pred cCCCCCCEEEcCCcCCcccC-cCCCCCHHHCCCCCcCcCCCCc
Confidence 78999998887654321110 0111 123899999854
No 283
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=23.46 E-value=34 Score=27.92 Aligned_cols=13 Identities=15% Similarity=0.383 Sum_probs=6.5
Q ss_pred eeeccCcccccch
Q psy9959 185 HKCSVCERGFKTI 197 (330)
Q Consensus 185 ~~C~~C~~~f~~~ 197 (330)
+.|..||.++...
T Consensus 44 ~~C~~CgYR~~DV 56 (201)
T COG1779 44 GVCERCGYRSTDV 56 (201)
T ss_pred EEccccCCcccce
Confidence 4455555554433
No 284
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=23.45 E-value=34 Score=21.71 Aligned_cols=30 Identities=23% Similarity=0.488 Sum_probs=21.4
Q ss_pred cccCCCccccC-ChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASS-SQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~-~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|+ ||-+|. +...| -.|+.--.||-|...
T Consensus 23 yPCP-CGDRFeIsLeDl------~~GE~VArCPSCSLi 53 (67)
T COG5216 23 YPCP-CGDRFEISLEDL------RNGEVVARCPSCSLI 53 (67)
T ss_pred ecCC-CCCEeEEEHHHh------hCCceEEEcCCceEE
Confidence 7888 999887 34444 347777889988743
No 285
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.33 E-value=31 Score=22.20 Aligned_cols=12 Identities=17% Similarity=0.332 Sum_probs=9.7
Q ss_pred cccCCCccccCC
Q psy9959 283 WKCELCPYASSS 294 (330)
Q Consensus 283 ~~C~~C~~~F~~ 294 (330)
-.|++|+..|+.
T Consensus 49 v~CPYC~t~y~l 60 (62)
T COG4391 49 VVCPYCSTRYRL 60 (62)
T ss_pred EecCccccEEEe
Confidence 469999998863
No 286
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=23.05 E-value=37 Score=19.88 Aligned_cols=10 Identities=20% Similarity=0.733 Sum_probs=5.1
Q ss_pred eecCcccccc
Q psy9959 213 HKCKYCESRF 222 (330)
Q Consensus 213 ~~C~~C~~~f 222 (330)
+.|+.||..+
T Consensus 33 ~~C~~CGE~~ 42 (46)
T TIGR03831 33 LVCPQCGEEY 42 (46)
T ss_pred cccccCCCEe
Confidence 4455555544
No 287
>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=22.51 E-value=33 Score=19.55 Aligned_cols=10 Identities=50% Similarity=1.278 Sum_probs=4.7
Q ss_pred CcccccCChh
Q psy9959 310 PYLCDHCDQI 319 (330)
Q Consensus 310 p~~C~~C~~~ 319 (330)
.|+|..||..
T Consensus 6 ~YkC~~CGni 15 (36)
T PF06397_consen 6 FYKCEHCGNI 15 (36)
T ss_dssp EEE-TTT--E
T ss_pred EEEccCCCCE
Confidence 4777777754
No 288
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=22.36 E-value=78 Score=26.49 Aligned_cols=38 Identities=13% Similarity=0.203 Sum_probs=23.2
Q ss_pred ccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 276 SHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 276 ~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
.|..-....|..|++.|..... . .......-.|+.||-
T Consensus 107 lHG~l~~~~C~~C~~~~~~~~~-~----~~~~~~~p~C~~Cgg 144 (222)
T cd01413 107 LHGTLQTAYCVNCGSKYDLEEV-K----YAKKHEVPRCPKCGG 144 (222)
T ss_pred ccCCcCcceECCCCCCcchhHH-H----HhccCCCCcCCCCCC
Confidence 3444455789999998875533 1 111223457999984
No 289
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.33 E-value=44 Score=21.43 Aligned_cols=6 Identities=33% Similarity=0.993 Sum_probs=2.2
Q ss_pred eeeccC
Q psy9959 185 HKCSVC 190 (330)
Q Consensus 185 ~~C~~C 190 (330)
|.|+.|
T Consensus 32 ymC~eC 37 (68)
T COG4896 32 YMCPEC 37 (68)
T ss_pred Eechhh
Confidence 333333
No 290
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=22.25 E-value=77 Score=26.99 Aligned_cols=39 Identities=18% Similarity=0.393 Sum_probs=24.1
Q ss_pred ccCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 276 SHEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 276 ~~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
.|..-....|..|++.|.....+.. .. ....-.|+.||-
T Consensus 113 lHG~~~~~~C~~C~~~~~~~~~~~~---~~-~~~~p~Cp~Cgg 151 (244)
T PRK14138 113 LHGNVEEYYCVRCGKRYTVEDVIEK---LE-KSDVPRCDDCSG 151 (244)
T ss_pred ccCCcCeeEECCCCCcccHHHHHHH---Hh-cCCCCCCCCCCC
Confidence 4444555789999999876544431 11 123457999983
No 291
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=22.07 E-value=37 Score=32.95 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=23.7
Q ss_pred cccCCCccccCCh-HHHHHHHHHcCC----CCCcccccCChhhHhh
Q psy9959 283 WKCELCPYASSSQ-RHLESHMLIHTD----QKPYLCDHCDQIRILI 323 (330)
Q Consensus 283 ~~C~~C~~~F~~~-~~L~~H~~~H~~----~~p~~C~~C~~~f~~~ 323 (330)
..|+.||..|.-. .. ++...+ .--|.|+.||......
T Consensus 201 vpCPhCg~~~~l~~~~----l~w~~~~~~~~a~y~C~~Cg~~i~e~ 242 (557)
T PF05876_consen 201 VPCPHCGEEQVLEWEN----LKWDKGEAPETARYVCPHCGCEIEEH 242 (557)
T ss_pred ccCCCCCCCccccccc----eeecCCCCccceEEECCCCcCCCCHH
Confidence 5799999887743 22 332322 1239999999876543
No 292
>KOG2461|consensus
Probab=21.98 E-value=54 Score=30.21 Aligned_cols=61 Identities=10% Similarity=0.132 Sum_probs=37.9
Q ss_pred cCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhhccccccCcCceecCcccccc
Q psy9959 162 CNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQNHINTHTGVKPHKCKYCESRF 222 (330)
Q Consensus 162 C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 222 (330)
|...+........+...+.......+..++..+.....+..+...+.+.++..+..+.-..
T Consensus 188 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (396)
T KOG2461|consen 188 CHISILTSAMSSNSAEVLDSDSHNLADEESVSLKEQGQLLEPVEVASGPQPVKAGTGHPAV 248 (396)
T ss_pred cccccccccCCCcchhhcccccCCccccccccccccccccccccccCcccccccCCCCccc
Confidence 3333333333334444445556677777777777777778888888777777766655433
No 293
>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=21.96 E-value=39 Score=20.86 Aligned_cols=36 Identities=17% Similarity=0.473 Sum_probs=21.0
Q ss_pred cccCCCccccCChHHHHHHHHHcCC------CCCcccccCChh
Q psy9959 283 WKCELCPYASSSQRHLESHMLIHTD------QKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~~~~~L~~H~~~H~~------~~p~~C~~C~~~ 319 (330)
|+|..||..|.-...-..+ .+-.| -..|.|+.|+-.
T Consensus 2 y~C~~CgyiYd~~~Gd~~~-~i~pGt~f~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 2 YECRICGYIYDPAEGDPDE-GIPPGTPFEDLPDDWVCPVCGAG 43 (50)
T ss_pred cCCCCCCeEECCCCCCccc-CcCCCCCHhHCCCCCCCCCCCCc
Confidence 7899999998854221110 01111 123899999853
No 294
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=21.67 E-value=36 Score=21.20 Aligned_cols=11 Identities=18% Similarity=0.362 Sum_probs=6.6
Q ss_pred cccccCChhhH
Q psy9959 311 YLCDHCDQIRI 321 (330)
Q Consensus 311 ~~C~~C~~~f~ 321 (330)
+.||+||..+.
T Consensus 1 i~CPyCge~~~ 11 (52)
T PF14255_consen 1 IQCPYCGEPIE 11 (52)
T ss_pred CCCCCCCCeeE
Confidence 35777776543
No 295
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.47 E-value=40 Score=29.98 Aligned_cols=22 Identities=18% Similarity=0.652 Sum_probs=16.6
Q ss_pred ccCCCccccCChHHHHHHHHHcCCCCCcccccCChhh
Q psy9959 284 KCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIR 320 (330)
Q Consensus 284 ~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f 320 (330)
.|+.||. -..+-|.|+.||..+
T Consensus 311 ~C~~cg~---------------~~~r~~~C~~cg~~~ 332 (364)
T COG0675 311 TCPCCGH---------------LSGRLFKCPRCGFVH 332 (364)
T ss_pred cccccCC---------------ccceeEECCCCCCee
Confidence 4999997 124669999999764
No 296
>KOG3002|consensus
Probab=21.32 E-value=69 Score=28.24 Aligned_cols=60 Identities=15% Similarity=0.272 Sum_probs=0.0
Q ss_pred CCCccccccCccccCHHHHHHHHHHhcCCCCceeeecccCCCCccccCC----CccccCChHHHHHHHHHcCCCCCcccc
Q psy9959 239 EKPHKCSICDYASVELSKMRNHMRSHTGERPYQLHCKSHEGEKCWKCEL----CPYASSSQRHLESHMLIHTDQKPYLCD 314 (330)
Q Consensus 239 ~~~~~C~~C~k~f~~~~~L~~H~~~h~~~~~~~~h~~~~~~~k~~~C~~----C~~~F~~~~~L~~H~~~H~~~~p~~C~ 314 (330)
++...|+.|...+.....|..-.-.-...-| |+. |.+.|.+... ..|.+.-.. +||.||
T Consensus 78 ~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vp---------------C~~~~~GC~~~~~Y~~~-~~HE~~C~f-~~~~CP 140 (299)
T KOG3002|consen 78 KVSNKCPTCRLPIGNIRCRAMEKVAEAVLVP---------------CKNAKLGCTKSFPYGEK-SKHEKVCEF-RPCSCP 140 (299)
T ss_pred hhcccCCccccccccHHHHHHHHHHHhceec---------------ccccccCCceeeccccc-ccccccccc-CCcCCC
Q ss_pred c
Q psy9959 315 H 315 (330)
Q Consensus 315 ~ 315 (330)
.
T Consensus 141 ~ 141 (299)
T KOG3002|consen 141 V 141 (299)
T ss_pred C
No 297
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=21.19 E-value=51 Score=28.23 Aligned_cols=38 Identities=18% Similarity=0.287 Sum_probs=24.2
Q ss_pred cCCCCccccCCCccccCChHHHHHHHHHcCCCCCcccccCCh
Q psy9959 277 HEGEKCWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQ 318 (330)
Q Consensus 277 ~~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~ 318 (330)
|..-..+.|..|+..|........ .....+-.|+.||.
T Consensus 117 HGsl~~~~C~~C~~~~~~~~~~~~----~~~~~~p~C~~Cg~ 154 (250)
T COG0846 117 HGSLKRVRCSKCGNQYYDEDVIKF----IEDGLIPRCPKCGG 154 (250)
T ss_pred ccceeeeEeCCCcCccchhhhhhh----cccCCCCcCccCCC
Confidence 444455789999988875442211 11224678999997
No 298
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=21.19 E-value=73 Score=18.69 Aligned_cols=30 Identities=17% Similarity=0.196 Sum_probs=20.8
Q ss_pred ccccCCCccccCChHHHHHHHHHcCCCCCcccccCChhhHhh
Q psy9959 282 CWKCELCPYASSSQRHLESHMLIHTDQKPYLCDHCDQIRILI 323 (330)
Q Consensus 282 ~~~C~~C~~~F~~~~~L~~H~~~H~~~~p~~C~~C~~~f~~~ 323 (330)
+-.|..|++.+.... .-|.|..|+......
T Consensus 11 ~~~C~~C~~~i~~~~------------~~~~C~~C~~~~H~~ 40 (49)
T smart00109 11 PTKCCVCRKSIWGSF------------QGLRCSWCKVKCHKK 40 (49)
T ss_pred CCCccccccccCcCC------------CCcCCCCCCchHHHH
Confidence 456999998765421 358899998776543
No 299
>KOG1701|consensus
Probab=20.57 E-value=23 Score=32.43 Aligned_cols=45 Identities=18% Similarity=0.373 Sum_probs=29.0
Q ss_pred cccccCcccCChhHHHHHHhhhCCCCCeeeccCcccccchhhhhh
Q psy9959 158 MCNYCNYTSPKRYLLARHLKSHSEERPHKCSVCERGFKTIASLQN 202 (330)
Q Consensus 158 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 202 (330)
.|-.|++...-...--.-|..-....-|+|..|.+.+.-.+.+..
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v 320 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQV 320 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhcccccccc
Confidence 699999887665544444433223456999999887665554443
No 300
>PTZ00448 hypothetical protein; Provisional
Probab=20.56 E-value=71 Score=28.85 Aligned_cols=24 Identities=21% Similarity=0.480 Sum_probs=20.9
Q ss_pred CccccccCccccCHHHHHHHHHHh
Q psy9959 241 PHKCSICDYASVELSKMRNHMRSH 264 (330)
Q Consensus 241 ~~~C~~C~k~f~~~~~L~~H~~~h 264 (330)
.|.|..|+..|.+....+.|+++-
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 588999999999999999998763
No 301
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=20.32 E-value=39 Score=21.37 Aligned_cols=9 Identities=33% Similarity=0.984 Sum_probs=5.0
Q ss_pred eeccCcccc
Q psy9959 186 KCSVCERGF 194 (330)
Q Consensus 186 ~C~~C~~~f 194 (330)
+|-+|++.+
T Consensus 4 kC~lCdk~~ 12 (56)
T PF09963_consen 4 KCILCDKKE 12 (56)
T ss_pred EEEecCCEE
Confidence 455665544
No 302
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=20.10 E-value=37 Score=18.10 Aligned_cols=8 Identities=25% Similarity=1.315 Sum_probs=2.9
Q ss_pred cccCCCcc
Q psy9959 283 WKCELCPY 290 (330)
Q Consensus 283 ~~C~~C~~ 290 (330)
|.|..|+.
T Consensus 16 Y~C~~Cdf 23 (30)
T PF07649_consen 16 YRCSECDF 23 (30)
T ss_dssp EE-TTT--
T ss_pred EECccCCC
Confidence 55655554
No 303
>KOG2923|consensus
Probab=20.03 E-value=68 Score=20.81 Aligned_cols=30 Identities=23% Similarity=0.537 Sum_probs=21.2
Q ss_pred cccCCCccccC-ChHHHHHHHHHcCCCCCcccccCChh
Q psy9959 283 WKCELCPYASS-SQRHLESHMLIHTDQKPYLCDHCDQI 319 (330)
Q Consensus 283 ~~C~~C~~~F~-~~~~L~~H~~~H~~~~p~~C~~C~~~ 319 (330)
|.|+ ||-.|. ++..|. .|+.--.|+-|...
T Consensus 23 yPCp-CGDrf~It~edL~------~ge~Va~CpsCSL~ 53 (67)
T KOG2923|consen 23 YPCP-CGDRFQITLEDLE------NGEDVARCPSCSLI 53 (67)
T ss_pred cCCC-CCCeeeecHHHHh------CCCeeecCCCceEE
Confidence 6787 998887 455553 46777788888643
Done!