Query psy8183
Match_columns 223
No_of_seqs 294 out of 1908
Neff 9.5
Searched_HMMs 46136
Date Fri Aug 16 20:42:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8183.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8183hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 2.2E-24 4.7E-29 167.5 3.7 116 2-124 139-257 (279)
2 KOG2462|consensus 99.9 1.6E-23 3.5E-28 162.6 4.4 97 1-104 169-265 (279)
3 KOG3576|consensus 99.7 2E-18 4.4E-23 128.3 2.6 80 20-104 116-195 (267)
4 KOG3576|consensus 99.7 1.2E-17 2.6E-22 124.2 1.2 107 1-109 125-239 (267)
5 KOG1074|consensus 99.6 6.1E-17 1.3E-21 141.8 3.0 68 51-121 605-679 (958)
6 KOG1074|consensus 99.6 1E-16 2.2E-21 140.4 3.7 71 3-75 615-692 (958)
7 KOG3623|consensus 99.5 3.2E-15 7E-20 129.4 1.9 83 17-104 890-972 (1007)
8 KOG3608|consensus 99.5 1.4E-14 3.1E-19 116.2 4.9 115 2-121 188-332 (467)
9 KOG3623|consensus 99.5 5E-14 1.1E-18 122.1 6.3 98 22-121 211-320 (1007)
10 KOG3608|consensus 99.5 7.4E-14 1.6E-18 112.1 5.4 114 1-122 245-364 (467)
11 PHA00733 hypothetical protein 99.2 9.4E-12 2E-16 89.0 5.0 84 17-107 36-124 (128)
12 PHA02768 hypothetical protein; 99.0 1.9E-10 4E-15 68.6 1.7 42 22-67 6-47 (55)
13 PLN03086 PRLI-interacting fact 99.0 8.3E-10 1.8E-14 96.1 6.2 92 19-121 451-552 (567)
14 PHA02768 hypothetical protein; 99.0 3.2E-10 6.8E-15 67.6 2.3 44 51-99 5-48 (55)
15 PHA00733 hypothetical protein 99.0 1.1E-09 2.4E-14 78.3 5.2 63 9-76 62-124 (128)
16 PLN03086 PRLI-interacting fact 98.9 5.6E-09 1.2E-13 91.0 7.5 93 2-106 462-564 (567)
17 PF13465 zf-H2C2_2: Zinc-finge 98.8 5.7E-09 1.2E-13 53.2 2.3 24 9-34 2-25 (26)
18 KOG3993|consensus 98.7 4.5E-09 9.8E-14 86.7 1.5 86 22-109 268-383 (500)
19 PF13465 zf-H2C2_2: Zinc-finge 98.7 1E-08 2.3E-13 52.2 2.3 26 38-63 1-26 (26)
20 COG5189 SFP1 Putative transcri 98.5 3.2E-08 6.9E-13 79.0 1.3 74 18-104 346-420 (423)
21 PHA00732 hypothetical protein 98.4 2.1E-07 4.5E-12 60.7 2.7 48 21-76 1-49 (79)
22 PHA00616 hypothetical protein 98.4 1.7E-07 3.6E-12 53.3 1.7 35 21-57 1-35 (44)
23 PHA00732 hypothetical protein 98.3 6.5E-07 1.4E-11 58.3 3.0 48 51-106 1-48 (79)
24 PF05605 zf-Di19: Drought indu 98.2 1.6E-06 3.6E-11 52.4 4.1 48 22-74 3-52 (54)
25 PHA00616 hypothetical protein 98.2 4.1E-07 8.8E-12 51.7 1.1 33 51-86 1-33 (44)
26 KOG3993|consensus 98.0 1.6E-06 3.5E-11 71.9 1.5 72 3-76 277-381 (500)
27 PF05605 zf-Di19: Drought indu 98.0 9.5E-06 2.1E-10 49.0 4.2 52 51-106 2-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 98.0 3.3E-06 7.1E-11 41.5 1.5 23 83-105 1-23 (23)
29 COG5189 SFP1 Putative transcri 98.0 1.9E-06 4.1E-11 69.1 0.6 25 106-130 394-418 (423)
30 PF00096 zf-C2H2: Zinc finger, 97.9 1.1E-05 2.4E-10 39.6 2.4 23 22-46 1-23 (23)
31 PF13894 zf-C2H2_4: C2H2-type 97.7 2.3E-05 4.9E-10 38.6 2.0 23 83-105 1-23 (24)
32 PF12756 zf-C2H2_2: C2H2 type 97.6 5.3E-05 1.1E-09 51.5 2.6 74 23-106 1-74 (100)
33 PF13894 zf-C2H2_4: C2H2-type 97.5 0.00011 2.3E-09 36.1 2.6 23 22-46 1-23 (24)
34 PF13912 zf-C2H2_6: C2H2-type 97.5 4.6E-05 9.9E-10 38.9 1.1 25 82-106 1-25 (27)
35 PF13912 zf-C2H2_6: C2H2-type 97.4 0.00014 3E-09 37.1 1.9 25 21-47 1-25 (27)
36 smart00355 ZnF_C2H2 zinc finge 97.1 0.00056 1.2E-08 34.0 2.5 23 83-105 1-23 (26)
37 PF09237 GAGA: GAGA factor; I 96.7 0.00088 1.9E-08 39.0 1.5 29 19-49 22-50 (54)
38 smart00355 ZnF_C2H2 zinc finge 96.7 0.0016 3.4E-08 32.2 2.3 23 22-46 1-23 (26)
39 PF09237 GAGA: GAGA factor; I 96.6 0.0017 3.6E-08 37.9 2.3 27 81-107 23-49 (54)
40 PF12874 zf-met: Zinc-finger o 96.5 0.0012 2.7E-08 32.8 1.2 22 83-104 1-22 (25)
41 PF13909 zf-H2C2_5: C2H2-type 96.5 0.0022 4.8E-08 31.5 2.0 23 83-106 1-23 (24)
42 PRK04860 hypothetical protein; 96.5 0.0012 2.6E-08 49.0 1.4 35 52-93 120-154 (160)
43 PRK04860 hypothetical protein; 96.3 0.0025 5.3E-08 47.4 1.9 39 21-65 119-157 (160)
44 PF13909 zf-H2C2_5: C2H2-type 96.0 0.0063 1.4E-07 29.9 2.0 22 22-46 1-22 (24)
45 PF12171 zf-C2H2_jaz: Zinc-fin 95.9 0.0024 5.1E-08 32.5 0.3 22 83-104 2-23 (27)
46 KOG1146|consensus 95.9 0.0043 9.3E-08 59.0 2.1 57 15-73 459-540 (1406)
47 PF12874 zf-met: Zinc-finger o 95.9 0.0059 1.3E-07 30.2 1.7 21 22-44 1-21 (25)
48 PF12171 zf-C2H2_jaz: Zinc-fin 95.9 0.0042 9.1E-08 31.5 1.1 22 52-73 2-23 (27)
49 PF13913 zf-C2HC_2: zinc-finge 95.4 0.014 3E-07 29.1 2.0 21 83-104 3-23 (25)
50 KOG1146|consensus 95.1 0.0072 1.6E-07 57.5 0.7 76 29-104 442-540 (1406)
51 KOG2893|consensus 95.0 0.006 1.3E-07 47.5 -0.1 41 24-70 13-53 (341)
52 COG5048 FOG: Zn-finger [Genera 94.7 0.006 1.3E-07 52.1 -1.1 47 29-75 295-347 (467)
53 KOG2231|consensus 94.3 0.077 1.7E-06 47.8 5.0 88 3-103 160-260 (669)
54 KOG4173|consensus 94.3 0.018 3.9E-07 43.8 0.8 83 19-104 77-168 (253)
55 PF12756 zf-C2H2_2: C2H2 type 94.1 0.035 7.6E-07 37.3 2.0 67 2-75 8-74 (100)
56 smart00451 ZnF_U1 U1-like zinc 93.8 0.051 1.1E-06 29.1 1.9 23 82-104 3-25 (35)
57 KOG2231|consensus 93.8 0.092 2E-06 47.4 4.5 92 3-106 124-236 (669)
58 COG5048 FOG: Zn-finger [Genera 93.7 0.018 3.9E-07 49.1 -0.1 68 50-118 288-359 (467)
59 KOG2482|consensus 93.1 0.084 1.8E-06 43.4 2.9 23 21-45 195-217 (423)
60 COG5236 Uncharacterized conser 92.1 0.22 4.7E-06 41.2 4.0 14 91-104 290-303 (493)
61 cd00350 rubredoxin_like Rubred 92.1 0.078 1.7E-06 28.3 1.0 9 52-60 2-10 (33)
62 KOG2186|consensus 91.7 0.076 1.7E-06 41.8 1.0 51 52-108 4-54 (276)
63 PF09538 FYDLN_acid: Protein o 91.7 0.14 3E-06 35.5 2.2 30 52-95 10-39 (108)
64 smart00451 ZnF_U1 U1-like zinc 91.6 0.17 3.6E-06 27.0 2.0 22 21-44 3-24 (35)
65 PF09986 DUF2225: Uncharacteri 91.4 0.064 1.4E-06 42.0 0.3 13 83-95 49-61 (214)
66 KOG4124|consensus 90.1 0.049 1.1E-06 44.9 -1.4 73 19-103 347-419 (442)
67 PF12013 DUF3505: Protein of u 88.1 0.85 1.8E-05 31.5 3.8 27 81-107 79-109 (109)
68 PF09538 FYDLN_acid: Protein o 87.8 0.43 9.3E-06 33.0 2.1 33 18-64 7-39 (108)
69 KOG2893|consensus 87.3 0.21 4.6E-06 39.1 0.4 50 49-106 9-59 (341)
70 cd00729 rubredoxin_SM Rubredox 85.8 0.41 8.8E-06 25.7 0.9 9 52-60 3-11 (34)
71 PRK00464 nrdR transcriptional 85.5 0.26 5.7E-06 36.4 0.1 12 83-94 29-40 (154)
72 COG4049 Uncharacterized protei 84.6 0.48 1.1E-05 28.2 0.9 28 16-45 12-39 (65)
73 COG4049 Uncharacterized protei 83.7 0.45 9.7E-06 28.4 0.5 29 48-76 14-42 (65)
74 TIGR02300 FYDLN_acid conserved 83.1 0.91 2E-05 32.1 1.9 33 52-98 10-42 (129)
75 COG1592 Rubrerythrin [Energy p 83.0 0.74 1.6E-05 34.4 1.5 23 51-89 134-156 (166)
76 PF13717 zinc_ribbon_4: zinc-r 82.3 1.2 2.5E-05 24.2 1.8 14 53-66 4-17 (36)
77 KOG4124|consensus 82.2 0.31 6.8E-06 40.3 -0.7 45 81-125 348-413 (442)
78 COG2888 Predicted Zn-ribbon RN 82.2 1.2 2.5E-05 27.0 1.8 32 51-90 27-58 (61)
79 PHA00626 hypothetical protein 82.1 0.69 1.5E-05 27.6 0.9 14 81-94 22-35 (59)
80 TIGR00373 conserved hypothetic 82.0 1.9 4.1E-05 32.0 3.4 19 19-39 107-125 (158)
81 smart00614 ZnF_BED BED zinc fi 81.3 1.1 2.4E-05 26.2 1.6 21 83-103 19-44 (50)
82 TIGR00373 conserved hypothetic 81.0 1.5 3.1E-05 32.7 2.5 32 48-91 106-137 (158)
83 PF12013 DUF3505: Protein of u 80.8 3.2 6.9E-05 28.6 4.1 56 18-76 8-109 (109)
84 COG5236 Uncharacterized conser 80.8 8.8 0.00019 32.1 7.0 74 19-104 189-273 (493)
85 KOG2482|consensus 80.5 3.6 7.8E-05 34.2 4.7 24 81-104 194-217 (423)
86 PRK06266 transcription initiat 80.0 1.5 3.3E-05 33.2 2.4 30 50-91 116-145 (178)
87 COG1997 RPL43A Ribosomal prote 79.6 0.89 1.9E-05 29.8 0.8 12 82-93 53-64 (89)
88 smart00531 TFIIE Transcription 78.4 2.6 5.6E-05 30.9 3.1 37 49-92 97-133 (147)
89 TIGR02098 MJ0042_CXXC MJ0042 f 77.7 1.5 3.3E-05 23.8 1.4 10 52-61 26-35 (38)
90 PRK06266 transcription initiat 76.9 2.6 5.6E-05 32.0 2.8 36 17-63 113-148 (178)
91 PF09986 DUF2225: Uncharacteri 75.6 0.51 1.1E-05 37.0 -1.4 44 19-64 3-61 (214)
92 KOG2785|consensus 75.3 2.9 6.3E-05 35.2 2.9 53 52-104 167-242 (390)
93 KOG2186|consensus 75.1 2 4.4E-05 34.1 1.8 47 22-73 4-50 (276)
94 PF13719 zinc_ribbon_5: zinc-r 74.9 2.2 4.8E-05 23.2 1.5 11 51-61 25-35 (37)
95 smart00734 ZnF_Rad18 Rad18-lik 74.6 3.1 6.7E-05 20.7 1.8 20 84-104 3-22 (26)
96 PF05443 ROS_MUCR: ROS/MUCR tr 74.3 1.8 3.8E-05 31.1 1.2 25 81-108 71-95 (132)
97 smart00531 TFIIE Transcription 73.8 5.5 0.00012 29.1 3.8 41 17-63 95-135 (147)
98 PRK09678 DNA-binding transcrip 73.4 1.4 3.1E-05 28.0 0.5 41 52-97 2-44 (72)
99 TIGR00622 ssl1 transcription f 72.3 5.2 0.00011 27.8 3.1 81 19-106 13-105 (112)
100 TIGR02605 CxxC_CxxC_SSSS putat 70.6 1.2 2.7E-05 26.1 -0.2 12 22-35 6-17 (52)
101 TIGR02300 FYDLN_acid conserved 70.3 3.4 7.4E-05 29.3 1.9 33 22-67 10-42 (129)
102 PRK14890 putative Zn-ribbon RN 69.4 3.7 8E-05 24.9 1.6 32 51-90 25-56 (59)
103 KOG2593|consensus 67.7 6.5 0.00014 33.8 3.3 37 48-90 125-161 (436)
104 PRK00398 rpoP DNA-directed RNA 66.7 3.1 6.8E-05 23.7 1.0 29 21-61 3-31 (46)
105 smart00834 CxxC_CXXC_SSSS Puta 66.3 1.6 3.5E-05 24.0 -0.3 11 22-34 6-16 (41)
106 KOG2785|consensus 65.9 7.2 0.00016 32.9 3.2 53 20-74 165-243 (390)
107 PF04959 ARS2: Arsenite-resist 65.1 3 6.5E-05 32.6 0.9 21 83-103 78-98 (214)
108 smart00659 RPOLCX RNA polymera 65.0 4.9 0.00011 22.9 1.5 8 52-59 20-27 (44)
109 PF02892 zf-BED: BED zinc fing 64.6 6.8 0.00015 22.0 2.1 25 18-44 13-41 (45)
110 KOG4167|consensus 64.4 1.9 4E-05 39.4 -0.4 25 21-47 792-816 (907)
111 PF04959 ARS2: Arsenite-resist 62.8 3.8 8.3E-05 32.0 1.1 29 49-77 75-103 (214)
112 KOG2071|consensus 62.8 6.9 0.00015 35.0 2.7 28 18-47 415-442 (579)
113 PF14353 CpXC: CpXC protein 61.8 7.2 0.00016 27.6 2.3 16 52-67 39-54 (128)
114 PF15135 UPF0515: Uncharacteri 61.2 12 0.00025 29.9 3.4 71 6-94 92-167 (278)
115 PF09723 Zn-ribbon_8: Zinc rib 60.3 3.1 6.8E-05 23.3 0.2 12 22-35 6-17 (42)
116 PF05191 ADK_lid: Adenylate ki 60.1 2.7 5.8E-05 22.8 -0.1 8 53-60 23-30 (36)
117 PF13878 zf-C2H2_3: zinc-finge 59.3 11 0.00024 21.0 2.3 25 82-106 13-39 (41)
118 KOG2593|consensus 58.4 11 0.00023 32.6 3.0 40 17-61 124-163 (436)
119 PF05443 ROS_MUCR: ROS/MUCR tr 58.0 7.2 0.00016 28.0 1.7 26 20-50 71-96 (132)
120 KOG4173|consensus 57.7 5.5 0.00012 30.7 1.1 52 22-75 107-170 (253)
121 PF12760 Zn_Tnp_IS1595: Transp 56.2 18 0.00038 20.6 2.9 10 81-90 36-45 (46)
122 COG4530 Uncharacterized protei 54.8 6.7 0.00015 27.0 1.0 12 81-92 25-36 (129)
123 PF10571 UPF0547: Uncharacteri 54.7 7.1 0.00015 19.5 0.9 8 85-92 17-24 (26)
124 COG1996 RPC10 DNA-directed RNA 54.6 7.8 0.00017 22.6 1.2 11 21-33 6-16 (49)
125 TIGR00244 transcriptional regu 54.1 4.6 0.0001 29.4 0.2 16 52-67 29-44 (147)
126 PF02176 zf-TRAF: TRAF-type zi 53.7 9 0.00019 22.9 1.4 20 37-56 24-43 (60)
127 COG1655 Uncharacterized protei 53.7 3 6.5E-05 32.7 -0.9 19 50-68 18-36 (267)
128 KOG2932|consensus 53.6 84 0.0018 26.1 7.2 26 81-106 143-171 (389)
129 COG1327 Predicted transcriptio 53.2 5.1 0.00011 29.3 0.3 15 52-66 29-43 (156)
130 PRK04023 DNA polymerase II lar 50.9 22 0.00049 34.2 4.1 9 52-60 639-647 (1121)
131 smart00440 ZnF_C2C2 C2C2 Zinc 50.8 3.9 8.4E-05 22.7 -0.5 13 81-93 27-39 (40)
132 KOG4167|consensus 50.4 3.1 6.7E-05 38.1 -1.4 27 81-107 791-817 (907)
133 PF08274 PhnA_Zn_Ribbon: PhnA 50.4 7.4 0.00016 20.2 0.5 9 81-89 18-26 (30)
134 KOG4377|consensus 49.9 21 0.00046 30.6 3.4 100 6-108 286-429 (480)
135 PF15269 zf-C2H2_7: Zinc-finge 49.2 10 0.00023 21.5 1.1 22 52-73 21-42 (54)
136 PRK12496 hypothetical protein; 48.8 13 0.00029 27.7 2.0 12 21-34 127-138 (164)
137 KOG1280|consensus 48.7 15 0.00032 30.8 2.3 39 50-89 78-116 (381)
138 COG4957 Predicted transcriptio 47.3 10 0.00022 27.2 1.0 24 22-50 77-100 (148)
139 PF07282 OrfB_Zn_ribbon: Putat 45.5 14 0.00031 22.8 1.5 14 81-94 45-58 (69)
140 COG1773 Rubredoxin [Energy pro 45.0 8.1 0.00018 23.1 0.2 16 81-96 2-17 (55)
141 COG4888 Uncharacterized Zn rib 44.7 6.9 0.00015 26.5 -0.1 11 83-93 47-57 (104)
142 KOG0978|consensus 43.7 10 0.00022 35.0 0.7 19 83-101 679-697 (698)
143 PRK00432 30S ribosomal protein 43.6 14 0.00031 21.6 1.1 9 83-91 38-46 (50)
144 PF01363 FYVE: FYVE zinc finge 43.5 13 0.00028 23.0 1.1 13 51-63 25-37 (69)
145 PF03604 DNA_RNApol_7kD: DNA d 43.0 14 0.00031 19.4 1.0 8 52-59 18-25 (32)
146 PF07754 DUF1610: Domain of un 42.1 13 0.00028 18.2 0.6 9 81-89 15-23 (24)
147 PF10013 DUF2256: Uncharacteri 41.5 19 0.0004 20.3 1.3 16 84-99 10-25 (42)
148 PF01780 Ribosomal_L37ae: Ribo 40.8 6.7 0.00015 26.1 -0.6 31 50-93 34-64 (90)
149 PF07975 C1_4: TFIIH C1-like d 40.8 7.8 0.00017 22.9 -0.3 22 51-72 21-42 (51)
150 PF06220 zf-U1: U1 zinc finger 40.5 24 0.00051 19.3 1.6 22 82-103 3-26 (38)
151 COG1571 Predicted DNA-binding 40.2 19 0.00041 31.1 1.8 15 82-96 367-381 (421)
152 PF08271 TF_Zn_Ribbon: TFIIB z 40.2 12 0.00027 20.9 0.5 8 83-90 20-27 (43)
153 cd00065 FYVE FYVE domain; Zinc 39.1 23 0.0005 20.8 1.6 11 52-62 19-29 (57)
154 KOG3408|consensus 38.6 15 0.00033 25.8 0.8 24 81-104 56-79 (129)
155 smart00064 FYVE Protein presen 37.6 23 0.0005 21.8 1.5 11 52-62 27-37 (68)
156 PF07295 DUF1451: Protein of u 37.3 11 0.00024 27.6 -0.0 8 52-59 113-120 (146)
157 smart00154 ZnF_AN1 AN1-like Zi 37.3 17 0.00037 20.0 0.7 14 82-95 12-25 (39)
158 COG1198 PriA Primosomal protei 37.1 18 0.00038 33.8 1.2 11 81-91 474-484 (730)
159 PRK03976 rpl37ae 50S ribosomal 36.9 12 0.00026 24.9 0.1 13 81-93 53-65 (90)
160 cd00730 rubredoxin Rubredoxin; 36.8 14 0.00031 21.6 0.4 40 83-122 2-46 (50)
161 PF01096 TFIIS_C: Transcriptio 36.4 2.4 5.1E-05 23.4 -2.8 12 81-92 27-38 (39)
162 COG1675 TFA1 Transcription ini 36.3 46 0.001 25.2 3.2 8 52-59 133-140 (176)
163 PRK14714 DNA polymerase II lar 35.1 64 0.0014 32.1 4.5 9 22-32 668-676 (1337)
164 COG2331 Uncharacterized protei 35.0 13 0.00028 23.8 0.0 10 52-61 13-22 (82)
165 COG1656 Uncharacterized conser 35.0 40 0.00087 25.2 2.6 23 81-103 129-151 (165)
166 KOG0717|consensus 34.7 22 0.00047 31.1 1.3 21 83-103 293-313 (508)
167 KOG2636|consensus 34.6 27 0.00059 30.3 1.8 26 46-71 396-422 (497)
168 PF14311 DUF4379: Domain of un 34.0 33 0.00071 20.2 1.7 13 52-64 29-41 (55)
169 TIGR00310 ZPR1_znf ZPR1 zinc f 33.1 8.3 0.00018 29.6 -1.3 12 82-93 30-41 (192)
170 PF05290 Baculo_IE-1: Baculovi 33.0 35 0.00075 24.5 1.9 19 17-37 76-94 (140)
171 COG4391 Uncharacterized protei 32.7 17 0.00036 22.3 0.2 14 81-94 47-60 (62)
172 PF10263 SprT-like: SprT-like 32.7 15 0.00033 26.8 0.1 10 52-61 124-133 (157)
173 PF09963 DUF2197: Uncharacteri 32.6 17 0.00037 21.9 0.3 9 81-89 30-38 (56)
174 KOG2071|consensus 32.3 28 0.00062 31.3 1.7 27 81-107 417-443 (579)
175 COG1779 C4-type Zn-finger prot 32.3 8 0.00017 29.7 -1.4 14 82-95 43-56 (201)
176 KOG1280|consensus 32.1 51 0.0011 27.7 3.0 30 81-110 78-107 (381)
177 COG5151 SSL1 RNA polymerase II 32.1 32 0.00068 28.5 1.8 47 54-106 365-412 (421)
178 PF01428 zf-AN1: AN1-like Zinc 31.2 16 0.00035 20.4 0.0 15 81-95 12-26 (43)
179 COG3357 Predicted transcriptio 31.0 30 0.00064 23.0 1.2 14 50-63 57-70 (97)
180 PRK14873 primosome assembly pr 30.9 28 0.0006 32.3 1.5 11 81-91 421-431 (665)
181 PF00301 Rubredoxin: Rubredoxi 30.7 16 0.00034 21.1 -0.1 38 83-120 2-44 (47)
182 PF11931 DUF3449: Domain of un 30.4 17 0.00036 28.0 0.0 24 81-104 100-124 (196)
183 PRK03824 hypA hydrogenase nick 30.1 21 0.00045 25.7 0.4 13 21-35 70-82 (135)
184 PF08790 zf-LYAR: LYAR-type C2 29.9 14 0.00031 18.8 -0.3 20 22-44 1-20 (28)
185 PF13824 zf-Mss51: Zinc-finger 29.8 46 0.001 19.9 1.8 10 81-90 13-22 (55)
186 KOG3408|consensus 29.4 35 0.00076 24.0 1.4 23 21-45 57-79 (129)
187 KOG2907|consensus 29.3 27 0.00058 24.2 0.8 14 81-94 101-114 (116)
188 PF03811 Zn_Tnp_IS1: InsA N-te 29.2 18 0.00039 19.6 -0.0 30 52-88 6-35 (36)
189 KOG2636|consensus 29.0 42 0.0009 29.2 2.1 24 81-104 400-424 (497)
190 PF04780 DUF629: Protein of un 28.9 34 0.00074 30.1 1.6 25 51-75 57-81 (466)
191 PLN03238 probable histone acet 28.6 53 0.0011 26.9 2.5 26 81-106 47-72 (290)
192 PTZ00255 60S ribosomal protein 28.0 17 0.00037 24.2 -0.3 13 81-93 53-65 (90)
193 PF08209 Sgf11: Sgf11 (transcr 27.6 52 0.0011 17.4 1.6 26 81-107 3-28 (33)
194 PF11672 DUF3268: Protein of u 27.6 36 0.00077 23.3 1.2 7 52-58 32-38 (102)
195 PRK12380 hydrogenase nickel in 27.5 34 0.00075 23.7 1.2 11 22-34 71-81 (113)
196 COG4338 Uncharacterized protei 27.4 26 0.00056 20.3 0.4 17 83-99 13-29 (54)
197 PF07800 DUF1644: Protein of u 27.1 2.7E+02 0.0058 20.8 6.0 80 17-106 25-132 (162)
198 PHA02998 RNA polymerase subuni 27.0 20 0.00043 27.1 -0.1 40 52-94 144-183 (195)
199 COG3364 Zn-ribbon containing p 26.5 46 0.00099 22.7 1.5 12 52-63 3-14 (112)
200 PF06524 NOA36: NOA36 protein; 26.4 30 0.00064 27.9 0.7 11 109-119 208-218 (314)
201 PRK14892 putative transcriptio 26.3 31 0.00067 23.5 0.7 11 83-93 43-53 (99)
202 KOG0782|consensus 26.1 11 0.00025 33.7 -1.7 53 36-96 238-290 (1004)
203 PLN02748 tRNA dimethylallyltra 26.0 51 0.0011 29.2 2.2 25 80-104 416-441 (468)
204 TIGR00100 hypA hydrogenase nic 26.0 35 0.00076 23.8 1.0 12 22-35 71-82 (115)
205 PF13453 zf-TFIIB: Transcripti 25.8 48 0.001 18.2 1.3 18 81-98 18-35 (41)
206 PRK12860 transcriptional activ 25.7 47 0.001 25.5 1.7 51 57-119 113-163 (189)
207 TIGR00280 L37a ribosomal prote 25.5 18 0.0004 24.1 -0.5 13 81-93 52-64 (91)
208 PF04423 Rad50_zn_hook: Rad50 25.4 26 0.00056 20.6 0.2 12 53-64 22-33 (54)
209 PF04606 Ogr_Delta: Ogr/Delta- 24.9 25 0.00053 20.1 0.0 13 81-93 24-38 (47)
210 PF10537 WAC_Acf1_DNA_bd: ATP- 24.5 78 0.0017 21.6 2.4 39 20-61 2-40 (102)
211 COG5432 RAD18 RING-finger-cont 24.5 43 0.00093 27.4 1.3 28 28-61 42-69 (391)
212 KOG2461|consensus 24.2 33 0.00072 29.6 0.7 39 39-77 319-357 (396)
213 COG0068 HypF Hydrogenase matur 24.1 14 0.00031 34.0 -1.5 58 23-92 125-183 (750)
214 PLN02294 cytochrome c oxidase 23.7 40 0.00086 25.3 0.9 15 49-63 139-153 (174)
215 PLN03238 probable histone acet 23.3 82 0.0018 25.9 2.7 23 20-44 47-69 (290)
216 KOG4385|consensus 23.1 48 0.001 29.2 1.4 25 22-46 210-234 (581)
217 PRK12722 transcriptional activ 22.7 66 0.0014 24.6 2.0 49 59-119 115-163 (187)
218 KOG0978|consensus 22.7 24 0.00051 32.7 -0.5 47 22-70 644-697 (698)
219 COG1594 RPB9 DNA-directed RNA 22.5 28 0.00062 24.2 -0.0 39 52-93 73-111 (113)
220 TIGR00340 zpr1_rel ZPR1-relate 22.2 18 0.00039 27.0 -1.1 12 82-93 28-39 (163)
221 COG1571 Predicted DNA-binding 22.2 59 0.0013 28.2 1.8 31 23-66 352-382 (421)
222 PF11789 zf-Nse: Zinc-finger o 21.8 65 0.0014 19.3 1.4 31 50-87 23-53 (57)
223 COG5188 PRP9 Splicing factor 3 21.5 56 0.0012 27.6 1.4 23 49-71 372-395 (470)
224 COG4896 Uncharacterized protei 21.3 48 0.001 20.3 0.8 10 81-90 30-39 (68)
225 PF06397 Desulfoferrod_N: Desu 21.2 38 0.00082 18.4 0.3 11 81-91 5-15 (36)
226 smart00647 IBR In Between Ring 21.2 36 0.00078 20.3 0.3 34 23-64 20-53 (64)
227 PRK00420 hypothetical protein; 21.1 58 0.0013 22.7 1.3 11 83-93 41-51 (112)
228 KOG4377|consensus 21.0 53 0.0011 28.3 1.2 73 19-94 269-361 (480)
229 PRK04351 hypothetical protein; 20.9 48 0.001 24.4 0.9 33 51-94 112-144 (149)
230 PF01485 IBR: IBR domain; Int 20.8 66 0.0014 19.0 1.4 34 23-65 20-54 (64)
231 COG1998 RPS31 Ribosomal protei 20.7 64 0.0014 18.8 1.2 8 83-90 38-45 (51)
232 COG0675 Transposase and inacti 20.7 53 0.0011 27.0 1.2 15 81-95 321-335 (364)
233 TIGR00627 tfb4 transcription f 20.7 68 0.0015 26.3 1.8 14 81-94 254-267 (279)
234 PRK00564 hypA hydrogenase nick 20.3 54 0.0012 22.9 1.0 12 22-35 72-83 (117)
235 PF01155 HypA: Hydrogenase exp 20.1 50 0.0011 22.9 0.8 26 21-60 70-95 (113)
No 1
>KOG2462|consensus
Probab=99.89 E-value=2.2e-24 Score=167.45 Aligned_cols=116 Identities=28% Similarity=0.515 Sum_probs=106.2
Q ss_pred CCccHHHHHHHHHhCCC---CCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCC
Q psy8183 2 DLAGQELTMEIRRTHTG---DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSK 78 (223)
Q Consensus 2 ~f~~~~~~~~h~~~H~~---~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 78 (223)
.+++-..|-+|+++|-. .+.+.|++ |+|.|.+...|+.|+++|. -+++|.+||+.|.+.+.|+-|+|+|+||
T Consensus 139 ~ysT~snLsrHkQ~H~~~~s~ka~~C~~--C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGE- 213 (279)
T KOG2462|consen 139 SYSTSSNLSRHKQTHRSLDSKKAFSCKY--CGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGE- 213 (279)
T ss_pred ccccccccchhhcccccccccccccCCC--CCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCC-
Confidence 45666778899999943 67899988 9999999999999999997 5799999999999999999999999999
Q ss_pred CCCcccCCccCCccCChHHHHHHHhhhcccCCCCCCcCCCCCcccC
Q psy8183 79 HLKTHICQYCGKSYTQETYLSKHMQKHAERSDKRPPIIGIPRAALE 124 (223)
Q Consensus 79 ~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~c~~~~~~~~ 124 (223)
|||.|..|+|.|..+++|+-|+++|.+.+.|.|..|+..|+..+
T Consensus 214 --KPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~S 257 (279)
T KOG2462|consen 214 --KPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKS 257 (279)
T ss_pred --CCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHH
Confidence 99999999999999999999999999999999999999877543
No 2
>KOG2462|consensus
Probab=99.88 E-value=1.6e-23 Score=162.60 Aligned_cols=97 Identities=39% Similarity=0.667 Sum_probs=91.2
Q ss_pred CCCccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCC
Q psy8183 1 MDLAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHL 80 (223)
Q Consensus 1 ~~f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 80 (223)
|.|..--.|+.|+|||+ -+++|.+ |||.|.+...|+.|+|+|+|||||.|..|++.|..+++|+.||++|.+.
T Consensus 169 K~YvSmpALkMHirTH~--l~c~C~i--CGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~--- 241 (279)
T KOG2462|consen 169 KVYVSMPALKMHIRTHT--LPCECGI--CGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDV--- 241 (279)
T ss_pred ceeeehHHHhhHhhccC--CCccccc--ccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCC---
Confidence 34666778999999998 6799988 9999999999999999999999999999999999999999999999998
Q ss_pred CcccCCccCCccCChHHHHHHHhh
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
|.|+|..|+|.|.+.+.|.+|...
T Consensus 242 K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 242 KKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccCcchhhHHHHHHHHHHhhhh
Confidence 899999999999999999999865
No 3
>KOG3576|consensus
Probab=99.72 E-value=2e-18 Score=128.34 Aligned_cols=80 Identities=33% Similarity=0.605 Sum_probs=43.4
Q ss_pred CCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHH
Q psy8183 20 KPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLS 99 (223)
Q Consensus 20 k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~ 99 (223)
..|.|.. |+|+|....-|.+|++.|...|.|.|..||+.|...-.|++|+++|+|. +||+|..|++.|.++-+|.
T Consensus 116 d~ftCrv--CgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgv---rpykc~~c~kaftqrcsle 190 (267)
T KOG3576|consen 116 DSFTCRV--CGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGV---RPYKCSLCEKAFTQRCSLE 190 (267)
T ss_pred Ceeeeeh--hhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCc---cccchhhhhHHHHhhccHH
Confidence 3455555 5555555555555555555555555555555555555555555555554 5555555555555555555
Q ss_pred HHHhh
Q psy8183 100 KHMQK 104 (223)
Q Consensus 100 ~H~~~ 104 (223)
.|++.
T Consensus 191 shl~k 195 (267)
T KOG3576|consen 191 SHLKK 195 (267)
T ss_pred HHHHH
Confidence 55443
No 4
>KOG3576|consensus
Probab=99.67 E-value=1.2e-17 Score=124.22 Aligned_cols=107 Identities=26% Similarity=0.469 Sum_probs=97.3
Q ss_pred CCCccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCC--
Q psy8183 1 MDLAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSK-- 78 (223)
Q Consensus 1 ~~f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~-- 78 (223)
|.|.-+.+|.+|++-|...|.|.|.. |||.|.+...|++|+++|+|.+||+|..|++.|..+..|..|.+.-++..
T Consensus 125 K~F~lQRmlnrh~kch~~vkr~lct~--cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~ 202 (267)
T KOG3576|consen 125 KKFGLQRMLNRHLKCHSDVKRHLCTF--CGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQ 202 (267)
T ss_pred hhhhHHHHHHHHhhhccHHHHHHHhh--ccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHH
Confidence 46889999999999999999999988 99999999999999999999999999999999999999999998766532
Q ss_pred ------CCCcccCCccCCccCChHHHHHHHhhhcccC
Q psy8183 79 ------HLKTHICQYCGKSYTQETYLSKHMQKHAERS 109 (223)
Q Consensus 79 ------~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 109 (223)
..|.|+|+.||..-.....+..|++.|+...
T Consensus 203 yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 203 YAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred HHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 2378999999999999999999999987543
No 5
>KOG1074|consensus
Probab=99.64 E-value=6.1e-17 Score=141.82 Aligned_cols=68 Identities=25% Similarity=0.501 Sum_probs=58.3
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhcccC----CCCCC---cCCCCCc
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHAERS----DKRPP---IIGIPRA 121 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~----~~~~~---~c~~~~~ 121 (223)
+-.|-+|.+.......|+.|+++|+|+ |||+|.|||+.|.++.+|+.|+-+|.... .+.|+ +|-..+.
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGE---RPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGE---RPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFT 679 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCc---CccccccccchhccccchhhcccccccCccccccccCCchhhhccccc
Confidence 468999999999999999999999999 99999999999999999999999887553 45666 5554443
No 6
>KOG1074|consensus
Probab=99.64 E-value=1e-16 Score=140.44 Aligned_cols=71 Identities=34% Similarity=0.653 Sum_probs=62.8
Q ss_pred CccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCCC----CCccCC---cCcccccCchhHHhhhhhhc
Q psy8183 3 LAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTD----KPYKCN---SCYKCFVDETALLEHIPKHK 75 (223)
Q Consensus 3 f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~----k~~~C~---~C~~~f~~~~~l~~H~~~h~ 75 (223)
.+-+..|+.|.|+|+|||||+|++ ||++|.++.+|+.||.+|... -.+.|+ +|-+.|.+.-.|.+|++.|.
T Consensus 615 lSC~saLqmHyrtHtGERPFkCKi--CgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 615 LSCPSALQMHYRTHTGERPFKCKI--CGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHL 692 (958)
T ss_pred ccchhhhhhhhhcccCcCcccccc--ccchhccccchhhcccccccCccccccccCCchhhhcccccccccccceEEeec
Confidence 456789999999999999999999 999999999999999998643 347788 89999999888888888876
No 7
>KOG3623|consensus
Probab=99.52 E-value=3.2e-15 Score=129.37 Aligned_cols=83 Identities=35% Similarity=0.639 Sum_probs=78.8
Q ss_pred CCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChH
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQET 96 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~ 96 (223)
+.+-.|.|+. |+|+|-..+.|.+|.--|+|.+||.|.+|.+.|+.+-.|..|+|.|.|+ |||+|+.|+|+|+...
T Consensus 890 te~gmyaCDq--CDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGE---KPfQCdKClKRFSHSG 964 (1007)
T KOG3623|consen 890 TEDGMYACDQ--CDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGE---KPFQCDKCLKRFSHSG 964 (1007)
T ss_pred CccccchHHH--HHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCC---Ccchhhhhhhhccccc
Confidence 4466899999 9999999999999999999999999999999999999999999999999 9999999999999999
Q ss_pred HHHHHHhh
Q psy8183 97 YLSKHMQK 104 (223)
Q Consensus 97 ~l~~H~~~ 104 (223)
++..||..
T Consensus 965 SYSQHMNH 972 (1007)
T KOG3623|consen 965 SYSQHMNH 972 (1007)
T ss_pred chHhhhcc
Confidence 99999853
No 8
>KOG3608|consensus
Probab=99.51 E-value=1.4e-14 Score=116.17 Aligned_cols=115 Identities=24% Similarity=0.395 Sum_probs=83.1
Q ss_pred CCccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhC--CCCC--------------------------cc
Q psy8183 2 DLAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQ--TDKP--------------------------YK 53 (223)
Q Consensus 2 ~f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~--~~k~--------------------------~~ 53 (223)
.|.++..|++|.++|++||..-|+. ||..|.++..|-.|++..+ ...+ |+
T Consensus 188 ~~~~k~~LreH~r~Hs~eKvvACp~--Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~yk 265 (467)
T KOG3608|consen 188 HMGNKYRLREHIRTHSNEKVVACPH--CGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYK 265 (467)
T ss_pred hhccHHHHHHHHHhcCCCeEEecch--HHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhccc
Confidence 4778999999999999999999966 9988888888888876433 2223 56
Q ss_pred CCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhcccCCCCCCc--CCCCCc
Q psy8183 54 CNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHAERSDKRPPI--IGIPRA 121 (223)
Q Consensus 54 C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~--c~~~~~ 121 (223)
|+.|+......+.|.+|++.-+.+. |||+|+.|++.|.+.+.|.+|..+|. +..|.|.. |.+.++
T Consensus 266 CplCdmtc~~~ssL~~H~r~rHs~d--kpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r 332 (467)
T KOG3608|consen 266 CPLCDMTCSSASSLTTHIRYRHSKD--KPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVR 332 (467)
T ss_pred ccccccCCCChHHHHHHHHhhhccC--CCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHH
Confidence 6666666666666666665444332 77888888888888888888887776 56677766 555443
No 9
>KOG3623|consensus
Probab=99.48 E-value=5e-14 Score=122.13 Aligned_cols=98 Identities=23% Similarity=0.496 Sum_probs=57.9
Q ss_pred eecccCccccccCChHHHHHHHHH-hC-CCCCccCCcCcccccCchhHHhhhhhhcCCCC----------CCcccCCccC
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRC-HQ-TDKPYKCNSCYKCFVDETALLEHIPKHKDSKH----------LKTHICQYCG 89 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~-h~-~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~----------~k~~~C~~C~ 89 (223)
..|++ |.+.+.+...|+.|++. |. .+..|.|..|.++|..+..|.+||.+|....+ .+.|+|..||
T Consensus 211 ltcpy--cdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECg 288 (1007)
T KOG3623|consen 211 LTCPY--CDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECG 288 (1007)
T ss_pred hcchh--HHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccc
Confidence 35655 66666666666666653 21 23346666666666666666666666542211 2556666666
Q ss_pred CccCChHHHHHHHhhhcccCCCCCCcCCCCCc
Q psy8183 90 KSYTQETYLSKHMQKHAERSDKRPPIIGIPRA 121 (223)
Q Consensus 90 ~~f~~~~~l~~H~~~h~~~~~~~~~~c~~~~~ 121 (223)
|.|..+-.|+.|+|+|.|+++|.|+.|...+.
T Consensus 289 KAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFS 320 (1007)
T KOG3623|consen 289 KAFKFKHHLKEHLRIHSGEKPFECPNCKKRFS 320 (1007)
T ss_pred hhhhhHHHHHhhheeecCCCCcCCcccccccc
Confidence 66666666666666666666666666665544
No 10
>KOG3608|consensus
Probab=99.46 E-value=7.4e-14 Score=112.12 Aligned_cols=114 Identities=26% Similarity=0.373 Sum_probs=97.5
Q ss_pred CCCccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHH-hCCCCCccCCcCcccccCchhHHhhhhhhcCCCC
Q psy8183 1 MDLAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRC-HQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKH 79 (223)
Q Consensus 1 ~~f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~-h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 79 (223)
|+|+++.+|+.|++.|-. -|+|+. |..+....+.|..||+. |...|||+|+.|++.|.+...|.+|...|..
T Consensus 245 KrFaTeklL~~Hv~rHvn--~ykCpl--Cdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~--- 317 (467)
T KOG3608|consen 245 KRFATEKLLKSHVVRHVN--CYKCPL--CDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSK--- 317 (467)
T ss_pred HHHhHHHHHHHHHHHhhh--cccccc--cccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccc---
Confidence 589999999999999864 589966 99999999999999995 8889999999999999999999999998873
Q ss_pred CCcccCCc--cCCccCChHHHHHHHhhhccc---CCCCCCcCCCCCcc
Q psy8183 80 LKTHICQY--CGKSYTQETYLSKHMQKHAER---SDKRPPIIGIPRAA 122 (223)
Q Consensus 80 ~k~~~C~~--C~~~f~~~~~l~~H~~~h~~~---~~~~~~~c~~~~~~ 122 (223)
-.|.|+. |..+|.+...|++|++.+++. ..|.|-.|+..+.+
T Consensus 318 -~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~ 364 (467)
T KOG3608|consen 318 -TVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTS 364 (467)
T ss_pred -cceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhcc
Confidence 6789987 999999999999998877632 45778888776553
No 11
>PHA00733 hypothetical protein
Probab=99.25 E-value=9.4e-12 Score=89.01 Aligned_cols=84 Identities=19% Similarity=0.326 Sum_probs=71.1
Q ss_pred CCCCCeecccCccccccCChHHHHHH--HH---HhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCc
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLSNLQSH--SR---CHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKS 91 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~~L~~H--~~---~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~ 91 (223)
...+++.|.. |.+.|.....|..+ ++ .+.++++|.|+.|++.|.+...|..|++.+ . .+|.|.+|++.
T Consensus 36 ~~~~~~~~~~--~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~---~~~~C~~CgK~ 108 (128)
T PHA00733 36 PEQKRLIRAV--VKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--E---HSKVCPVCGKE 108 (128)
T ss_pred hhhhhHHHHH--HhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--C---cCccCCCCCCc
Confidence 3468899998 99999887777766 22 234578999999999999999999999976 2 67999999999
Q ss_pred cCChHHHHHHHhhhcc
Q psy8183 92 YTQETYLSKHMQKHAE 107 (223)
Q Consensus 92 f~~~~~l~~H~~~h~~ 107 (223)
|.....|..|+...++
T Consensus 109 F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 109 FRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCCHHHHHHHHHHhcC
Confidence 9999999999988664
No 12
>PHA02768 hypothetical protein; Provisional
Probab=98.98 E-value=1.9e-10 Score=68.56 Aligned_cols=42 Identities=19% Similarity=0.443 Sum_probs=28.4
Q ss_pred eecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhH
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETAL 67 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l 67 (223)
|.|+. ||+.|.+..+|..|+++|+ ++|+|..|++.|.+.+.|
T Consensus 6 y~C~~--CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPI--CGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcch--hCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 66765 7777777777777777766 566777777766665554
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.98 E-value=8.3e-10 Score=96.10 Aligned_cols=92 Identities=16% Similarity=0.394 Sum_probs=76.5
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccC-----
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYT----- 93 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~----- 93 (223)
++.+.|++ |++.|. ...|..|+++|+ +++.|+ |++.+ .+..|..|+..|... +++.|..|++.|.
T Consensus 451 ~~H~~C~~--Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~---Kpi~C~fC~~~v~~g~~~ 520 (567)
T PLN03086 451 KNHVHCEK--CGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPL---RLITCRFCGDMVQAGGSA 520 (567)
T ss_pred ccCccCCC--CCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCC---CceeCCCCCCccccCccc
Confidence 45678988 999996 678999999975 789999 99755 668999999988887 9999999999985
Q ss_pred -----ChHHHHHHHhhhcccCCCCCCcCCCCCc
Q psy8183 94 -----QETYLSKHMQKHAERSDKRPPIIGIPRA 121 (223)
Q Consensus 94 -----~~~~l~~H~~~h~~~~~~~~~~c~~~~~ 121 (223)
....|..|...+ +.+.+.|..|+....
T Consensus 521 ~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vr 552 (567)
T PLN03086 521 MDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVM 552 (567)
T ss_pred cchhhhhhhHHHHHHhc-CCcceEccccCCeee
Confidence 245899999886 778899999987544
No 14
>PHA02768 hypothetical protein; Provisional
Probab=98.97 E-value=3.2e-10 Score=67.58 Aligned_cols=44 Identities=16% Similarity=0.420 Sum_probs=39.9
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHH
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLS 99 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~ 99 (223)
-|.|+.||+.|.+.+.|..|+++|+ ++|+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-----k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-----TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-----CcccCCcccceecccceeE
Confidence 4899999999999999999999998 5789999999999887664
No 15
>PHA00733 hypothetical protein
Probab=98.96 E-value=1.1e-09 Score=78.35 Aligned_cols=63 Identities=25% Similarity=0.521 Sum_probs=53.7
Q ss_pred HHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcC
Q psy8183 9 TMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKD 76 (223)
Q Consensus 9 ~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~ 76 (223)
|..|+.+ .++++|.|+. |++.|.+...|..|++.| +.+|.|..|++.|.....|..|+...++
T Consensus 62 l~~~~~~-~~~kPy~C~~--Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 62 LYKLLTS-KAVSPYVCPL--CLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHhhccc-CCCCCccCCC--CCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 3444444 4589999988 999999999999999976 3579999999999999999999988776
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.87 E-value=5.6e-09 Score=90.98 Aligned_cols=93 Identities=18% Similarity=0.313 Sum_probs=76.1
Q ss_pred CCccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccC----------chhHHhhh
Q psy8183 2 DLAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVD----------ETALLEHI 71 (223)
Q Consensus 2 ~f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~----------~~~l~~H~ 71 (223)
.|. ...|..|+++|. +++.| + |++.+ .+..|..|+.+|...+++.|..|++.|.. ...|..|+
T Consensus 462 ~f~-~s~LekH~~~~H--kpv~C--p-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE 534 (567)
T PLN03086 462 AFQ-QGEMEKHMKVFH--EPLQC--P-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHE 534 (567)
T ss_pred ccc-hHHHHHHHHhcC--CCccC--C-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHH
Confidence 354 566899999985 88999 5 99766 66899999999999999999999999852 34789999
Q ss_pred hhhcCCCCCCcccCCccCCccCChHHHHHHHhhhc
Q psy8183 72 PKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 72 ~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
..+ +. +++.|..||+.|..+ .|..|+...+
T Consensus 535 ~~C-G~---rt~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 535 SIC-GS---RTAPCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred Hhc-CC---cceEccccCCeeeeh-hHHHHHHHhh
Confidence 886 55 899999999988766 6778876544
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=98.76 E-value=5.7e-09 Score=53.22 Aligned_cols=24 Identities=58% Similarity=0.977 Sum_probs=13.6
Q ss_pred HHHHHHhCCCCCCeecccCccccccC
Q psy8183 9 TMEIRRTHTGDKPYKCRHPGCVKAFS 34 (223)
Q Consensus 9 ~~~h~~~H~~~k~~~C~~p~C~k~f~ 34 (223)
|..|+++|+|+++|.|+. |++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~--C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPY--CGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESS--SSEEES
T ss_pred HHHHhhhcCCCCCCCCCC--CcCeeC
Confidence 455555566666666654 655554
No 18
>KOG3993|consensus
Probab=98.71 E-value=4.5e-09 Score=86.72 Aligned_cols=86 Identities=27% Similarity=0.523 Sum_probs=72.0
Q ss_pred eecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCC--------C--------------
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSK--------H-------------- 79 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~--------~-------------- 79 (223)
|.|.. |...|.+...|.+|.-.-.-.-.|+|+.|+|.|....+|-.|.|+|.... +
T Consensus 268 yiCqL--CK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 268 YICQL--CKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHH--HHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 99998 99999999999999753333345999999999999999999999985322 1
Q ss_pred --------CCcccCCccCCccCChHHHHHHHhhhcccC
Q psy8183 80 --------LKTHICQYCGKSYTQETYLSKHMQKHAERS 109 (223)
Q Consensus 80 --------~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 109 (223)
..-|.|.+|+|.|.+...|++|+.+|+...
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 124899999999999999999999987644
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.70 E-value=1e-08 Score=52.23 Aligned_cols=26 Identities=50% Similarity=0.961 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCCCCccCCcCcccccC
Q psy8183 38 NLQSHSRCHQTDKPYKCNSCYKCFVD 63 (223)
Q Consensus 38 ~L~~H~~~h~~~k~~~C~~C~~~f~~ 63 (223)
+|.+|+++|+++++|.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 58999999999999999999999963
No 20
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.51 E-value=3.2e-08 Score=79.02 Aligned_cols=74 Identities=28% Similarity=0.412 Sum_probs=50.6
Q ss_pred CCCCeecccCccccccCChHHHHHHHHH-hCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChH
Q psy8183 18 GDKPYKCRHPGCVKAFSQLSNLQSHSRC-HQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQET 96 (223)
Q Consensus 18 ~~k~~~C~~p~C~k~f~~~~~L~~H~~~-h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~ 96 (223)
++|||+|+.+||.|+|+....|+.|+.- |...+...-+. -..+.-.-... |||+|++|+|+|+...
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~----------p~~~~~F~~~~---KPYrCevC~KRYKNlN 412 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPS----------PEKMNIFSAKD---KPYRCEVCDKRYKNLN 412 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCC----------ccccccccccC---CceeccccchhhccCc
Confidence 4699999999999999999999999874 43222211110 00111112223 8999999999999999
Q ss_pred HHHHHHhh
Q psy8183 97 YLSKHMQK 104 (223)
Q Consensus 97 ~l~~H~~~ 104 (223)
.|+-|+..
T Consensus 413 GLKYHr~H 420 (423)
T COG5189 413 GLKYHRKH 420 (423)
T ss_pred cceecccc
Confidence 98888653
No 21
>PHA00732 hypothetical protein
Probab=98.40 E-value=2.1e-07 Score=60.66 Aligned_cols=48 Identities=31% Similarity=0.513 Sum_probs=38.9
Q ss_pred CeecccCccccccCChHHHHHHHHH-hCCCCCccCCcCcccccCchhHHhhhhhhcC
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRC-HQTDKPYKCNSCYKCFVDETALLEHIPKHKD 76 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~-h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~ 76 (223)
||.|+. |++.|.+...|..|++. |. ++.|+.|++.|. .+..|++...+
T Consensus 1 py~C~~--Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPI--CGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCC--CCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccCC
Confidence 588977 99999999999999985 54 358999999997 47788866554
No 22
>PHA00616 hypothetical protein
Probab=98.38 E-value=1.7e-07 Score=53.25 Aligned_cols=35 Identities=14% Similarity=0.281 Sum_probs=28.8
Q ss_pred CeecccCccccccCChHHHHHHHHHhCCCCCccCCcC
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSC 57 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C 57 (223)
+|.|.. ||+.|..+..|.+|++.|++++++.|+.-
T Consensus 1 pYqC~~--CG~~F~~~s~l~~H~r~~hg~~~~~~~~~ 35 (44)
T PHA00616 1 MYQCLR--CGGIFRKKKEVIEHLLSVHKQNKLTLEYF 35 (44)
T ss_pred CCccch--hhHHHhhHHHHHHHHHHhcCCCccceeEE
Confidence 578866 88888888888888888888888888753
No 23
>PHA00732 hypothetical protein
Probab=98.28 E-value=6.5e-07 Score=58.34 Aligned_cols=48 Identities=29% Similarity=0.490 Sum_probs=39.5
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhc
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
+|.|+.|++.|.+...|..|++.++. ++.|..|++.|. .+..|+++..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~-----~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT-----LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC-----CCccCCCCCEeC---ChhhhhcccC
Confidence 58899999999999999999985432 357999999998 5788886543
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=98.25 E-value=1.6e-06 Score=52.39 Aligned_cols=48 Identities=25% Similarity=0.452 Sum_probs=22.8
Q ss_pred eecccCccccccCChHHHHHHHHH-hCC-CCCccCCcCcccccCchhHHhhhhhh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRC-HQT-DKPYKCNSCYKCFVDETALLEHIPKH 74 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~-h~~-~k~~~C~~C~~~f~~~~~l~~H~~~h 74 (223)
|.|++ |++ ..+...|..|... |.. .+.+.|++|...+. .+|.+|+..+
T Consensus 3 f~CP~--C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 3 FTCPY--CGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred cCCCC--CCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHh
Confidence 55544 555 3334555555543 322 23455555554432 2555555444
No 25
>PHA00616 hypothetical protein
Probab=98.24 E-value=4.1e-07 Score=51.67 Aligned_cols=33 Identities=18% Similarity=0.405 Sum_probs=19.6
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCC
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQ 86 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~ 86 (223)
+|.|..||+.|.....|.+|++.|+++ +++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~---~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ---NKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC---Ccccee
Confidence 355666666666666666666666665 555554
No 26
>KOG3993|consensus
Probab=98.05 E-value=1.6e-06 Score=71.93 Aligned_cols=72 Identities=28% Similarity=0.449 Sum_probs=55.0
Q ss_pred CccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCC---------------------------------C
Q psy8183 3 LAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQT---------------------------------D 49 (223)
Q Consensus 3 f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~---------------------------------~ 49 (223)
|..-..|.+|+-.-.-..-|+|++ |+|.|....+|..|.|-|.- +
T Consensus 277 YeD~F~LAQHrC~RIV~vEYrCPE--C~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~ 354 (500)
T KOG3993|consen 277 YEDAFALAQHRCPRIVHVEYRCPE--CDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSS 354 (500)
T ss_pred hhhHHHHhhccCCeeEEeeecCCc--ccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccC
Confidence 334455666665443334599976 99999999999999887731 1
Q ss_pred CCccCCcCcccccCchhHHhhhhhhcC
Q psy8183 50 KPYKCNSCYKCFVDETALLEHIPKHKD 76 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~~H~~~h~~ 76 (223)
.-|.|..|++.|.+...|+.|+.+|+.
T Consensus 355 gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 355 GIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred ceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 238999999999999999999888764
No 27
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.02 E-value=9.5e-06 Score=49.02 Aligned_cols=52 Identities=27% Similarity=0.558 Sum_probs=41.0
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhc
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
.|.|++|++ ..+...|..|....+.... +.+.|++|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~-~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSES-KNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCC-CCccCCCchhhhh--hHHHHHHHHhc
Confidence 489999999 5567889999876654432 6799999998655 48999998765
No 28
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.99 E-value=3.3e-06 Score=41.54 Aligned_cols=23 Identities=39% Similarity=0.944 Sum_probs=15.2
Q ss_pred ccCCccCCccCChHHHHHHHhhh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQKH 105 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~h 105 (223)
|.|.+|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 45666777777777777766653
No 29
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.97 E-value=1.9e-06 Score=69.06 Aligned_cols=25 Identities=16% Similarity=0.109 Sum_probs=17.5
Q ss_pred cccCCCCCCcCCCCCcccCCCCCCC
Q psy8183 106 AERSDKRPPIIGIPRAALENPHYWP 130 (223)
Q Consensus 106 ~~~~~~~~~~c~~~~~~~~~~~~~~ 130 (223)
...++|+|.+|+..-.......|+.
T Consensus 394 ~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 394 AKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ccCCceeccccchhhccCccceecc
Confidence 3558899999998766555555543
No 30
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.89 E-value=1.1e-05 Score=39.60 Aligned_cols=23 Identities=57% Similarity=0.921 Sum_probs=17.5
Q ss_pred eecccCccccccCChHHHHHHHHHh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCH 46 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h 46 (223)
|.|+. |++.|.+...|..|++.|
T Consensus 1 y~C~~--C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPI--CGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETT--TTEEESSHHHHHHHHHHH
T ss_pred CCCCC--CCCccCCHHHHHHHHhHC
Confidence 67766 888888888888887764
No 31
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.74 E-value=2.3e-05 Score=38.63 Aligned_cols=23 Identities=39% Similarity=0.875 Sum_probs=13.8
Q ss_pred ccCCccCCccCChHHHHHHHhhh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQKH 105 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~h 105 (223)
|.|.+|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45666666666666666666654
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.56 E-value=5.3e-05 Score=51.52 Aligned_cols=74 Identities=26% Similarity=0.498 Sum_probs=22.3
Q ss_pred ecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHH
Q psy8183 23 KCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHM 102 (223)
Q Consensus 23 ~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~ 102 (223)
+|.. |+..|.+...|..|+...++... . ....+.....+..+++.... ..+.|.+|++.|.....|..|+
T Consensus 1 ~C~~--C~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~~----~~~~C~~C~~~f~s~~~l~~Hm 70 (100)
T PF12756_consen 1 QCLF--CDESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKVK----ESFRCPYCNKTFRSREALQEHM 70 (100)
T ss_dssp ----------------------------------------------------------SSEEBSSSS-EESSHHHHHHHH
T ss_pred Cccc--ccccccccccccccccccccccc---c-cccccccccccccccccccC----CCCCCCccCCCCcCHHHHHHHH
Confidence 4877 99999999999999986443221 1 11122233444444443322 4699999999999999999999
Q ss_pred hhhc
Q psy8183 103 QKHA 106 (223)
Q Consensus 103 ~~h~ 106 (223)
+.+.
T Consensus 71 ~~~~ 74 (100)
T PF12756_consen 71 RSKH 74 (100)
T ss_dssp HHTT
T ss_pred cCcc
Confidence 9753
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=97.50 E-value=0.00011 Score=36.09 Aligned_cols=23 Identities=39% Similarity=0.811 Sum_probs=14.6
Q ss_pred eecccCccccccCChHHHHHHHHHh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCH 46 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h 46 (223)
|.|+. |++.|.+...|..|+++|
T Consensus 1 ~~C~~--C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPI--CGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SS--TS-EESSHHHHHHHHHHH
T ss_pred CCCcC--CCCcCCcHHHHHHHHHhh
Confidence 56766 777777777777777665
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.49 E-value=4.6e-05 Score=38.93 Aligned_cols=25 Identities=28% Similarity=0.677 Sum_probs=16.2
Q ss_pred cccCCccCCccCChHHHHHHHhhhc
Q psy8183 82 THICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 82 ~~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
+|.|..|++.|.....|..|++.|.
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 3566666666666666666666553
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=97.35 E-value=0.00014 Score=37.07 Aligned_cols=25 Identities=48% Similarity=0.973 Sum_probs=17.3
Q ss_pred CeecccCccccccCChHHHHHHHHHhC
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRCHQ 47 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~h~ 47 (223)
+|.|.. |++.|.+...|..|++.|.
T Consensus 1 ~~~C~~--C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDE--CGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETT--TTEEESSHHHHHHHHCTTT
T ss_pred CCCCCc--cCCccCChhHHHHHhHHhc
Confidence 467766 7777777777777776653
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.08 E-value=0.00056 Score=33.97 Aligned_cols=23 Identities=35% Similarity=0.774 Sum_probs=15.6
Q ss_pred ccCCccCCccCChHHHHHHHhhh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQKH 105 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~h 105 (223)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45677777777777777776654
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=96.72 E-value=0.00088 Score=39.02 Aligned_cols=29 Identities=24% Similarity=0.456 Sum_probs=11.5
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCC
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTD 49 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~ 49 (223)
+.|-.|++ |+..+.+..+|++|+..+++.
T Consensus 22 ~~PatCP~--C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 22 EQPATCPI--CGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp S--EE-TT--T--EESSHHHHHHHHHHHTTT
T ss_pred CCCCCCCc--chhhccchhhHHHHHHHHhcc
Confidence 44445533 555555555555555444433
No 38
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.72 E-value=0.0016 Score=32.24 Aligned_cols=23 Identities=43% Similarity=0.878 Sum_probs=15.1
Q ss_pred eecccCccccccCChHHHHHHHHHh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCH 46 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h 46 (223)
|.|.. |++.|.....|..|++.|
T Consensus 1 ~~C~~--C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPE--CGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCC--CcchhCCHHHHHHHHHHh
Confidence 45655 777777777777776654
No 39
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.64 E-value=0.0017 Score=37.90 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=12.6
Q ss_pred CcccCCccCCccCChHHHHHHHhhhcc
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHAE 107 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~~ 107 (223)
.|-.|++|+..+.+..+|++|+.+.++
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhc
Confidence 455566666666666666666555443
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.54 E-value=0.0012 Score=32.79 Aligned_cols=22 Identities=32% Similarity=0.801 Sum_probs=15.1
Q ss_pred ccCCccCCccCChHHHHHHHhh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
|.|.+|++.|.....|..|++.
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 4577777777777777777654
No 41
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.51 E-value=0.0022 Score=31.54 Aligned_cols=23 Identities=26% Similarity=0.619 Sum_probs=12.5
Q ss_pred ccCCccCCccCChHHHHHHHhhhc
Q psy8183 83 HICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
|+|..|+.... ...|.+|++.++
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 45666666655 666666666543
No 42
>PRK04860 hypothetical protein; Provisional
Probab=96.49 E-value=0.0012 Score=49.03 Aligned_cols=35 Identities=20% Similarity=0.608 Sum_probs=17.8
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccC
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYT 93 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~ 93 (223)
|.|. |+. ....+.+|.++|.++ ++|.|..|+..|.
T Consensus 120 Y~C~-C~~---~~~~~rrH~ri~~g~---~~YrC~~C~~~l~ 154 (160)
T PRK04860 120 YRCK-CQE---HQLTVRRHNRVVRGE---AVYRCRRCGETLV 154 (160)
T ss_pred EEcC-CCC---eeCHHHHHHHHhcCC---ccEECCCCCceeE
Confidence 5554 544 344455555555554 4555555555444
No 43
>PRK04860 hypothetical protein; Provisional
Probab=96.27 E-value=0.0025 Score=47.40 Aligned_cols=39 Identities=26% Similarity=0.738 Sum_probs=33.7
Q ss_pred CeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCch
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDET 65 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~ 65 (223)
+|.|. |++ ....+.+|.++|.++++|.|..|+..|....
T Consensus 119 ~Y~C~---C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK---CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC---CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 58994 987 6778999999999999999999999886543
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.97 E-value=0.0063 Score=29.87 Aligned_cols=22 Identities=50% Similarity=0.859 Sum_probs=12.4
Q ss_pred eecccCccccccCChHHHHHHHHHh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCH 46 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h 46 (223)
|.|+. |+.... +..|.+|++.+
T Consensus 1 y~C~~--C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPH--CSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SS--SS-EES-HHHHHHHHHHH
T ss_pred CCCCC--CCCcCC-HHHHHHHHHhh
Confidence 55655 666665 66666666654
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=95.92 E-value=0.0024 Score=32.48 Aligned_cols=22 Identities=32% Similarity=0.742 Sum_probs=12.7
Q ss_pred ccCCccCCccCChHHHHHHHhh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
|.|.+|++.|.+...|..|++.
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 4466666666666666655543
No 46
>KOG1146|consensus
Probab=95.92 E-value=0.0043 Score=58.97 Aligned_cols=57 Identities=28% Similarity=0.491 Sum_probs=41.9
Q ss_pred hCCCCCCeecccCccccccCChHHHHHHHHH-hC------------------------CCCCccCCcCcccccCchhHHh
Q psy8183 15 THTGDKPYKCRHPGCVKAFSQLSNLQSHSRC-HQ------------------------TDKPYKCNSCYKCFVDETALLE 69 (223)
Q Consensus 15 ~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~-h~------------------------~~k~~~C~~C~~~f~~~~~l~~ 69 (223)
.|+-.|-|+|+. |+..|+....|..|||. |. +.++|.|..|...+..+.+|..
T Consensus 459 L~S~~kt~~cpk--c~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsi 536 (1406)
T KOG1146|consen 459 LHSFFKTLKCPK--CNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSI 536 (1406)
T ss_pred eecccccccCCc--cchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHH
Confidence 355567788966 99999999999999886 32 1356777777777777777777
Q ss_pred hhhh
Q psy8183 70 HIPK 73 (223)
Q Consensus 70 H~~~ 73 (223)
|+..
T Consensus 537 hlqS 540 (1406)
T KOG1146|consen 537 HLQS 540 (1406)
T ss_pred HHHH
Confidence 7764
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.91 E-value=0.0059 Score=30.23 Aligned_cols=21 Identities=38% Similarity=0.766 Sum_probs=12.8
Q ss_pred eecccCccccccCChHHHHHHHH
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSR 44 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~ 44 (223)
|.|+. |++.|.+...|+.|++
T Consensus 1 ~~C~~--C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDI--CNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETT--TTEEESSHHHHHHHHT
T ss_pred CCCCC--CCCCcCCHHHHHHHHC
Confidence 45655 6666666666666655
No 48
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.89 E-value=0.0042 Score=31.54 Aligned_cols=22 Identities=32% Similarity=0.776 Sum_probs=14.3
Q ss_pred ccCCcCcccccCchhHHhhhhh
Q psy8183 52 YKCNSCYKCFVDETALLEHIPK 73 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~ 73 (223)
|.|..|++.|.+...|..|++.
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 5566666666666666666653
No 49
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.44 E-value=0.014 Score=29.06 Aligned_cols=21 Identities=29% Similarity=0.654 Sum_probs=14.9
Q ss_pred ccCCccCCccCChHHHHHHHhh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
..|.+||+.| ..+.|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3577788888 56677777764
No 50
>KOG1146|consensus
Probab=95.14 E-value=0.0072 Score=57.54 Aligned_cols=76 Identities=22% Similarity=0.273 Sum_probs=60.4
Q ss_pred cccccCChHHHHHHHH-HhCCCCCccCCcCcccccCchhHHhhhhhhcCCC----------------------CCCcccC
Q psy8183 29 CVKAFSQLSNLQSHSR-CHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSK----------------------HLKTHIC 85 (223)
Q Consensus 29 C~k~f~~~~~L~~H~~-~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~----------------------~~k~~~C 85 (223)
|+..+.+...+..|+. .++-.+-|+|+.|+..|.....|..|||..+.+. +.++|.|
T Consensus 442 ~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C 521 (1406)
T KOG1146|consen 442 AEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPC 521 (1406)
T ss_pred hhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccc
Confidence 5555666666666655 3666788999999999999999999999832221 3488999
Q ss_pred CccCCccCChHHHHHHHhh
Q psy8183 86 QYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 86 ~~C~~~f~~~~~l~~H~~~ 104 (223)
..|...+..+..|.+|+..
T Consensus 522 ~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 522 RACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred eeeeeeeecchHHHHHHHH
Confidence 9999999999999999864
No 51
>KOG2893|consensus
Probab=95.03 E-value=0.006 Score=47.48 Aligned_cols=41 Identities=29% Similarity=0.593 Sum_probs=21.7
Q ss_pred cccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhh
Q psy8183 24 CRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEH 70 (223)
Q Consensus 24 C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H 70 (223)
|=+ |++-|.+..-|.+|++. |-|+|-+|.+...+-..|..|
T Consensus 13 cwy--cnrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWY--CNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eee--cccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 444 66666666655555543 235666665554444444444
No 52
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.66 E-value=0.006 Score=52.13 Aligned_cols=47 Identities=40% Similarity=0.662 Sum_probs=22.7
Q ss_pred cccccCChHHHHHHHH--HhCCC--CCccCC--cCcccccCchhHHhhhhhhc
Q psy8183 29 CVKAFSQLSNLQSHSR--CHQTD--KPYKCN--SCYKCFVDETALLEHIPKHK 75 (223)
Q Consensus 29 C~k~f~~~~~L~~H~~--~h~~~--k~~~C~--~C~~~f~~~~~l~~H~~~h~ 75 (223)
|...|.+...|..|.+ .|.++ +++.|+ .|++.|.+...+.+|...|.
T Consensus 295 ~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 295 CNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347 (467)
T ss_pred ccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccccc
Confidence 4444444444444444 44444 444444 34444444444444444443
No 53
>KOG2231|consensus
Probab=94.30 E-value=0.077 Score=47.84 Aligned_cols=88 Identities=23% Similarity=0.452 Sum_probs=47.3
Q ss_pred CccHHHHHHHHHhCCCCCC----eecccCccccccCChHHHHHHHHHhCCCCCccCCcC------cccccCchhHHhhhh
Q psy8183 3 LAGQELTMEIRRTHTGDKP----YKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSC------YKCFVDETALLEHIP 72 (223)
Q Consensus 3 f~~~~~~~~h~~~H~~~k~----~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C------~~~f~~~~~l~~H~~ 72 (223)
|...++++++|..-.+++. -.|.. |...|.....|.+|++.++ |.|-.| +..|...+.|..|.+
T Consensus 160 Yt~~el~~h~~~gd~d~~s~rGhp~C~~--C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR 233 (669)
T KOG2231|consen 160 YTRAELNLHLMFGDPDDESCRGHPLCKF--CHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFR 233 (669)
T ss_pred ehHHHHHHHHhcCCCccccccCCccchh--hhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhh
Confidence 3444454444443332222 24666 7777777777777777544 344444 345555666777766
Q ss_pred hhcCCCCCCcccCC--ccC-CccCChHHHHHHHh
Q psy8183 73 KHKDSKHLKTHICQ--YCG-KSYTQETYLSKHMQ 103 (223)
Q Consensus 73 ~h~~~~~~k~~~C~--~C~-~~f~~~~~l~~H~~ 103 (223)
.+| |.|. .|. +.|.....+..+++
T Consensus 234 ~~H-------flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 234 KGH-------FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred hcC-------ccccccccccceeeehhHHHHHHH
Confidence 655 4465 353 34444444444444
No 54
>KOG4173|consensus
Probab=94.26 E-value=0.018 Score=43.84 Aligned_cols=83 Identities=20% Similarity=0.480 Sum_probs=65.8
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcC-------CCCCCcccCCc--cC
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKD-------SKHLKTHICQY--CG 89 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~-------~~~~k~~~C~~--C~ 89 (223)
.+.|.|+..||-..|.....+..|..+-++. .|.+|.+.|.+.-.|..|+...+. +...--|.|-+ |+
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt 153 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCT 153 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhh
Confidence 3558899999999999999889898765443 699999999999999999864332 11125689954 99
Q ss_pred CccCChHHHHHHHhh
Q psy8183 90 KSYTQETYLSKHMQK 104 (223)
Q Consensus 90 ~~f~~~~~l~~H~~~ 104 (223)
..|.+....+.|+-.
T Consensus 154 ~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 154 EKFKTSRDRKDHMIR 168 (253)
T ss_pred hhhhhhhhhhhHHHH
Confidence 999999999999754
No 55
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=94.10 E-value=0.035 Score=37.34 Aligned_cols=67 Identities=18% Similarity=0.279 Sum_probs=21.9
Q ss_pred CCccHHHHHHHHHhCCCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhc
Q psy8183 2 DLAGQELTMEIRRTHTGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHK 75 (223)
Q Consensus 2 ~f~~~~~~~~h~~~H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~ 75 (223)
.|.+.+.+..|+....+-. .. ....+.....+..+++.-. ...+.|.+|++.|.+...|..||+.+.
T Consensus 8 ~f~~~~~l~~H~~~~H~~~---~~---~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 8 SFSSVDDLLQHMKKKHGFD---IP---DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred ccccccccccccccccccc---cc---ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 4677778888886443321 11 1122223444444444322 236899999999999999999998754
No 56
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.83 E-value=0.051 Score=29.13 Aligned_cols=23 Identities=22% Similarity=0.626 Sum_probs=19.8
Q ss_pred cccCCccCCccCChHHHHHHHhh
Q psy8183 82 THICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 82 ~~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
+|.|.+|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57899999999999999999864
No 57
>KOG2231|consensus
Probab=93.80 E-value=0.092 Score=47.38 Aligned_cols=92 Identities=21% Similarity=0.349 Sum_probs=61.2
Q ss_pred CccHHHHHHHH-HhCCC---------CCCeecccCccccccCChHHHHHHHHHh-CCCC----CccCCcCcccccCchhH
Q psy8183 3 LAGQELTMEIR-RTHTG---------DKPYKCRHPGCVKAFSQLSNLQSHSRCH-QTDK----PYKCNSCYKCFVDETAL 67 (223)
Q Consensus 3 f~~~~~~~~h~-~~H~~---------~k~~~C~~p~C~k~f~~~~~L~~H~~~h-~~~k----~~~C~~C~~~f~~~~~l 67 (223)
|.....|+.|+ ..|.. .+.|.| |.+.|. ...|..|++.- .+++ --.|..|...|.....|
T Consensus 124 ~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~----e~k~Yt-~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el 198 (669)
T KOG2231|consen 124 FKSVENLKNHMRDQHKLHLCSLCLQNLKIFIN----ERKLYT-RAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDEL 198 (669)
T ss_pred hhHHHHHHHHHHHhhhhhccccccccceeeee----eeeheh-HHHHHHHHhcCCCccccccCCccchhhhhhhccHHHH
Confidence 44566778888 45543 222333 444444 56677787642 2122 13699999999999999
Q ss_pred HhhhhhhcCCCCCCcccCCcc------CCccCChHHHHHHHhhhc
Q psy8183 68 LEHIPKHKDSKHLKTHICQYC------GKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 68 ~~H~~~h~~~~~~k~~~C~~C------~~~f~~~~~l~~H~~~h~ 106 (223)
.+|++.++. .|..| +.-|.....|..|.+..|
T Consensus 199 ~rH~~~~h~-------~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 199 YRHLRFDHE-------FCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred HHhhcccee-------heeecCcccccchhcccchHHHHHhhhcC
Confidence 999987774 35555 456778899999998765
No 58
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.69 E-value=0.018 Score=49.12 Aligned_cols=68 Identities=25% Similarity=0.534 Sum_probs=55.6
Q ss_pred CCccCCcCcccccCchhHHhhhh--hhcCCCCCCcccCC--ccCCccCChHHHHHHHhhhcccCCCCCCcCCC
Q psy8183 50 KPYKCNSCYKCFVDETALLEHIP--KHKDSKHLKTHICQ--YCGKSYTQETYLSKHMQKHAERSDKRPPIIGI 118 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~~H~~--~h~~~~~~k~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~~~~c~~ 118 (223)
.++.|..|...|.+...|.+|.+ .|.++. .+++.|. +|++.|.+...+..|..+|.......+.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~-~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGES-LKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359 (467)
T ss_pred cCCCCccccCCcccccccccccccccccccc-CCceeeeccCCCccccccccccCCcccccCCCccccccccC
Confidence 46889999999999999999999 677652 2688898 79999999999999999998877666654443
No 59
>KOG2482|consensus
Probab=93.14 E-value=0.084 Score=43.43 Aligned_cols=23 Identities=30% Similarity=0.582 Sum_probs=21.0
Q ss_pred CeecccCccccccCChHHHHHHHHH
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRC 45 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~ 45 (223)
.+.|-+ |.|.|..+..|+.||+.
T Consensus 195 r~~CLy--CekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLY--CEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeee--eccccCCcHHHHHHHHh
Confidence 478988 99999999999999985
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.11 E-value=0.22 Score=41.18 Aligned_cols=14 Identities=21% Similarity=0.413 Sum_probs=7.9
Q ss_pred ccCChHHHHHHHhh
Q psy8183 91 SYTQETYLSKHMQK 104 (223)
Q Consensus 91 ~f~~~~~l~~H~~~ 104 (223)
.|.....|..|+-.
T Consensus 290 vf~~~~el~~h~~~ 303 (493)
T COG5236 290 VFPYHTELLEHLTR 303 (493)
T ss_pred EeccHHHHHHHHHH
Confidence 45556666666543
No 61
>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=92.10 E-value=0.078 Score=28.26 Aligned_cols=9 Identities=33% Similarity=0.741 Sum_probs=4.4
Q ss_pred ccCCcCccc
Q psy8183 52 YKCNSCYKC 60 (223)
Q Consensus 52 ~~C~~C~~~ 60 (223)
|.|.+||..
T Consensus 2 ~~C~~CGy~ 10 (33)
T cd00350 2 YVCPVCGYI 10 (33)
T ss_pred EECCCCCCE
Confidence 445555543
No 62
>KOG2186|consensus
Probab=91.75 E-value=0.076 Score=41.83 Aligned_cols=51 Identities=20% Similarity=0.521 Sum_probs=33.5
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhccc
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHAER 108 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~ 108 (223)
|.|.+||.... +..+.+|+...++ .-|.|-.|++.|.+ .++..|..-.++.
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn----~~fSCIDC~k~F~~-~sYknH~kCITEa 54 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRN----AYFSCIDCGKTFER-VSYKNHTKCITEA 54 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccC----CeeEEeeccccccc-chhhhhhhhcchH
Confidence 56777776554 4556667777766 45777777777777 5666776554433
No 63
>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=91.72 E-value=0.14 Score=35.46 Aligned_cols=30 Identities=30% Similarity=0.710 Sum_probs=18.8
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCCh
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQE 95 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~ 95 (223)
..|+.||++|.- .+. .|.+|++||..|.-.
T Consensus 10 R~Cp~CG~kFYD-----------Lnk---~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYD-----------LNK---DPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhcc-----------CCC---CCccCCCCCCccCcc
Confidence 467777777732 222 556677777777655
No 64
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.63 E-value=0.17 Score=27.04 Aligned_cols=22 Identities=18% Similarity=0.588 Sum_probs=16.2
Q ss_pred CeecccCccccccCChHHHHHHHH
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSR 44 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~ 44 (223)
+|.|+. |++.|.+...+..|++
T Consensus 3 ~~~C~~--C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKL--CNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccc--cCCccCCHHHHHHHHC
Confidence 467777 8877777777777765
No 65
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=91.37 E-value=0.064 Score=41.97 Aligned_cols=13 Identities=31% Similarity=0.754 Sum_probs=9.9
Q ss_pred ccCCccCCccCCh
Q psy8183 83 HICQYCGKSYTQE 95 (223)
Q Consensus 83 ~~C~~C~~~f~~~ 95 (223)
.+|+.||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5799999877744
No 66
>KOG4124|consensus
Probab=90.10 E-value=0.049 Score=44.86 Aligned_cols=73 Identities=30% Similarity=0.503 Sum_probs=45.4
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHH
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYL 98 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l 98 (223)
.++|.|..|.|.+.++....|+.|..+-+ |.--. ...+ .-+-|....... |+|+|++|.++++....|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h------~s~i~--~~s~-~~~ph~~~~~~n---k~~r~~i~~~~~k~~~~l 414 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGH------CSPIT--TPTP-APIPHQGFVVEN---KPYRCEVCSKRYKNLNGL 414 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCc------CCCCC--CCCC-CCCCcceeeecc---CcccChhhhhhhccCCCC
Confidence 57899999999999998888887755321 11100 0001 111222222223 889999999988887777
Q ss_pred HHHHh
Q psy8183 99 SKHMQ 103 (223)
Q Consensus 99 ~~H~~ 103 (223)
+-|.-
T Consensus 415 ~~~~~ 419 (442)
T KOG4124|consen 415 KYHRT 419 (442)
T ss_pred Cceee
Confidence 66543
No 67
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=88.08 E-value=0.85 Score=31.51 Aligned_cols=27 Identities=22% Similarity=0.370 Sum_probs=23.5
Q ss_pred CcccC----CccCCccCChHHHHHHHhhhcc
Q psy8183 81 KTHIC----QYCGKSYTQETYLSKHMQKHAE 107 (223)
Q Consensus 81 k~~~C----~~C~~~f~~~~~l~~H~~~h~~ 107 (223)
.-|.| ..|++.+.+...|.+|.+.+++
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 34899 9999999999999999988763
No 68
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=87.75 E-value=0.43 Score=33.02 Aligned_cols=33 Identities=33% Similarity=0.667 Sum_probs=24.8
Q ss_pred CCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCc
Q psy8183 18 GDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDE 64 (223)
Q Consensus 18 ~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~ 64 (223)
|.| ..|+. ||+.|... +..|..|+.||..|.-.
T Consensus 7 GtK-R~Cp~--CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 7 GTK-RTCPS--CGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCc-ccCCC--CcchhccC-----------CCCCccCCCCCCccCcc
Confidence 444 47966 99999763 23688999999998766
No 69
>KOG2893|consensus
Probab=87.25 E-value=0.21 Score=39.09 Aligned_cols=50 Identities=40% Similarity=0.661 Sum_probs=38.2
Q ss_pred CCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHH-Hhhhc
Q psy8183 49 DKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKH-MQKHA 106 (223)
Q Consensus 49 ~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H-~~~h~ 106 (223)
.|+| |=+|++.|....-|.+|++. |.|+|.+|.|..-+--.|..| +++|.
T Consensus 9 ~kpw-cwycnrefddekiliqhqka-------khfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKA-------KHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhh-------ccceeeeehhhhccCCCceeehhhhhh
Confidence 4666 88899999999999888753 558899999877666677777 44444
No 70
>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=85.77 E-value=0.41 Score=25.68 Aligned_cols=9 Identities=22% Similarity=0.604 Sum_probs=5.1
Q ss_pred ccCCcCccc
Q psy8183 52 YKCNSCYKC 60 (223)
Q Consensus 52 ~~C~~C~~~ 60 (223)
|+|.+||..
T Consensus 3 ~~C~~CG~i 11 (34)
T cd00729 3 WVCPVCGYI 11 (34)
T ss_pred EECCCCCCE
Confidence 556666543
No 71
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=85.52 E-value=0.26 Score=36.38 Aligned_cols=12 Identities=42% Similarity=0.952 Sum_probs=5.6
Q ss_pred ccCCccCCccCC
Q psy8183 83 HICQYCGKSYTQ 94 (223)
Q Consensus 83 ~~C~~C~~~f~~ 94 (223)
++|..||++|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 444444444443
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=84.56 E-value=0.48 Score=28.20 Aligned_cols=28 Identities=18% Similarity=0.440 Sum_probs=20.7
Q ss_pred CCCCCCeecccCccccccCChHHHHHHHHH
Q psy8183 16 HTGDKPYKCRHPGCVKAFSQLSNLQSHSRC 45 (223)
Q Consensus 16 H~~~k~~~C~~p~C~k~f~~~~~L~~H~~~ 45 (223)
--||..+.|+- |+..|.+...+.+|...
T Consensus 12 RDGE~~lrCPR--C~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 12 RDGEEFLRCPR--CGMVFRRRKDYIRHVNK 39 (65)
T ss_pred cCCceeeeCCc--hhHHHHHhHHHHHHhhH
Confidence 45677778855 88888888888888764
No 73
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=83.67 E-value=0.45 Score=28.35 Aligned_cols=29 Identities=17% Similarity=0.433 Sum_probs=17.6
Q ss_pred CCCCccCCcCcccccCchhHHhhhhhhcC
Q psy8183 48 TDKPYKCNSCYKCFVDETALLEHIPKHKD 76 (223)
Q Consensus 48 ~~k~~~C~~C~~~f~~~~~l~~H~~~h~~ 76 (223)
|+.-+.|+-|+..|.....+.+|...-++
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 44456666666666666666666654443
No 74
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.13 E-value=0.91 Score=32.09 Aligned_cols=33 Identities=21% Similarity=0.420 Sum_probs=20.7
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHH
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYL 98 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l 98 (223)
..|+.||++|.. .+. .|..|++||..|.....+
T Consensus 10 r~Cp~cg~kFYD-----------Lnk---~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 10 RICPNTGSKFYD-----------LNR---RPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred ccCCCcCccccc-----------cCC---CCccCCCcCCccCcchhh
Confidence 468888877732 222 566788888777655333
No 75
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=82.96 E-value=0.74 Score=34.39 Aligned_cols=23 Identities=26% Similarity=0.790 Sum_probs=15.5
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccC
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCG 89 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~ 89 (223)
.|.|.+||+. +-++ -|-+|++||
T Consensus 134 ~~vC~vCGy~-------------~~ge---~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYT-------------HEGE---APEVCPICG 156 (166)
T ss_pred EEEcCCCCCc-------------ccCC---CCCcCCCCC
Confidence 5888888754 3344 667788887
No 76
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=82.34 E-value=1.2 Score=24.20 Aligned_cols=14 Identities=14% Similarity=0.484 Sum_probs=6.8
Q ss_pred cCCcCcccccCchh
Q psy8183 53 KCNSCYKCFVDETA 66 (223)
Q Consensus 53 ~C~~C~~~f~~~~~ 66 (223)
.|+.|+..|.-.+.
T Consensus 4 ~Cp~C~~~y~i~d~ 17 (36)
T PF13717_consen 4 TCPNCQAKYEIDDE 17 (36)
T ss_pred ECCCCCCEEeCCHH
Confidence 45555555544443
No 77
>KOG4124|consensus
Probab=82.20 E-value=0.31 Score=40.29 Aligned_cols=45 Identities=22% Similarity=0.303 Sum_probs=32.3
Q ss_pred CcccCCc--cCCccCChHHHHHHHhhh-------------------cccCCCCCCcCCCCCcccCC
Q psy8183 81 KTHICQY--CGKSYTQETYLSKHMQKH-------------------AERSDKRPPIIGIPRAALEN 125 (223)
Q Consensus 81 k~~~C~~--C~~~f~~~~~l~~H~~~h-------------------~~~~~~~~~~c~~~~~~~~~ 125 (223)
++|.|.+ |.+.++....|+.|...- ...++++|++|.........
T Consensus 348 ~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~ 413 (442)
T KOG4124|consen 348 KPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNG 413 (442)
T ss_pred CCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCC
Confidence 7899976 999999988888886431 13466888888776554433
No 78
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=82.17 E-value=1.2 Score=27.05 Aligned_cols=32 Identities=19% Similarity=0.389 Sum_probs=19.5
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCC
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGK 90 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~ 90 (223)
.|.|+.||..-..+..-- | ..+ .+|+|+.||.
T Consensus 27 ~F~CPnCGe~~I~Rc~~C---R-k~g----~~Y~Cp~CGF 58 (61)
T COG2888 27 KFPCPNCGEVEIYRCAKC---R-KLG----NPYRCPKCGF 58 (61)
T ss_pred EeeCCCCCceeeehhhhH---H-HcC----CceECCCcCc
Confidence 478888886555443321 1 223 6788888885
No 79
>PHA00626 hypothetical protein
Probab=82.14 E-value=0.69 Score=27.60 Aligned_cols=14 Identities=21% Similarity=0.591 Sum_probs=8.9
Q ss_pred CcccCCccCCccCC
Q psy8183 81 KTHICQYCGKSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~~~f~~ 94 (223)
..|+|..||+.|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 45777777766653
No 80
>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=82.00 E-value=1.9 Score=32.03 Aligned_cols=19 Identities=11% Similarity=0.251 Sum_probs=8.9
Q ss_pred CCCeecccCccccccCChHHH
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNL 39 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L 39 (223)
..-|.|+. |+..|+....+
T Consensus 107 ~~~Y~Cp~--c~~r~tf~eA~ 125 (158)
T TIGR00373 107 NMFFICPN--MCVRFTFNEAM 125 (158)
T ss_pred CCeEECCC--CCcEeeHHHHH
Confidence 34455533 55555544444
No 81
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=81.32 E-value=1.1 Score=26.17 Aligned_cols=21 Identities=33% Similarity=0.942 Sum_probs=14.1
Q ss_pred ccCCccCCccCCh-----HHHHHHHh
Q psy8183 83 HICQYCGKSYTQE-----TYLSKHMQ 103 (223)
Q Consensus 83 ~~C~~C~~~f~~~-----~~l~~H~~ 103 (223)
-.|.+|++.+... +.|.+|++
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 3577777766654 57777776
No 82
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=81.05 E-value=1.5 Score=32.65 Aligned_cols=32 Identities=19% Similarity=0.375 Sum_probs=19.9
Q ss_pred CCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCc
Q psy8183 48 TDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKS 91 (223)
Q Consensus 48 ~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~ 91 (223)
+..-|.|+.|+..|+...++. ..|.|+.||..
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~------------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME------------LNFTCPRCGAM 137 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH------------cCCcCCCCCCE
Confidence 344577777777776666653 13677777753
No 83
>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=80.83 E-value=3.2 Score=28.59 Aligned_cols=56 Identities=25% Similarity=0.429 Sum_probs=42.4
Q ss_pred CCCCeecccCccccccCChHHHHHHHHH-hCCC-----------------------------------------CCccC-
Q psy8183 18 GDKPYKCRHPGCVKAFSQLSNLQSHSRC-HQTD-----------------------------------------KPYKC- 54 (223)
Q Consensus 18 ~~k~~~C~~p~C~k~f~~~~~L~~H~~~-h~~~-----------------------------------------k~~~C- 54 (223)
.-+...|.. |+.+..- ..+..|.+. |+.. .-|.|
T Consensus 8 ~~~vlIC~~--C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~ 84 (109)
T PF12013_consen 8 EYRVLICRQ--CQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQ 84 (109)
T ss_pred cCCEEEeCC--CCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeee
Confidence 345678988 9887765 778888874 4310 12889
Q ss_pred ---CcCcccccCchhHHhhhhhhcC
Q psy8183 55 ---NSCYKCFVDETALLEHIPKHKD 76 (223)
Q Consensus 55 ---~~C~~~f~~~~~l~~H~~~h~~ 76 (223)
..|++.+.+...+.+|.+.+++
T Consensus 85 ~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 85 CDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred cCCCCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999988774
No 84
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.79 E-value=8.8 Score=32.07 Aligned_cols=74 Identities=19% Similarity=0.335 Sum_probs=47.1
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCCC----CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCC----
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDK----PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGK---- 90 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k----~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~---- 90 (223)
.+.|.|+. ..-++..|..|...-..+. --.|..|...|...+.|..|++..+. + |.+|++
T Consensus 189 Kk~F~~E~-----~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE----~---ChICD~v~p~ 256 (493)
T COG5236 189 KKDFWNEI-----RLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHE----A---CHICDMVGPI 256 (493)
T ss_pred cccCccce-----eeeecccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhhh----h---hhhhhccCcc
Confidence 45566543 2234556777755322221 13588999999999999999987764 3 555553
Q ss_pred ---ccCChHHHHHHHhh
Q psy8183 91 ---SYTQETYLSKHMQK 104 (223)
Q Consensus 91 ---~f~~~~~l~~H~~~ 104 (223)
-|.....|..|.+.
T Consensus 257 ~~QYFK~Y~~Le~HF~~ 273 (493)
T COG5236 257 RYQYFKSYEDLEAHFRN 273 (493)
T ss_pred chhhhhCHHHHHHHhhc
Confidence 36677788888764
No 85
>KOG2482|consensus
Probab=80.49 E-value=3.6 Score=34.19 Aligned_cols=24 Identities=33% Similarity=0.728 Sum_probs=21.3
Q ss_pred CcccCCccCCccCChHHHHHHHhh
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
..+.|-+|.+.|..+..|+.||+.
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHh
Confidence 347899999999999999999986
No 86
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.02 E-value=1.5 Score=33.22 Aligned_cols=30 Identities=23% Similarity=0.472 Sum_probs=18.0
Q ss_pred CCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCc
Q psy8183 50 KPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKS 91 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~ 91 (223)
.-|.|+.|+..|+....+. ..|.|+.||-.
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~------------~~F~Cp~Cg~~ 145 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME------------YGFRCPQCGEM 145 (178)
T ss_pred CEEECCCCCcEEeHHHHhh------------cCCcCCCCCCC
Confidence 4467777777666555531 23677777753
No 87
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=79.63 E-value=0.89 Score=29.85 Aligned_cols=12 Identities=25% Similarity=0.858 Sum_probs=7.3
Q ss_pred cccCCccCCccC
Q psy8183 82 THICQYCGKSYT 93 (223)
Q Consensus 82 ~~~C~~C~~~f~ 93 (223)
-+.|..||..|.
T Consensus 53 IW~C~kCg~~fA 64 (89)
T COG1997 53 IWKCRKCGAKFA 64 (89)
T ss_pred eEEcCCCCCeec
Confidence 356666666654
No 88
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=78.38 E-value=2.6 Score=30.88 Aligned_cols=37 Identities=24% Similarity=0.434 Sum_probs=21.5
Q ss_pred CCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCcc
Q psy8183 49 DKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSY 92 (223)
Q Consensus 49 ~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f 92 (223)
..-|.|+.|+..|.....+.. ... . ..|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~d~-~---~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---LDM-D---GTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---cCC-C---CcEECCCCCCEE
Confidence 345778888877775444321 011 1 347888887644
No 89
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=77.75 E-value=1.5 Score=23.81 Aligned_cols=10 Identities=20% Similarity=0.843 Sum_probs=5.0
Q ss_pred ccCCcCcccc
Q psy8183 52 YKCNSCYKCF 61 (223)
Q Consensus 52 ~~C~~C~~~f 61 (223)
..|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4455555444
No 90
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=76.94 E-value=2.6 Score=31.98 Aligned_cols=36 Identities=14% Similarity=0.459 Sum_probs=27.3
Q ss_pred CCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccC
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVD 63 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~ 63 (223)
....-|.|+. |+..|+....+. .-|.|+.||.....
T Consensus 113 ~~~~~Y~Cp~--C~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 113 ENNMFFFCPN--CHIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred cCCCEEECCC--CCcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 3456799966 999999877653 35999999976544
No 91
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.60 E-value=0.51 Score=36.95 Aligned_cols=44 Identities=25% Similarity=0.460 Sum_probs=29.3
Q ss_pred CCCeecccCccccccCChHHHHHHHHH---h-------CCCCC-----ccCCcCcccccCc
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRC---H-------QTDKP-----YKCNSCYKCFVDE 64 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~---h-------~~~k~-----~~C~~C~~~f~~~ 64 (223)
++.+.|+. |++.|..+.-.....+. . .+..| +.|+.||..+...
T Consensus 3 ~k~~~CPv--C~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPV--CGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCC--CCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 46689977 99999977544444332 1 11222 6799999988765
No 92
>KOG2785|consensus
Probab=75.27 E-value=2.9 Score=35.22 Aligned_cols=53 Identities=21% Similarity=0.323 Sum_probs=43.1
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCC--------------------CCCcccCCccC---CccCChHHHHHHHhh
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSK--------------------HLKTHICQYCG---KSYTQETYLSKHMQK 104 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~--------------------~~k~~~C~~C~---~~f~~~~~l~~H~~~ 104 (223)
-.|-.|++.+..-..-..||..+|+-- -..-|.|-.|. +.|.+....+.||..
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 458889999999888889998877632 11458899999 999999999999975
No 93
>KOG2186|consensus
Probab=75.13 E-value=2 Score=34.07 Aligned_cols=47 Identities=17% Similarity=0.420 Sum_probs=34.5
Q ss_pred eecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPK 73 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~ 73 (223)
|.|.. ||.... +..|.+|+-..++ .-|.|--|++.|.+ ..+..|..-
T Consensus 4 FtCnv--CgEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 4 FTCNV--CGESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred Eehhh--hhhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 67877 887766 4557778877666 45888888888887 666677654
No 94
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=74.85 E-value=2.2 Score=23.24 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=5.1
Q ss_pred CccCCcCcccc
Q psy8183 51 PYKCNSCYKCF 61 (223)
Q Consensus 51 ~~~C~~C~~~f 61 (223)
..+|..|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 34455554443
No 95
>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=74.62 E-value=3.1 Score=20.73 Aligned_cols=20 Identities=20% Similarity=0.566 Sum_probs=15.0
Q ss_pred cCCccCCccCChHHHHHHHhh
Q psy8183 84 ICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 84 ~C~~C~~~f~~~~~l~~H~~~ 104 (223)
.|++|++.+ ....+..|+..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 3 QCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHHH
Confidence 588888887 56677788753
No 96
>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=74.26 E-value=1.8 Score=31.14 Aligned_cols=25 Identities=28% Similarity=0.624 Sum_probs=16.2
Q ss_pred CcccCCccCCccCChHHHHHHHhhhccc
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHAER 108 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~~~ 108 (223)
.-..|-+||+.|... ++|++.|++.
T Consensus 71 d~i~clecGk~~k~L---krHL~~~~gl 95 (132)
T PF05443_consen 71 DYIICLECGKKFKTL---KRHLRTHHGL 95 (132)
T ss_dssp S-EE-TBT--EESBH---HHHHHHTT-S
T ss_pred CeeEEccCCcccchH---HHHHHHccCC
Confidence 446799999999864 8999999654
No 97
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.85 E-value=5.5 Score=29.13 Aligned_cols=41 Identities=24% Similarity=0.532 Sum_probs=27.3
Q ss_pred CCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccC
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVD 63 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~ 63 (223)
.+..-|.|+. |+..|.....+.. ... ...|.|+.||.....
T Consensus 95 ~~~~~Y~Cp~--C~~~y~~~ea~~~---~d~-~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 95 TNNAYYKCPN--CQSKYTFLEANQL---LDM-DGTFTCPRCGEELEE 135 (147)
T ss_pred cCCcEEECcC--CCCEeeHHHHHHh---cCC-CCcEECCCCCCEEEE
Confidence 4456799966 9999996554332 111 344999999986643
No 98
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=73.45 E-value=1.4 Score=28.01 Aligned_cols=41 Identities=17% Similarity=0.382 Sum_probs=22.1
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCC--ccCCccCChHH
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQ--YCGKSYTQETY 97 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~--~C~~~f~~~~~ 97 (223)
+.|+.||........-..... ..+ +-++|. .||.+|.....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~---~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKE---RYHQCQNVNCSATFITYES 44 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hhe---eeeecCCCCCCCEEEEEEE
Confidence 467778765533333211111 222 567786 68888876543
No 99
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.32 E-value=5.2 Score=27.78 Aligned_cols=81 Identities=19% Similarity=0.252 Sum_probs=49.6
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCCCC------------ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCC
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKP------------YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQ 86 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~------------~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~ 86 (223)
+-|-.|+. |+-..-....|.+-...-..-++ -.|--|...|........-. -... ..|+|.
T Consensus 13 ~LP~~Cpi--CgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~~--~~~~---~~y~C~ 85 (112)
T TIGR00622 13 ELPVECPI--CGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFDE--LKDS---HRYVCA 85 (112)
T ss_pred CCCCcCCc--CCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCcccccccc--cccc---cceeCC
Confidence 34677866 88887777777754211001111 23888888887543211000 1111 568999
Q ss_pred ccCCccCChHHHHHHHhhhc
Q psy8183 87 YCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 87 ~C~~~f~~~~~l~~H~~~h~ 106 (223)
.|...|-..-++..|...|.
T Consensus 86 ~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 86 VCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred CCCCccccccchhhhhhccC
Confidence 99999998888888887775
No 100
>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=70.60 E-value=1.2 Score=26.09 Aligned_cols=12 Identities=33% Similarity=0.969 Sum_probs=6.8
Q ss_pred eecccCccccccCC
Q psy8183 22 YKCRHPGCVKAFSQ 35 (223)
Q Consensus 22 ~~C~~p~C~k~f~~ 35 (223)
|.|.. |+..|..
T Consensus 6 y~C~~--Cg~~fe~ 17 (52)
T TIGR02605 6 YRCTA--CGHRFEV 17 (52)
T ss_pred EEeCC--CCCEeEE
Confidence 55655 6666553
No 101
>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=70.34 E-value=3.4 Score=29.28 Aligned_cols=33 Identities=24% Similarity=0.268 Sum_probs=24.5
Q ss_pred eecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhH
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETAL 67 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l 67 (223)
..|+. ||+.|... +..|..|+.||..|.-...+
T Consensus 10 r~Cp~--cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~ 42 (129)
T TIGR02300 10 RICPN--TGSKFYDL-----------NRRPAVSPYTGEQFPPEEAL 42 (129)
T ss_pred ccCCC--cCcccccc-----------CCCCccCCCcCCccCcchhh
Confidence 47966 99999752 34688999999988665343
No 102
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=69.40 E-value=3.7 Score=24.93 Aligned_cols=32 Identities=19% Similarity=0.487 Sum_probs=18.1
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCC
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGK 90 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~ 90 (223)
.|.|+.||.....+..- -|.. + .+|+|+.||.
T Consensus 25 ~F~CPnCG~~~I~RC~~---CRk~-~----~~Y~CP~CGF 56 (59)
T PRK14890 25 KFLCPNCGEVIIYRCEK---CRKQ-S----NPYTCPKCGF 56 (59)
T ss_pred EeeCCCCCCeeEeechh---HHhc-C----CceECCCCCC
Confidence 47788888763333221 1112 2 5688888875
No 103
>KOG2593|consensus
Probab=67.71 E-value=6.5 Score=33.82 Aligned_cols=37 Identities=24% Similarity=0.516 Sum_probs=24.6
Q ss_pred CCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCC
Q psy8183 48 TDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGK 90 (223)
Q Consensus 48 ~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~ 90 (223)
...-|.|+.|.+.|..-..++ ..--.. -.|.|..|+-
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~---~~F~C~~C~g 161 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQ---LLDNET---GEFHCENCGG 161 (436)
T ss_pred ccccccCCccccchhhhHHHH---hhcccC---ceEEEecCCC
Confidence 445699999999997766653 222212 4688988864
No 104
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=66.69 E-value=3.1 Score=23.75 Aligned_cols=29 Identities=21% Similarity=0.455 Sum_probs=15.3
Q ss_pred CeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccc
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCF 61 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f 61 (223)
.|.|.. ||..|..... ...+.|+.||..+
T Consensus 3 ~y~C~~--CG~~~~~~~~----------~~~~~Cp~CG~~~ 31 (46)
T PRK00398 3 EYKCAR--CGREVELDEY----------GTGVRCPYCGYRI 31 (46)
T ss_pred EEECCC--CCCEEEECCC----------CCceECCCCCCeE
Confidence 366744 7766543221 1145677776544
No 105
>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=66.29 E-value=1.6 Score=24.03 Aligned_cols=11 Identities=36% Similarity=1.192 Sum_probs=6.2
Q ss_pred eecccCccccccC
Q psy8183 22 YKCRHPGCVKAFS 34 (223)
Q Consensus 22 ~~C~~p~C~k~f~ 34 (223)
|.|.. ||..|.
T Consensus 6 y~C~~--Cg~~fe 16 (41)
T smart00834 6 YRCED--CGHTFE 16 (41)
T ss_pred EEcCC--CCCEEE
Confidence 55644 666554
No 106
>KOG2785|consensus
Probab=65.87 E-value=7.2 Score=32.94 Aligned_cols=53 Identities=21% Similarity=0.293 Sum_probs=44.1
Q ss_pred CCeecccCccccccCChHHHHHHHHHhCCC-----------------------CCccCCcCc---ccccCchhHHhhhhh
Q psy8183 20 KPYKCRHPGCVKAFSQLSNLQSHSRCHQTD-----------------------KPYKCNSCY---KCFVDETALLEHIPK 73 (223)
Q Consensus 20 k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~-----------------------k~~~C~~C~---~~f~~~~~l~~H~~~ 73 (223)
-|-.|-. |++.|.+...-..||..+++- .-+.|-.|+ +.|.+-...+.||..
T Consensus 165 ~Pt~CLf--C~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLF--CDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceee--cCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4567988 999999999999999987652 347899999 999999999999974
Q ss_pred h
Q psy8183 74 H 74 (223)
Q Consensus 74 h 74 (223)
.
T Consensus 243 K 243 (390)
T KOG2785|consen 243 K 243 (390)
T ss_pred c
Confidence 4
No 107
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=65.14 E-value=3 Score=32.58 Aligned_cols=21 Identities=29% Similarity=0.741 Sum_probs=9.2
Q ss_pred ccCCccCCccCChHHHHHHHh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQ 103 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~ 103 (223)
|.|..|+|.|.-..-..+|+.
T Consensus 78 ~~C~lc~KlFkg~eFV~KHI~ 98 (214)
T PF04959_consen 78 WRCPLCGKLFKGPEFVRKHIF 98 (214)
T ss_dssp EEE-SSS-EESSHHHHHHHHH
T ss_pred ECCCCCCcccCChHHHHHHHh
Confidence 445445555544444444443
No 108
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=64.99 E-value=4.9 Score=22.87 Aligned_cols=8 Identities=25% Similarity=0.791 Sum_probs=4.1
Q ss_pred ccCCcCcc
Q psy8183 52 YKCNSCYK 59 (223)
Q Consensus 52 ~~C~~C~~ 59 (223)
.+|+.||.
T Consensus 20 irC~~CG~ 27 (44)
T smart00659 20 VRCRECGY 27 (44)
T ss_pred eECCCCCc
Confidence 45555554
No 109
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=64.57 E-value=6.8 Score=21.99 Aligned_cols=25 Identities=36% Similarity=0.573 Sum_probs=14.1
Q ss_pred CCCCeecccCccccccCCh----HHHHHHHH
Q psy8183 18 GDKPYKCRHPGCVKAFSQL----SNLQSHSR 44 (223)
Q Consensus 18 ~~k~~~C~~p~C~k~f~~~----~~L~~H~~ 44 (223)
++....|.+ |++.+... .+|.+|++
T Consensus 13 ~~~~a~C~~--C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKY--CGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETT--TTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCC--CCeEEeeCCCcHHHHHHhhh
Confidence 445577877 88877653 67777774
No 110
>KOG4167|consensus
Probab=64.39 E-value=1.9 Score=39.42 Aligned_cols=25 Identities=28% Similarity=0.712 Sum_probs=22.6
Q ss_pred CeecccCccccccCChHHHHHHHHHhC
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRCHQ 47 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~h~ 47 (223)
-|.|.+ |+|.|.....+..||++|.
T Consensus 792 iFpCre--C~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRE--CGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHH--HHHHHHHHhhhhHHHHHHH
Confidence 499999 9999999999999999985
No 111
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=62.81 E-value=3.8 Score=32.00 Aligned_cols=29 Identities=21% Similarity=0.439 Sum_probs=22.9
Q ss_pred CCCccCCcCcccccCchhHHhhhhhhcCC
Q psy8183 49 DKPYKCNSCYKCFVDETALLEHIPKHKDS 77 (223)
Q Consensus 49 ~k~~~C~~C~~~f~~~~~l~~H~~~h~~~ 77 (223)
+..|.|..|+|.|.-...+..|+..-|.+
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 44599999999999999999999887765
No 112
>KOG2071|consensus
Probab=62.77 E-value=6.9 Score=35.04 Aligned_cols=28 Identities=25% Similarity=0.554 Sum_probs=23.5
Q ss_pred CCCCeecccCccccccCChHHHHHHHHHhC
Q psy8183 18 GDKPYKCRHPGCVKAFSQLSNLQSHSRCHQ 47 (223)
Q Consensus 18 ~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~ 47 (223)
..++..|.. ||..|.+......||..|-
T Consensus 415 ~~~pnqC~~--CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKS--CGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcc--cccccccchhhhhHhhhhh
Confidence 467789988 9999999988888887763
No 113
>PF14353 CpXC: CpXC protein
Probab=61.76 E-value=7.2 Score=27.64 Aligned_cols=16 Identities=38% Similarity=0.632 Sum_probs=8.5
Q ss_pred ccCCcCcccccCchhH
Q psy8183 52 YKCNSCYKCFVDETAL 67 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l 67 (223)
|.|+.||..|.-...+
T Consensus 39 ~~CP~Cg~~~~~~~p~ 54 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPL 54 (128)
T ss_pred EECCCCCCceecCCCE
Confidence 5566666655444333
No 114
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=61.16 E-value=12 Score=29.86 Aligned_cols=71 Identities=17% Similarity=0.374 Sum_probs=40.7
Q ss_pred HHHHHHHHHhCCC-----CCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCC
Q psy8183 6 QELTMEIRRTHTG-----DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHL 80 (223)
Q Consensus 6 ~~~~~~h~~~H~~-----~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 80 (223)
++.|+.+.+.+.+ ++.|.|.. |....- .+.-.....-.|..|.+.|.-... ..-.|.
T Consensus 92 e~Nlrm~d~a~~~~ip~~drqFaC~~--Cd~~Ww--------Rrvp~rKeVSRCr~C~~rYDPVP~-----dkmwG~--- 153 (278)
T PF15135_consen 92 EENLRMFDDAQENLIPSVDRQFACSS--CDHMWW--------RRVPQRKEVSRCRKCRKRYDPVPC-----DKMWGI--- 153 (278)
T ss_pred HHHHHHhhhhhhccccccceeeeccc--cchHHH--------hccCcccccccccccccccCCCcc-----ccccce---
Confidence 4455666665544 37799976 964421 122122233568888877753321 112233
Q ss_pred CcccCCccCCccCC
Q psy8183 81 KTHICQYCGKSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~~~f~~ 94 (223)
-.|.|..|+..|.-
T Consensus 154 aef~C~~C~h~F~G 167 (278)
T PF15135_consen 154 AEFHCPKCRHNFRG 167 (278)
T ss_pred eeeecccccccchh
Confidence 56899999998873
No 115
>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=60.35 E-value=3.1 Score=23.32 Aligned_cols=12 Identities=33% Similarity=1.035 Sum_probs=6.4
Q ss_pred eecccCccccccCC
Q psy8183 22 YKCRHPGCVKAFSQ 35 (223)
Q Consensus 22 ~~C~~p~C~k~f~~ 35 (223)
|.|.. ||..|..
T Consensus 6 y~C~~--Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEE--CGHEFEV 17 (42)
T ss_pred EEeCC--CCCEEEE
Confidence 55544 6655543
No 116
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=60.13 E-value=2.7 Score=22.81 Aligned_cols=8 Identities=25% Similarity=0.679 Sum_probs=3.7
Q ss_pred cCCcCccc
Q psy8183 53 KCNSCYKC 60 (223)
Q Consensus 53 ~C~~C~~~ 60 (223)
.|+.||..
T Consensus 23 ~Cd~cg~~ 30 (36)
T PF05191_consen 23 VCDNCGGE 30 (36)
T ss_dssp BCTTTTEB
T ss_pred ccCCCCCe
Confidence 44444443
No 117
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=59.30 E-value=11 Score=20.99 Aligned_cols=25 Identities=24% Similarity=0.464 Sum_probs=16.1
Q ss_pred cccCCccCCccC--ChHHHHHHHhhhc
Q psy8183 82 THICQYCGKSYT--QETYLSKHMQKHA 106 (223)
Q Consensus 82 ~~~C~~C~~~f~--~~~~l~~H~~~h~ 106 (223)
.-.|..||..|. ....-+.|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 346888887666 4456667766664
No 118
>KOG2593|consensus
Probab=58.40 E-value=11 Score=32.57 Aligned_cols=40 Identities=25% Similarity=0.553 Sum_probs=28.1
Q ss_pred CCCCCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccc
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCF 61 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f 61 (223)
+...-|.|+. |.+.|.....++. .-...-.|.|..|+...
T Consensus 124 t~~~~Y~Cp~--C~kkyt~Lea~~L---~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 124 TNVAGYVCPN--CQKKYTSLEALQL---LDNETGEFHCENCGGEL 163 (436)
T ss_pred cccccccCCc--cccchhhhHHHHh---hcccCceEEEecCCCch
Confidence 4456799966 9999998766553 22234469999998654
No 119
>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=58.04 E-value=7.2 Score=28.01 Aligned_cols=26 Identities=31% Similarity=0.488 Sum_probs=15.1
Q ss_pred CCeecccCccccccCChHHHHHHHHHhCCCC
Q psy8183 20 KPYKCRHPGCVKAFSQLSNLQSHSRCHQTDK 50 (223)
Q Consensus 20 k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k 50 (223)
..-.|-+ ||+.|+. |++|.+.|+|-.
T Consensus 71 d~i~cle--cGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 71 DYIICLE--CGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp S-EE-TB--T--EESB---HHHHHHHTT-S-
T ss_pred CeeEEcc--CCcccch---HHHHHHHccCCC
Confidence 3357877 9998876 588988887643
No 120
>KOG4173|consensus
Probab=57.66 E-value=5.5 Score=30.73 Aligned_cols=52 Identities=23% Similarity=0.457 Sum_probs=41.9
Q ss_pred eecccCccccccCChHHHHHHHHH-h---------CCCCCccCCc--CcccccCchhHHhhhhhhc
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRC-H---------QTDKPYKCNS--CYKCFVDETALLEHIPKHK 75 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~-h---------~~~k~~~C~~--C~~~f~~~~~l~~H~~~h~ 75 (223)
..|.. |.+.|.+...|..|+.. | .|.--|.|-+ |+..|.+...-+.|+-.-+
T Consensus 107 ~sCs~--C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 107 NSCSF--CKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred chhHH--HHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 48988 99999999999999864 2 2334588965 9999999999999986544
No 121
>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=56.19 E-value=18 Score=20.59 Aligned_cols=10 Identities=30% Similarity=0.620 Sum_probs=6.1
Q ss_pred CcccCCccCC
Q psy8183 81 KTHICQYCGK 90 (223)
Q Consensus 81 k~~~C~~C~~ 90 (223)
..|+|..|++
T Consensus 36 ~~~~C~~C~~ 45 (46)
T PF12760_consen 36 GRYRCKACRK 45 (46)
T ss_pred CeEECCCCCC
Confidence 5566666654
No 122
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.84 E-value=6.7 Score=26.97 Aligned_cols=12 Identities=42% Similarity=0.791 Sum_probs=8.2
Q ss_pred CcccCCccCCcc
Q psy8183 81 KTHICQYCGKSY 92 (223)
Q Consensus 81 k~~~C~~C~~~f 92 (223)
.|..|++||++|
T Consensus 25 dPiVsPytG~s~ 36 (129)
T COG4530 25 DPIVSPYTGKSY 36 (129)
T ss_pred CccccCcccccc
Confidence 566677777776
No 123
>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=54.68 E-value=7.1 Score=19.46 Aligned_cols=8 Identities=38% Similarity=1.277 Sum_probs=4.3
Q ss_pred CCccCCcc
Q psy8183 85 CQYCGKSY 92 (223)
Q Consensus 85 C~~C~~~f 92 (223)
|+.||+.|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 55555555
No 124
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=54.58 E-value=7.8 Score=22.62 Aligned_cols=11 Identities=36% Similarity=0.999 Sum_probs=6.1
Q ss_pred CeecccCcccccc
Q psy8183 21 PYKCRHPGCVKAF 33 (223)
Q Consensus 21 ~~~C~~p~C~k~f 33 (223)
.|.|-. ||+.|
T Consensus 6 ~Y~C~~--Cg~~~ 16 (49)
T COG1996 6 EYKCAR--CGREV 16 (49)
T ss_pred EEEhhh--cCCee
Confidence 355654 66555
No 125
>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=54.13 E-value=4.6 Score=29.44 Aligned_cols=16 Identities=19% Similarity=0.368 Sum_probs=9.7
Q ss_pred ccCCcCcccccCchhH
Q psy8183 52 YKCNSCYKCFVDETAL 67 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l 67 (223)
-.|..|++.|++-..+
T Consensus 29 ReC~~C~~RFTTyErv 44 (147)
T TIGR00244 29 RECLECHERFTTFERA 44 (147)
T ss_pred ccCCccCCccceeeec
Confidence 4566677766665443
No 126
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=53.71 E-value=9 Score=22.91 Aligned_cols=20 Identities=20% Similarity=0.414 Sum_probs=8.4
Q ss_pred HHHHHHHHHhCCCCCccCCc
Q psy8183 37 SNLQSHSRCHQTDKPYKCNS 56 (223)
Q Consensus 37 ~~L~~H~~~h~~~k~~~C~~ 56 (223)
..|..|+...-..++..|.+
T Consensus 24 ~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 24 KELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CCHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHHccCCCCcEECCC
Confidence 34555555333333444555
No 127
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.65 E-value=3 Score=32.70 Aligned_cols=19 Identities=26% Similarity=0.471 Sum_probs=10.4
Q ss_pred CCccCCcCcccccCchhHH
Q psy8183 50 KPYKCNSCYKCFVDETALL 68 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~ 68 (223)
+.+.|++|+..|..+..+.
T Consensus 18 k~ieCPvC~tkFkkeev~t 36 (267)
T COG1655 18 KTIECPVCNTKFKKEEVKT 36 (267)
T ss_pred ceeccCcccchhhhhheec
Confidence 3456666666665544433
No 128
>KOG2932|consensus
Probab=53.63 E-value=84 Score=26.09 Aligned_cols=26 Identities=19% Similarity=0.512 Sum_probs=21.9
Q ss_pred CcccCCc---cCCccCChHHHHHHHhhhc
Q psy8183 81 KTHICQY---CGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 81 k~~~C~~---C~~~f~~~~~l~~H~~~h~ 106 (223)
-.|.|.. |.++|....+|.-|+..-+
T Consensus 143 ~iFmC~~~~GC~RTyLsqrDlqAHInhrH 171 (389)
T KOG2932|consen 143 GIFMCAAPHGCLRTYLSQRDLQAHINHRH 171 (389)
T ss_pred ceEEeecchhHHHHHhhHHHHHHHhhhhh
Confidence 6799965 9999999999999987543
No 129
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=53.24 E-value=5.1 Score=29.33 Aligned_cols=15 Identities=20% Similarity=0.379 Sum_probs=8.9
Q ss_pred ccCCcCcccccCchh
Q psy8183 52 YKCNSCYKCFVDETA 66 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~ 66 (223)
-.|..|+..|++-..
T Consensus 29 ReC~~C~~RFTTfE~ 43 (156)
T COG1327 29 RECLECGERFTTFER 43 (156)
T ss_pred hcccccccccchhhe
Confidence 356667766665443
No 130
>PRK04023 DNA polymerase II large subunit; Validated
Probab=50.91 E-value=22 Score=34.20 Aligned_cols=9 Identities=22% Similarity=0.556 Sum_probs=6.4
Q ss_pred ccCCcCccc
Q psy8183 52 YKCNSCYKC 60 (223)
Q Consensus 52 ~~C~~C~~~ 60 (223)
+.|+.||..
T Consensus 639 frCP~CG~~ 647 (1121)
T PRK04023 639 RRCPFCGTH 647 (1121)
T ss_pred ccCCCCCCC
Confidence 578888764
No 131
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=50.76 E-value=3.9 Score=22.72 Aligned_cols=13 Identities=23% Similarity=0.738 Sum_probs=8.1
Q ss_pred CcccCCccCCccC
Q psy8183 81 KTHICQYCGKSYT 93 (223)
Q Consensus 81 k~~~C~~C~~~f~ 93 (223)
.-|.|..|+..+.
T Consensus 27 ~fy~C~~C~~~w~ 39 (40)
T smart00440 27 VFYVCTKCGHRWR 39 (40)
T ss_pred EEEEeCCCCCEeC
Confidence 4477777776553
No 132
>KOG4167|consensus
Probab=50.39 E-value=3.1 Score=38.07 Aligned_cols=27 Identities=26% Similarity=0.536 Sum_probs=24.1
Q ss_pred CcccCCccCCccCChHHHHHHHhhhcc
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHAE 107 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~~ 107 (223)
.-|.|..|+|.|....++.-||++|..
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 459999999999999999999999864
No 133
>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=50.37 E-value=7.4 Score=20.18 Aligned_cols=9 Identities=33% Similarity=1.029 Sum_probs=4.7
Q ss_pred CcccCCccC
Q psy8183 81 KTHICQYCG 89 (223)
Q Consensus 81 k~~~C~~C~ 89 (223)
-.|.|+.|+
T Consensus 18 ~~~vCp~C~ 26 (30)
T PF08274_consen 18 ELLVCPECG 26 (30)
T ss_dssp SSEEETTTT
T ss_pred CEEeCCccc
Confidence 345555554
No 134
>KOG4377|consensus
Probab=49.89 E-value=21 Score=30.60 Aligned_cols=100 Identities=17% Similarity=0.326 Sum_probs=58.4
Q ss_pred HHHHHHHHHhCCCC------------CCeecccCccccccCChHHHHHHHHHhCCC-------CCccCCcCc--ccccCc
Q psy8183 6 QELTMEIRRTHTGD------------KPYKCRHPGCVKAFSQLSNLQSHSRCHQTD-------KPYKCNSCY--KCFVDE 64 (223)
Q Consensus 6 ~~~~~~h~~~H~~~------------k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~-------k~~~C~~C~--~~f~~~ 64 (223)
+.....|.+.|... ..|.|-..+|++ +-+++..|...|+.. .-|.|..|+ -.|...
T Consensus 286 k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~GfrrthfhC~r~gCTdtfK~~ 362 (480)
T KOG4377|consen 286 KNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTHFHCQRIGCTDTFKDS 362 (480)
T ss_pred hhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceecceeEEeccCCccccccc
Confidence 55666677666431 237888888998 455667776666432 236787776 444422
Q ss_pred hhHHhhhhhhcCCCC---------------------CCcccCCc--cCCccCChHHHHHHHhhhccc
Q psy8183 65 TALLEHIPKHKDSKH---------------------LKTHICQY--CGKSYTQETYLSKHMQKHAER 108 (223)
Q Consensus 65 ~~l~~H~~~h~~~~~---------------------~k~~~C~~--C~~~f~~~~~l~~H~~~h~~~ 108 (223)
..-..|.+-+.++.. -..|.|.. |+..+...+.+..|.+.|...
T Consensus 363 khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 363 KHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred cccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhhhhhhh
Confidence 222222222222110 02244543 888888999999999888654
No 135
>PF15269 zf-C2H2_7: Zinc-finger
Probab=49.21 E-value=10 Score=21.52 Aligned_cols=22 Identities=27% Similarity=0.584 Sum_probs=14.7
Q ss_pred ccCCcCcccccCchhHHhhhhh
Q psy8183 52 YKCNSCYKCFVDETALLEHIPK 73 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~ 73 (223)
|+|-.|......++.|-.||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5677777666666777766653
No 136
>PRK12496 hypothetical protein; Provisional
Probab=48.78 E-value=13 Score=27.70 Aligned_cols=12 Identities=33% Similarity=0.858 Sum_probs=7.8
Q ss_pred CeecccCccccccC
Q psy8183 21 PYKCRHPGCVKAFS 34 (223)
Q Consensus 21 ~~~C~~p~C~k~f~ 34 (223)
.|.| +||++.|.
T Consensus 127 ~~~C--~gC~~~~~ 138 (164)
T PRK12496 127 RKVC--KGCKKKYP 138 (164)
T ss_pred eEEC--CCCCcccc
Confidence 3677 55777764
No 137
>KOG1280|consensus
Probab=48.67 E-value=15 Score=30.79 Aligned_cols=39 Identities=18% Similarity=0.432 Sum_probs=25.7
Q ss_pred CCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccC
Q psy8183 50 KPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCG 89 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~ 89 (223)
..|.|++|++.-.+...|..|....+.+.. -...|.+|+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~-~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEAS-TSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccC-cceeeeccc
Confidence 358888888887788888888776665532 223455554
No 138
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=47.28 E-value=10 Score=27.16 Aligned_cols=24 Identities=25% Similarity=0.256 Sum_probs=17.7
Q ss_pred eecccCccccccCChHHHHHHHHHhCCCC
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCHQTDK 50 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h~~~k 50 (223)
..|-+ |||.|++ |++|..+|.+--
T Consensus 77 IicLE--DGkkfKS---LKRHL~t~~gmT 100 (148)
T COG4957 77 IICLE--DGKKFKS---LKRHLTTHYGLT 100 (148)
T ss_pred EEEec--cCcchHH---HHHHHhcccCCC
Confidence 46866 8888864 888888877643
No 139
>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=45.53 E-value=14 Score=22.84 Aligned_cols=14 Identities=21% Similarity=0.672 Sum_probs=9.5
Q ss_pred CcccCCccCCccCC
Q psy8183 81 KTHICQYCGKSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~~~f~~ 94 (223)
+.|.|..||..+.+
T Consensus 45 r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 45 RVFTCPNCGFEMDR 58 (69)
T ss_pred ceEEcCCCCCEECc
Confidence 66778878776543
No 140
>COG1773 Rubredoxin [Energy production and conversion]
Probab=45.05 E-value=8.1 Score=23.14 Aligned_cols=16 Identities=38% Similarity=0.765 Sum_probs=12.5
Q ss_pred CcccCCccCCccCChH
Q psy8183 81 KTHICQYCGKSYTQET 96 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~ 96 (223)
+.|+|..||..|.-..
T Consensus 2 ~~~~C~~CG~vYd~e~ 17 (55)
T COG1773 2 KRWRCSVCGYVYDPEK 17 (55)
T ss_pred CceEecCCceEecccc
Confidence 4689999999887543
No 141
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=44.73 E-value=6.9 Score=26.47 Aligned_cols=11 Identities=36% Similarity=1.047 Sum_probs=6.6
Q ss_pred ccCCccCCccC
Q psy8183 83 HICQYCGKSYT 93 (223)
Q Consensus 83 ~~C~~C~~~f~ 93 (223)
..|.+||.+|.
T Consensus 47 ~~Cg~CGls~e 57 (104)
T COG4888 47 AVCGNCGLSFE 57 (104)
T ss_pred EEcccCcceEE
Confidence 45666666554
No 142
>KOG0978|consensus
Probab=43.69 E-value=10 Score=34.96 Aligned_cols=19 Identities=16% Similarity=0.452 Sum_probs=11.5
Q ss_pred ccCCccCCccCChHHHHHH
Q psy8183 83 HICQYCGKSYTQETYLSKH 101 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H 101 (223)
-+|+.|+..|...+.+..|
T Consensus 679 RKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 679 RKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred CCCCCCCCCCCcccccccC
Confidence 3577777777665554443
No 143
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=43.59 E-value=14 Score=21.59 Aligned_cols=9 Identities=33% Similarity=0.848 Sum_probs=4.8
Q ss_pred ccCCccCCc
Q psy8183 83 HICQYCGKS 91 (223)
Q Consensus 83 ~~C~~C~~~ 91 (223)
+.|..||..
T Consensus 38 ~~C~~Cgyt 46 (50)
T PRK00432 38 WHCGKCGYT 46 (50)
T ss_pred EECCCcCCE
Confidence 455555543
No 144
>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=43.51 E-value=13 Score=23.00 Aligned_cols=13 Identities=15% Similarity=0.539 Sum_probs=4.6
Q ss_pred CccCCcCcccccC
Q psy8183 51 PYKCNSCYKCFVD 63 (223)
Q Consensus 51 ~~~C~~C~~~f~~ 63 (223)
.+.|..||..|-.
T Consensus 25 rhhCr~CG~~vC~ 37 (69)
T PF01363_consen 25 RHHCRNCGRVVCS 37 (69)
T ss_dssp EEE-TTT--EEEC
T ss_pred eEccCCCCCEECC
Confidence 3445555554443
No 145
>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=42.95 E-value=14 Score=19.40 Aligned_cols=8 Identities=25% Similarity=0.870 Sum_probs=3.3
Q ss_pred ccCCcCcc
Q psy8183 52 YKCNSCYK 59 (223)
Q Consensus 52 ~~C~~C~~ 59 (223)
.+|..||.
T Consensus 18 irC~~CG~ 25 (32)
T PF03604_consen 18 IRCPECGH 25 (32)
T ss_dssp SSBSSSS-
T ss_pred EECCcCCC
Confidence 34444443
No 146
>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=42.13 E-value=13 Score=18.20 Aligned_cols=9 Identities=33% Similarity=0.877 Sum_probs=4.7
Q ss_pred CcccCCccC
Q psy8183 81 KTHICQYCG 89 (223)
Q Consensus 81 k~~~C~~C~ 89 (223)
-.|.|+.||
T Consensus 15 v~f~CPnCG 23 (24)
T PF07754_consen 15 VPFPCPNCG 23 (24)
T ss_pred ceEeCCCCC
Confidence 345555555
No 147
>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=41.52 E-value=19 Score=20.25 Aligned_cols=16 Identities=31% Similarity=0.814 Sum_probs=11.8
Q ss_pred cCCccCCccCChHHHH
Q psy8183 84 ICQYCGKSYTQETYLS 99 (223)
Q Consensus 84 ~C~~C~~~f~~~~~l~ 99 (223)
.|.+|++.|+......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 5888888888765543
No 148
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=40.85 E-value=6.7 Score=26.09 Aligned_cols=31 Identities=29% Similarity=0.604 Sum_probs=16.6
Q ss_pred CCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccC
Q psy8183 50 KPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYT 93 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~ 93 (223)
..|.|+.|++.-.. +.-. --+.|..|++.|.
T Consensus 34 ~ky~Cp~Cgk~~vk--------R~a~-----GIW~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSVK--------RVAT-----GIWKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSEEE--------EEET-----TEEEETTTTEEEE
T ss_pred CCCcCCCCCCceeE--------Eeee-----EEeecCCCCCEEe
Confidence 35777777764211 2222 2367777776664
No 149
>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=40.84 E-value=7.8 Score=22.86 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=8.5
Q ss_pred CccCCcCcccccCchhHHhhhh
Q psy8183 51 PYKCNSCYKCFVDETALLEHIP 72 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~ 72 (223)
.|.|+.|...|--.-.+-.|..
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~ 42 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHET 42 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTT
T ss_pred eEECCCCCCccccCcChhhhcc
Confidence 4566666665555544444433
No 150
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=40.51 E-value=24 Score=19.30 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=8.9
Q ss_pred cccCCccCCccCC--hHHHHHHHh
Q psy8183 82 THICQYCGKSYTQ--ETYLSKHMQ 103 (223)
Q Consensus 82 ~~~C~~C~~~f~~--~~~l~~H~~ 103 (223)
.|-|++|...|.. ....+.|.+
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT-
T ss_pred CeecccccceecCCChHHHHHhhc
Confidence 4678888887732 234466654
No 151
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=40.20 E-value=19 Score=31.13 Aligned_cols=15 Identities=20% Similarity=0.516 Sum_probs=9.9
Q ss_pred cccCCccCCccCChH
Q psy8183 82 THICQYCGKSYTQET 96 (223)
Q Consensus 82 ~~~C~~C~~~f~~~~ 96 (223)
-|+|..||+.+....
T Consensus 367 g~rC~kCg~~~~~~~ 381 (421)
T COG1571 367 GFRCKKCGTRARETL 381 (421)
T ss_pred CcccccccccCCccc
Confidence 577777777666543
No 152
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=40.16 E-value=12 Score=20.88 Aligned_cols=8 Identities=38% Similarity=1.128 Sum_probs=3.5
Q ss_pred ccCCccCC
Q psy8183 83 HICQYCGK 90 (223)
Q Consensus 83 ~~C~~C~~ 90 (223)
+.|..||.
T Consensus 20 ~vC~~CG~ 27 (43)
T PF08271_consen 20 LVCPNCGL 27 (43)
T ss_dssp EEETTT-B
T ss_pred EECCCCCC
Confidence 45555553
No 153
>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=39.09 E-value=23 Score=20.79 Aligned_cols=11 Identities=27% Similarity=0.824 Sum_probs=5.3
Q ss_pred ccCCcCccccc
Q psy8183 52 YKCNSCYKCFV 62 (223)
Q Consensus 52 ~~C~~C~~~f~ 62 (223)
+.|..||+.|-
T Consensus 19 ~~Cr~Cg~~~C 29 (57)
T cd00065 19 HHCRNCGRIFC 29 (57)
T ss_pred cccCcCcCCcC
Confidence 44555554443
No 154
>KOG3408|consensus
Probab=38.59 E-value=15 Score=25.75 Aligned_cols=24 Identities=17% Similarity=0.480 Sum_probs=21.7
Q ss_pred CcccCCccCCccCChHHHHHHHhh
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQK 104 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~ 104 (223)
-.|-|-.|.+-|.....|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 458899999999999999999876
No 155
>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 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=37.27 E-value=11 Score=27.62 Aligned_cols=8 Identities=25% Similarity=0.820 Sum_probs=3.8
Q ss_pred ccCCcCcc
Q psy8183 52 YKCNSCYK 59 (223)
Q Consensus 52 ~~C~~C~~ 59 (223)
|.|..||.
T Consensus 113 l~C~~Cg~ 120 (146)
T PF07295_consen 113 LVCENCGH 120 (146)
T ss_pred EecccCCC
Confidence 44555543
No 157
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=37.26 E-value=17 Score=19.99 Aligned_cols=14 Identities=29% Similarity=0.750 Sum_probs=11.1
Q ss_pred cccCCccCCccCCh
Q psy8183 82 THICQYCGKSYTQE 95 (223)
Q Consensus 82 ~~~C~~C~~~f~~~ 95 (223)
+|.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78899999888643
No 158
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=37.13 E-value=18 Score=33.85 Aligned_cols=11 Identities=27% Similarity=0.739 Sum_probs=7.1
Q ss_pred CcccCCccCCc
Q psy8183 81 KTHICQYCGKS 91 (223)
Q Consensus 81 k~~~C~~C~~~ 91 (223)
.|..|+.||..
T Consensus 474 ~p~~Cp~Cgs~ 484 (730)
T COG1198 474 IPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCC
Confidence 56667777653
No 159
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=36.93 E-value=12 Score=24.88 Aligned_cols=13 Identities=23% Similarity=0.749 Sum_probs=8.9
Q ss_pred CcccCCccCCccC
Q psy8183 81 KTHICQYCGKSYT 93 (223)
Q Consensus 81 k~~~C~~C~~~f~ 93 (223)
..+.|..|++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PRK03976 53 GIWECRKCGAKFA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 3467777877665
No 160
>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=36.82 E-value=14 Score=21.63 Aligned_cols=40 Identities=18% Similarity=0.254 Sum_probs=23.1
Q ss_pred ccCCccCCccCChHHHHHH-H----hhhcccCCCCCCcCCCCCcc
Q psy8183 83 HICQYCGKSYTQETYLSKH-M----QKHAERSDKRPPIIGIPRAA 122 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H-~----~~h~~~~~~~~~~c~~~~~~ 122 (223)
|+|.+||+.|.-...-... + ..-.-...+.|+.|+.....
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K~~ 46 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDD 46 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcHHH
Confidence 7899999988854221111 0 01112346789998876543
No 161
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=36.43 E-value=2.4 Score=23.43 Aligned_cols=12 Identities=25% Similarity=0.747 Sum_probs=7.6
Q ss_pred CcccCCccCCcc
Q psy8183 81 KTHICQYCGKSY 92 (223)
Q Consensus 81 k~~~C~~C~~~f 92 (223)
.-|.|..|+..|
T Consensus 27 ~fy~C~~C~~~w 38 (39)
T PF01096_consen 27 LFYVCCNCGHRW 38 (39)
T ss_dssp EEEEESSSTEEE
T ss_pred EEEEeCCCCCee
Confidence 346777777654
No 162
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.35 E-value=46 Score=25.20 Aligned_cols=8 Identities=25% Similarity=1.024 Sum_probs=4.9
Q ss_pred ccCCcCcc
Q psy8183 52 YKCNSCYK 59 (223)
Q Consensus 52 ~~C~~C~~ 59 (223)
|.|+.||.
T Consensus 133 F~Cp~Cg~ 140 (176)
T COG1675 133 FTCPKCGE 140 (176)
T ss_pred CCCCCCCc
Confidence 56666664
No 163
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=35.15 E-value=64 Score=32.12 Aligned_cols=9 Identities=22% Similarity=0.726 Sum_probs=6.0
Q ss_pred eecccCccccc
Q psy8183 22 YKCRHPGCVKA 32 (223)
Q Consensus 22 ~~C~~p~C~k~ 32 (223)
+.|+. ||..
T Consensus 668 rkCPk--CG~~ 676 (1337)
T PRK14714 668 RRCPS--CGTE 676 (1337)
T ss_pred EECCC--CCCc
Confidence 67855 8853
No 164
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.04 E-value=13 Score=23.83 Aligned_cols=10 Identities=40% Similarity=1.142 Sum_probs=4.6
Q ss_pred ccCCcCcccc
Q psy8183 52 YKCNSCYKCF 61 (223)
Q Consensus 52 ~~C~~C~~~f 61 (223)
|+|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 4444454433
No 165
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=34.97 E-value=40 Score=25.16 Aligned_cols=23 Identities=22% Similarity=0.453 Sum_probs=16.8
Q ss_pred CcccCCccCCccCChHHHHHHHh
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQ 103 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~ 103 (223)
.-|.|..||+.|-.-+++..-.+
T Consensus 129 ~f~~C~~CgkiYW~GsHw~~m~~ 151 (165)
T COG1656 129 EFYRCPKCGKIYWKGSHWRRMVE 151 (165)
T ss_pred ceeECCCCcccccCchHHHHHHH
Confidence 34679999998887777655544
No 166
>KOG0717|consensus
Probab=34.68 E-value=22 Score=31.08 Aligned_cols=21 Identities=33% Similarity=0.645 Sum_probs=19.0
Q ss_pred ccCCccCCccCChHHHHHHHh
Q psy8183 83 HICQYCGKSYTQETYLSKHMQ 103 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H~~ 103 (223)
+-|.+|.+.|.+...|+.|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 679999999999999999974
No 167
>KOG2636|consensus
Probab=34.55 E-value=27 Score=30.32 Aligned_cols=26 Identities=27% Similarity=0.542 Sum_probs=15.2
Q ss_pred hCCCCCccCCcCc-ccccCchhHHhhh
Q psy8183 46 HQTDKPYKCNSCY-KCFVDETALLEHI 71 (223)
Q Consensus 46 h~~~k~~~C~~C~-~~f~~~~~l~~H~ 71 (223)
|--...|.|.+|| +++.....+.+|.
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHh
Confidence 3344556666666 5666666666665
No 168
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=34.02 E-value=33 Score=20.24 Aligned_cols=13 Identities=23% Similarity=0.639 Sum_probs=7.3
Q ss_pred ccCCcCcccccCc
Q psy8183 52 YKCNSCYKCFVDE 64 (223)
Q Consensus 52 ~~C~~C~~~f~~~ 64 (223)
|+|..||..|...
T Consensus 29 W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 29 WKCPKCGHEWKAS 41 (55)
T ss_pred EECCCCCCeeEcc
Confidence 5666666555443
No 169
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=33.13 E-value=8.3 Score=29.64 Aligned_cols=12 Identities=33% Similarity=0.849 Sum_probs=6.3
Q ss_pred cccCCccCCccC
Q psy8183 82 THICQYCGKSYT 93 (223)
Q Consensus 82 ~~~C~~C~~~f~ 93 (223)
.|.|+.||+...
T Consensus 30 sf~C~~CGyr~~ 41 (192)
T TIGR00310 30 STICEHCGYRSN 41 (192)
T ss_pred EEECCCCCCccc
Confidence 355666665443
No 170
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=32.96 E-value=35 Score=24.53 Aligned_cols=19 Identities=21% Similarity=0.461 Sum_probs=14.4
Q ss_pred CCCCCeecccCccccccCChH
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLS 37 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~ 37 (223)
.+.+.|+|.. |..+...+.
T Consensus 76 ~d~~lYeCnI--C~etS~ee~ 94 (140)
T PF05290_consen 76 LDPKLYECNI--CKETSAEER 94 (140)
T ss_pred cCCCceeccC--cccccchhh
Confidence 5668899999 988766544
No 171
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.74 E-value=17 Score=22.28 Aligned_cols=14 Identities=29% Similarity=0.876 Sum_probs=9.7
Q ss_pred CcccCCccCCccCC
Q psy8183 81 KTHICQYCGKSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~~~f~~ 94 (223)
..-.|++|++.|..
T Consensus 47 gev~CPYC~t~y~l 60 (62)
T COG4391 47 GEVVCPYCSTRYRL 60 (62)
T ss_pred CcEecCccccEEEe
Confidence 45678888877753
No 172
>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=32.69 E-value=15 Score=26.76 Aligned_cols=10 Identities=40% Similarity=1.185 Sum_probs=4.8
Q ss_pred ccCCcCcccc
Q psy8183 52 YKCNSCYKCF 61 (223)
Q Consensus 52 ~~C~~C~~~f 61 (223)
|.|..|+..+
T Consensus 124 ~~C~~C~~~~ 133 (157)
T PF10263_consen 124 YRCPSCGREY 133 (157)
T ss_pred EEcCCCCCEe
Confidence 4455555443
No 173
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=32.59 E-value=17 Score=21.87 Aligned_cols=9 Identities=33% Similarity=0.870 Sum_probs=5.0
Q ss_pred CcccCCccC
Q psy8183 81 KTHICQYCG 89 (223)
Q Consensus 81 k~~~C~~C~ 89 (223)
..|.|..|.
T Consensus 30 ~tYmC~eC~ 38 (56)
T PF09963_consen 30 HTYMCDECK 38 (56)
T ss_pred cceeChhHH
Confidence 456666553
No 174
>KOG2071|consensus
Probab=32.34 E-value=28 Score=31.30 Aligned_cols=27 Identities=30% Similarity=0.624 Sum_probs=22.7
Q ss_pred CcccCCccCCccCChHHHHHHHhhhcc
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHAE 107 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~~ 107 (223)
++-.|..||.+|.......+|+..|..
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CcchhcccccccccchhhhhHhhhhhh
Confidence 678899999999998888888877653
No 175
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=32.34 E-value=8 Score=29.68 Aligned_cols=14 Identities=36% Similarity=0.738 Sum_probs=8.6
Q ss_pred cccCCccCCccCCh
Q psy8183 82 THICQYCGKSYTQE 95 (223)
Q Consensus 82 ~~~C~~C~~~f~~~ 95 (223)
.+.|..||+++..-
T Consensus 43 t~~C~~CgYR~~DV 56 (201)
T COG1779 43 TGVCERCGYRSTDV 56 (201)
T ss_pred EEEccccCCcccce
Confidence 35677777666543
No 176
>KOG1280|consensus
Probab=32.07 E-value=51 Score=27.72 Aligned_cols=30 Identities=20% Similarity=0.468 Sum_probs=24.9
Q ss_pred CcccCCccCCccCChHHHHHHHhhhcccCC
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHAERSD 110 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 110 (223)
..|.|++|++.-.+...|..|...-+.+..
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~ 107 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEAS 107 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccC
Confidence 569999999998899999999877555544
No 177
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=32.07 E-value=32 Score=28.47 Aligned_cols=47 Identities=17% Similarity=0.299 Sum_probs=30.9
Q ss_pred CCcCcccccCchhHHhhhhhh-cCCCCCCcccCCccCCccCChHHHHHHHhhhc
Q psy8183 54 CNSCYKCFVDETALLEHIPKH-KDSKHLKTHICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 54 C~~C~~~f~~~~~l~~H~~~h-~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
|-.|...|..... |-.-. +.. ..|.|+.|...|-..-+...|...|.
T Consensus 365 Cf~CQ~~fp~~~~---~~~~~~~ss---~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 365 CFVCQGPFPKPPV---SPFDESTSS---GRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred ceeccCCCCCCCC---Ccccccccc---cceechhhhhhhhhhhHHHHHHHHhh
Confidence 6677776654332 11111 111 56999999999998888888887774
No 178
>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=31.21 E-value=16 Score=20.42 Aligned_cols=15 Identities=33% Similarity=0.762 Sum_probs=9.1
Q ss_pred CcccCCccCCccCCh
Q psy8183 81 KTHICQYCGKSYTQE 95 (223)
Q Consensus 81 k~~~C~~C~~~f~~~ 95 (223)
-+|.|..|++.|=..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 578899999888643
No 179
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=31.03 E-value=30 Score=23.03 Aligned_cols=14 Identities=36% Similarity=0.812 Sum_probs=8.7
Q ss_pred CCccCCcCcccccC
Q psy8183 50 KPYKCNSCYKCFVD 63 (223)
Q Consensus 50 k~~~C~~C~~~f~~ 63 (223)
+|-.|..||+.|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 45567777766643
No 180
>PRK14873 primosome assembly protein PriA; Provisional
Probab=30.85 E-value=28 Score=32.27 Aligned_cols=11 Identities=27% Similarity=0.739 Sum_probs=6.9
Q ss_pred CcccCCccCCc
Q psy8183 81 KTHICQYCGKS 91 (223)
Q Consensus 81 k~~~C~~C~~~ 91 (223)
.++.|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 34567778753
No 181
>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=30.74 E-value=16 Score=21.15 Aligned_cols=38 Identities=24% Similarity=0.368 Sum_probs=19.9
Q ss_pred ccCCccCCccCChHHHHHH-----HhhhcccCCCCCCcCCCCC
Q psy8183 83 HICQYCGKSYTQETYLSKH-----MQKHAERSDKRPPIIGIPR 120 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~~H-----~~~h~~~~~~~~~~c~~~~ 120 (223)
|+|.+|+..|.-...-..+ ...-.--..+.|+.|+...
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~K 44 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAPK 44 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSBG
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCcc
Confidence 7899999888755432211 1111223457888887653
No 182
>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=30.45 E-value=17 Score=28.03 Aligned_cols=24 Identities=33% Similarity=0.699 Sum_probs=0.0
Q ss_pred CcccCCccC-CccCChHHHHHHHhh
Q psy8183 81 KTHICQYCG-KSYTQETYLSKHMQK 104 (223)
Q Consensus 81 k~~~C~~C~-~~f~~~~~l~~H~~~ 104 (223)
+.|.|.||| .+|.=+..+.+|..-
T Consensus 100 ~ey~CEICGN~~Y~GrkaFekHF~E 124 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFEKHFQE 124 (196)
T ss_dssp -------------------------
T ss_pred CeeeeEeCCCcceecHHHHHHhcCh
Confidence 679999999 577777888888653
No 183
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.10 E-value=21 Score=25.71 Aligned_cols=13 Identities=38% Similarity=0.820 Sum_probs=7.4
Q ss_pred CeecccCccccccCC
Q psy8183 21 PYKCRHPGCVKAFSQ 35 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~ 35 (223)
.+.|.. ||..|..
T Consensus 70 ~~~C~~--CG~~~~~ 82 (135)
T PRK03824 70 VLKCRN--CGNEWSL 82 (135)
T ss_pred EEECCC--CCCEEec
Confidence 356655 6666553
No 184
>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=29.88 E-value=14 Score=18.78 Aligned_cols=20 Identities=30% Similarity=0.733 Sum_probs=8.4
Q ss_pred eecccCccccccCChHHHHHHHH
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSR 44 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~ 44 (223)
|.|-. |++.| ....++.|..
T Consensus 1 ~sCiD--C~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCID--CSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETT--TTEEE-EGGGTTT---
T ss_pred Ceeec--CCCCc-CcCCcCCCCc
Confidence 34544 66666 3334444433
No 185
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=29.84 E-value=46 Score=19.94 Aligned_cols=10 Identities=30% Similarity=0.683 Sum_probs=5.9
Q ss_pred CcccCCccCC
Q psy8183 81 KTHICQYCGK 90 (223)
Q Consensus 81 k~~~C~~C~~ 90 (223)
..|.|+.||.
T Consensus 13 v~~~Cp~cGi 22 (55)
T PF13824_consen 13 VNFECPDCGI 22 (55)
T ss_pred cCCcCCCCCC
Confidence 3466666664
No 186
>KOG3408|consensus
Probab=29.43 E-value=35 Score=24.02 Aligned_cols=23 Identities=22% Similarity=0.602 Sum_probs=15.2
Q ss_pred CeecccCccccccCChHHHHHHHHH
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRC 45 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~ 45 (223)
.|.|-+ |.+-|.+...|..|.++
T Consensus 57 qfyCi~--CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 57 QFYCIE--CARYFIDAKALKTHFKT 79 (129)
T ss_pred eeehhh--hhhhhcchHHHHHHHhc
Confidence 366655 77777777777777653
No 187
>KOG2907|consensus
Probab=29.34 E-value=27 Score=24.25 Aligned_cols=14 Identities=21% Similarity=0.482 Sum_probs=9.5
Q ss_pred CcccCCccCCccCC
Q psy8183 81 KTHICQYCGKSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~~~f~~ 94 (223)
--|.|..|++.|..
T Consensus 101 VFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 101 VFYTCPKCKYKFTE 114 (116)
T ss_pred EEEEcCccceeeec
Confidence 34778778777753
No 188
>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=29.24 E-value=18 Score=19.56 Aligned_cols=30 Identities=13% Similarity=0.380 Sum_probs=16.1
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCcc
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYC 88 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C 88 (223)
..|+.|+.. ..+.+|-+...|. ..|.|..|
T Consensus 6 v~CP~C~s~----~~v~k~G~~~~G~---qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQST----EGVKKNGKSPSGH---QRYRCKDC 35 (36)
T ss_pred eeCCCCCCC----CcceeCCCCCCCC---EeEecCcC
Confidence 356666532 2244555555554 56777766
No 189
>KOG2636|consensus
Probab=29.04 E-value=42 Score=29.25 Aligned_cols=24 Identities=21% Similarity=0.559 Sum_probs=21.3
Q ss_pred CcccCCccC-CccCChHHHHHHHhh
Q psy8183 81 KTHICQYCG-KSYTQETYLSKHMQK 104 (223)
Q Consensus 81 k~~~C~~C~-~~f~~~~~l~~H~~~ 104 (223)
..|.|.||| ++|.=+..+.+|..-
T Consensus 400 ~ey~CEICGNy~Y~GrkaF~RHF~E 424 (497)
T KOG2636|consen 400 IEYNCEICGNYVYKGRKAFDRHFNE 424 (497)
T ss_pred cccceeeccCccccCcHHHHHHhHH
Confidence 779999999 899999999999753
No 190
>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=28.91 E-value=34 Score=30.10 Aligned_cols=25 Identities=28% Similarity=0.580 Sum_probs=19.7
Q ss_pred CccCCcCcccccCchhHHhhhhhhc
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHK 75 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~ 75 (223)
-|.|+.|.+.|.....+..|+..-|
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH 81 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEH 81 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhh
Confidence 3778888888888888888887433
No 191
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=28.63 E-value=53 Score=26.94 Aligned_cols=26 Identities=35% Similarity=0.621 Sum_probs=20.2
Q ss_pred CcccCCccCCccCChHHHHHHHhhhc
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~ 106 (223)
.-|.|+.|-+-|.....|.+|+..+.
T Consensus 47 ~lyiCe~Clky~~~~~~l~~H~~~C~ 72 (290)
T PLN03238 47 KLYICEYCLKYMRKKKSLLRHLAKCD 72 (290)
T ss_pred eEEEcCCCcchhCCHHHHHHHHHhCC
Confidence 66888888888888888888877544
No 192
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=28.04 E-value=17 Score=24.22 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=8.7
Q ss_pred CcccCCccCCccC
Q psy8183 81 KTHICQYCGKSYT 93 (223)
Q Consensus 81 k~~~C~~C~~~f~ 93 (223)
..+.|..|++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PTZ00255 53 GIWRCKGCKKTVA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 3467777777665
No 193
>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=27.56 E-value=52 Score=17.41 Aligned_cols=26 Identities=19% Similarity=0.469 Sum_probs=14.7
Q ss_pred CcccCCccCCccCChHHHHHHHhhhcc
Q psy8183 81 KTHICQYCGKSYTQETYLSKHMQKHAE 107 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l~~H~~~h~~ 107 (223)
..+.|..|++.+. .+.+..|+....+
T Consensus 3 ~~~~C~nC~R~v~-a~RfA~HLekCmg 28 (33)
T PF08209_consen 3 PYVECPNCGRPVA-ASRFAPHLEKCMG 28 (33)
T ss_dssp -EEE-TTTSSEEE-GGGHHHHHHHHTC
T ss_pred CeEECCCCcCCcc-hhhhHHHHHHHHc
Confidence 3467777777554 4456667665543
No 194
>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=27.55 E-value=36 Score=23.30 Aligned_cols=7 Identities=43% Similarity=1.293 Sum_probs=3.0
Q ss_pred ccCCcCc
Q psy8183 52 YKCNSCY 58 (223)
Q Consensus 52 ~~C~~C~ 58 (223)
|.|..|+
T Consensus 32 y~C~~C~ 38 (102)
T PF11672_consen 32 YVCTPCD 38 (102)
T ss_pred EECCCCC
Confidence 4444443
No 195
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=27.54 E-value=34 Score=23.75 Aligned_cols=11 Identities=18% Similarity=0.516 Sum_probs=5.9
Q ss_pred eecccCccccccC
Q psy8183 22 YKCRHPGCVKAFS 34 (223)
Q Consensus 22 ~~C~~p~C~k~f~ 34 (223)
+.|.. |+..|.
T Consensus 71 ~~C~~--Cg~~~~ 81 (113)
T PRK12380 71 AWCWD--CSQVVE 81 (113)
T ss_pred EEccc--CCCEEe
Confidence 45644 665554
No 196
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.40 E-value=26 Score=20.29 Aligned_cols=17 Identities=18% Similarity=0.610 Sum_probs=12.3
Q ss_pred ccCCccCCccCChHHHH
Q psy8183 83 HICQYCGKSYTQETYLS 99 (223)
Q Consensus 83 ~~C~~C~~~f~~~~~l~ 99 (223)
-.|++|++.|+......
T Consensus 13 KICpvCqRPFsWRkKW~ 29 (54)
T COG4338 13 KICPVCQRPFSWRKKWA 29 (54)
T ss_pred hhhhhhcCchHHHHHHH
Confidence 36888999888765543
No 197
>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=27.09 E-value=2.7e+02 Score=20.77 Aligned_cols=80 Identities=20% Similarity=0.360 Sum_probs=47.0
Q ss_pred CCCCCeecccCccccccCChHHHHHHHHHhCCC--------------------------CCccCCcCcccccCchhHHhh
Q psy8183 17 TGDKPYKCRHPGCVKAFSQLSNLQSHSRCHQTD--------------------------KPYKCNSCYKCFVDETALLEH 70 (223)
Q Consensus 17 ~~~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~--------------------------k~~~C~~C~~~f~~~~~l~~H 70 (223)
.|=+||.| +-.|....-|.+-.+.+... ....|+.|.......... .-
T Consensus 25 kgcRpymc-----~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~CPLCRG~V~GWtvv-e~ 98 (162)
T PF07800_consen 25 KGCRPYMC-----DTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPELACPLCRGEVKGWTVV-EP 98 (162)
T ss_pred CCcccccc-----CCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccccCccccCceeceEEc-hH
Confidence 56678875 45566666666655544221 246799997654433322 23
Q ss_pred hhhhcCCCCCCcccCCc--cCCccCChHHHHHHHhhhc
Q psy8183 71 IPKHKDSKHLKTHICQY--CGKSYTQETYLSKHMQKHA 106 (223)
Q Consensus 71 ~~~h~~~~~~k~~~C~~--C~~~f~~~~~l~~H~~~h~ 106 (223)
.+.+... |+-.|.. |... .+...|.+|.+.-+
T Consensus 99 AR~~LN~---K~RsC~~e~C~F~-GtY~eLrKHar~~H 132 (162)
T PF07800_consen 99 ARRFLNA---KKRSCSQESCSFS-GTYSELRKHARSEH 132 (162)
T ss_pred HHHHhcc---CCccCcccccccc-cCHHHHHHHHHhhC
Confidence 4555555 5556654 6653 35678999988744
No 198
>PHA02998 RNA polymerase subunit; Provisional
Probab=27.02 E-value=20 Score=27.06 Aligned_cols=40 Identities=20% Similarity=0.382 Sum_probs=20.7
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCC
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQ 94 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~ 94 (223)
-.|+.|+..=..-.. ...| -..+....-|.|..||+.|.-
T Consensus 144 v~CPkCg~~~A~f~q--lQTR-SADEPmT~FYkC~~CG~~wkp 183 (195)
T PHA02998 144 TPCPNCKSKNTTPMM--IQTR-AADEPPLVRHACRDCKKHFKP 183 (195)
T ss_pred CCCCCCCCCceEEEE--Eeec-cCCCCceEEEEcCCCCCccCC
Confidence 578888753222111 1122 122222245889889887764
No 199
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=26.49 E-value=46 Score=22.67 Aligned_cols=12 Identities=33% Similarity=0.794 Sum_probs=6.0
Q ss_pred ccCCcCcccccC
Q psy8183 52 YKCNSCYKCFVD 63 (223)
Q Consensus 52 ~~C~~C~~~f~~ 63 (223)
+.|..||..|..
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 345555555544
No 200
>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=26.37 E-value=30 Score=27.87 Aligned_cols=11 Identities=18% Similarity=0.096 Sum_probs=6.0
Q ss_pred CCCCCCcCCCC
Q psy8183 109 SDKRPPIIGIP 119 (223)
Q Consensus 109 ~~~~~~~c~~~ 119 (223)
.++.|+.|+..
T Consensus 208 k~~PCPKCg~e 218 (314)
T PF06524_consen 208 KPIPCPKCGYE 218 (314)
T ss_pred CCCCCCCCCCc
Confidence 45555555554
No 201
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=26.28 E-value=31 Score=23.45 Aligned_cols=11 Identities=27% Similarity=0.558 Sum_probs=6.1
Q ss_pred ccCCccCCccC
Q psy8183 83 HICQYCGKSYT 93 (223)
Q Consensus 83 ~~C~~C~~~f~ 93 (223)
..|..||..|.
T Consensus 43 ~~C~~CG~y~~ 53 (99)
T PRK14892 43 ITCGNCGLYTE 53 (99)
T ss_pred EECCCCCCccC
Confidence 45666665444
No 202
>KOG0782|consensus
Probab=26.12 E-value=11 Score=33.66 Aligned_cols=53 Identities=25% Similarity=0.489 Sum_probs=33.1
Q ss_pred hHHHHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChH
Q psy8183 36 LSNLQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQET 96 (223)
Q Consensus 36 ~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~ 96 (223)
...+.+|--.|.....=+|..|++.|..+-.+ |..+. --..|..|...|-.+.
T Consensus 238 E~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F------hsKEi--vAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 238 ESGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF------HSKEI--VAISCSWCKQAYHLKV 290 (1004)
T ss_pred cccchHHhHhhHhhhccccchhhhhhhhheee------ccccE--EEEEehHHHHHhhcch
Confidence 34677776666554445788888888655433 33321 4467888877776654
No 203
>PLN02748 tRNA dimethylallyltransferase
Probab=26.03 E-value=51 Score=29.18 Aligned_cols=25 Identities=20% Similarity=0.430 Sum_probs=21.6
Q ss_pred CCcccCCccCC-ccCChHHHHHHHhh
Q psy8183 80 LKTHICQYCGK-SYTQETYLSKHMQK 104 (223)
Q Consensus 80 ~k~~~C~~C~~-~f~~~~~l~~H~~~ 104 (223)
++.|.|++|++ .+.-...+..|++.
T Consensus 416 ~~~~~Ce~C~~~~~~G~~eW~~Hlks 441 (468)
T PLN02748 416 WTQYVCEACGNKVLRGAHEWEQHKQG 441 (468)
T ss_pred cccccccCCCCcccCCHHHHHHHhcc
Confidence 47799999997 79999999999865
No 204
>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=25.98 E-value=35 Score=23.77 Aligned_cols=12 Identities=25% Similarity=0.744 Sum_probs=7.1
Q ss_pred eecccCccccccCC
Q psy8183 22 YKCRHPGCVKAFSQ 35 (223)
Q Consensus 22 ~~C~~p~C~k~f~~ 35 (223)
..|.. |+..|..
T Consensus 71 ~~C~~--Cg~~~~~ 82 (115)
T TIGR00100 71 CECED--CSEEVSP 82 (115)
T ss_pred EEccc--CCCEEec
Confidence 56655 7666653
No 205
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=25.82 E-value=48 Score=18.20 Aligned_cols=18 Identities=22% Similarity=0.588 Sum_probs=9.0
Q ss_pred CcccCCccCCccCChHHH
Q psy8183 81 KTHICQYCGKSYTQETYL 98 (223)
Q Consensus 81 k~~~C~~C~~~f~~~~~l 98 (223)
..+.|..|+-.+.....|
T Consensus 18 ~id~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 18 EIDVCPSCGGIWFDAGEL 35 (41)
T ss_pred EEEECCCCCeEEccHHHH
Confidence 344555555555444444
No 206
>PRK12860 transcriptional activator FlhC; Provisional
Probab=25.68 E-value=47 Score=25.47 Aligned_cols=51 Identities=14% Similarity=0.140 Sum_probs=29.8
Q ss_pred CcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhcccCCCCCCcCCCC
Q psy8183 57 CYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHAERSDKRPPIIGIP 119 (223)
Q Consensus 57 C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~c~~~ 119 (223)
+--.|.+...|.+.+... . ...-.|..||-.|..... .....+.|+.|..+
T Consensus 113 ~~Ls~tRAw~LvRf~~s~--~--L~l~~C~~Cgg~fv~~~~--------e~~~~f~CplC~~p 163 (189)
T PRK12860 113 PVLDLTRAWTLVRFFDAG--M--LQLARCCRCGGKFVTHAH--------DLRHNFVCGLCQPP 163 (189)
T ss_pred ceecHHHHHHHHHHhcCC--C--eeeccCCCCCCCeecccc--------ccCCCCcCCCCCCc
Confidence 335666667777666533 2 155667777777764422 33356777777643
No 207
>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=25.46 E-value=18 Score=24.08 Aligned_cols=13 Identities=23% Similarity=0.802 Sum_probs=8.9
Q ss_pred CcccCCccCCccC
Q psy8183 81 KTHICQYCGKSYT 93 (223)
Q Consensus 81 k~~~C~~C~~~f~ 93 (223)
..+.|..|++.|.
T Consensus 52 GIW~C~~C~~~~A 64 (91)
T TIGR00280 52 GIWTCRKCGAKFA 64 (91)
T ss_pred EEEEcCCCCCEEe
Confidence 3467777777665
No 208
>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=25.36 E-value=26 Score=20.63 Aligned_cols=12 Identities=25% Similarity=0.506 Sum_probs=6.3
Q ss_pred cCCcCcccccCc
Q psy8183 53 KCNSCYKCFVDE 64 (223)
Q Consensus 53 ~C~~C~~~f~~~ 64 (223)
.|++|++.|...
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 799999888654
No 209
>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=24.92 E-value=25 Score=20.14 Aligned_cols=13 Identities=23% Similarity=0.723 Sum_probs=6.7
Q ss_pred CcccCCc--cCCccC
Q psy8183 81 KTHICQY--CGKSYT 93 (223)
Q Consensus 81 k~~~C~~--C~~~f~ 93 (223)
.-|+|.- ||..|.
T Consensus 24 ~Y~qC~N~~Cg~tfv 38 (47)
T PF04606_consen 24 LYCQCTNPECGHTFV 38 (47)
T ss_pred EEEEECCCcCCCEEE
Confidence 3455543 666554
No 210
>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=24.49 E-value=78 Score=21.60 Aligned_cols=39 Identities=8% Similarity=0.090 Sum_probs=27.3
Q ss_pred CCeecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccc
Q psy8183 20 KPYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCF 61 (223)
Q Consensus 20 k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f 61 (223)
..|.|+. -|..|.+...+...+.... .+.|.|...|+.-
T Consensus 2 eVf~i~~--T~EiF~dYe~Y~~R~~~y~-~~vwtC~~TGk~~ 40 (102)
T PF10537_consen 2 EVFYIPF--TGEIFRDYEEYLKRMILYN-QRVWTCEITGKSN 40 (102)
T ss_pred ceEEeCC--CCcccCCHHHHHHHHHHHh-CCeeEEecCCCCC
Confidence 4577765 8888888877777666543 3568888877643
No 211
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=24.49 E-value=43 Score=27.45 Aligned_cols=28 Identities=29% Similarity=0.612 Sum_probs=18.2
Q ss_pred ccccccCChHHHHHHHHHhCCCCCccCCcCcccc
Q psy8183 28 GCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCF 61 (223)
Q Consensus 28 ~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f 61 (223)
.||.+|.+.- ++.|.++.|+ |++|...|
T Consensus 42 tCgHtFCslC-----IR~hL~~qp~-CP~Cr~~~ 69 (391)
T COG5432 42 TCGHTFCSLC-----IRRHLGTQPF-CPVCREDP 69 (391)
T ss_pred ccccchhHHH-----HHHHhcCCCC-CccccccH
Confidence 3788877543 5666666664 88886544
No 212
>KOG2461|consensus
Probab=24.23 E-value=33 Score=29.57 Aligned_cols=39 Identities=3% Similarity=-0.208 Sum_probs=15.5
Q ss_pred HHHHHHHhCCCCCccCCcCcccccCchhHHhhhhhhcCC
Q psy8183 39 LQSHSRCHQTDKPYKCNSCYKCFVDETALLEHIPKHKDS 77 (223)
Q Consensus 39 L~~H~~~h~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~ 77 (223)
+..+...++......++.+.+.+.....+..+...+...
T Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (396)
T KOG2461|consen 319 LDQSEVPATVSVWTGETIPVRTPAGQLIYTQSHSMEVAE 357 (396)
T ss_pred cccccccccccccCcCcccccccccccchhhhhhcccCC
Confidence 333444444433333344333333333444444444333
No 213
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=24.10 E-value=14 Score=33.96 Aligned_cols=58 Identities=22% Similarity=0.473 Sum_probs=34.4
Q ss_pred ecccCccccccCChHHHHHHHHHhCCCCCc-cCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCcc
Q psy8183 23 KCRHPGCVKAFSQLSNLQSHSRCHQTDKPY-KCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSY 92 (223)
Q Consensus 23 ~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~-~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f 92 (223)
.|.. ||-.|+-...|=-- |.++.-+.| .|+.|.+.|....+- |.|. .+..|+.||-..
T Consensus 125 ~CT~--CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nR----RfHA-----Qp~aCp~CGP~~ 183 (750)
T COG0068 125 NCTN--CGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNR----RFHA-----QPIACPKCGPHL 183 (750)
T ss_pred ccCC--CCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCcccc----cccc-----ccccCcccCCCe
Confidence 4877 88888755444322 112222222 488898888766552 3343 577899999533
No 214
>PLN02294 cytochrome c oxidase subunit Vb
Probab=23.67 E-value=40 Score=25.32 Aligned_cols=15 Identities=27% Similarity=0.696 Sum_probs=12.2
Q ss_pred CCCccCCcCcccccC
Q psy8183 49 DKPYKCNSCYKCFVD 63 (223)
Q Consensus 49 ~k~~~C~~C~~~f~~ 63 (223)
.+++.|+.||..|.-
T Consensus 139 Gkp~RCpeCG~~fkL 153 (174)
T PLN02294 139 GKSFECPVCTQYFEL 153 (174)
T ss_pred CCceeCCCCCCEEEE
Confidence 478899999988864
No 215
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=23.27 E-value=82 Score=25.88 Aligned_cols=23 Identities=30% Similarity=0.550 Sum_probs=14.8
Q ss_pred CCeecccCccccccCChHHHHHHHH
Q psy8183 20 KPYKCRHPGCVKAFSQLSNLQSHSR 44 (223)
Q Consensus 20 k~~~C~~p~C~k~f~~~~~L~~H~~ 44 (223)
..|.|+. |=+-|.++..|.+|+.
T Consensus 47 ~lyiCe~--Clky~~~~~~l~~H~~ 69 (290)
T PLN03238 47 KLYICEY--CLKYMRKKKSLLRHLA 69 (290)
T ss_pred eEEEcCC--CcchhCCHHHHHHHHH
Confidence 4466666 6666666666666655
No 216
>KOG4385|consensus
Probab=23.12 E-value=48 Score=29.20 Aligned_cols=25 Identities=20% Similarity=0.526 Sum_probs=21.0
Q ss_pred eecccCccccccCChHHHHHHHHHh
Q psy8183 22 YKCRHPGCVKAFSQLSNLQSHSRCH 46 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L~~H~~~h 46 (223)
=.|.||||...|.......+|..+-
T Consensus 210 gvckwpgcE~~~ed~~~flKhln~e 234 (581)
T KOG4385|consen 210 GVCKWPGCEAVCEDFGSFLKHLNTE 234 (581)
T ss_pred CccCCCchhhhccchHHHHHhhccc
Confidence 3799999999999999888887753
No 217
>PRK12722 transcriptional activator FlhC; Provisional
Probab=22.70 E-value=66 Score=24.64 Aligned_cols=49 Identities=12% Similarity=0.213 Sum_probs=25.0
Q ss_pred ccccCchhHHhhhhhhcCCCCCCcccCCccCCccCChHHHHHHHhhhcccCCCCCCcCCCC
Q psy8183 59 KCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQETYLSKHMQKHAERSDKRPPIIGIP 119 (223)
Q Consensus 59 ~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~c~~~ 119 (223)
-.|.+...|.+.+.... ...-.|..||-.|..... .....+.|+.|.-.
T Consensus 115 Ls~tRAw~LvRf~~s~~----L~l~~C~~Cgg~fv~~~~--------e~~~~f~CplC~~p 163 (187)
T PRK12722 115 LSLTRAWTLVRFVDSGM----LQLSSCNCCGGHFVTHAH--------DPVGSFVCGLCQPP 163 (187)
T ss_pred ecHHHHHHHHHHHhcCc----EeeccCCCCCCCeecccc--------ccCCCCcCCCCCCc
Confidence 45555566665554332 144456666666653322 22345666666553
No 218
>KOG0978|consensus
Probab=22.66 E-value=24 Score=32.66 Aligned_cols=47 Identities=19% Similarity=0.362 Sum_probs=27.4
Q ss_pred eecccCccccccCChHHH-HHH------HHHhCCCCCccCCcCcccccCchhHHhh
Q psy8183 22 YKCRHPGCVKAFSQLSNL-QSH------SRCHQTDKPYKCNSCYKCFVDETALLEH 70 (223)
Q Consensus 22 ~~C~~p~C~k~f~~~~~L-~~H------~~~h~~~k~~~C~~C~~~f~~~~~l~~H 70 (223)
..|+. |...+++.--. -.| +++-.+.+.-+||.|+..|...+.+.-|
T Consensus 644 LkCs~--Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 644 LKCSV--CNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred eeCCC--ccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence 57866 88665543211 112 1222233455899999999987765443
No 219
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=22.54 E-value=28 Score=24.22 Aligned_cols=39 Identities=21% Similarity=0.310 Sum_probs=19.9
Q ss_pred ccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccC
Q psy8183 52 YKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYT 93 (223)
Q Consensus 52 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~ 93 (223)
..|+.||..=..-..| ..+. .++....-|.|..||..|.
T Consensus 73 ~~CpkCg~~ea~y~~~--QtRs-aDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYYWQL--QTRS-ADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEEEee--ehhc-cCCCceEEEEecccCCEee
Confidence 5688887532222222 1121 1221124589999998764
No 220
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=22.21 E-value=18 Score=27.04 Aligned_cols=12 Identities=50% Similarity=0.883 Sum_probs=6.6
Q ss_pred cccCCccCCccC
Q psy8183 82 THICQYCGKSYT 93 (223)
Q Consensus 82 ~~~C~~C~~~f~ 93 (223)
.|.|+.||+.+.
T Consensus 28 sf~C~~CGyr~~ 39 (163)
T TIGR00340 28 TYICEKCGYRST 39 (163)
T ss_pred EEECCCCCCchh
Confidence 355666665443
No 221
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=22.19 E-value=59 Score=28.22 Aligned_cols=31 Identities=13% Similarity=0.392 Sum_probs=22.4
Q ss_pred ecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCchh
Q psy8183 23 KCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDETA 66 (223)
Q Consensus 23 ~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~~~ 66 (223)
.|+. ||....+. |.+-|+|..||+.+.....
T Consensus 352 ~Cp~--Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 352 VCPR--CGGRMKSA-----------GRNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCc--cCCchhhc-----------CCCCcccccccccCCcccc
Confidence 7966 99875442 3347999999998866543
No 222
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=21.77 E-value=65 Score=19.34 Aligned_cols=31 Identities=26% Similarity=0.498 Sum_probs=15.0
Q ss_pred CCccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCc
Q psy8183 50 KPYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQY 87 (223)
Q Consensus 50 k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~ 87 (223)
.|++...|+..|....- ...+ ... +...|++
T Consensus 23 ~PV~s~~C~H~fek~aI-~~~i---~~~---~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFEKEAI-LQYI---QRN---GSKRCPV 53 (57)
T ss_dssp SEEEESSS--EEEHHHH-HHHC---TTT---S-EE-SC
T ss_pred CCcCcCCCCCeecHHHH-HHHH---Hhc---CCCCCCC
Confidence 46667778888765443 3333 122 5667876
No 223
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.46 E-value=56 Score=27.59 Aligned_cols=23 Identities=17% Similarity=0.489 Sum_probs=11.2
Q ss_pred CCCccCCcCc-ccccCchhHHhhh
Q psy8183 49 DKPYKCNSCY-KCFVDETALLEHI 71 (223)
Q Consensus 49 ~k~~~C~~C~-~~f~~~~~l~~H~ 71 (223)
.+.|.|.+|| +.+..+..+.+|.
T Consensus 372 d~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 372 DIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred CcceeeeecccccccchHHHHhhh
Confidence 3445555555 4444444444443
No 224
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.34 E-value=48 Score=20.28 Aligned_cols=10 Identities=30% Similarity=0.846 Sum_probs=6.3
Q ss_pred CcccCCccCC
Q psy8183 81 KTHICQYCGK 90 (223)
Q Consensus 81 k~~~C~~C~~ 90 (223)
+.|.|+.|..
T Consensus 30 rtymC~eC~~ 39 (68)
T COG4896 30 RTYMCPECEH 39 (68)
T ss_pred eeEechhhHh
Confidence 5666666654
No 225
>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=21.19 E-value=38 Score=18.36 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=5.9
Q ss_pred CcccCCccCCc
Q psy8183 81 KTHICQYCGKS 91 (223)
Q Consensus 81 k~~~C~~C~~~ 91 (223)
+-|+|..||..
T Consensus 5 ~~YkC~~CGni 15 (36)
T PF06397_consen 5 EFYKCEHCGNI 15 (36)
T ss_dssp EEEE-TTT--E
T ss_pred cEEEccCCCCE
Confidence 56888888854
No 226
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=21.19 E-value=36 Score=20.28 Aligned_cols=34 Identities=21% Similarity=0.371 Sum_probs=18.9
Q ss_pred ecccCccccccCChHHHHHHHHHhCCCCCccCCcCcccccCc
Q psy8183 23 KCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKCFVDE 64 (223)
Q Consensus 23 ~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~f~~~ 64 (223)
.|+.|+|+....... ..+.....|+.|+..|-..
T Consensus 20 ~CP~~~C~~~~~~~~--------~~~~~~v~C~~C~~~fC~~ 53 (64)
T smart00647 20 WCPAPDCSAAIIVTE--------EEGCNRVTCPKCGFSFCFR 53 (64)
T ss_pred CCCCCCCcceEEecC--------CCCCCeeECCCCCCeECCC
Confidence 476557876654321 1233446677777666543
No 227
>PRK00420 hypothetical protein; Validated
Probab=21.06 E-value=58 Score=22.68 Aligned_cols=11 Identities=36% Similarity=0.788 Sum_probs=6.0
Q ss_pred ccCCccCCccC
Q psy8183 83 HICQYCGKSYT 93 (223)
Q Consensus 83 ~~C~~C~~~f~ 93 (223)
..|+.||....
T Consensus 41 ~~Cp~Cg~~~~ 51 (112)
T PRK00420 41 VVCPVHGKVYI 51 (112)
T ss_pred eECCCCCCeee
Confidence 44666665443
No 228
>KOG4377|consensus
Probab=21.00 E-value=53 Score=28.33 Aligned_cols=73 Identities=23% Similarity=0.504 Sum_probs=47.4
Q ss_pred CCCeecccCccccccCChHHHHHHHHHhCCC------------CCccCC--cCcccccCchhHHhhhhhhcCCCC--C--
Q psy8183 19 DKPYKCRHPGCVKAFSQLSNLQSHSRCHQTD------------KPYKCN--SCYKCFVDETALLEHIPKHKDSKH--L-- 80 (223)
Q Consensus 19 ~k~~~C~~p~C~k~f~~~~~L~~H~~~h~~~------------k~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~--~-- 80 (223)
..-|.|-.+.|+..+-.+..+.+|...|-.. ..|.|. .|.+ +.+....|...|+.... +
T Consensus 269 rEhyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfrr 345 (480)
T KOG4377|consen 269 REHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRR 345 (480)
T ss_pred chhhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceec
Confidence 4458898888999988899999998877432 125664 4877 44556667777743211 0
Q ss_pred CcccCCccC--CccCC
Q psy8183 81 KTHICQYCG--KSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~--~~f~~ 94 (223)
..|.|..|+ ..|.-
T Consensus 346 thfhC~r~gCTdtfK~ 361 (480)
T KOG4377|consen 346 THFHCQRIGCTDTFKD 361 (480)
T ss_pred ceeEEeccCCcccccc
Confidence 246787766 55553
No 229
>PRK04351 hypothetical protein; Provisional
Probab=20.89 E-value=48 Score=24.36 Aligned_cols=33 Identities=21% Similarity=0.528 Sum_probs=21.7
Q ss_pred CccCCcCcccccCchhHHhhhhhhcCCCCCCcccCCccCCccCC
Q psy8183 51 PYKCNSCYKCFVDETALLEHIPKHKDSKHLKTHICQYCGKSYTQ 94 (223)
Q Consensus 51 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~k~~~C~~C~~~f~~ 94 (223)
.|.|..|+..+.+. +.+. . ..|.|..|+-.+..
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~n-~---~~yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRIN-T---KRYRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeeee-------eecC-C---CcEEeCCCCcEeee
Confidence 48898898766432 2222 2 66999999866543
No 230
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=20.80 E-value=66 Score=19.04 Aligned_cols=34 Identities=21% Similarity=0.404 Sum_probs=15.4
Q ss_pred ecccCccccccCChHHHHHHHHHhCCCC-CccCCcCcccccCch
Q psy8183 23 KCRHPGCVKAFSQLSNLQSHSRCHQTDK-PYKCNSCYKCFVDET 65 (223)
Q Consensus 23 ~C~~p~C~k~f~~~~~L~~H~~~h~~~k-~~~C~~C~~~f~~~~ 65 (223)
.|+.|+|+..+..... ... ...|..|+..|-..-
T Consensus 20 ~Cp~~~C~~~~~~~~~---------~~~~~~~C~~C~~~fC~~C 54 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDG---------CNSPIVTCPSCGTEFCFKC 54 (64)
T ss_dssp --TTSST---ECS-SS---------TTS--CCTTSCCSEECSSS
T ss_pred CCCCCCCcccEEecCC---------CCCCeeECCCCCCcCcccc
Confidence 6776778877654321 111 257777777765543
No 231
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=20.67 E-value=64 Score=18.84 Aligned_cols=8 Identities=38% Similarity=0.949 Sum_probs=4.2
Q ss_pred ccCCccCC
Q psy8183 83 HICQYCGK 90 (223)
Q Consensus 83 ~~C~~C~~ 90 (223)
+.|..||.
T Consensus 38 ~~CGkCgy 45 (51)
T COG1998 38 WACGKCGY 45 (51)
T ss_pred eEeccccc
Confidence 45555554
No 232
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.66 E-value=53 Score=26.99 Aligned_cols=15 Identities=20% Similarity=0.545 Sum_probs=10.7
Q ss_pred CcccCCccCCccCCh
Q psy8183 81 KTHICQYCGKSYTQE 95 (223)
Q Consensus 81 k~~~C~~C~~~f~~~ 95 (223)
+.|.|+.||..+.+.
T Consensus 321 r~~~C~~cg~~~~rD 335 (364)
T COG0675 321 RLFKCPRCGFVHDRD 335 (364)
T ss_pred eeEECCCCCCeehhh
Confidence 668888888765543
No 233
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.66 E-value=68 Score=26.25 Aligned_cols=14 Identities=21% Similarity=0.448 Sum_probs=9.7
Q ss_pred CcccCCccCCccCC
Q psy8183 81 KTHICQYCGKSYTQ 94 (223)
Q Consensus 81 k~~~C~~C~~~f~~ 94 (223)
.-|.|..|.-.|-.
T Consensus 254 ~GyvCs~Clsi~C~ 267 (279)
T TIGR00627 254 IGFVCSVCLSVLCQ 267 (279)
T ss_pred ceEECCCccCCcCC
Confidence 34888888776663
No 234
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.27 E-value=54 Score=22.90 Aligned_cols=12 Identities=25% Similarity=0.941 Sum_probs=7.2
Q ss_pred eecccCccccccCC
Q psy8183 22 YKCRHPGCVKAFSQ 35 (223)
Q Consensus 22 ~~C~~p~C~k~f~~ 35 (223)
+.|.. |+..|..
T Consensus 72 ~~C~~--Cg~~~~~ 83 (117)
T PRK00564 72 LECKD--CSHVFKP 83 (117)
T ss_pred EEhhh--CCCcccc
Confidence 56655 7766553
No 235
>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=20.12 E-value=50 Score=22.89 Aligned_cols=26 Identities=23% Similarity=0.571 Sum_probs=16.2
Q ss_pred CeecccCccccccCChHHHHHHHHHhCCCCCccCCcCccc
Q psy8183 21 PYKCRHPGCVKAFSQLSNLQSHSRCHQTDKPYKCNSCYKC 60 (223)
Q Consensus 21 ~~~C~~p~C~k~f~~~~~L~~H~~~h~~~k~~~C~~C~~~ 60 (223)
.+.|.. |++.|.-... .+.|+.||..
T Consensus 70 ~~~C~~--Cg~~~~~~~~------------~~~CP~Cgs~ 95 (113)
T PF01155_consen 70 RARCRD--CGHEFEPDEF------------DFSCPRCGSP 95 (113)
T ss_dssp EEEETT--TS-EEECHHC------------CHH-SSSSSS
T ss_pred cEECCC--CCCEEecCCC------------CCCCcCCcCC
Confidence 378877 9988875442 2569998864
Done!