Query 032068
Match_columns 148
No_of_seqs 115 out of 1519
Neff 10.2
Searched_HMMs 46136
Date Fri Mar 29 09:10:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032068.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032068hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 3.8E-23 8.3E-28 141.7 4.1 116 7-123 128-263 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.8 8.6E-20 1.9E-24 125.3 3.3 98 7-108 159-265 (279)
3 PLN03086 PRLI-interacting fact 99.4 2.9E-13 6.2E-18 103.0 7.3 123 8-131 406-563 (567)
4 KOG1074 Transcriptional repres 99.4 1.2E-13 2.7E-18 107.1 1.3 49 60-108 605-655 (958)
5 KOG3623 Homeobox transcription 99.3 5.4E-13 1.2E-17 102.4 1.9 97 10-107 211-330 (1007)
6 KOG3608 Zn finger proteins [Ge 99.3 1.4E-12 3E-17 92.9 1.3 107 2-108 200-314 (467)
7 KOG3623 Homeobox transcription 99.3 1E-12 2.2E-17 100.9 0.7 78 6-107 891-971 (1007)
8 KOG3608 Zn finger proteins [Ge 99.2 4.9E-11 1.1E-15 85.2 6.4 131 9-141 263-406 (467)
9 KOG3576 Ovo and related transc 99.2 4.4E-12 9.6E-17 84.1 1.1 77 32-108 114-195 (267)
10 KOG3576 Ovo and related transc 99.1 3.5E-11 7.7E-16 79.9 2.6 103 5-108 113-234 (267)
11 PLN03086 PRLI-interacting fact 99.1 4.8E-10 1E-14 85.8 7.1 100 6-109 450-563 (567)
12 KOG1074 Transcriptional repres 99.0 1.9E-10 4E-15 89.8 1.1 99 7-106 603-729 (958)
13 PHA02768 hypothetical protein; 98.7 1E-08 2.2E-13 54.5 1.6 41 60-102 5-47 (55)
14 PHA00733 hypothetical protein 98.6 3.9E-08 8.6E-13 62.2 2.5 74 33-108 38-121 (128)
15 PF13465 zf-H2C2_2: Zinc-finge 98.5 4E-08 8.8E-13 44.6 0.8 25 74-98 1-25 (26)
16 PHA00733 hypothetical protein 98.2 8.3E-07 1.8E-11 56.2 2.3 77 6-82 37-122 (128)
17 PHA02768 hypothetical protein; 98.2 8.6E-07 1.9E-11 47.1 2.0 37 10-48 6-44 (55)
18 PF13465 zf-H2C2_2: Zinc-finge 98.1 1.9E-06 4.1E-11 39.0 1.5 24 23-46 1-25 (26)
19 PHA00616 hypothetical protein 98.0 2.7E-06 5.9E-11 43.1 1.5 33 60-92 1-34 (44)
20 PHA00616 hypothetical protein 97.7 1.4E-05 3E-10 40.5 0.8 32 9-40 1-34 (44)
21 PHA00732 hypothetical protein 97.7 3.8E-05 8.3E-10 44.4 2.5 42 60-106 1-44 (79)
22 PHA00732 hypothetical protein 97.6 7.2E-05 1.6E-09 43.2 2.9 41 9-54 1-44 (79)
23 KOG3993 Transcription factor ( 97.5 2.7E-05 5.9E-10 57.5 0.7 29 87-115 356-385 (500)
24 PF05605 zf-Di19: Drought indu 97.4 0.0003 6.4E-09 37.6 3.7 46 61-107 3-50 (54)
25 PF05605 zf-Di19: Drought indu 97.4 0.00033 7.2E-09 37.5 3.8 45 9-54 2-49 (54)
26 PF00096 zf-C2H2: Zinc finger, 97.2 0.00016 3.6E-09 31.4 1.0 21 88-108 1-22 (23)
27 PF00096 zf-C2H2: Zinc finger, 96.9 0.00031 6.6E-09 30.5 0.5 21 61-81 1-22 (23)
28 PF13913 zf-C2HC_2: zinc-finge 96.8 0.0011 2.4E-08 29.5 2.0 22 88-109 3-24 (25)
29 PF13912 zf-C2H2_6: C2H2-type 96.7 0.00077 1.7E-08 30.4 0.8 22 61-82 2-24 (27)
30 PF13894 zf-C2H2_4: C2H2-type 96.5 0.0018 4E-08 28.0 1.6 21 88-108 1-22 (24)
31 KOG3993 Transcription factor ( 96.4 0.0005 1.1E-08 51.0 -0.9 20 109-128 362-381 (500)
32 PF13912 zf-C2H2_6: C2H2-type 96.2 0.0011 2.5E-08 29.9 -0.1 23 9-31 1-25 (27)
33 PF13894 zf-C2H2_4: C2H2-type 95.9 0.0037 8.1E-08 26.9 0.8 21 61-81 1-22 (24)
34 PRK04860 hypothetical protein; 95.8 0.0051 1.1E-07 40.5 1.5 36 60-98 119-154 (160)
35 smart00355 ZnF_C2H2 zinc finge 95.7 0.011 2.4E-07 25.7 2.0 20 88-107 1-21 (26)
36 PF12756 zf-C2H2_2: C2H2 type 95.7 0.0072 1.6E-07 36.0 1.8 16 12-27 2-18 (100)
37 PF02176 zf-TRAF: TRAF-type zi 95.6 0.003 6.5E-08 34.3 -0.2 46 60-105 9-60 (60)
38 PF02176 zf-TRAF: TRAF-type zi 95.4 0.0068 1.5E-07 32.9 0.9 45 7-51 7-58 (60)
39 PRK04860 hypothetical protein; 94.5 0.035 7.6E-07 36.5 2.5 35 9-46 119-154 (160)
40 COG5189 SFP1 Putative transcri 94.4 0.025 5.5E-07 40.9 1.7 15 84-98 395-409 (423)
41 COG5189 SFP1 Putative transcri 94.4 0.0099 2.1E-07 42.9 -0.3 64 7-79 347-418 (423)
42 PF09237 GAGA: GAGA factor; I 94.2 0.031 6.7E-07 29.2 1.4 21 7-27 22-43 (54)
43 KOG2186 Cell growth-regulating 93.9 0.041 8.9E-07 38.5 1.9 47 9-55 3-49 (276)
44 PF09237 GAGA: GAGA factor; I 93.8 0.04 8.8E-07 28.8 1.3 28 60-87 24-52 (54)
45 COG2888 Predicted Zn-ribbon RN 93.4 0.1 2.3E-06 28.1 2.5 10 35-44 27-36 (61)
46 PF12756 zf-C2H2_2: C2H2 type 93.4 0.043 9.3E-07 32.6 1.2 71 37-109 1-73 (100)
47 PF12874 zf-met: Zinc-finger o 92.9 0.036 7.9E-07 24.2 0.3 20 88-107 1-21 (25)
48 PF12171 zf-C2H2_jaz: Zinc-fin 92.8 0.061 1.3E-06 24.1 1.0 20 61-80 2-22 (27)
49 PF13909 zf-H2C2_5: C2H2-type 91.6 0.15 3.3E-06 21.9 1.5 21 88-108 1-21 (24)
50 smart00734 ZnF_Rad18 Rad18-lik 91.2 0.29 6.3E-06 21.8 2.2 21 89-109 3-23 (26)
51 PRK14890 putative Zn-ribbon RN 91.0 0.33 7.1E-06 26.2 2.6 10 86-95 47-56 (59)
52 smart00451 ZnF_U1 U1-like zinc 89.0 0.32 7E-06 22.9 1.5 21 87-107 3-24 (35)
53 KOG2186 Cell growth-regulating 88.7 0.25 5.3E-06 34.7 1.3 46 35-80 3-49 (276)
54 PF08209 Sgf11: Sgf11 (transcr 87.8 0.4 8.7E-06 22.7 1.4 25 87-111 4-28 (33)
55 PF10571 UPF0547: Uncharacteri 86.4 0.68 1.5E-05 20.6 1.6 9 37-45 16-24 (26)
56 PRK00398 rpoP DNA-directed RNA 81.6 0.95 2.1E-05 23.0 1.2 29 9-46 3-32 (46)
57 PF09538 FYDLN_acid: Protein o 81.5 1.2 2.6E-05 27.3 1.8 13 60-72 26-38 (108)
58 cd00350 rubredoxin_like Rubred 81.0 1.2 2.6E-05 20.9 1.4 23 10-43 2-25 (33)
59 TIGR02098 MJ0042_CXXC MJ0042 f 81.0 0.83 1.8E-05 22.1 0.8 11 10-20 3-13 (38)
60 PF13717 zinc_ribbon_4: zinc-r 80.3 0.47 1E-05 22.9 -0.2 6 89-94 27-32 (36)
61 PF06524 NOA36: NOA36 protein; 79.8 1.9 4.1E-05 30.7 2.5 73 31-103 138-226 (314)
62 KOG2231 Predicted E3 ubiquitin 78.5 3.6 7.9E-05 33.3 4.0 20 61-80 183-203 (669)
63 COG1592 Rubrerythrin [Energy p 77.2 1.4 3.1E-05 29.2 1.3 23 60-94 134-156 (166)
64 PF13451 zf-trcl: Probable zin 76.7 1.5 3.2E-05 22.9 1.0 14 7-20 2-15 (49)
65 cd00729 rubredoxin_SM Rubredox 76.2 2.1 4.6E-05 20.3 1.4 25 9-43 2-26 (34)
66 COG1198 PriA Primosomal protei 76.1 1.3 2.9E-05 36.2 1.1 12 85-96 473-484 (730)
67 TIGR00622 ssl1 transcription f 75.2 5.5 0.00012 24.6 3.3 19 8-26 14-33 (112)
68 PF09723 Zn-ribbon_8: Zinc rib 75.1 1.6 3.5E-05 21.8 0.9 11 10-20 6-16 (42)
69 TIGR02605 CxxC_CxxC_SSSS putat 74.2 1.3 2.7E-05 23.1 0.4 11 10-20 6-16 (52)
70 smart00659 RPOLCX RNA polymera 74.1 2.3 5E-05 21.5 1.3 27 10-45 3-29 (44)
71 TIGR00373 conserved hypothetic 74.0 2.3 5.1E-05 27.9 1.7 28 60-96 109-137 (158)
72 COG4049 Uncharacterized protei 73.7 1.7 3.8E-05 23.1 0.8 32 82-113 12-45 (65)
73 PF03145 Sina: Seven in absent 73.6 1.8 4E-05 29.4 1.1 46 14-59 23-72 (198)
74 smart00834 CxxC_CXXC_SSSS Puta 73.1 1.5 3.3E-05 21.4 0.5 11 10-20 6-16 (41)
75 PRK06266 transcription initiat 71.4 2.8 6E-05 28.2 1.6 29 60-97 117-146 (178)
76 KOG0297 TNF receptor-associate 71.2 7.2 0.00016 29.7 3.9 80 13-96 94-177 (391)
77 smart00531 TFIIE Transcription 70.7 3.3 7.1E-05 26.8 1.8 34 60-97 99-133 (147)
78 KOG1146 Homeobox protein [Gene 70.2 1.8 3.9E-05 37.5 0.6 79 30-109 460-541 (1406)
79 PF03145 Sina: Seven in absent 69.5 3.5 7.6E-05 28.0 1.8 44 64-108 22-69 (198)
80 PF14353 CpXC: CpXC protein 69.4 3.2 7E-05 26.1 1.5 11 60-70 38-48 (128)
81 smart00614 ZnF_BED BED zinc fi 68.2 3.9 8.5E-05 21.1 1.4 23 88-110 19-48 (50)
82 TIGR02300 FYDLN_acid conserved 65.4 5.7 0.00012 25.1 2.0 13 60-72 26-38 (129)
83 PF03604 DNA_RNApol_7kD: DNA d 64.7 5.3 0.00011 18.7 1.3 11 10-20 1-11 (32)
84 PF02892 zf-BED: BED zinc fing 63.5 4.3 9.4E-05 20.2 1.0 21 86-106 15-40 (45)
85 KOG4173 Alpha-SNAP protein [In 61.2 3.8 8.2E-05 28.1 0.7 71 36-107 80-167 (253)
86 PF07754 DUF1610: Domain of un 60.4 4.7 0.0001 17.6 0.7 8 87-94 16-23 (24)
87 PF01530 zf-C2HC: Zinc finger, 60.2 4.5 9.8E-05 18.8 0.6 12 136-147 16-27 (31)
88 PHA00626 hypothetical protein 59.2 6.5 0.00014 21.0 1.2 18 86-103 22-39 (59)
89 KOG2893 Zn finger protein [Gen 58.9 2.7 5.8E-05 29.6 -0.3 28 40-69 15-43 (341)
90 COG1996 RPC10 DNA-directed RNA 58.6 4.1 8.9E-05 21.2 0.4 11 60-70 6-16 (49)
91 COG5048 FOG: Zn-finger [Genera 58.3 2.9 6.2E-05 31.2 -0.3 49 60-108 289-345 (467)
92 KOG2893 Zn finger protein [Gen 57.2 3.8 8.3E-05 28.8 0.2 30 63-96 13-43 (341)
93 KOG1146 Homeobox protein [Gene 56.7 7.2 0.00016 34.1 1.7 26 4-29 460-487 (1406)
94 PRK00464 nrdR transcriptional 55.6 4.6 9.9E-05 26.5 0.3 11 36-46 29-39 (154)
95 KOG0297 TNF receptor-associate 51.6 26 0.00057 26.7 3.9 63 64-129 94-162 (391)
96 PF15135 UPF0515: Uncharacteri 51.0 9.9 0.00021 27.0 1.4 13 5-17 108-120 (278)
97 COG3357 Predicted transcriptio 50.4 12 0.00027 22.1 1.5 28 34-68 57-84 (97)
98 PF09845 DUF2072: Zn-ribbon co 49.9 13 0.00028 23.6 1.7 12 9-20 1-12 (131)
99 PF12230 PRP21_like_P: Pre-mRN 49.8 5.4 0.00012 27.8 0.0 25 84-108 165-189 (229)
100 COG1997 RPL43A Ribosomal prote 49.3 14 0.0003 21.8 1.6 32 34-72 34-65 (89)
101 PF13248 zf-ribbon_3: zinc-rib 48.6 14 0.00029 16.2 1.2 8 11-18 4-11 (26)
102 PF14369 zf-RING_3: zinc-finge 47.4 17 0.00037 17.3 1.6 30 9-46 2-32 (35)
103 PRK03824 hypA hydrogenase nick 46.6 7.9 0.00017 24.7 0.4 12 9-20 70-81 (135)
104 KOG2907 RNA polymerase I trans 44.4 13 0.00029 22.9 1.1 38 60-98 74-113 (116)
105 PF05253 zf-U11-48K: U11-48K-l 44.1 21 0.00046 15.8 1.5 22 89-110 4-26 (27)
106 COG5236 Uncharacterized conser 42.9 17 0.00037 27.2 1.6 59 49-107 168-241 (493)
107 PRK04023 DNA polymerase II lar 42.2 40 0.00087 29.1 3.7 10 87-96 663-672 (1121)
108 PF09963 DUF2197: Uncharacteri 41.2 12 0.00025 20.1 0.4 34 11-44 4-40 (56)
109 PF12907 zf-met2: Zinc-binding 40.8 4.9 0.00011 19.9 -1.0 18 10-27 2-23 (40)
110 PRK12380 hydrogenase nickel in 39.9 15 0.00033 22.6 0.9 9 37-45 72-80 (113)
111 PF13878 zf-C2H2_3: zinc-finge 39.8 30 0.00065 17.1 1.8 11 10-20 14-24 (41)
112 PF02591 DUF164: Putative zinc 39.7 32 0.00069 18.1 2.0 33 60-95 22-54 (56)
113 PLN03238 probable histone acet 39.1 27 0.00059 25.4 2.2 38 84-121 45-83 (290)
114 smart00440 ZnF_C2C2 C2C2 Zinc 38.8 5.4 0.00012 19.7 -1.0 10 88-97 29-38 (40)
115 KOG2231 Predicted E3 ubiquitin 37.3 91 0.002 25.8 4.9 19 89-107 184-203 (669)
116 PRK14714 DNA polymerase II lar 36.6 39 0.00084 29.9 2.9 27 60-96 692-718 (1337)
117 PF07975 C1_4: TFIIH C1-like d 36.6 13 0.00029 19.5 0.2 14 35-48 21-34 (51)
118 PRK00564 hypA hydrogenase nick 36.5 20 0.00044 22.2 1.1 9 37-45 73-81 (117)
119 KOG2593 Transcription initiati 36.0 28 0.00062 26.8 1.9 16 33-48 126-141 (436)
120 TIGR00100 hypA hydrogenase nic 35.8 22 0.00048 22.0 1.2 9 37-45 72-80 (115)
121 TIGR00595 priA primosomal prot 35.0 12 0.00025 29.6 -0.2 8 60-67 253-260 (505)
122 PRK03681 hypA hydrogenase nick 34.2 21 0.00046 22.0 0.9 8 37-44 72-79 (114)
123 PF01155 HypA: Hydrogenase exp 33.2 12 0.00026 23.0 -0.3 9 37-45 72-80 (113)
124 PF14446 Prok-RING_1: Prokaryo 32.3 28 0.00061 18.5 1.0 10 11-20 7-16 (54)
125 PF14205 Cys_rich_KTR: Cystein 32.2 13 0.00028 19.8 -0.3 34 35-69 4-37 (55)
126 COG2331 Uncharacterized protei 31.3 15 0.00032 21.0 -0.1 30 10-44 13-42 (82)
127 COG1579 Zn-ribbon protein, pos 30.3 35 0.00076 24.2 1.5 11 60-70 221-231 (239)
128 PF05191 ADK_lid: Adenylate ki 30.2 18 0.00038 17.4 0.1 9 62-70 3-11 (36)
129 PF10013 DUF2256: Uncharacteri 28.9 48 0.001 16.6 1.5 16 89-104 10-26 (42)
130 COG4530 Uncharacterized protei 28.7 42 0.00091 20.7 1.5 19 86-104 25-43 (129)
131 smart00154 ZnF_AN1 AN1-like Zi 28.5 32 0.00068 16.8 0.8 12 9-20 12-23 (39)
132 PRK09678 DNA-binding transcrip 26.0 33 0.00072 19.4 0.7 12 60-71 27-40 (72)
133 PTZ00064 histone acetyltransfe 25.9 41 0.00088 26.7 1.3 37 85-121 278-315 (552)
134 PF05290 Baculo_IE-1: Baculovi 25.9 68 0.0015 20.6 2.1 16 5-20 76-91 (140)
135 PRK05978 hypothetical protein; 25.5 28 0.00061 22.7 0.4 7 62-68 35-41 (148)
136 PF01428 zf-AN1: AN1-like Zinc 25.3 20 0.00043 17.8 -0.3 12 86-97 12-23 (43)
137 PF08790 zf-LYAR: LYAR-type C2 25.3 16 0.00035 16.6 -0.5 9 63-71 3-11 (28)
138 PF12760 Zn_Tnp_IS1595: Transp 24.6 26 0.00056 17.6 0.1 9 86-94 36-44 (46)
139 COG0068 HypF Hydrogenase matur 24.3 13 0.00027 30.6 -1.6 11 38-48 126-136 (750)
140 PF12773 DZR: Double zinc ribb 23.9 1E+02 0.0022 15.4 2.3 9 60-68 29-37 (50)
141 COG1656 Uncharacterized conser 23.4 68 0.0015 21.4 1.8 11 88-98 131-141 (165)
142 PF14445 Prok-RING_2: Prokaryo 23.3 36 0.00078 17.8 0.4 18 87-104 7-24 (57)
143 KOG2482 Predicted C2H2-type Zn 23.2 50 0.0011 24.8 1.3 22 87-108 195-217 (423)
144 PF11789 zf-Nse: Zinc-finger o 23.2 55 0.0012 17.4 1.2 31 59-92 23-53 (57)
145 COG4896 Uncharacterized protei 23.0 28 0.00061 19.0 0.0 35 11-45 4-41 (68)
146 PF11672 DUF3268: Protein of u 23.0 44 0.00096 20.3 0.9 12 9-20 2-13 (102)
147 PF04959 ARS2: Arsenite-resist 22.8 50 0.0011 23.0 1.2 25 84-108 74-99 (214)
148 PF01096 TFIIS_C: Transcriptio 22.8 2.7 5.8E-05 20.6 -3.7 9 88-96 29-37 (39)
149 PF07800 DUF1644: Protein of u 22.7 72 0.0016 21.1 1.8 48 60-108 80-130 (162)
150 KOG3408 U1-like Zn-finger-cont 22.2 46 0.00099 20.9 0.8 22 60-81 57-79 (129)
151 PF04423 Rad50_zn_hook: Rad50 22.0 30 0.00066 18.0 0.0 12 37-48 22-33 (54)
152 PLN00104 MYST -like histone ac 20.8 52 0.0011 25.7 1.0 37 85-121 196-233 (450)
153 COG1327 Predicted transcriptio 20.7 30 0.00064 22.7 -0.2 13 60-72 28-40 (156)
154 KOG3002 Zn finger protein [Gen 20.7 1.8E+02 0.004 21.4 3.8 96 10-108 49-161 (299)
155 COG5048 FOG: Zn-finger [Genera 20.6 59 0.0013 24.1 1.3 50 59-108 32-85 (467)
156 KOG2612 Predicted integral mem 20.4 65 0.0014 19.0 1.1 22 89-110 76-97 (103)
157 PF01286 XPA_N: XPA protein N- 20.3 12 0.00025 17.9 -1.6 16 62-77 5-20 (34)
158 PF07295 DUF1451: Protein of u 20.2 35 0.00076 22.2 0.0 31 60-99 112-143 (146)
159 COG5151 SSL1 RNA polymerase II 20.1 57 0.0012 24.2 1.1 12 87-98 388-399 (421)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.87 E-value=3.8e-23 Score=141.67 Aligned_cols=116 Identities=23% Similarity=0.443 Sum_probs=102.7
Q ss_pred CCcccCCCCCCCCC-cchHHHH-HhhcC---CCCccccccCCccChh-hHHHHHHcCCC-CccCccchhccch-HHHHhh
Q 032068 7 ETTKICSHCDRAIP-SSNIDLH-FAHCS---RNLERCKVCGDMVPRK-YAEEHFLNTHA-PVACSQCSETMER-EILAIH 78 (148)
Q Consensus 7 ~~~~~C~~C~~~~~-~~~l~~H-~~~~~---~~~~~C~~C~~~f~~~-~l~~h~~~~h~-~~~C~~C~~~~~~-~~l~~h 78 (148)
...|.|..|++.+. .++|..| +.|+. .+.+.|+.|++.+... .+.-|+ ++|+ +..|..||+.|.+ =.|+.|
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHi-rTH~l~c~C~iCGKaFSRPWLLQGH 206 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHI-RTHTLPCECGICGKAFSRPWLLQGH 206 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHh-hccCCCcccccccccccchHHhhcc
Confidence 33589999999999 9999999 78886 5678999999999877 566675 7776 9999999999998 567999
Q ss_pred HhhcCCCCcccCCCCCCCCC-hhhHHHHHHH-----------hcccccCCcchhhhh
Q 032068 79 KGENCPQRIVTCDFCEFPLP-AVDLAEHQVA-----------IVNNFENGKTIADLS 123 (148)
Q Consensus 79 ~~~~~~~~~~~C~~C~~~f~-~~~l~~H~~~-----------c~~~~~~~~~~~~~~ 123 (148)
+|+|+|||||.|+.|+++|. +++|.+|+++ |++.|..-+.|.+..
T Consensus 207 iRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 207 IRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred cccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhh
Confidence 99999999999999999999 9999999986 899998888887766
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.78 E-value=8.6e-20 Score=125.32 Aligned_cols=98 Identities=18% Similarity=0.409 Sum_probs=87.6
Q ss_pred CCcccCCCCCCCCC-cchHHHH-HhhcCCCCccccccCCccChh-----hHHHHHHcCCCCccCccchhccch-HHHHhh
Q 032068 7 ETTKICSHCDRAIP-SSNIDLH-FAHCSRNLERCKVCGDMVPRK-----YAEEHFLNTHAPVACSQCSETMER-EILAIH 78 (148)
Q Consensus 7 ~~~~~C~~C~~~~~-~~~l~~H-~~~~~~~~~~C~~C~~~f~~~-----~l~~h~~~~h~~~~C~~C~~~~~~-~~l~~h 78 (148)
.+.+.|..|+++|. ...|+.| ++|.- +..|..||+.|+.. ++++|.++ +||.|..|++.|.. ++|+.|
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l--~c~C~iCGKaFSRPWLLQGHiRTHTGE--KPF~C~hC~kAFADRSNLRAH 234 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTL--PCECGICGKAFSRPWLLQGHIRTHTGE--KPFSCPHCGKAFADRSNLRAH 234 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCC--CcccccccccccchHHhhcccccccCC--CCccCCcccchhcchHHHHHH
Confidence 56689999999999 9999999 78884 78999999999977 34444444 69999999999988 999999
Q ss_pred HhhcCCCCcccCCCCCCCCC-hhhHHHHHHH
Q 032068 79 KGENCPQRIVTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 79 ~~~~~~~~~~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
+++|.+.++|.|+.|++.|. .+-|..|...
T Consensus 235 mQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 235 MQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred HHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 99999999999999999999 9999999875
No 3
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.44 E-value=2.9e-13 Score=103.05 Aligned_cols=123 Identities=28% Similarity=0.537 Sum_probs=99.4
Q ss_pred CcccCCCCCCCCCcchHHHHHhhcCCC--------------------CccccccCCccChhhHHHHHHcCCCCccCccch
Q 032068 8 TTKICSHCDRAIPSSNIDLHFAHCSRN--------------------LERCKVCGDMVPRKYAEEHFLNTHAPVACSQCS 67 (148)
Q Consensus 8 ~~~~C~~C~~~~~~~~l~~H~~~~~~~--------------------~~~C~~C~~~f~~~~l~~h~~~~h~~~~C~~C~ 67 (148)
....|..|.+.++..+|..|+.+|... .+.|+.|+..|....+..|....|+++.|+ |+
T Consensus 406 ~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp-Cg 484 (567)
T PLN03086 406 DTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQGEMEKHMKVFHEPLQCP-CG 484 (567)
T ss_pred CeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccchHHHHHHHHhcCCCccCC-CC
Confidence 346799999999989999997777643 345678888887667888876667899999 99
Q ss_pred hccchHHHHhhHhhcCCCCcccCCCCCCCCC-----------hhhHHHHHHHhcccccCCc----chhhhhhhccCcce
Q 032068 68 ETMEREILAIHKGENCPQRIVTCDFCEFPLP-----------AVDLAEHQVAIVNNFENGK----TIADLSYLGVMLCC 131 (148)
Q Consensus 68 ~~~~~~~l~~h~~~~~~~~~~~C~~C~~~f~-----------~~~l~~H~~~c~~~~~~~~----~~~~~~~~~~~~~~ 131 (148)
..+....|..|..++++++++.|++|++.|. .+.|..|..+||.....+. .+...+++.|+..|
T Consensus 485 ~~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlrdm~~H~~~~ 563 (567)
T PLN03086 485 VVLEKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLKEMDIHQIAV 563 (567)
T ss_pred CCcchhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeehhHHHHHHHh
Confidence 7666699999999999999999999999885 2479999999988887754 35667777777654
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.37 E-value=1.2e-13 Score=107.06 Aligned_cols=49 Identities=20% Similarity=0.438 Sum_probs=45.7
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCCC-hhhHHHHHHH
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
|-+|..|.+...- +.|+-|.++|+||+||+|++||++|. +.+|+.|+-+
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~v 655 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSV 655 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccc
Confidence 6689999999887 99999999999999999999999999 9999999854
No 5
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.32 E-value=5.4e-13 Score=102.39 Aligned_cols=97 Identities=19% Similarity=0.382 Sum_probs=81.8
Q ss_pred ccCCCCCCCCC-cchHHHH-H-hhcC-CCCccccccCCccChh-hHHHHHHcCC----------------CCccCccchh
Q 032068 10 KICSHCDRAIP-SSNIDLH-F-AHCS-RNLERCKVCGDMVPRK-YAEEHFLNTH----------------APVACSQCSE 68 (148)
Q Consensus 10 ~~C~~C~~~~~-~~~l~~H-~-~~~~-~~~~~C~~C~~~f~~~-~l~~h~~~~h----------------~~~~C~~C~~ 68 (148)
.+|+.|.+.+. ...|+.| + +|-. +..|.|..|...|... .|..|. ..| +.|.|..||+
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm-~~hkpg~dqa~sltqsa~lRKFKCtECgK 289 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHM-QLHKPGGDQAISLTQSALLRKFKCTECGK 289 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHH-HhhcCCCcccccccchhhhccccccccch
Confidence 47899999999 8899999 6 4443 4468999999999988 344443 222 3899999999
Q ss_pred ccch-HHHHhhHhhcCCCCcccCCCCCCCCC-hhhHHHHHH
Q 032068 69 TMER-EILAIHKGENCPQRIVTCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 69 ~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l~~H~~ 107 (148)
.|.. ..|..|+|+|.||+||.|+.|+++|. +.....|+-
T Consensus 290 AFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 290 AFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 9999 89999999999999999999999999 889999974
No 6
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.26 E-value=1.4e-12 Score=92.90 Aligned_cols=107 Identities=21% Similarity=0.344 Sum_probs=63.2
Q ss_pred CccCCCCcccCCCCCCCCC-cchHHHH-H--hhcCCCCccccccCCccChh-hHHHHHHcCCCCccCccchhccch-HHH
Q 032068 2 AMTSDETTKICSHCDRAIP-SSNIDLH-F--AHCSRNLERCKVCGDMVPRK-YAEEHFLNTHAPVACSQCSETMER-EIL 75 (148)
Q Consensus 2 ~~h~~~~~~~C~~C~~~~~-~~~l~~H-~--~~~~~~~~~C~~C~~~f~~~-~l~~h~~~~h~~~~C~~C~~~~~~-~~l 75 (148)
++|+++|...|+.|+.-|. ...|-+| + .-...++|.|..|.+.|.++ -|..|..+--..|.|+.|.-..+. +.|
T Consensus 200 r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL 279 (467)
T KOG3608|consen 200 RTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSL 279 (467)
T ss_pred HhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHH
Confidence 4677777777777777777 7777777 4 33345567777777777666 233443211124555555555544 555
Q ss_pred HhhHhh-cCCCCcccCCCCCCCCC-hhhHHHHHHH
Q 032068 76 AIHKGE-NCPQRIVTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 76 ~~h~~~-~~~~~~~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
..|++. |...+|++|+.|+..+. -+.|+.|..+
T Consensus 280 ~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~ 314 (467)
T KOG3608|consen 280 TTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQV 314 (467)
T ss_pred HHHHHhhhccCCCccccchhhhhccHHHHHHHHHh
Confidence 555542 44556666666666555 6666666544
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.26 E-value=1e-12 Score=100.91 Aligned_cols=78 Identities=22% Similarity=0.481 Sum_probs=55.2
Q ss_pred CCCcccCCCCCCCCC-cchHHHH-HhhcCCCCccccccCCccChhhHHHHHHcCCCCccCccchhccchHHHHhhHhhcC
Q 032068 6 DETTKICSHCDRAIP-SSNIDLH-FAHCSRNLERCKVCGDMVPRKYAEEHFLNTHAPVACSQCSETMEREILAIHKGENC 83 (148)
Q Consensus 6 ~~~~~~C~~C~~~~~-~~~l~~H-~~~~~~~~~~C~~C~~~f~~~~l~~h~~~~h~~~~C~~C~~~~~~~~l~~h~~~~~ 83 (148)
.+-.|.|..|+++|. .+.|.+| -.|+|.+|++|..|.+.|..+ ..|..|.|.|.
T Consensus 891 e~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHK------------------------HHLtEHkRLHS 946 (1007)
T KOG3623|consen 891 EDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHK------------------------HHLTEHKRLHS 946 (1007)
T ss_pred ccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhh------------------------hhhhhhhhhcc
Confidence 344566666666666 6666666 466666666666666655544 34455778899
Q ss_pred CCCcccCCCCCCCCC-hhhHHHHHH
Q 032068 84 PQRIVTCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 84 ~~~~~~C~~C~~~f~-~~~l~~H~~ 107 (148)
||+||.|+.|+++|. +.....|+.
T Consensus 947 GEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 947 GEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred CCCcchhhhhhhhcccccchHhhhc
Confidence 999999999999999 888888864
No 8
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.20 E-value=4.9e-11 Score=85.15 Aligned_cols=131 Identities=18% Similarity=0.270 Sum_probs=96.3
Q ss_pred cccCCCCCCCCC-cchHHHH-H-hhcCCCCccccccCCccChh-hHHHHHHcCCC--CccCcc--chhccch-HHHHhhH
Q 032068 9 TKICSHCDRAIP-SSNIDLH-F-AHCSRNLERCKVCGDMVPRK-YAEEHFLNTHA--PVACSQ--CSETMER-EILAIHK 79 (148)
Q Consensus 9 ~~~C~~C~~~~~-~~~l~~H-~-~~~~~~~~~C~~C~~~f~~~-~l~~h~~~~h~--~~~C~~--C~~~~~~-~~l~~h~ 79 (148)
-|+|+.|+.+.+ .+.|..| + .|...+||+|..|+..+... +|..|.. +|. .|.|.. |..++.. .+|..|.
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~-~HS~~~y~C~h~~C~~s~r~~~q~~~H~ 341 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQ-VHSKTVYQCEHPDCHYSVRTYTQMRRHF 341 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHH-hccccceecCCCCCcHHHHHHHHHHHHH
Confidence 367888888877 8888888 6 77778888888888777766 5666653 442 677755 7777766 7777776
Q ss_pred hhc-CC--CCcccCCCCCCCCC-hhhHHHHHHHhcccccCCcchhhhhhhccCcceeeeccchhhh
Q 032068 80 GEN-CP--QRIVTCDFCEFPLP-AVDLAEHQVAIVNNFENGKTIADLSYLGVMLCCFVIVGSLWES 141 (148)
Q Consensus 80 ~~~-~~--~~~~~C~~C~~~f~-~~~l~~H~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 (148)
+.+ .| ..+|.|-.|.+.|. ...|..|+.. ...|..-+...++.|..+.|+.-++...++||
T Consensus 342 ~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~k-kH~f~~PsGh~RFtYk~~edG~mRLqt~rles 406 (467)
T KOG3608|consen 342 LEVHEGNNPILYACHCCDRFFTSGKSLSAHLMK-KHGFRLPSGHKRFTYKVDEDGFMRLQTTRLES 406 (467)
T ss_pred HHhccCCCCCceeeecchhhhccchhHHHHHHH-hhcccCCCCCCceeeeeccCceeeeeeeehhh
Confidence 532 23 34578888888888 7788888753 24577777888999999999999998888876
No 9
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.20 E-value=4.4e-12 Score=84.14 Aligned_cols=77 Identities=21% Similarity=0.393 Sum_probs=63.5
Q ss_pred CCCCccccccCCccChhhHHHHHHcCCC---CccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCCC-hhhHHHHH
Q 032068 32 SRNLERCKVCGDMVPRKYAEEHFLNTHA---PVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPLP-AVDLAEHQ 106 (148)
Q Consensus 32 ~~~~~~C~~C~~~f~~~~l~~h~~~~h~---~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l~~H~ 106 (148)
+...+.|..|+++|....|...+..+|. .+.|..||+.|.. -+|..|.++|+|.+||+|..|+++|. +-.|..|+
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl 193 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHL 193 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHH
Confidence 3456889999999987754433346663 7789999999988 88999999999999999999999999 88999998
Q ss_pred HH
Q 032068 107 VA 108 (148)
Q Consensus 107 ~~ 108 (148)
+.
T Consensus 194 ~k 195 (267)
T KOG3576|consen 194 KK 195 (267)
T ss_pred HH
Confidence 75
No 10
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.12 E-value=3.5e-11 Score=79.90 Aligned_cols=103 Identities=20% Similarity=0.390 Sum_probs=82.7
Q ss_pred CCCCcccCCCCCCCCC-cchHHHH-HhhcCCCCccccccCCccChh-hHHHHHHcCC---CCccCccchhccch-HHHHh
Q 032068 5 SDETTKICSHCDRAIP-SSNIDLH-FAHCSRNLERCKVCGDMVPRK-YAEEHFLNTH---APVACSQCSETMER-EILAI 77 (148)
Q Consensus 5 ~~~~~~~C~~C~~~~~-~~~l~~H-~~~~~~~~~~C~~C~~~f~~~-~l~~h~~~~h---~~~~C~~C~~~~~~-~~l~~ 77 (148)
.+...+.|..|++.|. ..-|.+| ..|...+.+.|..|++.|-.. ++..|. +.| +||.|..|++.|.. -.|..
T Consensus 113 sd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~-rthtgvrpykc~~c~kaftqrcsles 191 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHT-RTHTGVRPYKCSLCEKAFTQRCSLES 191 (267)
T ss_pred CCCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhh-ccccCccccchhhhhHHHHhhccHHH
Confidence 4566799999999999 8888899 699999999999999999877 677665 555 49999999999987 67777
Q ss_pred hHhhcC-----------CCCcccCCCCCCCCC-hhhHHHHHHH
Q 032068 78 HKGENC-----------PQRIVTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 78 h~~~~~-----------~~~~~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
|...-. ..+.|.|+.||..-. ...+..|.+.
T Consensus 192 hl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~ 234 (267)
T KOG3576|consen 192 HLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKL 234 (267)
T ss_pred HHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHh
Confidence 765322 346799999998766 6667777664
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.06 E-value=4.8e-10 Score=85.76 Aligned_cols=100 Identities=20% Similarity=0.486 Sum_probs=80.5
Q ss_pred CCCcccCCCCCCCCCcchHHHH-HhhcCCCCccccccCCccChhhHHHHHHc-C-CCCccCccchhccc----------h
Q 032068 6 DETTKICSHCDRAIPSSNIDLH-FAHCSRNLERCKVCGDMVPRKYAEEHFLN-T-HAPVACSQCSETME----------R 72 (148)
Q Consensus 6 ~~~~~~C~~C~~~~~~~~l~~H-~~~~~~~~~~C~~C~~~f~~~~l~~h~~~-~-h~~~~C~~C~~~~~----------~ 72 (148)
-++.+.|..|++.|....|..| ..+. .++.|+ |+..+....+..|... + .+++.|..|+..|. .
T Consensus 450 l~~H~~C~~Cgk~f~~s~LekH~~~~H--kpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 450 AKNHVHCEKCGQAFQQGEMEKHMKVFH--EPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred cccCccCCCCCCccchHHHHHHHHhcC--CCccCC-CCCCcchhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 3567899999999997789999 5553 689999 9977655577777532 1 25999999999884 2
Q ss_pred -HHHHhhHhhcCCCCcccCCCCCCCCChhhHHHHHHHh
Q 032068 73 -EILAIHKGENCPQRIVTCDFCEFPLPAVDLAEHQVAI 109 (148)
Q Consensus 73 -~~l~~h~~~~~~~~~~~C~~C~~~f~~~~l~~H~~~c 109 (148)
+.|..|+.. +|.+++.|..||+.|+...+..|+-.|
T Consensus 527 ~s~Lt~HE~~-CG~rt~~C~~Cgk~Vrlrdm~~H~~~~ 563 (567)
T PLN03086 527 LRGMSEHESI-CGSRTAPCDSCGRSVMLKEMDIHQIAV 563 (567)
T ss_pred hhhHHHHHHh-cCCcceEccccCCeeeehhHHHHHHHh
Confidence 579999976 799999999999999988889998655
No 12
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.95 E-value=1.9e-10 Score=89.83 Aligned_cols=99 Identities=20% Similarity=0.444 Sum_probs=80.2
Q ss_pred CCcccCCCCCCCCC-cchHHHH-HhhcCCCCccccccCCccChh-hHHHHHHcCCC-------CccCc---cchhccch-
Q 032068 7 ETTKICSHCDRAIP-SSNIDLH-FAHCSRNLERCKVCGDMVPRK-YAEEHFLNTHA-------PVACS---QCSETMER- 72 (148)
Q Consensus 7 ~~~~~C~~C~~~~~-~~~l~~H-~~~~~~~~~~C~~C~~~f~~~-~l~~h~~~~h~-------~~~C~---~C~~~~~~- 72 (148)
-.|.+|..|.++.. .+.|+.| +.|.+++||+|..|++.|..+ +|+.|. .+|+ .+.|+ .|.+.|..
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~-~vHka~p~~R~q~ScP~~~ic~~kftn~ 681 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHM-SVHKAKPPARVQFSCPSTFICQKKFTNA 681 (958)
T ss_pred CCccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcc-cccccCccccccccCCchhhhccccccc
Confidence 45789999999999 9999999 899999999999999999999 788886 5553 77898 99999988
Q ss_pred HHHHhhHhhcCCC-C------------cccCCCCCCCCC-hhhHHHHH
Q 032068 73 EILAIHKGENCPQ-R------------IVTCDFCEFPLP-AVDLAEHQ 106 (148)
Q Consensus 73 ~~l~~h~~~~~~~-~------------~~~C~~C~~~f~-~~~l~~H~ 106 (148)
-.|.+|+++|.+. . ...|..|.+.|. -..+..++
T Consensus 682 V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~ 729 (958)
T KOG1074|consen 682 VTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQI 729 (958)
T ss_pred ccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhh
Confidence 7889999988722 2 235777888875 44444443
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.67 E-value=1e-08 Score=54.49 Aligned_cols=41 Identities=12% Similarity=0.194 Sum_probs=35.2
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCCC-hhhH
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPLP-AVDL 102 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l 102 (148)
.|.|+.||+.|.. +.|..|+++|. +++.|..|++.|. .+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 5789999999988 89999999988 6889999999888 5544
No 14
>PHA00733 hypothetical protein
Probab=98.57 E-value=3.9e-08 Score=62.16 Aligned_cols=74 Identities=14% Similarity=0.201 Sum_probs=56.5
Q ss_pred CCCccccccCCccChhhHHHHH------HcCC--CCccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCCC-hhhH
Q 032068 33 RNLERCKVCGDMVPRKYAEEHF------LNTH--APVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPLP-AVDL 102 (148)
Q Consensus 33 ~~~~~C~~C~~~f~~~~l~~h~------~~~h--~~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l 102 (148)
.+++.|..|...|....+..+. ...+ .+|.|+.|++.|.. ..|..|++.+ +.++.|+.|++.|. ...|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 4567898998888766332221 1111 39999999999988 8999999865 46799999999999 8999
Q ss_pred HHHHHH
Q 032068 103 AEHQVA 108 (148)
Q Consensus 103 ~~H~~~ 108 (148)
..|...
T Consensus 116 ~~H~~~ 121 (128)
T PHA00733 116 LDHVCK 121 (128)
T ss_pred HHHHHH
Confidence 999763
No 15
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.49 E-value=4e-08 Score=44.64 Aligned_cols=25 Identities=16% Similarity=0.371 Sum_probs=22.6
Q ss_pred HHHhhHhhcCCCCcccCCCCCCCCC
Q 032068 74 ILAIHKGENCPQRIVTCDFCEFPLP 98 (148)
Q Consensus 74 ~l~~h~~~~~~~~~~~C~~C~~~f~ 98 (148)
+|..|+++|.+++||.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4788999999999999999998874
No 16
>PHA00733 hypothetical protein
Probab=98.22 E-value=8.3e-07 Score=56.15 Aligned_cols=77 Identities=13% Similarity=0.181 Sum_probs=58.2
Q ss_pred CCCcccCCCCCCCCC-cchHHHH------HhhcCCCCccccccCCccChh-hHHHHHHcCCCCccCccchhccch-HHHH
Q 032068 6 DETTKICSHCDRAIP-SSNIDLH------FAHCSRNLERCKVCGDMVPRK-YAEEHFLNTHAPVACSQCSETMER-EILA 76 (148)
Q Consensus 6 ~~~~~~C~~C~~~~~-~~~l~~H------~~~~~~~~~~C~~C~~~f~~~-~l~~h~~~~h~~~~C~~C~~~~~~-~~l~ 76 (148)
.++++.|..|++.|. ...|..+ +...+.+|+.|+.|++.|... .+..|....-.++.|+.|++.|.. ..|.
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL~ 116 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTL 116 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHHH
Confidence 467789999998887 6666654 123347799999999999988 566776421147999999999988 8899
Q ss_pred hhHhhc
Q 032068 77 IHKGEN 82 (148)
Q Consensus 77 ~h~~~~ 82 (148)
.|+...
T Consensus 117 ~H~~~~ 122 (128)
T PHA00733 117 DHVCKK 122 (128)
T ss_pred HHHHHh
Confidence 888643
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.21 E-value=8.6e-07 Score=47.14 Aligned_cols=37 Identities=16% Similarity=0.231 Sum_probs=27.2
Q ss_pred ccCCCCCCCCC-cchHHHH-HhhcCCCCccccccCCccChh
Q 032068 10 KICSHCDRAIP-SSNIDLH-FAHCSRNLERCKVCGDMVPRK 48 (148)
Q Consensus 10 ~~C~~C~~~~~-~~~l~~H-~~~~~~~~~~C~~C~~~f~~~ 48 (148)
|+|+.||+.|. .++|..| +.|. ++++|..|++.|...
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~ 44 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRT 44 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccc
Confidence 67888888888 7788888 5666 467777777777644
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=98.09 E-value=1.9e-06 Score=39.05 Aligned_cols=24 Identities=25% Similarity=0.553 Sum_probs=20.4
Q ss_pred hHHHH-HhhcCCCCccccccCCccC
Q 032068 23 NIDLH-FAHCSRNLERCKVCGDMVP 46 (148)
Q Consensus 23 ~l~~H-~~~~~~~~~~C~~C~~~f~ 46 (148)
+|..| +.|.+++|+.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 47888 6899999999999998875
No 19
>PHA00616 hypothetical protein
Probab=98.02 E-value=2.7e-06 Score=43.09 Aligned_cols=33 Identities=15% Similarity=0.267 Sum_probs=29.0
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCC
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDF 92 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~ 92 (148)
||+|+.||+.|.. +.|..|++.+.+++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 6889999999988 89999999999999988764
No 20
>PHA00616 hypothetical protein
Probab=97.70 E-value=1.4e-05 Score=40.54 Aligned_cols=32 Identities=13% Similarity=0.185 Sum_probs=28.1
Q ss_pred cccCCCCCCCCC-cchHHHH-HhhcCCCCccccc
Q 032068 9 TKICSHCDRAIP-SSNIDLH-FAHCSRNLERCKV 40 (148)
Q Consensus 9 ~~~C~~C~~~~~-~~~l~~H-~~~~~~~~~~C~~ 40 (148)
||+|..||+.|. .++|..| ..+.++.++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 689999999999 9999999 7888888888763
No 21
>PHA00732 hypothetical protein
Probab=97.67 E-value=3.8e-05 Score=44.37 Aligned_cols=42 Identities=21% Similarity=0.388 Sum_probs=26.4
Q ss_pred CccCccchhccch-HHHHhhHhh-cCCCCcccCCCCCCCCChhhHHHHH
Q 032068 60 PVACSQCSETMER-EILAIHKGE-NCPQRIVTCDFCEFPLPAVDLAEHQ 106 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~-~~~~~~~~C~~C~~~f~~~~l~~H~ 106 (148)
||.|..|++.|.. ..|..|++. |. ++.|+.|++.|. .+..|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~--~l~~H~ 44 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR--RLNQHF 44 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC--Chhhhh
Confidence 4667777777766 677777653 43 246777777765 345554
No 22
>PHA00732 hypothetical protein
Probab=97.59 E-value=7.2e-05 Score=43.25 Aligned_cols=41 Identities=24% Similarity=0.470 Sum_probs=30.2
Q ss_pred cccCCCCCCCCC-cchHHHH-H-hhcCCCCccccccCCccChhhHHHHH
Q 032068 9 TKICSHCDRAIP-SSNIDLH-F-AHCSRNLERCKVCGDMVPRKYAEEHF 54 (148)
Q Consensus 9 ~~~C~~C~~~~~-~~~l~~H-~-~~~~~~~~~C~~C~~~f~~~~l~~h~ 54 (148)
||.|..|++.|. .+.|..| . .|.+ +.|+.|++.|.. +..|.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~~--l~~H~ 44 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYRR--LNQHF 44 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeCC--hhhhh
Confidence 578899999998 8888888 4 3543 478888888873 44454
No 23
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.53 E-value=2.7e-05 Score=57.49 Aligned_cols=29 Identities=21% Similarity=0.293 Sum_probs=23.5
Q ss_pred cccCCCCCCCCC-hhhHHHHHHHhcccccC
Q 032068 87 IVTCDFCEFPLP-AVDLAEHQVAIVNNFEN 115 (148)
Q Consensus 87 ~~~C~~C~~~f~-~~~l~~H~~~c~~~~~~ 115 (148)
.|.|..|++.|+ ..-|..|+..+.+....
T Consensus 356 i~~C~~C~KkFrRqAYLrKHqlthq~~~~~ 385 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQLTHQRAPLA 385 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHHhhhccccc
Confidence 589999999999 88999998876554444
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.42 E-value=0.0003 Score=37.64 Aligned_cols=46 Identities=20% Similarity=0.445 Sum_probs=25.5
Q ss_pred ccCccchhccchHHHHhhHhh-cCCC-CcccCCCCCCCCChhhHHHHHH
Q 032068 61 VACSQCSETMEREILAIHKGE-NCPQ-RIVTCDFCEFPLPAVDLAEHQV 107 (148)
Q Consensus 61 ~~C~~C~~~~~~~~l~~h~~~-~~~~-~~~~C~~C~~~f~~~~l~~H~~ 107 (148)
|.|+.|++.|....|..|... |..+ +.+.||.|...+. .+|..|+.
T Consensus 3 f~CP~C~~~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~-~~l~~Hl~ 50 (54)
T PF05605_consen 3 FTCPYCGKGFSESSLVEHCEDEHRSESKNVVCPICSSRVT-DNLIRHLN 50 (54)
T ss_pred cCCCCCCCccCHHHHHHHHHhHCcCCCCCccCCCchhhhh-hHHHHHHH
Confidence 566666665444556666432 3332 4567777765433 36666654
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=97.40 E-value=0.00033 Score=37.45 Aligned_cols=45 Identities=22% Similarity=0.425 Sum_probs=23.8
Q ss_pred cccCCCCCCCCCcchHHHH-H-hhcCC-CCccccccCCccChhhHHHHH
Q 032068 9 TKICSHCDRAIPSSNIDLH-F-AHCSR-NLERCKVCGDMVPRKYAEEHF 54 (148)
Q Consensus 9 ~~~C~~C~~~~~~~~l~~H-~-~~~~~-~~~~C~~C~~~f~~~~l~~h~ 54 (148)
.|.|+.|++.|....|..| . .|..+ +.+.||.|...+.. ++..|+
T Consensus 2 ~f~CP~C~~~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~-~l~~Hl 49 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSLVEHCEDEHRSESKNVVCPICSSRVTD-NLIRHL 49 (54)
T ss_pred CcCCCCCCCccCHHHHHHHHHhHCcCCCCCccCCCchhhhhh-HHHHHH
Confidence 3566666664445566666 4 44443 34566666654332 344443
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=97.20 E-value=0.00016 Score=31.39 Aligned_cols=21 Identities=19% Similarity=0.449 Sum_probs=15.0
Q ss_pred ccCCCCCCCCC-hhhHHHHHHH
Q 032068 88 VTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 88 ~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
|.|+.|++.|. ...|..|++.
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 46777777777 7777777654
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.92 E-value=0.00031 Score=30.51 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=15.2
Q ss_pred ccCccchhccch-HHHHhhHhh
Q 032068 61 VACSQCSETMER-EILAIHKGE 81 (148)
Q Consensus 61 ~~C~~C~~~~~~-~~l~~h~~~ 81 (148)
|.|+.|++.|.. ..|..|++.
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 467778888866 777777754
No 28
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.83 E-value=0.0011 Score=29.51 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=15.7
Q ss_pred ccCCCCCCCCChhhHHHHHHHh
Q 032068 88 VTCDFCEFPLPAVDLAEHQVAI 109 (148)
Q Consensus 88 ~~C~~C~~~f~~~~l~~H~~~c 109 (148)
..|+.||+.|..+.|..|+.+|
T Consensus 3 ~~C~~CgR~F~~~~l~~H~~~C 24 (25)
T PF13913_consen 3 VPCPICGRKFNPDRLEKHEKIC 24 (25)
T ss_pred CcCCCCCCEECHHHHHHHHHhc
Confidence 3577777777777777777665
No 29
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.67 E-value=0.00077 Score=30.44 Aligned_cols=22 Identities=27% Similarity=0.617 Sum_probs=11.9
Q ss_pred ccCccchhccch-HHHHhhHhhc
Q 032068 61 VACSQCSETMER-EILAIHKGEN 82 (148)
Q Consensus 61 ~~C~~C~~~~~~-~~l~~h~~~~ 82 (148)
+.|..|++.|.. ..|..|.+.|
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCccCCccCChhHHHHHhHHh
Confidence 455555555555 5555555443
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=96.52 E-value=0.0018 Score=27.95 Aligned_cols=21 Identities=19% Similarity=0.490 Sum_probs=13.6
Q ss_pred ccCCCCCCCCC-hhhHHHHHHH
Q 032068 88 VTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 88 ~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
|.|+.|++.|. ...|..|++.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 46777777777 7777777653
No 31
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=96.44 E-value=0.0005 Score=51.04 Aligned_cols=20 Identities=5% Similarity=-0.052 Sum_probs=12.8
Q ss_pred hcccccCCcchhhhhhhccC
Q 032068 109 IVNNFENGKTIADLSYLGVM 128 (148)
Q Consensus 109 c~~~~~~~~~~~~~~~~~~~ 128 (148)
|++.|.....|+...+.-+|
T Consensus 362 C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 362 CGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhhhhHHHHHHHHhHHhhhc
Confidence 66777666666666555555
No 32
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.21 E-value=0.0011 Score=29.86 Aligned_cols=23 Identities=26% Similarity=0.634 Sum_probs=15.4
Q ss_pred cccCCCCCCCCC-cchHHHH-Hhhc
Q 032068 9 TKICSHCDRAIP-SSNIDLH-FAHC 31 (148)
Q Consensus 9 ~~~C~~C~~~~~-~~~l~~H-~~~~ 31 (148)
||+|..|++.|. ...|..| +.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 467777777777 7777777 3443
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=95.87 E-value=0.0037 Score=26.91 Aligned_cols=21 Identities=19% Similarity=0.458 Sum_probs=13.4
Q ss_pred ccCccchhccch-HHHHhhHhh
Q 032068 61 VACSQCSETMER-EILAIHKGE 81 (148)
Q Consensus 61 ~~C~~C~~~~~~-~~l~~h~~~ 81 (148)
|.|+.|+..|.. ..|..|+..
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 457777777766 777777754
No 34
>PRK04860 hypothetical protein; Provisional
Probab=95.80 E-value=0.0051 Score=40.46 Aligned_cols=36 Identities=22% Similarity=0.445 Sum_probs=30.5
Q ss_pred CccCccchhccchHHHHhhHhhcCCCCcccCCCCCCCCC
Q 032068 60 PVACSQCSETMEREILAIHKGENCPQRIVTCDFCEFPLP 98 (148)
Q Consensus 60 ~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~f~ 98 (148)
+|.|. |+. ....+..|.+++.++++|.|..|+..|.
T Consensus 119 ~Y~C~-C~~--~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE--HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC--eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 78997 886 2366788999999999999999998876
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.69 E-value=0.011 Score=25.73 Aligned_cols=20 Identities=25% Similarity=0.353 Sum_probs=16.3
Q ss_pred ccCCCCCCCCC-hhhHHHHHH
Q 032068 88 VTCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 88 ~~C~~C~~~f~-~~~l~~H~~ 107 (148)
|.|+.|++.|. ...|..|++
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 46888888888 888888876
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=95.68 E-value=0.0072 Score=36.01 Aligned_cols=16 Identities=25% Similarity=0.694 Sum_probs=0.0
Q ss_pred CCCCCCCCC-cchHHHH
Q 032068 12 CSHCDRAIP-SSNIDLH 27 (148)
Q Consensus 12 C~~C~~~~~-~~~l~~H 27 (148)
|..|+..|. ...|..|
T Consensus 2 C~~C~~~f~~~~~l~~H 18 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQH 18 (100)
T ss_dssp -----------------
T ss_pred ccccccccccccccccc
Confidence 555555555 5555555
No 37
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.58 E-value=0.003 Score=34.30 Aligned_cols=46 Identities=41% Similarity=0.902 Sum_probs=24.8
Q ss_pred CccCcc--chhccchHHHHhhHhhcCCCCcccCCC----CCCCCChhhHHHH
Q 032068 60 PVACSQ--CSETMEREILAIHKGENCPQRIVTCDF----CEFPLPAVDLAEH 105 (148)
Q Consensus 60 ~~~C~~--C~~~~~~~~l~~h~~~~~~~~~~~C~~----C~~~f~~~~l~~H 105 (148)
+..|+. |...+....|..|....+..++..|++ |+..+.+..|.+|
T Consensus 9 ~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 9 PVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp EEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred EeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 445554 334455566666666566666777777 7666666666554
No 38
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.43 E-value=0.0068 Score=32.87 Aligned_cols=45 Identities=29% Similarity=0.621 Sum_probs=24.1
Q ss_pred CCcccCCC--CCCCCCcchHHHH-HhhcCCCCccccc----cCCccChhhHH
Q 032068 7 ETTKICSH--CDRAIPSSNIDLH-FAHCSRNLERCKV----CGDMVPRKYAE 51 (148)
Q Consensus 7 ~~~~~C~~--C~~~~~~~~l~~H-~~~~~~~~~~C~~----C~~~f~~~~l~ 51 (148)
..+..|+. |...+.+..|..| ...++.++..|+. |...+...++.
T Consensus 7 ~~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~ 58 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLE 58 (60)
T ss_dssp TSEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHH
T ss_pred CCEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHh
Confidence 34566655 4444556777777 4577777777776 66655544443
No 39
>PRK04860 hypothetical protein; Provisional
Probab=94.48 E-value=0.035 Score=36.53 Aligned_cols=35 Identities=20% Similarity=0.510 Sum_probs=22.5
Q ss_pred cccCCCCCCCCCcchHHHH-HhhcCCCCccccccCCccC
Q 032068 9 TKICSHCDRAIPSSNIDLH-FAHCSRNLERCKVCGDMVP 46 (148)
Q Consensus 9 ~~~C~~C~~~~~~~~l~~H-~~~~~~~~~~C~~C~~~f~ 46 (148)
+|.|. |+. ....+..| +.+.+++++.|..|+..|.
T Consensus 119 ~Y~C~-C~~--~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE--HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC--eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 46676 665 24556667 5777777777777776654
No 40
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=94.39 E-value=0.025 Score=40.89 Aligned_cols=15 Identities=13% Similarity=0.507 Sum_probs=8.1
Q ss_pred CCCcccCCCCCCCCC
Q 032068 84 PQRIVTCDFCEFPLP 98 (148)
Q Consensus 84 ~~~~~~C~~C~~~f~ 98 (148)
..+||.|+.|++++.
T Consensus 395 ~~KPYrCevC~KRYK 409 (423)
T COG5189 395 KDKPYRCEVCDKRYK 409 (423)
T ss_pred cCCceeccccchhhc
Confidence 345555555555554
No 41
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=94.37 E-value=0.0099 Score=42.90 Aligned_cols=64 Identities=16% Similarity=0.399 Sum_probs=42.5
Q ss_pred CCcccC--CCCCCCCC-cchHHHH-H-hhcCCCCccccc--cCCccChhhHHHHHHcCCCCccCccchhccch-HHHHhh
Q 032068 7 ETTKIC--SHCDRAIP-SSNIDLH-F-AHCSRNLERCKV--CGDMVPRKYAEEHFLNTHAPVACSQCSETMER-EILAIH 78 (148)
Q Consensus 7 ~~~~~C--~~C~~~~~-~~~l~~H-~-~~~~~~~~~C~~--C~~~f~~~~l~~h~~~~h~~~~C~~C~~~~~~-~~l~~h 78 (148)
+|||.| +.|.+++. ...|+-| + .|+..+...-+. -...| ....+||.|..|++.+.. ..|+=|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F---------~~~~KPYrCevC~KRYKNlNGLKYH 417 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF---------SAKDKPYRCEVCDKRYKNLNGLKYH 417 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccc---------cccCCceeccccchhhccCccceec
Confidence 589999 45999998 8888888 4 666655544331 11111 111269999999999977 666655
Q ss_pred H
Q 032068 79 K 79 (148)
Q Consensus 79 ~ 79 (148)
.
T Consensus 418 r 418 (423)
T COG5189 418 R 418 (423)
T ss_pred c
Confidence 4
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=94.21 E-value=0.031 Score=29.17 Aligned_cols=21 Identities=33% Similarity=0.615 Sum_probs=9.3
Q ss_pred CCcccCCCCCCCCC-cchHHHH
Q 032068 7 ETTKICSHCDRAIP-SSNIDLH 27 (148)
Q Consensus 7 ~~~~~C~~C~~~~~-~~~l~~H 27 (148)
+.|..|+.|+..+. ..+|..|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRH 43 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRH 43 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHH
T ss_pred CCCCCCCcchhhccchhhHHHH
Confidence 34555666666555 5556655
No 43
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.90 E-value=0.041 Score=38.49 Aligned_cols=47 Identities=19% Similarity=0.484 Sum_probs=40.1
Q ss_pred cccCCCCCCCCCcchHHHHHhhcCCCCccccccCCccChhhHHHHHH
Q 032068 9 TKICSHCDRAIPSSNIDLHFAHCSRNLERCKVCGDMVPRKYAEEHFL 55 (148)
Q Consensus 9 ~~~C~~C~~~~~~~~l~~H~~~~~~~~~~C~~C~~~f~~~~l~~h~~ 55 (148)
-|.|..||.......+..|+.-|...-|.|..|+..|-..+...|..
T Consensus 3 ~FtCnvCgEsvKKp~vekH~srCrn~~fSCIDC~k~F~~~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQVEKHMSRCRNAYFSCIDCGKTFERVSYKNHTK 49 (276)
T ss_pred EEehhhhhhhccccchHHHHHhccCCeeEEeecccccccchhhhhhh
Confidence 37899999999988899998778778899999999998877777764
No 44
>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=93.79 E-value=0.04 Score=28.75 Aligned_cols=28 Identities=18% Similarity=0.363 Sum_probs=14.6
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCc
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRI 87 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~ 87 (148)
|-.|+.|+..+.. .+|+.|+++..+.+|
T Consensus 24 PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 5666777666665 666666665555544
No 45
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=93.38 E-value=0.1 Score=28.07 Aligned_cols=10 Identities=30% Similarity=0.806 Sum_probs=4.9
Q ss_pred CccccccCCc
Q 032068 35 LERCKVCGDM 44 (148)
Q Consensus 35 ~~~C~~C~~~ 44 (148)
.|.|+.|++.
T Consensus 27 ~F~CPnCGe~ 36 (61)
T COG2888 27 KFPCPNCGEV 36 (61)
T ss_pred EeeCCCCCce
Confidence 3455555543
No 46
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=93.36 E-value=0.043 Score=32.57 Aligned_cols=71 Identities=14% Similarity=0.237 Sum_probs=20.0
Q ss_pred cccccCCccChh-hHHHHHHcCCCCccCccchhccchHHHHhhHhhcCCCCcccCCCCCCCCC-hhhHHHHHHHh
Q 032068 37 RCKVCGDMVPRK-YAEEHFLNTHAPVACSQCSETMEREILAIHKGENCPQRIVTCDFCEFPLP-AVDLAEHQVAI 109 (148)
Q Consensus 37 ~C~~C~~~f~~~-~l~~h~~~~h~~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l~~H~~~c 109 (148)
+|..|+..|... .+..|+...|. +..+..........+..+.+. .-...+.|..|++.|. ...|..|++.-
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~-~~~~~~~~l~~~~~~~~~~~~-~~~~~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG-FDIPDQKYLVDPNRLLNYLRK-KVKESFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp --------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHT
T ss_pred Cccccccccccccccccccccccc-ccccccccccccccccccccc-ccCCCCCCCccCCCCcCHHHHHHHHcCc
Confidence 488899998877 56677755553 111111111111333333322 2223689999999999 99999999863
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.90 E-value=0.036 Score=24.20 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=12.0
Q ss_pred ccCCCCCCCCC-hhhHHHHHH
Q 032068 88 VTCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 88 ~~C~~C~~~f~-~~~l~~H~~ 107 (148)
|.|..|+..|. ...+..|++
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 34666666666 666666653
No 48
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=92.83 E-value=0.061 Score=24.10 Aligned_cols=20 Identities=20% Similarity=0.448 Sum_probs=13.7
Q ss_pred ccCccchhccch-HHHHhhHh
Q 032068 61 VACSQCSETMER-EILAIHKG 80 (148)
Q Consensus 61 ~~C~~C~~~~~~-~~l~~h~~ 80 (148)
|.|..|++.|.. ..+..|+.
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 567777777766 67777664
No 49
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=91.58 E-value=0.15 Score=21.94 Aligned_cols=21 Identities=19% Similarity=0.523 Sum_probs=13.1
Q ss_pred ccCCCCCCCCChhhHHHHHHH
Q 032068 88 VTCDFCEFPLPAVDLAEHQVA 108 (148)
Q Consensus 88 ~~C~~C~~~f~~~~l~~H~~~ 108 (148)
|.|+.|+.......|..|++.
T Consensus 1 y~C~~C~y~t~~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTSKSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EESHHHHHHHHHH
T ss_pred CCCCCCCCcCCHHHHHHHHHh
Confidence 568888866555677887654
No 50
>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=91.17 E-value=0.29 Score=21.83 Aligned_cols=21 Identities=19% Similarity=0.354 Sum_probs=14.9
Q ss_pred cCCCCCCCCChhhHHHHHHHh
Q 032068 89 TCDFCEFPLPAVDLAEHQVAI 109 (148)
Q Consensus 89 ~C~~C~~~f~~~~l~~H~~~c 109 (148)
.||.|++.+....+..|...|
T Consensus 3 ~CPiC~~~v~~~~in~HLD~C 23 (26)
T smart00734 3 QCPVCFREVPENLINSHLDSC 23 (26)
T ss_pred cCCCCcCcccHHHHHHHHHHh
Confidence 577777777666777777655
No 51
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=90.98 E-value=0.33 Score=26.21 Aligned_cols=10 Identities=40% Similarity=0.810 Sum_probs=5.7
Q ss_pred CcccCCCCCC
Q 032068 86 RIVTCDFCEF 95 (148)
Q Consensus 86 ~~~~C~~C~~ 95 (148)
.+|.|+.||+
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 4556666654
No 52
>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=88.97 E-value=0.32 Score=22.92 Aligned_cols=21 Identities=14% Similarity=0.485 Sum_probs=15.9
Q ss_pred cccCCCCCCCCC-hhhHHHHHH
Q 032068 87 IVTCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 87 ~~~C~~C~~~f~-~~~l~~H~~ 107 (148)
+|.|+.|+..|. ...+..|..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 467888888888 777777764
No 53
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=88.65 E-value=0.25 Score=34.75 Aligned_cols=46 Identities=28% Similarity=0.573 Sum_probs=34.0
Q ss_pred CccccccCCccChhhHHHHHHcCCC-CccCccchhccchHHHHhhHh
Q 032068 35 LERCKVCGDMVPRKYAEEHFLNTHA-PVACSQCSETMEREILAIHKG 80 (148)
Q Consensus 35 ~~~C~~C~~~f~~~~l~~h~~~~h~-~~~C~~C~~~~~~~~l~~h~~ 80 (148)
.|.|..|+.......+..|..+++. .|.|..|++.|.+..+..|..
T Consensus 3 ~FtCnvCgEsvKKp~vekH~srCrn~~fSCIDC~k~F~~~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVKKPQVEKHMSRCRNAYFSCIDCGKTFERVSYKNHTK 49 (276)
T ss_pred EEehhhhhhhccccchHHHHHhccCCeeEEeecccccccchhhhhhh
Confidence 3678888888777767667766653 778888888887766777764
No 54
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=87.77 E-value=0.4 Score=22.74 Aligned_cols=25 Identities=28% Similarity=0.474 Sum_probs=18.4
Q ss_pred cccCCCCCCCCChhhHHHHHHHhcc
Q 032068 87 IVTCDFCEFPLPAVDLAEHQVAIVN 111 (148)
Q Consensus 87 ~~~C~~C~~~f~~~~l~~H~~~c~~ 111 (148)
.+.|+.|++.+..+-+..|+..|..
T Consensus 4 ~~~C~nC~R~v~a~RfA~HLekCmg 28 (33)
T PF08209_consen 4 YVECPNCGRPVAASRFAPHLEKCMG 28 (33)
T ss_dssp EEE-TTTSSEEEGGGHHHHHHHHTC
T ss_pred eEECCCCcCCcchhhhHHHHHHHHc
Confidence 4578888888877788888888743
No 55
>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=86.38 E-value=0.68 Score=20.65 Aligned_cols=9 Identities=33% Similarity=0.670 Sum_probs=5.3
Q ss_pred cccccCCcc
Q 032068 37 RCKVCGDMV 45 (148)
Q Consensus 37 ~C~~C~~~f 45 (148)
.|+.||..|
T Consensus 16 ~Cp~CG~~F 24 (26)
T PF10571_consen 16 FCPHCGYDF 24 (26)
T ss_pred cCCCCCCCC
Confidence 466666555
No 56
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.57 E-value=0.95 Score=23.03 Aligned_cols=29 Identities=24% Similarity=0.566 Sum_probs=16.3
Q ss_pred cccCCCCCCCCC-cchHHHHHhhcCCCCccccccCCccC
Q 032068 9 TKICSHCDRAIP-SSNIDLHFAHCSRNLERCKVCGDMVP 46 (148)
Q Consensus 9 ~~~C~~C~~~~~-~~~l~~H~~~~~~~~~~C~~C~~~f~ 46 (148)
.|.|+.|+..+. ... .....|+.|+..+.
T Consensus 3 ~y~C~~CG~~~~~~~~---------~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEY---------GTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCC---------CCceECCCCCCeEE
Confidence 467777777655 221 11456777765543
No 57
>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=81.49 E-value=1.2 Score=27.33 Aligned_cols=13 Identities=23% Similarity=0.925 Sum_probs=7.1
Q ss_pred CccCccchhccch
Q 032068 60 PVACSQCSETMER 72 (148)
Q Consensus 60 ~~~C~~C~~~~~~ 72 (148)
|..|++||..|..
T Consensus 26 PivCP~CG~~~~~ 38 (108)
T PF09538_consen 26 PIVCPKCGTEFPP 38 (108)
T ss_pred CccCCCCCCccCc
Confidence 5555555555543
No 58
>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=81.03 E-value=1.2 Score=20.94 Aligned_cols=23 Identities=26% Similarity=0.611 Sum_probs=12.9
Q ss_pred ccCCCCCCCCC-cchHHHHHhhcCCCCccccccCC
Q 032068 10 KICSHCDRAIP-SSNIDLHFAHCSRNLERCKVCGD 43 (148)
Q Consensus 10 ~~C~~C~~~~~-~~~l~~H~~~~~~~~~~C~~C~~ 43 (148)
|.|..||..+. .. .+..||.|+.
T Consensus 2 ~~C~~CGy~y~~~~-----------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE-----------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc-----------CCCcCcCCCC
Confidence 55666666543 21 3556666664
No 59
>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=80.98 E-value=0.83 Score=22.11 Aligned_cols=11 Identities=18% Similarity=0.670 Sum_probs=5.7
Q ss_pred ccCCCCCCCCC
Q 032068 10 KICSHCDRAIP 20 (148)
Q Consensus 10 ~~C~~C~~~~~ 20 (148)
+.|+.|+..|.
T Consensus 3 ~~CP~C~~~~~ 13 (38)
T TIGR02098 3 IQCPNCKTSFR 13 (38)
T ss_pred EECCCCCCEEE
Confidence 34555555544
No 60
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=80.27 E-value=0.47 Score=22.93 Aligned_cols=6 Identities=33% Similarity=1.065 Sum_probs=2.3
Q ss_pred cCCCCC
Q 032068 89 TCDFCE 94 (148)
Q Consensus 89 ~C~~C~ 94 (148)
.|+.|+
T Consensus 27 ~C~~C~ 32 (36)
T PF13717_consen 27 RCSKCG 32 (36)
T ss_pred ECCCCC
Confidence 333333
No 61
>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=79.78 E-value=1.9 Score=30.67 Aligned_cols=73 Identities=16% Similarity=0.352 Sum_probs=42.5
Q ss_pred cCCCCccccccCCccChhhHHHHHHcCC----CCccCccchhccchHHH-------HhhHhh----cCCCCcccCCCCCC
Q 032068 31 CSRNLERCKVCGDMVPRKYAEEHFLNTH----APVACSQCSETMEREIL-------AIHKGE----NCPQRIVTCDFCEF 95 (148)
Q Consensus 31 ~~~~~~~C~~C~~~f~~~~l~~h~~~~h----~~~~C~~C~~~~~~~~l-------~~h~~~----~~~~~~~~C~~C~~ 95 (148)
.+.+.|.|..|.....-.+...|+..++ ..|.|..|.+.-..+-| ..|.+. ....+++.||.|+.
T Consensus 138 hGGrif~CsfC~~flCEDDQFEHQAsCQvLe~E~~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKCg~ 217 (314)
T PF06524_consen 138 HGGRIFKCSFCDNFLCEDDQFEHQASCQVLESETFKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKCGY 217 (314)
T ss_pred CCCeEEEeecCCCeeeccchhhhhhhhhhhhcccccccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCCCC
Confidence 3567788888865444345666765543 26777777654332322 244432 22347889999997
Q ss_pred CCC-hhhHH
Q 032068 96 PLP-AVDLA 103 (148)
Q Consensus 96 ~f~-~~~l~ 103 (148)
... ...|.
T Consensus 218 et~eTkdLS 226 (314)
T PF06524_consen 218 ETQETKDLS 226 (314)
T ss_pred cccccccce
Confidence 755 44443
No 62
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.55 E-value=3.6 Score=33.31 Aligned_cols=20 Identities=25% Similarity=0.360 Sum_probs=10.1
Q ss_pred ccCccchhccch-HHHHhhHh
Q 032068 61 VACSQCSETMER-EILAIHKG 80 (148)
Q Consensus 61 ~~C~~C~~~~~~-~~l~~h~~ 80 (148)
-.|+.|...|.. ..|..|.+
T Consensus 183 p~C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLR 203 (669)
T ss_pred ccchhhhhhhccHHHHHHhhc
Confidence 345555555544 45555544
No 63
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=77.20 E-value=1.4 Score=29.16 Aligned_cols=23 Identities=17% Similarity=0.430 Sum_probs=17.9
Q ss_pred CccCccchhccchHHHHhhHhhcCCCCcccCCCCC
Q 032068 60 PVACSQCSETMEREILAIHKGENCPQRIVTCDFCE 94 (148)
Q Consensus 60 ~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~C~ 94 (148)
.|.|+.|| -++.|+.|-.||.||
T Consensus 134 ~~vC~vCG------------y~~~ge~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCG------------YTHEGEAPEVCPICG 156 (166)
T ss_pred EEEcCCCC------------CcccCCCCCcCCCCC
Confidence 48899987 245667888999998
No 64
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=76.67 E-value=1.5 Score=22.85 Aligned_cols=14 Identities=21% Similarity=0.591 Sum_probs=9.4
Q ss_pred CCcccCCCCCCCCC
Q 032068 7 ETTKICSHCDRAIP 20 (148)
Q Consensus 7 ~~~~~C~~C~~~~~ 20 (148)
++++.|..||..|.
T Consensus 2 Dk~l~C~dCg~~Fv 15 (49)
T PF13451_consen 2 DKTLTCKDCGAEFV 15 (49)
T ss_pred CeeEEcccCCCeEE
Confidence 45667777777766
No 65
>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=76.15 E-value=2.1 Score=20.30 Aligned_cols=25 Identities=24% Similarity=0.698 Sum_probs=13.7
Q ss_pred cccCCCCCCCCCcchHHHHHhhcCCCCccccccCC
Q 032068 9 TKICSHCDRAIPSSNIDLHFAHCSRNLERCKVCGD 43 (148)
Q Consensus 9 ~~~C~~C~~~~~~~~l~~H~~~~~~~~~~C~~C~~ 43 (148)
.|.|..||..+.. ...|..|+.|+.
T Consensus 2 ~~~C~~CG~i~~g----------~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEG----------EEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeEC----------CcCCCcCcCCCC
Confidence 3667777765430 112456777764
No 66
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=76.10 E-value=1.3 Score=36.21 Aligned_cols=12 Identities=17% Similarity=0.254 Sum_probs=7.5
Q ss_pred CCcccCCCCCCC
Q 032068 85 QRIVTCDFCEFP 96 (148)
Q Consensus 85 ~~~~~C~~C~~~ 96 (148)
..|..|+.||..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 356677777754
No 67
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.20 E-value=5.5 Score=24.63 Aligned_cols=19 Identities=16% Similarity=0.343 Sum_probs=10.5
Q ss_pred CcccCCCCCCCCC-cchHHH
Q 032068 8 TTKICSHCDRAIP-SSNIDL 26 (148)
Q Consensus 8 ~~~~C~~C~~~~~-~~~l~~ 26 (148)
-|..|+.|+-... ..+|.+
T Consensus 14 LP~~CpiCgLtLVss~HLAR 33 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLAR 33 (112)
T ss_pred CCCcCCcCCCEEeccchHHH
Confidence 4556666666555 444444
No 68
>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=75.12 E-value=1.6 Score=21.76 Aligned_cols=11 Identities=18% Similarity=0.616 Sum_probs=7.1
Q ss_pred ccCCCCCCCCC
Q 032068 10 KICSHCDRAIP 20 (148)
Q Consensus 10 ~~C~~C~~~~~ 20 (148)
|.|..|+..|-
T Consensus 6 y~C~~Cg~~fe 16 (42)
T PF09723_consen 6 YRCEECGHEFE 16 (42)
T ss_pred EEeCCCCCEEE
Confidence 66666666655
No 69
>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=74.22 E-value=1.3 Score=23.09 Aligned_cols=11 Identities=18% Similarity=0.600 Sum_probs=6.8
Q ss_pred ccCCCCCCCCC
Q 032068 10 KICSHCDRAIP 20 (148)
Q Consensus 10 ~~C~~C~~~~~ 20 (148)
|.|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 56666666554
No 70
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=74.07 E-value=2.3 Score=21.53 Aligned_cols=27 Identities=33% Similarity=0.817 Sum_probs=14.8
Q ss_pred ccCCCCCCCCCcchHHHHHhhcCCCCccccccCCcc
Q 032068 10 KICSHCDRAIPSSNIDLHFAHCSRNLERCKVCGDMV 45 (148)
Q Consensus 10 ~~C~~C~~~~~~~~l~~H~~~~~~~~~~C~~C~~~f 45 (148)
|.|..|+..+... ...+..|+.|+...
T Consensus 3 Y~C~~Cg~~~~~~---------~~~~irC~~CG~rI 29 (44)
T smart00659 3 YICGECGRENEIK---------SKDVVRCRECGYRI 29 (44)
T ss_pred EECCCCCCEeecC---------CCCceECCCCCceE
Confidence 6677777765511 12355666666443
No 71
>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=73.98 E-value=2.3 Score=27.93 Aligned_cols=28 Identities=18% Similarity=0.243 Sum_probs=19.6
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCC
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFP 96 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~ 96 (148)
-|.|+.|+..|+. ..+. .-|.||.||..
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred eEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 6678888877777 5543 25788888865
No 72
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=73.70 E-value=1.7 Score=23.11 Aligned_cols=32 Identities=16% Similarity=0.191 Sum_probs=23.4
Q ss_pred cCCCCcccCCCCCCCCC-hhhHHHHHHH-hcccc
Q 032068 82 NCPQRIVTCDFCEFPLP-AVDLAEHQVA-IVNNF 113 (148)
Q Consensus 82 ~~~~~~~~C~~C~~~f~-~~~l~~H~~~-c~~~~ 113 (148)
--||.-+.||-|+..|. +.....|... .+..|
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~~~ 45 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHGWLF 45 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhhhhh
Confidence 34677789999999999 8888888754 34444
No 73
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=73.58 E-value=1.8 Score=29.39 Aligned_cols=46 Identities=22% Similarity=0.348 Sum_probs=23.9
Q ss_pred CCCCCCCcchHHHHHhhcCCCCccccc----cCCccChhhHHHHHHcCCC
Q 032068 14 HCDRAIPSSNIDLHFAHCSRNLERCKV----CGDMVPRKYAEEHFLNTHA 59 (148)
Q Consensus 14 ~C~~~~~~~~l~~H~~~~~~~~~~C~~----C~~~f~~~~l~~h~~~~h~ 59 (148)
.|...++......|+..|..+|+.||. |+..-....+..|....|.
T Consensus 23 GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~ 72 (198)
T PF03145_consen 23 GCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHS 72 (198)
T ss_dssp T---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTT
T ss_pred CCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCC
Confidence 377776666777787777777888876 4333333366667655553
No 74
>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=73.11 E-value=1.5 Score=21.36 Aligned_cols=11 Identities=18% Similarity=0.634 Sum_probs=6.8
Q ss_pred ccCCCCCCCCC
Q 032068 10 KICSHCDRAIP 20 (148)
Q Consensus 10 ~~C~~C~~~~~ 20 (148)
|.|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (41)
T smart00834 6 YRCEDCGHTFE 16 (41)
T ss_pred EEcCCCCCEEE
Confidence 56666666554
No 75
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=71.38 E-value=2.8 Score=28.19 Aligned_cols=29 Identities=21% Similarity=0.336 Sum_probs=21.2
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCC
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPL 97 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f 97 (148)
-|.|+.|+..|+. ..+. .-|.|+.||...
T Consensus 117 ~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred EEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 6788888888877 5442 357889888664
No 76
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=71.25 E-value=7.2 Score=29.67 Aligned_cols=80 Identities=26% Similarity=0.582 Sum_probs=50.5
Q ss_pred CCCCCCCCcchHHHHHhhcCCCCccccc-cCCccChhhHHHHHHc-C-CCCccCccchhccchHHHHhhHhhcCCCCccc
Q 032068 13 SHCDRAIPSSNIDLHFAHCSRNLERCKV-CGDMVPRKYAEEHFLN-T-HAPVACSQCSETMEREILAIHKGENCPQRIVT 89 (148)
Q Consensus 13 ~~C~~~~~~~~l~~H~~~~~~~~~~C~~-C~~~f~~~~l~~h~~~-~-h~~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~ 89 (148)
..|.+......++.|...+ .+.+|+. |+..+...++..|++. + -....|..|+..+....+..|... +..+..
T Consensus 94 ~GC~~~~~l~~~~~Hl~~c--~~~~C~~~C~~~~~~~d~~~hl~~~C~~~~~~c~~~~~~~~~~~~~~h~~~--~~~~~~ 169 (391)
T KOG0297|consen 94 RGCRADLELEALQGHLSTC--DPLKCPHRCGVQVPRDDLEDHLEAECPRRSLKCSLCQSDSILILLEAHEEN--PQAEVS 169 (391)
T ss_pred CCccccccHHHHHhHhccC--CcccCccccccccchHHHHHHHhcccccccccchhhcCccchhhhhhcCCC--CCcccc
Confidence 3577766667777775444 6777876 8877777777777532 1 136667777766666565666543 455666
Q ss_pred CCC-CCCC
Q 032068 90 CDF-CEFP 96 (148)
Q Consensus 90 C~~-C~~~ 96 (148)
|.. |+..
T Consensus 170 c~~k~~~~ 177 (391)
T KOG0297|consen 170 CELKCGKQ 177 (391)
T ss_pred ccccchhh
Confidence 665 6554
No 77
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=70.73 E-value=3.3 Score=26.84 Aligned_cols=34 Identities=21% Similarity=0.358 Sum_probs=22.3
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCC
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPL 97 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f 97 (148)
-|.|+.|+..|.. ..+.. . . ....|.||.||..+
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~-~--d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQL-L--D-MDGTFTCPRCGEEL 133 (147)
T ss_pred EEECcCCCCEeeHHHHHHh-c--C-CCCcEECCCCCCEE
Confidence 7789999988876 43322 1 1 13348999998764
No 78
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=70.23 E-value=1.8 Score=37.51 Aligned_cols=79 Identities=18% Similarity=0.273 Sum_probs=43.6
Q ss_pred hcCCCCccccccCCccChh-hHHHHHHcCCCCccCccchhccch-HHHHhhHhhcCCCCcccCCCCCCCCC-hhhHHHHH
Q 032068 30 HCSRNLERCKVCGDMVPRK-YAEEHFLNTHAPVACSQCSETMER-EILAIHKGENCPQRIVTCDFCEFPLP-AVDLAEHQ 106 (148)
Q Consensus 30 ~~~~~~~~C~~C~~~f~~~-~l~~h~~~~h~~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~f~-~~~l~~H~ 106 (148)
+.-.+.+.|+.|+..+... .+..|.+..|-......|. .+.. ..+..-....++.++|.|..|...+. ...|..|+
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~-~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihl 538 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCK-AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHL 538 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhH-hccccccccccccccCCCCcccceeeeeeeecchHHHHHH
Confidence 4445677788887777766 4555554422111111111 0000 11111111234557899999999988 88999998
Q ss_pred HHh
Q 032068 107 VAI 109 (148)
Q Consensus 107 ~~c 109 (148)
..+
T Consensus 539 qS~ 541 (1406)
T KOG1146|consen 539 QSD 541 (1406)
T ss_pred HHH
Confidence 764
No 79
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=69.54 E-value=3.5 Score=28.01 Aligned_cols=44 Identities=27% Similarity=0.552 Sum_probs=24.1
Q ss_pred ccchhccchHHHHhhHhhcCCCCcccCCC----CCCCCChhhHHHHHHH
Q 032068 64 SQCSETMEREILAIHKGENCPQRIVTCDF----CEFPLPAVDLAEHQVA 108 (148)
Q Consensus 64 ~~C~~~~~~~~l~~h~~~~~~~~~~~C~~----C~~~f~~~~l~~H~~~ 108 (148)
.+|...++......|+. .+.-+|+.||. |+..-....|..|...
T Consensus 22 ~GC~~~~~~~~~~~HE~-~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~ 69 (198)
T PF03145_consen 22 YGCTETFPYSEKREHEE-ECPFRPCSCPFPGSGCDWQGSYKELLDHLRD 69 (198)
T ss_dssp GT---EE-GGGHHHHHH-T-TTSEEE-SSSSTT---EEECCCHHHHHHH
T ss_pred CCCcccccccChhhHhc-cCCCcCCcCCCCCCCccccCCHHHHHHHHHH
Confidence 45777766677777875 57778888877 5544445677788765
No 80
>PF14353 CpXC: CpXC protein
Probab=69.42 E-value=3.2 Score=26.06 Aligned_cols=11 Identities=18% Similarity=0.824 Sum_probs=6.1
Q ss_pred CccCccchhcc
Q 032068 60 PVACSQCSETM 70 (148)
Q Consensus 60 ~~~C~~C~~~~ 70 (148)
.+.|+.||..+
T Consensus 38 ~~~CP~Cg~~~ 48 (128)
T PF14353_consen 38 SFTCPSCGHKF 48 (128)
T ss_pred EEECCCCCCce
Confidence 45556665555
No 81
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=68.24 E-value=3.9 Score=21.10 Aligned_cols=23 Identities=22% Similarity=0.473 Sum_probs=14.7
Q ss_pred ccCCCCCCCCC-h-----hhHHHHHH-Hhc
Q 032068 88 VTCDFCEFPLP-A-----VDLAEHQV-AIV 110 (148)
Q Consensus 88 ~~C~~C~~~f~-~-----~~l~~H~~-~c~ 110 (148)
..|..|++.+. . +.|..|++ .|+
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 46777776654 2 57777776 454
No 82
>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=65.45 E-value=5.7 Score=25.09 Aligned_cols=13 Identities=15% Similarity=0.266 Sum_probs=7.9
Q ss_pred CccCccchhccch
Q 032068 60 PVACSQCSETMER 72 (148)
Q Consensus 60 ~~~C~~C~~~~~~ 72 (148)
|..|++||..|..
T Consensus 26 p~vcP~cg~~~~~ 38 (129)
T TIGR02300 26 PAVSPYTGEQFPP 38 (129)
T ss_pred CccCCCcCCccCc
Confidence 6666666666544
No 83
>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=64.67 E-value=5.3 Score=18.74 Aligned_cols=11 Identities=27% Similarity=0.842 Sum_probs=5.1
Q ss_pred ccCCCCCCCCC
Q 032068 10 KICSHCDRAIP 20 (148)
Q Consensus 10 ~~C~~C~~~~~ 20 (148)
|.|..|+..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 34555555543
No 84
>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=63.50 E-value=4.3 Score=20.21 Aligned_cols=21 Identities=19% Similarity=0.578 Sum_probs=10.6
Q ss_pred CcccCCCCCCCCC-h----hhHHHHH
Q 032068 86 RIVTCDFCEFPLP-A----VDLAEHQ 106 (148)
Q Consensus 86 ~~~~C~~C~~~f~-~----~~l~~H~ 106 (148)
....|..|++.+. . +.|..|+
T Consensus 15 ~~a~C~~C~~~~~~~~~~ts~l~~HL 40 (45)
T PF02892_consen 15 KKAKCKYCGKVIKYSSGGTSNLKRHL 40 (45)
T ss_dssp S-EEETTTTEE-----SSTHHHHHHH
T ss_pred CeEEeCCCCeEEeeCCCcHHHHHHhh
Confidence 3446666766554 2 4666666
No 85
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.17 E-value=3.8 Score=28.15 Aligned_cols=71 Identities=24% Similarity=0.417 Sum_probs=44.0
Q ss_pred ccccc--cCCccChhh-HHHHHHcCCCCccCccchhccch-HHHHhhHhh----------cCCCCcccCC--CCCCCCC-
Q 032068 36 ERCKV--CGDMVPRKY-AEEHFLNTHAPVACSQCSETMER-EILAIHKGE----------NCPQRIVTCD--FCEFPLP- 98 (148)
Q Consensus 36 ~~C~~--C~~~f~~~~-l~~h~~~~h~~~~C~~C~~~~~~-~~l~~h~~~----------~~~~~~~~C~--~C~~~f~- 98 (148)
+.|+. |.+.|...+ ...|....| .-.|..|.+.|+. -.|..|+.. .-|.-.|.|- .|+..|.
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h-~~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT 158 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLH-GNSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKT 158 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcc-cchhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhh
Confidence 45764 444444332 222221222 4579999999977 555666532 3456678884 4999998
Q ss_pred hhhHHHHHH
Q 032068 99 AVDLAEHQV 107 (148)
Q Consensus 99 ~~~l~~H~~ 107 (148)
...-.+|+-
T Consensus 159 ~r~RkdH~I 167 (253)
T KOG4173|consen 159 SRDRKDHMI 167 (253)
T ss_pred hhhhhhHHH
Confidence 777788864
No 86
>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=60.37 E-value=4.7 Score=17.60 Aligned_cols=8 Identities=25% Similarity=0.667 Sum_probs=4.3
Q ss_pred cccCCCCC
Q 032068 87 IVTCDFCE 94 (148)
Q Consensus 87 ~~~C~~C~ 94 (148)
+|.||.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555554
No 87
>PF01530 zf-C2HC: Zinc finger, C2HC type; InterPro: IPR002515 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 CysCysHisCys (C2HC) type zinc finger domain found in eukaryotes. Proteins containing these domains include: MYST family histone acetyltransferases [, [] Myelin transcription factor Myt1 [] Suppressor of tumourigenicity protein 18 (ST18) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2CS8_A 1PXE_A 2JX1_A 2JYD_A.
Probab=60.22 E-value=4.5 Score=18.83 Aligned_cols=12 Identities=33% Similarity=0.601 Sum_probs=8.6
Q ss_pred cchhhhhccccC
Q 032068 136 GSLWESHRTLSS 147 (148)
Q Consensus 136 ~~~~~~~~~~~~ 147 (148)
.-.|++|+||++
T Consensus 16 ~G~~~~H~s~sg 27 (31)
T PF01530_consen 16 TGKYATHRSLSG 27 (31)
T ss_dssp TSSSSB-SSTTT
T ss_pred cCCccCccCccc
Confidence 348999999875
No 88
>PHA00626 hypothetical protein
Probab=59.18 E-value=6.5 Score=21.03 Aligned_cols=18 Identities=11% Similarity=0.165 Sum_probs=13.6
Q ss_pred CcccCCCCCCCCChhhHH
Q 032068 86 RIVTCDFCEFPLPAVDLA 103 (148)
Q Consensus 86 ~~~~C~~C~~~f~~~~l~ 103 (148)
..|.|+.||..|....+.
T Consensus 22 nrYkCkdCGY~ft~~~~~ 39 (59)
T PHA00626 22 DDYVCCDCGYNDSKDAFG 39 (59)
T ss_pred cceEcCCCCCeechhhhh
Confidence 578999999888855443
No 89
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=58.90 E-value=2.7 Score=29.57 Aligned_cols=28 Identities=14% Similarity=0.308 Sum_probs=12.7
Q ss_pred ccCCccChhh-HHHHHHcCCCCccCccchhc
Q 032068 40 VCGDMVPRKY-AEEHFLNTHAPVACSQCSET 69 (148)
Q Consensus 40 ~C~~~f~~~~-l~~h~~~~h~~~~C~~C~~~ 69 (148)
.|.+.|.... |.+|+.. +.|.|.+|.+.
T Consensus 15 ycnrefddekiliqhqka--khfkchichkk 43 (341)
T KOG2893|consen 15 YCNREFDDEKILIQHQKA--KHFKCHICHKK 43 (341)
T ss_pred ecccccchhhhhhhhhhh--ccceeeeehhh
Confidence 4555555442 2334333 34555555443
No 90
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=58.60 E-value=4.1 Score=21.18 Aligned_cols=11 Identities=18% Similarity=0.785 Sum_probs=6.6
Q ss_pred CccCccchhcc
Q 032068 60 PVACSQCSETM 70 (148)
Q Consensus 60 ~~~C~~C~~~~ 70 (148)
.|.|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 45566666655
No 91
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=58.35 E-value=2.9 Score=31.20 Aligned_cols=49 Identities=20% Similarity=0.430 Sum_probs=39.2
Q ss_pred CccCccchhccch-HHHHhhHh--hcCCC--CcccCC--CCCCCCC-hhhHHHHHHH
Q 032068 60 PVACSQCSETMER-EILAIHKG--ENCPQ--RIVTCD--FCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~--~~~~~--~~~~C~--~C~~~f~-~~~l~~H~~~ 108 (148)
++.|..|...|.. ..+..|.+ .|.++ +++.|+ .|++.|. ...+..|...
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~ 345 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILL 345 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccc
Confidence 4677888888877 78888888 78888 899998 6998888 7767777654
No 92
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=57.19 E-value=3.8 Score=28.81 Aligned_cols=30 Identities=23% Similarity=0.641 Sum_probs=16.2
Q ss_pred Cccchhccch-HHHHhhHhhcCCCCcccCCCCCCC
Q 032068 63 CSQCSETMER-EILAIHKGENCPQRIVTCDFCEFP 96 (148)
Q Consensus 63 C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~C~~~ 96 (148)
|=.|.+.|.. ..|.+|+.. +-|+|-.|.+.
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkk 43 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKK 43 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhh
Confidence 4455666655 455555532 44566666654
No 93
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=56.72 E-value=7.2 Score=34.14 Aligned_cols=26 Identities=19% Similarity=0.319 Sum_probs=22.4
Q ss_pred cCCCCcccCCCCCCCCC-cchHHHH-Hh
Q 032068 4 TSDETTKICSHCDRAIP-SSNIDLH-FA 29 (148)
Q Consensus 4 h~~~~~~~C~~C~~~~~-~~~l~~H-~~ 29 (148)
++..+.+.|..|++.|. ...|..| +.
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRs 487 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRS 487 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccc
Confidence 45568899999999999 9999999 54
No 94
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=55.62 E-value=4.6 Score=26.51 Aligned_cols=11 Identities=27% Similarity=0.830 Sum_probs=5.3
Q ss_pred ccccccCCccC
Q 032068 36 ERCKVCGDMVP 46 (148)
Q Consensus 36 ~~C~~C~~~f~ 46 (148)
.+|+.|+..|.
T Consensus 29 ~~c~~c~~~f~ 39 (154)
T PRK00464 29 RECLACGKRFT 39 (154)
T ss_pred eeccccCCcce
Confidence 44555554443
No 95
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=51.64 E-value=26 Score=26.69 Aligned_cols=63 Identities=19% Similarity=0.267 Sum_probs=39.1
Q ss_pred ccchhccchHHHHhhHhhcCCCCcccCCC-CCCCCChhhHHHHH-HHhcccccCCc----chhhhhhhccCc
Q 032068 64 SQCSETMEREILAIHKGENCPQRIVTCDF-CEFPLPAVDLAEHQ-VAIVNNFENGK----TIADLSYLGVML 129 (148)
Q Consensus 64 ~~C~~~~~~~~l~~h~~~~~~~~~~~C~~-C~~~f~~~~l~~H~-~~c~~~~~~~~----~~~~~~~~~~~~ 129 (148)
.+|........++.|... + .+.+|+. |+..+.+..+.+|+ +.|+..-..+. ......++.|.+
T Consensus 94 ~GC~~~~~l~~~~~Hl~~-c--~~~~C~~~C~~~~~~~d~~~hl~~~C~~~~~~c~~~~~~~~~~~~~~h~~ 162 (391)
T KOG0297|consen 94 RGCRADLELEALQGHLST-C--DPLKCPHRCGVQVPRDDLEDHLEAECPRRSLKCSLCQSDSILILLEAHEE 162 (391)
T ss_pred CCccccccHHHHHhHhcc-C--CcccCccccccccchHHHHHHHhcccccccccchhhcCccchhhhhhcCC
Confidence 456555555777777753 2 6778877 88888888888887 45665544433 233344444544
No 96
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=51.03 E-value=9.9 Score=26.97 Aligned_cols=13 Identities=38% Similarity=0.718 Sum_probs=7.7
Q ss_pred CCCCcccCCCCCC
Q 032068 5 SDETTKICSHCDR 17 (148)
Q Consensus 5 ~~~~~~~C~~C~~ 17 (148)
+.++.|.|..|..
T Consensus 108 ~~drqFaC~~Cd~ 120 (278)
T PF15135_consen 108 SVDRQFACSSCDH 120 (278)
T ss_pred ccceeeeccccch
Confidence 3445677777654
No 97
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=50.36 E-value=12 Score=22.10 Aligned_cols=28 Identities=29% Similarity=0.657 Sum_probs=18.5
Q ss_pred CCccccccCCccChhhHHHHHHcCCCCccCccchh
Q 032068 34 NLERCKVCGDMVPRKYAEEHFLNTHAPVACSQCSE 68 (148)
Q Consensus 34 ~~~~C~~C~~~f~~~~l~~h~~~~h~~~~C~~C~~ 68 (148)
+|-.|..||..|....+ ..|..|+.|..
T Consensus 57 ~Pa~CkkCGfef~~~~i-------k~pSRCP~CKS 84 (97)
T COG3357 57 RPARCKKCGFEFRDDKI-------KKPSRCPKCKS 84 (97)
T ss_pred cChhhcccCcccccccc-------CCcccCCcchh
Confidence 46678889877754221 14778888853
No 98
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=49.91 E-value=13 Score=23.63 Aligned_cols=12 Identities=25% Similarity=0.814 Sum_probs=9.0
Q ss_pred cccCCCCCCCCC
Q 032068 9 TKICSHCDRAIP 20 (148)
Q Consensus 9 ~~~C~~C~~~~~ 20 (148)
|++|..|++.|.
T Consensus 1 PH~Ct~Cg~~f~ 12 (131)
T PF09845_consen 1 PHQCTKCGRVFE 12 (131)
T ss_pred CcccCcCCCCcC
Confidence 567777888777
No 99
>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=49.84 E-value=5.4 Score=27.81 Aligned_cols=25 Identities=20% Similarity=0.453 Sum_probs=0.0
Q ss_pred CCCcccCCCCCCCCChhhHHHHHHH
Q 032068 84 PQRIVTCDFCEFPLPAVDLAEHQVA 108 (148)
Q Consensus 84 ~~~~~~C~~C~~~f~~~~l~~H~~~ 108 (148)
+.....|+.||..++-+.+..|+++
T Consensus 165 ~~~~~~cPitGe~IP~~e~~eHmRi 189 (229)
T PF12230_consen 165 KEKMIICPITGEMIPADEMDEHMRI 189 (229)
T ss_dssp -------------------------
T ss_pred ccccccccccccccccccccccccc
Confidence 3455799999999999999999997
No 100
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=49.31 E-value=14 Score=21.75 Aligned_cols=32 Identities=19% Similarity=0.445 Sum_probs=18.1
Q ss_pred CCccccccCCccChhhHHHHHHcCCCCccCccchhccch
Q 032068 34 NLERCKVCGDMVPRKYAEEHFLNTHAPVACSQCSETMER 72 (148)
Q Consensus 34 ~~~~C~~C~~~f~~~~l~~h~~~~h~~~~C~~C~~~~~~ 72 (148)
..+.||.|++..- +-+ .. .-+.|..|+..|..
T Consensus 34 ~~~~Cp~C~~~~V-kR~----a~--GIW~C~kCg~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRTTV-KRI----AT--GIWKCRKCGAKFAG 65 (89)
T ss_pred cCCcCCCCCCcce-eee----cc--CeEEcCCCCCeecc
Confidence 3567888876511 100 00 25778888877743
No 101
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=48.59 E-value=14 Score=16.20 Aligned_cols=8 Identities=25% Similarity=1.045 Sum_probs=4.0
Q ss_pred cCCCCCCC
Q 032068 11 ICSHCDRA 18 (148)
Q Consensus 11 ~C~~C~~~ 18 (148)
.|+.|+..
T Consensus 4 ~Cp~Cg~~ 11 (26)
T PF13248_consen 4 FCPNCGAE 11 (26)
T ss_pred CCcccCCc
Confidence 45555553
No 102
>PF14369 zf-RING_3: zinc-finger
Probab=47.36 E-value=17 Score=17.30 Aligned_cols=30 Identities=17% Similarity=0.418 Sum_probs=15.3
Q ss_pred cccCCCCCCCCC-cchHHHHHhhcCCCCccccccCCccC
Q 032068 9 TKICSHCDRAIP-SSNIDLHFAHCSRNLERCKVCGDMVP 46 (148)
Q Consensus 9 ~~~C~~C~~~~~-~~~l~~H~~~~~~~~~~C~~C~~~f~ 46 (148)
.|-|-.|.+.+. ... +.....|+.|+..|.
T Consensus 2 ~ywCh~C~~~V~~~~~--------~~~~~~CP~C~~gFv 32 (35)
T PF14369_consen 2 RYWCHQCNRFVRIAPS--------PDSDVACPRCHGGFV 32 (35)
T ss_pred CEeCccCCCEeEeCcC--------CCCCcCCcCCCCcEe
Confidence 356667766654 211 111224777776663
No 103
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=46.57 E-value=7.9 Score=24.73 Aligned_cols=12 Identities=17% Similarity=0.523 Sum_probs=7.4
Q ss_pred cccCCCCCCCCC
Q 032068 9 TKICSHCDRAIP 20 (148)
Q Consensus 9 ~~~C~~C~~~~~ 20 (148)
.+.|..|+..|.
T Consensus 70 ~~~C~~CG~~~~ 81 (135)
T PRK03824 70 VLKCRNCGNEWS 81 (135)
T ss_pred EEECCCCCCEEe
Confidence 356666666655
No 104
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=44.38 E-value=13 Score=22.93 Aligned_cols=38 Identities=18% Similarity=0.466 Sum_probs=21.8
Q ss_pred CccCccchhccch-HHHHhhHhhcCCC-CcccCCCCCCCCC
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQ-RIVTCDFCEFPLP 98 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~-~~~~C~~C~~~f~ 98 (148)
...|+.||..=+. ..++-.- .-.|+ .-|.|+.|++.|.
T Consensus 74 ~~kCpkCghe~m~Y~T~QlRS-ADEGQTVFYTC~kC~~k~~ 113 (116)
T KOG2907|consen 74 KHKCPKCGHEEMSYHTLQLRS-ADEGQTVFYTCPKCKYKFT 113 (116)
T ss_pred hccCcccCCchhhhhhhhccc-ccCCceEEEEcCccceeee
Confidence 4578888865544 3333221 12222 3478999988775
No 105
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=44.11 E-value=21 Score=15.79 Aligned_cols=22 Identities=23% Similarity=0.412 Sum_probs=12.3
Q ss_pred cCCCCCCC-CChhhHHHHHHHhc
Q 032068 89 TCDFCEFP-LPAVDLAEHQVAIV 110 (148)
Q Consensus 89 ~C~~C~~~-f~~~~l~~H~~~c~ 110 (148)
.|++-..- ++...|..|+..|.
T Consensus 4 ~CPyn~~H~v~~~~l~~Hi~~C~ 26 (27)
T PF05253_consen 4 RCPYNPSHRVPASELQKHIKKCP 26 (27)
T ss_dssp E-TTTSS-EEEGGGHHHHHHHHH
T ss_pred eCCCCCCcCcCHHHHHHHHHHcC
Confidence 45543333 33677888887775
No 106
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=42.85 E-value=17 Score=27.18 Aligned_cols=59 Identities=24% Similarity=0.408 Sum_probs=35.1
Q ss_pred hHHHHHHcCCCCccCccch---hcc-------chHHHHhhHhhcCCCCcc----cCCCCCCCCC-hhhHHHHHH
Q 032068 49 YAEEHFLNTHAPVACSQCS---ETM-------EREILAIHKGENCPQRIV----TCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 49 ~l~~h~~~~h~~~~C~~C~---~~~-------~~~~l~~h~~~~~~~~~~----~C~~C~~~f~-~~~l~~H~~ 107 (148)
.+..|....|..+.|..|- +.| ....|..|......+.-| .|.+|...|- ...|..|.+
T Consensus 168 ~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR 241 (493)
T COG5236 168 ELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCR 241 (493)
T ss_pred HHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhccceecChHHHHHHHH
Confidence 5666665545556666653 223 235677776543333222 5778887777 778888865
No 107
>PRK04023 DNA polymerase II large subunit; Validated
Probab=42.17 E-value=40 Score=29.13 Aligned_cols=10 Identities=20% Similarity=0.408 Sum_probs=5.7
Q ss_pred cccCCCCCCC
Q 032068 87 IVTCDFCEFP 96 (148)
Q Consensus 87 ~~~C~~C~~~ 96 (148)
++.|+.|+..
T Consensus 663 ~y~CPKCG~E 672 (1121)
T PRK04023 663 EDECEKCGRE 672 (1121)
T ss_pred CCcCCCCCCC
Confidence 3556666654
No 108
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=41.15 E-value=12 Score=20.10 Aligned_cols=34 Identities=15% Similarity=0.365 Sum_probs=15.6
Q ss_pred cCCCCCCCCC--cchHHHH-HhhcCCCCccccccCCc
Q 032068 11 ICSHCDRAIP--SSNIDLH-FAHCSRNLERCKVCGDM 44 (148)
Q Consensus 11 ~C~~C~~~~~--~~~l~~H-~~~~~~~~~~C~~C~~~ 44 (148)
.|..|++.+. ..++..- +...+..+|.|+.|...
T Consensus 4 kC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~R 40 (56)
T PF09963_consen 4 KCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKER 40 (56)
T ss_pred EEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHH
Confidence 4555555544 2233333 23344445555555433
No 109
>PF12907 zf-met2: Zinc-binding
Probab=40.79 E-value=4.9 Score=19.94 Aligned_cols=18 Identities=22% Similarity=0.599 Sum_probs=9.3
Q ss_pred ccCCCCCCCCC-c---chHHHH
Q 032068 10 KICSHCDRAIP-S---SNIDLH 27 (148)
Q Consensus 10 ~~C~~C~~~~~-~---~~l~~H 27 (148)
+.|..|..+|. . ..|.+|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH 23 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEH 23 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHH
Confidence 45666664444 2 345566
No 110
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=39.94 E-value=15 Score=22.65 Aligned_cols=9 Identities=33% Similarity=0.789 Sum_probs=4.3
Q ss_pred cccccCCcc
Q 032068 37 RCKVCGDMV 45 (148)
Q Consensus 37 ~C~~C~~~f 45 (148)
.|..|+..|
T Consensus 72 ~C~~Cg~~~ 80 (113)
T PRK12380 72 WCWDCSQVV 80 (113)
T ss_pred EcccCCCEE
Confidence 455555443
No 111
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=39.78 E-value=30 Score=17.06 Aligned_cols=11 Identities=18% Similarity=0.591 Sum_probs=6.3
Q ss_pred ccCCCCCCCCC
Q 032068 10 KICSHCDRAIP 20 (148)
Q Consensus 10 ~~C~~C~~~~~ 20 (148)
..|+.|+..|.
T Consensus 14 ~~C~~CgM~Y~ 24 (41)
T PF13878_consen 14 TTCPTCGMLYS 24 (41)
T ss_pred cCCCCCCCEEC
Confidence 45666666555
No 112
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=39.67 E-value=32 Score=18.09 Aligned_cols=33 Identities=24% Similarity=0.344 Sum_probs=19.2
Q ss_pred CccCccchhccchHHHHhhHhhcCCCCcccCCCCCC
Q 032068 60 PVACSQCSETMEREILAIHKGENCPQRIVTCDFCEF 95 (148)
Q Consensus 60 ~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~C~~ 95 (148)
.-.|..|+-..+...+.. ...++....|+.||+
T Consensus 22 ~~~C~gC~~~l~~~~~~~---i~~~~~i~~Cp~CgR 54 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNE---IRKGDEIVFCPNCGR 54 (56)
T ss_pred CCccCCCCEEcCHHHHHH---HHcCCCeEECcCCCc
Confidence 346777776666543332 123356677888875
No 113
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=39.10 E-value=27 Score=25.41 Aligned_cols=38 Identities=16% Similarity=0.227 Sum_probs=29.4
Q ss_pred CCCcccCCCCCCCCC-hhhHHHHHHHhcccccCCcchhh
Q 032068 84 PQRIVTCDFCEFPLP-AVDLAEHQVAIVNNFENGKTIAD 121 (148)
Q Consensus 84 ~~~~~~C~~C~~~f~-~~~l~~H~~~c~~~~~~~~~~~~ 121 (148)
....|.|+.|=+-|. ...+..|...|..+..++..+.+
T Consensus 45 ~~~lyiCe~Clky~~~~~~l~~H~~~C~~r~PPG~eIYr 83 (290)
T PLN03238 45 CTKLYICEYCLKYMRKKKSLLRHLAKCDIRQPPGGGIYG 83 (290)
T ss_pred CCeEEEcCCCcchhCCHHHHHHHHHhCCCCCCCcCEeEe
Confidence 346788888887777 88889998888877777666665
No 114
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=38.84 E-value=5.4 Score=19.66 Aligned_cols=10 Identities=20% Similarity=0.537 Sum_probs=5.9
Q ss_pred ccCCCCCCCC
Q 032068 88 VTCDFCEFPL 97 (148)
Q Consensus 88 ~~C~~C~~~f 97 (148)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5666666543
No 115
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.28 E-value=91 Score=25.76 Aligned_cols=19 Identities=26% Similarity=0.502 Sum_probs=9.8
Q ss_pred cCCCCCCCCC-hhhHHHHHH
Q 032068 89 TCDFCEFPLP-AVDLAEHQV 107 (148)
Q Consensus 89 ~C~~C~~~f~-~~~l~~H~~ 107 (148)
.|++|...|. ...|..|++
T Consensus 184 ~C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLR 203 (669)
T ss_pred cchhhhhhhccHHHHHHhhc
Confidence 3445555555 555555554
No 116
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=36.61 E-value=39 Score=29.94 Aligned_cols=27 Identities=19% Similarity=0.573 Sum_probs=15.0
Q ss_pred CccCccchhccchHHHHhhHhhcCCCCcccCCCCCCC
Q 032068 60 PVACSQCSETMEREILAIHKGENCPQRIVTCDFCEFP 96 (148)
Q Consensus 60 ~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~ 96 (148)
.+.|+.||...... .++ ...|+.|+..
T Consensus 692 vy~CPsCGaev~~d--------es~--a~~CP~CGtp 718 (1337)
T PRK14714 692 VYVCPDCGAEVPPD--------ESG--RVECPRCDVE 718 (1337)
T ss_pred ceeCccCCCccCCC--------ccc--cccCCCCCCc
Confidence 56777777554330 011 3368888854
No 117
>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=36.56 E-value=13 Score=19.46 Aligned_cols=14 Identities=21% Similarity=0.368 Sum_probs=4.3
Q ss_pred CccccccCCccChh
Q 032068 35 LERCKVCGDMVPRK 48 (148)
Q Consensus 35 ~~~C~~C~~~f~~~ 48 (148)
.+.|+.|...|-..
T Consensus 21 ~y~C~~C~~~FC~d 34 (51)
T PF07975_consen 21 RYRCPKCKNHFCID 34 (51)
T ss_dssp EE--TTTT--B-HH
T ss_pred eEECCCCCCccccC
Confidence 34455555555444
No 118
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.55 E-value=20 Score=22.24 Aligned_cols=9 Identities=33% Similarity=0.970 Sum_probs=4.0
Q ss_pred cccccCCcc
Q 032068 37 RCKVCGDMV 45 (148)
Q Consensus 37 ~C~~C~~~f 45 (148)
.|..|+..|
T Consensus 73 ~C~~Cg~~~ 81 (117)
T PRK00564 73 ECKDCSHVF 81 (117)
T ss_pred EhhhCCCcc
Confidence 344454333
No 119
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=35.95 E-value=28 Score=26.79 Aligned_cols=16 Identities=13% Similarity=0.077 Sum_probs=9.4
Q ss_pred CCCccccccCCccChh
Q 032068 33 RNLERCKVCGDMVPRK 48 (148)
Q Consensus 33 ~~~~~C~~C~~~f~~~ 48 (148)
...|.|+.|.++|...
T Consensus 126 ~~~Y~Cp~C~kkyt~L 141 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSL 141 (436)
T ss_pred cccccCCccccchhhh
Confidence 3456666666666554
No 120
>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=35.80 E-value=22 Score=21.97 Aligned_cols=9 Identities=33% Similarity=0.970 Sum_probs=4.4
Q ss_pred cccccCCcc
Q 032068 37 RCKVCGDMV 45 (148)
Q Consensus 37 ~C~~C~~~f 45 (148)
.|..|+..|
T Consensus 72 ~C~~Cg~~~ 80 (115)
T TIGR00100 72 ECEDCSEEV 80 (115)
T ss_pred EcccCCCEE
Confidence 455555444
No 121
>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=34.98 E-value=12 Score=29.58 Aligned_cols=8 Identities=50% Similarity=1.373 Sum_probs=3.8
Q ss_pred CccCccch
Q 032068 60 PVACSQCS 67 (148)
Q Consensus 60 ~~~C~~C~ 67 (148)
|..|+.|+
T Consensus 253 ~~~Cp~C~ 260 (505)
T TIGR00595 253 PKTCPQCG 260 (505)
T ss_pred CCCCCCCC
Confidence 44455554
No 122
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=34.20 E-value=21 Score=22.03 Aligned_cols=8 Identities=25% Similarity=0.929 Sum_probs=3.9
Q ss_pred cccccCCc
Q 032068 37 RCKVCGDM 44 (148)
Q Consensus 37 ~C~~C~~~ 44 (148)
.|..|+..
T Consensus 72 ~C~~Cg~~ 79 (114)
T PRK03681 72 WCETCQQY 79 (114)
T ss_pred EcccCCCe
Confidence 45555543
No 123
>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=33.24 E-value=12 Score=23.05 Aligned_cols=9 Identities=44% Similarity=1.206 Sum_probs=4.1
Q ss_pred cccccCCcc
Q 032068 37 RCKVCGDMV 45 (148)
Q Consensus 37 ~C~~C~~~f 45 (148)
.|..|+..|
T Consensus 72 ~C~~Cg~~~ 80 (113)
T PF01155_consen 72 RCRDCGHEF 80 (113)
T ss_dssp EETTTS-EE
T ss_pred ECCCCCCEE
Confidence 455555444
No 124
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=32.33 E-value=28 Score=18.50 Aligned_cols=10 Identities=20% Similarity=0.737 Sum_probs=5.9
Q ss_pred cCCCCCCCCC
Q 032068 11 ICSHCDRAIP 20 (148)
Q Consensus 11 ~C~~C~~~~~ 20 (148)
.|..|++.|.
T Consensus 7 ~C~~Cg~~~~ 16 (54)
T PF14446_consen 7 KCPVCGKKFK 16 (54)
T ss_pred cChhhCCccc
Confidence 4666666654
No 125
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=32.16 E-value=13 Score=19.79 Aligned_cols=34 Identities=24% Similarity=0.584 Sum_probs=16.5
Q ss_pred CccccccCCccChhhHHHHHHcCCCCccCccchhc
Q 032068 35 LERCKVCGDMVPRKYAEEHFLNTHAPVACSQCSET 69 (148)
Q Consensus 35 ~~~C~~C~~~f~~~~l~~h~~~~h~~~~C~~C~~~ 69 (148)
...||.|+.+...+-.. .......|..|+.|.+.
T Consensus 4 Wi~CP~CgnKTR~kir~-DT~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 4 WILCPICGNKTRLKIRE-DTVLKNFPLYCPKCKQE 37 (55)
T ss_pred EEECCCCCCccceeeec-CceeccccccCCCCCce
Confidence 45677777665433100 10010137777777544
No 126
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.32 E-value=15 Score=21.02 Aligned_cols=30 Identities=20% Similarity=0.538 Sum_probs=15.7
Q ss_pred ccCCCCCCCCCcchHHHHHhhcCCCCccccccCCc
Q 032068 10 KICSHCDRAIPSSNIDLHFAHCSRNLERCKVCGDM 44 (148)
Q Consensus 10 ~~C~~C~~~~~~~~l~~H~~~~~~~~~~C~~C~~~ 44 (148)
|+|.+|+..|. +.+++...+ ...|+.|+..
T Consensus 13 Y~c~~cg~~~d---vvq~~~ddp--lt~ce~c~a~ 42 (82)
T COG2331 13 YECTECGNRFD---VVQAMTDDP--LTTCEECGAR 42 (82)
T ss_pred EeecccchHHH---HHHhcccCc--cccChhhChH
Confidence 67777777643 322322222 3457777654
No 127
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=30.30 E-value=35 Score=24.20 Aligned_cols=11 Identities=27% Similarity=0.703 Sum_probs=6.8
Q ss_pred CccCccchhcc
Q 032068 60 PVACSQCSETM 70 (148)
Q Consensus 60 ~~~C~~C~~~~ 70 (148)
...||.||+..
T Consensus 221 iv~CP~CgRIL 231 (239)
T COG1579 221 IVFCPYCGRIL 231 (239)
T ss_pred CccCCccchHH
Confidence 55677777543
No 128
>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=30.17 E-value=18 Score=17.39 Aligned_cols=9 Identities=22% Similarity=0.892 Sum_probs=4.5
Q ss_pred cCccchhcc
Q 032068 62 ACSQCSETM 70 (148)
Q Consensus 62 ~C~~C~~~~ 70 (148)
.|+.||+.|
T Consensus 3 ~C~~Cg~~Y 11 (36)
T PF05191_consen 3 ICPKCGRIY 11 (36)
T ss_dssp EETTTTEEE
T ss_pred CcCCCCCcc
Confidence 355555544
No 129
>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=28.94 E-value=48 Score=16.62 Aligned_cols=16 Identities=25% Similarity=0.580 Sum_probs=12.1
Q ss_pred cCCCCCCCCC-hhhHHH
Q 032068 89 TCDFCEFPLP-AVDLAE 104 (148)
Q Consensus 89 ~C~~C~~~f~-~~~l~~ 104 (148)
.|+.|++.|. +.....
T Consensus 10 ~C~~C~rpf~WRKKW~~ 26 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWAR 26 (42)
T ss_pred cCcccCCcchHHHHHHH
Confidence 5888888888 766654
No 130
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.71 E-value=42 Score=20.70 Aligned_cols=19 Identities=11% Similarity=0.165 Sum_probs=12.7
Q ss_pred CcccCCCCCCCCChhhHHH
Q 032068 86 RIVTCDFCEFPLPAVDLAE 104 (148)
Q Consensus 86 ~~~~C~~C~~~f~~~~l~~ 104 (148)
.|..|++||++|+++-|..
T Consensus 25 dPiVsPytG~s~P~s~fe~ 43 (129)
T COG4530 25 DPIVSPYTGKSYPRSYFEE 43 (129)
T ss_pred CccccCcccccchHHHHHh
Confidence 4667777888777655544
No 131
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=28.55 E-value=32 Score=16.78 Aligned_cols=12 Identities=25% Similarity=0.539 Sum_probs=8.8
Q ss_pred cccCCCCCCCCC
Q 032068 9 TKICSHCDRAIP 20 (148)
Q Consensus 9 ~~~C~~C~~~~~ 20 (148)
|+.|..|++.|-
T Consensus 12 ~f~C~~C~~~FC 23 (39)
T smart00154 12 GFKCRHCGNLFC 23 (39)
T ss_pred CeECCccCCccc
Confidence 677777777765
No 132
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=26.04 E-value=33 Score=19.40 Aligned_cols=12 Identities=33% Similarity=0.617 Sum_probs=7.3
Q ss_pred CccCc--cchhccc
Q 032068 60 PVACS--QCSETME 71 (148)
Q Consensus 60 ~~~C~--~C~~~~~ 71 (148)
-+.|. .||..|.
T Consensus 27 Y~qC~N~eCg~tF~ 40 (72)
T PRK09678 27 YHQCQNVNCSATFI 40 (72)
T ss_pred eeecCCCCCCCEEE
Confidence 45564 6776664
No 133
>PTZ00064 histone acetyltransferase; Provisional
Probab=25.91 E-value=41 Score=26.66 Aligned_cols=37 Identities=16% Similarity=0.237 Sum_probs=30.1
Q ss_pred CCcccCCCCCCCCC-hhhHHHHHHHhcccccCCcchhh
Q 032068 85 QRIVTCDFCEFPLP-AVDLAEHQVAIVNNFENGKTIAD 121 (148)
Q Consensus 85 ~~~~~C~~C~~~f~-~~~l~~H~~~c~~~~~~~~~~~~ 121 (148)
...|.|++|=+-|. ...|..|...|.....++..+.+
T Consensus 278 d~LYICEfCLkY~~s~~~l~rH~~~C~~rhPPG~EIYR 315 (552)
T PTZ00064 278 DTLHFCEYCLDFFCFEDELIRHLSRCQLRHPPGNEIYR 315 (552)
T ss_pred CeEEEccchhhhhCCHHHHHHHHhcCCCCCCCCCeEEE
Confidence 45788999988888 89999999999887777776654
No 134
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=25.88 E-value=68 Score=20.61 Aligned_cols=16 Identities=19% Similarity=0.372 Sum_probs=11.8
Q ss_pred CCCCcccCCCCCCCCC
Q 032068 5 SDETTKICSHCDRAIP 20 (148)
Q Consensus 5 ~~~~~~~C~~C~~~~~ 20 (148)
.+.+-|+|..|.++..
T Consensus 76 ~d~~lYeCnIC~etS~ 91 (140)
T PF05290_consen 76 LDPKLYECNICKETSA 91 (140)
T ss_pred cCCCceeccCcccccc
Confidence 3456799999988754
No 135
>PRK05978 hypothetical protein; Provisional
Probab=25.47 E-value=28 Score=22.71 Aligned_cols=7 Identities=43% Similarity=1.265 Sum_probs=3.4
Q ss_pred cCccchh
Q 032068 62 ACSQCSE 68 (148)
Q Consensus 62 ~C~~C~~ 68 (148)
.|+.||+
T Consensus 35 rCP~CG~ 41 (148)
T PRK05978 35 RCPACGE 41 (148)
T ss_pred cCCCCCC
Confidence 4555543
No 136
>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=25.34 E-value=20 Score=17.78 Aligned_cols=12 Identities=17% Similarity=0.476 Sum_probs=7.1
Q ss_pred CcccCCCCCCCC
Q 032068 86 RIVTCDFCEFPL 97 (148)
Q Consensus 86 ~~~~C~~C~~~f 97 (148)
.|+.|+.|+..|
T Consensus 12 ~~~~C~~C~~~F 23 (43)
T PF01428_consen 12 LPFKCKHCGKSF 23 (43)
T ss_dssp SHEE-TTTS-EE
T ss_pred CCeECCCCCccc
Confidence 467788887765
No 137
>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=25.32 E-value=16 Score=16.55 Aligned_cols=9 Identities=33% Similarity=1.103 Sum_probs=3.8
Q ss_pred Cccchhccc
Q 032068 63 CSQCSETME 71 (148)
Q Consensus 63 C~~C~~~~~ 71 (148)
|..|++.|.
T Consensus 3 CiDC~~~F~ 11 (28)
T PF08790_consen 3 CIDCSKDFD 11 (28)
T ss_dssp ETTTTEEEE
T ss_pred eecCCCCcC
Confidence 334444443
No 138
>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=24.64 E-value=26 Score=17.64 Aligned_cols=9 Identities=22% Similarity=0.626 Sum_probs=4.0
Q ss_pred CcccCCCCC
Q 032068 86 RIVTCDFCE 94 (148)
Q Consensus 86 ~~~~C~~C~ 94 (148)
..|.|..|+
T Consensus 36 ~~~~C~~C~ 44 (46)
T PF12760_consen 36 GRYRCKACR 44 (46)
T ss_pred CeEECCCCC
Confidence 344444443
No 139
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=24.26 E-value=13 Score=30.60 Aligned_cols=11 Identities=27% Similarity=0.631 Sum_probs=6.2
Q ss_pred ccccCCccChh
Q 032068 38 CKVCGDMVPRK 48 (148)
Q Consensus 38 C~~C~~~f~~~ 48 (148)
|..||-.|+.-
T Consensus 126 CT~CGPRfTIi 136 (750)
T COG0068 126 CTNCGPRFTII 136 (750)
T ss_pred cCCCCcceeee
Confidence 66666665533
No 140
>PF12773 DZR: Double zinc ribbon
Probab=23.89 E-value=1e+02 Score=15.43 Aligned_cols=9 Identities=22% Similarity=0.792 Sum_probs=4.7
Q ss_pred CccCccchh
Q 032068 60 PVACSQCSE 68 (148)
Q Consensus 60 ~~~C~~C~~ 68 (148)
...|+.|+.
T Consensus 29 ~~~C~~Cg~ 37 (50)
T PF12773_consen 29 KKICPNCGA 37 (50)
T ss_pred CCCCcCCcC
Confidence 445555553
No 141
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=23.36 E-value=68 Score=21.36 Aligned_cols=11 Identities=18% Similarity=0.184 Sum_probs=5.3
Q ss_pred ccCCCCCCCCC
Q 032068 88 VTCDFCEFPLP 98 (148)
Q Consensus 88 ~~C~~C~~~f~ 98 (148)
+.|+.|++.|=
T Consensus 131 ~~C~~CgkiYW 141 (165)
T COG1656 131 YRCPKCGKIYW 141 (165)
T ss_pred eECCCCccccc
Confidence 34555555443
No 142
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=23.30 E-value=36 Score=17.80 Aligned_cols=18 Identities=28% Similarity=0.702 Sum_probs=11.3
Q ss_pred cccCCCCCCCCChhhHHH
Q 032068 87 IVTCDFCEFPLPAVDLAE 104 (148)
Q Consensus 87 ~~~C~~C~~~f~~~~l~~ 104 (148)
.|.|+.|...|+.+.|..
T Consensus 7 ry~CDLCn~~~p~~~LRQ 24 (57)
T PF14445_consen 7 RYSCDLCNSSHPISELRQ 24 (57)
T ss_pred hHhHHhhcccCcHHHHHH
Confidence 466777777777555443
No 143
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=23.19 E-value=50 Score=24.81 Aligned_cols=22 Identities=27% Similarity=0.445 Sum_probs=19.7
Q ss_pred cccCCCCCCCCC-hhhHHHHHHH
Q 032068 87 IVTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 87 ~~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
...|-.|.+.|+ +..|++|++.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 467889999999 9999999986
No 144
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=23.17 E-value=55 Score=17.44 Aligned_cols=31 Identities=23% Similarity=0.394 Sum_probs=15.7
Q ss_pred CCccCccchhccchHHHHhhHhhcCCCCcccCCC
Q 032068 59 APVACSQCSETMEREILAIHKGENCPQRIVTCDF 92 (148)
Q Consensus 59 ~~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~ 92 (148)
.|+....|+..|..+.+...+ .......||.
T Consensus 23 ~PV~s~~C~H~fek~aI~~~i---~~~~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFEKEAILQYI---QRNGSKRCPV 53 (57)
T ss_dssp SEEEESSS--EEEHHHHHHHC---TTTS-EE-SC
T ss_pred CCcCcCCCCCeecHHHHHHHH---HhcCCCCCCC
Confidence 366666777777775555544 2234556665
No 145
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.98 E-value=28 Score=18.98 Aligned_cols=35 Identities=20% Similarity=0.366 Sum_probs=15.7
Q ss_pred cCCCCCCCCC--cchHHHH-HhhcCCCCccccccCCcc
Q 032068 11 ICSHCDRAIP--SSNIDLH-FAHCSRNLERCKVCGDMV 45 (148)
Q Consensus 11 ~C~~C~~~~~--~~~l~~H-~~~~~~~~~~C~~C~~~f 45 (148)
.|..|++.-. ...+..- ....+.+.|.|++|....
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~Rv 41 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRV 41 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHhhh
Confidence 3445544422 3333333 344455555566555433
No 146
>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=22.96 E-value=44 Score=20.32 Aligned_cols=12 Identities=25% Similarity=0.592 Sum_probs=6.7
Q ss_pred cccCCCCCCCCC
Q 032068 9 TKICSHCDRAIP 20 (148)
Q Consensus 9 ~~~C~~C~~~~~ 20 (148)
|..|+.|+....
T Consensus 2 p~~CpYCg~~~~ 13 (102)
T PF11672_consen 2 PIICPYCGGPAE 13 (102)
T ss_pred CcccCCCCCeeE
Confidence 455666665543
No 147
>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=22.76 E-value=50 Score=23.02 Aligned_cols=25 Identities=12% Similarity=0.206 Sum_probs=16.8
Q ss_pred CCCcccCCCCCCCCC-hhhHHHHHHH
Q 032068 84 PQRIVTCDFCEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 84 ~~~~~~C~~C~~~f~-~~~l~~H~~~ 108 (148)
.+.-|.|+.|+|.|. ..=+..|+..
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 455689999999998 6666777653
No 148
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=22.76 E-value=2.7 Score=20.62 Aligned_cols=9 Identities=22% Similarity=0.512 Sum_probs=4.9
Q ss_pred ccCCCCCCC
Q 032068 88 VTCDFCEFP 96 (148)
Q Consensus 88 ~~C~~C~~~ 96 (148)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (39)
T PF01096_consen 29 YVCCNCGHR 37 (39)
T ss_dssp EEESSSTEE
T ss_pred EEeCCCCCe
Confidence 556666543
No 149
>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=22.71 E-value=72 Score=21.14 Aligned_cols=48 Identities=17% Similarity=0.394 Sum_probs=29.9
Q ss_pred CccCccchhccch-HHHHhhHhhcCCCCcccCCC--CCCCCChhhHHHHHHH
Q 032068 60 PVACSQCSETMER-EILAIHKGENCPQRIVTCDF--CEFPLPAVDLAEHQVA 108 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~--C~~~f~~~~l~~H~~~ 108 (148)
...|+.|.-.+.. .... ..+.+-..|+-.|.. |.+......|..|.+.
T Consensus 80 ~L~CPLCRG~V~GWtvve-~AR~~LN~K~RsC~~e~C~F~GtY~eLrKHar~ 130 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVVE-PARRFLNAKKRSCSQESCSFSGTYSELRKHARS 130 (162)
T ss_pred cccCccccCceeceEEch-HHHHHhccCCccCcccccccccCHHHHHHHHHh
Confidence 6678888655543 2221 133334445556654 8777678899999876
No 150
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=22.15 E-value=46 Score=20.94 Aligned_cols=22 Identities=18% Similarity=0.360 Sum_probs=18.1
Q ss_pred CccCccchhccch-HHHHhhHhh
Q 032068 60 PVACSQCSETMER-EILAIHKGE 81 (148)
Q Consensus 60 ~~~C~~C~~~~~~-~~l~~h~~~ 81 (148)
-|.|..|.+-|.. +.|..|.++
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhc
Confidence 5789999999987 888888764
No 151
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=21.99 E-value=30 Score=18.01 Aligned_cols=12 Identities=25% Similarity=0.794 Sum_probs=6.7
Q ss_pred cccccCCccChh
Q 032068 37 RCKVCGDMVPRK 48 (148)
Q Consensus 37 ~C~~C~~~f~~~ 48 (148)
.||.|++.|...
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 799999998766
No 152
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=20.78 E-value=52 Score=25.70 Aligned_cols=37 Identities=19% Similarity=0.307 Sum_probs=29.3
Q ss_pred CCcccCCCCCCCCC-hhhHHHHHHHhcccccCCcchhh
Q 032068 85 QRIVTCDFCEFPLP-AVDLAEHQVAIVNNFENGKTIAD 121 (148)
Q Consensus 85 ~~~~~C~~C~~~f~-~~~l~~H~~~c~~~~~~~~~~~~ 121 (148)
...|.|++|=+-|. ...|..|+..|...-.++..+.+
T Consensus 196 ~~lyiCe~Cl~y~~~~~~~~~H~~~C~~~~PPG~eIYr 233 (450)
T PLN00104 196 SKLYFCEFCLKFMKRKEQLQRHMKKCDLKHPPGDEIYR 233 (450)
T ss_pred CeEEEchhhhhhhcCHHHHHHHHhcCCCCCCCcCeEEE
Confidence 45788999988888 89999999999777666665554
No 153
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=20.71 E-value=30 Score=22.68 Aligned_cols=13 Identities=23% Similarity=0.636 Sum_probs=10.3
Q ss_pred CccCccchhccch
Q 032068 60 PVACSQCSETMER 72 (148)
Q Consensus 60 ~~~C~~C~~~~~~ 72 (148)
.-.|+.|+..|..
T Consensus 28 RReC~~C~~RFTT 40 (156)
T COG1327 28 RRECLECGERFTT 40 (156)
T ss_pred hhcccccccccch
Confidence 5679999988865
No 154
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=20.68 E-value=1.8e+02 Score=21.42 Aligned_cols=96 Identities=20% Similarity=0.407 Sum_probs=54.2
Q ss_pred ccCCCCCCCCCcchHHH---H-H-hhcC-CCCccccccCCccChh-hH-HHHHHcCCCCccC----ccchhccch-HHHH
Q 032068 10 KICSHCDRAIPSSNIDL---H-F-AHCS-RNLERCKVCGDMVPRK-YA-EEHFLNTHAPVAC----SQCSETMER-EILA 76 (148)
Q Consensus 10 ~~C~~C~~~~~~~~l~~---H-~-~~~~-~~~~~C~~C~~~f~~~-~l-~~h~~~~h~~~~C----~~C~~~~~~-~~l~ 76 (148)
..|+.|...+...-++- | . ..+- +....||.|...+... .+ ..+... ...+.| .+|.+.|.- .. .
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e-~~~vpC~~~~~GC~~~~~Y~~~-~ 126 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAE-AVLVPCKNAKLGCTKSFPYGEK-S 126 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHH-hceecccccccCCceeeccccc-c
Confidence 46777766654333332 3 2 2232 6677888888776633 11 111111 123444 578888876 44 6
Q ss_pred hhHhhcCCCCcccCCC----CCCCCChhhHHHHHHH
Q 032068 77 IHKGENCPQRIVTCDF----CEFPLPAVDLAEHQVA 108 (148)
Q Consensus 77 ~h~~~~~~~~~~~C~~----C~~~f~~~~l~~H~~~ 108 (148)
.|++. +.-.|+.||. |...-....|..|.+.
T Consensus 127 ~HE~~-C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~ 161 (299)
T KOG3002|consen 127 KHEKV-CEFRPCSCPVPGAECKYTGSYKDLYAHLND 161 (299)
T ss_pred ccccc-cccCCcCCCCCcccCCccCcHHHHHHHHHh
Confidence 77764 4448888876 4444446778888765
No 155
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=20.56 E-value=59 Score=24.13 Aligned_cols=50 Identities=22% Similarity=0.615 Sum_probs=37.4
Q ss_pred CCccCccchhccch-HHHHhhHhhcCCCCcccCCC--CCCCCC-hhhHHHHHHH
Q 032068 59 APVACSQCSETMER-EILAIHKGENCPQRIVTCDF--CEFPLP-AVDLAEHQVA 108 (148)
Q Consensus 59 ~~~~C~~C~~~~~~-~~l~~h~~~~~~~~~~~C~~--C~~~f~-~~~l~~H~~~ 108 (148)
..+.|+.|...|.. .....|.+.+.+++++.|.. |...+. ...+..|...
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (467)
T COG5048 32 RPDSCPNCTDSFSRLEHLTRHIRSHTGEKPSQCSYSGCDKSFSRPLELSRHLRT 85 (467)
T ss_pred chhhcccccccccccchhhhhcccccccCCccccccccccccCCcchhhhhccc
Confidence 36788899888877 88888899999999999987 444455 5555555543
No 156
>KOG2612 consensus Predicted integral membrane protein [Function unknown]
Probab=20.37 E-value=65 Score=18.96 Aligned_cols=22 Identities=23% Similarity=0.495 Sum_probs=16.7
Q ss_pred cCCCCCCCCChhhHHHHHHHhc
Q 032068 89 TCDFCEFPLPAVDLAEHQVAIV 110 (148)
Q Consensus 89 ~C~~C~~~f~~~~l~~H~~~c~ 110 (148)
.|+.|++.+.-.-+..|+..|.
T Consensus 76 hCeNC~RdVaAaR~AaHLekCl 97 (103)
T KOG2612|consen 76 HCENCDRDVAAARFAAHLEKCL 97 (103)
T ss_pred cCCCCccHHHHHHHHHHHHHHH
Confidence 5677888777667788888774
No 157
>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=20.30 E-value=12 Score=17.88 Aligned_cols=16 Identities=19% Similarity=0.528 Sum_probs=7.5
Q ss_pred cCccchhccchHHHHh
Q 032068 62 ACSQCSETMEREILAI 77 (148)
Q Consensus 62 ~C~~C~~~~~~~~l~~ 77 (148)
.|..|++.|..+.|..
T Consensus 5 ~C~eC~~~f~dSyL~~ 20 (34)
T PF01286_consen 5 KCDECGKPFMDSYLLN 20 (34)
T ss_dssp E-TTT--EES-SSCCC
T ss_pred hHhHhCCHHHHHHHHH
Confidence 5777777777655443
No 158
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=20.25 E-value=35 Score=22.20 Aligned_cols=31 Identities=19% Similarity=0.590 Sum_probs=16.5
Q ss_pred CccCccchhccchHHHHhhHhhcCCCCcccCCCCCCC-CCh
Q 032068 60 PVACSQCSETMEREILAIHKGENCPQRIVTCDFCEFP-LPA 99 (148)
Q Consensus 60 ~~~C~~C~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~-f~~ 99 (148)
.+.|..||..... .+. ...-.|+.|+.. |.+
T Consensus 112 ~l~C~~Cg~~~~~--------~~~-~~l~~Cp~C~~~~F~R 143 (146)
T PF07295_consen 112 TLVCENCGHEVEL--------THP-ERLPPCPKCGHTEFTR 143 (146)
T ss_pred eEecccCCCEEEe--------cCC-CcCCCCCCCCCCeeee
Confidence 5677777744322 112 223368888754 543
No 159
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=20.13 E-value=57 Score=24.19 Aligned_cols=12 Identities=17% Similarity=0.600 Sum_probs=5.7
Q ss_pred cccCCCCCCCCC
Q 032068 87 IVTCDFCEFPLP 98 (148)
Q Consensus 87 ~~~C~~C~~~f~ 98 (148)
.|.|+.|...|-
T Consensus 388 rY~Ce~CK~~FC 399 (421)
T COG5151 388 RYQCELCKSTFC 399 (421)
T ss_pred ceechhhhhhhh
Confidence 455555544443
Done!