Query psy12639
Match_columns 134
No_of_seqs 129 out of 2037
Neff 10.9
Searched_HMMs 46136
Date Fri Aug 16 15:44:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12639.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12639hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 1E-26 2.2E-31 148.3 5.5 115 1-118 146-265 (279)
2 KOG2462|consensus 99.9 9.3E-24 2E-28 134.9 4.6 89 1-92 177-265 (279)
3 KOG3576|consensus 99.7 2.8E-18 6E-23 105.7 2.1 100 10-110 114-224 (267)
4 KOG3623|consensus 99.7 1.3E-17 2.9E-22 118.7 2.0 80 11-91 892-971 (1007)
5 KOG1074|consensus 99.7 1.4E-17 3.1E-22 119.8 1.7 77 42-118 605-690 (958)
6 KOG1074|consensus 99.6 9.6E-17 2.1E-21 115.7 3.7 60 43-102 880-939 (958)
7 KOG3576|consensus 99.6 1.8E-16 4E-21 97.7 1.4 95 1-96 133-238 (267)
8 KOG3623|consensus 99.6 7E-16 1.5E-20 110.1 3.2 103 14-116 211-329 (1007)
9 KOG3608|consensus 99.6 2.8E-15 6E-20 99.4 3.8 121 1-123 195-348 (467)
10 KOG3608|consensus 99.5 2.4E-13 5.2E-18 90.4 6.5 118 1-121 253-377 (467)
11 PHA00733 hypothetical protein 99.4 2.8E-13 6.1E-18 79.9 4.6 84 10-95 37-124 (128)
12 PHA02768 hypothetical protein; 99.1 3E-11 6.6E-16 59.9 1.5 40 43-84 6-45 (55)
13 PLN03086 PRLI-interacting fact 99.1 3.4E-10 7.3E-15 80.8 6.0 101 9-116 449-560 (567)
14 PLN03086 PRLI-interacting fact 99.0 8.3E-10 1.8E-14 78.9 7.1 54 44-102 455-508 (567)
15 PHA00733 hypothetical protein 99.0 8.1E-10 1.8E-14 65.2 4.7 57 8-67 68-124 (128)
16 PHA02768 hypothetical protein; 99.0 2.7E-10 5.8E-15 56.5 1.7 43 13-58 5-47 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.9 3.5E-10 7.5E-15 48.3 0.7 24 1-24 2-25 (26)
18 PF13465 zf-H2C2_2: Zinc-finge 98.9 9.6E-10 2.1E-14 46.9 1.7 24 58-81 2-25 (26)
19 PHA00616 hypothetical protein 98.8 3.6E-09 7.9E-14 50.1 2.4 33 70-102 1-33 (44)
20 KOG3993|consensus 98.7 6.1E-09 1.3E-13 71.2 1.5 82 14-96 268-382 (500)
21 PHA00616 hypothetical protein 98.6 2.5E-08 5.5E-13 47.2 1.4 33 13-46 1-33 (44)
22 PHA00732 hypothetical protein 98.5 1.3E-07 2.9E-12 51.1 3.0 47 13-65 1-47 (79)
23 PHA00732 hypothetical protein 98.5 1.1E-07 2.3E-12 51.4 2.6 46 42-93 1-47 (79)
24 PF05605 zf-Di19: Drought indu 98.5 4.2E-07 9.1E-12 45.7 4.5 49 43-94 3-53 (54)
25 PF05605 zf-Di19: Drought indu 98.4 6.7E-07 1.4E-11 44.9 3.6 51 13-66 2-53 (54)
26 PF00096 zf-C2H2: Zinc finger, 98.3 5.1E-07 1.1E-11 37.1 1.7 22 71-92 1-22 (23)
27 KOG3993|consensus 98.2 4.8E-07 1E-11 62.2 1.8 54 12-66 294-380 (500)
28 PF12756 zf-C2H2_2: C2H2 type 98.2 1.4E-06 3E-11 49.2 2.4 73 15-93 1-73 (100)
29 COG5189 SFP1 Putative transcri 98.2 4.7E-07 1E-11 60.2 0.3 72 10-91 346-419 (423)
30 PF13894 zf-C2H2_4: C2H2-type 98.1 2.5E-06 5.5E-11 35.2 2.1 24 71-94 1-24 (24)
31 PF13912 zf-C2H2_6: C2H2-type 98.0 3.3E-06 7.2E-11 36.1 1.3 25 70-94 1-25 (27)
32 PF00096 zf-C2H2: Zinc finger, 98.0 5.7E-06 1.2E-10 33.9 1.8 22 14-35 1-22 (23)
33 PF13894 zf-C2H2_4: C2H2-type 97.8 1.6E-05 3.5E-10 32.6 1.7 22 14-35 1-22 (24)
34 PF09237 GAGA: GAGA factor; I 97.8 2.8E-05 6.1E-10 37.8 2.6 33 66-98 20-52 (54)
35 PF13912 zf-C2H2_6: C2H2-type 97.7 2.5E-05 5.5E-10 33.2 1.7 23 13-35 1-23 (27)
36 smart00355 ZnF_C2H2 zinc finge 97.6 9E-05 2E-09 30.8 2.3 24 71-94 1-24 (26)
37 PF09237 GAGA: GAGA factor; I 97.3 0.00025 5.4E-09 34.5 2.1 34 37-70 19-52 (54)
38 smart00355 ZnF_C2H2 zinc finge 97.1 0.00062 1.3E-08 28.1 2.3 20 15-34 2-21 (26)
39 PF12874 zf-met: Zinc-finger o 97.0 0.00037 8.1E-09 28.9 1.2 21 71-91 1-21 (25)
40 PF12874 zf-met: Zinc-finger o 97.0 0.00045 9.7E-09 28.7 1.4 22 14-35 1-22 (25)
41 PRK04860 hypothetical protein; 97.0 0.00066 1.4E-08 41.8 2.4 38 42-83 119-156 (160)
42 PF13909 zf-H2C2_5: C2H2-type 97.0 0.00072 1.6E-08 27.8 1.8 23 71-94 1-23 (24)
43 KOG4173|consensus 96.8 0.001 2.2E-08 42.0 2.1 77 14-94 80-170 (253)
44 PF13913 zf-C2HC_2: zinc-finge 96.7 0.0014 3.1E-08 27.3 1.8 21 71-92 3-23 (25)
45 PF12171 zf-C2H2_jaz: Zinc-fin 96.7 0.0004 8.8E-09 29.5 -0.1 22 71-92 2-23 (27)
46 PRK04860 hypothetical protein; 96.7 0.0015 3.3E-08 40.2 2.3 38 13-55 119-156 (160)
47 PF12171 zf-C2H2_jaz: Zinc-fin 96.6 0.00084 1.8E-08 28.5 0.7 22 14-35 2-23 (27)
48 PF13909 zf-H2C2_5: C2H2-type 96.3 0.0048 1E-07 25.2 2.0 21 14-35 1-21 (24)
49 COG4049 Uncharacterized protei 95.9 0.0048 1E-07 30.6 1.2 31 7-37 11-41 (65)
50 smart00451 ZnF_U1 U1-like zinc 95.5 0.01 2.2E-07 26.6 1.5 22 70-91 3-24 (35)
51 COG5189 SFP1 Putative transcri 95.3 0.0084 1.8E-07 40.6 1.2 49 68-116 347-418 (423)
52 cd00350 rubredoxin_like Rubred 95.0 0.018 4E-07 25.6 1.6 9 69-77 16-24 (33)
53 smart00451 ZnF_U1 U1-like zinc 95.0 0.021 4.5E-07 25.5 1.7 22 13-34 3-24 (35)
54 KOG1146|consensus 94.9 0.014 3E-07 46.4 1.4 26 67-92 515-540 (1406)
55 KOG1146|consensus 94.0 0.04 8.7E-07 44.0 2.2 57 8-64 460-540 (1406)
56 PF12756 zf-C2H2_2: C2H2 type 93.4 0.085 1.8E-06 29.3 2.4 25 41-65 49-73 (100)
57 COG4049 Uncharacterized protei 93.4 0.061 1.3E-06 26.7 1.5 29 66-94 13-41 (65)
58 COG2888 Predicted Zn-ribbon RN 93.0 0.088 1.9E-06 26.6 1.8 31 42-77 27-57 (61)
59 COG5048 FOG: Zn-finger [Genera 93.0 0.02 4.3E-07 40.2 -0.8 61 42-102 289-355 (467)
60 PF13719 zinc_ribbon_5: zinc-r 92.7 0.15 3.3E-06 23.2 2.2 32 15-52 4-35 (37)
61 KOG2231|consensus 92.6 0.21 4.6E-06 37.6 4.0 16 22-37 123-138 (669)
62 COG5048 FOG: Zn-finger [Genera 92.6 0.039 8.4E-07 38.8 0.3 63 12-74 288-355 (467)
63 TIGR02098 MJ0042_CXXC MJ0042 f 92.1 0.17 3.7E-06 23.0 2.0 33 14-52 3-35 (38)
64 cd00729 rubredoxin_SM Rubredox 91.7 0.13 2.8E-06 23.0 1.3 9 43-51 3-11 (34)
65 PF13717 zinc_ribbon_4: zinc-r 91.3 0.3 6.5E-06 22.1 2.3 32 15-52 4-35 (36)
66 COG1592 Rubrerythrin [Energy p 91.1 0.17 3.7E-06 31.4 1.8 23 42-77 134-156 (166)
67 KOG2893|consensus 91.0 0.048 1E-06 35.6 -0.6 49 41-94 10-58 (341)
68 KOG2186|consensus 90.9 0.16 3.5E-06 33.5 1.7 49 13-65 3-51 (276)
69 TIGR00373 conserved hypothetic 90.9 0.19 4E-06 31.0 1.9 33 39-80 106-138 (158)
70 COG5236 Uncharacterized conser 90.3 0.18 3.9E-06 34.8 1.6 23 14-36 152-176 (493)
71 smart00531 TFIIE Transcription 89.7 0.25 5.5E-06 30.0 1.8 35 42-80 99-133 (147)
72 PF09986 DUF2225: Uncharacteri 89.5 0.085 1.8E-06 34.2 -0.4 23 11-33 3-25 (214)
73 PRK06266 transcription initiat 89.5 0.27 5.8E-06 31.0 1.8 33 40-81 115-147 (178)
74 TIGR00622 ssl1 transcription f 89.5 0.46 1E-05 27.5 2.6 78 12-93 14-104 (112)
75 PRK14890 putative Zn-ribbon RN 88.9 0.34 7.4E-06 24.5 1.6 31 42-77 25-55 (59)
76 TIGR00373 conserved hypothetic 88.3 0.68 1.5E-05 28.6 3.0 30 12-51 108-137 (158)
77 PF12013 DUF3505: Protein of u 87.7 1.7 3.8E-05 24.9 4.3 80 12-95 10-109 (109)
78 PRK06266 transcription initiat 87.4 0.32 6.9E-06 30.7 1.2 16 70-85 117-132 (178)
79 KOG2482|consensus 87.2 0.76 1.6E-05 31.9 2.9 22 14-35 196-217 (423)
80 smart00734 ZnF_Rad18 Rad18-lik 86.3 0.93 2E-05 18.9 2.0 19 72-91 3-21 (26)
81 PF09538 FYDLN_acid: Protein o 86.2 0.54 1.2E-05 27.1 1.6 15 69-83 25-39 (108)
82 PHA00626 hypothetical protein 85.8 0.45 9.7E-06 23.8 1.0 12 70-81 23-34 (59)
83 PRK00464 nrdR transcriptional 85.5 0.19 4.1E-06 30.9 -0.6 16 42-57 28-43 (154)
84 COG5236 Uncharacterized conser 85.2 3.1 6.8E-05 29.1 5.0 75 15-95 222-306 (493)
85 smart00659 RPOLCX RNA polymera 85.2 0.75 1.6E-05 21.9 1.5 10 14-23 3-12 (44)
86 KOG2893|consensus 84.4 0.29 6.2E-06 32.1 -0.1 45 12-62 10-54 (341)
87 PF02892 zf-BED: BED zinc fing 84.2 1 2.2E-05 21.2 1.8 26 67-92 13-42 (45)
88 KOG2186|consensus 84.0 0.76 1.7E-05 30.5 1.7 50 43-95 4-53 (276)
89 KOG2785|consensus 83.8 1.4 2.9E-05 31.1 2.9 49 44-92 168-242 (390)
90 PF09723 Zn-ribbon_8: Zinc rib 83.5 0.23 5E-06 23.3 -0.6 13 14-26 6-18 (42)
91 TIGR02605 CxxC_CxxC_SSSS putat 83.5 0.4 8.6E-06 23.5 0.2 12 14-25 6-17 (52)
92 smart00614 ZnF_BED BED zinc fi 83.0 0.93 2E-05 22.0 1.4 21 71-91 19-44 (50)
93 KOG2231|consensus 82.8 2.4 5.2E-05 32.3 4.0 65 26-94 162-236 (669)
94 smart00834 CxxC_CXXC_SSSS Puta 82.5 0.42 9.1E-06 22.0 0.1 11 14-24 6-16 (41)
95 PRK00398 rpoP DNA-directed RNA 81.1 0.51 1.1E-05 22.5 0.1 11 13-23 3-13 (46)
96 COG0068 HypF Hydrogenase matur 80.1 0.31 6.6E-06 37.0 -1.3 56 15-78 125-181 (750)
97 PF04959 ARS2: Arsenite-resist 79.7 1.1 2.5E-05 29.1 1.3 28 11-38 75-102 (214)
98 KOG2807|consensus 79.4 3.2 6.9E-05 28.8 3.3 67 12-93 289-368 (378)
99 PF12013 DUF3505: Protein of u 78.5 2 4.3E-05 24.6 2.0 26 42-67 80-109 (109)
100 PF06524 NOA36: NOA36 protein; 78.3 2 4.3E-05 28.8 2.1 76 10-86 139-225 (314)
101 COG1198 PriA Primosomal protei 76.4 1.5 3.2E-05 33.9 1.3 13 67-79 472-484 (730)
102 PF04959 ARS2: Arsenite-resist 76.2 1.2 2.7E-05 28.9 0.7 26 70-95 77-102 (214)
103 KOG3408|consensus 76.2 2.1 4.5E-05 25.1 1.6 26 67-92 54-79 (129)
104 PF05443 ROS_MUCR: ROS/MUCR tr 74.9 2.1 4.5E-05 25.7 1.4 25 68-95 70-94 (132)
105 KOG4173|consensus 74.8 1.3 2.7E-05 28.6 0.5 84 42-128 79-178 (253)
106 COG1997 RPL43A Ribosomal prote 73.9 1.7 3.6E-05 23.9 0.8 30 42-81 35-64 (89)
107 PRK09678 DNA-binding transcrip 73.8 0.95 2.1E-05 24.1 -0.2 12 43-54 28-41 (72)
108 KOG3408|consensus 73.6 3 6.4E-05 24.5 1.8 24 12-35 56-79 (129)
109 COG1996 RPC10 DNA-directed RNA 73.4 2.3 4.9E-05 20.8 1.1 10 14-23 7-16 (49)
110 KOG2482|consensus 72.7 7.6 0.00016 27.2 3.8 22 71-92 196-217 (423)
111 TIGR02300 FYDLN_acid conserved 72.1 3.1 6.8E-05 24.6 1.7 15 69-83 25-39 (129)
112 PF04780 DUF629: Protein of un 71.2 2.6 5.7E-05 30.7 1.5 29 12-40 56-84 (466)
113 PF10013 DUF2256: Uncharacteri 69.4 3 6.6E-05 19.6 1.0 16 72-87 10-25 (42)
114 KOG2593|consensus 69.0 4 8.6E-05 29.4 1.9 38 11-52 126-163 (436)
115 PF10571 UPF0547: Uncharacteri 68.8 2.2 4.8E-05 17.8 0.4 9 72-80 16-24 (26)
116 KOG2785|consensus 68.7 6.4 0.00014 27.9 2.8 53 12-64 165-242 (390)
117 PF12907 zf-met2: Zinc-binding 68.6 4.1 9E-05 18.9 1.4 27 14-40 2-31 (40)
118 PF08274 PhnA_Zn_Ribbon: PhnA 67.2 2.6 5.6E-05 18.3 0.5 7 43-49 20-26 (30)
119 PF00301 Rubredoxin: Rubredoxi 64.7 3 6.5E-05 20.1 0.5 12 14-25 2-13 (47)
120 KOG4167|consensus 64.5 1.9 4.2E-05 33.1 -0.3 27 12-39 791-817 (907)
121 PF15269 zf-C2H2_7: Zinc-finge 64.2 4.9 0.00011 19.1 1.2 22 14-35 21-42 (54)
122 KOG4167|consensus 64.1 2.5 5.4E-05 32.5 0.2 25 70-94 792-816 (907)
123 PF07754 DUF1610: Domain of un 64.1 4 8.8E-05 16.7 0.8 8 42-49 16-23 (24)
124 PF03604 DNA_RNApol_7kD: DNA d 63.5 7.9 0.00017 17.0 1.7 7 71-77 18-24 (32)
125 PF13451 zf-trcl: Probable zin 62.7 5.5 0.00012 19.4 1.2 14 42-55 4-17 (49)
126 KOG1280|consensus 62.7 8.6 0.00019 27.0 2.5 26 13-38 79-104 (381)
127 TIGR00100 hypA hydrogenase nic 62.2 4.6 0.0001 23.5 1.1 12 43-54 71-82 (115)
128 PRK03824 hypA hydrogenase nick 61.3 3.8 8.3E-05 24.6 0.6 13 42-54 70-82 (135)
129 KOG2907|consensus 60.8 3.6 7.9E-05 23.8 0.5 38 43-82 75-114 (116)
130 smart00440 ZnF_C2C2 C2C2 Zinc 60.5 0.83 1.8E-05 21.2 -1.8 8 43-50 29-36 (40)
131 PF07975 C1_4: TFIIH C1-like d 59.7 2.9 6.2E-05 20.6 -0.1 20 42-61 21-40 (51)
132 KOG1842|consensus 59.1 7.3 0.00016 28.3 1.8 27 70-96 15-41 (505)
133 PF12760 Zn_Tnp_IS1595: Transp 58.2 9.8 0.00021 18.0 1.7 9 43-51 19-27 (46)
134 TIGR01206 lysW lysine biosynth 58.0 5.4 0.00012 19.9 0.7 9 44-52 4-12 (54)
135 PRK12380 hydrogenase nickel in 57.7 6.4 0.00014 22.9 1.1 10 43-52 71-80 (113)
136 COG1655 Uncharacterized protei 57.3 2.9 6.2E-05 27.5 -0.4 8 71-78 63-70 (267)
137 PLN03238 probable histone acet 56.8 13 0.00028 25.4 2.6 30 67-96 45-74 (290)
138 PF13824 zf-Mss51: Zinc-finger 56.6 9.7 0.00021 19.1 1.5 10 69-78 13-22 (55)
139 COG5112 UFD2 U1-like Zn-finger 56.6 7.4 0.00016 22.3 1.2 24 68-91 53-76 (126)
140 PF07282 OrfB_Zn_ribbon: Putat 56.3 9 0.0002 19.7 1.5 15 67-81 43-57 (69)
141 PF02176 zf-TRAF: TRAF-type zi 55.3 14 0.00029 18.3 2.0 34 12-47 8-43 (60)
142 KOG0978|consensus 55.2 4.9 0.00011 30.9 0.4 19 67-85 675-693 (698)
143 smart00154 ZnF_AN1 AN1-like Zi 54.4 7 0.00015 17.9 0.8 14 13-26 12-25 (39)
144 PTZ00255 60S ribosomal protein 54.2 6.9 0.00015 21.8 0.8 13 70-82 54-66 (90)
145 COG1675 TFA1 Transcription ini 54.2 11 0.00024 23.8 1.9 32 39-79 110-141 (176)
146 KOG0717|consensus 52.5 8 0.00017 28.3 1.1 28 71-98 461-489 (508)
147 COG5151 SSL1 RNA polymerase II 52.4 15 0.00032 25.5 2.3 77 13-93 322-411 (421)
148 PRK00564 hypA hydrogenase nick 52.2 8.5 0.00018 22.5 1.1 10 43-52 72-81 (117)
149 PF06220 zf-U1: U1 zinc finger 52.1 15 0.00032 16.8 1.6 21 70-90 3-25 (38)
150 COG4338 Uncharacterized protei 52.1 6.1 0.00013 19.1 0.4 15 72-86 14-28 (54)
151 PF04423 Rad50_zn_hook: Rad50 51.6 5.1 0.00011 19.7 0.1 12 72-83 22-33 (54)
152 TIGR00595 priA primosomal prot 50.7 8 0.00017 28.7 1.0 9 70-78 253-261 (505)
153 KOG4727|consensus 50.0 8.8 0.00019 24.1 0.9 21 14-34 76-96 (193)
154 PLN02294 cytochrome c oxidase 49.9 8.7 0.00019 24.1 0.9 14 12-25 140-153 (174)
155 TIGR00280 L37a ribosomal prote 49.8 8.4 0.00018 21.5 0.7 12 70-81 53-64 (91)
156 PRK14873 primosome assembly pr 49.6 8.3 0.00018 29.7 0.9 9 70-78 422-430 (665)
157 PF05191 ADK_lid: Adenylate ki 48.6 5.3 0.00012 18.0 -0.1 10 15-24 3-12 (36)
158 PF01428 zf-AN1: AN1-like Zinc 47.6 6.8 0.00015 18.3 0.1 16 12-27 12-27 (43)
159 PF10537 WAC_Acf1_DNA_bd: ATP- 47.3 32 0.0007 19.6 2.9 41 12-54 2-42 (102)
160 cd00924 Cyt_c_Oxidase_Vb Cytoc 46.9 9.5 0.00021 21.6 0.7 21 60-81 70-90 (97)
161 KOG1842|consensus 46.7 13 0.00027 27.2 1.4 27 13-39 15-41 (505)
162 PF01155 HypA: Hydrogenase exp 46.6 9.4 0.0002 22.1 0.7 12 14-25 71-82 (113)
163 PF07800 DUF1644: Protein of u 46.4 72 0.0016 19.9 5.4 52 42-95 80-133 (162)
164 PLN00104 MYST -like histone ac 45.7 18 0.0004 26.5 2.1 29 68-96 196-224 (450)
165 smart00661 RPOL9 RNA polymeras 45.3 15 0.00032 17.6 1.2 7 71-77 21-27 (52)
166 PF04780 DUF629: Protein of un 45.2 18 0.00038 26.7 1.9 32 65-96 52-83 (466)
167 PRK03681 hypA hydrogenase nick 44.7 9.3 0.0002 22.2 0.4 10 43-52 71-80 (114)
168 COG1571 Predicted DNA-binding 44.7 15 0.00033 26.6 1.6 14 70-83 367-380 (421)
169 PF01780 Ribosomal_L37ae: Ribo 44.1 8.4 0.00018 21.5 0.2 30 42-81 35-64 (90)
170 PRK00432 30S ribosomal protein 44.1 13 0.00028 18.2 0.8 9 70-78 37-45 (50)
171 COG3091 SprT Zn-dependent meta 43.8 14 0.0003 22.8 1.0 34 41-79 116-149 (156)
172 KOG4602|consensus 43.7 9.1 0.0002 25.7 0.3 38 42-79 233-277 (318)
173 COG2331 Uncharacterized protei 43.6 16 0.00035 19.6 1.2 9 14-22 13-21 (82)
174 KOG0782|consensus 43.4 3.2 7E-05 31.1 -1.9 50 28-84 240-290 (1004)
175 PRK03976 rpl37ae 50S ribosomal 43.2 12 0.00025 20.9 0.7 12 70-81 54-65 (90)
176 PF10276 zf-CHCC: Zinc-finger 42.9 9.5 0.00021 17.7 0.2 11 13-23 29-39 (40)
177 PTZ00064 histone acetyltransfe 42.8 24 0.00052 26.3 2.3 29 68-96 278-306 (552)
178 COG3357 Predicted transcriptio 42.6 9.8 0.00021 21.2 0.3 29 12-51 57-85 (97)
179 PF05495 zf-CHY: CHY zinc fing 42.5 3.3 7.1E-05 21.9 -1.5 58 14-80 11-71 (71)
180 PF02591 DUF164: Putative zinc 42.3 21 0.00047 17.6 1.5 32 44-79 24-55 (56)
181 COG4888 Uncharacterized Zn rib 42.2 3.4 7.4E-05 23.4 -1.5 8 14-21 23-30 (104)
182 PHA02998 RNA polymerase subuni 41.6 4.4 9.5E-05 25.6 -1.3 38 43-83 144-184 (195)
183 PTZ00448 hypothetical protein; 41.0 18 0.0004 25.7 1.5 24 13-36 314-337 (373)
184 PF13878 zf-C2H2_3: zinc-finge 40.7 23 0.00049 16.4 1.4 21 14-34 14-36 (41)
185 PF04810 zf-Sec23_Sec24: Sec23 40.6 5.2 0.00011 18.4 -0.9 10 41-50 23-32 (40)
186 KOG2636|consensus 40.5 26 0.00055 25.7 2.1 58 63-120 394-456 (497)
187 COG4957 Predicted transcriptio 40.0 17 0.00038 21.9 1.1 22 43-67 77-98 (148)
188 PRK00762 hypA hydrogenase nick 39.9 15 0.00032 21.8 0.8 10 43-53 71-80 (124)
189 KOG1280|consensus 39.7 29 0.00062 24.6 2.2 29 70-98 79-107 (381)
190 PF15135 UPF0515: Uncharacteri 39.5 32 0.00069 23.2 2.3 11 12-22 111-121 (278)
191 PF14353 CpXC: CpXC protein 38.7 5 0.00011 23.7 -1.3 23 12-34 37-59 (128)
192 COG5188 PRP9 Splicing factor 3 38.0 19 0.00042 25.4 1.2 23 69-91 237-259 (470)
193 cd00065 FYVE FYVE domain; Zinc 37.4 27 0.00058 17.0 1.4 9 44-52 20-28 (57)
194 COG5216 Uncharacterized conser 37.4 18 0.00038 18.4 0.7 30 43-78 23-52 (67)
195 KOG0717|consensus 37.3 17 0.00036 26.7 0.8 21 71-91 293-313 (508)
196 PF08790 zf-LYAR: LYAR-type C2 37.0 9.8 0.00021 16.2 -0.2 6 18-23 5-10 (28)
197 COG1594 RPB9 DNA-directed RNA 36.8 7 0.00015 22.7 -0.9 37 43-81 73-111 (113)
198 PF01363 FYVE: FYVE zinc finge 36.3 22 0.00049 18.2 1.1 10 15-24 11-20 (69)
199 PRK04023 DNA polymerase II lar 35.5 30 0.00065 28.2 2.0 10 13-22 626-635 (1121)
200 PRK05978 hypothetical protein; 34.9 16 0.00035 22.4 0.4 30 43-81 34-63 (148)
201 TIGR00627 tfb4 transcription f 34.3 33 0.00071 23.5 1.8 10 71-80 256-265 (279)
202 smart00064 FYVE Protein presen 34.3 29 0.00062 17.7 1.3 8 16-23 13-20 (68)
203 KOG2071|consensus 34.2 27 0.00058 26.5 1.5 28 67-94 415-442 (579)
204 PF11672 DUF3268: Protein of u 33.6 25 0.00053 20.2 1.0 13 12-24 1-13 (102)
205 PF13821 DUF4187: Domain of un 33.6 21 0.00045 17.8 0.6 20 12-31 26-45 (55)
206 PF13453 zf-TFIIB: Transcripti 33.5 23 0.0005 16.2 0.8 18 42-59 19-36 (41)
207 COG4896 Uncharacterized protei 33.4 53 0.0011 16.9 2.0 38 44-81 4-42 (68)
208 PF09845 DUF2072: Zn-ribbon co 33.4 19 0.00041 21.6 0.5 15 13-27 1-15 (131)
209 COG3677 Transposase and inacti 32.4 22 0.00047 21.3 0.7 36 43-83 31-66 (129)
210 KOG2747|consensus 32.2 35 0.00077 24.6 1.8 29 68-96 156-184 (396)
211 PF09963 DUF2197: Uncharacteri 32.2 17 0.00037 18.3 0.2 8 71-78 32-39 (56)
212 PF08209 Sgf11: Sgf11 (transcr 32.1 42 0.00092 14.8 1.4 21 71-92 5-25 (33)
213 smart00731 SprT SprT homologue 32.0 26 0.00056 21.2 1.0 32 42-80 112-143 (146)
214 PF03811 Zn_Tnp_IS1: InsA N-te 31.7 12 0.00027 16.9 -0.3 7 42-48 29-35 (36)
215 PLN02748 tRNA dimethylallyltra 31.0 37 0.00079 25.2 1.7 24 68-91 416-440 (468)
216 KOG4124|consensus 30.3 9.2 0.0002 26.9 -1.2 69 11-89 347-417 (442)
217 PF03966 Trm112p: Trm112p-like 29.7 20 0.00044 18.5 0.2 17 8-24 48-64 (68)
218 PF04606 Ogr_Delta: Ogr/Delta- 29.5 12 0.00027 17.8 -0.6 9 16-24 2-10 (47)
219 PTZ00448 hypothetical protein; 29.4 43 0.00093 23.9 1.8 24 70-93 314-337 (373)
220 PF10263 SprT-like: SprT-like 29.1 17 0.00036 22.1 -0.2 10 71-80 144-153 (157)
221 COG3364 Zn-ribbon containing p 28.6 26 0.00056 20.0 0.5 14 70-83 2-15 (112)
222 PF06397 Desulfoferrod_N: Desu 28.2 29 0.00062 15.7 0.5 12 12-23 5-16 (36)
223 PF14311 DUF4379: Domain of un 27.9 56 0.0012 16.0 1.6 9 43-51 29-37 (55)
224 PF14803 Nudix_N_2: Nudix N-te 27.8 8.7 0.00019 17.1 -1.2 8 43-50 23-30 (34)
225 PF10083 DUF2321: Uncharacteri 27.7 18 0.00039 22.4 -0.2 20 67-86 65-84 (158)
226 COG0675 Transposase and inacti 27.5 35 0.00075 23.4 1.1 16 68-83 320-335 (364)
227 PTZ00043 cytochrome c oxidase 27.3 30 0.00065 22.9 0.7 16 11-26 179-194 (268)
228 PRK04351 hypothetical protein; 27.1 37 0.0008 20.8 1.1 32 42-81 112-143 (149)
229 PF01215 COX5B: Cytochrome c o 27.1 20 0.00043 21.7 -0.1 19 62-81 105-123 (136)
230 PLN03239 histone acetyltransfe 26.7 66 0.0014 22.9 2.3 25 68-92 104-128 (351)
231 smart00249 PHD PHD zinc finger 26.4 54 0.0012 14.6 1.4 10 43-52 15-24 (47)
232 TIGR00244 transcriptional regu 26.3 26 0.00056 21.5 0.3 18 69-86 27-44 (147)
233 PF07503 zf-HYPF: HypF finger; 26.1 14 0.00031 16.6 -0.6 10 43-52 22-31 (35)
234 COG1773 Rubredoxin [Energy pro 26.1 29 0.00063 17.4 0.4 13 13-25 3-15 (55)
235 PF07295 DUF1451: Protein of u 26.0 20 0.00044 21.9 -0.2 11 41-51 111-121 (146)
236 cd00730 rubredoxin Rubredoxin; 25.7 26 0.00056 17.1 0.2 13 71-83 2-14 (50)
237 TIGR00686 phnA alkylphosphonat 25.4 39 0.00084 19.6 0.9 10 43-52 20-29 (109)
238 PF14787 zf-CCHC_5: GAG-polypr 25.3 18 0.0004 16.4 -0.4 14 72-85 4-17 (36)
239 PRK05452 anaerobic nitric oxid 25.3 27 0.00058 25.9 0.3 15 41-55 424-438 (479)
240 PF07911 DUF1677: Protein of u 25.2 1.4E+02 0.003 16.8 3.5 65 14-97 5-69 (91)
241 KOG2923|consensus 24.6 55 0.0012 17.0 1.2 13 66-78 40-52 (67)
242 KOG3352|consensus 24.5 35 0.00076 21.0 0.6 14 68-81 131-144 (153)
243 PF14447 Prok-RING_4: Prokaryo 24.4 35 0.00076 17.1 0.5 12 71-82 40-51 (55)
244 PF14255 Cys_rich_CPXG: Cystei 24.3 30 0.00065 17.1 0.3 10 72-81 2-11 (52)
245 PF04438 zf-HIT: HIT zinc fing 24.2 64 0.0014 13.8 1.3 16 12-27 12-27 (30)
246 PF11931 DUF3449: Domain of un 23.5 27 0.00058 22.6 0.0 26 65-90 96-122 (196)
247 CHL00174 accD acetyl-CoA carbo 23.3 40 0.00086 23.4 0.8 33 43-84 39-71 (296)
248 PRK12722 transcriptional activ 23.1 62 0.0013 20.8 1.6 10 44-53 136-145 (187)
249 PF01286 XPA_N: XPA protein N- 22.8 25 0.00054 15.7 -0.2 12 72-83 5-16 (34)
250 KOG1994|consensus 22.7 47 0.001 22.1 0.9 24 40-63 237-260 (268)
251 PRK01343 zinc-binding protein; 22.6 41 0.00089 17.0 0.6 12 70-81 9-20 (57)
252 KOG2071|consensus 22.5 62 0.0013 24.7 1.6 27 9-35 414-440 (579)
253 PRK12860 transcriptional activ 22.5 65 0.0014 20.8 1.5 10 44-53 136-145 (189)
254 COG1579 Zn-ribbon protein, pos 22.3 80 0.0017 21.2 2.0 36 43-82 198-233 (239)
255 PRK14892 putative transcriptio 22.3 34 0.00073 19.5 0.2 7 43-49 22-28 (99)
256 COG4391 Uncharacterized protei 22.2 32 0.0007 17.6 0.1 11 71-81 49-59 (62)
257 TIGR00515 accD acetyl-CoA carb 22.2 43 0.00094 23.0 0.8 14 70-83 45-58 (285)
258 PF08792 A2L_zn_ribbon: A2L zi 21.8 34 0.00074 15.1 0.2 10 71-80 22-31 (33)
259 PF02891 zf-MIZ: MIZ/SP-RING z 21.7 46 0.00099 16.1 0.6 8 71-78 42-49 (50)
260 COG1327 Predicted transcriptio 21.7 36 0.00078 21.0 0.3 16 70-85 28-43 (156)
261 PF14369 zf-RING_3: zinc-finge 21.5 32 0.00069 15.3 0.0 10 44-53 23-32 (35)
262 COG1779 C4-type Zn-finger prot 21.4 26 0.00057 22.6 -0.3 35 14-54 15-55 (201)
263 TIGR03831 YgiT_finger YgiT-typ 21.0 44 0.00096 15.3 0.5 14 41-54 31-44 (46)
264 PF14690 zf-ISL3: zinc-finger 21.0 45 0.00097 15.5 0.5 8 13-20 2-9 (47)
265 PF11494 Ta0938: Ta0938; Inte 20.5 31 0.00068 19.5 -0.1 13 12-24 13-25 (105)
266 PRK08222 hydrogenase 4 subunit 20.4 71 0.0015 20.2 1.5 22 68-89 112-133 (181)
267 PF01927 Mut7-C: Mut7-C RNAse 20.4 89 0.0019 19.0 1.8 46 14-59 92-141 (147)
268 PF11789 zf-Nse: Zinc-finger o 20.2 88 0.0019 15.6 1.5 13 42-54 24-36 (57)
269 COG4306 Uncharacterized protei 20.1 42 0.0009 20.0 0.3 15 69-83 67-81 (160)
No 1
>KOG2462|consensus
Probab=99.93 E-value=1e-26 Score=148.32 Aligned_cols=115 Identities=23% Similarity=0.460 Sum_probs=105.3
Q ss_pred ChhHhhhccC---CCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccc
Q psy12639 1 MESHLMLHTG---AKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCT 77 (134)
Q Consensus 1 l~~h~~~h~~---~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~ 77 (134)
|.+|.++|.. .+-+.|+.|++.|.+...|..|+++ |+ .++.|.+||+.|...=.|+.|+|+|+|+|||.|+.|+
T Consensus 146 LsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirT-H~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~ 222 (279)
T KOG2462|consen 146 LSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRT-HT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCG 222 (279)
T ss_pred cchhhcccccccccccccCCCCCceeeehHHHhhHhhc-cC--CCcccccccccccchHHhhcccccccCCCCccCCccc
Confidence 5677777763 4668999999999999999999997 76 4789999999999999999999999999999999999
Q ss_pred hhhcCHHHHHHHHHhhcCCCCCCCC--CCCcccchhhhhhhhh
Q psy12639 78 VRYLRSYELVLHLKKCHREDARNPY--APAFVDVNTVAQVKQE 118 (134)
Q Consensus 78 ~~f~~~~~l~~H~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 118 (134)
|+|..+++|+.|+++|.+.+.|.|. ++.|....-|.+|...
T Consensus 223 kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred chhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999 8899999999998754
No 2
>KOG2462|consensus
Probab=99.89 E-value=9.3e-24 Score=134.91 Aligned_cols=89 Identities=27% Similarity=0.512 Sum_probs=84.4
Q ss_pred ChhHhhhccCCCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhh
Q psy12639 1 MESHLMLHTGAKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRY 80 (134)
Q Consensus 1 l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f 80 (134)
|+-|+++|. -+++|.+||+.|...=-|+-|+++ |+|++||.|+.|++.|..+++|..|+++|.+.++|+|..|+|.|
T Consensus 177 LkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRT-HTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsF 253 (279)
T KOG2462|consen 177 LKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRT-HTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSF 253 (279)
T ss_pred HhhHhhccC--CCcccccccccccchHHhhccccc-ccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHH
Confidence 567888886 589999999999999999999998 99999999999999999999999999999999999999999999
Q ss_pred cCHHHHHHHHHh
Q psy12639 81 LRSYELVLHLKK 92 (134)
Q Consensus 81 ~~~~~l~~H~~~ 92 (134)
...+-|.+|...
T Consensus 254 sl~SyLnKH~ES 265 (279)
T KOG2462|consen 254 ALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHhhhh
Confidence 999999999875
No 3
>KOG3576|consensus
Probab=99.71 E-value=2.8e-18 Score=105.70 Aligned_cols=100 Identities=27% Similarity=0.496 Sum_probs=88.3
Q ss_pred CCCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHH
Q psy12639 10 GAKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLH 89 (134)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H 89 (134)
+...|.|.+|++.|....-|.+|++- |...+.+.|..||++|...-.|.+|+++|+|.+||.|..|+++|+++-.|..|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kc-h~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKC-HSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhh-ccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHH
Confidence 34559999999999999999999997 88888999999999999999999999999999999999999999999999999
Q ss_pred HHhhcC-----------CCCCCCCCCCcccch
Q psy12639 90 LKKCHR-----------EDARNPYAPAFVDVN 110 (134)
Q Consensus 90 ~~~~~~-----------~~~~~~~~~~~~~~~ 110 (134)
++.-|+ ++.|.|..+++.+..
T Consensus 193 l~kvhgv~~~yaykerr~kl~vcedcg~t~~~ 224 (267)
T KOG3576|consen 193 LKKVHGVQHQYAYKERRAKLYVCEDCGYTSER 224 (267)
T ss_pred HHHHcCchHHHHHHHhhhheeeecccCCCCCC
Confidence 986553 466778866665543
No 4
>KOG3623|consensus
Probab=99.67 E-value=1.3e-17 Score=118.70 Aligned_cols=80 Identities=35% Similarity=0.718 Sum_probs=76.6
Q ss_pred CCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHH
Q psy12639 11 AKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHL 90 (134)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 90 (134)
..+|.|..|++.|.-.++|.+|..- |+|++||.|.+|.+.|..+-.|..|.|.|.|+|||+|+.|+|.|+.+....+||
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYE-HsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHM 970 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYE-HSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHM 970 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhh-hcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhh
Confidence 4679999999999999999999875 999999999999999999999999999999999999999999999999999998
Q ss_pred H
Q psy12639 91 K 91 (134)
Q Consensus 91 ~ 91 (134)
-
T Consensus 971 N 971 (1007)
T KOG3623|consen 971 N 971 (1007)
T ss_pred c
Confidence 5
No 5
>KOG1074|consensus
Probab=99.67 E-value=1.4e-17 Score=119.84 Aligned_cols=77 Identities=26% Similarity=0.458 Sum_probs=63.2
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhhcCC----CCCCCC-----CCCcccchhh
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKCHRE----DARNPY-----APAFVDVNTV 112 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~----~~~~~~-----~~~~~~~~~~ 112 (134)
|..|.+|.+...-.+.|+.|.++|+|++||+|.+||++|+++.+|+.|+-.|... ..++|+ .+.|.....+
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 4689999999999999999999999999999999999999999999999988654 334555 4456666666
Q ss_pred hhhhhh
Q psy12639 113 AQVKQE 118 (134)
Q Consensus 113 ~~~~~~ 118 (134)
..|+..
T Consensus 685 pQhIri 690 (958)
T KOG1074|consen 685 PQHIRI 690 (958)
T ss_pred cceEEe
Confidence 665543
No 6
>KOG1074|consensus
Probab=99.65 E-value=9.6e-17 Score=115.67 Aligned_cols=60 Identities=25% Similarity=0.521 Sum_probs=43.8
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhhcCCCCCCCC
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKCHREDARNPY 102 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 102 (134)
..|.+|++.|...+.|+.|+++|.+++||.|.+|++.|....+|+.||.+|.+..+..-.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srr 939 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRR 939 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCccC
Confidence 357777777777777777777777777777777777777777777777777766554433
No 7
>KOG3576|consensus
Probab=99.60 E-value=1.8e-16 Score=97.74 Aligned_cols=95 Identities=33% Similarity=0.519 Sum_probs=86.0
Q ss_pred ChhHhhhccCCCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcC-----------CC
Q psy12639 1 MESHLMLHTGAKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTG-----------EK 69 (134)
Q Consensus 1 l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~-----------~~ 69 (134)
|.+|+.-|...+-+.|..||+.|...-+|.+|+++ |+|.+||.|..|++.|.....|..|.+.-+| ++
T Consensus 133 lnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rt-htgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~k 211 (267)
T KOG3576|consen 133 LNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRT-HTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAK 211 (267)
T ss_pred HHHHhhhccHHHHHHHhhccCcccchhhhhhhhcc-ccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhh
Confidence 56888899888899999999999999999999997 9999999999999999999999999886443 46
Q ss_pred CcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
.|.|..||..-.....+-.|++.++..
T Consensus 212 l~vcedcg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 212 LYVCEDCGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred eeeecccCCCCCChhHHHHHHHhcCCC
Confidence 699999999999999999999988753
No 8
>KOG3623|consensus
Probab=99.59 E-value=7e-16 Score=110.13 Aligned_cols=103 Identities=20% Similarity=0.400 Sum_probs=87.8
Q ss_pred eeCccchhhccChHHHHHHHhcccc-CCCceecCCCCCccCChhhHHhHHhhhcC-------------CCCcccCccchh
Q psy12639 14 YACTECDQKFNRNSKLKIHYNLAHC-TGEMYECCHCARSFPCKSYLIPHLRVHTG-------------EKPYACNLCTVR 79 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~~h~-~~~~~~C~~C~~~~~~~~~l~~h~~~h~~-------------~~~~~C~~C~~~ 79 (134)
..|+.|.+.+.....|+.|++..|. .+.-|.|..|..+|.....|.+|+..|.. .+.|+|++|||+
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKA 290 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKA 290 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchh
Confidence 6899999999999999999986554 34458899999999999999999988852 355999999999
Q ss_pred hcCHHHHHHHHHhhcCCCCCCCC--CCCcccchhhhhhh
Q psy12639 80 YLRSYELVLHLKKCHREDARNPY--APAFVDVNTVAQVK 116 (134)
Q Consensus 80 f~~~~~l~~H~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 116 (134)
|.....|+.|+|+|.||+||.|+ ++.|.-.-+...|.
T Consensus 291 FKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHm 329 (1007)
T KOG3623|consen 291 FKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHM 329 (1007)
T ss_pred hhhHHHHHhhheeecCCCCcCCcccccccccCCcccccc
Confidence 99999999999999999999999 67887777766665
No 9
>KOG3608|consensus
Probab=99.56 E-value=2.8e-15 Score=99.40 Aligned_cols=121 Identities=23% Similarity=0.417 Sum_probs=85.0
Q ss_pred ChhHhhhccCCCceeCccchhhccChHHHHHHHhcccc--CCCc--------------------------eecCCCCCcc
Q psy12639 1 MESHLMLHTGAKPYACTECDQKFNRNSKLKIHYNLAHC--TGEM--------------------------YECCHCARSF 52 (134)
Q Consensus 1 l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~--~~~~--------------------------~~C~~C~~~~ 52 (134)
|..|++.|.++|...|+.||.-|.....|.+|++- .+ ...+ |.|+.|.-+.
T Consensus 195 LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rR-qt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc 273 (467)
T KOG3608|consen 195 LREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRR-QTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTC 273 (467)
T ss_pred HHHHHHhcCCCeEEecchHHHHhccccHHHHHHHh-hhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCC
Confidence 56899999999999999999999999999999863 22 1223 5566666666
Q ss_pred CChhhHHhHHhh-hcCCCCcccCccchhhcCHHHHHHHHHhhcCCCCCCCC----CCCcccchhhhhhhhhhhcCC
Q psy12639 53 PCKSYLIPHLRV-HTGEKPYACNLCTVRYLRSYELVLHLKKCHREDARNPY----APAFVDVNTVAQVKQEYEELP 123 (134)
Q Consensus 53 ~~~~~l~~h~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 123 (134)
...+.|..|++. |..++||+|+.|.+.|.+.+.|.+|...|. +-.|.|. ...+....++..|..+.++..
T Consensus 274 ~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~ 348 (467)
T KOG3608|consen 274 SSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGN 348 (467)
T ss_pred CChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCC
Confidence 666666666664 666777777777777777777777777665 5566666 234555556666666655433
No 10
>KOG3608|consensus
Probab=99.45 E-value=2.4e-13 Score=90.36 Aligned_cols=118 Identities=20% Similarity=0.366 Sum_probs=94.4
Q ss_pred ChhHhhhccCCCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCc--cch
Q psy12639 1 MESHLMLHTGAKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNL--CTV 78 (134)
Q Consensus 1 l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~--C~~ 78 (134)
|+.|++.| ...|+|+.|+.+....++|..|++..|...+||.|..|...+...+.|..|...|. +..|.|.. |..
T Consensus 253 L~~Hv~rH--vn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~ 329 (467)
T KOG3608|consen 253 LKSHVVRH--VNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHY 329 (467)
T ss_pred HHHHHHHh--hhcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcH
Confidence 45666665 34689999999999999999999988999999999999999999999999998887 66788877 888
Q ss_pred hhcCHHHHHHHHHhhc-CC--CCCCCC--CCCcccchhhhhhhhhhhc
Q psy12639 79 RYLRSYELVLHLKKCH-RE--DARNPY--APAFVDVNTVAQVKQEYEE 121 (134)
Q Consensus 79 ~f~~~~~l~~H~~~~~-~~--~~~~~~--~~~~~~~~~~~~~~~~~~~ 121 (134)
.|.+...+++|.+.++ +. -+|.|- ...|.+-.+|..|....+.
T Consensus 330 s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~ 377 (467)
T KOG3608|consen 330 SVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHG 377 (467)
T ss_pred HHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhc
Confidence 8888888999988766 33 335555 6677777777777755543
No 11
>PHA00733 hypothetical protein
Probab=99.42 E-value=2.8e-13 Score=79.86 Aligned_cols=84 Identities=19% Similarity=0.247 Sum_probs=69.3
Q ss_pred CCCceeCccchhhccChHHHHHHH--h--ccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHH
Q psy12639 10 GAKPYACTECDQKFNRNSKLKIHY--N--LAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYE 85 (134)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~h~--~--~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~ 85 (134)
..+++.|.+|...|.....|..+. . ..+.+.+||.|..|++.|.....|..|++.+ ..+|.|..|++.|.....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 356789999999998877776651 1 1234578999999999999999999999876 357999999999999999
Q ss_pred HHHHHHhhcC
Q psy12639 86 LVLHLKKCHR 95 (134)
Q Consensus 86 l~~H~~~~~~ 95 (134)
|..|+...|+
T Consensus 115 L~~H~~~~h~ 124 (128)
T PHA00733 115 TLDHVCKKHN 124 (128)
T ss_pred HHHHHHHhcC
Confidence 9999987764
No 12
>PHA02768 hypothetical protein; Provisional
Probab=99.10 E-value=3e-11 Score=59.88 Aligned_cols=40 Identities=30% Similarity=0.516 Sum_probs=21.5
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHH
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSY 84 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~ 84 (134)
|.|+.||+.|...+.|..|++.|. +++.|..|++.|...+
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s 45 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTG 45 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccc
Confidence 455555555555555555555554 4555555555555443
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.07 E-value=3.4e-10 Score=80.83 Aligned_cols=101 Identities=16% Similarity=0.282 Sum_probs=78.6
Q ss_pred cCCCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhc-------
Q psy12639 9 TGAKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYL------- 81 (134)
Q Consensus 9 ~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~------- 81 (134)
..++++.|+.|++.|. ...|..|+.. +. .++.|+ |+..+ ....|..|+..|...+++.|+.|++.|.
T Consensus 449 el~~H~~C~~Cgk~f~-~s~LekH~~~-~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d 522 (567)
T PLN03086 449 EAKNHVHCEKCGQAFQ-QGEMEKHMKV-FH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMD 522 (567)
T ss_pred ccccCccCCCCCCccc-hHHHHHHHHh-cC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccc
Confidence 3456789999999996 6789999987 53 689999 99755 6689999999999999999999999985
Q ss_pred ---CHHHHHHHHHhhcCCCCCCCCCC-Ccccchhhhhhh
Q psy12639 82 ---RSYELVLHLKKCHREDARNPYAP-AFVDVNTVAQVK 116 (134)
Q Consensus 82 ---~~~~l~~H~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 116 (134)
..+.|..|...+ +.+++.|..+ .......+..|.
T Consensus 523 ~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlrdm~~H~ 560 (567)
T PLN03086 523 VRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLKEMDIHQ 560 (567)
T ss_pred hhhhhhhHHHHHHhc-CCcceEccccCCeeeehhHHHHH
Confidence 246899999986 7888888833 233333344443
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.04 E-value=8.3e-10 Score=78.89 Aligned_cols=54 Identities=20% Similarity=0.430 Sum_probs=26.3
Q ss_pred ecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhhcCCCCCCCC
Q psy12639 44 ECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKCHREDARNPY 102 (134)
Q Consensus 44 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 102 (134)
.|+.|+..|. ...|..|+..++ +++.|+ |++.+ .+..|..|+..+..++++.|.
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~ 508 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCR 508 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCC
Confidence 4555555553 344555555442 445555 55432 344555555555555555554
No 15
>PHA00733 hypothetical protein
Probab=98.99 E-value=8.1e-10 Score=65.24 Aligned_cols=57 Identities=21% Similarity=0.428 Sum_probs=49.6
Q ss_pred ccCCCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcC
Q psy12639 8 HTGAKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTG 67 (134)
Q Consensus 8 h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~ 67 (134)
+.+.+||.|+.|++.|.+...|..|++. + ..++.|..|++.|.....|..|+...++
T Consensus 68 ~~~~kPy~C~~Cgk~Fss~s~L~~H~r~-h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 68 SKAVSPYVCPLCLMPFSSSVSLKQHIRY-T--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCCCCCccCCCCCCcCCCHHHHHHHHhc-C--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 3457899999999999999999999985 4 3479999999999999999999887543
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.97 E-value=2.7e-10 Score=56.54 Aligned_cols=43 Identities=16% Similarity=0.339 Sum_probs=38.2
Q ss_pred ceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhH
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYL 58 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l 58 (134)
-|.|+.||+.|...++|..|++. |+ +++.|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~-H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK-HN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh-cC--CcccCCcccceeccccee
Confidence 37999999999999999999998 87 588999999999876655
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=98.91 E-value=3.5e-10 Score=48.25 Aligned_cols=24 Identities=42% Similarity=1.000 Sum_probs=17.7
Q ss_pred ChhHhhhccCCCceeCccchhhcc
Q psy12639 1 MESHLMLHTGAKPYACTECDQKFN 24 (134)
Q Consensus 1 l~~h~~~h~~~~~~~C~~C~~~f~ 24 (134)
|++|+++|.+++||.|+.|++.|.
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 456777777777777777777775
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.89 E-value=9.6e-10 Score=46.86 Aligned_cols=24 Identities=50% Similarity=1.016 Sum_probs=15.8
Q ss_pred HHhHHhhhcCCCCcccCccchhhc
Q psy12639 58 LIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 58 l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
|..|++.|.+++||.|+.|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 556666666666666666666664
No 19
>PHA00616 hypothetical protein
Probab=98.81 E-value=3.6e-09 Score=50.06 Aligned_cols=33 Identities=21% Similarity=0.395 Sum_probs=26.9
Q ss_pred CcccCccchhhcCHHHHHHHHHhhcCCCCCCCC
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCHREDARNPY 102 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 102 (134)
||+|+.||+.|...+++..|++.+|+++++.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 578888888888888888888888888777665
No 20
>KOG3993|consensus
Probab=98.69 E-value=6.1e-09 Score=71.18 Aligned_cols=82 Identities=27% Similarity=0.554 Sum_probs=61.7
Q ss_pred eeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhc--------C------------------
Q psy12639 14 YACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHT--------G------------------ 67 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~--------~------------------ 67 (134)
|.|..|...|...-.|..|.-. -...-.|.|+.|++.|+-..+|..|.+=|. +
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~-RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCP-RIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCC-eeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 6788888777777777777643 334445778888888888888888766552 1
Q ss_pred -------CCCcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 68 -------EKPYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 68 -------~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
+-.|.|..|++.|.+.+-|++|+..|+..
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 12489999999999999999999998854
No 21
>PHA00616 hypothetical protein
Probab=98.58 E-value=2.5e-08 Score=47.22 Aligned_cols=33 Identities=15% Similarity=0.254 Sum_probs=20.5
Q ss_pred ceeCccchhhccChHHHHHHHhccccCCCceecC
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCTGEMYECC 46 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~ 46 (134)
||.|+.||+.|....+|..|++. |++++++.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~-~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLS-VHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHH-hcCCCcccee
Confidence 45666666666666666666665 5566665554
No 22
>PHA00732 hypothetical protein
Probab=98.49 E-value=1.3e-07 Score=51.07 Aligned_cols=47 Identities=23% Similarity=0.371 Sum_probs=29.2
Q ss_pred ceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhh
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVH 65 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h 65 (134)
||.|..|++.|.+..+|..|++..|.+ +.|+.|++.|. .+..|..+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhccc
Confidence 466777777777777777777532432 35777777765 355565443
No 23
>PHA00732 hypothetical protein
Probab=98.49 E-value=1.1e-07 Score=51.45 Aligned_cols=46 Identities=28% Similarity=0.442 Sum_probs=38.7
Q ss_pred ceecCCCCCccCChhhHHhHHhh-hcCCCCcccCccchhhcCHHHHHHHHHhh
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRV-HTGEKPYACNLCTVRYLRSYELVLHLKKC 93 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 93 (134)
||.|..|++.|.....|..|++. |. ++.|+.|++.|. .+..|.+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhccc
Confidence 57899999999999999999985 54 368999999998 477887654
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=98.48 E-value=4.2e-07 Score=45.68 Aligned_cols=49 Identities=31% Similarity=0.568 Sum_probs=26.3
Q ss_pred eecCCCCCccCChhhHHhHHhh-hcCC-CCcccCccchhhcCHHHHHHHHHhhc
Q psy12639 43 YECCHCARSFPCKSYLIPHLRV-HTGE-KPYACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~-h~~~-~~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
|.|++|++ ..+...|..|... |..+ +.+.||+|...+. .+|..|+...|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 55666666 3444556666544 3332 3466666665433 36666666544
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.37 E-value=6.7e-07 Score=44.94 Aligned_cols=51 Identities=24% Similarity=0.395 Sum_probs=40.9
Q ss_pred ceeCccchhhccChHHHHHHHhccccCC-CceecCCCCCccCChhhHHhHHhhhc
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCTG-EMYECCHCARSFPCKSYLIPHLRVHT 66 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~~-~~~~C~~C~~~~~~~~~l~~h~~~h~ 66 (134)
.|.|+.|++ ..+...|..|....|..+ +.+.|++|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 488999999 566788999998878765 4689999998654 48889987654
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.29 E-value=5.1e-07 Score=37.14 Aligned_cols=22 Identities=23% Similarity=0.689 Sum_probs=16.3
Q ss_pred cccCccchhhcCHHHHHHHHHh
Q psy12639 71 YACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
|.|+.|++.|.+...|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5677777777777777777765
No 27
>KOG3993|consensus
Probab=98.24 E-value=4.8e-07 Score=62.19 Aligned_cols=54 Identities=30% Similarity=0.663 Sum_probs=45.5
Q ss_pred CceeCccchhhccChHHHHHHHhccccC---------------------------------CCceecCCCCCccCChhhH
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCT---------------------------------GEMYECCHCARSFPCKSYL 58 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~---------------------------------~~~~~C~~C~~~~~~~~~l 58 (134)
--|+|+.|++.|+-..+|..|.+. |.- ..-|.|..|++.|.....|
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRW-HKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYL 372 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRW-HKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYL 372 (500)
T ss_pred eeecCCcccccccCchhhhhhhcc-cCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHH
Confidence 359999999999999999999987 631 1138899999999999999
Q ss_pred HhHHhhhc
Q psy12639 59 IPHLRVHT 66 (134)
Q Consensus 59 ~~h~~~h~ 66 (134)
..|+.+|.
T Consensus 373 rKHqlthq 380 (500)
T KOG3993|consen 373 RKHQLTHQ 380 (500)
T ss_pred HHhHHhhh
Confidence 99977664
No 28
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.17 E-value=1.4e-06 Score=49.18 Aligned_cols=73 Identities=19% Similarity=0.330 Sum_probs=21.7
Q ss_pred eCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhh
Q psy12639 15 ACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKC 93 (134)
Q Consensus 15 ~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 93 (134)
.|..|+..|.+...+..|+...|.-..+ ....+.....+....+.-. ...+.|..|++.|.+...|..|++.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-----~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-----DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ------------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccccccc-----ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 4889999999999999999876644322 1111122333333333222 23699999999999999999999964
No 29
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.16 E-value=4.7e-07 Score=60.20 Aligned_cols=72 Identities=29% Similarity=0.521 Sum_probs=47.0
Q ss_pred CCCceeCcc--chhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHH
Q psy12639 10 GAKPYACTE--CDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELV 87 (134)
Q Consensus 10 ~~~~~~C~~--C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~ 87 (134)
++|||.|++ |.+.++....|+.|+.--|...+..+-+. -..+.-.-...|||.|++|+|.|.....|+
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~----------p~~~~~F~~~~KPYrCevC~KRYKNlNGLK 415 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPS----------PEKMNIFSAKDKPYRCEVCDKRYKNLNGLK 415 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCC----------ccccccccccCCceeccccchhhccCccce
Confidence 358888887 88888888888888864443333221110 001111134568999999999999988888
Q ss_pred HHHH
Q psy12639 88 LHLK 91 (134)
Q Consensus 88 ~H~~ 91 (134)
-|..
T Consensus 416 YHr~ 419 (423)
T COG5189 416 YHRK 419 (423)
T ss_pred eccc
Confidence 7754
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=98.12 E-value=2.5e-06 Score=35.18 Aligned_cols=24 Identities=25% Similarity=0.667 Sum_probs=16.2
Q ss_pred cccCccchhhcCHHHHHHHHHhhc
Q psy12639 71 YACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
|.|+.|++.|.+...|..|+..+|
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 567777777777777777777654
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.99 E-value=3.3e-06 Score=36.08 Aligned_cols=25 Identities=20% Similarity=0.457 Sum_probs=17.0
Q ss_pred CcccCccchhhcCHHHHHHHHHhhc
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
+|.|..|++.|.+...|..|++.|.
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 4667777777777777777776554
No 32
>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=97.97 E-value=5.7e-06 Score=33.90 Aligned_cols=22 Identities=36% Similarity=0.753 Sum_probs=13.6
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
|.|+.|++.|.+...|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666653
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.79 E-value=1.6e-05 Score=32.63 Aligned_cols=22 Identities=27% Similarity=0.726 Sum_probs=11.9
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
|.|+.|++.|.+...|..|+..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 4566666666666666666554
No 34
>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=97.79 E-value=2.8e-05 Score=37.75 Aligned_cols=33 Identities=27% Similarity=0.453 Sum_probs=20.3
Q ss_pred cCCCCcccCccchhhcCHHHHHHHHHhhcCCCC
Q psy12639 66 TGEKPYACNLCTVRYLRSYELVLHLKKCHREDA 98 (134)
Q Consensus 66 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 98 (134)
..+.|-.|++|+..+++..+|++|+.+.|+.+|
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 345677888888888888888888877776554
No 35
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.71 E-value=2.5e-05 Score=33.24 Aligned_cols=23 Identities=35% Similarity=0.777 Sum_probs=14.3
Q ss_pred ceeCccchhhccChHHHHHHHhc
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
||.|..|++.|.+...|..|++.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRS 23 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCT
T ss_pred CCCCCccCCccCChhHHHHHhHH
Confidence 45666666666666666666654
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.55 E-value=9e-05 Score=30.79 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=19.4
Q ss_pred cccCccchhhcCHHHHHHHHHhhc
Q psy12639 71 YACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
|.|+.|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 568888888888888888888553
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=97.28 E-value=0.00025 Score=34.50 Aligned_cols=34 Identities=21% Similarity=0.288 Sum_probs=18.2
Q ss_pred ccCCCceecCCCCCccCChhhHHhHHhhhcCCCC
Q psy12639 37 HCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKP 70 (134)
Q Consensus 37 h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~ 70 (134)
.....|-.|++|+..+....+|..|+...++.+|
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3345566777777777777777777766555554
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.10 E-value=0.00062 Score=28.09 Aligned_cols=20 Identities=40% Similarity=0.780 Sum_probs=11.6
Q ss_pred eCccchhhccChHHHHHHHh
Q psy12639 15 ACTECDQKFNRNSKLKIHYN 34 (134)
Q Consensus 15 ~C~~C~~~f~~~~~l~~h~~ 34 (134)
.|..|++.|.....+..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 45555566655555555554
No 39
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.03 E-value=0.00037 Score=28.90 Aligned_cols=21 Identities=24% Similarity=0.705 Sum_probs=13.9
Q ss_pred cccCccchhhcCHHHHHHHHH
Q psy12639 71 YACNLCTVRYLRSYELVLHLK 91 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~ 91 (134)
|.|..|++.|.+...+..|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 456667777777777666665
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.02 E-value=0.00045 Score=28.67 Aligned_cols=22 Identities=23% Similarity=0.691 Sum_probs=13.4
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
|.|..|++.|.+...+..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 4566666666666666666643
No 41
>PRK04860 hypothetical protein; Provisional
Probab=96.97 E-value=0.00066 Score=41.76 Aligned_cols=38 Identities=29% Similarity=0.541 Sum_probs=29.2
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCH
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRS 83 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~ 83 (134)
+|.|. |+. ....+..|.+.+.++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 57887 876 566678888888888888888888877643
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.96 E-value=0.00072 Score=27.77 Aligned_cols=23 Identities=35% Similarity=0.632 Sum_probs=12.4
Q ss_pred cccCccchhhcCHHHHHHHHHhhc
Q psy12639 71 YACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
|.|+.|+.... ...|..|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 45666665555 566666666554
No 43
>KOG4173|consensus
Probab=96.76 E-value=0.001 Score=42.04 Aligned_cols=77 Identities=30% Similarity=0.623 Sum_probs=62.3
Q ss_pred eeCcc--chhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhc----------CCCCccc--Cccchh
Q psy12639 14 YACTE--CDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHT----------GEKPYAC--NLCTVR 79 (134)
Q Consensus 14 ~~C~~--C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~----------~~~~~~C--~~C~~~ 79 (134)
+.|+. |...|.....+..|..+.|.+ .|.+|.+.|.+...|..|+.-.+ |.-.|+| ..|+..
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~K 155 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEK 155 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhh
Confidence 67887 888999988888888765544 69999999999999999976532 4456888 459999
Q ss_pred hcCHHHHHHHHHhhc
Q psy12639 80 YLRSYELVLHLKKCH 94 (134)
Q Consensus 80 f~~~~~l~~H~~~~~ 94 (134)
|.+..+.+.|+-..|
T Consensus 156 FkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhHHHHhc
Confidence 999999999986654
No 44
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.73 E-value=0.0014 Score=27.29 Aligned_cols=21 Identities=24% Similarity=0.499 Sum_probs=13.6
Q ss_pred cccCccchhhcCHHHHHHHHHh
Q psy12639 71 YACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
..|+.||+.| ....|..|+..
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3577777777 55566677654
No 45
>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=96.69 E-value=0.0004 Score=29.48 Aligned_cols=22 Identities=23% Similarity=0.599 Sum_probs=17.1
Q ss_pred cccCccchhhcCHHHHHHHHHh
Q psy12639 71 YACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
|.|..|++.|.+...+..|++.
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 6688888888888888877653
No 46
>PRK04860 hypothetical protein; Provisional
Probab=96.66 E-value=0.0015 Score=40.18 Aligned_cols=38 Identities=24% Similarity=0.690 Sum_probs=32.4
Q ss_pred ceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCCh
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCK 55 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~ 55 (134)
+|.|. |+. ...++..|.++ |.++++|.|..|+..+...
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 59998 987 56778999997 9999999999999887543
No 47
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.61 E-value=0.00084 Score=28.47 Aligned_cols=22 Identities=32% Similarity=0.769 Sum_probs=14.6
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
|.|..|++.|.+...+..|+++
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 4566777777777776666653
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.25 E-value=0.0048 Score=25.22 Aligned_cols=21 Identities=33% Similarity=0.662 Sum_probs=10.0
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
|.|+.|+.... ...|..|++.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 34555555554 5555555544
No 49
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=95.85 E-value=0.0048 Score=30.58 Aligned_cols=31 Identities=29% Similarity=0.477 Sum_probs=26.5
Q ss_pred hccCCCceeCccchhhccChHHHHHHHhccc
Q psy12639 7 LHTGAKPYACTECDQKFNRNSKLKIHYNLAH 37 (134)
Q Consensus 7 ~h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h 37 (134)
..-|+..+.|+-|+..|....++..|++..|
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 4457788999999999999999999998755
No 50
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.53 E-value=0.01 Score=26.56 Aligned_cols=22 Identities=32% Similarity=0.726 Sum_probs=17.8
Q ss_pred CcccCccchhhcCHHHHHHHHH
Q psy12639 70 PYACNLCTVRYLRSYELVLHLK 91 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~ 91 (134)
+|.|..|+..|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4778888888888888888875
No 51
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=95.32 E-value=0.0084 Score=40.60 Aligned_cols=49 Identities=20% Similarity=0.465 Sum_probs=33.7
Q ss_pred CCCcccCc--cchhhcCHHHHHHHHHhhc-------------------CCCCCCCC--CCCcccchhhhhhh
Q psy12639 68 EKPYACNL--CTVRYLRSYELVLHLKKCH-------------------REDARNPY--APAFVDVNTVAQVK 116 (134)
Q Consensus 68 ~~~~~C~~--C~~~f~~~~~l~~H~~~~~-------------------~~~~~~~~--~~~~~~~~~~~~~~ 116 (134)
++||.|++ |+|.|.+...|+-|+.-.| ..+||.|+ ++.+...+.|.-|.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 58888876 8888888888888876433 23777777 55565555555544
No 52
>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=95.05 E-value=0.018 Score=25.58 Aligned_cols=9 Identities=33% Similarity=1.265 Sum_probs=4.6
Q ss_pred CCcccCccc
Q psy12639 69 KPYACNLCT 77 (134)
Q Consensus 69 ~~~~C~~C~ 77 (134)
.++.|+.|+
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 345555554
No 53
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=95.01 E-value=0.021 Score=25.50 Aligned_cols=22 Identities=18% Similarity=0.573 Sum_probs=12.1
Q ss_pred ceeCccchhhccChHHHHHHHh
Q psy12639 13 PYACTECDQKFNRNSKLKIHYN 34 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~ 34 (134)
+|.|..|+..|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 3455555555555555555553
No 54
>KOG1146|consensus
Probab=94.86 E-value=0.014 Score=46.44 Aligned_cols=26 Identities=31% Similarity=0.636 Sum_probs=22.6
Q ss_pred CCCCcccCccchhhcCHHHHHHHHHh
Q psy12639 67 GEKPYACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
+.++|.|..|...++...+|..|+..
T Consensus 515 ~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 515 PGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred CCCcccceeeeeeeecchHHHHHHHH
Confidence 35779999999999999999999874
No 55
>KOG1146|consensus
Probab=94.01 E-value=0.04 Score=44.00 Aligned_cols=57 Identities=26% Similarity=0.490 Sum_probs=47.5
Q ss_pred ccCCCceeCccchhhccChHHHHHHHhcccc------------------------CCCceecCCCCCccCChhhHHhHHh
Q psy12639 8 HTGAKPYACTECDQKFNRNSKLKIHYNLAHC------------------------TGEMYECCHCARSFPCKSYLIPHLR 63 (134)
Q Consensus 8 h~~~~~~~C~~C~~~f~~~~~l~~h~~~~h~------------------------~~~~~~C~~C~~~~~~~~~l~~h~~ 63 (134)
+...+-+.|+.|+..|+....|..||+..|. +.++|.|..|...+.....|..|+.
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 4445779999999999999999999997552 2357899999999999989999976
Q ss_pred h
Q psy12639 64 V 64 (134)
Q Consensus 64 ~ 64 (134)
.
T Consensus 540 S 540 (1406)
T KOG1146|consen 540 S 540 (1406)
T ss_pred H
Confidence 5
No 56
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=93.44 E-value=0.085 Score=29.34 Aligned_cols=25 Identities=28% Similarity=0.679 Sum_probs=21.4
Q ss_pred CceecCCCCCccCChhhHHhHHhhh
Q psy12639 41 EMYECCHCARSFPCKSYLIPHLRVH 65 (134)
Q Consensus 41 ~~~~C~~C~~~~~~~~~l~~h~~~h 65 (134)
..+.|..|+..|.+...|..|++.+
T Consensus 49 ~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 49 ESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCCccCCCCcCHHHHHHHHcCc
Confidence 3689999999999999999999874
No 57
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.37 E-value=0.061 Score=26.74 Aligned_cols=29 Identities=28% Similarity=0.605 Sum_probs=21.8
Q ss_pred cCCCCcccCccchhhcCHHHHHHHHHhhc
Q psy12639 66 TGEKPYACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 66 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
-|+..+.||.|+..|..+.+..+|....|
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 45666788888888888888888876544
No 58
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=93.05 E-value=0.088 Score=26.59 Aligned_cols=31 Identities=19% Similarity=0.554 Sum_probs=18.0
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccc
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCT 77 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~ 77 (134)
.|.|+.||+...... .+.-....+|.|+.||
T Consensus 27 ~F~CPnCGe~~I~Rc-----~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 27 KFPCPNCGEVEIYRC-----AKCRKLGNPYRCPKCG 57 (61)
T ss_pred EeeCCCCCceeeehh-----hhHHHcCCceECCCcC
Confidence 477777776543332 2223345677777776
No 59
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.98 E-value=0.02 Score=40.23 Aligned_cols=61 Identities=31% Similarity=0.477 Sum_probs=43.6
Q ss_pred ceecCCCCCccCChhhHHhHHh--hhcCC--CCcccC--ccchhhcCHHHHHHHHHhhcCCCCCCCC
Q psy12639 42 MYECCHCARSFPCKSYLIPHLR--VHTGE--KPYACN--LCTVRYLRSYELVLHLKKCHREDARNPY 102 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 102 (134)
++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.+...+..|...+....+..+.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 4667777777777777777777 67777 777777 6777777777777777777665544433
No 60
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=92.69 E-value=0.15 Score=23.24 Aligned_cols=32 Identities=25% Similarity=0.721 Sum_probs=16.7
Q ss_pred eCccchhhccChHHHHHHHhccccCCCceecCCCCCcc
Q psy12639 15 ACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSF 52 (134)
Q Consensus 15 ~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~ 52 (134)
.|+.|+..|.-..+ +. ..+.....|+.|+..|
T Consensus 4 ~CP~C~~~f~v~~~-----~l-~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDD-----KL-PAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHH-----Hc-ccCCcEEECCCCCcEe
Confidence 56666666655543 11 1223345666666555
No 61
>KOG2231|consensus
Probab=92.62 E-value=0.21 Score=37.57 Aligned_cols=16 Identities=31% Similarity=0.416 Sum_probs=9.6
Q ss_pred hccChHHHHHHHhccc
Q psy12639 22 KFNRNSKLKIHYNLAH 37 (134)
Q Consensus 22 ~f~~~~~l~~h~~~~h 37 (134)
.|.+...|+.|+...|
T Consensus 123 ~~~s~~~Lk~H~~~~H 138 (669)
T KOG2231|consen 123 EFKSVENLKNHMRDQH 138 (669)
T ss_pred chhHHHHHHHHHHHhh
Confidence 3346667777775434
No 62
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.61 E-value=0.039 Score=38.77 Aligned_cols=63 Identities=25% Similarity=0.472 Sum_probs=52.0
Q ss_pred CceeCccchhhccChHHHHHHHhc-cccCC--CceecC--CCCCccCChhhHHhHHhhhcCCCCcccC
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNL-AHCTG--EMYECC--HCARSFPCKSYLIPHLRVHTGEKPYACN 74 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~-~h~~~--~~~~C~--~C~~~~~~~~~l~~h~~~h~~~~~~~C~ 74 (134)
.++.|..|...|.....+..|.+. .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 467888899999999999999883 48888 899998 7999999999899998888877665553
No 63
>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=92.06 E-value=0.17 Score=23.05 Aligned_cols=33 Identities=18% Similarity=0.529 Sum_probs=15.7
Q ss_pred eeCccchhhccChHHHHHHHhccccCCCceecCCCCCcc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSF 52 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~ 52 (134)
+.|+.|+..|.-..... ........|+.|+..|
T Consensus 3 ~~CP~C~~~~~v~~~~~------~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL------GANGGKVRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHc------CCCCCEEECCCCCCEE
Confidence 35666666655544311 1111235566666554
No 64
>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=91.71 E-value=0.13 Score=23.02 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=4.3
Q ss_pred eecCCCCCc
Q psy12639 43 YECCHCARS 51 (134)
Q Consensus 43 ~~C~~C~~~ 51 (134)
|.|..||..
T Consensus 3 ~~C~~CG~i 11 (34)
T cd00729 3 WVCPVCGYI 11 (34)
T ss_pred EECCCCCCE
Confidence 445555544
No 65
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=91.29 E-value=0.3 Score=22.13 Aligned_cols=32 Identities=22% Similarity=0.711 Sum_probs=15.1
Q ss_pred eCccchhhccChHHHHHHHhccccCCCceecCCCCCcc
Q psy12639 15 ACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSF 52 (134)
Q Consensus 15 ~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~ 52 (134)
.|+.|+..|.-.... . -.......|+.|+..|
T Consensus 4 ~Cp~C~~~y~i~d~~-----i-p~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEK-----I-PPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHH-----C-CCCCcEEECCCCCCEe
Confidence 456666555554431 1 1222234566665544
No 66
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=91.07 E-value=0.17 Score=31.38 Aligned_cols=23 Identities=30% Similarity=0.873 Sum_probs=17.9
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccc
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCT 77 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~ 77 (134)
.|+|++||.++ .++.|..||.||
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCC
Confidence 58899998653 456788899998
No 67
>KOG2893|consensus
Probab=91.04 E-value=0.048 Score=35.61 Aligned_cols=49 Identities=27% Similarity=0.648 Sum_probs=32.0
Q ss_pred CceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhhc
Q psy12639 41 EMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 41 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
+++ |=+|.+.|....-|.+|++. +.|+|.+|.+.+-+...|..|....|
T Consensus 10 kpw-cwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhh
Confidence 444 55577777777777777653 44778888777766667766654333
No 68
>KOG2186|consensus
Probab=90.93 E-value=0.16 Score=33.49 Aligned_cols=49 Identities=14% Similarity=0.453 Sum_probs=32.2
Q ss_pred ceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhh
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVH 65 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h 65 (134)
.|.|..||-+..-.. +..|+.. -.+ .-|.|-.|+..|.. .....|...-
T Consensus 3 ~FtCnvCgEsvKKp~-vekH~sr-Crn-~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQ-VEKHMSR-CRN-AYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred EEehhhhhhhccccc-hHHHHHh-ccC-CeeEEeeccccccc-chhhhhhhhc
Confidence 577888887766544 5667753 444 45788888888876 4556665543
No 69
>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=90.86 E-value=0.19 Score=31.04 Aligned_cols=33 Identities=12% Similarity=0.355 Sum_probs=22.2
Q ss_pred CCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhh
Q psy12639 39 TGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRY 80 (134)
Q Consensus 39 ~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f 80 (134)
...-|.|+.|+..|++...+. ..|.|+.||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEe
Confidence 444577888887777766653 257888887543
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.27 E-value=0.18 Score=34.85 Aligned_cols=23 Identities=26% Similarity=0.719 Sum_probs=11.5
Q ss_pred eeCcc--chhhccChHHHHHHHhcc
Q psy12639 14 YACTE--CDQKFNRNSKLKIHYNLA 36 (134)
Q Consensus 14 ~~C~~--C~~~f~~~~~l~~h~~~~ 36 (134)
|.|+. |.........|..|.+..
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~ 176 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQ 176 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhh
Confidence 44543 444444455566666543
No 71
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=89.69 E-value=0.25 Score=30.04 Aligned_cols=35 Identities=14% Similarity=0.467 Sum_probs=16.6
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhh
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRY 80 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f 80 (134)
-|.|+.|+..|.....+.. ... ...|.|+.||...
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~---~d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQL---LDM-DGTFTCPRCGEEL 133 (147)
T ss_pred EEECcCCCCEeeHHHHHHh---cCC-CCcEECCCCCCEE
Confidence 4666666666654333211 011 2226666666543
No 72
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=89.54 E-value=0.085 Score=34.22 Aligned_cols=23 Identities=17% Similarity=0.382 Sum_probs=16.1
Q ss_pred CCceeCccchhhccChHHHHHHH
Q psy12639 11 AKPYACTECDQKFNRNSKLKIHY 33 (134)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~h~ 33 (134)
++...||+|+..|....-.....
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~ 25 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKI 25 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCc
Confidence 35678999999998876444444
No 73
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=89.50 E-value=0.27 Score=30.99 Aligned_cols=33 Identities=15% Similarity=0.381 Sum_probs=21.4
Q ss_pred CCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhc
Q psy12639 40 GEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 40 ~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
..-|.|+.|+..|++...+. ..|.|+.||....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 34577888887777666542 2578888875443
No 74
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.50 E-value=0.46 Score=27.49 Aligned_cols=78 Identities=18% Similarity=0.347 Sum_probs=50.2
Q ss_pred CceeCccchhhccChHHHHHHHhccccC-CCc------------eecCCCCCccCChhhHHhHHhhhcCCCCcccCccch
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCT-GEM------------YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTV 78 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~-~~~------------~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~ 78 (134)
-|..|+.||....+...|.+..- |.- -++ -.|-.|...|........- .-.....|.|+.|..
T Consensus 14 LP~~CpiCgLtLVss~HLARSyH--HLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~--~~~~~~~y~C~~C~~ 89 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYH--HLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD--ELKDSHRYVCAVCKN 89 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhh--ccCCCcccccccccccCCCCcccCcCCCCCCccccccc--ccccccceeCCCCCC
Confidence 47889999999888888776542 211 111 1377888887654311100 012344699999999
Q ss_pred hhcCHHHHHHHHHhh
Q psy12639 79 RYLRSYELVLHLKKC 93 (134)
Q Consensus 79 ~f~~~~~l~~H~~~~ 93 (134)
.|--.-+.-.|-.+|
T Consensus 90 ~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 90 VFCVDCDVFVHESLH 104 (112)
T ss_pred ccccccchhhhhhcc
Confidence 998887777776555
No 75
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=88.93 E-value=0.34 Score=24.53 Aligned_cols=31 Identities=19% Similarity=0.625 Sum_probs=16.4
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccc
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCT 77 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~ 77 (134)
.|.|+.||+.....- .+--....+|.|+.||
T Consensus 25 ~F~CPnCG~~~I~RC-----~~CRk~~~~Y~CP~CG 55 (59)
T PRK14890 25 KFLCPNCGEVIIYRC-----EKCRKQSNPYTCPKCG 55 (59)
T ss_pred EeeCCCCCCeeEeec-----hhHHhcCCceECCCCC
Confidence 467777776522221 1222234567777776
No 76
>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=88.34 E-value=0.68 Score=28.59 Aligned_cols=30 Identities=17% Similarity=0.441 Sum_probs=15.9
Q ss_pred CceeCccchhhccChHHHHHHHhccccCCCceecCCCCCc
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARS 51 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~ 51 (134)
..|.|+.|+..|.....+. ..|.|+.||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~----------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME----------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHH----------cCCcCCCCCCE
Confidence 4456666665555544432 13566666654
No 77
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=87.73 E-value=1.7 Score=24.86 Aligned_cols=80 Identities=21% Similarity=0.302 Sum_probs=45.9
Q ss_pred CceeCccchhhccChHHHHHHHhccccCCCceecCCCCCc-------cCChhhHH---------hHHhhhcCCCCccc--
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARS-------FPCKSYLI---------PHLRVHTGEKPYAC-- 73 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~-------~~~~~~l~---------~h~~~h~~~~~~~C-- 73 (134)
+...|..|+.+... +.+..|.+..|.......-..-... ......+. ..... ..-|.|
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~---~~G~~C~~ 85 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPV---YDGYRCQC 85 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCC---CCCeeeec
Confidence 45789999987766 7789999864543211100000000 00000000 00000 123899
Q ss_pred --CccchhhcCHHHHHHHHHhhcC
Q psy12639 74 --NLCTVRYLRSYELVLHLKKCHR 95 (134)
Q Consensus 74 --~~C~~~f~~~~~l~~H~~~~~~ 95 (134)
..|+....+...+..|.+.+|+
T Consensus 86 ~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 86 DPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999998774
No 78
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=87.43 E-value=0.32 Score=30.65 Aligned_cols=16 Identities=19% Similarity=0.501 Sum_probs=7.4
Q ss_pred CcccCccchhhcCHHH
Q psy12639 70 PYACNLCTVRYLRSYE 85 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~ 85 (134)
-|.|+.|+..|+...+
T Consensus 117 ~Y~Cp~C~~rytf~eA 132 (178)
T PRK06266 117 FFFCPNCHIRFTFDEA 132 (178)
T ss_pred EEECCCCCcEEeHHHH
Confidence 3445555544444433
No 79
>KOG2482|consensus
Probab=87.20 E-value=0.76 Score=31.88 Aligned_cols=22 Identities=27% Similarity=0.573 Sum_probs=20.2
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
+.|-.|.+.|+.+..|..||+.
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 6899999999999999999974
No 80
>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=86.31 E-value=0.93 Score=18.87 Aligned_cols=19 Identities=21% Similarity=0.403 Sum_probs=11.9
Q ss_pred ccCccchhhcCHHHHHHHHH
Q psy12639 72 ACNLCTVRYLRSYELVLHLK 91 (134)
Q Consensus 72 ~C~~C~~~f~~~~~l~~H~~ 91 (134)
.||.|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 467777766 4456666655
No 81
>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=86.24 E-value=0.54 Score=27.10 Aligned_cols=15 Identities=20% Similarity=0.642 Sum_probs=8.9
Q ss_pred CCcccCccchhhcCH
Q psy12639 69 KPYACNLCTVRYLRS 83 (134)
Q Consensus 69 ~~~~C~~C~~~f~~~ 83 (134)
.|..||.||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 455666666666544
No 82
>PHA00626 hypothetical protein
Probab=85.80 E-value=0.45 Score=23.77 Aligned_cols=12 Identities=25% Similarity=0.490 Sum_probs=6.0
Q ss_pred CcccCccchhhc
Q psy12639 70 PYACNLCTVRYL 81 (134)
Q Consensus 70 ~~~C~~C~~~f~ 81 (134)
.|.|+.||..|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 355555555444
No 83
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=85.47 E-value=0.19 Score=30.88 Aligned_cols=16 Identities=25% Similarity=0.532 Sum_probs=11.0
Q ss_pred ceecCCCCCccCChhh
Q psy12639 42 MYECCHCARSFPCKSY 57 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~ 57 (134)
.+.|+.||.+|.....
T Consensus 28 ~~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 28 RRECLACGKRFTTFER 43 (154)
T ss_pred eeeccccCCcceEeEe
Confidence 3678888887766544
No 84
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.25 E-value=3.1 Score=29.08 Aligned_cols=75 Identities=27% Similarity=0.480 Sum_probs=44.2
Q ss_pred eCccchhhccChHHHHHHHhccccCCCceecCCCCC----ccCChhhHHhHHhhhcCCCCcccCc--cc----hhhcCHH
Q psy12639 15 ACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCAR----SFPCKSYLIPHLRVHTGEKPYACNL--CT----VRYLRSY 84 (134)
Q Consensus 15 ~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~----~~~~~~~l~~h~~~h~~~~~~~C~~--C~----~~f~~~~ 84 (134)
.|..|...|-....|..|++..|. +=+.|...+. .|.....|..|.+..+ |.|.. |. ..|....
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE--~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~vf~~~~ 295 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHE--ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYVFPYHT 295 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhh--hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEEeccHH
Confidence 577788888888888888875432 2234443332 2555566666655432 55533 32 3577777
Q ss_pred HHHHHHHhhcC
Q psy12639 85 ELVLHLKKCHR 95 (134)
Q Consensus 85 ~l~~H~~~~~~ 95 (134)
.|..|+-.-|+
T Consensus 296 el~~h~~~~h~ 306 (493)
T COG5236 296 ELLEHLTRFHK 306 (493)
T ss_pred HHHHHHHHHhh
Confidence 77888766554
No 85
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=85.19 E-value=0.75 Score=21.88 Aligned_cols=10 Identities=40% Similarity=1.072 Sum_probs=4.8
Q ss_pred eeCccchhhc
Q psy12639 14 YACTECDQKF 23 (134)
Q Consensus 14 ~~C~~C~~~f 23 (134)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 4455555443
No 86
>KOG2893|consensus
Probab=84.44 E-value=0.29 Score=32.12 Aligned_cols=45 Identities=24% Similarity=0.547 Sum_probs=34.0
Q ss_pred CceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHH
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHL 62 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~ 62 (134)
||| |..|++.|....-|..|++. +.|.|.+|-+...+-..|..|.
T Consensus 10 kpw-cwycnrefddekiliqhqka-----khfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCceeeh
Confidence 443 77799999999988888765 4689999987766655666554
No 87
>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=84.15 E-value=1 Score=21.17 Aligned_cols=26 Identities=31% Similarity=0.420 Sum_probs=14.1
Q ss_pred CCCCcccCccchhhcC----HHHHHHHHHh
Q psy12639 67 GEKPYACNLCTVRYLR----SYELVLHLKK 92 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~----~~~l~~H~~~ 92 (134)
+.....|..|++.+.. .+.|..|++.
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 3445677777776655 3677777743
No 88
>KOG2186|consensus
Probab=83.95 E-value=0.76 Score=30.45 Aligned_cols=50 Identities=18% Similarity=0.315 Sum_probs=37.5
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhhcC
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKCHR 95 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 95 (134)
|.|..||....-+ .+..|+...++ .-|.|-.|++.|.. .+...|..--+.
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 7788999877655 46778887766 55899999999988 677788764443
No 89
>KOG2785|consensus
Probab=83.85 E-value=1.4 Score=31.07 Aligned_cols=49 Identities=14% Similarity=0.385 Sum_probs=39.5
Q ss_pred ecCCCCCccCChhhHHhHHhhhcC-----------------------CCCcccCccc---hhhcCHHHHHHHHHh
Q psy12639 44 ECCHCARSFPCKSYLIPHLRVHTG-----------------------EKPYACNLCT---VRYLRSYELVLHLKK 92 (134)
Q Consensus 44 ~C~~C~~~~~~~~~l~~h~~~h~~-----------------------~~~~~C~~C~---~~f~~~~~l~~H~~~ 92 (134)
.|..|+..+.+......||..++| ...+.|-.|+ +.|.+....+.||..
T Consensus 168 ~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 168 DCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 577888888888888888887654 2347888898 999999999999974
No 90
>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=83.49 E-value=0.23 Score=23.31 Aligned_cols=13 Identities=38% Similarity=1.002 Sum_probs=6.8
Q ss_pred eeCccchhhccCh
Q psy12639 14 YACTECDQKFNRN 26 (134)
Q Consensus 14 ~~C~~C~~~f~~~ 26 (134)
|.|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 4555555555443
No 91
>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=83.46 E-value=0.4 Score=23.48 Aligned_cols=12 Identities=42% Similarity=1.182 Sum_probs=6.4
Q ss_pred eeCccchhhccC
Q psy12639 14 YACTECDQKFNR 25 (134)
Q Consensus 14 ~~C~~C~~~f~~ 25 (134)
|.|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTACGHRFEV 17 (52)
T ss_pred EEeCCCCCEeEE
Confidence 455555555543
No 92
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=83.01 E-value=0.93 Score=22.03 Aligned_cols=21 Identities=33% Similarity=0.594 Sum_probs=12.8
Q ss_pred cccCccchhhcCH-----HHHHHHHH
Q psy12639 71 YACNLCTVRYLRS-----YELVLHLK 91 (134)
Q Consensus 71 ~~C~~C~~~f~~~-----~~l~~H~~ 91 (134)
-.|..|++.++.. ++|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4566666655443 56777776
No 93
>KOG2231|consensus
Probab=82.80 E-value=2.4 Score=32.29 Aligned_cols=65 Identities=26% Similarity=0.435 Sum_probs=37.3
Q ss_pred hHHHHHHHhccccCCC----ceecCCCCCccCChhhHHhHHhhhcCCCCcccCcc------chhhcCHHHHHHHHHhhc
Q psy12639 26 NSKLKIHYNLAHCTGE----MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLC------TVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 26 ~~~l~~h~~~~h~~~~----~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~~~ 94 (134)
...|..|++..-.+.. .-.|..|...|.....|..|++.++ |.|..| +..|.....|..|-+..|
T Consensus 162 ~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 162 RAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred HHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 4556666654211111 1347777777777777777776544 333333 456677777777766554
No 94
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=82.54 E-value=0.42 Score=21.98 Aligned_cols=11 Identities=36% Similarity=1.274 Sum_probs=5.3
Q ss_pred eeCccchhhcc
Q psy12639 14 YACTECDQKFN 24 (134)
Q Consensus 14 ~~C~~C~~~f~ 24 (134)
|.|+.||..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44555554443
No 95
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.14 E-value=0.51 Score=22.54 Aligned_cols=11 Identities=27% Similarity=1.023 Sum_probs=5.7
Q ss_pred ceeCccchhhc
Q psy12639 13 PYACTECDQKF 23 (134)
Q Consensus 13 ~~~C~~C~~~f 23 (134)
.|.|+.||..|
T Consensus 3 ~y~C~~CG~~~ 13 (46)
T PRK00398 3 EYKCARCGREV 13 (46)
T ss_pred EEECCCCCCEE
Confidence 35555555444
No 96
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=80.12 E-value=0.31 Score=36.96 Aligned_cols=56 Identities=23% Similarity=0.523 Sum_probs=26.1
Q ss_pred eCccchhhccChHHHHHHHhccccCCCce-ecCCCCCccCChhhHHhHHhhhcCCCCcccCccch
Q psy12639 15 ACTECDQKFNRNSKLKIHYNLAHCTGEMY-ECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTV 78 (134)
Q Consensus 15 ~C~~C~~~f~~~~~l~~h~~~~h~~~~~~-~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~ 78 (134)
.|..||-.|.....|-.-.. ++.-..| .|+.|.+-+....+ .|.|. .|..|+.||-
T Consensus 125 ~CT~CGPRfTIi~alPYDR~--nTsM~~F~lC~~C~~EY~dP~n----RRfHA--Qp~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRE--NTSMADFPLCPFCDKEYKDPLN----RRFHA--QPIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCCCCcc--cCccccCcCCHHHHHHhcCccc----ccccc--ccccCcccCC
Confidence 35566666655544432221 2222222 36666665555443 23333 4456666663
No 97
>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=79.74 E-value=1.1 Score=29.07 Aligned_cols=28 Identities=18% Similarity=0.360 Sum_probs=21.5
Q ss_pred CCceeCccchhhccChHHHHHHHhcccc
Q psy12639 11 AKPYACTECDQKFNRNSKLKIHYNLAHC 38 (134)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~h~~~~h~ 38 (134)
+.-|.|+.|++.|.-...+..|+...|.
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 3458999999999999999999987775
No 98
>KOG2807|consensus
Probab=79.37 E-value=3.2 Score=28.77 Aligned_cols=67 Identities=18% Similarity=0.404 Sum_probs=39.1
Q ss_pred CceeCccchhhccChHHHHHHHhccccC-CCce------------ecCCCCCccCChhhHHhHHhhhcCCCCcccCccch
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCT-GEMY------------ECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTV 78 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~-~~~~------------~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~ 78 (134)
-|.+|+.|+...-+...|.+-.. |.- -++| .|-.|+. .-.+...|.|..|..
T Consensus 289 LP~eCpiC~ltLVss~hLARSyh--hL~PL~~F~Eip~~~~~~~~~Cf~C~~-------------~~~~~~~y~C~~Ck~ 353 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYH--HLFPLKPFVEIPETEYNGSRFCFACQG-------------ELLSSGRYRCESCKN 353 (378)
T ss_pred CCccCCccceeEecchHHHHHHH--hhcCCcchhhccccccCCCcceeeecc-------------ccCCCCcEEchhccc
Confidence 46788899988887777765543 211 1111 1333411 112233488888888
Q ss_pred hhcCHHHHHHHHHhh
Q psy12639 79 RYLRSYELVLHLKKC 93 (134)
Q Consensus 79 ~f~~~~~l~~H~~~~ 93 (134)
.|-..-+.--|-..|
T Consensus 354 ~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 354 VFCLDCDVFIHESLH 368 (378)
T ss_pred eeeccchHHHHhhhh
Confidence 888777777775554
No 99
>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=78.48 E-value=2 Score=24.64 Aligned_cols=26 Identities=31% Similarity=0.522 Sum_probs=21.1
Q ss_pred ceec----CCCCCccCChhhHHhHHhhhcC
Q psy12639 42 MYEC----CHCARSFPCKSYLIPHLRVHTG 67 (134)
Q Consensus 42 ~~~C----~~C~~~~~~~~~l~~h~~~h~~ 67 (134)
-|.| ..|+....+...+..|.+.++|
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3788 8899999999999999887543
No 100
>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=78.30 E-value=2 Score=28.76 Aligned_cols=76 Identities=21% Similarity=0.442 Sum_probs=34.2
Q ss_pred CCCceeCccchhhccChHHHHHHHhc-cccCCCceecCCCCCccCCh------hhHHhHHhh----hcCCCCcccCccch
Q psy12639 10 GAKPYACTECDQKFNRNSKLKIHYNL-AHCTGEMYECCHCARSFPCK------SYLIPHLRV----HTGEKPYACNLCTV 78 (134)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~h~~~-~h~~~~~~~C~~C~~~~~~~------~~l~~h~~~----h~~~~~~~C~~C~~ 78 (134)
|.+.|.|..|.........+ .|+.+ .-.....|.|..|.+..... .....|.+. ....+++.||.|+.
T Consensus 139 GGrif~CsfC~~flCEDDQF-EHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKCg~ 217 (314)
T PF06524_consen 139 GGRIFKCSFCDNFLCEDDQF-EHQASCQVLESETFKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKCGY 217 (314)
T ss_pred CCeEEEeecCCCeeeccchh-hhhhhhhhhhcccccccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCCCC
Confidence 44566777766444333322 23221 00112245565555543222 122334332 12346677777776
Q ss_pred hhcCHHHH
Q psy12639 79 RYLRSYEL 86 (134)
Q Consensus 79 ~f~~~~~l 86 (134)
.......|
T Consensus 218 et~eTkdL 225 (314)
T PF06524_consen 218 ETQETKDL 225 (314)
T ss_pred cccccccc
Confidence 55554444
No 101
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=76.44 E-value=1.5 Score=33.89 Aligned_cols=13 Identities=23% Similarity=0.544 Sum_probs=8.7
Q ss_pred CCCCcccCccchh
Q psy12639 67 GEKPYACNLCTVR 79 (134)
Q Consensus 67 ~~~~~~C~~C~~~ 79 (134)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 3467778888743
No 102
>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=76.21 E-value=1.2 Score=28.93 Aligned_cols=26 Identities=19% Similarity=0.336 Sum_probs=14.0
Q ss_pred CcccCccchhhcCHHHHHHHHHhhcC
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCHR 95 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~ 95 (134)
.|.|+.|+|.|.-..-.++|+..-|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 36666666666666666666655443
No 103
>KOG3408|consensus
Probab=76.18 E-value=2.1 Score=25.12 Aligned_cols=26 Identities=23% Similarity=0.520 Sum_probs=21.8
Q ss_pred CCCCcccCccchhhcCHHHHHHHHHh
Q psy12639 67 GEKPYACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
|.-.|.|-.|.+.|.....|..|.+.
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44458899999999999999999764
No 104
>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=74.87 E-value=2.1 Score=25.67 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=16.2
Q ss_pred CCCcccCccchhhcCHHHHHHHHHhhcC
Q psy12639 68 EKPYACNLCTVRYLRSYELVLHLKKCHR 95 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 95 (134)
.....|-+||+.|... ++|++.||+
T Consensus 70 ~d~i~clecGk~~k~L---krHL~~~~g 94 (132)
T PF05443_consen 70 PDYIICLECGKKFKTL---KRHLRTHHG 94 (132)
T ss_dssp SS-EE-TBT--EESBH---HHHHHHTT-
T ss_pred cCeeEEccCCcccchH---HHHHHHccC
Confidence 3446899999999864 899999975
No 105
>KOG4173|consensus
Probab=74.84 E-value=1.3 Score=28.56 Aligned_cols=84 Identities=15% Similarity=0.311 Sum_probs=57.7
Q ss_pred ceecCC--CCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhhc----------CCCCCCCC----CCC
Q psy12639 42 MYECCH--CARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKCH----------REDARNPY----APA 105 (134)
Q Consensus 42 ~~~C~~--C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~----------~~~~~~~~----~~~ 105 (134)
.|.|++ |...|.....+..|.-.-++ -.|..|.+.|.+...|..|+.--| +...|.|- +..
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 466876 76777777767666644222 368999999999999988875433 33456665 446
Q ss_pred cccchhhhhhhhhhhcCCceeee
Q psy12639 106 FVDVNTVAQVKQEYEELPVKVEL 128 (134)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~~~~~~ 128 (134)
|.+......|....+..|...+.
T Consensus 156 FkT~r~RkdH~I~~Hk~Pa~frF 178 (253)
T KOG4173|consen 156 FKTSRDRKDHMIRMHKYPADFRF 178 (253)
T ss_pred hhhhhhhhhHHHHhccCCcceee
Confidence 77777777777777777766554
No 106
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=73.90 E-value=1.7 Score=23.92 Aligned_cols=30 Identities=20% Similarity=0.512 Sum_probs=16.4
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhc
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
++.|+.|++.- +.+ .+...+.|..|+..|.
T Consensus 35 ~~~Cp~C~~~~--------VkR--~a~GIW~C~kCg~~fA 64 (89)
T COG1997 35 KHVCPFCGRTT--------VKR--IATGIWKCRKCGAKFA 64 (89)
T ss_pred CCcCCCCCCcc--------eee--eccCeEEcCCCCCeec
Confidence 46777776541 112 1223477777776664
No 107
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=73.78 E-value=0.95 Score=24.05 Aligned_cols=12 Identities=25% Similarity=0.755 Sum_probs=5.6
Q ss_pred eecC--CCCCccCC
Q psy12639 43 YECC--HCARSFPC 54 (134)
Q Consensus 43 ~~C~--~C~~~~~~ 54 (134)
+.|. .||.+|..
T Consensus 28 ~qC~N~eCg~tF~t 41 (72)
T PRK09678 28 HQCQNVNCSATFIT 41 (72)
T ss_pred eecCCCCCCCEEEE
Confidence 4444 45555443
No 108
>KOG3408|consensus
Probab=73.56 E-value=3 Score=24.50 Aligned_cols=24 Identities=29% Similarity=0.656 Sum_probs=13.8
Q ss_pred CceeCccchhhccChHHHHHHHhc
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
..|.|-.|.+-|.....|+.|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 345566666666666666655543
No 109
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=73.38 E-value=2.3 Score=20.77 Aligned_cols=10 Identities=30% Similarity=1.142 Sum_probs=5.2
Q ss_pred eeCccchhhc
Q psy12639 14 YACTECDQKF 23 (134)
Q Consensus 14 ~~C~~C~~~f 23 (134)
|.|-.||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4555555554
No 110
>KOG2482|consensus
Probab=72.67 E-value=7.6 Score=27.23 Aligned_cols=22 Identities=23% Similarity=0.464 Sum_probs=20.5
Q ss_pred cccCccchhhcCHHHHHHHHHh
Q psy12639 71 YACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
+.|-.|.+.|..+..|+.||+.
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 7899999999999999999984
No 111
>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=72.12 E-value=3.1 Score=24.65 Aligned_cols=15 Identities=7% Similarity=0.169 Sum_probs=7.9
Q ss_pred CCcccCccchhhcCH
Q psy12639 69 KPYACNLCTVRYLRS 83 (134)
Q Consensus 69 ~~~~C~~C~~~f~~~ 83 (134)
.|..|+.||..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 455555555555433
No 112
>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=71.17 E-value=2.6 Score=30.73 Aligned_cols=29 Identities=24% Similarity=0.556 Sum_probs=23.9
Q ss_pred CceeCccchhhccChHHHHHHHhccccCC
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCTG 40 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~~ 40 (134)
+.+.|+.|.+.|.....+..|+...|.+.
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 35789999999999999999998777653
No 113
>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=69.38 E-value=3 Score=19.57 Aligned_cols=16 Identities=13% Similarity=0.410 Sum_probs=11.0
Q ss_pred ccCccchhhcCHHHHH
Q psy12639 72 ACNLCTVRYLRSYELV 87 (134)
Q Consensus 72 ~C~~C~~~f~~~~~l~ 87 (134)
.|+.|++.|+.+..+.
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 4778888887765443
No 114
>KOG2593|consensus
Probab=68.98 E-value=4 Score=29.38 Aligned_cols=38 Identities=21% Similarity=0.611 Sum_probs=22.8
Q ss_pred CCceeCccchhhccChHHHHHHHhccccCCCceecCCCCCcc
Q psy12639 11 AKPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSF 52 (134)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~ 52 (134)
..-|.|+.|.+.|.....++.-.. ....|.|..|+.-.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~~~----~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLLDN----ETGEFHCENCGGEL 163 (436)
T ss_pred cccccCCccccchhhhHHHHhhcc----cCceEEEecCCCch
Confidence 345788888888777655442221 22357788777553
No 115
>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=68.79 E-value=2.2 Score=17.77 Aligned_cols=9 Identities=22% Similarity=0.759 Sum_probs=4.8
Q ss_pred ccCccchhh
Q psy12639 72 ACNLCTVRY 80 (134)
Q Consensus 72 ~C~~C~~~f 80 (134)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 355555555
No 116
>KOG2785|consensus
Probab=68.73 E-value=6.4 Score=27.89 Aligned_cols=53 Identities=26% Similarity=0.407 Sum_probs=42.3
Q ss_pred CceeCccchhhccChHHHHHHHhccccC----------------------CCceecCCCC---CccCChhhHHhHHhh
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCT----------------------GEMYECCHCA---RSFPCKSYLIPHLRV 64 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~----------------------~~~~~C~~C~---~~~~~~~~l~~h~~~ 64 (134)
.|-.|-.|++.+.+...-..||...|.= ...+.|..|. +.|.+-.....||..
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4567899999999999999999874421 1247888888 889999999999874
No 117
>PF12907 zf-met2: Zinc-binding
Probab=68.57 E-value=4.1 Score=18.95 Aligned_cols=27 Identities=30% Similarity=0.476 Sum_probs=14.9
Q ss_pred eeCccchhhcc---ChHHHHHHHhccccCC
Q psy12639 14 YACTECDQKFN---RNSKLKIHYNLAHCTG 40 (134)
Q Consensus 14 ~~C~~C~~~f~---~~~~l~~h~~~~h~~~ 40 (134)
+.|.+|..+|. ....|..|....|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 35667764444 3344666666555543
No 118
>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=67.17 E-value=2.6 Score=18.26 Aligned_cols=7 Identities=29% Similarity=0.899 Sum_probs=3.2
Q ss_pred eecCCCC
Q psy12639 43 YECCHCA 49 (134)
Q Consensus 43 ~~C~~C~ 49 (134)
+.|+.|+
T Consensus 20 ~vCp~C~ 26 (30)
T PF08274_consen 20 LVCPECG 26 (30)
T ss_dssp EEETTTT
T ss_pred EeCCccc
Confidence 4444443
No 119
>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=64.72 E-value=3 Score=20.15 Aligned_cols=12 Identities=25% Similarity=0.885 Sum_probs=5.7
Q ss_pred eeCccchhhccC
Q psy12639 14 YACTECDQKFNR 25 (134)
Q Consensus 14 ~~C~~C~~~f~~ 25 (134)
|.|..|+..+..
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 445555544443
No 120
>KOG4167|consensus
Probab=64.53 E-value=1.9 Score=33.07 Aligned_cols=27 Identities=22% Similarity=0.481 Sum_probs=23.0
Q ss_pred CceeCccchhhccChHHHHHHHhccccC
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCT 39 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~ 39 (134)
..|.|.+|++.|--..++..||++ |.-
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~-Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKT-HRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHH-HHH
Confidence 458999999999999999999987 653
No 121
>PF15269 zf-C2H2_7: Zinc-finger
Probab=64.21 E-value=4.9 Score=19.10 Aligned_cols=22 Identities=32% Similarity=0.579 Sum_probs=17.7
Q ss_pred eeCccchhhccChHHHHHHHhc
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
|.|-.|..+...++.|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6788888888888888888863
No 122
>KOG4167|consensus
Probab=64.11 E-value=2.5 Score=32.53 Aligned_cols=25 Identities=16% Similarity=0.406 Sum_probs=22.5
Q ss_pred CcccCccchhhcCHHHHHHHHHhhc
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
.|.|..|+|.|..-..+..||+.|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3899999999999999999998875
No 123
>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=64.11 E-value=4 Score=16.68 Aligned_cols=8 Identities=25% Similarity=0.990 Sum_probs=4.2
Q ss_pred ceecCCCC
Q psy12639 42 MYECCHCA 49 (134)
Q Consensus 42 ~~~C~~C~ 49 (134)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 35555554
No 124
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=63.46 E-value=7.9 Score=16.99 Aligned_cols=7 Identities=29% Similarity=0.804 Sum_probs=3.2
Q ss_pred cccCccc
Q psy12639 71 YACNLCT 77 (134)
Q Consensus 71 ~~C~~C~ 77 (134)
..|+.||
T Consensus 18 irC~~CG 24 (32)
T PF03604_consen 18 IRCPECG 24 (32)
T ss_dssp SSBSSSS
T ss_pred EECCcCC
Confidence 3444444
No 125
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=62.74 E-value=5.5 Score=19.45 Aligned_cols=14 Identities=21% Similarity=0.584 Sum_probs=7.3
Q ss_pred ceecCCCCCccCCh
Q psy12639 42 MYECCHCARSFPCK 55 (134)
Q Consensus 42 ~~~C~~C~~~~~~~ 55 (134)
.+.|..||..|...
T Consensus 4 ~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 4 TLTCKDCGAEFVFT 17 (49)
T ss_pred eEEcccCCCeEEEe
Confidence 45555565555443
No 126
>KOG1280|consensus
Probab=62.74 E-value=8.6 Score=26.96 Aligned_cols=26 Identities=15% Similarity=0.255 Sum_probs=15.4
Q ss_pred ceeCccchhhccChHHHHHHHhcccc
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHC 38 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~ 38 (134)
.|+|+.|+..--+...|..|....|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hp 104 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHP 104 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCc
Confidence 46666666666666666666655443
No 127
>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=62.24 E-value=4.6 Score=23.51 Aligned_cols=12 Identities=25% Similarity=0.628 Sum_probs=7.7
Q ss_pred eecCCCCCccCC
Q psy12639 43 YECCHCARSFPC 54 (134)
Q Consensus 43 ~~C~~C~~~~~~ 54 (134)
..|..|+..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (115)
T TIGR00100 71 CECEDCSEEVSP 82 (115)
T ss_pred EEcccCCCEEec
Confidence 567777766543
No 128
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=61.27 E-value=3.8 Score=24.61 Aligned_cols=13 Identities=15% Similarity=0.726 Sum_probs=8.1
Q ss_pred ceecCCCCCccCC
Q psy12639 42 MYECCHCARSFPC 54 (134)
Q Consensus 42 ~~~C~~C~~~~~~ 54 (134)
.+.|..||..|..
T Consensus 70 ~~~C~~CG~~~~~ 82 (135)
T PRK03824 70 VLKCRNCGNEWSL 82 (135)
T ss_pred EEECCCCCCEEec
Confidence 3667777766544
No 129
>KOG2907|consensus
Probab=60.82 E-value=3.6 Score=23.79 Aligned_cols=38 Identities=24% Similarity=0.495 Sum_probs=21.1
Q ss_pred eecCCCCCccCChhhHHhHHhhh-cCC-CCcccCccchhhcC
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVH-TGE-KPYACNLCTVRYLR 82 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h-~~~-~~~~C~~C~~~f~~ 82 (134)
..|+.||..--....++ +|+. .|. .-|.|+.|+..|+.
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 46888876543333332 2322 222 34888888887753
No 130
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=60.53 E-value=0.83 Score=21.19 Aligned_cols=8 Identities=38% Similarity=1.252 Sum_probs=3.6
Q ss_pred eecCCCCC
Q psy12639 43 YECCHCAR 50 (134)
Q Consensus 43 ~~C~~C~~ 50 (134)
|.|..|+.
T Consensus 29 y~C~~C~~ 36 (40)
T smart00440 29 YVCTKCGH 36 (40)
T ss_pred EEeCCCCC
Confidence 44444443
No 131
>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=59.75 E-value=2.9 Score=20.61 Aligned_cols=20 Identities=25% Similarity=0.559 Sum_probs=6.9
Q ss_pred ceecCCCCCccCChhhHHhH
Q psy12639 42 MYECCHCARSFPCKSYLIPH 61 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h 61 (134)
.|.|+.|...|-..-.+-.|
T Consensus 21 ~y~C~~C~~~FC~dCD~fiH 40 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIH 40 (51)
T ss_dssp EE--TTTT--B-HHHHHTTT
T ss_pred eEECCCCCCccccCcChhhh
Confidence 45555555555444443333
No 132
>KOG1842|consensus
Probab=59.15 E-value=7.3 Score=28.27 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=19.4
Q ss_pred CcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
.|.||+|.+.|.+...|..|...-|.+
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccc
Confidence 477777777777777777777665544
No 133
>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=58.21 E-value=9.8 Score=18.03 Aligned_cols=9 Identities=33% Similarity=1.143 Sum_probs=5.3
Q ss_pred eecCCCCCc
Q psy12639 43 YECCHCARS 51 (134)
Q Consensus 43 ~~C~~C~~~ 51 (134)
+.|+.|+..
T Consensus 19 ~~CP~Cg~~ 27 (46)
T PF12760_consen 19 FVCPHCGST 27 (46)
T ss_pred CCCCCCCCe
Confidence 556666653
No 134
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=58.05 E-value=5.4 Score=19.91 Aligned_cols=9 Identities=33% Similarity=0.925 Sum_probs=4.0
Q ss_pred ecCCCCCcc
Q psy12639 44 ECCHCARSF 52 (134)
Q Consensus 44 ~C~~C~~~~ 52 (134)
.|+.|+..+
T Consensus 4 ~CP~CG~~i 12 (54)
T TIGR01206 4 ECPDCGAEI 12 (54)
T ss_pred CCCCCCCEE
Confidence 444444433
No 135
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=57.72 E-value=6.4 Score=22.85 Aligned_cols=10 Identities=20% Similarity=0.587 Sum_probs=6.5
Q ss_pred eecCCCCCcc
Q psy12639 43 YECCHCARSF 52 (134)
Q Consensus 43 ~~C~~C~~~~ 52 (134)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 5677777555
No 136
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.30 E-value=2.9 Score=27.53 Aligned_cols=8 Identities=25% Similarity=0.870 Sum_probs=5.2
Q ss_pred cccCccch
Q psy12639 71 YACNLCTV 78 (134)
Q Consensus 71 ~~C~~C~~ 78 (134)
..||.|..
T Consensus 63 vvCP~C~y 70 (267)
T COG1655 63 VVCPICYY 70 (267)
T ss_pred EEcchhhH
Confidence 36777764
No 137
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=56.80 E-value=13 Score=25.45 Aligned_cols=30 Identities=30% Similarity=0.553 Sum_probs=24.9
Q ss_pred CCCCcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 67 GEKPYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
....|.|..|-+.|.+...+.+|+..+...
T Consensus 45 ~~~lyiCe~Clky~~~~~~l~~H~~~C~~r 74 (290)
T PLN03238 45 CTKLYICEYCLKYMRKKKSLLRHLAKCDIR 74 (290)
T ss_pred CCeEEEcCCCcchhCCHHHHHHHHHhCCCC
Confidence 355699999999999999999999876543
No 138
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=56.64 E-value=9.7 Score=19.10 Aligned_cols=10 Identities=20% Similarity=0.753 Sum_probs=4.9
Q ss_pred CCcccCccch
Q psy12639 69 KPYACNLCTV 78 (134)
Q Consensus 69 ~~~~C~~C~~ 78 (134)
..|.|+.||-
T Consensus 13 v~~~Cp~cGi 22 (55)
T PF13824_consen 13 VNFECPDCGI 22 (55)
T ss_pred cCCcCCCCCC
Confidence 3455555553
No 139
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=56.56 E-value=7.4 Score=22.29 Aligned_cols=24 Identities=21% Similarity=0.299 Sum_probs=19.8
Q ss_pred CCCcccCccchhhcCHHHHHHHHH
Q psy12639 68 EKPYACNLCTVRYLRSYELVLHLK 91 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H~~ 91 (134)
.-.+.|-.|.+.|.+...|..|.+
T Consensus 53 lGqhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 53 LGQHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred CceeeeehhHHHHHHHHHHHHHhc
Confidence 334678899999999999999976
No 140
>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=56.28 E-value=9 Score=19.75 Aligned_cols=15 Identities=13% Similarity=0.456 Sum_probs=9.1
Q ss_pred CCCCcccCccchhhc
Q psy12639 67 GEKPYACNLCTVRYL 81 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~ 81 (134)
..+.|.|+.||..+.
T Consensus 43 ~~r~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 43 SGRVFTCPNCGFEMD 57 (69)
T ss_pred ccceEEcCCCCCEEC
Confidence 344577777776543
No 141
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=55.29 E-value=14 Score=18.34 Aligned_cols=34 Identities=21% Similarity=0.548 Sum_probs=14.5
Q ss_pred CceeCcc--chhhccChHHHHHHHhccccCCCceecCC
Q psy12639 12 KPYACTE--CDQKFNRNSKLKIHYNLAHCTGEMYECCH 47 (134)
Q Consensus 12 ~~~~C~~--C~~~f~~~~~l~~h~~~~h~~~~~~~C~~ 47 (134)
.+..|+. |...+. ...|..|+.. .-...+-.|..
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~-~C~~~~v~C~~ 43 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLEN-ECPKRPVPCPY 43 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHT-TSTTSEEE-SS
T ss_pred CEeeCCCCCccccee-HHHHHHHHHc-cCCCCcEECCC
Confidence 3455655 333233 3446666653 33334455555
No 142
>KOG0978|consensus
Probab=55.17 E-value=4.9 Score=30.92 Aligned_cols=19 Identities=11% Similarity=0.277 Sum_probs=13.1
Q ss_pred CCCCcccCccchhhcCHHH
Q psy12639 67 GEKPYACNLCTVRYLRSYE 85 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~~~~ 85 (134)
.-+.-.||.|+.+|....-
T Consensus 675 etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 675 ETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred HHhcCCCCCCCCCCCcccc
Confidence 3455678888888876544
No 143
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=54.41 E-value=7 Score=17.94 Aligned_cols=14 Identities=21% Similarity=0.717 Sum_probs=11.3
Q ss_pred ceeCccchhhccCh
Q psy12639 13 PYACTECDQKFNRN 26 (134)
Q Consensus 13 ~~~C~~C~~~f~~~ 26 (134)
|+.|..|++.|...
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78899898888764
No 144
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=54.22 E-value=6.9 Score=21.78 Aligned_cols=13 Identities=15% Similarity=0.391 Sum_probs=8.4
Q ss_pred CcccCccchhhcC
Q psy12639 70 PYACNLCTVRYLR 82 (134)
Q Consensus 70 ~~~C~~C~~~f~~ 82 (134)
.+.|..|++.|.-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PTZ00255 54 IWRCKGCKKTVAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 4677777766643
No 145
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=54.16 E-value=11 Score=23.80 Aligned_cols=32 Identities=16% Similarity=0.502 Sum_probs=16.9
Q ss_pred CCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchh
Q psy12639 39 TGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVR 79 (134)
Q Consensus 39 ~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~ 79 (134)
...-|.|+.|...++...+.. . .|.|+.||..
T Consensus 110 ~~~~y~C~~~~~r~sfdeA~~------~---~F~Cp~Cg~~ 141 (176)
T COG1675 110 ENNYYVCPNCHVKYSFDEAME------L---GFTCPKCGED 141 (176)
T ss_pred cCCceeCCCCCCcccHHHHHH------h---CCCCCCCCch
Confidence 334566766665554443321 1 1677777743
No 146
>KOG0717|consensus
Probab=52.49 E-value=8 Score=28.27 Aligned_cols=28 Identities=29% Similarity=0.479 Sum_probs=23.0
Q ss_pred cccCccchhhcCHHHHHHHHHh-hcCCCC
Q psy12639 71 YACNLCTVRYLRSYELVLHLKK-CHREDA 98 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~-~~~~~~ 98 (134)
..|..|+..|.++.-|..|++. .|+..+
T Consensus 461 ~~C~tCr~~FdSRnkLF~Hlk~tgHa~~~ 489 (508)
T KOG0717|consen 461 ISCTTCRESFDSRNKLFAHLKKTGHARLP 489 (508)
T ss_pred HhhhhhhhhccchhHHHHHhhhcCCeecc
Confidence 5789999999999999999874 555543
No 147
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=52.38 E-value=15 Score=25.52 Aligned_cols=77 Identities=21% Similarity=0.461 Sum_probs=44.6
Q ss_pred ceeCccchhhccChHHHHHHHhcccc-------------CCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchh
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHC-------------TGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVR 79 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~-------------~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~ 79 (134)
|..|+.|.........|..-.. |. ..+.--|-.|...|.....-.-- .-+....|.|+.|...
T Consensus 322 Pi~CP~Csl~LilsthLarSyh--hL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~--~~~ss~rY~Ce~CK~~ 397 (421)
T COG5151 322 PISCPICSLQLILSTHLARSYH--HLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFD--ESTSSGRYQCELCKST 397 (421)
T ss_pred CccCcchhHHHHHHHHHHHHHH--hhccCcccccccCCCCCCCccceeccCCCCCCCCCccc--ccccccceechhhhhh
Confidence 4567777766555555543331 11 11112366777777554321100 0123445999999999
Q ss_pred hcCHHHHHHHHHhh
Q psy12639 80 YLRSYELVLHLKKC 93 (134)
Q Consensus 80 f~~~~~l~~H~~~~ 93 (134)
|-..-+.-.|-..|
T Consensus 398 FC~dCdvfiHe~Lh 411 (421)
T COG5151 398 FCSDCDVFIHETLH 411 (421)
T ss_pred hhhhhHHHHHHHHh
Confidence 99998888887765
No 148
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=52.18 E-value=8.5 Score=22.50 Aligned_cols=10 Identities=40% Similarity=1.062 Sum_probs=6.1
Q ss_pred eecCCCCCcc
Q psy12639 43 YECCHCARSF 52 (134)
Q Consensus 43 ~~C~~C~~~~ 52 (134)
+.|..|+..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 5566666554
No 149
>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=52.15 E-value=15 Score=16.79 Aligned_cols=21 Identities=19% Similarity=0.295 Sum_probs=8.1
Q ss_pred CcccCccchhhc--CHHHHHHHH
Q psy12639 70 PYACNLCTVRYL--RSYELVLHL 90 (134)
Q Consensus 70 ~~~C~~C~~~f~--~~~~l~~H~ 90 (134)
.|-|+.|...|+ +.+..+.|.
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT
T ss_pred CeecccccceecCCChHHHHHhh
Confidence 366777777773 223445553
No 150
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.08 E-value=6.1 Score=19.12 Aligned_cols=15 Identities=13% Similarity=0.441 Sum_probs=10.2
Q ss_pred ccCccchhhcCHHHH
Q psy12639 72 ACNLCTVRYLRSYEL 86 (134)
Q Consensus 72 ~C~~C~~~f~~~~~l 86 (134)
.|+.|++.|+.+..+
T Consensus 14 ICpvCqRPFsWRkKW 28 (54)
T COG4338 14 ICPVCQRPFSWRKKW 28 (54)
T ss_pred hhhhhcCchHHHHHH
Confidence 477777777766544
No 151
>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=51.64 E-value=5.1 Score=19.73 Aligned_cols=12 Identities=25% Similarity=0.534 Sum_probs=6.1
Q ss_pred ccCccchhhcCH
Q psy12639 72 ACNLCTVRYLRS 83 (134)
Q Consensus 72 ~C~~C~~~f~~~ 83 (134)
.||.|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 788888888654
No 152
>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=50.65 E-value=8 Score=28.69 Aligned_cols=9 Identities=33% Similarity=0.907 Sum_probs=5.3
Q ss_pred CcccCccch
Q psy12639 70 PYACNLCTV 78 (134)
Q Consensus 70 ~~~C~~C~~ 78 (134)
|..|+.|+.
T Consensus 253 ~~~Cp~C~s 261 (505)
T TIGR00595 253 PKTCPQCGS 261 (505)
T ss_pred CCCCCCCCC
Confidence 456666654
No 153
>KOG4727|consensus
Probab=49.99 E-value=8.8 Score=24.06 Aligned_cols=21 Identities=29% Similarity=0.525 Sum_probs=19.8
Q ss_pred eeCccchhhccChHHHHHHHh
Q psy12639 14 YACTECDQKFNRNSKLKIHYN 34 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~ 34 (134)
|-|.+|.-.|....++..|++
T Consensus 76 yyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred eeeeecceeehhhHHHHHHhc
Confidence 899999999999999999996
No 154
>PLN02294 cytochrome c oxidase subunit Vb
Probab=49.87 E-value=8.7 Score=24.08 Aligned_cols=14 Identities=36% Similarity=0.861 Sum_probs=10.4
Q ss_pred CceeCccchhhccC
Q psy12639 12 KPYACTECDQKFNR 25 (134)
Q Consensus 12 ~~~~C~~C~~~f~~ 25 (134)
+|..|+.||..|..
T Consensus 140 kp~RCpeCG~~fkL 153 (174)
T PLN02294 140 KSFECPVCTQYFEL 153 (174)
T ss_pred CceeCCCCCCEEEE
Confidence 57788888877754
No 155
>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=49.76 E-value=8.4 Score=21.49 Aligned_cols=12 Identities=17% Similarity=0.803 Sum_probs=7.9
Q ss_pred CcccCccchhhc
Q psy12639 70 PYACNLCTVRYL 81 (134)
Q Consensus 70 ~~~C~~C~~~f~ 81 (134)
.+.|..|++.|.
T Consensus 53 IW~C~~C~~~~A 64 (91)
T TIGR00280 53 IWTCRKCGAKFA 64 (91)
T ss_pred EEEcCCCCCEEe
Confidence 467777776664
No 156
>PRK14873 primosome assembly protein PriA; Provisional
Probab=49.59 E-value=8.3 Score=29.71 Aligned_cols=9 Identities=22% Similarity=0.763 Sum_probs=5.9
Q ss_pred CcccCccch
Q psy12639 70 PYACNLCTV 78 (134)
Q Consensus 70 ~~~C~~C~~ 78 (134)
++.|+.||.
T Consensus 422 p~~Cp~Cgs 430 (665)
T PRK14873 422 DWRCPRCGS 430 (665)
T ss_pred CccCCCCcC
Confidence 566777764
No 157
>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=48.65 E-value=5.3 Score=18.03 Aligned_cols=10 Identities=20% Similarity=0.976 Sum_probs=5.2
Q ss_pred eCccchhhcc
Q psy12639 15 ACTECDQKFN 24 (134)
Q Consensus 15 ~C~~C~~~f~ 24 (134)
.|+.||..|.
T Consensus 3 ~C~~Cg~~Yh 12 (36)
T PF05191_consen 3 ICPKCGRIYH 12 (36)
T ss_dssp EETTTTEEEE
T ss_pred CcCCCCCccc
Confidence 4555555543
No 158
>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=47.56 E-value=6.8 Score=18.31 Aligned_cols=16 Identities=25% Similarity=0.812 Sum_probs=9.9
Q ss_pred CceeCccchhhccChH
Q psy12639 12 KPYACTECDQKFNRNS 27 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~ 27 (134)
-|+.|..|+..|-...
T Consensus 12 ~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH 27 (43)
T ss_dssp SHEE-TTTS-EE-TTT
T ss_pred CCeECCCCCcccCccc
Confidence 4788999998887643
No 159
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=47.34 E-value=32 Score=19.64 Aligned_cols=41 Identities=10% Similarity=0.094 Sum_probs=31.8
Q ss_pred CceeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCC
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPC 54 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~ 54 (134)
..|.|+.-|..|.+...+...+.. -..+.|.|...|+.-.+
T Consensus 2 eVf~i~~T~EiF~dYe~Y~~R~~~--y~~~vwtC~~TGk~~LT 42 (102)
T PF10537_consen 2 EVFYIPFTGEIFRDYEEYLKRMIL--YNQRVWTCEITGKSNLT 42 (102)
T ss_pred ceEEeCCCCcccCCHHHHHHHHHH--HhCCeeEEecCCCCCCC
Confidence 457889999999999998887753 45567899988876544
No 160
>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=46.89 E-value=9.5 Score=21.58 Aligned_cols=21 Identities=24% Similarity=0.509 Sum_probs=15.0
Q ss_pred hHHhhhcCCCCcccCccchhhc
Q psy12639 60 PHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 60 ~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
..+..+.+ ++..|+.||..|.
T Consensus 70 ~W~~l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 70 IWMWLEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EEEEEeCC-CceeCCCCCcEEE
Confidence 33445555 7899999998875
No 161
>KOG1842|consensus
Probab=46.70 E-value=13 Score=27.16 Aligned_cols=27 Identities=22% Similarity=0.420 Sum_probs=23.8
Q ss_pred ceeCccchhhccChHHHHHHHhccccC
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLAHCT 39 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~h~~ 39 (134)
-|.||+|..-|.....|..|....|.+
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhccc
Confidence 389999999999999999999876754
No 162
>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=46.65 E-value=9.4 Score=22.12 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=5.3
Q ss_pred eeCccchhhccC
Q psy12639 14 YACTECDQKFNR 25 (134)
Q Consensus 14 ~~C~~C~~~f~~ 25 (134)
+.|..||..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 71 ARCRDCGHEFEP 82 (113)
T ss_dssp EEETTTS-EEEC
T ss_pred EECCCCCCEEec
Confidence 345555555433
No 163
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=46.37 E-value=72 Score=19.93 Aligned_cols=52 Identities=19% Similarity=0.248 Sum_probs=32.8
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCc--cchhhcCHHHHHHHHHhhcC
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNL--CTVRYLRSYELVLHLKKCHR 95 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~~ 95 (134)
...|+.|.......... .-.+.+...|+-.|.. |.. -.+...|++|.+..|.
T Consensus 80 ~L~CPLCRG~V~GWtvv-e~AR~~LN~K~RsC~~e~C~F-~GtY~eLrKHar~~HP 133 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVV-EPARRFLNAKKRSCSQESCSF-SGTYSELRKHARSEHP 133 (162)
T ss_pred cccCccccCceeceEEc-hHHHHHhccCCccCccccccc-ccCHHHHHHHHHhhCC
Confidence 46788887665544333 3356666777766654 442 3567788999887554
No 164
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=45.72 E-value=18 Score=26.46 Aligned_cols=29 Identities=34% Similarity=0.623 Sum_probs=24.7
Q ss_pred CCCcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 68 EKPYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
...|.|..|-+.|.....+.+|+..+...
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~C~~~ 224 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKKCDLK 224 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhcCCCC
Confidence 45699999999999999999999876543
No 165
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=45.29 E-value=15 Score=17.62 Aligned_cols=7 Identities=29% Similarity=1.203 Sum_probs=3.3
Q ss_pred cccCccc
Q psy12639 71 YACNLCT 77 (134)
Q Consensus 71 ~~C~~C~ 77 (134)
+.|+.||
T Consensus 21 ~vC~~Cg 27 (52)
T smart00661 21 FVCRKCG 27 (52)
T ss_pred EECCcCC
Confidence 4444444
No 166
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=45.19 E-value=18 Score=26.69 Aligned_cols=32 Identities=13% Similarity=0.367 Sum_probs=25.7
Q ss_pred hcCCCCcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 65 HTGEKPYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 65 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
+...+-+.|+.|.+.|.....+..|+...|..
T Consensus 52 n~sWrFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 52 NKSWRFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred cCceeEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 34456689999999999999999999865543
No 167
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=44.72 E-value=9.3 Score=22.22 Aligned_cols=10 Identities=20% Similarity=0.481 Sum_probs=6.3
Q ss_pred eecCCCCCcc
Q psy12639 43 YECCHCARSF 52 (134)
Q Consensus 43 ~~C~~C~~~~ 52 (134)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (114)
T PRK03681 71 CWCETCQQYV 80 (114)
T ss_pred EEcccCCCee
Confidence 5677777544
No 168
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=44.69 E-value=15 Score=26.56 Aligned_cols=14 Identities=21% Similarity=0.612 Sum_probs=7.9
Q ss_pred CcccCccchhhcCH
Q psy12639 70 PYACNLCTVRYLRS 83 (134)
Q Consensus 70 ~~~C~~C~~~f~~~ 83 (134)
-|.|+.||..+...
T Consensus 367 g~rC~kCg~~~~~~ 380 (421)
T COG1571 367 GFRCKKCGTRARET 380 (421)
T ss_pred CcccccccccCCcc
Confidence 56666666555443
No 169
>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=44.12 E-value=8.4 Score=21.46 Aligned_cols=30 Identities=27% Similarity=0.652 Sum_probs=16.8
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhc
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
.|.|+.|++.-.. +... -.+.|..|++.|.
T Consensus 35 ky~Cp~Cgk~~vk--------R~a~--GIW~C~~C~~~~A 64 (90)
T PF01780_consen 35 KYTCPFCGKTSVK--------RVAT--GIWKCKKCGKKFA 64 (90)
T ss_dssp -BEESSSSSSEEE--------EEET--TEEEETTTTEEEE
T ss_pred CCcCCCCCCceeE--------Eeee--EEeecCCCCCEEe
Confidence 5778888765311 1122 2377888877664
No 170
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=44.09 E-value=13 Score=18.17 Aligned_cols=9 Identities=22% Similarity=0.796 Sum_probs=4.8
Q ss_pred CcccCccch
Q psy12639 70 PYACNLCTV 78 (134)
Q Consensus 70 ~~~C~~C~~ 78 (134)
.+.|..||.
T Consensus 37 r~~C~~Cgy 45 (50)
T PRK00432 37 RWHCGKCGY 45 (50)
T ss_pred cEECCCcCC
Confidence 355555554
No 171
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=43.84 E-value=14 Score=22.80 Aligned_cols=34 Identities=29% Similarity=0.606 Sum_probs=19.7
Q ss_pred CceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchh
Q psy12639 41 EMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVR 79 (134)
Q Consensus 41 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~ 79 (134)
-+|.|. |+..+... ..|-..-.|+ .|.|..|+-.
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 367888 88776543 2233333344 6888887643
No 172
>KOG4602|consensus
Probab=43.71 E-value=9.1 Score=25.69 Aligned_cols=38 Identities=16% Similarity=0.324 Sum_probs=23.2
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcC-------CCCcccCccchh
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTG-------EKPYACNLCTVR 79 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~-------~~~~~C~~C~~~ 79 (134)
+..|.+|...-....-+..|...... .+.|.|++||-.
T Consensus 233 ~l~CvFC~nN~E~~A~y~tH~lkd~dgRVLCPkLR~YVCPiCGAT 277 (318)
T KOG4602|consen 233 PLCCVFCFNNAEEFARYHTHPLKDKDGRVLCPKLRSYVCPICGAT 277 (318)
T ss_pred ceeEEeecCCCchhhheecccccCCCCcEechhHhhhcCcccccc
Confidence 45677777666555566666543332 244888888853
No 173
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.62 E-value=16 Score=19.60 Aligned_cols=9 Identities=56% Similarity=1.494 Sum_probs=4.5
Q ss_pred eeCccchhh
Q psy12639 14 YACTECDQK 22 (134)
Q Consensus 14 ~~C~~C~~~ 22 (134)
|+|..|+..
T Consensus 13 Y~c~~cg~~ 21 (82)
T COG2331 13 YECTECGNR 21 (82)
T ss_pred EeecccchH
Confidence 445555544
No 174
>KOG0782|consensus
Probab=43.44 E-value=3.2 Score=31.12 Aligned_cols=50 Identities=22% Similarity=0.452 Sum_probs=23.8
Q ss_pred HHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCC-CCcccCccchhhcCHH
Q psy12639 28 KLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGE-KPYACNLCTVRYLRSY 84 (134)
Q Consensus 28 ~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~-~~~~C~~C~~~f~~~~ 84 (134)
.+..|-.. |.....-.|..|++.|..+-.+ |..+ ....|.+|..+|-...
T Consensus 240 ~fvrHHWV-HrrRqeGkC~~CgKgFQQKf~F------hsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 240 GFVRHHWV-HRRRQEGKCNTCGKGFQQKFFF------HSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred cchHHhHh-hHhhhccccchhhhhhhhheee------ccccEEEEEehHHHHHhhcch
Confidence 44444443 4444444566666665443222 2222 2345666665554443
No 175
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=43.20 E-value=12 Score=20.90 Aligned_cols=12 Identities=17% Similarity=0.786 Sum_probs=7.9
Q ss_pred CcccCccchhhc
Q psy12639 70 PYACNLCTVRYL 81 (134)
Q Consensus 70 ~~~C~~C~~~f~ 81 (134)
.+.|..|++.|.
T Consensus 54 IW~C~~C~~~~A 65 (90)
T PRK03976 54 IWECRKCGAKFA 65 (90)
T ss_pred EEEcCCCCCEEe
Confidence 467777776664
No 176
>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=42.88 E-value=9.5 Score=17.73 Aligned_cols=11 Identities=27% Similarity=1.056 Sum_probs=5.8
Q ss_pred ceeCccchhhc
Q psy12639 13 PYACTECDQKF 23 (134)
Q Consensus 13 ~~~C~~C~~~f 23 (134)
+..|+.|+..|
T Consensus 29 ~~~CpYCg~~y 39 (40)
T PF10276_consen 29 PVVCPYCGTRY 39 (40)
T ss_dssp EEEETTTTEEE
T ss_pred eEECCCCCCEE
Confidence 45555555544
No 177
>PTZ00064 histone acetyltransferase; Provisional
Probab=42.80 E-value=24 Score=26.31 Aligned_cols=29 Identities=24% Similarity=0.489 Sum_probs=24.9
Q ss_pred CCCcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 68 EKPYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
...|.|..|-+.|.....|.+|+..+...
T Consensus 278 d~LYICEfCLkY~~s~~~l~rH~~~C~~r 306 (552)
T PTZ00064 278 DTLHFCEYCLDFFCFEDELIRHLSRCQLR 306 (552)
T ss_pred CeEEEccchhhhhCCHHHHHHHHhcCCCC
Confidence 45699999999999999999999877543
No 178
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=42.58 E-value=9.8 Score=21.18 Aligned_cols=29 Identities=21% Similarity=0.638 Sum_probs=19.2
Q ss_pred CceeCccchhhccChHHHHHHHhccccCCCceecCCCCCc
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARS 51 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~ 51 (134)
.|..|..||..|.... -..|-.|+.|-.-
T Consensus 57 ~Pa~CkkCGfef~~~~-----------ik~pSRCP~CKSE 85 (97)
T COG3357 57 RPARCKKCGFEFRDDK-----------IKKPSRCPKCKSE 85 (97)
T ss_pred cChhhcccCccccccc-----------cCCcccCCcchhh
Confidence 5778999998886611 1236678887543
No 179
>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=42.48 E-value=3.3 Score=21.87 Aligned_cols=58 Identities=19% Similarity=0.372 Sum_probs=26.7
Q ss_pred eeCccchhhccChHH---HHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhh
Q psy12639 14 YACTECDQKFNRNSK---LKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRY 80 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~---l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f 80 (134)
+.++-|++.|.=..- +..|... ........|..|+..+..... ..+ ..+.|+.|+..|
T Consensus 11 ~~~~cC~~~y~C~~CHde~~~H~~~-~~~~~~v~Cg~C~~~~~~~~~-------~c~-~~~~C~~C~~~~ 71 (71)
T PF05495_consen 11 IRFPCCGKYYPCRFCHDELEDHPFD-RWPVKRVICGKCRTEQPIDEY-------SCG-ADYFCPICGLYF 71 (71)
T ss_dssp EEETTTTEEESSHHHHHHCSSS----TTT--EEEETTT--EEES-SB-------TT---SEEETTTTEEE
T ss_pred EECCcccCeecHHHHHHHhccCccc-cccccCeECCCCCCccChhhh-------hcC-CCccCcCcCCCC
Confidence 455666666654321 1122221 222335778888877655544 111 457888887544
No 180
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=42.33 E-value=21 Score=17.60 Aligned_cols=32 Identities=19% Similarity=0.510 Sum_probs=16.2
Q ss_pred ecCCCCCccCChhhHHhHHhhhcCCCCcccCccchh
Q psy12639 44 ECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVR 79 (134)
Q Consensus 44 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~ 79 (134)
.|..|.-....... . ....+.....|+.||+.
T Consensus 24 ~C~gC~~~l~~~~~--~--~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 24 TCSGCHMELPPQEL--N--EIRKGDEIVFCPNCGRI 55 (56)
T ss_pred ccCCCCEEcCHHHH--H--HHHcCCCeEECcCCCcc
Confidence 56666655433221 1 22233455677777764
No 181
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=42.25 E-value=3.4 Score=23.38 Aligned_cols=8 Identities=25% Similarity=1.269 Sum_probs=3.8
Q ss_pred eeCccchh
Q psy12639 14 YACTECDQ 21 (134)
Q Consensus 14 ~~C~~C~~ 21 (134)
|.|+.|+.
T Consensus 23 FtCp~Cgh 30 (104)
T COG4888 23 FTCPRCGH 30 (104)
T ss_pred EecCccCC
Confidence 44554443
No 182
>PHA02998 RNA polymerase subunit; Provisional
Probab=41.63 E-value=4.4 Score=25.55 Aligned_cols=38 Identities=18% Similarity=0.336 Sum_probs=20.1
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCC---CCcccCccchhhcCH
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGE---KPYACNLCTVRYLRS 83 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~---~~~~C~~C~~~f~~~ 83 (134)
-.|+.|+..-...-.++ .|+. .+ ..|.|..||..|..+
T Consensus 144 v~CPkCg~~~A~f~qlQ--TRSA-DEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 144 TPCPNCKSKNTTPMMIQ--TRAA-DEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred CCCCCCCCCceEEEEEe--eccC-CCCceEEEEcCCCCCccCCc
Confidence 46888875533332222 2221 12 237888888777654
No 183
>PTZ00448 hypothetical protein; Provisional
Probab=40.97 E-value=18 Score=25.67 Aligned_cols=24 Identities=21% Similarity=0.538 Sum_probs=19.5
Q ss_pred ceeCccchhhccChHHHHHHHhcc
Q psy12639 13 PYACTECDQKFNRNSKLKIHYNLA 36 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~h~~~~ 36 (134)
.|.|..|+..|.+......|+++.
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 577999999998888888888763
No 184
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=40.72 E-value=23 Score=16.41 Aligned_cols=21 Identities=19% Similarity=0.521 Sum_probs=14.6
Q ss_pred eeCccchhhccCh--HHHHHHHh
Q psy12639 14 YACTECDQKFNRN--SKLKIHYN 34 (134)
Q Consensus 14 ~~C~~C~~~f~~~--~~l~~h~~ 34 (134)
-.|+.||..|... .+-..|.+
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~ 36 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKK 36 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHH
Confidence 5799999888754 44555554
No 185
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=40.64 E-value=5.2 Score=18.44 Aligned_cols=10 Identities=20% Similarity=0.780 Sum_probs=4.2
Q ss_pred CceecCCCCC
Q psy12639 41 EMYECCHCAR 50 (134)
Q Consensus 41 ~~~~C~~C~~ 50 (134)
+.+.|..|+.
T Consensus 23 ~~w~C~~C~~ 32 (40)
T PF04810_consen 23 KTWICNFCGT 32 (40)
T ss_dssp TEEEETTT--
T ss_pred CEEECcCCCC
Confidence 3455555543
No 186
>KOG2636|consensus
Probab=40.46 E-value=26 Score=25.69 Aligned_cols=58 Identities=14% Similarity=0.332 Sum_probs=35.4
Q ss_pred hhhcCCCCcccCccc-hhhcCHHHHHHHHH--hh-cCCCCCCCC-CCCcccchhhhhhhhhhh
Q psy12639 63 RVHTGEKPYACNLCT-VRYLRSYELVLHLK--KC-HREDARNPY-APAFVDVNTVAQVKQEYE 120 (134)
Q Consensus 63 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~--~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 120 (134)
+.|.-..-|.|.+|| .++.-+..+.+|-. .| ++=+....+ ..-|.....+......+.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrCLGIpnt~~F~~IT~I~eA~~LW~ 456 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRCLGIPNTSVFKGITKIEEALELWK 456 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhHHHHHhhcceecCCCCcHHhcccccHHHHHHHHH
Confidence 456666779999999 77877888888853 12 222222222 456666666666654444
No 187
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=39.96 E-value=17 Score=21.86 Aligned_cols=22 Identities=32% Similarity=0.532 Sum_probs=10.4
Q ss_pred eecCCCCCccCChhhHHhHHhhhcC
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTG 67 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~ 67 (134)
..|..+|+.|.+ |.+|..+|.+
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccC
Confidence 445555544432 4455555444
No 188
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=39.90 E-value=15 Score=21.76 Aligned_cols=10 Identities=30% Similarity=0.607 Sum_probs=5.8
Q ss_pred eecCCCCCccC
Q psy12639 43 YECCHCARSFP 53 (134)
Q Consensus 43 ~~C~~C~~~~~ 53 (134)
+.| .|+..|.
T Consensus 71 ~~C-~Cg~~~~ 80 (124)
T PRK00762 71 IEC-ECGYEGV 80 (124)
T ss_pred EEe-eCcCccc
Confidence 556 6665554
No 189
>KOG1280|consensus
Probab=39.68 E-value=29 Score=24.55 Aligned_cols=29 Identities=17% Similarity=0.423 Sum_probs=18.4
Q ss_pred CcccCccchhhcCHHHHHHHHHhhcCCCC
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKCHREDA 98 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 98 (134)
-|.|+.|+++=.+...+..|....|.+..
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~ 107 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEAS 107 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccC
Confidence 46677777666666666667666555544
No 190
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=39.48 E-value=32 Score=23.16 Aligned_cols=11 Identities=36% Similarity=1.186 Sum_probs=6.7
Q ss_pred CceeCccchhh
Q psy12639 12 KPYACTECDQK 22 (134)
Q Consensus 12 ~~~~C~~C~~~ 22 (134)
+.|.|..|...
T Consensus 111 rqFaC~~Cd~~ 121 (278)
T PF15135_consen 111 RQFACSSCDHM 121 (278)
T ss_pred eeeeccccchH
Confidence 55677766543
No 191
>PF14353 CpXC: CpXC protein
Probab=38.75 E-value=5 Score=23.67 Aligned_cols=23 Identities=26% Similarity=0.545 Sum_probs=17.5
Q ss_pred CceeCccchhhccChHHHHHHHh
Q psy12639 12 KPYACTECDQKFNRNSKLKIHYN 34 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~h~~ 34 (134)
..+.|+.||..|.-...+..|..
T Consensus 37 ~~~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred CEEECCCCCCceecCCCEEEEcC
Confidence 34899999999987777666554
No 192
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=38.01 E-value=19 Score=25.44 Aligned_cols=23 Identities=26% Similarity=0.417 Sum_probs=20.0
Q ss_pred CCcccCccchhhcCHHHHHHHHH
Q psy12639 69 KPYACNLCTVRYLRSYELVLHLK 91 (134)
Q Consensus 69 ~~~~C~~C~~~f~~~~~l~~H~~ 91 (134)
..+.|+.|++.|.....+..|+.
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHh
Confidence 34789999999999999999975
No 193
>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=37.41 E-value=27 Score=17.03 Aligned_cols=9 Identities=44% Similarity=1.213 Sum_probs=4.2
Q ss_pred ecCCCCCcc
Q psy12639 44 ECCHCARSF 52 (134)
Q Consensus 44 ~C~~C~~~~ 52 (134)
.|..||..|
T Consensus 20 ~Cr~Cg~~~ 28 (57)
T cd00065 20 HCRNCGRIF 28 (57)
T ss_pred ccCcCcCCc
Confidence 444444444
No 194
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=37.36 E-value=18 Score=18.37 Aligned_cols=30 Identities=30% Similarity=0.709 Sum_probs=15.6
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccch
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTV 78 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~ 78 (134)
|+|+ ||-.|.-. |. -...|++.-.|+.|..
T Consensus 23 yPCP-CGDRFeIs--Le---Dl~~GE~VArCPSCSL 52 (67)
T COG5216 23 YPCP-CGDRFEIS--LE---DLRNGEVVARCPSCSL 52 (67)
T ss_pred ecCC-CCCEeEEE--HH---HhhCCceEEEcCCceE
Confidence 5565 66555322 11 1235666667777753
No 195
>KOG0717|consensus
Probab=37.27 E-value=17 Score=26.73 Aligned_cols=21 Identities=19% Similarity=0.396 Sum_probs=18.8
Q ss_pred cccCccchhhcCHHHHHHHHH
Q psy12639 71 YACNLCTVRYLRSYELVLHLK 91 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~ 91 (134)
+.|..|++.|.+...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 779999999999999988864
No 196
>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=37.05 E-value=9.8 Score=16.19 Aligned_cols=6 Identities=33% Similarity=1.315 Sum_probs=2.3
Q ss_pred cchhhc
Q psy12639 18 ECDQKF 23 (134)
Q Consensus 18 ~C~~~f 23 (134)
.|++.|
T Consensus 5 DC~~~F 10 (28)
T PF08790_consen 5 DCSKDF 10 (28)
T ss_dssp TTTEEE
T ss_pred cCCCCc
Confidence 333333
No 197
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=36.76 E-value=7 Score=22.73 Aligned_cols=37 Identities=22% Similarity=0.423 Sum_probs=19.7
Q ss_pred eecCCCCCccCChhhHHhHHhh-hcC-CCCcccCccchhhc
Q psy12639 43 YECCHCARSFPCKSYLIPHLRV-HTG-EKPYACNLCTVRYL 81 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~-h~~-~~~~~C~~C~~~f~ 81 (134)
..|+.|+..=.....+ ..+. ... -..|.|..||..+.
T Consensus 73 ~~CpkCg~~ea~y~~~--QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYYWQL--QTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEEEee--ehhccCCCceEEEEecccCCEee
Confidence 4588887543332222 2222 111 13489999998764
No 198
>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=36.29 E-value=22 Score=18.20 Aligned_cols=10 Identities=40% Similarity=1.069 Sum_probs=4.0
Q ss_pred eCccchhhcc
Q psy12639 15 ACTECDQKFN 24 (134)
Q Consensus 15 ~C~~C~~~f~ 24 (134)
.|..|++.|.
T Consensus 11 ~C~~C~~~F~ 20 (69)
T PF01363_consen 11 NCMICGKKFS 20 (69)
T ss_dssp B-TTT--B-B
T ss_pred cCcCcCCcCC
Confidence 5777777774
No 199
>PRK04023 DNA polymerase II large subunit; Validated
Probab=35.46 E-value=30 Score=28.22 Aligned_cols=10 Identities=20% Similarity=0.767 Sum_probs=7.0
Q ss_pred ceeCccchhh
Q psy12639 13 PYACTECDQK 22 (134)
Q Consensus 13 ~~~C~~C~~~ 22 (134)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 3568888865
No 200
>PRK05978 hypothetical protein; Provisional
Probab=34.86 E-value=16 Score=22.44 Aligned_cols=30 Identities=17% Similarity=0.414 Sum_probs=16.6
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhc
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
..|+.|++.-.....|. ..-.|+.||..|.
T Consensus 34 grCP~CG~G~LF~g~Lk---------v~~~C~~CG~~~~ 63 (148)
T PRK05978 34 GRCPACGEGKLFRAFLK---------PVDHCAACGEDFT 63 (148)
T ss_pred CcCCCCCCCcccccccc---------cCCCccccCCccc
Confidence 36777776644433221 2245777776665
No 201
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.34 E-value=33 Score=23.51 Aligned_cols=10 Identities=20% Similarity=0.886 Sum_probs=4.6
Q ss_pred cccCccchhh
Q psy12639 71 YACNLCTVRY 80 (134)
Q Consensus 71 ~~C~~C~~~f 80 (134)
|.|+.|.-.|
T Consensus 256 yvCs~Clsi~ 265 (279)
T TIGR00627 256 FVCSVCLSVL 265 (279)
T ss_pred EECCCccCCc
Confidence 4444444444
No 202
>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 KOG2071|consensus
Probab=34.18 E-value=27 Score=26.46 Aligned_cols=28 Identities=25% Similarity=0.474 Sum_probs=22.6
Q ss_pred CCCCcccCccchhhcCHHHHHHHHHhhc
Q psy12639 67 GEKPYACNLCTVRYLRSYELVLHLKKCH 94 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 94 (134)
...+-.|..||..|........|+-.|-
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 4567899999999999988887776664
No 204
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=33.64 E-value=25 Score=20.15 Aligned_cols=13 Identities=31% Similarity=0.687 Sum_probs=8.1
Q ss_pred CceeCccchhhcc
Q psy12639 12 KPYACTECDQKFN 24 (134)
Q Consensus 12 ~~~~C~~C~~~f~ 24 (134)
||-.|+.||..-.
T Consensus 1 ~p~~CpYCg~~~~ 13 (102)
T PF11672_consen 1 KPIICPYCGGPAE 13 (102)
T ss_pred CCcccCCCCCeeE
Confidence 4567777775443
No 205
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=33.60 E-value=21 Score=17.84 Aligned_cols=20 Identities=20% Similarity=0.463 Sum_probs=15.7
Q ss_pred CceeCccchhhccChHHHHH
Q psy12639 12 KPYACTECDQKFNRNSKLKI 31 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~ 31 (134)
.-+-|-+||..|.+...|..
T Consensus 26 ~~~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 26 EHNYCFWCGTKYDDEEDLER 45 (55)
T ss_pred hCceeeeeCCccCCHHHHHh
Confidence 45679999999998877653
No 206
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=33.54 E-value=23 Score=16.22 Aligned_cols=18 Identities=17% Similarity=0.194 Sum_probs=9.8
Q ss_pred ceecCCCCCccCChhhHH
Q psy12639 42 MYECCHCARSFPCKSYLI 59 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~ 59 (134)
-..|+.|+..+.....|.
T Consensus 19 id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGELE 36 (41)
T ss_pred EEECCCCCeEEccHHHHH
Confidence 345666666655554443
No 207
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.40 E-value=53 Score=16.88 Aligned_cols=38 Identities=18% Similarity=0.300 Sum_probs=17.7
Q ss_pred ecCCCCCc-cCChhhHHhHHhhhcCCCCcccCccchhhc
Q psy12639 44 ECCHCARS-FPCKSYLIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 44 ~C~~C~~~-~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
.|.+|.+. +.....+..-.-.....+.|.|+.|.....
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~Rva 42 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRVA 42 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHhhhc
Confidence 45556543 223333333222233334577777765444
No 208
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=33.36 E-value=19 Score=21.57 Aligned_cols=15 Identities=40% Similarity=0.933 Sum_probs=9.7
Q ss_pred ceeCccchhhccChH
Q psy12639 13 PYACTECDQKFNRNS 27 (134)
Q Consensus 13 ~~~C~~C~~~f~~~~ 27 (134)
|+.|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 456777777776543
No 209
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=32.42 E-value=22 Score=21.25 Aligned_cols=36 Identities=22% Similarity=0.494 Sum_probs=21.4
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCH
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRS 83 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~ 83 (134)
-.|+.|+........ ..-.+...|.|+.|++.|...
T Consensus 31 ~~cP~C~s~~~~k~g-----~~~~~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 31 VNCPRCKSSNVVKIG-----GIRRGHQRYKCKSCGSTFTVE 66 (129)
T ss_pred CcCCCCCccceeeEC-----CccccccccccCCcCcceeee
Confidence 368888765411111 112235669999999988643
No 210
>KOG2747|consensus
Probab=32.20 E-value=35 Score=24.59 Aligned_cols=29 Identities=34% Similarity=0.624 Sum_probs=25.4
Q ss_pred CCCcccCccchhhcCHHHHHHHHHhhcCC
Q psy12639 68 EKPYACNLCTVRYLRSYELVLHLKKCHRE 96 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 96 (134)
...|.|..|-+.+.....|..|+..+...
T Consensus 156 ~~lYiCEfCLkY~~s~~~l~rH~~kC~~r 184 (396)
T KOG2747|consen 156 DKLYICEFCLKYMKSRTSLQRHLKKCKLR 184 (396)
T ss_pred CeEEEehHHHhHhchHHHHHHHHHhcCCC
Confidence 45689999999999999999999988654
No 211
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=32.18 E-value=17 Score=18.31 Aligned_cols=8 Identities=38% Similarity=1.153 Sum_probs=4.1
Q ss_pred cccCccch
Q psy12639 71 YACNLCTV 78 (134)
Q Consensus 71 ~~C~~C~~ 78 (134)
|.|+.|..
T Consensus 32 YmC~eC~~ 39 (56)
T PF09963_consen 32 YMCDECKE 39 (56)
T ss_pred eeChhHHH
Confidence 55555543
No 212
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=32.15 E-value=42 Score=14.83 Aligned_cols=21 Identities=24% Similarity=0.379 Sum_probs=8.4
Q ss_pred cccCccchhhcCHHHHHHHHHh
Q psy12639 71 YACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 71 ~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
+.|+.|++.... +-+..|+..
T Consensus 5 ~~C~nC~R~v~a-~RfA~HLek 25 (33)
T PF08209_consen 5 VECPNCGRPVAA-SRFAPHLEK 25 (33)
T ss_dssp EE-TTTSSEEEG-GGHHHHHHH
T ss_pred EECCCCcCCcch-hhhHHHHHH
Confidence 445555553332 233444443
No 213
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=32.04 E-value=26 Score=21.22 Aligned_cols=32 Identities=22% Similarity=0.585 Sum_probs=19.2
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhh
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRY 80 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f 80 (134)
.|.|..|+..+. .+ +.+.....|.|..|+-.+
T Consensus 112 ~y~C~~C~~~~~------~~-rr~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RV-RRSNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eE-ccccCcceEEcCCCCCEE
Confidence 578888887653 11 223222558888887654
No 214
>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=31.73 E-value=12 Score=16.86 Aligned_cols=7 Identities=43% Similarity=1.289 Sum_probs=3.0
Q ss_pred ceecCCC
Q psy12639 42 MYECCHC 48 (134)
Q Consensus 42 ~~~C~~C 48 (134)
.|.|..|
T Consensus 29 ryrC~~C 35 (36)
T PF03811_consen 29 RYRCKDC 35 (36)
T ss_pred eEecCcC
Confidence 3444443
No 215
>PLN02748 tRNA dimethylallyltransferase
Probab=31.02 E-value=37 Score=25.18 Aligned_cols=24 Identities=21% Similarity=0.299 Sum_probs=20.8
Q ss_pred CCCcccCccch-hhcCHHHHHHHHH
Q psy12639 68 EKPYACNLCTV-RYLRSYELVLHLK 91 (134)
Q Consensus 68 ~~~~~C~~C~~-~f~~~~~l~~H~~ 91 (134)
.+.|.|..|++ .+.....+..|++
T Consensus 416 ~~~~~Ce~C~~~~~~G~~eW~~Hlk 440 (468)
T PLN02748 416 WTQYVCEACGNKVLRGAHEWEQHKQ 440 (468)
T ss_pred cccccccCCCCcccCCHHHHHHHhc
Confidence 46689999997 8999999999986
No 216
>KOG4124|consensus
Probab=30.27 E-value=9.2 Score=26.91 Aligned_cols=69 Identities=33% Similarity=0.672 Sum_probs=39.0
Q ss_pred CCceeCcc--chhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHH
Q psy12639 11 AKPYACTE--CDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVL 88 (134)
Q Consensus 11 ~~~~~C~~--C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~ 88 (134)
.+++.|++ |.+.++....|..|-...|.. +.. -+ .+ .-..|.-.-...|+|.|++|.+.+.....|.-
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s--~i~---~~----s~-~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~ 416 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCS--PIT---TP----TP-APIPHQGFVVENKPYRCEVCSKRYKNLNGLKY 416 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCC--CCC---CC----CC-CCCCcceeeeccCcccChhhhhhhccCCCCCc
Confidence 46788876 999988888877776432211 100 00 00 11122222334578888888887776655544
Q ss_pred H
Q psy12639 89 H 89 (134)
Q Consensus 89 H 89 (134)
|
T Consensus 417 ~ 417 (442)
T KOG4124|consen 417 H 417 (442)
T ss_pred e
Confidence 4
No 217
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=29.66 E-value=20 Score=18.52 Aligned_cols=17 Identities=18% Similarity=0.546 Sum_probs=9.9
Q ss_pred ccCCCceeCccchhhcc
Q psy12639 8 HTGAKPYACTECDQKFN 24 (134)
Q Consensus 8 h~~~~~~~C~~C~~~f~ 24 (134)
+..+.-..|+.|++.|.
T Consensus 48 ~i~eg~L~Cp~c~r~YP 64 (68)
T PF03966_consen 48 EIVEGELICPECGREYP 64 (68)
T ss_dssp ETTTTEEEETTTTEEEE
T ss_pred cccCCEEEcCCCCCEEe
Confidence 34445566666666664
No 218
>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=29.47 E-value=12 Score=17.81 Aligned_cols=9 Identities=33% Similarity=0.925 Sum_probs=4.5
Q ss_pred Cccchhhcc
Q psy12639 16 CTECDQKFN 24 (134)
Q Consensus 16 C~~C~~~f~ 24 (134)
|+.||-...
T Consensus 2 CP~Cg~~a~ 10 (47)
T PF04606_consen 2 CPHCGSKAR 10 (47)
T ss_pred cCCCCCeeE
Confidence 555554433
No 219
>PTZ00448 hypothetical protein; Provisional
Probab=29.38 E-value=43 Score=23.95 Aligned_cols=24 Identities=13% Similarity=0.391 Sum_probs=21.1
Q ss_pred CcccCccchhhcCHHHHHHHHHhh
Q psy12639 70 PYACNLCTVRYLRSYELVLHLKKC 93 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~l~~H~~~~ 93 (134)
.|.|..|+-.|......+.|.+.-
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSD 337 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSE 337 (373)
T ss_pred CccccccccccCCHHHHHHHhhhh
Confidence 588999999999999999998863
No 220
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=29.10 E-value=17 Score=22.07 Aligned_cols=10 Identities=30% Similarity=0.770 Sum_probs=6.2
Q ss_pred cccCccchhh
Q psy12639 71 YACNLCTVRY 80 (134)
Q Consensus 71 ~~C~~C~~~f 80 (134)
|.|..|+..|
T Consensus 144 ~~C~~C~~~l 153 (157)
T PF10263_consen 144 YRCGRCGGPL 153 (157)
T ss_pred EECCCCCCEE
Confidence 6676666544
No 221
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=28.56 E-value=26 Score=20.04 Aligned_cols=14 Identities=21% Similarity=0.541 Sum_probs=9.8
Q ss_pred CcccCccchhhcCH
Q psy12639 70 PYACNLCTVRYLRS 83 (134)
Q Consensus 70 ~~~C~~C~~~f~~~ 83 (134)
|..|..||..|...
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 45677777777764
No 222
>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=28.23 E-value=29 Score=15.74 Aligned_cols=12 Identities=25% Similarity=0.747 Sum_probs=6.4
Q ss_pred CceeCccchhhc
Q psy12639 12 KPYACTECDQKF 23 (134)
Q Consensus 12 ~~~~C~~C~~~f 23 (134)
+.|.|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 458888888654
No 223
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=27.88 E-value=56 Score=15.98 Aligned_cols=9 Identities=22% Similarity=1.003 Sum_probs=3.9
Q ss_pred eecCCCCCc
Q psy12639 43 YECCHCARS 51 (134)
Q Consensus 43 ~~C~~C~~~ 51 (134)
+.|+.|+..
T Consensus 29 W~C~~Cgh~ 37 (55)
T PF14311_consen 29 WKCPKCGHE 37 (55)
T ss_pred EECCCCCCe
Confidence 344444433
No 224
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=27.82 E-value=8.7 Score=17.12 Aligned_cols=8 Identities=25% Similarity=0.604 Sum_probs=4.1
Q ss_pred eecCCCCC
Q psy12639 43 YECCHCAR 50 (134)
Q Consensus 43 ~~C~~C~~ 50 (134)
+.|+.|+.
T Consensus 23 ~vC~~Cg~ 30 (34)
T PF14803_consen 23 LVCPACGF 30 (34)
T ss_dssp EEETTTTE
T ss_pred eECCCCCC
Confidence 45555553
No 225
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=27.68 E-value=18 Score=22.37 Aligned_cols=20 Identities=25% Similarity=0.378 Sum_probs=15.1
Q ss_pred CCCCcccCccchhhcCHHHH
Q psy12639 67 GEKPYACNLCTVRYLRSYEL 86 (134)
Q Consensus 67 ~~~~~~C~~C~~~f~~~~~l 86 (134)
...|..|..||+.|.+...-
T Consensus 65 ~~~PsYC~~CGkpyPWt~~~ 84 (158)
T PF10083_consen 65 YEAPSYCHNCGKPYPWTENA 84 (158)
T ss_pred CCCChhHHhCCCCCchHHHH
Confidence 34677899999999887543
No 226
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=27.48 E-value=35 Score=23.38 Aligned_cols=16 Identities=19% Similarity=0.422 Sum_probs=10.4
Q ss_pred CCCcccCccchhhcCH
Q psy12639 68 EKPYACNLCTVRYLRS 83 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~ 83 (134)
.+.|.|+.||..+...
T Consensus 320 ~r~~~C~~cg~~~~rD 335 (364)
T COG0675 320 GRLFKCPRCGFVHDRD 335 (364)
T ss_pred ceeEECCCCCCeehhh
Confidence 4557888888654433
No 227
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=27.32 E-value=30 Score=22.93 Aligned_cols=16 Identities=44% Similarity=0.694 Sum_probs=12.3
Q ss_pred CCceeCccchhhccCh
Q psy12639 11 AKPYACTECDQKFNRN 26 (134)
Q Consensus 11 ~~~~~C~~C~~~f~~~ 26 (134)
.++.+|+.||..|...
T Consensus 179 GkpqRCpECGqVFKLV 194 (268)
T PTZ00043 179 GFLYRCGECDQIFMLV 194 (268)
T ss_pred CCCccCCCCCcEEEEE
Confidence 3578899999888763
No 228
>PRK04351 hypothetical protein; Provisional
Probab=27.13 E-value=37 Score=20.84 Aligned_cols=32 Identities=31% Similarity=0.722 Sum_probs=20.7
Q ss_pred ceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhc
Q psy12639 42 MYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 42 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~ 81 (134)
.|.|..|+..+... +.+ ....|.|..|+-.+.
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~yrCg~C~g~L~ 143 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKRYRCGKCRGKLK 143 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCcEEeCCCCcEee
Confidence 48898898765332 223 235689999986554
No 229
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=27.09 E-value=20 Score=21.71 Aligned_cols=19 Identities=26% Similarity=0.592 Sum_probs=13.6
Q ss_pred HhhhcCCCCcccCccchhhc
Q psy12639 62 LRVHTGEKPYACNLCTVRYL 81 (134)
Q Consensus 62 ~~~h~~~~~~~C~~C~~~f~ 81 (134)
+..+. .++..|+.||..|.
T Consensus 105 ~~l~~-g~~~RCpeCG~~fk 123 (136)
T PF01215_consen 105 FWLHK-GKPQRCPECGQVFK 123 (136)
T ss_dssp EEEET-TSEEEETTTEEEEE
T ss_pred EEEeC-CCccCCCCCCeEEE
Confidence 34444 45889999998874
No 230
>PLN03239 histone acetyltransferase; Provisional
Probab=26.73 E-value=66 Score=22.88 Aligned_cols=25 Identities=24% Similarity=0.368 Sum_probs=22.0
Q ss_pred CCCcccCccchhhcCHHHHHHHHHh
Q psy12639 68 EKPYACNLCTVRYLRSYELVLHLKK 92 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H~~~ 92 (134)
...|.|..|-+.|.+...+.+|+..
T Consensus 104 ~~lYiCE~Clky~~~~~~l~~H~~~ 128 (351)
T PLN03239 104 DVLYVCEFSFGFFARKSELLRFQAK 128 (351)
T ss_pred ceEEEeccchhhhcCHHHHHHHHHh
Confidence 4579999999999999999999864
No 231
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=26.27 E-value=26 Score=21.49 Aligned_cols=18 Identities=17% Similarity=0.316 Sum_probs=13.8
Q ss_pred CCcccCccchhhcCHHHH
Q psy12639 69 KPYACNLCTVRYLRSYEL 86 (134)
Q Consensus 69 ~~~~C~~C~~~f~~~~~l 86 (134)
+.-+|..|++.|++....
T Consensus 27 RRReC~~C~~RFTTyErv 44 (147)
T TIGR00244 27 RRRECLECHERFTTFERA 44 (147)
T ss_pred ecccCCccCCccceeeec
Confidence 346899999999987543
No 233
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=26.08 E-value=14 Score=16.56 Aligned_cols=10 Identities=20% Similarity=0.923 Sum_probs=3.8
Q ss_pred eecCCCCCcc
Q psy12639 43 YECCHCARSF 52 (134)
Q Consensus 43 ~~C~~C~~~~ 52 (134)
..|..||-.+
T Consensus 22 isC~~CGPr~ 31 (35)
T PF07503_consen 22 ISCTNCGPRY 31 (35)
T ss_dssp --BTTCC-SC
T ss_pred ccCCCCCCCE
Confidence 3456665443
No 234
>COG1773 Rubredoxin [Energy production and conversion]
Probab=26.06 E-value=29 Score=17.40 Aligned_cols=13 Identities=15% Similarity=0.726 Sum_probs=7.4
Q ss_pred ceeCccchhhccC
Q psy12639 13 PYACTECDQKFNR 25 (134)
Q Consensus 13 ~~~C~~C~~~f~~ 25 (134)
-|.|..||..|.-
T Consensus 3 ~~~C~~CG~vYd~ 15 (55)
T COG1773 3 RWRCSVCGYVYDP 15 (55)
T ss_pred ceEecCCceEecc
Confidence 3566666665543
No 235
>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=26.00 E-value=20 Score=21.91 Aligned_cols=11 Identities=18% Similarity=0.582 Sum_probs=7.6
Q ss_pred CceecCCCCCc
Q psy12639 41 EMYECCHCARS 51 (134)
Q Consensus 41 ~~~~C~~C~~~ 51 (134)
..|.|..||..
T Consensus 111 G~l~C~~Cg~~ 121 (146)
T PF07295_consen 111 GTLVCENCGHE 121 (146)
T ss_pred ceEecccCCCE
Confidence 35778888765
No 236
>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=25.73 E-value=26 Score=17.14 Aligned_cols=13 Identities=31% Similarity=0.853 Sum_probs=10.0
Q ss_pred cccCccchhhcCH
Q psy12639 71 YACNLCTVRYLRS 83 (134)
Q Consensus 71 ~~C~~C~~~f~~~ 83 (134)
|.|..||..|...
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 6788898877654
No 237
>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=25.37 E-value=39 Score=19.57 Aligned_cols=10 Identities=20% Similarity=0.594 Sum_probs=4.6
Q ss_pred eecCCCCCcc
Q psy12639 43 YECCHCARSF 52 (134)
Q Consensus 43 ~~C~~C~~~~ 52 (134)
|.|+.|+..+
T Consensus 20 ~iCpeC~~EW 29 (109)
T TIGR00686 20 LICPSCLYEW 29 (109)
T ss_pred eECccccccc
Confidence 4455554433
No 238
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=25.32 E-value=18 Score=16.36 Aligned_cols=14 Identities=21% Similarity=0.461 Sum_probs=7.4
Q ss_pred ccCccchhhcCHHH
Q psy12639 72 ACNLCTVRYLRSYE 85 (134)
Q Consensus 72 ~C~~C~~~f~~~~~ 85 (134)
.|+.|++.|-+.+.
T Consensus 4 ~CprC~kg~Hwa~~ 17 (36)
T PF14787_consen 4 LCPRCGKGFHWASE 17 (36)
T ss_dssp C-TTTSSSCS-TTT
T ss_pred cCcccCCCcchhhh
Confidence 46677776665544
No 239
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=25.28 E-value=27 Score=25.86 Aligned_cols=15 Identities=13% Similarity=0.394 Sum_probs=10.2
Q ss_pred CceecCCCCCccCCh
Q psy12639 41 EMYECCHCARSFPCK 55 (134)
Q Consensus 41 ~~~~C~~C~~~~~~~ 55 (134)
..|.|..|+..+...
T Consensus 424 ~~~~c~~c~~~yd~~ 438 (479)
T PRK05452 424 PRMQCSVCQWIYDPA 438 (479)
T ss_pred CeEEECCCCeEECCC
Confidence 457788888776543
No 240
>PF07911 DUF1677: Protein of unknown function (DUF1677); InterPro: IPR012876 The sequences found in this family are all derived from hypothetical plant proteins of unknown function. The region features a number of highly conserved cysteine residues.
Probab=25.24 E-value=1.4e+02 Score=16.79 Aligned_cols=65 Identities=11% Similarity=0.144 Sum_probs=35.5
Q ss_pred eeCccchhhccChHHHHHHHhccccCCCceecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHHHHHHHHHhh
Q psy12639 14 YACTECDQKFNRNSKLKIHYNLAHCTGEMYECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSYELVLHLKKC 93 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 93 (134)
..|.-||..=---..+...++..+.| .|.|..|....... +.. + +...+....|..|+..+
T Consensus 5 akCeCCG~~EECT~~YI~~VR~ry~G--rWvCGLC~EAVkeE------~~r--~---------~~~~~~eeAl~~Hm~fC 65 (91)
T PF07911_consen 5 AKCECCGLTEECTPEYIARVRERYGG--RWVCGLCSEAVKEE------VGR--S---------KPGISVEEALDRHMSFC 65 (91)
T ss_pred eeecCCCCchhccHHHHHHHHHHhCC--eehhhcCHHHHHHH------Hhc--c---------CCCCCHHHHHHHHHHHH
Confidence 35666765544445566666655555 35888887653221 111 1 11335556777888776
Q ss_pred cCCC
Q psy12639 94 HRED 97 (134)
Q Consensus 94 ~~~~ 97 (134)
..-+
T Consensus 66 ~~f~ 69 (91)
T PF07911_consen 66 RKFN 69 (91)
T ss_pred HHcC
Confidence 5433
No 241
>KOG2923|consensus
Probab=24.60 E-value=55 Score=16.96 Aligned_cols=13 Identities=31% Similarity=0.767 Sum_probs=7.9
Q ss_pred cCCCCcccCccch
Q psy12639 66 TGEKPYACNLCTV 78 (134)
Q Consensus 66 ~~~~~~~C~~C~~ 78 (134)
.|+..-.|+.|..
T Consensus 40 ~ge~Va~CpsCSL 52 (67)
T KOG2923|consen 40 NGEDVARCPSCSL 52 (67)
T ss_pred CCCeeecCCCceE
Confidence 4555566777653
No 242
>KOG3352|consensus
Probab=24.47 E-value=35 Score=21.02 Aligned_cols=14 Identities=14% Similarity=0.373 Sum_probs=10.6
Q ss_pred CCCcccCccchhhc
Q psy12639 68 EKPYACNLCTVRYL 81 (134)
Q Consensus 68 ~~~~~C~~C~~~f~ 81 (134)
.+...|++||..|.
T Consensus 131 ge~~rc~eCG~~fk 144 (153)
T KOG3352|consen 131 GETQRCPECGHYFK 144 (153)
T ss_pred CCcccCCcccceEE
Confidence 45577999998774
No 243
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=24.43 E-value=35 Score=17.12 Aligned_cols=12 Identities=17% Similarity=0.564 Sum_probs=7.8
Q ss_pred cccCccchhhcC
Q psy12639 71 YACNLCTVRYLR 82 (134)
Q Consensus 71 ~~C~~C~~~f~~ 82 (134)
--|+.|++.|..
T Consensus 40 ngCPfC~~~~~~ 51 (55)
T PF14447_consen 40 NGCPFCGTPFEF 51 (55)
T ss_pred cCCCCCCCcccC
Confidence 357777776654
No 244
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=24.29 E-value=30 Score=17.11 Aligned_cols=10 Identities=20% Similarity=0.484 Sum_probs=5.9
Q ss_pred ccCccchhhc
Q psy12639 72 ACNLCTVRYL 81 (134)
Q Consensus 72 ~C~~C~~~f~ 81 (134)
.||.||..+.
T Consensus 2 ~CPyCge~~~ 11 (52)
T PF14255_consen 2 QCPYCGEPIE 11 (52)
T ss_pred CCCCCCCeeE
Confidence 4666765543
No 245
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=24.18 E-value=64 Score=13.79 Aligned_cols=16 Identities=19% Similarity=0.698 Sum_probs=8.4
Q ss_pred CceeCccchhhccChH
Q psy12639 12 KPYACTECDQKFNRNS 27 (134)
Q Consensus 12 ~~~~C~~C~~~f~~~~ 27 (134)
..|.|+.|+..+-+..
T Consensus 12 ~kY~Cp~C~~~~CSl~ 27 (30)
T PF04438_consen 12 AKYRCPRCGARYCSLA 27 (30)
T ss_dssp ESEE-TTT--EESSHH
T ss_pred CEEECCCcCCceeCcE
Confidence 4578888887766543
No 246
>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=23.54 E-value=27 Score=22.58 Aligned_cols=26 Identities=23% Similarity=0.469 Sum_probs=0.0
Q ss_pred hcCCCCcccCccch-hhcCHHHHHHHH
Q psy12639 65 HTGEKPYACNLCTV-RYLRSYELVLHL 90 (134)
Q Consensus 65 h~~~~~~~C~~C~~-~f~~~~~l~~H~ 90 (134)
|--.+-|.|.+||- .|--+..+.+|-
T Consensus 96 hGL~~ey~CEICGN~~Y~GrkaFekHF 122 (196)
T PF11931_consen 96 HGLGVEYKCEICGNQSYKGRKAFEKHF 122 (196)
T ss_dssp ---------------------------
T ss_pred hCCCCeeeeEeCCCcceecHHHHHHhc
Confidence 33345577777763 444455555553
No 247
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=23.33 E-value=40 Score=23.36 Aligned_cols=33 Identities=21% Similarity=0.219 Sum_probs=18.7
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcCHH
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLRSY 84 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~~~ 84 (134)
..|+.|+...-.+. .....+.|+.|+.-|.-.+
T Consensus 39 ~kc~~C~~~~~~~~---------l~~~~~vcp~c~~h~rltA 71 (296)
T CHL00174 39 VQCENCYGLNYKKF---------LKSKMNICEQCGYHLKMSS 71 (296)
T ss_pred eECCCccchhhHHH---------HHHcCCCCCCCCCCcCCCH
Confidence 35777776532211 2233478888888776443
No 248
>PRK12722 transcriptional activator FlhC; Provisional
Probab=23.13 E-value=62 Score=20.79 Aligned_cols=10 Identities=30% Similarity=0.820 Sum_probs=5.6
Q ss_pred ecCCCCCccC
Q psy12639 44 ECCHCARSFP 53 (134)
Q Consensus 44 ~C~~C~~~~~ 53 (134)
.|..|+..|.
T Consensus 136 ~C~~Cgg~fv 145 (187)
T PRK12722 136 SCNCCGGHFV 145 (187)
T ss_pred cCCCCCCCee
Confidence 4666665554
No 249
>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=22.78 E-value=25 Score=15.70 Aligned_cols=12 Identities=25% Similarity=0.780 Sum_probs=4.8
Q ss_pred ccCccchhhcCH
Q psy12639 72 ACNLCTVRYLRS 83 (134)
Q Consensus 72 ~C~~C~~~f~~~ 83 (134)
.|..|++.|..+
T Consensus 5 ~C~eC~~~f~dS 16 (34)
T PF01286_consen 5 KCDECGKPFMDS 16 (34)
T ss_dssp E-TTT--EES-S
T ss_pred hHhHhCCHHHHH
Confidence 466677666543
No 250
>KOG1994|consensus
Probab=22.67 E-value=47 Score=22.07 Aligned_cols=24 Identities=25% Similarity=0.478 Sum_probs=20.2
Q ss_pred CCceecCCCCCccCChhhHHhHHh
Q psy12639 40 GEMYECCHCARSFPCKSYLIPHLR 63 (134)
Q Consensus 40 ~~~~~C~~C~~~~~~~~~l~~h~~ 63 (134)
...|-|-+||..|.+...|..|..
T Consensus 237 ~eh~YC~fCG~~y~~~edl~ehCP 260 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKDEEDLYEHCP 260 (268)
T ss_pred ccceEEEEeccccCCHHHHHHhCC
Confidence 346889999999999999988854
No 251
>PRK01343 zinc-binding protein; Provisional
Probab=22.62 E-value=41 Score=17.02 Aligned_cols=12 Identities=17% Similarity=0.307 Sum_probs=9.0
Q ss_pred CcccCccchhhc
Q psy12639 70 PYACNLCTVRYL 81 (134)
Q Consensus 70 ~~~C~~C~~~f~ 81 (134)
...|+.|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 456888888775
No 252
>KOG2071|consensus
Probab=22.54 E-value=62 Score=24.68 Aligned_cols=27 Identities=19% Similarity=0.557 Sum_probs=21.8
Q ss_pred cCCCceeCccchhhccChHHHHHHHhc
Q psy12639 9 TGAKPYACTECDQKFNRNSKLKIHYNL 35 (134)
Q Consensus 9 ~~~~~~~C~~C~~~f~~~~~l~~h~~~ 35 (134)
....|..|..||..|........||..
T Consensus 414 y~~~pnqC~~CG~R~~~~ee~sk~md~ 440 (579)
T KOG2071|consen 414 YKDSPNQCKSCGLRFDDSEERSKHMDI 440 (579)
T ss_pred ccCCcchhcccccccccchhhhhHhhh
Confidence 345678999999999998887777764
No 253
>PRK12860 transcriptional activator FlhC; Provisional
Probab=22.49 E-value=65 Score=20.76 Aligned_cols=10 Identities=40% Similarity=1.341 Sum_probs=5.4
Q ss_pred ecCCCCCccC
Q psy12639 44 ECCHCARSFP 53 (134)
Q Consensus 44 ~C~~C~~~~~ 53 (134)
.|..|+..|.
T Consensus 136 ~C~~Cgg~fv 145 (189)
T PRK12860 136 RCCRCGGKFV 145 (189)
T ss_pred cCCCCCCCee
Confidence 4555655553
No 254
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.30 E-value=80 Score=21.18 Aligned_cols=36 Identities=17% Similarity=0.375 Sum_probs=21.1
Q ss_pred eecCCCCCccCChhhHHhHHhhhcCCCCcccCccchhhcC
Q psy12639 43 YECCHCARSFPCKSYLIPHLRVHTGEKPYACNLCTVRYLR 82 (134)
Q Consensus 43 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~C~~C~~~f~~ 82 (134)
-.|..|.-.... ....-++. +.....||.||+..-.
T Consensus 198 ~~C~GC~m~l~~--~~~~~V~~--~d~iv~CP~CgRILy~ 233 (239)
T COG1579 198 RVCGGCHMKLPS--QTLSKVRK--KDEIVFCPYCGRILYY 233 (239)
T ss_pred CcccCCeeeecH--HHHHHHhc--CCCCccCCccchHHHh
Confidence 457777655433 23333333 5566789999986543
No 255
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=22.28 E-value=34 Score=19.47 Aligned_cols=7 Identities=43% Similarity=1.412 Sum_probs=3.5
Q ss_pred eecCCCC
Q psy12639 43 YECCHCA 49 (134)
Q Consensus 43 ~~C~~C~ 49 (134)
|.|+.|+
T Consensus 22 f~CP~Cg 28 (99)
T PRK14892 22 FECPRCG 28 (99)
T ss_pred eECCCCC
Confidence 4455554
No 256
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.24 E-value=32 Score=17.65 Aligned_cols=11 Identities=36% Similarity=0.996 Sum_probs=7.2
Q ss_pred cccCccchhhc
Q psy12639 71 YACNLCTVRYL 81 (134)
Q Consensus 71 ~~C~~C~~~f~ 81 (134)
..|+.|+..|.
T Consensus 49 v~CPYC~t~y~ 59 (62)
T COG4391 49 VVCPYCSTRYR 59 (62)
T ss_pred EecCccccEEE
Confidence 46777776664
No 257
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=22.16 E-value=43 Score=23.02 Aligned_cols=14 Identities=14% Similarity=0.242 Sum_probs=9.2
Q ss_pred CcccCccchhhcCH
Q psy12639 70 PYACNLCTVRYLRS 83 (134)
Q Consensus 70 ~~~C~~C~~~f~~~ 83 (134)
.+.|+.|+.-|.-.
T Consensus 45 ~~vc~~c~~h~rl~ 58 (285)
T TIGR00515 45 LEVCPKCDHHMRMD 58 (285)
T ss_pred CCCCCCCCCcCcCC
Confidence 36777887766544
No 258
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=21.77 E-value=34 Score=15.05 Aligned_cols=10 Identities=20% Similarity=0.747 Sum_probs=4.4
Q ss_pred cccCccchhh
Q psy12639 71 YACNLCTVRY 80 (134)
Q Consensus 71 ~~C~~C~~~f 80 (134)
+.|..|+..|
T Consensus 22 ~~C~~Cg~~~ 31 (33)
T PF08792_consen 22 EVCIFCGSSF 31 (33)
T ss_pred EEcccCCcEe
Confidence 3444444433
No 259
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=21.74 E-value=46 Score=16.12 Aligned_cols=8 Identities=25% Similarity=1.140 Sum_probs=2.7
Q ss_pred cccCccch
Q psy12639 71 YACNLCTV 78 (134)
Q Consensus 71 ~~C~~C~~ 78 (134)
|.|+.|++
T Consensus 42 W~CPiC~~ 49 (50)
T PF02891_consen 42 WKCPICNK 49 (50)
T ss_dssp -B-TTT--
T ss_pred eECcCCcC
Confidence 66666654
No 260
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=21.68 E-value=36 Score=21.02 Aligned_cols=16 Identities=19% Similarity=0.308 Sum_probs=13.0
Q ss_pred CcccCccchhhcCHHH
Q psy12639 70 PYACNLCTVRYLRSYE 85 (134)
Q Consensus 70 ~~~C~~C~~~f~~~~~ 85 (134)
.-.|+.|+..|++...
T Consensus 28 RReC~~C~~RFTTfE~ 43 (156)
T COG1327 28 RRECLECGERFTTFER 43 (156)
T ss_pred hhcccccccccchhhe
Confidence 4689999999998744
No 261
>PF14369 zf-RING_3: zinc-finger
Probab=21.47 E-value=32 Score=15.33 Aligned_cols=10 Identities=30% Similarity=0.810 Sum_probs=6.9
Q ss_pred ecCCCCCccC
Q psy12639 44 ECCHCARSFP 53 (134)
Q Consensus 44 ~C~~C~~~~~ 53 (134)
.|+.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 4777777664
No 262
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=21.36 E-value=26 Score=22.61 Aligned_cols=35 Identities=20% Similarity=0.330 Sum_probs=19.5
Q ss_pred eeCccchhhccChHHHHHHHhc---cccCC---CceecCCCCCccCC
Q psy12639 14 YACTECDQKFNRNSKLKIHYNL---AHCTG---EMYECCHCARSFPC 54 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~h~~~---~h~~~---~~~~C~~C~~~~~~ 54 (134)
..||.||..+ ..|+.. -|.|. ....|..||+.+..
T Consensus 15 ~~CPvCg~~l------~~~~~~~~IPyFG~V~i~t~~C~~CgYR~~D 55 (201)
T COG1779 15 IDCPVCGGTL------KAHMYLYDIPYFGEVLISTGVCERCGYRSTD 55 (201)
T ss_pred ecCCccccee------eEEEeeecCCccceEEEEEEEccccCCcccc
Confidence 5788888643 333322 12232 23578888877653
No 263
>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=21.03 E-value=44 Score=15.25 Aligned_cols=14 Identities=14% Similarity=0.446 Sum_probs=9.6
Q ss_pred CceecCCCCCccCC
Q psy12639 41 EMYECCHCARSFPC 54 (134)
Q Consensus 41 ~~~~C~~C~~~~~~ 54 (134)
..+.|+.||..+.+
T Consensus 31 p~~~C~~CGE~~~~ 44 (46)
T TIGR03831 31 PALVCPQCGEEYLD 44 (46)
T ss_pred CccccccCCCEeeC
Confidence 34678888877643
No 264
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=20.97 E-value=45 Score=15.48 Aligned_cols=8 Identities=38% Similarity=1.144 Sum_probs=4.8
Q ss_pred ceeCccch
Q psy12639 13 PYACTECD 20 (134)
Q Consensus 13 ~~~C~~C~ 20 (134)
|..|+.||
T Consensus 2 ~~~Cp~Cg 9 (47)
T PF14690_consen 2 PPRCPHCG 9 (47)
T ss_pred CccCCCcC
Confidence 44566666
No 265
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=20.51 E-value=31 Score=19.47 Aligned_cols=13 Identities=23% Similarity=0.713 Sum_probs=3.7
Q ss_pred CceeCccchhhcc
Q psy12639 12 KPYACTECDQKFN 24 (134)
Q Consensus 12 ~~~~C~~C~~~f~ 24 (134)
+.-.|..||.++.
T Consensus 13 ke~~CalCG~tWg 25 (105)
T PF11494_consen 13 KEMGCALCGATWG 25 (105)
T ss_dssp GGGS-SS---S--
T ss_pred ccccccccCCcHH
Confidence 4445666665554
No 266
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=20.38 E-value=71 Score=20.21 Aligned_cols=22 Identities=14% Similarity=0.258 Sum_probs=16.7
Q ss_pred CCCcccCccchhhcCHHHHHHH
Q psy12639 68 EKPYACNLCTVRYLRSYELVLH 89 (134)
Q Consensus 68 ~~~~~C~~C~~~f~~~~~l~~H 89 (134)
.....|..||+.|.....+..=
T Consensus 112 ~~~~~C~~Cg~~f~~~k~i~~~ 133 (181)
T PRK08222 112 FHLQRCSRCERPFAPQKTVALA 133 (181)
T ss_pred cccCcCcccCCccCcHhHHHHH
Confidence 3568899999999977665443
No 267
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=20.37 E-value=89 Score=18.96 Aligned_cols=46 Identities=17% Similarity=0.344 Sum_probs=25.5
Q ss_pred eeCccchhhccChHHHHH--HHh--ccccCCCceecCCCCCccCChhhHH
Q psy12639 14 YACTECDQKFNRNSKLKI--HYN--LAHCTGEMYECCHCARSFPCKSYLI 59 (134)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~--h~~--~~h~~~~~~~C~~C~~~~~~~~~l~ 59 (134)
-.|..|+..+.....-.. -+. +.-....-+.|+.|++.|..-+.+.
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~~ 141 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHWR 141 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEecccccHH
Confidence 579999876544322110 000 0011223578999999998766554
No 268
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=20.20 E-value=88 Score=15.65 Aligned_cols=13 Identities=15% Similarity=0.345 Sum_probs=5.0
Q ss_pred ceecCCCCCccCC
Q psy12639 42 MYECCHCARSFPC 54 (134)
Q Consensus 42 ~~~C~~C~~~~~~ 54 (134)
|.....|+-.|..
T Consensus 24 PV~s~~C~H~fek 36 (57)
T PF11789_consen 24 PVKSKKCGHTFEK 36 (57)
T ss_dssp EEEESSS--EEEH
T ss_pred CcCcCCCCCeecH
Confidence 3444455555533
No 269
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.06 E-value=42 Score=20.01 Aligned_cols=15 Identities=27% Similarity=0.651 Sum_probs=8.4
Q ss_pred CCcccCccchhhcCH
Q psy12639 69 KPYACNLCTVRYLRS 83 (134)
Q Consensus 69 ~~~~C~~C~~~f~~~ 83 (134)
.|--|.-||+.|.+.
T Consensus 67 ~psfchncgs~fpwt 81 (160)
T COG4306 67 PPSFCHNCGSRFPWT 81 (160)
T ss_pred CcchhhcCCCCCCcH
Confidence 344555666666554
Done!