Query psy16923
Match_columns 159
No_of_seqs 177 out of 2264
Neff 10.4
Searched_HMMs 46136
Date Fri Aug 16 17:09:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16923.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16923hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 1.1E-25 2.3E-30 155.0 4.5 117 3-122 138-258 (279)
2 KOG2462|consensus 99.9 3E-24 6.5E-29 147.9 4.6 98 3-101 169-266 (279)
3 KOG1074|consensus 99.7 5.2E-19 1.1E-23 137.1 2.4 56 51-106 606-661 (958)
4 KOG1074|consensus 99.7 3.6E-18 7.8E-23 132.5 3.2 54 51-104 880-933 (958)
5 KOG3576|consensus 99.7 1.3E-17 2.7E-22 110.6 1.4 86 20-105 115-200 (267)
6 KOG3576|consensus 99.7 3E-17 6.6E-22 108.8 2.1 106 3-108 125-242 (267)
7 KOG3623|consensus 99.6 3.4E-16 7.4E-21 120.3 5.8 94 9-102 224-333 (1007)
8 KOG3623|consensus 99.6 2.7E-16 5.9E-21 120.8 1.8 81 19-99 891-971 (1007)
9 KOG3608|consensus 99.6 1.1E-15 2.3E-20 109.1 1.9 97 3-99 187-313 (467)
10 KOG3608|consensus 99.5 4.3E-15 9.4E-20 106.0 4.0 72 2-74 244-316 (467)
11 PHA00733 hypothetical protein 99.4 9E-13 1.9E-17 83.7 4.4 84 19-104 37-125 (128)
12 PLN03086 PRLI-interacting fact 99.2 6.3E-11 1.4E-15 91.2 7.9 91 8-103 465-565 (567)
13 PHA00733 hypothetical protein 99.2 8.5E-11 1.8E-15 74.7 5.6 64 10-75 61-124 (128)
14 PHA02768 hypothetical protein; 99.1 6.6E-11 1.4E-15 63.0 2.0 42 51-94 6-47 (55)
15 PHA02768 hypothetical protein; 99.1 8.2E-11 1.8E-15 62.6 2.0 44 22-67 5-48 (55)
16 PLN03086 PRLI-interacting fact 98.9 2.8E-09 6E-14 82.3 6.0 89 20-115 451-549 (567)
17 PF13465 zf-H2C2_2: Zinc-finge 98.9 9.3E-10 2E-14 50.3 1.4 23 11-33 2-25 (26)
18 PF13465 zf-H2C2_2: Zinc-finge 98.8 3E-09 6.4E-14 48.6 1.9 24 66-89 2-25 (26)
19 PHA00616 hypothetical protein 98.7 6.3E-09 1.4E-13 52.8 1.6 34 22-55 1-34 (44)
20 KOG3993|consensus 98.6 4.8E-09 1E-13 77.1 -0.5 83 23-105 268-383 (500)
21 KOG3993|consensus 98.6 3.3E-08 7.2E-13 72.8 3.2 102 5-106 277-486 (500)
22 PHA00732 hypothetical protein 98.5 1.2E-07 2.6E-12 55.0 3.5 48 22-75 1-49 (79)
23 PHA00616 hypothetical protein 98.5 5.4E-08 1.2E-12 49.4 1.4 34 50-83 1-34 (44)
24 PHA00732 hypothetical protein 98.4 2.3E-07 4.9E-12 53.9 2.7 47 50-102 1-48 (79)
25 PF05605 zf-Di19: Drought indu 98.3 1.8E-06 3.9E-11 46.5 3.9 49 51-102 3-53 (54)
26 PF00096 zf-C2H2: Zinc finger, 98.2 9.2E-07 2E-11 39.0 1.3 22 23-44 1-22 (23)
27 PF05605 zf-Di19: Drought indu 98.1 8.5E-06 1.8E-10 43.9 4.2 50 22-74 2-53 (54)
28 PF00096 zf-C2H2: Zinc finger, 98.0 2.7E-06 5.8E-11 37.4 1.6 22 79-100 1-22 (23)
29 PF12756 zf-C2H2_2: C2H2 type 98.0 2.8E-06 6E-11 51.6 2.1 74 24-102 1-74 (100)
30 PF13894 zf-C2H2_4: C2H2-type 98.0 4.6E-06 9.9E-11 36.9 1.8 24 79-102 1-24 (24)
31 COG5189 SFP1 Putative transcri 97.9 3.6E-06 7.8E-11 60.3 1.0 51 49-99 348-419 (423)
32 PF13894 zf-C2H2_4: C2H2-type 97.9 7.9E-06 1.7E-10 36.1 1.8 23 23-45 1-23 (24)
33 PF09237 GAGA: GAGA factor; I 97.9 6.2E-06 1.3E-10 42.9 1.4 39 12-50 12-52 (54)
34 PF13912 zf-C2H2_6: C2H2-type 97.9 7.2E-06 1.6E-10 37.5 1.3 24 22-45 1-24 (27)
35 COG5189 SFP1 Putative transcri 97.8 5.9E-06 1.3E-10 59.2 0.7 53 19-71 346-419 (423)
36 PF13912 zf-C2H2_6: C2H2-type 97.8 1.3E-05 2.8E-10 36.7 1.4 24 79-102 2-25 (27)
37 smart00355 ZnF_C2H2 zinc finge 97.4 0.00021 4.5E-09 31.8 2.6 24 23-46 1-24 (26)
38 KOG1146|consensus 97.2 0.00049 1.1E-08 58.0 4.1 100 19-118 462-629 (1406)
39 PF13909 zf-H2C2_5: C2H2-type 97.2 0.00022 4.7E-09 31.5 1.2 24 79-103 1-24 (24)
40 smart00355 ZnF_C2H2 zinc finge 97.1 0.0004 8.6E-09 30.8 1.7 22 79-100 1-22 (26)
41 PF12874 zf-met: Zinc-finger o 97.0 0.00029 6.2E-09 31.4 1.0 20 24-43 2-21 (25)
42 PF09237 GAGA: GAGA factor; I 97.0 0.00086 1.9E-08 35.0 2.6 30 75-104 21-50 (54)
43 PRK04860 hypothetical protein; 96.9 0.0006 1.3E-08 45.1 2.2 39 49-91 118-156 (160)
44 PF12874 zf-met: Zinc-finger o 96.9 0.00066 1.4E-08 30.2 1.7 21 51-71 1-21 (25)
45 PF13909 zf-H2C2_5: C2H2-type 96.9 0.00057 1.2E-08 30.1 1.2 22 23-45 1-22 (24)
46 PRK04860 hypothetical protein; 96.8 0.00072 1.6E-08 44.7 1.6 37 22-62 119-155 (160)
47 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.00068 1.5E-08 30.8 0.1 21 23-43 2-22 (27)
48 KOG4173|consensus 96.5 0.0012 2.7E-08 44.7 1.2 80 21-103 78-171 (253)
49 KOG1146|consensus 96.4 0.0028 6E-08 53.7 3.1 76 25-100 439-540 (1406)
50 PF12171 zf-C2H2_jaz: Zinc-fin 96.4 0.0013 2.8E-08 29.9 0.7 21 79-99 2-22 (27)
51 KOG2482|consensus 96.2 0.015 3.2E-07 42.7 5.4 28 79-106 280-307 (423)
52 PF12756 zf-C2H2_2: C2H2 type 96.0 0.0062 1.4E-07 36.6 2.5 65 4-73 8-73 (100)
53 KOG2893|consensus 95.9 0.0027 5.9E-08 44.1 0.5 49 52-104 12-60 (341)
54 PF13913 zf-C2HC_2: zinc-finge 95.6 0.014 3.1E-07 25.9 2.1 20 23-43 3-22 (25)
55 KOG2482|consensus 95.2 0.022 4.8E-07 41.8 3.2 78 23-100 196-356 (423)
56 smart00451 ZnF_U1 U1-like zinc 95.1 0.022 4.7E-07 27.3 2.1 23 22-44 3-25 (35)
57 COG5048 FOG: Zn-finger [Genera 94.3 0.012 2.7E-07 44.5 0.1 63 21-83 288-356 (467)
58 smart00451 ZnF_U1 U1-like zinc 94.1 0.048 1E-06 26.1 2.0 22 50-71 3-24 (35)
59 KOG2231|consensus 94.1 0.13 2.7E-06 41.5 5.2 21 52-72 184-204 (669)
60 KOG2231|consensus 94.1 0.098 2.1E-06 42.1 4.5 86 6-99 160-260 (669)
61 cd00350 rubredoxin_like Rubred 94.0 0.032 7E-07 26.6 1.2 10 77-86 16-25 (33)
62 PF12013 DUF3505: Protein of u 93.7 0.16 3.5E-06 31.3 4.3 83 20-103 9-109 (109)
63 COG4049 Uncharacterized protei 93.2 0.038 8.2E-07 29.4 0.7 26 19-44 14-39 (65)
64 PF12013 DUF3505: Protein of u 93.1 0.19 4.1E-06 31.0 3.8 22 50-72 11-32 (109)
65 KOG2186|consensus 92.4 0.086 1.9E-06 37.2 1.7 47 22-71 3-49 (276)
66 COG5236 Uncharacterized conser 92.2 0.11 2.4E-06 38.4 2.2 47 52-102 222-275 (493)
67 KOG2893|consensus 92.1 0.048 1E-06 38.1 0.3 44 24-71 12-55 (341)
68 COG5236 Uncharacterized conser 90.9 0.84 1.8E-05 34.0 5.5 92 9-105 202-308 (493)
69 COG4049 Uncharacterized protei 90.7 0.11 2.3E-06 27.7 0.6 29 75-103 14-42 (65)
70 TIGR00373 conserved hypothetic 90.6 0.29 6.4E-06 32.4 2.8 18 21-38 108-125 (158)
71 PF09986 DUF2225: Uncharacteri 90.4 0.065 1.4E-06 37.3 -0.5 13 79-91 49-61 (214)
72 COG5048 FOG: Zn-finger [Genera 90.2 0.08 1.7E-06 40.1 -0.2 57 49-105 288-350 (467)
73 PF09538 FYDLN_acid: Protein o 89.9 0.14 3E-06 31.7 0.8 30 51-91 10-39 (108)
74 cd00729 rubredoxin_SM Rubredox 89.7 0.2 4.3E-06 24.0 1.1 10 51-60 3-12 (34)
75 PF13719 zinc_ribbon_5: zinc-r 89.2 0.28 6.1E-06 24.0 1.4 13 24-36 4-16 (37)
76 COG1592 Rubrerythrin [Energy p 88.7 0.31 6.6E-06 32.5 1.7 24 50-86 134-157 (166)
77 TIGR00622 ssl1 transcription f 88.6 0.65 1.4E-05 28.8 3.0 81 20-102 13-105 (112)
78 KOG2785|consensus 88.3 0.7 1.5E-05 34.7 3.5 28 20-47 164-191 (390)
79 PRK06266 transcription initiat 88.2 0.48 1E-05 32.1 2.4 16 50-65 117-132 (178)
80 PF13717 zinc_ribbon_4: zinc-r 88.0 0.44 9.6E-06 23.1 1.6 13 24-36 4-16 (36)
81 PF15135 UPF0515: Uncharacteri 87.3 0.78 1.7E-05 32.5 3.1 25 6-30 90-120 (278)
82 TIGR02098 MJ0042_CXXC MJ0042 f 86.7 0.47 1E-05 23.1 1.4 10 24-33 4-13 (38)
83 PF09986 DUF2225: Uncharacteri 86.4 0.095 2.1E-06 36.5 -1.7 44 20-63 3-61 (214)
84 smart00531 TFIIE Transcription 86.3 1.1 2.4E-05 29.3 3.3 16 21-36 98-113 (147)
85 PF02892 zf-BED: BED zinc fing 85.8 0.58 1.3E-05 23.7 1.5 26 77-102 15-44 (45)
86 TIGR00373 conserved hypothetic 85.5 1.3 2.8E-05 29.4 3.3 35 46-89 105-139 (158)
87 smart00659 RPOLCX RNA polymera 84.3 0.71 1.5E-05 23.5 1.3 11 51-61 3-13 (44)
88 smart00614 ZnF_BED BED zinc fi 83.7 0.91 2E-05 23.7 1.7 24 79-102 19-47 (50)
89 KOG2186|consensus 83.1 1 2.2E-05 32.0 2.1 50 50-102 3-52 (276)
90 TIGR02300 FYDLN_acid conserved 83.1 0.6 1.3E-05 29.5 0.9 34 51-95 10-43 (129)
91 COG1997 RPL43A Ribosomal prote 82.8 0.83 1.8E-05 26.8 1.4 11 50-60 53-63 (89)
92 PF04959 ARS2: Arsenite-resist 82.3 0.79 1.7E-05 31.9 1.4 32 76-107 75-106 (214)
93 COG2888 Predicted Zn-ribbon RN 81.8 1.3 2.9E-05 24.0 1.8 50 22-86 9-58 (61)
94 PRK06266 transcription initiat 81.5 1.9 4.2E-05 29.1 3.0 33 20-61 115-147 (178)
95 smart00734 ZnF_Rad18 Rad18-lik 79.4 2.4 5.2E-05 18.9 2.0 19 24-43 3-21 (26)
96 PF12907 zf-met2: Zinc-binding 78.4 1.4 3.1E-05 21.9 1.2 27 79-105 2-31 (40)
97 KOG4377|consensus 78.1 2.2 4.8E-05 32.5 2.6 98 2-102 280-427 (480)
98 PF02176 zf-TRAF: TRAF-type zi 77.8 2.2 4.9E-05 22.9 2.0 40 49-89 8-53 (60)
99 KOG4173|consensus 77.7 1.2 2.7E-05 30.6 1.1 50 50-102 79-130 (253)
100 COG1996 RPC10 DNA-directed RNA 77.5 1.4 3.1E-05 23.0 1.1 11 50-60 6-16 (49)
101 TIGR02605 CxxC_CxxC_SSSS putat 77.3 0.69 1.5E-05 24.3 -0.1 11 51-61 6-16 (52)
102 PRK00398 rpoP DNA-directed RNA 76.1 1.7 3.6E-05 22.2 1.1 10 51-60 4-13 (46)
103 KOG2785|consensus 75.8 3.6 7.8E-05 31.1 3.1 49 52-100 168-242 (390)
104 PF09723 Zn-ribbon_8: Zinc rib 75.3 1.2 2.5E-05 22.4 0.4 12 51-62 6-17 (42)
105 PRK00464 nrdR transcriptional 75.2 0.66 1.4E-05 30.6 -0.7 14 51-64 29-42 (154)
106 smart00834 CxxC_CXXC_SSSS Puta 74.8 0.84 1.8E-05 22.5 -0.2 11 51-61 6-16 (41)
107 PF06524 NOA36: NOA36 protein; 72.5 1.6 3.4E-05 31.2 0.6 83 16-100 136-231 (314)
108 PF05443 ROS_MUCR: ROS/MUCR tr 72.3 3 6.6E-05 26.7 1.8 31 79-112 73-103 (132)
109 PF13878 zf-C2H2_3: zinc-finge 72.1 4.8 0.0001 20.1 2.2 25 22-46 13-39 (41)
110 PF15269 zf-C2H2_7: Zinc-finge 71.7 3.4 7.3E-05 21.0 1.5 22 23-44 21-42 (54)
111 COG1655 Uncharacterized protei 71.3 1 2.2E-05 31.6 -0.5 9 79-87 63-71 (267)
112 PRK14890 putative Zn-ribbon RN 70.3 3 6.4E-05 22.7 1.2 53 20-87 5-57 (59)
113 PF05191 ADK_lid: Adenylate ki 70.3 3.3 7.1E-05 20.1 1.3 10 79-88 22-31 (36)
114 PF03604 DNA_RNApol_7kD: DNA d 69.1 4.7 0.0001 19.0 1.6 10 78-87 17-26 (32)
115 PF10571 UPF0547: Uncharacteri 66.3 2.9 6.2E-05 18.7 0.6 10 80-89 16-25 (26)
116 PTZ00255 60S ribosomal protein 66.0 2.7 5.9E-05 25.0 0.6 11 50-60 54-64 (90)
117 COG1198 PriA Primosomal protei 64.4 2.6 5.6E-05 34.9 0.4 13 75-87 472-484 (730)
118 PF01780 Ribosomal_L37ae: Ribo 64.3 1.8 3.9E-05 25.7 -0.4 11 79-89 54-64 (90)
119 KOG3408|consensus 64.0 4.9 0.00011 25.3 1.4 23 49-71 56-78 (129)
120 KOG4167|consensus 64.0 1.2 2.5E-05 36.5 -1.5 27 20-46 790-816 (907)
121 TIGR00280 L37a ribosomal prote 63.6 3.1 6.8E-05 24.8 0.6 10 79-88 54-63 (91)
122 PF07975 C1_4: TFIIH C1-like d 62.4 1.5 3.3E-05 23.1 -0.8 20 22-41 21-40 (51)
123 KOG2593|consensus 61.5 13 0.00028 28.8 3.5 36 21-59 127-162 (436)
124 KOG2593|consensus 61.3 11 0.00023 29.2 3.1 39 46-87 124-162 (436)
125 PF13453 zf-TFIIB: Transcripti 61.2 4.1 8.8E-05 20.2 0.6 18 50-67 19-36 (41)
126 PF14353 CpXC: CpXC protein 60.7 11 0.00024 23.8 2.8 9 24-32 3-11 (128)
127 COG5151 SSL1 RNA polymerase II 60.2 4.8 0.0001 29.7 1.1 47 53-102 365-412 (421)
128 PF07754 DUF1610: Domain of un 60.1 4.6 9.9E-05 17.7 0.6 10 21-30 15-24 (24)
129 KOG2807|consensus 59.9 13 0.00028 27.7 3.2 70 20-102 288-369 (378)
130 KOG3408|consensus 59.9 4.9 0.00011 25.2 1.0 26 75-100 54-79 (129)
131 PF08274 PhnA_Zn_Ribbon: PhnA 59.8 4.4 9.4E-05 18.8 0.6 7 51-57 20-26 (30)
132 PRK03824 hypA hydrogenase nick 58.4 4.4 9.6E-05 26.1 0.6 14 50-63 70-83 (135)
133 PF04780 DUF629: Protein of un 58.1 6.5 0.00014 30.8 1.6 30 76-105 55-84 (466)
134 PRK03976 rpl37ae 50S ribosomal 58.1 4.1 8.9E-05 24.2 0.4 10 79-88 55-64 (90)
135 PF04959 ARS2: Arsenite-resist 57.1 5.8 0.00013 27.7 1.1 26 47-72 74-99 (214)
136 PRK09678 DNA-binding transcrip 56.5 2.9 6.4E-05 23.8 -0.4 16 76-91 25-42 (72)
137 PF07800 DUF1644: Protein of u 55.9 33 0.00071 22.8 4.3 53 51-105 81-135 (162)
138 COG4530 Uncharacterized protei 55.8 4.3 9.4E-05 25.0 0.2 28 52-90 11-38 (129)
139 COG3364 Zn-ribbon containing p 55.2 8.2 0.00018 23.5 1.3 12 51-62 3-14 (112)
140 KOG4167|consensus 54.7 2.8 6E-05 34.5 -0.9 28 79-106 793-820 (907)
141 PLN02294 cytochrome c oxidase 53.9 3.5 7.6E-05 27.6 -0.4 15 19-33 138-152 (174)
142 PF08790 zf-LYAR: LYAR-type C2 53.0 3.6 7.9E-05 18.7 -0.3 9 52-60 2-10 (28)
143 COG4888 Uncharacterized Zn rib 53.0 3.4 7.4E-05 25.0 -0.5 38 49-90 21-58 (104)
144 PHA00626 hypothetical protein 52.3 8 0.00017 20.8 0.9 16 21-36 22-37 (59)
145 KOG2907|consensus 51.3 8.2 0.00018 23.9 0.9 38 51-90 75-114 (116)
146 COG1675 TFA1 Transcription ini 50.7 21 0.00045 24.2 2.9 17 20-36 111-127 (176)
147 cd00924 Cyt_c_Oxidase_Vb Cytoc 50.4 3.8 8.3E-05 24.8 -0.6 15 19-33 76-90 (97)
148 COG4957 Predicted transcriptio 50.3 9.5 0.00021 24.5 1.1 23 52-77 78-100 (148)
149 COG2331 Uncharacterized protei 50.0 6.1 0.00013 22.6 0.2 10 23-32 13-22 (82)
150 smart00440 ZnF_C2C2 C2C2 Zinc 49.9 2 4.4E-05 21.3 -1.5 10 79-88 29-38 (40)
151 PF07282 OrfB_Zn_ribbon: Putat 49.7 15 0.00032 20.3 1.8 12 77-88 45-56 (69)
152 KOG1842|consensus 48.6 9.5 0.00021 29.6 1.1 23 50-72 15-37 (505)
153 KOG0978|consensus 48.4 6.3 0.00014 32.4 0.2 20 78-97 678-697 (698)
154 smart00154 ZnF_AN1 AN1-like Zi 48.3 9.6 0.00021 18.7 0.8 13 22-34 12-24 (39)
155 KOG2071|consensus 48.2 13 0.00027 30.0 1.7 28 19-46 415-442 (579)
156 PRK14873 primosome assembly pr 47.6 14 0.00031 30.5 2.0 11 77-87 421-431 (665)
157 PF10013 DUF2256: Uncharacteri 47.2 11 0.00024 18.9 0.9 14 80-93 10-23 (42)
158 PF05495 zf-CHY: CHY zinc fing 47.2 3.8 8.2E-05 23.2 -0.9 59 22-88 10-71 (71)
159 PF12760 Zn_Tnp_IS1595: Transp 47.0 18 0.00039 18.3 1.7 8 78-85 37-44 (46)
160 COG3091 SprT Zn-dependent meta 46.4 10 0.00022 24.9 0.9 35 48-87 115-149 (156)
161 COG1571 Predicted DNA-binding 46.3 11 0.00025 29.1 1.2 29 52-91 352-380 (421)
162 PF13451 zf-trcl: Probable zin 46.2 14 0.0003 19.3 1.2 11 51-61 5-15 (49)
163 PF04780 DUF629: Protein of un 45.4 16 0.00035 28.7 1.9 24 49-72 56-79 (466)
164 KOG1280|consensus 44.5 21 0.00045 26.9 2.2 36 50-85 79-116 (381)
165 KOG0717|consensus 43.5 14 0.0003 29.0 1.3 22 23-44 293-314 (508)
166 TIGR00100 hypA hydrogenase nic 43.4 11 0.00024 23.5 0.7 24 51-86 71-94 (115)
167 KOG0782|consensus 41.1 3.5 7.5E-05 33.1 -2.2 52 36-92 239-290 (1004)
168 KOG2636|consensus 40.0 21 0.00046 27.8 1.8 29 71-99 394-423 (497)
169 TIGR00595 priA primosomal prot 39.6 27 0.00059 27.8 2.4 10 77-86 252-261 (505)
170 PRK12380 hydrogenase nickel in 39.3 15 0.00033 22.8 0.8 24 51-86 71-94 (113)
171 PF01363 FYVE: FYVE zinc finge 39.2 21 0.00045 19.7 1.3 10 24-33 11-20 (69)
172 KOG0402|consensus 37.8 28 0.00061 20.4 1.7 9 22-30 36-44 (92)
173 PF10537 WAC_Acf1_DNA_bd: ATP- 37.5 57 0.0012 19.9 3.1 38 21-59 2-39 (102)
174 COG1773 Rubredoxin [Energy pro 37.5 16 0.00035 19.6 0.6 14 78-91 3-16 (55)
175 PF04810 zf-Sec23_Sec24: Sec23 37.4 9.4 0.0002 18.8 -0.3 13 75-87 21-33 (40)
176 PF10263 SprT-like: SprT-like 37.1 10 0.00022 24.7 -0.2 33 49-89 122-154 (157)
177 PRK04023 DNA polymerase II lar 36.9 29 0.00064 30.1 2.3 12 20-31 624-635 (1121)
178 PRK00432 30S ribosomal protein 36.5 17 0.00037 19.0 0.6 8 79-86 38-45 (50)
179 PF13824 zf-Mss51: Zinc-finger 36.1 29 0.00062 18.6 1.4 13 76-88 12-24 (55)
180 PF01428 zf-AN1: AN1-like Zinc 35.8 10 0.00022 19.0 -0.3 13 21-33 12-24 (43)
181 PTZ00448 hypothetical protein; 35.6 32 0.0007 26.2 2.1 23 22-44 314-336 (373)
182 KOG0717|consensus 34.6 21 0.00045 28.0 1.1 21 79-99 293-313 (508)
183 PF09845 DUF2072: Zn-ribbon co 34.3 23 0.0005 22.7 1.1 12 51-62 2-13 (131)
184 smart00661 RPOL9 RNA polymeras 34.2 29 0.00064 17.7 1.3 11 78-88 20-30 (52)
185 COG3357 Predicted transcriptio 34.0 19 0.00041 21.5 0.6 15 76-90 56-70 (97)
186 PF05290 Baculo_IE-1: Baculovi 33.9 24 0.00053 22.7 1.1 57 19-92 77-135 (140)
187 PF14311 DUF4379: Domain of un 33.9 34 0.00073 18.0 1.5 11 51-61 29-39 (55)
188 PRK12496 hypothetical protein; 33.7 33 0.00071 22.9 1.8 27 51-89 128-154 (164)
189 PF04423 Rad50_zn_hook: Rad50 33.4 17 0.00037 19.1 0.3 12 52-63 22-33 (54)
190 COG1656 Uncharacterized conser 33.1 38 0.00083 22.7 2.0 43 51-95 98-147 (165)
191 KOG4124|consensus 32.5 9.4 0.0002 28.7 -1.0 24 76-99 396-419 (442)
192 PRK00564 hypA hydrogenase nick 31.8 22 0.00047 22.3 0.7 12 51-62 72-83 (117)
193 PF10276 zf-CHCC: Zinc-finger 31.7 18 0.0004 18.0 0.3 12 77-88 28-39 (40)
194 PRK04351 hypothetical protein; 31.6 22 0.00047 23.4 0.6 33 50-90 112-144 (149)
195 cd00065 FYVE FYVE domain; Zinc 31.3 39 0.00084 17.6 1.6 11 24-34 4-14 (57)
196 KOG2071|consensus 31.2 34 0.00075 27.7 1.8 30 76-105 416-445 (579)
197 cd00730 rubredoxin Rubredoxin; 30.6 23 0.00049 18.6 0.5 13 79-91 2-14 (50)
198 TIGR01562 FdhE formate dehydro 30.5 45 0.00098 24.8 2.2 35 23-59 185-219 (305)
199 PLN02748 tRNA dimethylallyltra 30.2 43 0.00093 26.5 2.2 23 21-43 417-440 (468)
200 PTZ00043 cytochrome c oxidase 29.7 15 0.00032 25.9 -0.4 17 18-34 177-193 (268)
201 smart00731 SprT SprT homologue 29.7 30 0.00066 22.4 1.1 32 50-88 112-143 (146)
202 PHA02998 RNA polymerase subuni 29.6 9 0.00019 25.9 -1.4 39 51-91 144-184 (195)
203 KOG1994|consensus 29.6 33 0.00072 24.3 1.3 24 48-71 237-260 (268)
204 PF01155 HypA: Hydrogenase exp 29.5 23 0.0005 22.0 0.5 25 51-87 71-95 (113)
205 KOG1280|consensus 29.4 39 0.00084 25.5 1.7 30 77-106 78-107 (381)
206 COG5112 UFD2 U1-like Zn-finger 29.4 30 0.00065 21.3 0.9 22 50-71 55-76 (126)
207 KOG1842|consensus 29.4 33 0.00071 26.9 1.3 27 21-47 14-41 (505)
208 PRK12860 transcriptional activ 29.2 42 0.00091 23.1 1.7 48 29-85 114-161 (189)
209 KOG2636|consensus 28.7 39 0.00085 26.4 1.7 29 43-71 394-423 (497)
210 PRK03681 hypA hydrogenase nick 28.0 21 0.00045 22.2 0.1 12 51-62 71-82 (114)
211 TIGR00627 tfb4 transcription f 27.9 44 0.00096 24.5 1.8 25 50-88 255-279 (279)
212 PF00301 Rubredoxin: Rubredoxi 27.2 26 0.00057 18.1 0.4 14 79-92 2-15 (47)
213 PF11672 DUF3268: Protein of u 27.1 26 0.00056 21.4 0.4 11 21-31 1-11 (102)
214 PRK03564 formate dehydrogenase 26.9 41 0.00089 25.0 1.5 36 21-59 186-221 (309)
215 KOG4118|consensus 26.8 36 0.00078 18.9 0.9 27 79-105 39-65 (74)
216 smart00064 FYVE Protein presen 26.5 50 0.0011 18.0 1.5 11 23-33 11-21 (68)
217 PF03811 Zn_Tnp_IS1: InsA N-te 26.5 19 0.00041 17.4 -0.2 18 67-84 18-35 (36)
218 KOG3214|consensus 26.4 20 0.00043 21.8 -0.2 13 79-91 48-60 (109)
219 COG4896 Uncharacterized protei 26.0 37 0.00081 18.6 0.8 12 76-87 29-40 (68)
220 PF01215 COX5B: Cytochrome c o 24.7 9.8 0.00021 24.6 -1.8 12 21-32 111-122 (136)
221 PRK12722 transcriptional activ 24.6 49 0.0011 22.7 1.4 47 31-86 116-162 (187)
222 COG1326 Uncharacterized archae 24.6 71 0.0015 22.1 2.1 10 79-88 31-40 (201)
223 KOG1729|consensus 24.6 23 0.00049 26.1 -0.2 57 21-88 167-224 (288)
224 COG1594 RPB9 DNA-directed RNA 24.2 16 0.00035 22.7 -0.9 16 20-35 20-35 (113)
225 PRK00762 hypA hydrogenase nick 23.9 36 0.00077 21.6 0.6 12 51-63 71-82 (124)
226 COG5188 PRP9 Splicing factor 3 23.9 50 0.0011 25.1 1.4 29 71-99 367-396 (470)
227 PF09963 DUF2197: Uncharacteri 23.6 29 0.00063 18.7 0.1 10 77-86 30-39 (56)
228 PRK05978 hypothetical protein; 23.5 31 0.00068 22.6 0.3 11 80-90 54-64 (148)
229 PRK10220 hypothetical protein; 23.1 52 0.0011 20.4 1.2 12 79-90 21-32 (111)
230 COG4391 Uncharacterized protei 23.1 33 0.00071 18.8 0.3 45 41-89 15-59 (62)
231 COG0675 Transposase and inacti 22.7 52 0.0011 24.1 1.4 14 77-90 321-334 (364)
232 PF01286 XPA_N: XPA protein N- 22.6 37 0.00079 16.2 0.4 13 79-91 4-16 (34)
233 PF14803 Nudix_N_2: Nudix N-te 22.6 17 0.00036 17.4 -0.8 8 51-58 23-30 (34)
234 PF13821 DUF4187: Domain of un 22.5 1E+02 0.0022 16.4 2.1 18 51-68 28-45 (55)
235 COG3677 Transposase and inacti 22.4 48 0.001 21.2 1.0 13 21-33 52-64 (129)
236 TIGR00686 phnA alkylphosphonat 22.4 43 0.00093 20.7 0.7 12 79-90 20-31 (109)
237 COG2879 Uncharacterized small 22.3 1.2E+02 0.0027 16.7 2.4 19 32-50 22-40 (65)
238 COG4338 Uncharacterized protei 22.2 37 0.0008 17.6 0.4 17 23-39 13-29 (54)
239 PRK14714 DNA polymerase II lar 22.1 84 0.0018 28.3 2.6 52 23-88 668-719 (1337)
240 PLN03238 probable histone acet 22.0 1.1E+02 0.0024 22.6 2.8 24 20-43 46-69 (290)
241 PRK05452 anaerobic nitric oxid 21.6 63 0.0014 25.7 1.7 15 49-63 424-438 (479)
242 PF14369 zf-RING_3: zinc-finge 21.3 45 0.00098 15.9 0.5 10 24-33 23-32 (35)
243 PF00130 C1_1: Phorbol esters/ 21.0 74 0.0016 16.3 1.4 12 49-60 10-21 (53)
244 PF06397 Desulfoferrod_N: Desu 21.0 41 0.00088 16.3 0.3 11 21-31 5-15 (36)
245 KOG4727|consensus 20.8 54 0.0012 22.1 1.0 21 23-43 76-96 (193)
246 PF06220 zf-U1: U1 zinc finger 20.8 92 0.002 15.1 1.6 11 22-32 3-13 (38)
247 PF12230 PRP21_like_P: Pre-mRN 20.7 33 0.00071 24.1 0.0 28 51-79 169-196 (229)
248 PF11931 DUF3449: Domain of un 20.6 33 0.00072 23.7 0.0 28 72-99 95-123 (196)
249 PF02591 DUF164: Putative zinc 20.5 1.1E+02 0.0025 16.0 2.1 11 76-86 44-54 (56)
250 PRK14892 putative transcriptio 20.5 36 0.00078 20.7 0.1 13 78-90 42-54 (99)
251 PTZ00448 hypothetical protein; 20.4 69 0.0015 24.5 1.6 23 50-72 314-336 (373)
252 PRK11823 DNA repair protein Ra 20.2 62 0.0013 25.4 1.4 12 21-32 6-17 (446)
253 TIGR00244 transcriptional regu 20.1 42 0.00092 22.0 0.4 15 79-93 29-43 (147)
No 1
>KOG2462|consensus
Probab=99.92 E-value=1.1e-25 Score=155.01 Aligned_cols=117 Identities=30% Similarity=0.547 Sum_probs=104.4
Q ss_pred CCCCCHHHHHHHHHhh----CCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCC
Q psy16923 3 SRFKTKYRLKLHLDTH----GETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRP 78 (159)
Q Consensus 3 ~~f~~~~~l~~H~~~h----~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 78 (159)
|.+.+.++|.+|.++| ..+.+.|+.|++.|.+...|..|+++|. -+++|.+||+.|.+...|+.|+|.|+|+||
T Consensus 138 k~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKP 215 (279)
T KOG2462|consen 138 KSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKP 215 (279)
T ss_pred cccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCC
Confidence 5677888999999999 4788999999999999999999999997 688999999999999999999999999999
Q ss_pred cccccCcccccCchhHHHhHHhhCCchhhhhhhccccccccccc
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMHPEELKLYESSLGIVHKEKKK 122 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~~~~~~~~~~~ 122 (159)
|.|+.|++.|.++++|+.|+++|-. .....|..|+..+....-
T Consensus 216 F~C~hC~kAFADRSNLRAHmQTHS~-~K~~qC~~C~KsFsl~Sy 258 (279)
T KOG2462|consen 216 FSCPHCGKAFADRSNLRAHMQTHSD-VKKHQCPRCGKSFALKSY 258 (279)
T ss_pred ccCCcccchhcchHHHHHHHHhhcC-CccccCcchhhHHHHHHH
Confidence 9999999999999999999997654 447778887776664433
No 2
>KOG2462|consensus
Probab=99.90 E-value=3e-24 Score=147.90 Aligned_cols=98 Identities=28% Similarity=0.570 Sum_probs=92.2
Q ss_pred CCCCCHHHHHHHHHhhCCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccc
Q psy16923 3 SRFKTKYRLKLHLDTHGETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCP 82 (159)
Q Consensus 3 ~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~ 82 (159)
|.|..-..|+.|+|+|+ .++.|.+||+.|.+..-|+.|+|+|+|++||.|..|++.|.+.++|..|+++|.+.+.|.|.
T Consensus 169 K~YvSmpALkMHirTH~-l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~ 247 (279)
T KOG2462|consen 169 KVYVSMPALKMHIRTHT-LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCP 247 (279)
T ss_pred ceeeehHHHhhHhhccC-CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCc
Confidence 45666778999999995 78999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcccccCchhHHHhHHhh
Q psy16923 83 WCSRTFANGSNCRSHKRRM 101 (159)
Q Consensus 83 ~C~~~f~~~~~l~~H~~~~ 101 (159)
.|++.|...+.|.+|.+..
T Consensus 248 ~C~KsFsl~SyLnKH~ES~ 266 (279)
T KOG2462|consen 248 RCGKSFALKSYLNKHSESA 266 (279)
T ss_pred chhhHHHHHHHHHHhhhhc
Confidence 9999999999999998743
No 3
>KOG1074|consensus
Probab=99.74 E-value=5.2e-19 Score=137.11 Aligned_cols=56 Identities=29% Similarity=0.619 Sum_probs=51.6
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHHhhCCchh
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPEEL 106 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 106 (159)
-.|..|.++..-.+.|+.|.|.|+|++||+|.+||+.|.++.+|+.|+-.|.....
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~ 661 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPP 661 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCcc
Confidence 57999999999999999999999999999999999999999999999987665443
No 4
>KOG1074|consensus
Probab=99.71 E-value=3.6e-18 Score=132.54 Aligned_cols=54 Identities=31% Similarity=0.624 Sum_probs=50.9
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHHhhCCc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPE 104 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 104 (159)
..|.+|++.|.+.++|+.|+++|++++||.|..|++.|.++.+|+.||.+|+-.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~ 933 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWV 933 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhcccccc
Confidence 679999999999999999999999999999999999999999999999977643
No 5
>KOG3576|consensus
Probab=99.67 E-value=1.3e-17 Score=110.60 Aligned_cols=86 Identities=36% Similarity=0.739 Sum_probs=68.5
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHH
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 99 (159)
...|.|..|++.|....-|.+|++.|...+.+.|..||++|-..-+|++|+|.|+|.+||+|..|++.|+.+-.|..|.+
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 45577888888888888888888888777777888888888888888888888888888888888888888888888888
Q ss_pred hhCCch
Q psy16923 100 RMHPEE 105 (159)
Q Consensus 100 ~~h~~~ 105 (159)
.+|+..
T Consensus 195 kvhgv~ 200 (267)
T KOG3576|consen 195 KVHGVQ 200 (267)
T ss_pred HHcCch
Confidence 777543
No 6
>KOG3576|consensus
Probab=99.66 E-value=3e-17 Score=108.82 Aligned_cols=106 Identities=25% Similarity=0.426 Sum_probs=95.3
Q ss_pred CCCCCHHHHHHHHHhh-CCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCC------
Q psy16923 3 SRFKTKYRLKLHLDTH-GETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTG------ 75 (159)
Q Consensus 3 ~~f~~~~~l~~H~~~h-~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~------ 75 (159)
|+|+-...|.+|++.| ..+.|.|..||++|...-+|.+|+|+|+|.+||+|..|++.|...-.|..|.+.-+|
T Consensus 125 K~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~ya 204 (267)
T KOG3576|consen 125 KKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYA 204 (267)
T ss_pred hhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHH
Confidence 6788899999999999 579999999999999999999999999999999999999999999999999876333
Q ss_pred -----CCCcccccCcccccCchhHHHhHHhhCCchhhh
Q psy16923 76 -----KRPYTCPWCSRTFANGSNCRSHKRRMHPEELKL 108 (159)
Q Consensus 76 -----~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~ 108 (159)
.+.|.|..||+.-.+...+..|+..+|+.....
T Consensus 205 ykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spal 242 (267)
T KOG3576|consen 205 YKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPAL 242 (267)
T ss_pred HHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHHH
Confidence 356899999999999999999999999776433
No 7
>KOG3623|consensus
Probab=99.63 E-value=3.4e-16 Score=120.31 Aligned_cols=94 Identities=30% Similarity=0.737 Sum_probs=85.0
Q ss_pred HHHHHHHHh-h--CCCcccCCCCcccCCCHHHHHHHHHhcCC-------------CCceeccccccccCCHHhHHhHHhh
Q psy16923 9 YRLKLHLDT-H--GETPYGCPHCPMKLNTRRTLRMHLVVHRD-------------TKAYQCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 9 ~~l~~H~~~-h--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~-------------~~~~~C~~C~~~f~~~~~l~~H~~~ 72 (159)
-.|+.|+++ | .+.-|.|..|..+|.++..|.+||..|.. .+.|+|..|++.|..+-.|+.|+|.
T Consensus 224 tslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRI 303 (1007)
T KOG3623|consen 224 TSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRI 303 (1007)
T ss_pred HHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhhee
Confidence 458999988 6 57889999999999999999999998853 3569999999999999999999999
Q ss_pred cCCCCCcccccCcccccCchhHHHhHHhhC
Q psy16923 73 HTGKRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 73 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
|.|++||.|+.|+++|........|+....
T Consensus 304 HSGEKPfeCpnCkKRFSHSGSySSHmSSKK 333 (1007)
T KOG3623|consen 304 HSGEKPFECPNCKKRFSHSGSYSSHMSSKK 333 (1007)
T ss_pred ecCCCCcCCcccccccccCCcccccccccc
Confidence 999999999999999999999999987443
No 8
>KOG3623|consensus
Probab=99.59 E-value=2.7e-16 Score=120.84 Aligned_cols=81 Identities=27% Similarity=0.727 Sum_probs=78.3
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhH
Q psy16923 19 GETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHK 98 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 98 (159)
.+..|.|+.|+++|-..+.|.+|--.|+|.+||.|..|.+.|..+-.|+.|.|.|.|++||.|+.|+++|........||
T Consensus 891 e~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHM 970 (1007)
T KOG3623|consen 891 EDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHM 970 (1007)
T ss_pred ccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhh
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred H
Q psy16923 99 R 99 (159)
Q Consensus 99 ~ 99 (159)
.
T Consensus 971 N 971 (1007)
T KOG3623|consen 971 N 971 (1007)
T ss_pred c
Confidence 7
No 9
>KOG3608|consensus
Probab=99.56 E-value=1.1e-15 Score=109.10 Aligned_cols=97 Identities=28% Similarity=0.597 Sum_probs=69.0
Q ss_pred CCCCCHHHHHHHHHhh-CCCcccCCCCcccCCCHHHHHHHHHhcCC--CCce--------------------------ec
Q psy16923 3 SRFKTKYRLKLHLDTH-GETPYGCPHCPMKLNTRRTLRMHLVVHRD--TKAY--------------------------QC 53 (159)
Q Consensus 3 ~~f~~~~~l~~H~~~h-~~~~~~C~~C~~~f~~~~~l~~H~~~h~~--~~~~--------------------------~C 53 (159)
+.|+++.+|++|+|.| ++|...|+.|+..|.++..|..|.+..+. ..+| +|
T Consensus 187 ~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykC 266 (467)
T KOG3608|consen 187 KHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKC 266 (467)
T ss_pred hhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccc
Confidence 5688999999999999 89999999999999999999999876542 3344 45
Q ss_pred cccccccCCHHhHHhHHhh-cCCCCCcccccCcccccCchhHHHhHH
Q psy16923 54 VTCGKSFRRSKDLKNHHNL-HTGKRPYTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 54 ~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~ 99 (159)
+.|+-+....+.|..|++. |...+||+|+.|.+.|.+.+.|.+|..
T Consensus 267 plCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~ 313 (467)
T KOG3608|consen 267 PLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQ 313 (467)
T ss_pred cccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHH
Confidence 5555555555555555554 555556666666666666666666655
No 10
>KOG3608|consensus
Probab=99.54 E-value=4.3e-15 Score=106.02 Aligned_cols=72 Identities=33% Similarity=0.646 Sum_probs=56.0
Q ss_pred CCCCCCHHHHHHHHHhhCCCcccCCCCcccCCCHHHHHHHHH-hcCCCCceeccccccccCCHHhHHhHHhhcC
Q psy16923 2 FSRFKTKYRLKLHLDTHGETPYGCPHCPMKLNTRRTLRMHLV-VHRDTKAYQCVTCGKSFRRSKDLKNHHNLHT 74 (159)
Q Consensus 2 ~~~f~~~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 74 (159)
||+|.+..-|+.|++.| -.-|+|+.|+++....+.|.+|++ .|...+||+|+.|+..+.+.++|+.|...|.
T Consensus 244 ~KrFaTeklL~~Hv~rH-vn~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS 316 (467)
T KOG3608|consen 244 FKRFATEKLLKSHVVRH-VNCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS 316 (467)
T ss_pred HHHHhHHHHHHHHHHHh-hhcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc
Confidence 67788888888888777 445778888888888888888877 4777788888888888888888888877664
No 11
>PHA00733 hypothetical protein
Probab=99.36 E-value=9e-13 Score=83.73 Aligned_cols=84 Identities=20% Similarity=0.326 Sum_probs=71.9
Q ss_pred CCCcccCCCCcccCCCHHHHHHH--HH---hcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchh
Q psy16923 19 GETPYGCPHCPMKLNTRRTLRMH--LV---VHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSN 93 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~~~~~l~~H--~~---~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 93 (159)
.++++.|.+|...|.....|..+ ++ .+.+.++|.|..|++.|.+...|..|++.| ..++.|..|++.|.....
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~s 114 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDS 114 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHH
Confidence 47889999999999888777776 22 234578999999999999999999999976 356999999999999999
Q ss_pred HHHhHHhhCCc
Q psy16923 94 CRSHKRRMHPE 104 (159)
Q Consensus 94 l~~H~~~~h~~ 104 (159)
|..|+...|+.
T Consensus 115 L~~H~~~~h~~ 125 (128)
T PHA00733 115 TLDHVCKKHNI 125 (128)
T ss_pred HHHHHHHhcCc
Confidence 99999988864
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.20 E-value=6.3e-11 Score=91.18 Aligned_cols=91 Identities=21% Similarity=0.497 Sum_probs=56.6
Q ss_pred HHHHHHHHHhhCCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccC----------CHHhHHhHHhhcCCCC
Q psy16923 8 KYRLKLHLDTHGETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFR----------RSKDLKNHHNLHTGKR 77 (159)
Q Consensus 8 ~~~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~~~h~~~~ 77 (159)
...|..|++.| .+++.|+ |++.+ .+..|..|++.|.+.+++.|..|+..+. ....|+.|.... +.+
T Consensus 465 ~s~LekH~~~~-Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~r 540 (567)
T PLN03086 465 QGEMEKHMKVF-HEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSR 540 (567)
T ss_pred hHHHHHHHHhc-CCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCc
Confidence 45566777665 3667776 76544 4566777766666667777777776663 123566666653 666
Q ss_pred CcccccCcccccCchhHHHhHHhhCC
Q psy16923 78 PYTCPWCSRTFANGSNCRSHKRRMHP 103 (159)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H~~~~h~ 103 (159)
++.|..||+.+..+ .+..|+..+|.
T Consensus 541 t~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 541 TAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred ceEccccCCeeeeh-hHHHHHHHhhc
Confidence 67777777666544 45666666553
No 13
>PHA00733 hypothetical protein
Probab=99.16 E-value=8.5e-11 Score=74.70 Aligned_cols=64 Identities=27% Similarity=0.535 Sum_probs=55.2
Q ss_pred HHHHHHHhhCCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCC
Q psy16923 10 RLKLHLDTHGETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTG 75 (159)
Q Consensus 10 ~l~~H~~~h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 75 (159)
.|.+|+..+++++|.|+.|++.|.+...|..|++.+ ..++.|..|++.|.....|..|+...++
T Consensus 61 ~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 61 YLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 355565556899999999999999999999999976 3568999999999999999999987554
No 14
>PHA02768 hypothetical protein; Provisional
Probab=99.07 E-value=6.6e-11 Score=62.96 Aligned_cols=42 Identities=21% Similarity=0.485 Sum_probs=24.0
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhH
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNC 94 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 94 (159)
|.|+.||+.|.+.+.|..|++.|+ ++++|..|++.|.+.+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 456666666666666666666655 455666666655544443
No 15
>PHA02768 hypothetical protein; Provisional
Probab=99.06 E-value=8.2e-11 Score=62.60 Aligned_cols=44 Identities=23% Similarity=0.440 Sum_probs=39.4
Q ss_pred cccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHH
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLK 67 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 67 (159)
-|.|+.||+.|.+.++|..|+++|. +++.|..|++.|...+.|.
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 6889999999998776553
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.91 E-value=2.8e-09 Score=82.30 Aligned_cols=89 Identities=18% Similarity=0.350 Sum_probs=71.1
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccC---------
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFAN--------- 90 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~--------- 90 (159)
++.+.|+.|++.|. ...|..|++.++ +++.|. |+..+ ....|..|+..|.+.+++.|..|++.|..
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d 525 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRD 525 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhh
Confidence 35678999999996 678999999985 789999 99755 66899999999999999999999999852
Q ss_pred -chhHHHhHHhhCCchhhhhhhcccc
Q psy16923 91 -GSNCRSHKRRMHPEELKLYESSLGI 115 (159)
Q Consensus 91 -~~~l~~H~~~~h~~~~~~~~~~~~~ 115 (159)
...|..|.... ......|..|+.
T Consensus 526 ~~s~Lt~HE~~C--G~rt~~C~~Cgk 549 (567)
T PLN03086 526 RLRGMSEHESIC--GSRTAPCDSCGR 549 (567)
T ss_pred hhhhHHHHHHhc--CCcceEccccCC
Confidence 34788998864 333455555543
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=98.87 E-value=9.3e-10 Score=50.26 Aligned_cols=23 Identities=48% Similarity=1.078 Sum_probs=12.5
Q ss_pred HHHHHHhh-CCCcccCCCCcccCC
Q psy16923 11 LKLHLDTH-GETPYGCPHCPMKLN 33 (159)
Q Consensus 11 l~~H~~~h-~~~~~~C~~C~~~f~ 33 (159)
|.+|+++| +++||.|+.|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 45555555 455555555555553
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.80 E-value=3e-09 Score=48.57 Aligned_cols=24 Identities=46% Similarity=1.284 Sum_probs=12.9
Q ss_pred HHhHHhhcCCCCCcccccCccccc
Q psy16923 66 LKNHHNLHTGKRPYTCPWCSRTFA 89 (159)
Q Consensus 66 l~~H~~~h~~~~~~~C~~C~~~f~ 89 (159)
|..|++.|++++||.|+.|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 445555555555555555555553
No 19
>PHA00616 hypothetical protein
Probab=98.71 E-value=6.3e-09 Score=52.79 Aligned_cols=34 Identities=15% Similarity=0.282 Sum_probs=24.5
Q ss_pred cccCCCCcccCCCHHHHHHHHHhcCCCCceeccc
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVT 55 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 55 (159)
||.|+.||+.|.++++|..|++.|++++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 4677777777777777777777777777766654
No 20
>KOG3993|consensus
Probab=98.62 E-value=4.8e-09 Score=77.09 Aligned_cols=83 Identities=23% Similarity=0.450 Sum_probs=60.4
Q ss_pred ccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCC---------------------------
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTG--------------------------- 75 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~--------------------------- 75 (159)
|.|..|...|.+.-.|.+|.-......-|+|+.|++.|.-..+|..|.|.|..
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~r 347 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAER 347 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccc
Confidence 67777777777777777775432222346777777777777777777776621
Q ss_pred ------CCCcccccCcccccCchhHHHhHHhhCCch
Q psy16923 76 ------KRPYTCPWCSRTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 76 ------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 105 (159)
+..|.|..|++.|.+...|+.|+-.|+...
T Consensus 348 sg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 348 SGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred cCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 123899999999999999999998888544
No 21
>KOG3993|consensus
Probab=98.60 E-value=3.3e-08 Score=72.79 Aligned_cols=102 Identities=29% Similarity=0.622 Sum_probs=77.4
Q ss_pred CCCHHHHHHHHHhh-CCCcccCCCCcccCCCHHHHHHHHHhcCC---------------------------------CCc
Q psy16923 5 FKTKYRLKLHLDTH-GETPYGCPHCPMKLNTRRTLRMHLVVHRD---------------------------------TKA 50 (159)
Q Consensus 5 f~~~~~l~~H~~~h-~~~~~~C~~C~~~f~~~~~l~~H~~~h~~---------------------------------~~~ 50 (159)
|-+.-.|.+|.-.- -..-|.|++|+++|....+|..|+|.|.. ..-
T Consensus 277 YeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi 356 (500)
T KOG3993|consen 277 YEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGI 356 (500)
T ss_pred hhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCce
Confidence 44445566665221 12349999999999999999999988831 112
Q ss_pred eeccccccccCCHHhHHhHHhhcCCC------------------------------------------------------
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGK------------------------------------------------------ 76 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~------------------------------------------------------ 76 (159)
|.|..|++.|.+...|..|+..|...
T Consensus 357 ~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~ 436 (500)
T KOG3993|consen 357 FSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYD 436 (500)
T ss_pred eecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCC
Confidence 88999999999999999997765311
Q ss_pred --------------------CCcccccCcccccCchhHHHhHHhhCCchh
Q psy16923 77 --------------------RPYTCPWCSRTFANGSNCRSHKRRMHPEEL 106 (159)
Q Consensus 77 --------------------~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 106 (159)
..|.|.+|.-.|.+..+|.+|....|..+.
T Consensus 437 ~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hpse~ 486 (500)
T KOG3993|consen 437 GSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPSEL 486 (500)
T ss_pred CCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChHHh
Confidence 007899999999999999999998887664
No 22
>PHA00732 hypothetical protein
Probab=98.52 E-value=1.2e-07 Score=55.02 Aligned_cols=48 Identities=29% Similarity=0.528 Sum_probs=38.2
Q ss_pred cccCCCCcccCCCHHHHHHHHHh-cCCCCceeccccccccCCHHhHHhHHhhcCC
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVV-HRDTKAYQCVTCGKSFRRSKDLKNHHNLHTG 75 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 75 (159)
||.|..|++.|.+..+|..|++. |.+ +.|+.|++.|. .+..|++.+..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---ChhhhhcccCC
Confidence 58899999999999999999885 543 47999999987 47778765543
No 23
>PHA00616 hypothetical protein
Probab=98.49 E-value=5.4e-08 Score=49.39 Aligned_cols=34 Identities=29% Similarity=0.594 Sum_probs=28.6
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCCccccc
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPW 83 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 83 (159)
||+|..||+.|.....|..|++.|++++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5788888888888888888888888888887765
No 24
>PHA00732 hypothetical protein
Probab=98.41 E-value=2.3e-07 Score=53.91 Aligned_cols=47 Identities=26% Similarity=0.491 Sum_probs=39.2
Q ss_pred ceeccccccccCCHHhHHhHHhh-cCCCCCcccccCcccccCchhHHHhHHhhC
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNL-HTGKRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
||.|..|++.|.+...|..|++. |.+ +.|+.|++.|. .|..|.++..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---ChhhhhcccC
Confidence 57899999999999999999985 553 68999999997 4788886443
No 25
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.26 E-value=1.8e-06 Score=46.54 Aligned_cols=49 Identities=29% Similarity=0.536 Sum_probs=23.9
Q ss_pred eeccccccccCCHHhHHhHHhh-cCC-CCCcccccCcccccCchhHHHhHHhhC
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNL-HTG-KRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~-h~~-~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
|.|+.|++ ..+...|..|... |.. .+.+.|++|...+. .+|..|+...|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 45555555 3344555555443 332 23455666555433 25556655544
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.17 E-value=9.2e-07 Score=38.96 Aligned_cols=22 Identities=27% Similarity=0.748 Sum_probs=14.1
Q ss_pred ccCCCCcccCCCHHHHHHHHHh
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVV 44 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~ 44 (159)
|.|+.|++.|.+...|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666654
No 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=98.08 E-value=8.5e-06 Score=43.91 Aligned_cols=50 Identities=26% Similarity=0.472 Sum_probs=38.8
Q ss_pred cccCCCCcccCCCHHHHHHHHHh-cCC-CCceeccccccccCCHHhHHhHHhhcC
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVV-HRD-TKAYQCVTCGKSFRRSKDLKNHHNLHT 74 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~-h~~-~~~~~C~~C~~~f~~~~~l~~H~~~h~ 74 (159)
.|.|+.|++ ..+...|..|... |.. .+.+.|+.|...+. ..|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 489999999 5567789999875 544 35689999998644 48999988754
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=98.05 E-value=2.7e-06 Score=37.44 Aligned_cols=22 Identities=45% Similarity=1.062 Sum_probs=13.9
Q ss_pred cccccCcccccCchhHHHhHHh
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRR 100 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~ 100 (159)
|.|+.|++.|.+...|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666654
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.04 E-value=2.8e-06 Score=51.58 Aligned_cols=74 Identities=22% Similarity=0.407 Sum_probs=22.0
Q ss_pred cCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHHhhC
Q psy16923 24 GCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 24 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
.|..|+..|.+...|..|+...++... . ....+.....+..+.+... ...+.|..|++.|.+...|..|++.++
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp -----------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Ccccccccccccccccccccccccccc---c-ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 489999999999999999986554221 1 1112223334444443322 236999999999999999999999654
No 30
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.99 E-value=4.6e-06 Score=36.87 Aligned_cols=24 Identities=38% Similarity=0.902 Sum_probs=14.2
Q ss_pred cccccCcccccCchhHHHhHHhhC
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
|.|++|++.|.+...|..|++.+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 456666666666666666666554
No 31
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.91 E-value=3.6e-06 Score=60.26 Aligned_cols=51 Identities=29% Similarity=0.754 Sum_probs=34.3
Q ss_pred Cceeccc--cccccCCHHhHHhHHhh-c------------------CCCCCcccccCcccccCchhHHHhHH
Q psy16923 49 KAYQCVT--CGKSFRRSKDLKNHHNL-H------------------TGKRPYTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 49 ~~~~C~~--C~~~f~~~~~l~~H~~~-h------------------~~~~~~~C~~C~~~f~~~~~l~~H~~ 99 (159)
+||+|++ |++.+.+...|+.|+.. | ...+||+|.+|+++++.-..|+-|+.
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 5555554 55555555555555443 2 23478999999999999989888875
No 32
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.91 E-value=7.9e-06 Score=36.05 Aligned_cols=23 Identities=30% Similarity=0.816 Sum_probs=13.6
Q ss_pred ccCCCCcccCCCHHHHHHHHHhc
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVVH 45 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~h 45 (159)
|.|+.|++.|.+...|..|++.|
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 33
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.89 E-value=6.2e-06 Score=42.85 Aligned_cols=39 Identities=28% Similarity=0.498 Sum_probs=22.1
Q ss_pred HHHHHhh--CCCcccCCCCcccCCCHHHHHHHHHhcCCCCc
Q psy16923 12 KLHLDTH--GETPYGCPHCPMKLNTRRTLRMHLVVHRDTKA 50 (159)
Q Consensus 12 ~~H~~~h--~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 50 (159)
..+.+.+ ++.|..|++|+..+.+..+|.+|+..+++.+|
T Consensus 12 ~~~~k~~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 12 TKKPKSKSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp ----CCCCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhHHHHhhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 5555555 57788888888888888888888877666554
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=97.86 E-value=7.2e-06 Score=37.53 Aligned_cols=24 Identities=29% Similarity=0.665 Sum_probs=13.8
Q ss_pred cccCCCCcccCCCHHHHHHHHHhc
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVVH 45 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~h 45 (159)
+|.|..|++.|.+...|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 355566666666666666665554
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.81 E-value=5.9e-06 Score=59.17 Aligned_cols=53 Identities=32% Similarity=0.775 Sum_probs=45.6
Q ss_pred CCCcccCCC--CcccCCCHHHHHHHHHh-c------------------CCCCceeccccccccCCHHhHHhHHh
Q psy16923 19 GETPYGCPH--CPMKLNTRRTLRMHLVV-H------------------RDTKAYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 19 ~~~~~~C~~--C~~~f~~~~~l~~H~~~-h------------------~~~~~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
.+|||+|++ |++.++....|..|+.- | ...+||.|.+|++.+.+...|+.|..
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 469999987 99999999999999753 3 12488999999999999999999975
No 36
>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=97.79 E-value=1.3e-05 Score=36.67 Aligned_cols=24 Identities=38% Similarity=0.689 Sum_probs=14.1
Q ss_pred cccccCcccccCchhHHHhHHhhC
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
|.|..|++.|.+..+|..|++.++
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhc
Confidence 556666666666666666665443
No 37
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.40 E-value=0.00021 Score=31.81 Aligned_cols=24 Identities=29% Similarity=0.801 Sum_probs=17.1
Q ss_pred ccCCCCcccCCCHHHHHHHHHhcC
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVVHR 46 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~h~ 46 (159)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 467777777777777777777553
No 38
>KOG1146|consensus
Probab=97.16 E-value=0.00049 Score=57.96 Aligned_cols=100 Identities=24% Similarity=0.363 Sum_probs=74.2
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHh-cC------------------------CCCceeccccccccCCHHhHHhHHhh-
Q psy16923 19 GETPYGCPHCPMKLNTRRTLRMHLVV-HR------------------------DTKAYQCVTCGKSFRRSKDLKNHHNL- 72 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~~~~~l~~H~~~-h~------------------------~~~~~~C~~C~~~f~~~~~l~~H~~~- 72 (159)
..+.|.|+.|+..|+....|..|||. |. +.++|.|..|...+..+..|..|+..
T Consensus 462 ~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~ 541 (1406)
T KOG1146|consen 462 FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSD 541 (1406)
T ss_pred ccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHH
Confidence 35889999999999999999999997 21 13568999999999999999999773
Q ss_pred -cC----------C-------------------------------CCCcccccCcccccCchhHHHhHHhhCCchhhhhh
Q psy16923 73 -HT----------G-------------------------------KRPYTCPWCSRTFANGSNCRSHKRRMHPEELKLYE 110 (159)
Q Consensus 73 -h~----------~-------------------------------~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~ 110 (159)
|. + .-.|.|..|++...-..+|+.|+..-+.-......
T Consensus 542 ~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~p~~~ 621 (1406)
T KOG1146|consen 542 LHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLV 621 (1406)
T ss_pred hhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCChHHH
Confidence 20 0 01289999999988899999998765544443333
Q ss_pred hccccccc
Q psy16923 111 SSLGIVHK 118 (159)
Q Consensus 111 ~~~~~~~~ 118 (159)
....+...
T Consensus 622 Lq~~it~~ 629 (1406)
T KOG1146|consen 622 LQQNITSS 629 (1406)
T ss_pred hhhcchhh
Confidence 33333333
No 39
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.16 E-value=0.00022 Score=31.53 Aligned_cols=24 Identities=46% Similarity=0.944 Sum_probs=15.1
Q ss_pred cccccCcccccCchhHHHhHHhhCC
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMHP 103 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h~ 103 (159)
|+|..|++... ...|..|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 56777777766 6677777776653
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.08 E-value=0.0004 Score=30.83 Aligned_cols=22 Identities=36% Similarity=0.845 Sum_probs=17.1
Q ss_pred cccccCcccccCchhHHHhHHh
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRR 100 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~ 100 (159)
|.|..|++.|.....|..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 4677888888888888888774
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.04 E-value=0.00029 Score=31.40 Aligned_cols=20 Identities=30% Similarity=0.604 Sum_probs=10.1
Q ss_pred cCCCCcccCCCHHHHHHHHH
Q psy16923 24 GCPHCPMKLNTRRTLRMHLV 43 (159)
Q Consensus 24 ~C~~C~~~f~~~~~l~~H~~ 43 (159)
.|..|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHC
Confidence 44555555555555555544
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.99 E-value=0.00086 Score=34.98 Aligned_cols=30 Identities=30% Similarity=0.571 Sum_probs=17.3
Q ss_pred CCCCcccccCcccccCchhHHHhHHhhCCc
Q psy16923 75 GKRPYTCPWCSRTFANGSNCRSHKRRMHPE 104 (159)
Q Consensus 75 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 104 (159)
.+.|..|++|+..+....+|++|++..|..
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 455667777777777777777777766654
No 43
>PRK04860 hypothetical protein; Provisional
Probab=96.94 E-value=0.0006 Score=45.08 Aligned_cols=39 Identities=23% Similarity=0.625 Sum_probs=32.2
Q ss_pred CceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCc
Q psy16923 49 KAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANG 91 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 91 (159)
-+|.|. |+. ....+.+|.+.|.++++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 368998 987 566788999999999999999999887654
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.93 E-value=0.00066 Score=30.17 Aligned_cols=21 Identities=33% Similarity=0.771 Sum_probs=11.2
Q ss_pred eeccccccccCCHHhHHhHHh
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~ 71 (159)
|.|..|+..|.+...+..|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555555555555555554
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.88 E-value=0.00057 Score=30.14 Aligned_cols=22 Identities=41% Similarity=0.961 Sum_probs=12.9
Q ss_pred ccCCCCcccCCCHHHHHHHHHhc
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVVH 45 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~h 45 (159)
|.|+.|+.... ...|..|++.+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 45666776666 66677676654
No 46
>PRK04860 hypothetical protein; Provisional
Probab=96.77 E-value=0.00072 Score=44.69 Aligned_cols=37 Identities=35% Similarity=0.756 Sum_probs=27.3
Q ss_pred cccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCC
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRR 62 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 62 (159)
+|.|. |+. ....+..|.++|.++++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 47787 776 55667778888888888888888776654
No 47
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.52 E-value=0.00068 Score=30.84 Aligned_cols=21 Identities=19% Similarity=0.577 Sum_probs=10.7
Q ss_pred ccCCCCcccCCCHHHHHHHHH
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLV 43 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~ 43 (159)
|.|..|++.|.+...+..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 445555555555555555543
No 48
>KOG4173|consensus
Probab=96.48 E-value=0.0012 Score=44.69 Aligned_cols=80 Identities=23% Similarity=0.499 Sum_probs=65.5
Q ss_pred CcccCCC--CcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhh-c---------CCCCCccccc--Ccc
Q psy16923 21 TPYGCPH--CPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNL-H---------TGKRPYTCPW--CSR 86 (159)
Q Consensus 21 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~~~C~~--C~~ 86 (159)
..+.|+. |.+.|........|..+-++. .|.+|.+.|.+...|..|+.. | .|.--|.|-+ |+.
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~ 154 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTE 154 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhh
Confidence 4577987 889999999999998775554 699999999999999999774 3 2334588844 999
Q ss_pred cccCchhHHHhHHhhCC
Q psy16923 87 TFANGSNCRSHKRRMHP 103 (159)
Q Consensus 87 ~f~~~~~l~~H~~~~h~ 103 (159)
.|.+..+.+.|+-..|.
T Consensus 155 KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 155 KFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hhhhhhhhhhHHHHhcc
Confidence 99999999999988883
No 49
>KOG1146|consensus
Probab=96.42 E-value=0.0028 Score=53.71 Aligned_cols=76 Identities=24% Similarity=0.427 Sum_probs=60.4
Q ss_pred CCCCcccCCCHHHHHHHHHh-cCCCCceeccccccccCCHHhHHhHHhh-c------------------------CCCCC
Q psy16923 25 CPHCPMKLNTRRTLRMHLVV-HRDTKAYQCVTCGKSFRRSKDLKNHHNL-H------------------------TGKRP 78 (159)
Q Consensus 25 C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~-h------------------------~~~~~ 78 (159)
|..|+..+.++..+..|+.. +...+-+.|+.|+..|.....|-.|+|. | .+.++
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 44566666677767777653 5566889999999999999999999997 2 12256
Q ss_pred cccccCcccccCchhHHHhHHh
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRR 100 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~ 100 (159)
|.|..|...+....+|..|++.
T Consensus 519 ~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHH
Confidence 8999999999999999999873
No 50
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.41 E-value=0.0013 Score=29.90 Aligned_cols=21 Identities=19% Similarity=0.662 Sum_probs=13.1
Q ss_pred cccccCcccccCchhHHHhHH
Q psy16923 79 YTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~ 99 (159)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 456666666666666666654
No 51
>KOG2482|consensus
Probab=96.20 E-value=0.015 Score=42.67 Aligned_cols=28 Identities=21% Similarity=0.433 Sum_probs=23.7
Q ss_pred cccccCcccccCchhHHHhHHhhCCchh
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMHPEEL 106 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 106 (159)
.+|-.|.....+...|..||..+|.-..
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl 307 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDL 307 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhH
Confidence 4899999988889999999999995443
No 52
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.01 E-value=0.0062 Score=36.59 Aligned_cols=65 Identities=23% Similarity=0.320 Sum_probs=21.6
Q ss_pred CCCCHHHHHHHHHh-hCCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhc
Q psy16923 4 RFKTKYRLKLHLDT-HGETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLH 73 (159)
Q Consensus 4 ~f~~~~~l~~H~~~-h~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 73 (159)
.|.+...|..|+.. |+-..- ....+.....+..+.+... ...+.|..|++.|.+...|..|++.+
T Consensus 8 ~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 8 SFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp ----------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred ccccccccccccccccccccc----ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 46778889999955 632111 1111223334444444322 23689999999999999999999974
No 53
>KOG2893|consensus
Probab=95.88 E-value=0.0027 Score=44.14 Aligned_cols=49 Identities=24% Similarity=0.559 Sum_probs=31.4
Q ss_pred eccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHHhhCCc
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMHPE 104 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~ 104 (159)
.|=.|++.|.....|.+|++. +.|+|.+|-+..-+...|..|--.+|.+
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehhhhhhh
Confidence 356677777777777777663 2377777777666666666665545533
No 54
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.56 E-value=0.014 Score=25.95 Aligned_cols=20 Identities=30% Similarity=0.521 Sum_probs=14.2
Q ss_pred ccCCCCcccCCCHHHHHHHHH
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLV 43 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~ 43 (159)
..|+.|++.| ..+.|..|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4688888888 5556777765
No 55
>KOG2482|consensus
Probab=95.23 E-value=0.022 Score=41.75 Aligned_cols=78 Identities=21% Similarity=0.388 Sum_probs=60.9
Q ss_pred ccCCCCcccCCCHHHHHHHHHh--cCCCCc--------------------------------------------------
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVV--HRDTKA-------------------------------------------------- 50 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~--h~~~~~-------------------------------------------------- 50 (159)
+.|-.|.+.|+.+..|..||+. |..-.|
T Consensus 196 ~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a 275 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDA 275 (423)
T ss_pred heeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCC
Confidence 7899999999999999999986 422111
Q ss_pred ----eeccccccccCCHHhHHhHHhh-cCCC--------------------------CCcccccCcccccCchhHHHhHH
Q psy16923 51 ----YQCVTCGKSFRRSKDLKNHHNL-HTGK--------------------------RPYTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 51 ----~~C~~C~~~f~~~~~l~~H~~~-h~~~--------------------------~~~~C~~C~~~f~~~~~l~~H~~ 99 (159)
..|-.|.....+...|..||+. |.-. +.-.|-.|.-.|.....|..|+.
T Consensus 276 ~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 276 EALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred CccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhcc
Confidence 3799999988889999999985 4110 11357789999999999999986
Q ss_pred h
Q psy16923 100 R 100 (159)
Q Consensus 100 ~ 100 (159)
.
T Consensus 356 e 356 (423)
T KOG2482|consen 356 E 356 (423)
T ss_pred c
Confidence 3
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=95.10 E-value=0.022 Score=27.32 Aligned_cols=23 Identities=17% Similarity=0.426 Sum_probs=16.6
Q ss_pred cccCCCCcccCCCHHHHHHHHHh
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVV 44 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~ 44 (159)
+|.|..|++.|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 46677777777777777777653
No 57
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.32 E-value=0.012 Score=44.48 Aligned_cols=63 Identities=32% Similarity=0.549 Sum_probs=50.6
Q ss_pred CcccCCCCcccCCCHHHHHHHHH--hcCCC--Cceecc--ccccccCCHHhHHhHHhhcCCCCCccccc
Q psy16923 21 TPYGCPHCPMKLNTRRTLRMHLV--VHRDT--KAYQCV--TCGKSFRRSKDLKNHHNLHTGKRPYTCPW 83 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~~~C~~ 83 (159)
.++.|..|...|.....|..|.+ .|.++ +++.|. .|++.|.+...+..|...|.+..++.+..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKL 356 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccccc
Confidence 46788888888888888888888 68888 888888 68888888888888888888777666644
No 58
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.15 E-value=0.048 Score=26.06 Aligned_cols=22 Identities=18% Similarity=0.558 Sum_probs=13.6
Q ss_pred ceeccccccccCCHHhHHhHHh
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
+|.|..|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 3556666666666666666654
No 59
>KOG2231|consensus
Probab=94.14 E-value=0.13 Score=41.54 Aligned_cols=21 Identities=24% Similarity=0.539 Sum_probs=9.8
Q ss_pred eccccccccCCHHhHHhHHhh
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~ 72 (159)
.|..|...|.....|..|++.
T Consensus 184 ~C~~C~~~fld~~el~rH~~~ 204 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRF 204 (669)
T ss_pred cchhhhhhhccHHHHHHhhcc
Confidence 344444444444444444443
No 60
>KOG2231|consensus
Probab=94.06 E-value=0.098 Score=42.12 Aligned_cols=86 Identities=21% Similarity=0.392 Sum_probs=55.4
Q ss_pred CCHHHHHHHHHhh--CCCc----ccCCCCcccCCCHHHHHHHHHhcCCCCceecccc------ccccCCHHhHHhHHhhc
Q psy16923 6 KTKYRLKLHLDTH--GETP----YGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTC------GKSFRRSKDLKNHHNLH 73 (159)
Q Consensus 6 ~~~~~l~~H~~~h--~~~~----~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~h 73 (159)
=++..|.+|++.- .++- -.|..|...|....+|..|++.++ |.|..| +.-|..-+.|..|.+.+
T Consensus 160 Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~ 235 (669)
T KOG2231|consen 160 YTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKG 235 (669)
T ss_pred ehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhc
Confidence 3456677777664 1211 358889999999999999988654 456666 34566668999999876
Q ss_pred CCCCCcccc--cCc-ccccCchhHHHhHH
Q psy16923 74 TGKRPYTCP--WCS-RTFANGSNCRSHKR 99 (159)
Q Consensus 74 ~~~~~~~C~--~C~-~~f~~~~~l~~H~~ 99 (159)
+ |.|. .|. +.|.....+..+++
T Consensus 236 H----flCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 236 H----FLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred C----ccccccccccceeeehhHHHHHHH
Confidence 5 5665 353 34444434444444
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=94.05 E-value=0.032 Score=26.57 Aligned_cols=10 Identities=40% Similarity=1.295 Sum_probs=5.3
Q ss_pred CCcccccCcc
Q psy16923 77 RPYTCPWCSR 86 (159)
Q Consensus 77 ~~~~C~~C~~ 86 (159)
.++.|+.|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4455666553
No 62
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.71 E-value=0.16 Score=31.30 Aligned_cols=83 Identities=20% Similarity=0.307 Sum_probs=46.5
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHh-cCCCCceeccccccccCCHHhHHh---HHhh-cCC---------CCCccc----
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVV-HRDTKAYQCVTCGKSFRRSKDLKN---HHNL-HTG---------KRPYTC---- 81 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~---H~~~-h~~---------~~~~~C---- 81 (159)
-+...|..|+.+... .++..|++. |+......-..-...+.....|.. .+.. ... ...|.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 355679999988776 779999985 432211100000000000000000 0000 000 123899
Q ss_pred ccCcccccCchhHHHhHHhhCC
Q psy16923 82 PWCSRTFANGSNCRSHKRRMHP 103 (159)
Q Consensus 82 ~~C~~~f~~~~~l~~H~~~~h~ 103 (159)
..|++.+.+...+..|.+.+|+
T Consensus 88 ~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999998884
No 63
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.19 E-value=0.038 Score=29.39 Aligned_cols=26 Identities=31% Similarity=0.600 Sum_probs=18.7
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHh
Q psy16923 19 GETPYGCPHCPMKLNTRRTLRMHLVV 44 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 44 (159)
+|..+.|+.|+..|....++.+|...
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhH
Confidence 56667777777777777777777654
No 64
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.07 E-value=0.19 Score=30.99 Aligned_cols=22 Identities=14% Similarity=0.409 Sum_probs=12.2
Q ss_pred ceeccccccccCCHHhHHhHHhh
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~ 72 (159)
...|..|..+..- +.+..|++.
T Consensus 11 vlIC~~C~~av~~-~~v~~HL~~ 32 (109)
T PF12013_consen 11 VLICRQCQYAVQP-SEVESHLRK 32 (109)
T ss_pred EEEeCCCCcccCc-hHHHHHHHH
Confidence 3456666655433 566666663
No 65
>KOG2186|consensus
Probab=92.38 E-value=0.086 Score=37.16 Aligned_cols=47 Identities=28% Similarity=0.687 Sum_probs=32.9
Q ss_pred cccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHh
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
-|.|..||...+-.. +..|+..-++ ..|.|..|+..|.+ .....|..
T Consensus 3 ~FtCnvCgEsvKKp~-vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQ-VEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhccccc-hHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 367888887776554 7778776655 56788888888877 55566644
No 66
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.24 E-value=0.11 Score=38.36 Aligned_cols=47 Identities=26% Similarity=0.539 Sum_probs=36.3
Q ss_pred eccccccccCCHHhHHhHHhhcCCCCCcccccCcc-------cccCchhHHHhHHhhC
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSR-------TFANGSNCRSHKRRMH 102 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~~h 102 (159)
.|..|..-|.+-+.|..|+|..+ -.|-+|++ .|.+..+|..|.+..|
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H----E~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h 275 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH----EACHICDMVGPIRYQYFKSYEDLEAHFRNAH 275 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh----hhhhhhhccCccchhhhhCHHHHHHHhhcCc
Confidence 69999999999999999998744 24445543 4788888999988666
No 67
>KOG2893|consensus
Probab=92.13 E-value=0.048 Score=38.13 Aligned_cols=44 Identities=23% Similarity=0.411 Sum_probs=37.1
Q ss_pred cCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHh
Q psy16923 24 GCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 24 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
.|-.|++.|....-|.+|++. +.|+|-.|-+.+.+--.|..|..
T Consensus 12 wcwycnrefddekiliqhqka----khfkchichkkl~sgpglsihcm 55 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHCM 55 (341)
T ss_pred eeeecccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeehh
Confidence 488999999999999999885 55899999998888777777744
No 68
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.88 E-value=0.84 Score=33.96 Aligned_cols=92 Identities=23% Similarity=0.410 Sum_probs=61.1
Q ss_pred HHHHHHHHhh-CC----CcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccc----cccCCHHhHHhHHhhcCCCCCc
Q psy16923 9 YRLKLHLDTH-GE----TPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCG----KSFRRSKDLKNHHNLHTGKRPY 79 (159)
Q Consensus 9 ~~l~~H~~~h-~~----~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~----~~f~~~~~l~~H~~~h~~~~~~ 79 (159)
..|+.|...- .+ .--.|..|+..|=....|..|+|..+. +-+.|+.-+ .-|.+-..|..|.+.-+ |
T Consensus 202 ~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE-~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y 276 (493)
T COG5236 202 STLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHE-ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----Y 276 (493)
T ss_pred ccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhhh-hhhhhhccCccchhhhhCHHHHHHHhhcCc----e
Confidence 4566666443 22 234599999999999999999997543 333443322 24666778888887533 5
Q ss_pred cccc--Cc----ccccCchhHHHhHHhhCCch
Q psy16923 80 TCPW--CS----RTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 80 ~C~~--C~----~~f~~~~~l~~H~~~~h~~~ 105 (159)
.|.. |. ..|.....|..|+-.-|+..
T Consensus 277 ~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~~ 308 (493)
T COG5236 277 CCTFQTCRVGKCYVFPYHTELLEHLTRFHKVN 308 (493)
T ss_pred EEEEEEEecCcEEEeccHHHHHHHHHHHhhcc
Confidence 5543 32 46889999999998777543
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.71 E-value=0.11 Score=27.73 Aligned_cols=29 Identities=24% Similarity=0.550 Sum_probs=18.1
Q ss_pred CCCCcccccCcccccCchhHHHhHHhhCC
Q psy16923 75 GKRPYTCPWCSRTFANGSNCRSHKRRMHP 103 (159)
Q Consensus 75 ~~~~~~C~~C~~~f~~~~~l~~H~~~~h~ 103 (159)
|+.-+.|+.|+..|....+..+|....|+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 44456666666666666666666665553
No 70
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=90.64 E-value=0.29 Score=32.40 Aligned_cols=18 Identities=11% Similarity=0.393 Sum_probs=9.1
Q ss_pred CcccCCCCcccCCCHHHH
Q psy16923 21 TPYGCPHCPMKLNTRRTL 38 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l 38 (159)
.-|.|+.|+..|....++
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAM 125 (158)
T ss_pred CeEECCCCCcEeeHHHHH
Confidence 345555555555555444
No 71
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=90.39 E-value=0.065 Score=37.34 Aligned_cols=13 Identities=23% Similarity=0.733 Sum_probs=10.2
Q ss_pred cccccCcccccCc
Q psy16923 79 YTCPWCSRTFANG 91 (159)
Q Consensus 79 ~~C~~C~~~f~~~ 91 (159)
+.|+.||.++...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 5899999987654
No 72
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.20 E-value=0.08 Score=40.07 Aligned_cols=57 Identities=26% Similarity=0.574 Sum_probs=51.1
Q ss_pred CceeccccccccCCHHhHHhHHh--hcCCC--CCcccc--cCcccccCchhHHHhHHhhCCch
Q psy16923 49 KAYQCVTCGKSFRRSKDLKNHHN--LHTGK--RPYTCP--WCSRTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~h~~~ 105 (159)
.++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.+...+..|...+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSIS 350 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCC
Confidence 36789999999999999999999 79999 999999 79999999999999998766443
No 73
>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=89.95 E-value=0.14 Score=31.65 Aligned_cols=30 Identities=33% Similarity=0.811 Sum_probs=23.6
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANG 91 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 91 (159)
..|+.||+.|... +..|..|++||..|...
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4799999988773 23678899999988766
No 74
>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=89.75 E-value=0.2 Score=24.02 Aligned_cols=10 Identities=30% Similarity=0.879 Sum_probs=5.8
Q ss_pred eecccccccc
Q psy16923 51 YQCVTCGKSF 60 (159)
Q Consensus 51 ~~C~~C~~~f 60 (159)
|.|..||..+
T Consensus 3 ~~C~~CG~i~ 12 (34)
T cd00729 3 WVCPVCGYIH 12 (34)
T ss_pred EECCCCCCEe
Confidence 5666666543
No 75
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=89.15 E-value=0.28 Score=23.96 Aligned_cols=13 Identities=23% Similarity=0.864 Sum_probs=6.3
Q ss_pred cCCCCcccCCCHH
Q psy16923 24 GCPHCPMKLNTRR 36 (159)
Q Consensus 24 ~C~~C~~~f~~~~ 36 (159)
.|+.|+..|.-..
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 4555555554333
No 76
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=88.68 E-value=0.31 Score=32.49 Aligned_cols=24 Identities=38% Similarity=1.061 Sum_probs=18.4
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCCcccccCcc
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSR 86 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 86 (159)
.|.|.+||.. +.++.|.+|++||-
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCCC
Confidence 5899999754 44577889999983
No 77
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.55 E-value=0.65 Score=28.79 Aligned_cols=81 Identities=21% Similarity=0.326 Sum_probs=51.0
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCCCCc------------eeccccccccCCHHhHHhHHhhcCCCCCcccccCccc
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRDTKA------------YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRT 87 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~------------~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 87 (159)
+-|-.|+.|+...-....|.+...---.-++ -.|..|...|........- .-.....|.|+.|...
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~--~~~~~~~y~C~~C~~~ 90 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD--ELKDSHRYVCAVCKNV 90 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc--ccccccceeCCCCCCc
Confidence 5688999999988888888764221111111 2488899888764311100 0122345899999999
Q ss_pred ccCchhHHHhHHhhC
Q psy16923 88 FANGSNCRSHKRRMH 102 (159)
Q Consensus 88 f~~~~~l~~H~~~~h 102 (159)
|=..-+.-.|...|.
T Consensus 91 FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 91 FCVDCDVFVHESLHC 105 (112)
T ss_pred cccccchhhhhhccC
Confidence 887777777766543
No 78
>KOG2785|consensus
Probab=88.26 E-value=0.7 Score=34.72 Aligned_cols=28 Identities=18% Similarity=0.288 Sum_probs=23.7
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCC
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRD 47 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 47 (159)
..|-.|-.|+..+++...-..||..+++
T Consensus 164 ~~Pt~CLfC~~~~k~~e~~~~HM~~~Hg 191 (390)
T KOG2785|consen 164 LIPTDCLFCDKKSKSLEENLKHMFKEHG 191 (390)
T ss_pred cCCcceeecCCCcccHHHHHHHHhhccC
Confidence 3457799999999999999999988776
No 79
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=88.16 E-value=0.48 Score=32.06 Aligned_cols=16 Identities=19% Similarity=0.484 Sum_probs=7.8
Q ss_pred ceeccccccccCCHHh
Q psy16923 50 AYQCVTCGKSFRRSKD 65 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~ 65 (159)
-|.|+.|+..|.....
T Consensus 117 ~Y~Cp~C~~rytf~eA 132 (178)
T PRK06266 117 FFFCPNCHIRFTFDEA 132 (178)
T ss_pred EEECCCCCcEEeHHHH
Confidence 3555555555444443
No 80
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=87.99 E-value=0.44 Score=23.12 Aligned_cols=13 Identities=31% Similarity=0.838 Sum_probs=6.5
Q ss_pred cCCCCcccCCCHH
Q psy16923 24 GCPHCPMKLNTRR 36 (159)
Q Consensus 24 ~C~~C~~~f~~~~ 36 (159)
.|+.|+..|.-.+
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 4555555554443
No 81
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=87.26 E-value=0.78 Score=32.45 Aligned_cols=25 Identities=20% Similarity=0.542 Sum_probs=17.9
Q ss_pred CCHHHHHHHHHhh-C-----CCcccCCCCcc
Q psy16923 6 KTKYRLKLHLDTH-G-----ETPYGCPHCPM 30 (159)
Q Consensus 6 ~~~~~l~~H~~~h-~-----~~~~~C~~C~~ 30 (159)
.+..+|+...+++ . .+.|.|..|+.
T Consensus 90 LTe~Nlrm~d~a~~~~ip~~drqFaC~~Cd~ 120 (278)
T PF15135_consen 90 LTEENLRMFDDAQENLIPSVDRQFACSSCDH 120 (278)
T ss_pred chHHHHHHhhhhhhccccccceeeeccccch
Confidence 3556777777776 2 47899999964
No 82
>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=86.74 E-value=0.47 Score=23.13 Aligned_cols=10 Identities=30% Similarity=1.065 Sum_probs=4.5
Q ss_pred cCCCCcccCC
Q psy16923 24 GCPHCPMKLN 33 (159)
Q Consensus 24 ~C~~C~~~f~ 33 (159)
.|+.|+..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4444444443
No 83
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=86.44 E-value=0.095 Score=36.52 Aligned_cols=44 Identities=18% Similarity=0.476 Sum_probs=29.0
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhc----------CCCCc-----eeccccccccCCH
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVH----------RDTKA-----YQCVTCGKSFRRS 63 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h----------~~~~~-----~~C~~C~~~f~~~ 63 (159)
++...|+.|+..|.++.-.....+.- .+..| +.|+.||..+...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 46789999999998876444443321 11122 6899999877654
No 84
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=86.30 E-value=1.1 Score=29.25 Aligned_cols=16 Identities=31% Similarity=0.710 Sum_probs=8.6
Q ss_pred CcccCCCCcccCCCHH
Q psy16923 21 TPYGCPHCPMKLNTRR 36 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~ 36 (159)
.-|.|+.|+..|....
T Consensus 98 ~~Y~Cp~C~~~y~~~e 113 (147)
T smart00531 98 AYYKCPNCQSKYTFLE 113 (147)
T ss_pred cEEECcCCCCEeeHHH
Confidence 3455666665555433
No 85
>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=85.83 E-value=0.58 Score=23.66 Aligned_cols=26 Identities=23% Similarity=0.623 Sum_probs=14.0
Q ss_pred CCcccccCcccccC----chhHHHhHHhhC
Q psy16923 77 RPYTCPWCSRTFAN----GSNCRSHKRRMH 102 (159)
Q Consensus 77 ~~~~C~~C~~~f~~----~~~l~~H~~~~h 102 (159)
....|..|++.+.. .+.|..|++..|
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 34577777766544 367777775443
No 86
>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=85.53 E-value=1.3 Score=29.39 Aligned_cols=35 Identities=17% Similarity=0.488 Sum_probs=27.4
Q ss_pred CCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCccccc
Q psy16923 46 RDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFA 89 (159)
Q Consensus 46 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 89 (159)
....-|.|+.|+..|....++. ..|.|+.||....
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 3456699999999998888874 2599999997643
No 87
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=84.29 E-value=0.71 Score=23.54 Aligned_cols=11 Identities=36% Similarity=0.978 Sum_probs=6.0
Q ss_pred eeccccccccC
Q psy16923 51 YQCVTCGKSFR 61 (159)
Q Consensus 51 ~~C~~C~~~f~ 61 (159)
|.|..||..|.
T Consensus 3 Y~C~~Cg~~~~ 13 (44)
T smart00659 3 YICGECGRENE 13 (44)
T ss_pred EECCCCCCEee
Confidence 45666665543
No 88
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=83.68 E-value=0.91 Score=23.68 Aligned_cols=24 Identities=38% Similarity=0.809 Sum_probs=15.4
Q ss_pred cccccCcccccCc-----hhHHHhHHhhC
Q psy16923 79 YTCPWCSRTFANG-----SNCRSHKRRMH 102 (159)
Q Consensus 79 ~~C~~C~~~f~~~-----~~l~~H~~~~h 102 (159)
-.|..|++.+... +.|.+|++..|
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 4677777666443 57777777444
No 89
>KOG2186|consensus
Probab=83.11 E-value=1 Score=32.02 Aligned_cols=50 Identities=20% Similarity=0.589 Sum_probs=39.0
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHHhhC
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
-|.|..||....- ..+..|+...++ .-|.|--|++.|.. .....|.....
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhhhcc
Confidence 3789999987655 456679887766 55999999999988 56688887554
No 90
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.06 E-value=0.6 Score=29.52 Aligned_cols=34 Identities=21% Similarity=0.468 Sum_probs=24.6
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHH
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCR 95 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 95 (159)
..|+.||+.|... +..|..|++||..|.....++
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcchhhc
Confidence 4799999888763 236789999998876664443
No 91
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=82.83 E-value=0.83 Score=26.85 Aligned_cols=11 Identities=36% Similarity=1.186 Sum_probs=5.3
Q ss_pred ceecccccccc
Q psy16923 50 AYQCVTCGKSF 60 (159)
Q Consensus 50 ~~~C~~C~~~f 60 (159)
-|.|..|+..|
T Consensus 53 IW~C~kCg~~f 63 (89)
T COG1997 53 IWKCRKCGAKF 63 (89)
T ss_pred eEEcCCCCCee
Confidence 34555555444
No 92
>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=82.33 E-value=0.79 Score=31.93 Aligned_cols=32 Identities=28% Similarity=0.669 Sum_probs=24.1
Q ss_pred CCCcccccCcccccCchhHHHhHHhhCCchhh
Q psy16923 76 KRPYTCPWCSRTFANGSNCRSHKRRMHPEELK 107 (159)
Q Consensus 76 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~ 107 (159)
+..|.|+.|+|.|.-..-..+|+...|.+...
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ve 106 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEKVE 106 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHHHH
Confidence 34589999999999999999999999977653
No 93
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=81.80 E-value=1.3 Score=24.00 Aligned_cols=50 Identities=22% Similarity=0.523 Sum_probs=27.7
Q ss_pred cccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcc
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSR 86 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 86 (159)
+-.|..|+....- -.+...|.|+.||........ +--....+|.|+.||.
T Consensus 9 ~~~CtSCg~~i~p----------~e~~v~F~CPnCGe~~I~Rc~-----~CRk~g~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAP----------GETAVKFPCPNCGEVEIYRCA-----KCRKLGNPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEecc----------CCceeEeeCCCCCceeeehhh-----hHHHcCCceECCCcCc
Confidence 4467777755311 112245789999855433222 1112246799999885
No 94
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=81.50 E-value=1.9 Score=29.14 Aligned_cols=33 Identities=18% Similarity=0.722 Sum_probs=26.1
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccC
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFR 61 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 61 (159)
..-|.|+.|+..|....++. ..|.|+.||....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLE 147 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCe
Confidence 46799999999998888764 3689999997544
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=79.42 E-value=2.4 Score=18.87 Aligned_cols=19 Identities=26% Similarity=0.586 Sum_probs=11.5
Q ss_pred cCCCCcccCCCHHHHHHHHH
Q psy16923 24 GCPHCPMKLNTRRTLRMHLV 43 (159)
Q Consensus 24 ~C~~C~~~f~~~~~l~~H~~ 43 (159)
.|++|++.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 577777776 4455556654
No 96
>PF12907 zf-met2: Zinc-binding
Probab=78.44 E-value=1.4 Score=21.93 Aligned_cols=27 Identities=30% Similarity=0.701 Sum_probs=18.1
Q ss_pred cccccCcccc---cCchhHHHhHHhhCCch
Q psy16923 79 YTCPWCSRTF---ANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 79 ~~C~~C~~~f---~~~~~l~~H~~~~h~~~ 105 (159)
+.|.+|...| .+...|..|....|++.
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 5677777444 45567888887777664
No 97
>KOG4377|consensus
Probab=78.13 E-value=2.2 Score=32.50 Aligned_cols=98 Identities=23% Similarity=0.415 Sum_probs=56.0
Q ss_pred CCCCCCHHHHHHHHHhh--CC-----------CcccC--CCCcccCCCHHHHHHHHHhcCCC-------Cceeccccccc
Q psy16923 2 FSRFKTKYRLKLHLDTH--GE-----------TPYGC--PHCPMKLNTRRTLRMHLVVHRDT-------KAYQCVTCGKS 59 (159)
Q Consensus 2 ~~~f~~~~~l~~H~~~h--~~-----------~~~~C--~~C~~~f~~~~~l~~H~~~h~~~-------~~~~C~~C~~~ 59 (159)
|.++.++....+|...| .+ ..|.| ..|++ +-++...|..-|+.. ..|.|..|+-+
T Consensus 280 ~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~GfrrthfhC~r~gCT 356 (480)
T KOG4377|consen 280 FYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTHFHCQRIGCT 356 (480)
T ss_pred cccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceecceeEEeccCCc
Confidence 34555588899999888 11 22556 35877 334555565555421 34678887743
Q ss_pred cCCH--HhHHhHHhhcCCCC------------------------Cccccc--CcccccCchhHHHhHHhhC
Q psy16923 60 FRRS--KDLKNHHNLHTGKR------------------------PYTCPW--CSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 60 f~~~--~~l~~H~~~h~~~~------------------------~~~C~~--C~~~f~~~~~l~~H~~~~h 102 (159)
+..+ ..-..|.+.+.++. .+.|.. |+..+.+.+++..|.+.|-
T Consensus 357 dtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrkhe 427 (480)
T KOG4377|consen 357 DTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRKHE 427 (480)
T ss_pred cccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhhhhh
Confidence 3333 22223333222211 134544 8888889999999988653
No 98
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=77.81 E-value=2.2 Score=22.85 Aligned_cols=40 Identities=28% Similarity=0.719 Sum_probs=20.1
Q ss_pred Cceeccc--cccccCCHHhHHhHHhhcCCCCCccccc----Cccccc
Q psy16923 49 KAYQCVT--CGKSFRRSKDLKNHHNLHTGKRPYTCPW----CSRTFA 89 (159)
Q Consensus 49 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 89 (159)
.+..|+. |...+. ...|..|....-..++..|.. |+..+.
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 3456666 444333 356777777555556667777 666554
No 99
>KOG4173|consensus
Probab=77.72 E-value=1.2 Score=30.58 Aligned_cols=50 Identities=28% Similarity=0.648 Sum_probs=40.7
Q ss_pred ceeccc--cccccCCHHhHHhHHhhcCCCCCcccccCcccccCchhHHHhHHhhC
Q psy16923 50 AYQCVT--CGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 50 ~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
.+.|++ |...|.+.+.+..|...-++ -.|..|.+.|.+..-|..|+-..|
T Consensus 79 ~~~cqvagc~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~H 130 (253)
T KOG4173|consen 79 AFACQVAGCCQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWH 130 (253)
T ss_pred cccccccchHHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHH
Confidence 367887 88889988888888765333 489999999999999999987666
No 100
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=77.54 E-value=1.4 Score=22.97 Aligned_cols=11 Identities=36% Similarity=1.265 Sum_probs=6.7
Q ss_pred ceecccccccc
Q psy16923 50 AYQCVTCGKSF 60 (159)
Q Consensus 50 ~~~C~~C~~~f 60 (159)
.|.|..|++.+
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 45666666655
No 101
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=77.27 E-value=0.69 Score=24.25 Aligned_cols=11 Identities=45% Similarity=1.431 Sum_probs=5.6
Q ss_pred eeccccccccC
Q psy16923 51 YQCVTCGKSFR 61 (159)
Q Consensus 51 ~~C~~C~~~f~ 61 (159)
|.|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 45555555444
No 102
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=76.12 E-value=1.7 Score=22.20 Aligned_cols=10 Identities=40% Similarity=1.391 Sum_probs=5.2
Q ss_pred eecccccccc
Q psy16923 51 YQCVTCGKSF 60 (159)
Q Consensus 51 ~~C~~C~~~f 60 (159)
|.|..||..+
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4555555544
No 103
>KOG2785|consensus
Probab=75.80 E-value=3.6 Score=31.08 Aligned_cols=49 Identities=24% Similarity=0.523 Sum_probs=41.2
Q ss_pred eccccccccCCHHhHHhHHhhcCCC-----------------------CCcccccCc---ccccCchhHHHhHHh
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNLHTGK-----------------------RPYTCPWCS---RTFANGSNCRSHKRR 100 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 100 (159)
.|..|++.+.+...-..||..++|- ..+.|-.|+ +.|.+-.+.+.||..
T Consensus 168 ~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 168 DCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred ceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 5899999999999999999887653 126788898 899999999999974
No 104
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=75.28 E-value=1.2 Score=22.39 Aligned_cols=12 Identities=42% Similarity=1.196 Sum_probs=6.7
Q ss_pred eeccccccccCC
Q psy16923 51 YQCVTCGKSFRR 62 (159)
Q Consensus 51 ~~C~~C~~~f~~ 62 (159)
|.|..||..|..
T Consensus 6 y~C~~Cg~~fe~ 17 (42)
T PF09723_consen 6 YRCEECGHEFEV 17 (42)
T ss_pred EEeCCCCCEEEE
Confidence 556666655544
No 105
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=75.23 E-value=0.66 Score=30.61 Aligned_cols=14 Identities=36% Similarity=0.949 Sum_probs=9.5
Q ss_pred eeccccccccCCHH
Q psy16923 51 YQCVTCGKSFRRSK 64 (159)
Q Consensus 51 ~~C~~C~~~f~~~~ 64 (159)
+.|+.||+.|.+..
T Consensus 29 ~~c~~c~~~f~~~e 42 (154)
T PRK00464 29 RECLACGKRFTTFE 42 (154)
T ss_pred eeccccCCcceEeE
Confidence 57777777776643
No 106
>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=74.76 E-value=0.84 Score=22.46 Aligned_cols=11 Identities=45% Similarity=1.407 Sum_probs=5.5
Q ss_pred eeccccccccC
Q psy16923 51 YQCVTCGKSFR 61 (159)
Q Consensus 51 ~~C~~C~~~f~ 61 (159)
|.|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 44555555443
No 107
>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=72.53 E-value=1.6 Score=31.21 Aligned_cols=83 Identities=17% Similarity=0.368 Sum_probs=49.2
Q ss_pred HhhCCCcccCCCCcccCCCHHHHHHHHHh--cCCCCceeccccccccCCHHh-------HHhHHhh----cCCCCCcccc
Q psy16923 16 DTHGETPYGCPHCPMKLNTRRTLRMHLVV--HRDTKAYQCVTCGKSFRRSKD-------LKNHHNL----HTGKRPYTCP 82 (159)
Q Consensus 16 ~~h~~~~~~C~~C~~~f~~~~~l~~H~~~--h~~~~~~~C~~C~~~f~~~~~-------l~~H~~~----h~~~~~~~C~ 82 (159)
+.|+-+.|.|..|+.-.--..++. |+.+ ......|+|.-|++.-.. +- -..|.+. -...+++.|+
T Consensus 136 w~hGGrif~CsfC~~flCEDDQFE-HQAsCQvLe~E~~KC~SCNrlGq~-sCLRCK~cfCddHvrrKg~ky~k~k~~PCP 213 (314)
T PF06524_consen 136 WDHGGRIFKCSFCDNFLCEDDQFE-HQASCQVLESETFKCQSCNRLGQY-SCLRCKICFCDDHVRRKGFKYEKGKPIPCP 213 (314)
T ss_pred ccCCCeEEEeecCCCeeeccchhh-hhhhhhhhhcccccccccccccch-hhhheeeeehhhhhhhcccccccCCCCCCC
Confidence 446778899999986555544443 5443 223345677777653211 11 1234442 2335789999
Q ss_pred cCcccccCchhHHHhHHh
Q psy16923 83 WCSRTFANGSNCRSHKRR 100 (159)
Q Consensus 83 ~C~~~f~~~~~l~~H~~~ 100 (159)
.|++.......|..-.+.
T Consensus 214 KCg~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 214 KCGYETQETKDLSMSTRS 231 (314)
T ss_pred CCCCcccccccceeeeec
Confidence 999988777777555443
No 108
>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=72.30 E-value=3 Score=26.74 Aligned_cols=31 Identities=23% Similarity=0.437 Sum_probs=17.7
Q ss_pred cccccCcccccCchhHHHhHHhhCCchhhhhhhc
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMHPEELKLYESS 112 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~~~~ 112 (159)
..|-+||+.|.. |++|++.||+-....+...
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gltp~eYR~k 103 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLTPEEYRAK 103 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-HHHHHHH
T ss_pred eEEccCCcccch---HHHHHHHccCCCHHHHHHH
Confidence 678889998754 4889998876554444333
No 109
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=72.06 E-value=4.8 Score=20.08 Aligned_cols=25 Identities=24% Similarity=0.529 Sum_probs=17.9
Q ss_pred cccCCCCcccCC--CHHHHHHHHHhcC
Q psy16923 22 PYGCPHCPMKLN--TRRTLRMHLVVHR 46 (159)
Q Consensus 22 ~~~C~~C~~~f~--~~~~l~~H~~~h~ 46 (159)
.-.|+.|++.|. ...+-..|.+-|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 358999998875 4567777776653
No 110
>PF15269 zf-C2H2_7: Zinc-finger
Probab=71.69 E-value=3.4 Score=21.03 Aligned_cols=22 Identities=32% Similarity=0.688 Sum_probs=18.4
Q ss_pred ccCCCCcccCCCHHHHHHHHHh
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVV 44 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~ 44 (159)
|.|-.|..+...++.|-+||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6788898888888999988863
No 111
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.34 E-value=1 Score=31.59 Aligned_cols=9 Identities=33% Similarity=0.910 Sum_probs=6.2
Q ss_pred cccccCccc
Q psy16923 79 YTCPWCSRT 87 (159)
Q Consensus 79 ~~C~~C~~~ 87 (159)
+.|+.|..+
T Consensus 63 vvCP~C~yA 71 (267)
T COG1655 63 VVCPICYYA 71 (267)
T ss_pred EEcchhhHH
Confidence 478888763
No 112
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=70.31 E-value=3 Score=22.67 Aligned_cols=53 Identities=25% Similarity=0.632 Sum_probs=28.8
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCccc
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRT 87 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 87 (159)
..+..|..|+....-. .....|.|+.||......-. .-|. ...+|.|+.||..
T Consensus 5 ~~~~~CtSCg~~i~~~----------~~~~~F~CPnCG~~~I~RC~---~CRk--~~~~Y~CP~CGF~ 57 (59)
T PRK14890 5 MEPPKCTSCGIEIAPR----------EKAVKFLCPNCGEVIIYRCE---KCRK--QSNPYTCPKCGFE 57 (59)
T ss_pred ccCccccCCCCcccCC----------CccCEeeCCCCCCeeEeech---hHHh--cCCceECCCCCCc
Confidence 3455788887543211 11245889999876222211 1111 2467999999863
No 113
>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=70.31 E-value=3.3 Score=20.07 Aligned_cols=10 Identities=20% Similarity=0.534 Sum_probs=5.2
Q ss_pred cccccCcccc
Q psy16923 79 YTCPWCSRTF 88 (159)
Q Consensus 79 ~~C~~C~~~f 88 (159)
-.|+.||-.+
T Consensus 22 ~~Cd~cg~~L 31 (36)
T PF05191_consen 22 GVCDNCGGEL 31 (36)
T ss_dssp TBCTTTTEBE
T ss_pred CccCCCCCee
Confidence 4555555443
No 114
>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=69.11 E-value=4.7 Score=18.98 Aligned_cols=10 Identities=40% Similarity=1.125 Sum_probs=5.8
Q ss_pred CcccccCccc
Q psy16923 78 PYTCPWCSRT 87 (159)
Q Consensus 78 ~~~C~~C~~~ 87 (159)
+.+|+.||..
T Consensus 17 ~irC~~CG~R 26 (32)
T PF03604_consen 17 PIRCPECGHR 26 (32)
T ss_dssp TSSBSSSS-S
T ss_pred cEECCcCCCe
Confidence 4577777654
No 115
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=66.25 E-value=2.9 Score=18.67 Aligned_cols=10 Identities=40% Similarity=1.105 Sum_probs=5.9
Q ss_pred ccccCccccc
Q psy16923 80 TCPWCSRTFA 89 (159)
Q Consensus 80 ~C~~C~~~f~ 89 (159)
.|+.||+.|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5666666553
No 116
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=65.95 E-value=2.7 Score=24.98 Aligned_cols=11 Identities=27% Similarity=0.869 Sum_probs=5.1
Q ss_pred ceecccccccc
Q psy16923 50 AYQCVTCGKSF 60 (159)
Q Consensus 50 ~~~C~~C~~~f 60 (159)
.|.|..|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PTZ00255 54 IWRCKGCKKTV 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 34455554443
No 117
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=64.45 E-value=2.6 Score=34.95 Aligned_cols=13 Identities=31% Similarity=0.769 Sum_probs=9.7
Q ss_pred CCCCcccccCccc
Q psy16923 75 GKRPYTCPWCSRT 87 (159)
Q Consensus 75 ~~~~~~C~~C~~~ 87 (159)
...|..|+.||..
T Consensus 472 ~~~p~~Cp~Cgs~ 484 (730)
T COG1198 472 EPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCC
Confidence 4567889999864
No 118
>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=64.28 E-value=1.8 Score=25.74 Aligned_cols=11 Identities=36% Similarity=1.081 Sum_probs=7.3
Q ss_pred cccccCccccc
Q psy16923 79 YTCPWCSRTFA 89 (159)
Q Consensus 79 ~~C~~C~~~f~ 89 (159)
|.|..|++.|.
T Consensus 54 W~C~~C~~~~A 64 (90)
T PF01780_consen 54 WKCKKCGKKFA 64 (90)
T ss_dssp EEETTTTEEEE
T ss_pred eecCCCCCEEe
Confidence 67777776653
No 119
>KOG3408|consensus
Probab=64.04 E-value=4.9 Score=25.26 Aligned_cols=23 Identities=30% Similarity=0.755 Sum_probs=13.8
Q ss_pred CceeccccccccCCHHhHHhHHh
Q psy16923 49 KAYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
..|-|..|.+-|.+...|+.|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 34566666666666666666655
No 120
>KOG4167|consensus
Probab=63.99 E-value=1.2 Score=36.48 Aligned_cols=27 Identities=19% Similarity=0.415 Sum_probs=23.2
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcC
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHR 46 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~ 46 (159)
...|.|.+|++.|.....+..||++|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 345889999999998888999999886
No 121
>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=63.61 E-value=3.1 Score=24.77 Aligned_cols=10 Identities=40% Similarity=1.069 Sum_probs=4.9
Q ss_pred cccccCcccc
Q psy16923 79 YTCPWCSRTF 88 (159)
Q Consensus 79 ~~C~~C~~~f 88 (159)
|.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (91)
T TIGR00280 54 WTCRKCGAKF 63 (91)
T ss_pred EEcCCCCCEE
Confidence 4555554444
No 122
>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=62.39 E-value=1.5 Score=23.09 Aligned_cols=20 Identities=25% Similarity=0.652 Sum_probs=6.7
Q ss_pred cccCCCCcccCCCHHHHHHH
Q psy16923 22 PYGCPHCPMKLNTRRTLRMH 41 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H 41 (159)
.|.|+.|+..|-..-++-.|
T Consensus 21 ~y~C~~C~~~FC~dCD~fiH 40 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIH 40 (51)
T ss_dssp EE--TTTT--B-HHHHHTTT
T ss_pred eEECCCCCCccccCcChhhh
Confidence 34455555444444444333
No 123
>KOG2593|consensus
Probab=61.46 E-value=13 Score=28.80 Aligned_cols=36 Identities=28% Similarity=0.764 Sum_probs=20.8
Q ss_pred CcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccc
Q psy16923 21 TPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKS 59 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 59 (159)
.-|.|+.|++.|.....+..- -.....|.|..|+..
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L~---~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQLL---DNETGEFHCENCGGE 162 (436)
T ss_pred ccccCCccccchhhhHHHHhh---cccCceEEEecCCCc
Confidence 447777777777665544421 112345777777643
No 124
>KOG2593|consensus
Probab=61.28 E-value=11 Score=29.22 Aligned_cols=39 Identities=18% Similarity=0.498 Sum_probs=26.5
Q ss_pred CCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCccc
Q psy16923 46 RDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRT 87 (159)
Q Consensus 46 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 87 (159)
.....|.|+.|.+.|.....++.= -...-.|.|..|+-.
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L~---~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQLL---DNETGEFHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHHHhh---cccCceEEEecCCCc
Confidence 345679999999999887765422 222234899888644
No 125
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=61.19 E-value=4.1 Score=20.19 Aligned_cols=18 Identities=22% Similarity=0.543 Sum_probs=10.2
Q ss_pred ceeccccccccCCHHhHH
Q psy16923 50 AYQCVTCGKSFRRSKDLK 67 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~ 67 (159)
...|..|+..+.....|.
T Consensus 19 id~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 19 IDVCPSCGGIWFDAGELE 36 (41)
T ss_pred EEECCCCCeEEccHHHHH
Confidence 345666666666555543
No 126
>PF14353 CpXC: CpXC protein
Probab=60.66 E-value=11 Score=23.77 Aligned_cols=9 Identities=44% Similarity=1.324 Sum_probs=5.7
Q ss_pred cCCCCcccC
Q psy16923 24 GCPHCPMKL 32 (159)
Q Consensus 24 ~C~~C~~~f 32 (159)
.|+.|+..|
T Consensus 3 tCP~C~~~~ 11 (128)
T PF14353_consen 3 TCPHCGHEF 11 (128)
T ss_pred CCCCCCCee
Confidence 566666655
No 127
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=60.24 E-value=4.8 Score=29.66 Aligned_cols=47 Identities=21% Similarity=0.441 Sum_probs=29.5
Q ss_pred ccccccccCCHHhHHhHHh-hcCCCCCcccccCcccccCchhHHHhHHhhC
Q psy16923 53 CVTCGKSFRRSKDLKNHHN-LHTGKRPYTCPWCSRTFANGSNCRSHKRRMH 102 (159)
Q Consensus 53 C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h 102 (159)
|..|...|+.... |-. .-+....|.|+.|...|-..-+.-.|-..|.
T Consensus 365 Cf~CQ~~fp~~~~---~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 365 CFVCQGPFPKPPV---SPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred ceeccCCCCCCCC---CcccccccccceechhhhhhhhhhhHHHHHHHHhh
Confidence 7777777765422 111 1122334899999998888777777766543
No 128
>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=60.07 E-value=4.6 Score=17.68 Aligned_cols=10 Identities=40% Similarity=1.427 Sum_probs=7.5
Q ss_pred CcccCCCCcc
Q psy16923 21 TPYGCPHCPM 30 (159)
Q Consensus 21 ~~~~C~~C~~ 30 (159)
-.|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4688888874
No 129
>KOG2807|consensus
Probab=59.92 E-value=13 Score=27.71 Aligned_cols=70 Identities=20% Similarity=0.411 Sum_probs=39.8
Q ss_pred CCcccCCCCcccCCCHHHHHHHHHhcCCCCce------------eccccccccCCHHhHHhHHhhcCCCCCcccccCccc
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAY------------QCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRT 87 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~------------~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 87 (159)
.-|-.|+.|+...-...+|.+-.+---.-++| .|..|+.. -.+...|.|..|...
T Consensus 288 sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~-------------~~~~~~y~C~~Ck~~ 354 (378)
T KOG2807|consen 288 SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGE-------------LLSSGRYRCESCKNV 354 (378)
T ss_pred cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccc-------------cCCCCcEEchhccce
Confidence 45677888887777777776543321111111 14555211 112234888888888
Q ss_pred ccCchhHHHhHHhhC
Q psy16923 88 FANGSNCRSHKRRMH 102 (159)
Q Consensus 88 f~~~~~l~~H~~~~h 102 (159)
|=..-+.-.|-..|.
T Consensus 355 FCldCDv~iHesLh~ 369 (378)
T KOG2807|consen 355 FCLDCDVFIHESLHN 369 (378)
T ss_pred eeccchHHHHhhhhc
Confidence 877767667766543
No 130
>KOG3408|consensus
Probab=59.89 E-value=4.9 Score=25.24 Aligned_cols=26 Identities=23% Similarity=0.566 Sum_probs=22.3
Q ss_pred CCCCcccccCcccccCchhHHHhHHh
Q psy16923 75 GKRPYTCPWCSRTFANGSNCRSHKRR 100 (159)
Q Consensus 75 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 100 (159)
|...|.|-.|.+.|.+...|..|.+.
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 34458999999999999999999874
No 131
>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=59.76 E-value=4.4 Score=18.80 Aligned_cols=7 Identities=43% Similarity=1.246 Sum_probs=3.2
Q ss_pred eeccccc
Q psy16923 51 YQCVTCG 57 (159)
Q Consensus 51 ~~C~~C~ 57 (159)
+.|+.|+
T Consensus 20 ~vCp~C~ 26 (30)
T PF08274_consen 20 LVCPECG 26 (30)
T ss_dssp EEETTTT
T ss_pred EeCCccc
Confidence 4444444
No 132
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=58.37 E-value=4.4 Score=26.08 Aligned_cols=14 Identities=21% Similarity=0.762 Sum_probs=10.1
Q ss_pred ceeccccccccCCH
Q psy16923 50 AYQCVTCGKSFRRS 63 (159)
Q Consensus 50 ~~~C~~C~~~f~~~ 63 (159)
.+.|..||..|...
T Consensus 70 ~~~C~~CG~~~~~~ 83 (135)
T PRK03824 70 VLKCRNCGNEWSLK 83 (135)
T ss_pred EEECCCCCCEEecc
Confidence 47888888776553
No 133
>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=58.14 E-value=6.5 Score=30.81 Aligned_cols=30 Identities=37% Similarity=0.840 Sum_probs=21.5
Q ss_pred CCCcccccCcccccCchhHHHhHHhhCCch
Q psy16923 76 KRPYTCPWCSRTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 76 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 105 (159)
-+-|.|+.|.+.|.....+..|+...|...
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 344677778888888888888877777554
No 134
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=58.13 E-value=4.1 Score=24.25 Aligned_cols=10 Identities=30% Similarity=0.983 Sum_probs=4.9
Q ss_pred cccccCcccc
Q psy16923 79 YTCPWCSRTF 88 (159)
Q Consensus 79 ~~C~~C~~~f 88 (159)
|.|..|++.|
T Consensus 55 W~C~~C~~~~ 64 (90)
T PRK03976 55 WECRKCGAKF 64 (90)
T ss_pred EEcCCCCCEE
Confidence 4555554444
No 135
>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=57.05 E-value=5.8 Score=27.72 Aligned_cols=26 Identities=27% Similarity=0.599 Sum_probs=14.2
Q ss_pred CCCceeccccccccCCHHhHHhHHhh
Q psy16923 47 DTKAYQCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 47 ~~~~~~C~~C~~~f~~~~~l~~H~~~ 72 (159)
.+..|.|..|++.|........|+..
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~n 99 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFN 99 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhh
Confidence 34446666666666666666666655
No 136
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=56.55 E-value=2.9 Score=23.77 Aligned_cols=16 Identities=38% Similarity=0.555 Sum_probs=10.3
Q ss_pred CCCcccc--cCcccccCc
Q psy16923 76 KRPYTCP--WCSRTFANG 91 (159)
Q Consensus 76 ~~~~~C~--~C~~~f~~~ 91 (159)
+.-+.|. .||..|...
T Consensus 25 ~~Y~qC~N~eCg~tF~t~ 42 (72)
T PRK09678 25 ERYHQCQNVNCSATFITY 42 (72)
T ss_pred eeeeecCCCCCCCEEEEE
Confidence 3445776 677777665
No 137
>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=55.93 E-value=33 Score=22.82 Aligned_cols=53 Identities=21% Similarity=0.376 Sum_probs=34.7
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCccccc--CcccccCchhHHHhHHhhCCch
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPW--CSRTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~ 105 (159)
..|+.|........... -.|.+...|+-.|.. |.+. .+...|.+|.+..|+..
T Consensus 81 L~CPLCRG~V~GWtvve-~AR~~LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~ 135 (162)
T PF07800_consen 81 LACPLCRGEVKGWTVVE-PARRFLNAKKRSCSQESCSFS-GTYSELRKHARSEHPSA 135 (162)
T ss_pred ccCccccCceeceEEch-HHHHHhccCCccCcccccccc-cCHHHHHHHHHhhCCCC
Confidence 57999986555443332 245555666677765 5442 36789999999988654
No 138
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.77 E-value=4.3 Score=24.99 Aligned_cols=28 Identities=18% Similarity=0.436 Sum_probs=19.8
Q ss_pred eccccccccCCHHhHHhHHhhcCCCCCcccccCcccccC
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFAN 90 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 90 (159)
.|+.|++.|... ...|..|++||++|+.
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~P~ 38 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSYPR 38 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccchH
Confidence 577788777652 2357888899988843
No 139
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=55.16 E-value=8.2 Score=23.47 Aligned_cols=12 Identities=42% Similarity=1.013 Sum_probs=6.5
Q ss_pred eeccccccccCC
Q psy16923 51 YQCVTCGKSFRR 62 (159)
Q Consensus 51 ~~C~~C~~~f~~ 62 (159)
+.|..||..|.+
T Consensus 3 H~CtrCG~vf~~ 14 (112)
T COG3364 3 HQCTRCGEVFDD 14 (112)
T ss_pred ceeccccccccc
Confidence 455555555554
No 140
>KOG4167|consensus
Probab=54.74 E-value=2.8 Score=34.47 Aligned_cols=28 Identities=18% Similarity=0.430 Sum_probs=23.7
Q ss_pred cccccCcccccCchhHHHhHHhhCCchh
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMHPEEL 106 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 106 (159)
|.|.+|++.|.--..+..||++|...+.
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~q~~ 820 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQQEE 820 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 8999999999988889999998765543
No 141
>PLN02294 cytochrome c oxidase subunit Vb
Probab=53.94 E-value=3.5 Score=27.55 Aligned_cols=15 Identities=20% Similarity=0.698 Sum_probs=8.7
Q ss_pred CCCcccCCCCcccCC
Q psy16923 19 GETPYGCPHCPMKLN 33 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~ 33 (159)
..+++.|++||..|+
T Consensus 138 kGkp~RCpeCG~~fk 152 (174)
T PLN02294 138 KGKSFECPVCTQYFE 152 (174)
T ss_pred CCCceeCCCCCCEEE
Confidence 345666666666553
No 142
>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=53.01 E-value=3.6 Score=18.73 Aligned_cols=9 Identities=44% Similarity=1.383 Sum_probs=4.5
Q ss_pred ecccccccc
Q psy16923 52 QCVTCGKSF 60 (159)
Q Consensus 52 ~C~~C~~~f 60 (159)
.|..|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 345555555
No 143
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=52.96 E-value=3.4 Score=25.01 Aligned_cols=38 Identities=21% Similarity=0.400 Sum_probs=20.4
Q ss_pred CceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccC
Q psy16923 49 KAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFAN 90 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 90 (159)
+.|.|+.||..-.+.-. .+.........|..||..|..
T Consensus 21 k~FtCp~Cghe~vs~ct----vkk~~~~g~~~Cg~CGls~e~ 58 (104)
T COG4888 21 KTFTCPRCGHEKVSSCT----VKKTVNIGTAVCGNCGLSFEC 58 (104)
T ss_pred ceEecCccCCeeeeEEE----EEecCceeEEEcccCcceEEE
Confidence 45788888764333221 122222233578888877653
No 144
>PHA00626 hypothetical protein
Probab=52.30 E-value=8 Score=20.76 Aligned_cols=16 Identities=19% Similarity=0.401 Sum_probs=11.6
Q ss_pred CcccCCCCcccCCCHH
Q psy16923 21 TPYGCPHCPMKLNTRR 36 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~ 36 (159)
..|.|+.|+..|....
T Consensus 22 nrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 22 DDYVCCDCGYNDSKDA 37 (59)
T ss_pred cceEcCCCCCeechhh
Confidence 4688888888876543
No 145
>KOG2907|consensus
Probab=51.28 E-value=8.2 Score=23.94 Aligned_cols=38 Identities=26% Similarity=0.496 Sum_probs=20.0
Q ss_pred eeccccccccCCHHhHHhHHhhc-CC-CCCcccccCcccccC
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLH-TG-KRPYTCPWCSRTFAN 90 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h-~~-~~~~~C~~C~~~f~~ 90 (159)
..|+.||-.--. .-+..+|+- .| ..-|.|..|++.|..
T Consensus 75 ~kCpkCghe~m~--Y~T~QlRSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMS--YHTLQLRSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhh--hhhhhcccccCCceEEEEcCccceeeec
Confidence 468888753211 111222321 12 224789999888764
No 146
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=50.71 E-value=21 Score=24.20 Aligned_cols=17 Identities=29% Similarity=0.727 Sum_probs=8.2
Q ss_pred CCcccCCCCcccCCCHH
Q psy16923 20 ETPYGCPHCPMKLNTRR 36 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~ 36 (159)
..-|.|+.|...|+...
T Consensus 111 ~~~y~C~~~~~r~sfde 127 (176)
T COG1675 111 NNYYVCPNCHVKYSFDE 127 (176)
T ss_pred CCceeCCCCCCcccHHH
Confidence 34455555555444443
No 147
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=50.42 E-value=3.8 Score=24.78 Aligned_cols=15 Identities=27% Similarity=0.709 Sum_probs=10.4
Q ss_pred CCCcccCCCCcccCC
Q psy16923 19 GETPYGCPHCPMKLN 33 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~ 33 (159)
..+++.|+.||..|+
T Consensus 76 ~g~~~rC~eCG~~fk 90 (97)
T cd00924 76 KGKPKRCPECGHVFK 90 (97)
T ss_pred CCCceeCCCCCcEEE
Confidence 346777888877764
No 148
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=50.33 E-value=9.5 Score=24.51 Aligned_cols=23 Identities=39% Similarity=0.677 Sum_probs=11.6
Q ss_pred eccccccccCCHHhHHhHHhhcCCCC
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNLHTGKR 77 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~h~~~~ 77 (159)
.|-++|+.|.+ |++|+..|.+..
T Consensus 78 icLEDGkkfKS---LKRHL~t~~gmT 100 (148)
T COG4957 78 ICLEDGKKFKS---LKRHLTTHYGLT 100 (148)
T ss_pred EEeccCcchHH---HHHHHhcccCCC
Confidence 45555555432 555555555443
No 149
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.96 E-value=6.1 Score=22.64 Aligned_cols=10 Identities=30% Similarity=1.046 Sum_probs=4.7
Q ss_pred ccCCCCcccC
Q psy16923 23 YGCPHCPMKL 32 (159)
Q Consensus 23 ~~C~~C~~~f 32 (159)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 4455555443
No 150
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=49.89 E-value=2 Score=21.29 Aligned_cols=10 Identities=30% Similarity=1.059 Sum_probs=5.9
Q ss_pred cccccCcccc
Q psy16923 79 YTCPWCSRTF 88 (159)
Q Consensus 79 ~~C~~C~~~f 88 (159)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5666666544
No 151
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=49.74 E-value=15 Score=20.32 Aligned_cols=12 Identities=42% Similarity=1.005 Sum_probs=6.4
Q ss_pred CCcccccCcccc
Q psy16923 77 RPYTCPWCSRTF 88 (159)
Q Consensus 77 ~~~~C~~C~~~f 88 (159)
+.|.|+.||...
T Consensus 45 r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 45 RVFTCPNCGFEM 56 (69)
T ss_pred ceEEcCCCCCEE
Confidence 345666665543
No 152
>KOG1842|consensus
Probab=48.62 E-value=9.5 Score=29.62 Aligned_cols=23 Identities=17% Similarity=0.476 Sum_probs=12.6
Q ss_pred ceeccccccccCCHHhHHhHHhh
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~ 72 (159)
.|.|+.|...|.+...|..|...
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~ 37 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDV 37 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhh
Confidence 34555555555555555555544
No 153
>KOG0978|consensus
Probab=48.43 E-value=6.3 Score=32.44 Aligned_cols=20 Identities=30% Similarity=0.660 Sum_probs=14.5
Q ss_pred CcccccCcccccCchhHHHh
Q psy16923 78 PYTCPWCSRTFANGSNCRSH 97 (159)
Q Consensus 78 ~~~C~~C~~~f~~~~~l~~H 97 (159)
.-+||.|+..|....-+..|
T Consensus 678 qRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 678 QRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred cCCCCCCCCCCCcccccccC
Confidence 35899999998877655544
No 154
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=48.26 E-value=9.6 Score=18.74 Aligned_cols=13 Identities=23% Similarity=0.608 Sum_probs=9.3
Q ss_pred cccCCCCcccCCC
Q psy16923 22 PYGCPHCPMKLNT 34 (159)
Q Consensus 22 ~~~C~~C~~~f~~ 34 (159)
++.|..|++.|-.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 6777777777754
No 155
>KOG2071|consensus
Probab=48.23 E-value=13 Score=30.00 Aligned_cols=28 Identities=18% Similarity=0.591 Sum_probs=23.4
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHhcC
Q psy16923 19 GETPYGCPHCPMKLNTRRTLRMHLVVHR 46 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 46 (159)
..++..|..||..|.+......||-.|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 5788999999999999888877776653
No 156
>PRK14873 primosome assembly protein PriA; Provisional
Probab=47.63 E-value=14 Score=30.52 Aligned_cols=11 Identities=27% Similarity=0.954 Sum_probs=8.2
Q ss_pred CCcccccCccc
Q psy16923 77 RPYTCPWCSRT 87 (159)
Q Consensus 77 ~~~~C~~C~~~ 87 (159)
.++.|+.|+..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 36789999864
No 157
>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=47.23 E-value=11 Score=18.94 Aligned_cols=14 Identities=36% Similarity=0.869 Sum_probs=7.4
Q ss_pred ccccCcccccCchh
Q psy16923 80 TCPWCSRTFANGSN 93 (159)
Q Consensus 80 ~C~~C~~~f~~~~~ 93 (159)
.|..|++.|+.+..
T Consensus 10 ~C~~C~rpf~WRKK 23 (42)
T PF10013_consen 10 ICPVCGRPFTWRKK 23 (42)
T ss_pred cCcccCCcchHHHH
Confidence 45555555555433
No 158
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=47.22 E-value=3.8 Score=23.17 Aligned_cols=59 Identities=24% Similarity=0.369 Sum_probs=27.0
Q ss_pred cccCCCCcccCCCHH---HHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccc
Q psy16923 22 PYGCPHCPMKLNTRR---TLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTF 88 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~---~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 88 (159)
.+.|+-|++.|+-.. ++..|...........|..|+....-... ..+ ..+.|+.|+..|
T Consensus 10 ~~~~~cC~~~y~C~~CHde~~~H~~~~~~~~~v~Cg~C~~~~~~~~~-------~c~-~~~~C~~C~~~~ 71 (71)
T PF05495_consen 10 AIRFPCCGKYYPCRFCHDELEDHPFDRWPVKRVICGKCRTEQPIDEY-------SCG-ADYFCPICGLYF 71 (71)
T ss_dssp EEEETTTTEEESSHHHHHHCSSS---TTT--EEEETTT--EEES-SB-------TT---SEEETTTTEEE
T ss_pred EEECCcccCeecHHHHHHHhccCccccccccCeECCCCCCccChhhh-------hcC-CCccCcCcCCCC
Confidence 455666777766552 22233332223335678888776554433 111 347788777543
No 159
>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=46.98 E-value=18 Score=18.32 Aligned_cols=8 Identities=38% Similarity=1.053 Sum_probs=3.9
Q ss_pred CcccccCc
Q psy16923 78 PYTCPWCS 85 (159)
Q Consensus 78 ~~~C~~C~ 85 (159)
.|+|..|+
T Consensus 37 ~~~C~~C~ 44 (46)
T PF12760_consen 37 RYRCKACR 44 (46)
T ss_pred eEECCCCC
Confidence 35555554
No 160
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=46.36 E-value=10 Score=24.92 Aligned_cols=35 Identities=29% Similarity=0.770 Sum_probs=21.6
Q ss_pred CCceeccccccccCCHHhHHhHHhhcCCCCCcccccCccc
Q psy16923 48 TKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRT 87 (159)
Q Consensus 48 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 87 (159)
.-+|.|. |+..+.+... |-..-.|+ .|.|..|+-.
T Consensus 115 ~~~Y~C~-C~q~~l~~RR---hn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 115 TYPYRCQ-CQQHYLRIRR---HNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred ceeEEee-cCCccchhhh---cccccccc-eEEeccCCce
Confidence 4568888 8877665432 32333344 6888888754
No 161
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=46.31 E-value=11 Score=29.07 Aligned_cols=29 Identities=21% Similarity=0.675 Sum_probs=19.8
Q ss_pred eccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCc
Q psy16923 52 QCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANG 91 (159)
Q Consensus 52 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 91 (159)
.|+.||....+. |.+.|+|+.|+..+...
T Consensus 352 ~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSA-----------GRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhc-----------CCCCcccccccccCCcc
Confidence 688888753332 33378999999877665
No 162
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=46.22 E-value=14 Score=19.33 Aligned_cols=11 Identities=36% Similarity=0.990 Sum_probs=5.1
Q ss_pred eeccccccccC
Q psy16923 51 YQCVTCGKSFR 61 (159)
Q Consensus 51 ~~C~~C~~~f~ 61 (159)
+.|..||..|.
T Consensus 5 l~C~dCg~~Fv 15 (49)
T PF13451_consen 5 LTCKDCGAEFV 15 (49)
T ss_pred EEcccCCCeEE
Confidence 44444544443
No 163
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=45.43 E-value=16 Score=28.75 Aligned_cols=24 Identities=21% Similarity=0.527 Sum_probs=18.1
Q ss_pred CceeccccccccCCHHhHHhHHhh
Q psy16923 49 KAYQCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~~~l~~H~~~ 72 (159)
+-|.|+.|.+.|.....+..|+..
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~ 79 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQ 79 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHH
Confidence 446788888888888888888764
No 164
>KOG1280|consensus
Probab=44.46 E-value=21 Score=26.90 Aligned_cols=36 Identities=19% Similarity=0.498 Sum_probs=24.3
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCC--cccccCc
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRP--YTCPWCS 85 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~--~~C~~C~ 85 (159)
.|.|+.|+..-.+...|..|...-+.+.. ..|++|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 47888998888888888888775333322 2455554
No 165
>KOG0717|consensus
Probab=43.47 E-value=14 Score=28.99 Aligned_cols=22 Identities=18% Similarity=0.378 Sum_probs=20.0
Q ss_pred ccCCCCcccCCCHHHHHHHHHh
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVV 44 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~ 44 (159)
+-|..|++.|++..+|.+|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999754
No 166
>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=43.40 E-value=11 Score=23.46 Aligned_cols=24 Identities=29% Similarity=0.793 Sum_probs=15.5
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSR 86 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 86 (159)
..|..|+..|..... .+.|+.||.
T Consensus 71 ~~C~~Cg~~~~~~~~------------~~~CP~Cgs 94 (115)
T TIGR00100 71 CECEDCSEEVSPEID------------LYRCPKCHG 94 (115)
T ss_pred EEcccCCCEEecCCc------------CccCcCCcC
Confidence 678888876655321 367888875
No 167
>KOG0782|consensus
Probab=41.15 E-value=3.5 Score=33.08 Aligned_cols=52 Identities=27% Similarity=0.569 Sum_probs=30.8
Q ss_pred HHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccCch
Q psy16923 36 RTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFANGS 92 (159)
Q Consensus 36 ~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 92 (159)
..+.+|--+|....--+|..|+++|..+-.+ |-+. .....|.+|...|-.+.
T Consensus 239 ~~fvrHHWVHrrRqeGkC~~CgKgFQQKf~F--hsKE---ivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 239 SGFVRHHWVHRRRQEGKCNTCGKGFQQKFFF--HSKE---IVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccchHHhHhhHhhhccccchhhhhhhhheee--cccc---EEEEEehHHHHHhhcch
Confidence 3566666555544444788888888765433 2111 22367888887776554
No 168
>KOG2636|consensus
Probab=40.01 E-value=21 Score=27.82 Aligned_cols=29 Identities=21% Similarity=0.416 Sum_probs=23.1
Q ss_pred hhcCCCCCcccccCc-ccccCchhHHHhHH
Q psy16923 71 NLHTGKRPYTCPWCS-RTFANGSNCRSHKR 99 (159)
Q Consensus 71 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 99 (159)
+.|.....|.|.+|| +.+.-+.++.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 456666779999999 78888888888864
No 169
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.61 E-value=27 Score=27.83 Aligned_cols=10 Identities=50% Similarity=1.122 Sum_probs=6.8
Q ss_pred CCcccccCcc
Q psy16923 77 RPYTCPWCSR 86 (159)
Q Consensus 77 ~~~~C~~C~~ 86 (159)
.|..|+.|+.
T Consensus 252 ~~~~Cp~C~s 261 (505)
T TIGR00595 252 IPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCC
Confidence 4567888865
No 170
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=39.28 E-value=15 Score=22.80 Aligned_cols=24 Identities=21% Similarity=0.585 Sum_probs=14.9
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCcc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSR 86 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 86 (159)
..|..|+..|.... ..+.|+.||.
T Consensus 71 ~~C~~Cg~~~~~~~------------~~~~CP~Cgs 94 (113)
T PRK12380 71 AWCWDCSQVVEIHQ------------HDAQCPHCHG 94 (113)
T ss_pred EEcccCCCEEecCC------------cCccCcCCCC
Confidence 67888886654421 2356888874
No 171
>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=39.17 E-value=21 Score=19.65 Aligned_cols=10 Identities=30% Similarity=0.730 Sum_probs=3.2
Q ss_pred cCCCCcccCC
Q psy16923 24 GCPHCPMKLN 33 (159)
Q Consensus 24 ~C~~C~~~f~ 33 (159)
.|..|++.|.
T Consensus 11 ~C~~C~~~F~ 20 (69)
T PF01363_consen 11 NCMICGKKFS 20 (69)
T ss_dssp B-TTT--B-B
T ss_pred cCcCcCCcCC
Confidence 4555666553
No 172
>KOG0402|consensus
Probab=37.83 E-value=28 Score=20.37 Aligned_cols=9 Identities=33% Similarity=0.977 Sum_probs=4.2
Q ss_pred cccCCCCcc
Q psy16923 22 PYGCPHCPM 30 (159)
Q Consensus 22 ~~~C~~C~~ 30 (159)
.|.|+.||+
T Consensus 36 ky~CsfCGK 44 (92)
T KOG0402|consen 36 KYTCSFCGK 44 (92)
T ss_pred hhhhhhcch
Confidence 344554443
No 173
>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=37.53 E-value=57 Score=19.94 Aligned_cols=38 Identities=13% Similarity=0.268 Sum_probs=25.2
Q ss_pred CcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccc
Q psy16923 21 TPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKS 59 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 59 (159)
..|.|+.=|..|.+...+...+.... .+.|.|...|+.
T Consensus 2 eVf~i~~T~EiF~dYe~Y~~R~~~y~-~~vwtC~~TGk~ 39 (102)
T PF10537_consen 2 EVFYIPFTGEIFRDYEEYLKRMILYN-QRVWTCEITGKS 39 (102)
T ss_pred ceEEeCCCCcccCCHHHHHHHHHHHh-CCeeEEecCCCC
Confidence 45667777777777777776655543 356777777664
No 174
>COG1773 Rubredoxin [Energy production and conversion]
Probab=37.50 E-value=16 Score=19.59 Aligned_cols=14 Identities=14% Similarity=0.608 Sum_probs=10.4
Q ss_pred CcccccCcccccCc
Q psy16923 78 PYTCPWCSRTFANG 91 (159)
Q Consensus 78 ~~~C~~C~~~f~~~ 91 (159)
.|+|..||+.|.-.
T Consensus 3 ~~~C~~CG~vYd~e 16 (55)
T COG1773 3 RWRCSVCGYVYDPE 16 (55)
T ss_pred ceEecCCceEeccc
Confidence 47888888877654
No 175
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=37.38 E-value=9.4 Score=18.81 Aligned_cols=13 Identities=23% Similarity=0.968 Sum_probs=6.2
Q ss_pred CCCCcccccCccc
Q psy16923 75 GKRPYTCPWCSRT 87 (159)
Q Consensus 75 ~~~~~~C~~C~~~ 87 (159)
+.+.|.|..|+..
T Consensus 21 ~~~~w~C~~C~~~ 33 (40)
T PF04810_consen 21 GGKTWICNFCGTK 33 (40)
T ss_dssp TTTEEEETTT--E
T ss_pred CCCEEECcCCCCc
Confidence 4445666666653
No 176
>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=37.11 E-value=10 Score=24.72 Aligned_cols=33 Identities=27% Similarity=0.900 Sum_probs=20.1
Q ss_pred CceeccccccccCCHHhHHhHHhhcCCCCCcccccCccccc
Q psy16923 49 KAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFA 89 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 89 (159)
-.|.|..|+..+.. |.+. ....|.|..|+..+.
T Consensus 122 ~~~~C~~C~~~~~r------~~~~--~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKR------HRRS--KRKRYRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeee------eccc--chhhEECCCCCCEEE
Confidence 35788888876533 3333 222378888886553
No 177
>PRK04023 DNA polymerase II large subunit; Validated
Probab=36.92 E-value=29 Score=30.13 Aligned_cols=12 Identities=25% Similarity=0.584 Sum_probs=9.0
Q ss_pred CCcccCCCCccc
Q psy16923 20 ETPYGCPHCPMK 31 (159)
Q Consensus 20 ~~~~~C~~C~~~ 31 (159)
.....|+.||..
T Consensus 624 Vg~RfCpsCG~~ 635 (1121)
T PRK04023 624 IGRRKCPSCGKE 635 (1121)
T ss_pred ccCccCCCCCCc
Confidence 455679999977
No 178
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=36.49 E-value=17 Score=19.01 Aligned_cols=8 Identities=25% Similarity=0.846 Sum_probs=4.1
Q ss_pred cccccCcc
Q psy16923 79 YTCPWCSR 86 (159)
Q Consensus 79 ~~C~~C~~ 86 (159)
+.|..|+.
T Consensus 38 ~~C~~Cgy 45 (50)
T PRK00432 38 WHCGKCGY 45 (50)
T ss_pred EECCCcCC
Confidence 45555554
No 179
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=36.09 E-value=29 Score=18.63 Aligned_cols=13 Identities=23% Similarity=0.616 Sum_probs=7.9
Q ss_pred CCCcccccCcccc
Q psy16923 76 KRPYTCPWCSRTF 88 (159)
Q Consensus 76 ~~~~~C~~C~~~f 88 (159)
...|.|+.||..+
T Consensus 12 ~v~~~Cp~cGipt 24 (55)
T PF13824_consen 12 HVNFECPDCGIPT 24 (55)
T ss_pred ccCCcCCCCCCcC
Confidence 3447777777643
No 180
>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=35.80 E-value=10 Score=18.95 Aligned_cols=13 Identities=31% Similarity=0.922 Sum_probs=6.4
Q ss_pred CcccCCCCcccCC
Q psy16923 21 TPYGCPHCPMKLN 33 (159)
Q Consensus 21 ~~~~C~~C~~~f~ 33 (159)
.++.|..|+..|-
T Consensus 12 ~~~~C~~C~~~FC 24 (43)
T PF01428_consen 12 LPFKCKHCGKSFC 24 (43)
T ss_dssp SHEE-TTTS-EE-
T ss_pred CCeECCCCCcccC
Confidence 4566776766664
No 181
>PTZ00448 hypothetical protein; Provisional
Probab=35.60 E-value=32 Score=26.19 Aligned_cols=23 Identities=17% Similarity=0.421 Sum_probs=18.2
Q ss_pred cccCCCCcccCCCHHHHHHHHHh
Q psy16923 22 PYGCPHCPMKLNTRRTLRMHLVV 44 (159)
Q Consensus 22 ~~~C~~C~~~f~~~~~l~~H~~~ 44 (159)
.|.|..|+..|.+......|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 57788888888877777778775
No 182
>KOG0717|consensus
Probab=34.56 E-value=21 Score=28.03 Aligned_cols=21 Identities=19% Similarity=0.618 Sum_probs=18.9
Q ss_pred cccccCcccccCchhHHHhHH
Q psy16923 79 YTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~ 99 (159)
+.|..|.+.|.+..+|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 789999999999999999865
No 183
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=34.31 E-value=23 Score=22.70 Aligned_cols=12 Identities=42% Similarity=1.082 Sum_probs=6.7
Q ss_pred eeccccccccCC
Q psy16923 51 YQCVTCGKSFRR 62 (159)
Q Consensus 51 ~~C~~C~~~f~~ 62 (159)
++|-.||+.|..
T Consensus 2 H~Ct~Cg~~f~d 13 (131)
T PF09845_consen 2 HQCTKCGRVFED 13 (131)
T ss_pred cccCcCCCCcCC
Confidence 455556665554
No 184
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=34.17 E-value=29 Score=17.75 Aligned_cols=11 Identities=18% Similarity=0.528 Sum_probs=6.1
Q ss_pred CcccccCcccc
Q psy16923 78 PYTCPWCSRTF 88 (159)
Q Consensus 78 ~~~C~~C~~~f 88 (159)
.+.|+.||+.+
T Consensus 20 ~~vC~~Cg~~~ 30 (52)
T smart00661 20 RFVCRKCGYEE 30 (52)
T ss_pred EEECCcCCCeE
Confidence 35666666543
No 185
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=33.99 E-value=19 Score=21.47 Aligned_cols=15 Identities=33% Similarity=0.729 Sum_probs=12.3
Q ss_pred CCCcccccCcccccC
Q psy16923 76 KRPYTCPWCSRTFAN 90 (159)
Q Consensus 76 ~~~~~C~~C~~~f~~ 90 (159)
.+|-.|..||+.|.+
T Consensus 56 v~Pa~CkkCGfef~~ 70 (97)
T COG3357 56 VRPARCKKCGFEFRD 70 (97)
T ss_pred ecChhhcccCccccc
Confidence 457789999999876
No 186
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=33.91 E-value=24 Score=22.68 Aligned_cols=57 Identities=32% Similarity=0.606 Sum_probs=30.9
Q ss_pred CCCcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCH--HhHHhHHhhcCCCCCcccccCcccccCch
Q psy16923 19 GETPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRS--KDLKNHHNLHTGKRPYTCPWCSRTFANGS 92 (159)
Q Consensus 19 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~--~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 92 (159)
..+.|+|.+|..+.....-| +|-.| ||...... ..|-.|-..| -+|+.|.-+|++..
T Consensus 77 d~~lYeCnIC~etS~ee~FL----------KPneC--CgY~iCn~Cya~LWK~~~~y-----pvCPvCkTSFKss~ 135 (140)
T PF05290_consen 77 DPKLYECNICKETSAEERFL----------KPNEC--CGYSICNACYANLWKFCNLY-----PVCPVCKTSFKSSS 135 (140)
T ss_pred CCCceeccCcccccchhhcC----------Ccccc--cchHHHHHHHHHHHHHcccC-----CCCCcccccccccc
Confidence 46889999998775433211 22222 22221111 3344444333 47888888887654
No 187
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=33.90 E-value=34 Score=18.00 Aligned_cols=11 Identities=27% Similarity=1.229 Sum_probs=5.2
Q ss_pred eeccccccccC
Q psy16923 51 YQCVTCGKSFR 61 (159)
Q Consensus 51 ~~C~~C~~~f~ 61 (159)
|.|..|+..|.
T Consensus 29 W~C~~Cgh~w~ 39 (55)
T PF14311_consen 29 WKCPKCGHEWK 39 (55)
T ss_pred EECCCCCCeeE
Confidence 45555544433
No 188
>PRK12496 hypothetical protein; Provisional
Probab=33.70 E-value=33 Score=22.92 Aligned_cols=27 Identities=19% Similarity=0.471 Sum_probs=17.0
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCccccc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFA 89 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 89 (159)
+.|..|++.|.... ..-.|+.||....
T Consensus 128 ~~C~gC~~~~~~~~------------~~~~C~~CG~~~~ 154 (164)
T PRK12496 128 KVCKGCKKKYPEDY------------PDDVCEICGSPVK 154 (164)
T ss_pred EECCCCCccccCCC------------CCCcCCCCCChhh
Confidence 67888988775410 1136888886543
No 189
>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=33.38 E-value=17 Score=19.11 Aligned_cols=12 Identities=25% Similarity=0.819 Sum_probs=6.1
Q ss_pred eccccccccCCH
Q psy16923 52 QCVTCGKSFRRS 63 (159)
Q Consensus 52 ~C~~C~~~f~~~ 63 (159)
.|++|++.|...
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 889998887654
No 190
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=33.07 E-value=38 Score=22.66 Aligned_cols=43 Identities=23% Similarity=0.589 Sum_probs=23.5
Q ss_pred eeccccccccCCH--HhHH-----hHHhhcCCCCCcccccCcccccCchhHH
Q psy16923 51 YQCVTCGKSFRRS--KDLK-----NHHNLHTGKRPYTCPWCSRTFANGSNCR 95 (159)
Q Consensus 51 ~~C~~C~~~f~~~--~~l~-----~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 95 (159)
-.|+.|+...... .... .+.+.+ ..-+.|+.||+.|--.+.+.
T Consensus 98 ~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~--~~f~~C~~CgkiYW~GsHw~ 147 (165)
T COG1656 98 SRCPECNGELEKVSREEVKEKVPEKVYRNY--EEFYRCPKCGKIYWKGSHWR 147 (165)
T ss_pred ccCcccCCEeccCcHHHHhhccchhhhhcc--cceeECCCCcccccCchHHH
Confidence 4688888654332 1211 122222 23467999999886665544
No 191
>KOG4124|consensus
Probab=32.48 E-value=9.4 Score=28.69 Aligned_cols=24 Identities=29% Similarity=0.784 Sum_probs=18.2
Q ss_pred CCCcccccCcccccCchhHHHhHH
Q psy16923 76 KRPYTCPWCSRTFANGSNCRSHKR 99 (159)
Q Consensus 76 ~~~~~C~~C~~~f~~~~~l~~H~~ 99 (159)
.|+|+|++|.+.++....|.-|+-
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~~~ 419 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYHRT 419 (442)
T ss_pred cCcccChhhhhhhccCCCCCceee
Confidence 467999999988887766665544
No 192
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=31.81 E-value=22 Score=22.26 Aligned_cols=12 Identities=25% Similarity=0.883 Sum_probs=7.8
Q ss_pred eeccccccccCC
Q psy16923 51 YQCVTCGKSFRR 62 (159)
Q Consensus 51 ~~C~~C~~~f~~ 62 (159)
+.|..|+..|..
T Consensus 72 ~~C~~Cg~~~~~ 83 (117)
T PRK00564 72 LECKDCSHVFKP 83 (117)
T ss_pred EEhhhCCCcccc
Confidence 567777765544
No 193
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=31.71 E-value=18 Score=17.95 Aligned_cols=12 Identities=33% Similarity=1.256 Sum_probs=8.8
Q ss_pred CCcccccCcccc
Q psy16923 77 RPYTCPWCSRTF 88 (159)
Q Consensus 77 ~~~~C~~C~~~f 88 (159)
.+..|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 356888888766
No 194
>PRK04351 hypothetical protein; Provisional
Probab=31.58 E-value=22 Score=23.40 Aligned_cols=33 Identities=24% Similarity=0.693 Sum_probs=22.2
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccccC
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFAN 90 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 90 (159)
.|.|..|+..+.+. +.+. ...|.|..|+-.+..
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~n-~~~yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRIN-TKRYRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeeee-------eecC-CCcEEeCCCCcEeee
Confidence 48999999766442 3333 345999999876543
No 195
>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=31.31 E-value=39 Score=17.62 Aligned_cols=11 Identities=18% Similarity=0.522 Sum_probs=6.1
Q ss_pred cCCCCcccCCC
Q psy16923 24 GCPHCPMKLNT 34 (159)
Q Consensus 24 ~C~~C~~~f~~ 34 (159)
.|..|++.|..
T Consensus 4 ~C~~C~~~F~~ 14 (57)
T cd00065 4 SCMGCGKPFTL 14 (57)
T ss_pred cCcccCccccC
Confidence 45566665543
No 196
>KOG2071|consensus
Probab=31.20 E-value=34 Score=27.67 Aligned_cols=30 Identities=17% Similarity=0.314 Sum_probs=23.9
Q ss_pred CCCcccccCcccccCchhHHHhHHhhCCch
Q psy16923 76 KRPYTCPWCSRTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 76 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 105 (159)
..+..|..||.+|........||..|-.+.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh 445 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWH 445 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhh
Confidence 345789999999999999888888665443
No 197
>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=30.61 E-value=23 Score=18.56 Aligned_cols=13 Identities=23% Similarity=0.779 Sum_probs=9.9
Q ss_pred cccccCcccccCc
Q psy16923 79 YTCPWCSRTFANG 91 (159)
Q Consensus 79 ~~C~~C~~~f~~~ 91 (159)
|+|..||+.+.-.
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 6888898887644
No 198
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=30.54 E-value=45 Score=24.79 Aligned_cols=35 Identities=14% Similarity=0.277 Sum_probs=17.0
Q ss_pred ccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccc
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKS 59 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 59 (159)
-.|+.||..= ..+ +........|.+-..|..|+..
T Consensus 185 ~~CPvCGs~P-~~s-~~~~~~~~~G~RyL~CslC~te 219 (305)
T TIGR01562 185 TLCPACGSPP-VAS-MVRQGGKETGLRYLSCSLCATE 219 (305)
T ss_pred CcCCCCCChh-hhh-hhcccCCCCCceEEEcCCCCCc
Confidence 4799998542 111 1100011345566677777643
No 199
>PLN02748 tRNA dimethylallyltransferase
Probab=30.23 E-value=43 Score=26.53 Aligned_cols=23 Identities=26% Similarity=0.395 Sum_probs=13.1
Q ss_pred CcccCCCCcc-cCCCHHHHHHHHH
Q psy16923 21 TPYGCPHCPM-KLNTRRTLRMHLV 43 (159)
Q Consensus 21 ~~~~C~~C~~-~f~~~~~l~~H~~ 43 (159)
+.|.|..|+. ++....++..|++
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlk 440 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQ 440 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhc
Confidence 3455666665 5555666666654
No 200
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=29.75 E-value=15 Score=25.93 Aligned_cols=17 Identities=18% Similarity=0.350 Sum_probs=12.1
Q ss_pred hCCCcccCCCCcccCCC
Q psy16923 18 HGETPYGCPHCPMKLNT 34 (159)
Q Consensus 18 h~~~~~~C~~C~~~f~~ 34 (159)
+..++..|++||..|+-
T Consensus 177 rEGkpqRCpECGqVFKL 193 (268)
T PTZ00043 177 REGFLYRCGECDQIFML 193 (268)
T ss_pred cCCCCccCCCCCcEEEE
Confidence 34567888888887753
No 201
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=29.66 E-value=30 Score=22.40 Aligned_cols=32 Identities=22% Similarity=0.692 Sum_probs=17.1
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccc
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTF 88 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 88 (159)
.|.|..|+..+. .+.+ +.....|.|..|+..+
T Consensus 112 ~y~C~~C~~~~~------~~rr-~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RVRR-SNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eEcc-ccCcceEEcCCCCCEE
Confidence 467777776543 2222 2222447777777554
No 202
>PHA02998 RNA polymerase subunit; Provisional
Probab=29.64 E-value=9 Score=25.88 Aligned_cols=39 Identities=13% Similarity=0.240 Sum_probs=19.9
Q ss_pred eeccccccccCCHHhHHhHHhhcC--CCCCcccccCcccccCc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHT--GKRPYTCPWCSRTFANG 91 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~ 91 (159)
-.|+.|+..-. ..++...|+-. ...-|.|..||..|.-.
T Consensus 144 v~CPkCg~~~A--~f~qlQTRSADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 144 TPCPNCKSKNT--TPMMIQTRAADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred CCCCCCCCCce--EEEEEeeccCCCCceEEEEcCCCCCccCCc
Confidence 46888875322 22222223211 12237888888877544
No 203
>KOG1994|consensus
Probab=29.56 E-value=33 Score=24.25 Aligned_cols=24 Identities=29% Similarity=0.746 Sum_probs=20.6
Q ss_pred CCceeccccccccCCHHhHHhHHh
Q psy16923 48 TKAYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 48 ~~~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
...|-|.+||..|.+..+|..|..
T Consensus 237 ~eh~YC~fCG~~y~~~edl~ehCP 260 (268)
T KOG1994|consen 237 SEHYYCFFCGIKYKDEEDLYEHCP 260 (268)
T ss_pred ccceEEEEeccccCCHHHHHHhCC
Confidence 356899999999999999998854
No 204
>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=29.50 E-value=23 Score=21.95 Aligned_cols=25 Identities=28% Similarity=0.888 Sum_probs=14.4
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCcccccCccc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRT 87 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 87 (159)
..|..|+..|.-... .+.|+.|+..
T Consensus 71 ~~C~~Cg~~~~~~~~------------~~~CP~Cgs~ 95 (113)
T PF01155_consen 71 ARCRDCGHEFEPDEF------------DFSCPRCGSP 95 (113)
T ss_dssp EEETTTS-EEECHHC------------CHH-SSSSSS
T ss_pred EECCCCCCEEecCCC------------CCCCcCCcCC
Confidence 578888877765322 1458888753
No 205
>KOG1280|consensus
Probab=29.44 E-value=39 Score=25.53 Aligned_cols=30 Identities=27% Similarity=0.556 Sum_probs=24.9
Q ss_pred CCcccccCcccccCchhHHHhHHhhCCchh
Q psy16923 77 RPYTCPWCSRTFANGSNCRSHKRRMHPEEL 106 (159)
Q Consensus 77 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~ 106 (159)
.-|.|++|+..=.+...+..|....|.+-.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~ 107 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEAS 107 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccC
Confidence 358999999987788899999998887654
No 206
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=29.41 E-value=30 Score=21.27 Aligned_cols=22 Identities=27% Similarity=0.631 Sum_probs=13.5
Q ss_pred ceeccccccccCCHHhHHhHHh
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHN 71 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~ 71 (159)
.+-|..|.+-|.+...|..|.+
T Consensus 55 qhYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 55 QHYCIECARYFITEKALMEHKK 76 (126)
T ss_pred eeeeehhHHHHHHHHHHHHHhc
Confidence 3556666666666666666654
No 207
>KOG1842|consensus
Probab=29.40 E-value=33 Score=26.85 Aligned_cols=27 Identities=33% Similarity=0.587 Sum_probs=23.0
Q ss_pred CcccCCCCcccCCCHHHHHHHHHh-cCC
Q psy16923 21 TPYGCPHCPMKLNTRRTLRMHLVV-HRD 47 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l~~H~~~-h~~ 47 (159)
+-|.|++|..-|...+.|..|... |.+
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhccc
Confidence 458999999999999999999875 543
No 208
>PRK12860 transcriptional activator FlhC; Provisional
Probab=29.16 E-value=42 Score=23.06 Aligned_cols=48 Identities=21% Similarity=0.426 Sum_probs=29.1
Q ss_pred cccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCc
Q psy16923 29 PMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCS 85 (159)
Q Consensus 29 ~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 85 (159)
--.|.+...|.+.+... --....|..|+..|... .|.....|.|+.|.
T Consensus 114 ~Ls~tRAw~LvRf~~s~-~L~l~~C~~Cgg~fv~~--------~~e~~~~f~CplC~ 161 (189)
T PRK12860 114 VLDLTRAWTLVRFFDAG-MLQLARCCRCGGKFVTH--------AHDLRHNFVCGLCQ 161 (189)
T ss_pred eecHHHHHHHHHHhcCC-CeeeccCCCCCCCeecc--------ccccCCCCcCCCCC
Confidence 34555666666665543 22345788898877642 12334468899886
No 209
>KOG2636|consensus
Probab=28.73 E-value=39 Score=26.44 Aligned_cols=29 Identities=28% Similarity=0.615 Sum_probs=19.0
Q ss_pred HhcCCCCceeccccc-cccCCHHhHHhHHh
Q psy16923 43 VVHRDTKAYQCVTCG-KSFRRSKDLKNHHN 71 (159)
Q Consensus 43 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 71 (159)
+.|.-...|.|..|| .++.....+.+|..
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhH
Confidence 445555667777777 66666677777765
No 210
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=27.99 E-value=21 Score=22.24 Aligned_cols=12 Identities=25% Similarity=0.465 Sum_probs=7.9
Q ss_pred eeccccccccCC
Q psy16923 51 YQCVTCGKSFRR 62 (159)
Q Consensus 51 ~~C~~C~~~f~~ 62 (159)
..|..|+..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (114)
T PRK03681 71 CWCETCQQYVTL 82 (114)
T ss_pred EEcccCCCeeec
Confidence 678888865443
No 211
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.93 E-value=44 Score=24.48 Aligned_cols=25 Identities=20% Similarity=0.575 Sum_probs=15.9
Q ss_pred ceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccc
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTF 88 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 88 (159)
.|.|+.|...|.. .|-.|+.|+-.|
T Consensus 255 GyvCs~Clsi~C~--------------~p~~C~~Cgt~f 279 (279)
T TIGR00627 255 GFVCSVCLSVLCQ--------------YTPICKTCKTAF 279 (279)
T ss_pred eEECCCccCCcCC--------------CCCCCCCCCCCC
Confidence 3777777766654 124777777654
No 212
>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=27.15 E-value=26 Score=18.06 Aligned_cols=14 Identities=29% Similarity=0.895 Sum_probs=10.1
Q ss_pred cccccCcccccCch
Q psy16923 79 YTCPWCSRTFANGS 92 (159)
Q Consensus 79 ~~C~~C~~~f~~~~ 92 (159)
|.|..|++.+....
T Consensus 2 y~C~~CgyvYd~~~ 15 (47)
T PF00301_consen 2 YQCPVCGYVYDPEK 15 (47)
T ss_dssp EEETTTSBEEETTT
T ss_pred cCCCCCCEEEcCCc
Confidence 67888888776543
No 213
>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=27.08 E-value=26 Score=21.45 Aligned_cols=11 Identities=36% Similarity=0.763 Sum_probs=7.0
Q ss_pred CcccCCCCccc
Q psy16923 21 TPYGCPHCPMK 31 (159)
Q Consensus 21 ~~~~C~~C~~~ 31 (159)
+|-.|+.|+..
T Consensus 1 ~p~~CpYCg~~ 11 (102)
T PF11672_consen 1 KPIICPYCGGP 11 (102)
T ss_pred CCcccCCCCCe
Confidence 45667777754
No 214
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=26.86 E-value=41 Score=25.05 Aligned_cols=36 Identities=14% Similarity=0.304 Sum_probs=19.6
Q ss_pred CcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccc
Q psy16923 21 TPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKS 59 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 59 (159)
..-.|+.||..=. .+ +. +.....|.+-..|..|+..
T Consensus 186 ~~~~CPvCGs~P~-~s-~v-~~~~~~G~RyL~CslC~te 221 (309)
T PRK03564 186 QRQFCPVCGSMPV-SS-VV-QIGTTQGLRYLHCNLCESE 221 (309)
T ss_pred CCCCCCCCCCcch-hh-ee-eccCCCCceEEEcCCCCCc
Confidence 4567999985421 11 11 1223455666777777653
No 215
>KOG4118|consensus
Probab=26.84 E-value=36 Score=18.92 Aligned_cols=27 Identities=22% Similarity=0.502 Sum_probs=20.8
Q ss_pred cccccCcccccCchhHHHhHHhhCCch
Q psy16923 79 YTCPWCSRTFANGSNCRSHKRRMHPEE 105 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~l~~H~~~~h~~~ 105 (159)
|+|.+|--.-.....+..|....|+.+
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~ 65 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKE 65 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCC
Confidence 678888777777777888888777654
No 216
>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 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=26.48 E-value=19 Score=17.43 Aligned_cols=18 Identities=28% Similarity=0.658 Sum_probs=8.4
Q ss_pred HhHHhhcCCCCCcccccC
Q psy16923 67 KNHHNLHTGKRPYTCPWC 84 (159)
Q Consensus 67 ~~H~~~h~~~~~~~C~~C 84 (159)
..|-+...|..-|.|..|
T Consensus 18 ~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 18 KKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCCEeEecCcC
Confidence 334444444444555554
No 218
>KOG3214|consensus
Probab=26.41 E-value=20 Score=21.79 Aligned_cols=13 Identities=23% Similarity=0.715 Sum_probs=8.9
Q ss_pred cccccCcccccCc
Q psy16923 79 YTCPWCSRTFANG 91 (159)
Q Consensus 79 ~~C~~C~~~f~~~ 91 (159)
..|.+|+..|.+.
T Consensus 48 ~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 48 ASCRICEESFQTT 60 (109)
T ss_pred eeeeehhhhhccc
Confidence 5677777777654
No 219
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.00 E-value=37 Score=18.59 Aligned_cols=12 Identities=42% Similarity=1.021 Sum_probs=6.4
Q ss_pred CCCcccccCccc
Q psy16923 76 KRPYTCPWCSRT 87 (159)
Q Consensus 76 ~~~~~C~~C~~~ 87 (159)
.+.|.|+.|..+
T Consensus 29 IrtymC~eC~~R 40 (68)
T COG4896 29 IRTYMCPECEHR 40 (68)
T ss_pred ceeEechhhHhh
Confidence 334666666543
No 220
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=24.68 E-value=9.8 Score=24.58 Aligned_cols=12 Identities=33% Similarity=0.935 Sum_probs=6.6
Q ss_pred CcccCCCCcccC
Q psy16923 21 TPYGCPHCPMKL 32 (159)
Q Consensus 21 ~~~~C~~C~~~f 32 (159)
++..|+.||..|
T Consensus 111 ~~~RCpeCG~~f 122 (136)
T PF01215_consen 111 KPQRCPECGQVF 122 (136)
T ss_dssp SEEEETTTEEEE
T ss_pred CccCCCCCCeEE
Confidence 455555555554
No 221
>PRK12722 transcriptional activator FlhC; Provisional
Probab=24.63 E-value=49 Score=22.69 Aligned_cols=47 Identities=21% Similarity=0.384 Sum_probs=23.0
Q ss_pred cCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcc
Q psy16923 31 KLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSR 86 (159)
Q Consensus 31 ~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 86 (159)
.|.+...|.+.+.... -....|..|+..|.... +.....|.|+.|..
T Consensus 116 s~tRAw~LvRf~~s~~-L~l~~C~~Cgg~fv~~~--------~e~~~~f~CplC~~ 162 (187)
T PRK12722 116 SLTRAWTLVRFVDSGM-LQLSSCNCCGGHFVTHA--------HDPVGSFVCGLCQP 162 (187)
T ss_pred cHHHHHHHHHHHhcCc-EeeccCCCCCCCeeccc--------cccCCCCcCCCCCC
Confidence 3444444444443321 12245777777665422 12234577777764
No 222
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=24.61 E-value=71 Score=22.07 Aligned_cols=10 Identities=20% Similarity=0.567 Sum_probs=4.9
Q ss_pred cccccCcccc
Q psy16923 79 YTCPWCSRTF 88 (159)
Q Consensus 79 ~~C~~C~~~f 88 (159)
+.|..||..+
T Consensus 31 vrC~eCG~V~ 40 (201)
T COG1326 31 VRCEECGTVH 40 (201)
T ss_pred EEccCCCcEe
Confidence 4555555443
No 223
>KOG1729|consensus
Probab=24.55 E-value=23 Score=26.10 Aligned_cols=57 Identities=18% Similarity=0.232 Sum_probs=28.7
Q ss_pred CcccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhH-HhhcCCCCCcccccCcccc
Q psy16923 21 TPYGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNH-HNLHTGKRPYTCPWCSRTF 88 (159)
Q Consensus 21 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H-~~~h~~~~~~~C~~C~~~f 88 (159)
..-.|..|+...-+.. .|.|+ |..||..|...-.-+.- +..........|+.|-..+
T Consensus 167 ea~~C~~C~~~~Ftl~-----~RRHH------CR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLS-----ERRHH------CRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred cceecccCCCccccHH-----HHHHH------HHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 4456888888422222 24443 77777777663222211 1122222234788885544
No 224
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=24.24 E-value=16 Score=22.74 Aligned_cols=16 Identities=13% Similarity=0.310 Sum_probs=11.6
Q ss_pred CCcccCCCCcccCCCH
Q psy16923 20 ETPYGCPHCPMKLNTR 35 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~ 35 (159)
...+.|..|+..+...
T Consensus 20 ~~~l~C~kCgye~~~~ 35 (113)
T COG1594 20 GGKLVCRKCGYEEEAS 35 (113)
T ss_pred CcEEECCCCCcchhcc
Confidence 3468899999876555
No 225
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.91 E-value=36 Score=21.55 Aligned_cols=12 Identities=25% Similarity=0.553 Sum_probs=8.1
Q ss_pred eeccccccccCCH
Q psy16923 51 YQCVTCGKSFRRS 63 (159)
Q Consensus 51 ~~C~~C~~~f~~~ 63 (159)
+.| .|+..|...
T Consensus 71 ~~C-~Cg~~~~~~ 82 (124)
T PRK00762 71 IEC-ECGYEGVVD 82 (124)
T ss_pred EEe-eCcCccccc
Confidence 678 888766543
No 226
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=23.90 E-value=50 Score=25.10 Aligned_cols=29 Identities=17% Similarity=0.370 Sum_probs=21.2
Q ss_pred hhcCCCCCcccccCc-ccccCchhHHHhHH
Q psy16923 71 NLHTGKRPYTCPWCS-RTFANGSNCRSHKR 99 (159)
Q Consensus 71 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 99 (159)
+.|...+.|.|.+|| +.+.-+..+.+|..
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF~ 396 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHFE 396 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhhh
Confidence 345556679999999 77777777777753
No 227
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=23.56 E-value=29 Score=18.69 Aligned_cols=10 Identities=30% Similarity=0.880 Sum_probs=5.4
Q ss_pred CCcccccCcc
Q psy16923 77 RPYTCPWCSR 86 (159)
Q Consensus 77 ~~~~C~~C~~ 86 (159)
..|.|+.|..
T Consensus 30 ~tYmC~eC~~ 39 (56)
T PF09963_consen 30 HTYMCDECKE 39 (56)
T ss_pred cceeChhHHH
Confidence 3466666643
No 228
>PRK05978 hypothetical protein; Provisional
Probab=23.49 E-value=31 Score=22.65 Aligned_cols=11 Identities=27% Similarity=0.878 Sum_probs=6.2
Q ss_pred ccccCcccccC
Q psy16923 80 TCPWCSRTFAN 90 (159)
Q Consensus 80 ~C~~C~~~f~~ 90 (159)
.|+.||..|..
T Consensus 54 ~C~~CG~~~~~ 64 (148)
T PRK05978 54 HCAACGEDFTH 64 (148)
T ss_pred CccccCCcccc
Confidence 56666655543
No 229
>PRK10220 hypothetical protein; Provisional
Probab=23.10 E-value=52 Score=20.39 Aligned_cols=12 Identities=33% Similarity=1.127 Sum_probs=6.5
Q ss_pred cccccCcccccC
Q psy16923 79 YTCPWCSRTFAN 90 (159)
Q Consensus 79 ~~C~~C~~~f~~ 90 (159)
|.|+.|+..+..
T Consensus 21 ~vCpeC~hEW~~ 32 (111)
T PRK10220 21 YICPECAHEWND 32 (111)
T ss_pred EECCcccCcCCc
Confidence 556666555443
No 230
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.09 E-value=33 Score=18.83 Aligned_cols=45 Identities=13% Similarity=0.349 Sum_probs=23.6
Q ss_pred HHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCccccc
Q psy16923 41 HLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTFA 89 (159)
Q Consensus 41 H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 89 (159)
|..++.+..++.|+.-+-.+.....+. .. ..+.-..|++|+..|.
T Consensus 15 ~~~I~~~~~~l~C~g~~~p~~HPrV~L---~m-g~~gev~CPYC~t~y~ 59 (62)
T COG4391 15 HETIEIGDLPLMCPGPEPPNDHPRVFL---DM-GDEGEVVCPYCSTRYR 59 (62)
T ss_pred ceEEEeCCeeEEcCCCCCCCCCCEEEE---Ec-CCCCcEecCccccEEE
Confidence 444556667777776544332221110 01 1233368999988775
No 231
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.69 E-value=52 Score=24.12 Aligned_cols=14 Identities=29% Similarity=0.802 Sum_probs=8.7
Q ss_pred CCcccccCcccccC
Q psy16923 77 RPYTCPWCSRTFAN 90 (159)
Q Consensus 77 ~~~~C~~C~~~f~~ 90 (159)
+.|.|+.||.....
T Consensus 321 r~~~C~~cg~~~~r 334 (364)
T COG0675 321 RLFKCPRCGFVHDR 334 (364)
T ss_pred eeEECCCCCCeehh
Confidence 44677777765443
No 232
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=22.57 E-value=37 Score=16.23 Aligned_cols=13 Identities=23% Similarity=0.695 Sum_probs=6.0
Q ss_pred cccccCcccccCc
Q psy16923 79 YTCPWCSRTFANG 91 (159)
Q Consensus 79 ~~C~~C~~~f~~~ 91 (159)
-.|..|++.|..+
T Consensus 4 ~~C~eC~~~f~dS 16 (34)
T PF01286_consen 4 PKCDECGKPFMDS 16 (34)
T ss_dssp EE-TTT--EES-S
T ss_pred chHhHhCCHHHHH
Confidence 3677788777654
No 233
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=22.56 E-value=17 Score=17.35 Aligned_cols=8 Identities=38% Similarity=0.982 Sum_probs=3.4
Q ss_pred eecccccc
Q psy16923 51 YQCVTCGK 58 (159)
Q Consensus 51 ~~C~~C~~ 58 (159)
+.|..|+.
T Consensus 23 ~vC~~Cg~ 30 (34)
T PF14803_consen 23 LVCPACGF 30 (34)
T ss_dssp EEETTTTE
T ss_pred eECCCCCC
Confidence 34444443
No 234
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=22.51 E-value=1e+02 Score=16.43 Aligned_cols=18 Identities=28% Similarity=0.730 Sum_probs=10.1
Q ss_pred eeccccccccCCHHhHHh
Q psy16923 51 YQCVTCGKSFRRSKDLKN 68 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~ 68 (159)
+-|..||..|.+...|..
T Consensus 28 ~YC~~Cg~~Y~d~~dL~~ 45 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDLER 45 (55)
T ss_pred ceeeeeCCccCCHHHHHh
Confidence 356666666666555543
No 235
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.42 E-value=48 Score=21.18 Aligned_cols=13 Identities=23% Similarity=0.708 Sum_probs=7.7
Q ss_pred CcccCCCCcccCC
Q psy16923 21 TPYGCPHCPMKLN 33 (159)
Q Consensus 21 ~~~~C~~C~~~f~ 33 (159)
-.|.|+.|++.|.
T Consensus 52 qRyrC~~C~~tf~ 64 (129)
T COG3677 52 QRYKCKSCGSTFT 64 (129)
T ss_pred cccccCCcCccee
Confidence 3466666666654
No 236
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=22.38 E-value=43 Score=20.70 Aligned_cols=12 Identities=25% Similarity=0.747 Sum_probs=7.2
Q ss_pred cccccCcccccC
Q psy16923 79 YTCPWCSRTFAN 90 (159)
Q Consensus 79 ~~C~~C~~~f~~ 90 (159)
|.|+.|+..+..
T Consensus 20 ~iCpeC~~EW~~ 31 (109)
T TIGR00686 20 LICPSCLYEWNE 31 (109)
T ss_pred eECccccccccc
Confidence 666666665543
No 237
>COG2879 Uncharacterized small protein [Function unknown]
Probab=22.33 E-value=1.2e+02 Score=16.73 Aligned_cols=19 Identities=11% Similarity=0.079 Sum_probs=12.7
Q ss_pred CCCHHHHHHHHHhcCCCCc
Q psy16923 32 LNTRRTLRMHLVVHRDTKA 50 (159)
Q Consensus 32 f~~~~~l~~H~~~h~~~~~ 50 (159)
.++.++...||+.++..+|
T Consensus 22 vpdYdnYVehmr~~hPd~p 40 (65)
T COG2879 22 VPDYDNYVEHMRKKHPDKP 40 (65)
T ss_pred CCcHHHHHHHHHHhCcCCC
Confidence 4566777788887665554
No 238
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.22 E-value=37 Score=17.61 Aligned_cols=17 Identities=24% Similarity=0.493 Sum_probs=12.1
Q ss_pred ccCCCCcccCCCHHHHH
Q psy16923 23 YGCPHCPMKLNTRRTLR 39 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~ 39 (159)
-.|+.|++.|.......
T Consensus 13 KICpvCqRPFsWRkKW~ 29 (54)
T COG4338 13 KICPVCQRPFSWRKKWA 29 (54)
T ss_pred hhhhhhcCchHHHHHHH
Confidence 35899999987665443
No 239
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=22.05 E-value=84 Score=28.30 Aligned_cols=52 Identities=23% Similarity=0.556 Sum_probs=25.0
Q ss_pred ccCCCCcccCCCHHHHHHHHHhcCCCCceeccccccccCCHHhHHhHHhhcCCCCCcccccCcccc
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLVVHRDTKAYQCVTCGKSFRRSKDLKNHHNLHTGKRPYTCPWCSRTF 88 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 88 (159)
+.|+.||...... ...-=..+. ...+.|+.||...... -++ ...|+.|+...
T Consensus 668 rkCPkCG~~t~~~--fCP~CGs~t-e~vy~CPsCGaev~~d---------es~--a~~CP~CGtpl 719 (1337)
T PRK14714 668 RRCPSCGTETYEN--RCPDCGTHT-EPVYVCPDCGAEVPPD---------ESG--RVECPRCDVEL 719 (1337)
T ss_pred EECCCCCCccccc--cCcccCCcC-CCceeCccCCCccCCC---------ccc--cccCCCCCCcc
Confidence 7788888642211 000000111 2356777777653321 011 34688888543
No 240
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=21.96 E-value=1.1e+02 Score=22.63 Aligned_cols=24 Identities=25% Similarity=0.498 Sum_probs=19.3
Q ss_pred CCcccCCCCcccCCCHHHHHHHHH
Q psy16923 20 ETPYGCPHCPMKLNTRRTLRMHLV 43 (159)
Q Consensus 20 ~~~~~C~~C~~~f~~~~~l~~H~~ 43 (159)
...|.|+.|-+-|.....|.+|+.
T Consensus 46 ~~lyiCe~Clky~~~~~~l~~H~~ 69 (290)
T PLN03238 46 TKLYICEYCLKYMRKKKSLLRHLA 69 (290)
T ss_pred CeEEEcCCCcchhCCHHHHHHHHH
Confidence 456888888888888888888876
No 241
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=21.56 E-value=63 Score=25.65 Aligned_cols=15 Identities=20% Similarity=0.490 Sum_probs=10.7
Q ss_pred CceeccccccccCCH
Q psy16923 49 KAYQCVTCGKSFRRS 63 (159)
Q Consensus 49 ~~~~C~~C~~~f~~~ 63 (159)
..|.|..|+..+.-.
T Consensus 424 ~~~~c~~c~~~yd~~ 438 (479)
T PRK05452 424 PRMQCSVCQWIYDPA 438 (479)
T ss_pred CeEEECCCCeEECCC
Confidence 457888888777653
No 242
>PF14369 zf-RING_3: zinc-finger
Probab=21.31 E-value=45 Score=15.90 Aligned_cols=10 Identities=30% Similarity=0.859 Sum_probs=8.1
Q ss_pred cCCCCcccCC
Q psy16923 24 GCPHCPMKLN 33 (159)
Q Consensus 24 ~C~~C~~~f~ 33 (159)
.|+.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 5999998874
No 243
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=21.04 E-value=74 Score=16.25 Aligned_cols=12 Identities=42% Similarity=0.778 Sum_probs=5.9
Q ss_pred Cceecccccccc
Q psy16923 49 KAYQCVTCGKSF 60 (159)
Q Consensus 49 ~~~~C~~C~~~f 60 (159)
.+-.|..|++..
T Consensus 10 ~~~~C~~C~~~i 21 (53)
T PF00130_consen 10 KPTYCDVCGKFI 21 (53)
T ss_dssp STEB-TTSSSBE
T ss_pred CCCCCcccCccc
Confidence 344566666543
No 244
>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=20.98 E-value=41 Score=16.31 Aligned_cols=11 Identities=36% Similarity=0.770 Sum_probs=4.8
Q ss_pred CcccCCCCccc
Q psy16923 21 TPYGCPHCPMK 31 (159)
Q Consensus 21 ~~~~C~~C~~~ 31 (159)
+.|+|..|+..
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 35677777643
No 245
>KOG4727|consensus
Probab=20.81 E-value=54 Score=22.11 Aligned_cols=21 Identities=19% Similarity=0.393 Sum_probs=19.0
Q ss_pred ccCCCCcccCCCHHHHHHHHH
Q psy16923 23 YGCPHCPMKLNTRRTLRMHLV 43 (159)
Q Consensus 23 ~~C~~C~~~f~~~~~l~~H~~ 43 (159)
|-|.+|+-+|+..-++..|+.
T Consensus 76 yyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred eeeeecceeehhhHHHHHHhc
Confidence 889999999999999999975
No 246
>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=20.76 E-value=92 Score=15.12 Aligned_cols=11 Identities=36% Similarity=0.694 Sum_probs=3.6
Q ss_pred cccCCCCcccC
Q psy16923 22 PYGCPHCPMKL 32 (159)
Q Consensus 22 ~~~C~~C~~~f 32 (159)
.|-|+.|+..+
T Consensus 3 ryyCdyC~~~~ 13 (38)
T PF06220_consen 3 RYYCDYCKKYL 13 (38)
T ss_dssp S-B-TTT--B-
T ss_pred Ceeccccccee
Confidence 45566666666
No 247
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=20.74 E-value=33 Score=24.13 Aligned_cols=28 Identities=11% Similarity=0.294 Sum_probs=0.0
Q ss_pred eeccccccccCCHHhHHhHHhhcCCCCCc
Q psy16923 51 YQCVTCGKSFRRSKDLKNHHNLHTGKRPY 79 (159)
Q Consensus 51 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 79 (159)
..|+.||..... +.|..|||.......|
T Consensus 169 ~~cPitGe~IP~-~e~~eHmRi~LlDP~w 196 (229)
T PF12230_consen 169 IICPITGEMIPA-DEMDEHMRIELLDPRW 196 (229)
T ss_dssp -----------------------------
T ss_pred cccccccccccc-cccccccccccccccc
Confidence 456666665433 5566666665544333
No 248
>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=20.61 E-value=33 Score=23.69 Aligned_cols=28 Identities=21% Similarity=0.471 Sum_probs=0.0
Q ss_pred hcCCCCCcccccCcc-cccCchhHHHhHH
Q psy16923 72 LHTGKRPYTCPWCSR-TFANGSNCRSHKR 99 (159)
Q Consensus 72 ~h~~~~~~~C~~C~~-~f~~~~~l~~H~~ 99 (159)
.|.....|.|.+||- .|.=+.++.+|..
T Consensus 95 LhGL~~ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 95 LHGLGVEYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp -----------------------------
T ss_pred HhCCCCeeeeEeCCCcceecHHHHHHhcC
Confidence 444455689999974 4555667777753
No 249
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=20.54 E-value=1.1e+02 Score=16.01 Aligned_cols=11 Identities=36% Similarity=0.821 Sum_probs=5.8
Q ss_pred CCCcccccCcc
Q psy16923 76 KRPYTCPWCSR 86 (159)
Q Consensus 76 ~~~~~C~~C~~ 86 (159)
.....|+.||+
T Consensus 44 ~~i~~Cp~CgR 54 (56)
T PF02591_consen 44 DEIVFCPNCGR 54 (56)
T ss_pred CCeEECcCCCc
Confidence 33455666654
No 250
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=20.48 E-value=36 Score=20.72 Aligned_cols=13 Identities=23% Similarity=0.207 Sum_probs=8.9
Q ss_pred CcccccCcccccC
Q psy16923 78 PYTCPWCSRTFAN 90 (159)
Q Consensus 78 ~~~C~~C~~~f~~ 90 (159)
...|+.||..+..
T Consensus 42 h~~C~~CG~y~~~ 54 (99)
T PRK14892 42 IITCGNCGLYTEF 54 (99)
T ss_pred eEECCCCCCccCE
Confidence 3578888876654
No 251
>PTZ00448 hypothetical protein; Provisional
Probab=20.41 E-value=69 Score=24.50 Aligned_cols=23 Identities=17% Similarity=0.371 Sum_probs=19.9
Q ss_pred ceeccccccccCCHHhHHhHHhh
Q psy16923 50 AYQCVTCGKSFRRSKDLKNHHNL 72 (159)
Q Consensus 50 ~~~C~~C~~~f~~~~~l~~H~~~ 72 (159)
.+.|..|+-.|.+......|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 57899999999888888888875
No 252
>PRK11823 DNA repair protein RadA; Provisional
Probab=20.23 E-value=62 Score=25.42 Aligned_cols=12 Identities=33% Similarity=0.758 Sum_probs=8.0
Q ss_pred CcccCCCCcccC
Q psy16923 21 TPYGCPHCPMKL 32 (159)
Q Consensus 21 ~~~~C~~C~~~f 32 (159)
..|.|..||..+
T Consensus 6 ~~y~C~~Cg~~~ 17 (446)
T PRK11823 6 TAYVCQECGAES 17 (446)
T ss_pred CeEECCcCCCCC
Confidence 357788777554
No 253
>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=20.09 E-value=42 Score=22.01 Aligned_cols=15 Identities=20% Similarity=0.399 Sum_probs=12.4
Q ss_pred cccccCcccccCchh
Q psy16923 79 YTCPWCSRTFANGSN 93 (159)
Q Consensus 79 ~~C~~C~~~f~~~~~ 93 (159)
-.|..|++.|++..-
T Consensus 29 ReC~~C~~RFTTyEr 43 (147)
T TIGR00244 29 RECLECHERFTTFER 43 (147)
T ss_pred ccCCccCCccceeee
Confidence 589999999988644
Done!