Query psy12022
Match_columns 143
No_of_seqs 105 out of 2322
Neff 10.5
Searched_HMMs 46136
Date Fri Aug 16 16:39:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12022.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12022hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 3.8E-23 8.1E-28 138.0 3.3 119 18-137 129-256 (279)
2 KOG2462|consensus 99.8 1.8E-19 4E-24 120.4 4.3 98 17-118 159-265 (279)
3 KOG3623|consensus 99.5 1.5E-15 3.3E-20 113.0 2.1 82 15-117 890-971 (1007)
4 KOG3576|consensus 99.5 1.1E-15 2.4E-20 98.4 -0.0 83 18-121 116-198 (267)
5 KOG1074|consensus 99.4 8E-14 1.7E-18 105.3 3.3 54 68-122 606-659 (958)
6 KOG3623|consensus 99.4 1.2E-13 2.5E-18 103.2 1.7 95 17-120 238-333 (1007)
7 KOG3576|consensus 99.2 1E-11 2.2E-16 80.3 2.5 94 14-127 140-243 (267)
8 KOG3608|consensus 99.2 8.1E-12 1.8E-16 86.8 0.9 108 13-120 201-316 (467)
9 PHA00733 hypothetical protein 99.1 6.1E-11 1.3E-15 73.0 3.6 85 17-121 38-124 (128)
10 PHA02768 hypothetical protein; 99.0 1.1E-10 2.4E-15 60.3 1.7 43 67-112 5-47 (55)
11 KOG3608|consensus 99.0 3.2E-10 7E-15 79.0 3.3 57 67-123 319-379 (467)
12 KOG1074|consensus 98.8 6.8E-10 1.5E-14 84.6 0.3 83 19-122 605-694 (958)
13 PHA02768 hypothetical protein; 98.7 3.7E-09 7.9E-14 54.7 1.0 43 20-84 6-48 (55)
14 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.6E-08 3.5E-13 44.8 2.5 26 82-108 1-26 (26)
15 PHA00733 hypothetical protein 98.6 8.2E-08 1.8E-12 59.2 4.7 57 14-92 68-124 (128)
16 PLN03086 PRLI-interacting fact 98.6 4.1E-08 8.9E-13 73.5 3.6 97 17-120 451-564 (567)
17 PLN03086 PRLI-interacting fact 98.5 1.9E-07 4.2E-12 70.0 5.5 68 18-89 477-562 (567)
18 KOG3993|consensus 98.5 2.9E-08 6.3E-13 70.8 0.3 85 20-124 268-384 (500)
19 PHA00616 hypothetical protein 98.4 7.3E-08 1.6E-12 47.5 1.1 35 67-102 1-35 (44)
20 PHA00732 hypothetical protein 98.4 2.6E-07 5.7E-12 52.0 2.6 48 67-121 1-49 (79)
21 KOG3993|consensus 98.4 3.6E-07 7.9E-12 65.4 3.5 111 18-129 294-491 (500)
22 PHA00616 hypothetical protein 98.2 3.1E-07 6.7E-12 45.3 0.4 29 19-47 1-29 (44)
23 PHA00732 hypothetical protein 98.1 2E-06 4.3E-11 48.5 2.5 47 19-91 1-48 (79)
24 PF05605 zf-Di19: Drought indu 98.1 5.6E-06 1.2E-10 43.3 3.9 52 67-121 2-54 (54)
25 PF00096 zf-C2H2: Zinc finger, 98.1 2.8E-06 6E-11 36.3 2.2 22 97-118 1-22 (23)
26 PF13465 zf-H2C2_2: Zinc-finge 98.0 1.4E-06 3E-11 38.5 0.4 26 34-79 1-26 (26)
27 PF13894 zf-C2H2_4: C2H2-type 98.0 5.9E-06 1.3E-10 35.4 2.4 24 97-120 1-24 (24)
28 PF13912 zf-C2H2_6: C2H2-type 97.9 9E-06 1.9E-10 36.1 2.2 26 96-121 1-26 (27)
29 PF00096 zf-C2H2: Zinc finger, 97.9 8.7E-06 1.9E-10 34.7 1.5 23 68-90 1-23 (23)
30 PF05605 zf-Di19: Drought indu 97.7 4.2E-05 9E-10 40.0 3.2 52 19-92 2-54 (54)
31 PF13912 zf-C2H2_6: C2H2-type 97.7 9.7E-06 2.1E-10 36.0 0.7 26 19-44 1-26 (27)
32 PF13894 zf-C2H2_4: C2H2-type 97.6 5.5E-05 1.2E-09 32.2 1.7 24 68-91 1-24 (24)
33 PF12756 zf-C2H2_2: C2H2 type 97.4 0.00012 2.6E-09 42.8 2.7 24 21-44 1-24 (100)
34 PF09237 GAGA: GAGA factor; I 97.4 9.7E-05 2.1E-09 37.4 1.4 35 90-124 18-52 (54)
35 PF13909 zf-H2C2_5: C2H2-type 97.3 0.00025 5.3E-09 30.4 2.1 24 97-121 1-24 (24)
36 smart00355 ZnF_C2H2 zinc finge 97.2 0.00024 5.2E-09 30.6 1.8 23 97-119 1-23 (26)
37 COG5189 SFP1 Putative transcri 97.2 0.00018 4E-09 50.2 1.6 23 17-39 347-371 (423)
38 COG5189 SFP1 Putative transcri 97.0 0.00022 4.7E-09 49.9 0.8 53 64-117 346-419 (423)
39 smart00355 ZnF_C2H2 zinc finge 97.0 0.00034 7.4E-09 30.1 1.2 24 20-43 1-24 (26)
40 PRK04860 hypothetical protein; 96.9 0.00056 1.2E-08 43.8 1.7 39 67-110 119-157 (160)
41 PF12874 zf-met: Zinc-finger o 96.8 0.0012 2.5E-08 28.5 2.1 22 97-118 1-22 (25)
42 PF09237 GAGA: GAGA factor; I 96.7 0.0016 3.4E-08 33.1 2.1 31 65-95 22-52 (54)
43 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.0024 5.2E-08 28.1 1.9 22 20-41 2-23 (27)
44 PF12874 zf-met: Zinc-finger o 96.4 0.0008 1.7E-08 29.0 0.1 23 20-42 1-23 (25)
45 PF13909 zf-H2C2_5: C2H2-type 96.3 0.0029 6.2E-08 27.0 1.6 24 68-92 1-24 (24)
46 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0031 6.7E-08 27.8 1.0 22 97-118 2-23 (27)
47 PF13913 zf-C2HC_2: zinc-finge 95.3 0.017 3.8E-07 24.9 1.8 19 98-117 4-22 (25)
48 smart00451 ZnF_U1 U1-like zinc 94.4 0.042 9.1E-07 25.5 2.0 22 97-118 4-25 (35)
49 PRK04860 hypothetical protein; 94.1 0.017 3.6E-07 37.1 0.3 38 19-80 119-156 (160)
50 cd00350 rubredoxin_like Rubred 92.0 0.083 1.8E-06 24.4 1.0 24 68-104 2-25 (33)
51 KOG1146|consensus 91.3 0.26 5.6E-06 41.3 3.5 66 62-128 460-550 (1406)
52 PF04959 ARS2: Arsenite-resist 91.1 0.21 4.5E-06 33.7 2.4 35 92-127 74-108 (214)
53 COG4049 Uncharacterized protei 91.1 0.064 1.4E-06 27.8 -0.0 37 6-42 4-40 (65)
54 COG4049 Uncharacterized protei 90.2 0.16 3.5E-06 26.3 1.0 29 92-121 14-42 (65)
55 COG5048 FOG: Zn-finger [Genera 88.6 0.13 2.9E-06 37.5 0.0 57 66-123 288-350 (467)
56 PF12756 zf-C2H2_2: C2H2 type 88.6 0.36 7.7E-06 27.8 1.9 24 67-90 50-73 (100)
57 KOG2231|consensus 88.3 0.43 9.3E-06 37.4 2.5 49 68-121 183-237 (669)
58 KOG1146|consensus 87.8 0.63 1.4E-05 39.2 3.2 105 15-119 461-612 (1406)
59 cd00729 rubredoxin_SM Rubredox 87.6 0.29 6.3E-06 22.8 0.8 24 68-104 3-26 (34)
60 COG2888 Predicted Zn-ribbon RN 87.2 0.56 1.2E-05 24.7 1.8 32 67-104 27-58 (61)
61 PF13719 zinc_ribbon_5: zinc-r 87.0 0.59 1.3E-05 22.1 1.7 34 68-107 3-36 (37)
62 PF09986 DUF2225: Uncharacteri 86.7 0.21 4.5E-06 33.7 0.1 44 66-109 4-61 (214)
63 PF02892 zf-BED: BED zinc fing 86.5 0.82 1.8E-05 22.4 2.2 24 97-120 17-44 (45)
64 PHA00626 hypothetical protein 85.6 0.33 7.1E-06 25.2 0.4 15 94-109 22-36 (59)
65 COG5048 FOG: Zn-finger [Genera 85.4 0.43 9.3E-06 34.8 1.2 62 18-100 288-355 (467)
66 COG1592 Rubrerythrin [Energy p 84.2 0.57 1.2E-05 30.3 1.2 24 67-104 134-157 (166)
67 KOG2186|consensus 84.1 1.1 2.3E-05 31.0 2.4 54 68-125 4-57 (276)
68 KOG2893|consensus 84.0 0.34 7.3E-06 33.1 0.1 44 66-115 10-53 (341)
69 PRK00464 nrdR transcriptional 83.8 0.45 9.8E-06 30.4 0.6 19 68-86 29-47 (154)
70 KOG4173|consensus 83.0 0.41 8.8E-06 31.9 0.2 53 68-120 107-170 (253)
71 PF13717 zinc_ribbon_4: zinc-r 82.2 1.2 2.6E-05 20.9 1.6 34 68-107 3-36 (36)
72 PF12013 DUF3505: Protein of u 82.0 1.4 3.1E-05 26.2 2.2 25 97-121 81-109 (109)
73 TIGR00622 ssl1 transcription f 81.7 2.4 5.2E-05 25.6 3.0 92 18-120 14-105 (112)
74 TIGR02098 MJ0042_CXXC MJ0042 f 81.0 1.1 2.5E-05 21.1 1.3 34 68-107 3-36 (38)
75 smart00659 RPOLCX RNA polymera 80.8 1.3 2.8E-05 21.9 1.5 26 68-105 3-28 (44)
76 TIGR00373 conserved hypothetic 78.9 1.1 2.5E-05 28.7 1.2 33 66-108 108-140 (158)
77 PRK06266 transcription initiat 78.3 1 2.2E-05 29.5 0.8 34 66-109 116-149 (178)
78 PF06524 NOA36: NOA36 protein; 76.2 0.87 1.9E-05 31.5 0.1 29 10-39 133-161 (314)
79 smart00734 ZnF_Rad18 Rad18-lik 76.1 2.7 5.9E-05 18.1 1.6 19 69-88 3-21 (26)
80 PRK14890 putative Zn-ribbon RN 75.3 2.3 5E-05 22.4 1.5 31 68-104 26-56 (59)
81 smart00614 ZnF_BED BED zinc fi 75.2 2.6 5.6E-05 21.3 1.7 21 97-117 19-44 (50)
82 KOG2893|consensus 73.5 0.91 2E-05 31.1 -0.4 20 22-41 13-32 (341)
83 smart00531 TFIIE Transcription 73.3 3.5 7.5E-05 26.1 2.2 38 65-107 97-134 (147)
84 PF05443 ROS_MUCR: ROS/MUCR tr 73.0 4.8 0.0001 25.1 2.7 24 97-123 73-96 (132)
85 PF14353 CpXC: CpXC protein 72.1 4 8.7E-05 25.0 2.3 40 68-109 2-51 (128)
86 TIGR02605 CxxC_CxxC_SSSS putat 70.3 1.1 2.3E-05 22.8 -0.5 29 68-104 6-34 (52)
87 PRK09678 DNA-binding transcrip 70.1 1.9 4.2E-05 23.8 0.5 41 68-111 2-44 (72)
88 KOG2186|consensus 70.1 1.2 2.7E-05 30.6 -0.3 50 20-92 4-53 (276)
89 COG1996 RPC10 DNA-directed RNA 67.6 3.4 7.3E-05 21.0 1.0 28 67-105 6-33 (49)
90 KOG2593|consensus 67.5 3.8 8.2E-05 30.6 1.7 36 65-104 126-161 (436)
91 PF12013 DUF3505: Protein of u 67.3 4.6 0.0001 24.0 1.8 27 66-92 79-109 (109)
92 PF08274 PhnA_Zn_Ribbon: PhnA 66.2 3.8 8.2E-05 18.5 1.0 25 69-105 4-28 (30)
93 PF10571 UPF0547: Uncharacteri 66.0 3.2 7E-05 18.0 0.7 11 68-78 15-25 (26)
94 PRK00398 rpoP DNA-directed RNA 64.4 2.2 4.7E-05 21.1 -0.0 30 67-107 3-32 (46)
95 PF07754 DUF1610: Domain of un 64.2 2.9 6.3E-05 17.8 0.4 10 66-75 15-24 (24)
96 KOG4173|consensus 63.8 5.9 0.00013 26.6 1.9 51 66-120 78-130 (253)
97 KOG2231|consensus 62.9 9.7 0.00021 30.3 3.2 23 21-43 184-206 (669)
98 COG5236 Uncharacterized conser 62.8 11 0.00023 27.6 3.1 23 69-91 222-244 (493)
99 PF15269 zf-C2H2_7: Zinc-finge 61.2 7.4 0.00016 19.3 1.5 22 97-118 21-42 (54)
100 PF02176 zf-TRAF: TRAF-type zi 59.5 4.1 8.8E-05 21.1 0.5 45 67-114 9-59 (60)
101 PF08790 zf-LYAR: LYAR-type C2 59.3 1.7 3.7E-05 19.3 -0.8 9 69-77 2-10 (28)
102 KOG4167|consensus 59.1 2.2 4.7E-05 34.0 -0.8 25 67-91 792-816 (907)
103 PF10013 DUF2256: Uncharacteri 58.8 6.5 0.00014 19.2 1.1 17 98-114 10-26 (42)
104 PF07975 C1_4: TFIIH C1-like d 58.6 5 0.00011 20.5 0.7 26 18-43 20-45 (51)
105 PF13878 zf-C2H2_3: zinc-finge 58.0 13 0.00028 17.9 2.1 24 68-91 14-39 (41)
106 COG5236 Uncharacterized conser 56.4 12 0.00027 27.3 2.6 76 20-121 221-306 (493)
107 KOG2785|consensus 54.4 20 0.00043 26.5 3.3 52 67-118 166-242 (390)
108 smart00834 CxxC_CXXC_SSSS Puta 52.3 7.8 0.00017 18.2 0.8 13 97-109 6-18 (41)
109 PF09723 Zn-ribbon_8: Zinc rib 52.2 7.8 0.00017 18.8 0.8 13 97-109 6-18 (42)
110 PRK03824 hypA hydrogenase nick 51.8 5.3 0.00011 24.9 0.2 15 66-80 69-83 (135)
111 KOG3408|consensus 51.5 10 0.00022 23.2 1.3 23 97-119 58-80 (129)
112 COG4957 Predicted transcriptio 51.3 9.1 0.0002 23.9 1.1 23 97-122 77-99 (148)
113 COG1997 RPL43A Ribosomal prote 51.1 11 0.00024 21.6 1.3 11 68-78 54-64 (89)
114 smart00154 ZnF_AN1 AN1-like Zi 51.1 6.9 0.00015 18.7 0.5 16 19-34 12-27 (39)
115 KOG4167|consensus 50.8 1.9 4.2E-05 34.3 -2.2 27 19-45 792-818 (907)
116 smart00440 ZnF_C2C2 C2C2 Zinc 49.7 2.4 5.3E-05 20.4 -1.3 11 97-107 29-39 (40)
117 PF04959 ARS2: Arsenite-resist 49.6 6 0.00013 26.8 0.2 29 64-92 74-102 (214)
118 PHA00689 hypothetical protein 49.3 10 0.00023 19.1 1.0 26 4-29 2-27 (62)
119 COG4306 Uncharacterized protei 48.8 6.7 0.00015 24.1 0.3 13 97-109 69-81 (160)
120 COG4338 Uncharacterized protei 47.8 7.9 0.00017 19.5 0.4 19 97-115 13-31 (54)
121 PRK00432 30S ribosomal protein 47.1 12 0.00026 19.0 1.0 12 94-106 36-47 (50)
122 smart00661 RPOL9 RNA polymeras 44.6 12 0.00026 18.7 0.8 12 97-108 21-32 (52)
123 COG1655 Uncharacterized protei 43.7 5.2 0.00011 27.4 -0.8 40 66-105 18-71 (267)
124 PLN02294 cytochrome c oxidase 41.6 13 0.00028 24.3 0.7 17 15-31 137-153 (174)
125 PF12907 zf-met2: Zinc-binding 40.9 16 0.00035 17.7 0.9 27 97-123 2-31 (40)
126 cd00924 Cyt_c_Oxidase_Vb Cytoc 40.1 13 0.00029 21.8 0.6 15 17-31 77-91 (97)
127 PF12760 Zn_Tnp_IS1595: Transp 40.0 10 0.00022 18.7 0.1 27 68-104 19-45 (46)
128 PF01927 Mut7-C: Mut7-C RNAse 39.3 32 0.00069 21.7 2.3 13 68-80 125-137 (147)
129 COG3091 SprT Zn-dependent meta 38.5 14 0.00031 23.6 0.6 34 66-105 116-149 (156)
130 PF09538 FYDLN_acid: Protein o 38.1 20 0.00043 21.5 1.2 14 67-80 26-39 (108)
131 PF04423 Rad50_zn_hook: Rad50 37.6 14 0.00031 18.8 0.4 14 97-110 21-34 (54)
132 PF04810 zf-Sec23_Sec24: Sec23 36.9 7.9 0.00017 18.5 -0.6 19 86-105 15-33 (40)
133 COG0068 HypF Hydrogenase matur 36.7 15 0.00034 29.5 0.7 30 69-105 153-182 (750)
134 PF14311 DUF4379: Domain of un 36.1 24 0.00052 18.0 1.2 13 68-80 29-41 (55)
135 PRK04351 hypothetical protein; 35.8 14 0.00031 23.5 0.3 34 67-109 112-145 (149)
136 KOG1842|consensus 35.6 23 0.0005 26.8 1.3 27 66-92 14-40 (505)
137 COG4530 Uncharacterized protei 35.5 19 0.00041 21.6 0.8 14 67-80 26-39 (129)
138 PF06397 Desulfoferrod_N: Desu 35.5 11 0.00025 17.7 -0.1 12 18-29 5-16 (36)
139 COG1198 PriA Primosomal protei 35.4 23 0.00049 28.8 1.4 12 65-76 473-484 (730)
140 PF05290 Baculo_IE-1: Baculovi 35.3 22 0.00048 22.2 1.1 20 17-36 78-97 (140)
141 PF08209 Sgf11: Sgf11 (transcr 34.8 45 0.00096 15.3 1.8 21 97-118 5-25 (33)
142 PF07282 OrfB_Zn_ribbon: Putat 34.7 38 0.00082 18.0 1.9 30 69-109 30-59 (69)
143 PF09845 DUF2072: Zn-ribbon co 33.9 24 0.00051 22.0 1.0 15 19-33 1-15 (131)
144 KOG2907|consensus 33.5 22 0.00047 21.5 0.8 40 68-108 75-114 (116)
145 PF01428 zf-AN1: AN1-like Zinc 32.8 18 0.0004 17.5 0.4 13 97-109 14-26 (43)
146 COG3677 Transposase and inacti 32.7 22 0.00048 22.0 0.8 36 68-109 31-66 (129)
147 KOG1842|consensus 32.4 20 0.00044 27.1 0.7 27 97-123 16-42 (505)
148 PF04780 DUF629: Protein of un 32.4 39 0.00085 25.9 2.1 27 97-123 58-84 (466)
149 PF11672 DUF3268: Protein of u 32.2 25 0.00053 20.9 0.9 35 66-103 1-38 (102)
150 KOG2071|consensus 32.1 29 0.00063 27.2 1.5 28 93-121 416-443 (579)
151 PF13451 zf-trcl: Probable zin 31.2 18 0.00039 18.4 0.2 17 17-33 2-18 (49)
152 PF10263 SprT-like: SprT-like 31.0 17 0.00038 22.9 0.1 32 67-107 123-154 (157)
153 COG1571 Predicted DNA-binding 30.7 33 0.00072 25.9 1.5 30 69-110 352-381 (421)
154 PF03811 Zn_Tnp_IS1: InsA N-te 30.1 15 0.00033 17.2 -0.2 30 68-102 6-35 (36)
155 PF10276 zf-CHCC: Zinc-finger 29.2 19 0.00041 17.4 0.1 12 66-77 28-39 (40)
156 TIGR00100 hypA hydrogenase nic 28.8 23 0.00049 21.4 0.4 27 66-105 69-95 (115)
157 PF14803 Nudix_N_2: Nudix N-te 28.4 25 0.00054 16.3 0.4 9 68-76 23-31 (34)
158 PRK12380 hydrogenase nickel in 28.0 26 0.00057 21.1 0.6 26 66-104 69-94 (113)
159 KOG1280|consensus 28.0 60 0.0013 23.9 2.4 38 66-103 78-116 (381)
160 TIGR00686 phnA alkylphosphonat 27.9 42 0.0009 20.2 1.3 13 97-109 20-32 (109)
161 PRK14873 primosome assembly pr 27.9 32 0.00069 27.7 1.1 10 67-76 422-431 (665)
162 KOG2482|consensus 27.9 38 0.00083 24.8 1.4 52 68-119 145-218 (423)
163 PTZ00448 hypothetical protein; 27.8 35 0.00075 25.3 1.2 25 19-43 314-338 (373)
164 COG1773 Rubredoxin [Energy pro 27.4 30 0.00065 18.0 0.6 11 97-107 4-14 (55)
165 PHA02998 RNA polymerase subuni 26.9 14 0.00029 24.3 -0.9 39 67-109 143-184 (195)
166 KOG2482|consensus 26.7 40 0.00086 24.8 1.3 23 67-89 195-217 (423)
167 PF01363 FYVE: FYVE zinc finge 26.7 41 0.00089 17.9 1.1 11 68-78 10-20 (69)
168 PTZ00043 cytochrome c oxidase 26.4 34 0.00074 23.5 0.9 18 15-32 177-194 (268)
169 COG1998 RPS31 Ribosomal protei 26.3 30 0.00066 17.6 0.5 26 69-105 21-46 (51)
170 COG3364 Zn-ribbon containing p 25.2 41 0.00088 20.0 0.9 13 97-109 3-15 (112)
171 COG4888 Uncharacterized Zn rib 24.7 11 0.00024 22.2 -1.4 38 65-107 20-57 (104)
172 KOG2071|consensus 24.2 41 0.00088 26.5 1.0 28 17-44 416-443 (579)
173 cd00730 rubredoxin Rubredoxin; 23.9 36 0.00078 17.3 0.5 35 68-104 2-42 (50)
174 KOG4118|consensus 23.8 16 0.00035 19.7 -0.8 27 97-123 39-65 (74)
175 PF14787 zf-CCHC_5: GAG-polypr 22.9 39 0.00085 15.9 0.5 15 97-111 3-17 (36)
176 PF10083 DUF2321: Uncharacteri 22.8 19 0.00042 23.1 -0.7 14 97-110 69-82 (158)
177 cd00974 DSRD Desulforedoxin (D 22.7 33 0.00071 15.6 0.2 13 18-30 3-15 (34)
178 PF00301 Rubredoxin: Rubredoxi 22.6 48 0.001 16.6 0.8 11 97-107 2-12 (47)
179 PF01096 TFIIS_C: Transcriptio 22.3 46 0.00099 15.7 0.7 10 97-106 29-38 (39)
180 COG3357 Predicted transcriptio 22.0 43 0.00092 19.5 0.6 29 66-105 57-85 (97)
181 TIGR00595 priA primosomal prot 22.0 60 0.0013 25.1 1.6 10 66-75 252-261 (505)
182 PF06220 zf-U1: U1 zinc finger 22.0 84 0.0018 14.8 1.6 20 97-116 4-25 (38)
183 PF01286 XPA_N: XPA protein N- 21.9 30 0.00065 16.1 -0.0 13 21-33 5-17 (34)
184 KOG3214|consensus 21.8 32 0.00068 20.3 0.1 40 66-110 22-61 (109)
185 COG1594 RPB9 DNA-directed RNA 21.7 23 0.0005 21.4 -0.5 37 67-107 72-111 (113)
186 PLN03238 probable histone acet 21.6 87 0.0019 22.4 2.2 22 97-118 49-70 (290)
187 PF11789 zf-Nse: Zinc-finger o 21.4 64 0.0014 16.8 1.2 31 66-101 23-53 (57)
188 PF12230 PRP21_like_P: Pre-mRN 21.0 32 0.0007 23.4 0.0 25 67-92 168-192 (229)
189 smart00731 SprT SprT homologue 20.9 54 0.0012 20.6 1.0 33 67-107 112-144 (146)
190 PF02748 PyrI_C: Aspartate car 20.8 51 0.0011 16.9 0.7 13 97-109 36-48 (52)
191 PF07295 DUF1451: Protein of u 20.6 46 0.00099 21.2 0.6 9 69-77 132-140 (146)
192 TIGR00319 desulf_FeS4 desulfof 20.6 37 0.0008 15.4 0.2 13 18-30 6-18 (34)
193 PF04780 DUF629: Protein of un 20.6 74 0.0016 24.5 1.8 25 68-92 58-83 (466)
194 TIGR03831 YgiT_finger YgiT-typ 20.5 45 0.00099 15.8 0.5 12 68-79 33-44 (46)
195 KOG2857|consensus 20.3 51 0.0011 20.9 0.7 21 97-117 18-38 (157)
196 PRK14892 putative transcriptio 20.3 41 0.00089 19.9 0.3 35 67-109 21-55 (99)
197 KOG2807|consensus 20.3 1.2E+02 0.0025 22.3 2.6 23 97-119 346-368 (378)
198 KOG0717|consensus 20.0 71 0.0015 24.5 1.6 22 97-118 293-314 (508)
199 PRK00564 hypA hydrogenase nick 20.0 41 0.00088 20.4 0.3 28 66-105 70-97 (117)
No 1
>KOG2462|consensus
Probab=99.87 E-value=3.8e-23 Score=137.96 Aligned_cols=119 Identities=22% Similarity=0.441 Sum_probs=103.0
Q ss_pred CCCCCCccccccCChhHHhcccccccCCCC--cccC----CCCCCCccc---cccCCCccccCcccccccChHHHHhhhh
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKKYDCGQEP--KYHG----EDFSSWPGE---KQNHAEMFACDVCGKEYKQKYGLNRHKK 88 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~--~~~c----~~f~~~~~~---~~~~~~~~~C~~C~~~~~~~~~l~~h~~ 88 (143)
..|.|..||+.+.+..+|..|+.+|+.... .+.| +.+.....+ +.++.-+++|.+||+.|...+-|+.|+|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiR 208 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIR 208 (279)
T ss_pred CceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccc
Confidence 359999999999999999999999986643 2445 666666553 4566788999999999999999999999
Q ss_pred hhcCCCCCeeccCCcccccChHHHHhHHhhhccHHHHHHHHhhccCccc
Q psy12022 89 YDCGQEPKYQCLYCPYRAKLRFNLKTHINVKHSYEYIRIILRTAIMPSV 137 (143)
Q Consensus 89 ~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~ 137 (143)
+|+||+| |.|..|+++|..+++|+.|+++|.+.+.+.+..+.+.|..-
T Consensus 209 THTGEKP-F~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~ 256 (279)
T KOG2462|consen 209 THTGEKP-FSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALK 256 (279)
T ss_pred cccCCCC-ccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHH
Confidence 9999999 99999999999999999999999999999888888776543
No 2
>KOG2462|consensus
Probab=99.78 E-value=1.8e-19 Score=120.45 Aligned_cols=98 Identities=23% Similarity=0.423 Sum_probs=86.4
Q ss_pred CCCCCCCccccccCChhHHhcccccccCCCCcccC----CCCCC--Ccc---ccccCCCccccCcccccccChHHHHhhh
Q psy12022 17 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHG----EDFSS--WPG---EKQNHAEMFACDVCGKEYKQKYGLNRHK 87 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c----~~f~~--~~~---~~~~~~~~~~C~~C~~~~~~~~~l~~h~ 87 (143)
.+.+.|..|++.+.+...|..|+++|.-. +.| +.|+. ..+ ++|||++||.|+.|++.|..++.|..||
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~---c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHm 235 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLP---CECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHM 235 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCC---cccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHH
Confidence 56799999999999999999999999832 444 66652 122 5899999999999999999999999999
Q ss_pred hhhcCCCCCeeccCCcccccChHHHHhHHhh
Q psy12022 88 KYDCGQEPKYQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 88 ~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
++|.+.++ |+|..|++.|..++-|.+|...
T Consensus 236 QTHS~~K~-~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 236 QTHSDVKK-HQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred HhhcCCcc-ccCcchhhHHHHHHHHHHhhhh
Confidence 99999888 9999999999999999999875
No 3
>KOG3623|consensus
Probab=99.55 E-value=1.5e-15 Score=113.04 Aligned_cols=82 Identities=32% Similarity=0.656 Sum_probs=74.1
Q ss_pred CCCCCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcCCC
Q psy12022 15 NHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQE 94 (143)
Q Consensus 15 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~ 94 (143)
+++.+|.|+.|++.|...+.|.+|.--| +|++||.|.+|.+.|..+..|..|+|.|.|++
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEH--------------------sGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEK 949 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEH--------------------SGQRPYQCIICKKAFKHKHHLTEHKRLHSGEK 949 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhh--------------------cCCCCcccchhhHhhhhhhhhhhhhhhccCCC
Confidence 4456899999999999999999997544 45555999999999999999999999999999
Q ss_pred CCeeccCCcccccChHHHHhHHh
Q psy12022 95 PKYQCLYCPYRAKLRFNLKTHIN 117 (143)
Q Consensus 95 ~~~~C~~C~~~f~~~~~l~~H~~ 117 (143)
| |.|.+|++.|.....+..|+.
T Consensus 950 P-fQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 950 P-FQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred c-chhhhhhhhcccccchHhhhc
Confidence 9 999999999999999999986
No 4
>KOG3576|consensus
Probab=99.53 E-value=1.1e-15 Score=98.36 Aligned_cols=83 Identities=33% Similarity=0.734 Sum_probs=55.9
Q ss_pred CCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcCCCCCe
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKY 97 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~ 97 (143)
-.|.|..|++.|.-...|.+|++-|...+. +-|..||+.|....+|..|+++|+|-.| |
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr--------------------~lct~cgkgfndtfdlkrh~rthtgvrp-y 174 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKR--------------------HLCTFCGKGFNDTFDLKRHTRTHTGVRP-Y 174 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHH--------------------HHHhhccCcccchhhhhhhhccccCccc-c
Confidence 368999999999999999999999998876 4455555555555555555555555444 5
Q ss_pred eccCCcccccChHHHHhHHhhhcc
Q psy12022 98 QCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 98 ~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
+|..|+++|...-.|..|++.-|+
T Consensus 175 kc~~c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 175 KCSLCEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred chhhhhHHHHhhccHHHHHHHHcC
Confidence 555555555555555555554444
No 5
>KOG1074|consensus
Probab=99.43 E-value=8e-14 Score=105.29 Aligned_cols=54 Identities=24% Similarity=0.472 Sum_probs=50.7
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChHHHHhHHhhhccH
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRFNLKTHINVKHSY 122 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~ 122 (143)
..|.+|.+...=.+.|+.|.++|+|++| |+|++|+++|.++.+|+.|+.+|...
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERP-FkCKiCgRAFtTkGNLkaH~~vHka~ 659 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERP-FKCKICGRAFTTKGNLKAHMSVHKAK 659 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCc-cccccccchhccccchhhcccccccC
Confidence 5799999999999999999999999888 99999999999999999999998654
No 6
>KOG3623|consensus
Probab=99.38 E-value=1.2e-13 Score=103.25 Aligned_cols=95 Identities=23% Similarity=0.465 Sum_probs=75.0
Q ss_pred CCCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCcccc-ccCCCccccCcccccccChHHHHhhhhhhcCCCC
Q psy12022 17 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEK-QNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEP 95 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~-~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~ 95 (143)
+..|.|..|..+|.....|.+|+.+|..-..-. ...+ -.+.+.|+|.+||+.|..+..|..|+|+|.|++|
T Consensus 238 e~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa--------~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKP 309 (1007)
T KOG3623|consen 238 EPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQA--------ISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKP 309 (1007)
T ss_pred CCCCcchhhhhhhhhHHHHHHHHHhhcCCCccc--------ccccchhhhccccccccchhhhhHHHHHhhheeecCCCC
Confidence 446778888888888888888887776544300 0001 1123669999999999999999999999999999
Q ss_pred CeeccCCcccccChHHHHhHHhhhc
Q psy12022 96 KYQCLYCPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~~~ 120 (143)
|.|..|.+.|.....+.-|+....
T Consensus 310 -feCpnCkKRFSHSGSySSHmSSKK 333 (1007)
T KOG3623|consen 310 -FECPNCKKRFSHSGSYSSHMSSKK 333 (1007)
T ss_pred -cCCcccccccccCCcccccccccc
Confidence 999999999999999999987543
No 7
>KOG3576|consensus
Probab=99.19 E-value=1e-11 Score=80.30 Aligned_cols=94 Identities=24% Similarity=0.592 Sum_probs=80.0
Q ss_pred cCCCCCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcCC
Q psy12022 14 QNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQ 93 (143)
Q Consensus 14 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~ 93 (143)
|+.-+.|.|..||+.|.+..+|.+|+++|.+..| |+|..|++.|...-.|..|.+..+|.
T Consensus 140 h~~vkr~lct~cgkgfndtfdlkrh~rthtgvrp--------------------ykc~~c~kaftqrcsleshl~kvhgv 199 (267)
T KOG3576|consen 140 HSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRP--------------------YKCSLCEKAFTQRCSLESHLKKVHGV 199 (267)
T ss_pred ccHHHHHHHhhccCcccchhhhhhhhccccCccc--------------------cchhhhhHHHHhhccHHHHHHHHcCc
Confidence 3444568899999999999999999999998887 99999999999999999999866653
Q ss_pred C----------CCeeccCCcccccChHHHHhHHhhhccHHHHHH
Q psy12022 94 E----------PKYQCLYCPYRAKLRFNLKTHINVKHSYEYIRI 127 (143)
Q Consensus 94 ~----------~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~ 127 (143)
. +.|+|..||..-.....+..|+..+|+......
T Consensus 200 ~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spall 243 (267)
T KOG3576|consen 200 QHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPALL 243 (267)
T ss_pred hHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHHHH
Confidence 2 238999999999999999999999998754433
No 8
>KOG3608|consensus
Probab=99.15 E-value=8.1e-12 Score=86.77 Aligned_cols=108 Identities=19% Similarity=0.431 Sum_probs=56.5
Q ss_pred ccCCCCCCCCCccccccCChhHHhcccccccCC-CCcccC----CCCCCCccc-cc--cCCCccccCcccccccChHHHH
Q psy12022 13 KQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQ-EPKYHG----EDFSSWPGE-KQ--NHAEMFACDVCGKEYKQKYGLN 84 (143)
Q Consensus 13 ~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~-~~~~~c----~~f~~~~~~-~~--~~~~~~~C~~C~~~~~~~~~l~ 84 (143)
.|++||...|+.||..|.++..|..|++..... +..|.| +.|.....+ .| .+-..|+|+.|.-+.+..+.|.
T Consensus 201 ~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~ 280 (467)
T KOG3608|consen 201 THSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLT 280 (467)
T ss_pred hcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHH
Confidence 455555555555555555555555554322211 111333 222222111 11 1223466666766666666777
Q ss_pred hhhhhhcCCCCCeeccCCcccccChHHHHhHHhhhc
Q psy12022 85 RHKKYDCGQEPKYQCLYCPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 85 ~h~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 120 (143)
.|++.-+...+||+|..|+..|.+.++|.+|+.+|.
T Consensus 281 ~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS 316 (467)
T KOG3608|consen 281 THIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS 316 (467)
T ss_pred HHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc
Confidence 776643333333777777777777777777776654
No 9
>PHA00733 hypothetical protein
Probab=99.12 E-value=6.1e-11 Score=72.97 Aligned_cols=85 Identities=14% Similarity=0.211 Sum_probs=67.5
Q ss_pred CCCCCCCccccccCChhHHhccc--ccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcCCC
Q psy12022 17 AEMFACDVCGKEYKQKYGLNRHK--KYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQE 94 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~~l~~h~--~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~ 94 (143)
.+++.|..|...|.....|..+. ..+. ...+.++|.|+.|++.|.....|..|++.+ ..
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~-----------------~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~ 98 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLL-----------------TSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EH 98 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhc-----------------ccCCCCCccCCCCCCcCCCHHHHHHHHhcC--Cc
Confidence 56788999998888877766552 1111 122345699999999999999999999976 24
Q ss_pred CCeeccCCcccccChHHHHhHHhhhcc
Q psy12022 95 PKYQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 95 ~~~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
+ |.|.+|++.|.....|..|+...|+
T Consensus 99 ~-~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 99 S-KVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred C-ccCCCCCCccCCHHHHHHHHHHhcC
Confidence 5 9999999999999999999998775
No 10
>PHA02768 hypothetical protein; Provisional
Probab=99.03 E-value=1.1e-10 Score=60.30 Aligned_cols=43 Identities=14% Similarity=0.294 Sum_probs=39.0
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChHHH
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRFNL 112 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~~l 112 (143)
.|+|++||+.|.....|..|+++|+ ++ ++|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~-~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TN-LKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--Cc-ccCCcccceeccccee
Confidence 3899999999999999999999997 56 9999999999887765
No 11
>KOG3608|consensus
Probab=98.99 E-value=3.2e-10 Score=78.96 Aligned_cols=57 Identities=21% Similarity=0.399 Sum_probs=45.7
Q ss_pred ccccCc--ccccccChHHHHhhhhhhc-CCC-CCeeccCCcccccChHHHHhHHhhhccHH
Q psy12022 67 MFACDV--CGKEYKQKYGLNRHKKYDC-GQE-PKYQCLYCPYRAKLRFNLKTHINVKHSYE 123 (143)
Q Consensus 67 ~~~C~~--C~~~~~~~~~l~~h~~~h~-~~~-~~~~C~~C~~~f~~~~~l~~H~~~~~~~~ 123 (143)
.|.|.. |.+++.+...+..|++-++ |.+ ++|.|-.|++.|.+..+|..|+...|+-+
T Consensus 319 ~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 319 VYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred ceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhccc
Confidence 478866 8889988888989988665 444 34899999999999999999988877643
No 12
>KOG1074|consensus
Probab=98.83 E-value=6.8e-10 Score=84.57 Aligned_cols=83 Identities=23% Similarity=0.508 Sum_probs=74.6
Q ss_pred CCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcCCCCC--
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPK-- 96 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~-- 96 (143)
|..|-.|-+....++.|+.|.++|.|+.+ |+|.+||+.|.++..|+.|+.+|-. +++
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERP--------------------FkCKiCgRAFtTkGNLkaH~~vHka-~p~~R 663 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERP--------------------FKCKICGRAFTTKGNLKAHMSVHKA-KPPAR 663 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCc--------------------cccccccchhccccchhhccccccc-Ccccc
Confidence 78899999999999999999998888877 9999999999999999999998854 432
Q ss_pred --eecc---CCcccccChHHHHhHHhhhccH
Q psy12022 97 --YQCL---YCPYRAKLRFNLKTHINVKHSY 122 (143)
Q Consensus 97 --~~C~---~C~~~f~~~~~l~~H~~~~~~~ 122 (143)
++|+ +|-+.|...-.|..|.++|.++
T Consensus 664 ~q~ScP~~~ic~~kftn~V~lpQhIriH~~~ 694 (958)
T KOG1074|consen 664 VQFSCPSTFICQKKFTNAVTLPQHIRIHLGG 694 (958)
T ss_pred ccccCCchhhhcccccccccccceEEeecCC
Confidence 7899 9999999999999999998854
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.73 E-value=3.7e-09 Score=54.70 Aligned_cols=43 Identities=14% Similarity=0.346 Sum_probs=37.3
Q ss_pred CCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHH
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLN 84 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~ 84 (143)
|+|+.||+.|...+.|..|++.|. ++ ++|..|++.|...+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~--------------------~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TN--------------------LKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--Cc--------------------ccCCcccceecccceeE
Confidence 799999999999999999999988 45 78999999888766543
No 14
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.70 E-value=1.6e-08 Score=44.81 Aligned_cols=26 Identities=35% Similarity=0.775 Sum_probs=23.1
Q ss_pred HHHhhhhhhcCCCCCeeccCCcccccC
Q psy12022 82 GLNRHKKYDCGQEPKYQCLYCPYRAKL 108 (143)
Q Consensus 82 ~l~~h~~~h~~~~~~~~C~~C~~~f~~ 108 (143)
+|..|+++|+|++| |.|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~-~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKP-YKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSS-EEESSSSEEESS
T ss_pred CHHHHhhhcCCCCC-CCCCCCcCeeCc
Confidence 47899999999888 999999999863
No 15
>PHA00733 hypothetical protein
Probab=98.61 E-value=8.2e-08 Score=59.16 Aligned_cols=57 Identities=21% Similarity=0.474 Sum_probs=49.0
Q ss_pred cCCCCCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcC
Q psy12022 14 QNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 14 ~~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
+.+++||.|..|++.|.+...|..|+..+. .+ +.|..|++.|.....|..|+...++
T Consensus 68 ~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~--~~--------------------~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 68 SKAVSPYVCPLCLMPFSSSVSLKQHIRYTE--HS--------------------KVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCCCCCccCCCCCCcCCCHHHHHHHHhcCC--cC--------------------ccCCCCCCccCCHHHHHHHHHHhcC
Confidence 345789999999999999999999998652 23 8999999999999999999987654
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.60 E-value=4.1e-08 Score=73.46 Aligned_cols=97 Identities=19% Similarity=0.385 Sum_probs=63.3
Q ss_pred CCCCCCCccccccCChhHHhcccccccCCCCcccCC--CCCCCccc-----cccCCCccccCcccccccC----------
Q psy12022 17 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGE--DFSSWPGE-----KQNHAEMFACDVCGKEYKQ---------- 79 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~--~f~~~~~~-----~~~~~~~~~C~~C~~~~~~---------- 79 (143)
++.+.|+.|++.|. ...|..|+..+. .+ +.|. .+.....+ .+...+++.|+.|++.+..
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--kp-v~CpCg~~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--EP-LQCPCGVVLEKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--CC-ccCCCCCCcchhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 44578999999995 677899988764 44 4442 11111111 3456677888888877742
Q ss_pred hHHHHhhhhhhcCCCCCeeccCCcccccChHHHHhHHhhhc
Q psy12022 80 KYGLNRHKKYDCGQEPKYQCLYCPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 80 ~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 120 (143)
...|..|.... |.++ +.|..|++.+..+ +|..|+..-|
T Consensus 527 ~s~Lt~HE~~C-G~rt-~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 527 LRGMSEHESIC-GSRT-APCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred hhhHHHHHHhc-CCcc-eEccccCCeeeeh-hHHHHHHHhh
Confidence 24677777765 6666 8888888777655 5667766544
No 17
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.52 E-value=1.9e-07 Score=69.96 Aligned_cols=68 Identities=21% Similarity=0.370 Sum_probs=35.6
Q ss_pred CCCCCCccccccCChhHHhcccccccCCCCcccC----CCCCCC----------ccc----cccCCCccccCcccccccC
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHG----EDFSSW----------PGE----KQNHAEMFACDVCGKEYKQ 79 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c----~~f~~~----------~~~----~~~~~~~~~C~~C~~~~~~ 79 (143)
+++.|+ ||..+ ....|..|+..|++.++ +.| ..+... ..+ ...+.+++.|..||+.+..
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kp-i~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrl 553 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRL-ITCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVML 553 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCc-eeCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeee
Confidence 566666 66543 44666666666666666 555 222100 011 2235566666666666655
Q ss_pred hHHHHhhhhh
Q psy12022 80 KYGLNRHKKY 89 (143)
Q Consensus 80 ~~~l~~h~~~ 89 (143)
+ .+..|+..
T Consensus 554 r-dm~~H~~~ 562 (567)
T PLN03086 554 K-EMDIHQIA 562 (567)
T ss_pred h-hHHHHHHH
Confidence 4 45555543
No 18
>KOG3993|consensus
Probab=98.48 E-value=2.9e-08 Score=70.81 Aligned_cols=85 Identities=18% Similarity=0.477 Sum_probs=52.7
Q ss_pred CCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhc--------
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDC-------- 91 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~-------- 91 (143)
|.|..|...|.+...|.+|...-..... |+|++|++.|.=..+|..|+|.|-
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vE--------------------YrCPEC~KVFsCPANLASHRRWHKPR~eaa~a 327 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVE--------------------YRCPECDKVFSCPANLASHRRWHKPRPEAAKA 327 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEee--------------------ecCCcccccccCchhhhhhhcccCCchhhhhc
Confidence 5566666666666666666544444333 566666666665555666655441
Q ss_pred CC------------------------CCCeeccCCcccccChHHHHhHHhhhccHHH
Q psy12022 92 GQ------------------------EPKYQCLYCPYRAKLRFNLKTHINVKHSYEY 124 (143)
Q Consensus 92 ~~------------------------~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 124 (143)
+. ..-|.|..|++.|.+..-|++|+.+|+....
T Consensus 328 ~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~ 384 (500)
T KOG3993|consen 328 GSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPL 384 (500)
T ss_pred CCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcccc
Confidence 10 1127888888888888888888888876443
No 19
>PHA00616 hypothetical protein
Probab=98.45 E-value=7.3e-08 Score=47.55 Aligned_cols=35 Identities=23% Similarity=0.366 Sum_probs=29.3
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCC
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYC 102 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C 102 (143)
||.|+.||+.|.....+..|++.|+|+++ +.|..-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~-~~~~~~ 35 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK-LTLEYF 35 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc-cceeEE
Confidence 57899999999999999999999988877 877643
No 20
>PHA00732 hypothetical protein
Probab=98.39 E-value=2.6e-07 Score=52.00 Aligned_cols=48 Identities=23% Similarity=0.527 Sum_probs=39.8
Q ss_pred ccccCcccccccChHHHHhhhhh-hcCCCCCeeccCCcccccChHHHHhHHhhhcc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKY-DCGQEPKYQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~-h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
||.|..|++.|.+...|..|++. |. + +.|++|++.|. .|..|.+.+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~-~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---L-TKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---C-CccCCCCCEeC---ChhhhhcccCC
Confidence 47899999999999999999985 53 3 78999999998 46778876543
No 21
>KOG3993|consensus
Probab=98.37 E-value=3.6e-07 Score=65.36 Aligned_cols=111 Identities=23% Similarity=0.482 Sum_probs=77.3
Q ss_pred CCCCCCccccccCChhHHhcccccccCCCCccc-C----CCCCCCccc----cc----cCCCccccCcccccccChHHHH
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYH-G----EDFSSWPGE----KQ----NHAEMFACDVCGKEYKQKYGLN 84 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~-c----~~f~~~~~~----~~----~~~~~~~C~~C~~~~~~~~~l~ 84 (143)
--|+|.+|++.|....+|..|.++|.....-.. - +.-...... .. ..+.-|.|.+|++.|.+...|.
T Consensus 294 vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLr 373 (500)
T KOG3993|consen 294 VEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLR 373 (500)
T ss_pred eeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHH
Confidence 369999999999999999999999986643110 0 100000010 00 1223689999999999999999
Q ss_pred hhhhhhcC------------------------------------------------------------------------
Q psy12022 85 RHKKYDCG------------------------------------------------------------------------ 92 (143)
Q Consensus 85 ~h~~~h~~------------------------------------------------------------------------ 92 (143)
.|+..|+.
T Consensus 374 KHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg 453 (500)
T KOG3993|consen 374 KHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLG 453 (500)
T ss_pred HhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCCCCCCCcccCCCCCcccccc
Confidence 99765530
Q ss_pred --CCCCeeccCCcccccChHHHHhHHhhhccHHHHHHHH
Q psy12022 93 --QEPKYQCLYCPYRAKLRFNLKTHINVKHSYEYIRIIL 129 (143)
Q Consensus 93 --~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~ 129 (143)
++ .|.|.+|...|.....|.+|....|..+.-.++.
T Consensus 454 ~~~q-~f~~ky~~atfyss~~ltrhin~~Hpse~rqv~l 491 (500)
T KOG3993|consen 454 IAEQ-GFTCKYCPATFYSSPGLTRHINKCHPSELRQVAL 491 (500)
T ss_pred chhh-ccccccchHhhhcCcchHhHhhhcChHHhhhhHH
Confidence 01 2677788888888888889988888877655543
No 22
>PHA00616 hypothetical protein
Probab=98.23 E-value=3.1e-07 Score=45.33 Aligned_cols=29 Identities=24% Similarity=0.410 Sum_probs=27.7
Q ss_pred CCCCCccccccCChhHHhcccccccCCCC
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKYDCGQEP 47 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~ 47 (143)
||+|..||+.|.++++|..|++.|.+.++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~ 29 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNK 29 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCc
Confidence 79999999999999999999999999987
No 23
>PHA00732 hypothetical protein
Probab=98.14 E-value=2e-06 Score=48.45 Aligned_cols=47 Identities=32% Similarity=0.689 Sum_probs=38.6
Q ss_pred CCCCCccccccCChhHHhccccc-ccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhc
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKY-DCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDC 91 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~-h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~ 91 (143)
||.|..|++.|.+...|..|++. |. + +.|+.|++.|.+ +..|.+...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~--------------------~~C~~CgKsF~~---l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---L--------------------TKCPVCNKSYRR---LNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---C--------------------CccCCCCCEeCC---hhhhhcccC
Confidence 68999999999999999999874 43 2 579999999984 667876553
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.12 E-value=5.6e-06 Score=43.27 Aligned_cols=52 Identities=29% Similarity=0.522 Sum_probs=39.3
Q ss_pred ccccCcccccccChHHHHhhhhhhc-CCCCCeeccCCcccccChHHHHhHHhhhcc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDC-GQEPKYQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~-~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
.|.||.|++. .+...|..|....+ .+...+.|++|...+. .+|..|+...|+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 3899999994 55678999987544 4333489999998644 489999988774
No 25
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.11 E-value=2.8e-06 Score=36.31 Aligned_cols=22 Identities=32% Similarity=0.585 Sum_probs=15.9
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
|.|..|++.|.....|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5677777777777777777765
No 26
>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=98.03 E-value=1.4e-06 Score=38.47 Aligned_cols=26 Identities=35% Similarity=0.943 Sum_probs=19.9
Q ss_pred HHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccC
Q psy12022 34 GLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQ 79 (143)
Q Consensus 34 ~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~ 79 (143)
+|..|++.|.++++ |.|+.|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~--------------------~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKP--------------------YKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSS--------------------EEESSSSEEESS
T ss_pred CHHHHhhhcCCCCC--------------------CCCCCCcCeeCc
Confidence 36677777776666 999999999863
No 27
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.02 E-value=5.9e-06 Score=35.41 Aligned_cols=24 Identities=25% Similarity=0.627 Sum_probs=16.6
Q ss_pred eeccCCcccccChHHHHhHHhhhc
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~ 120 (143)
|.|++|+..|.....|..|+.++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567778888888888888877664
No 28
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.93 E-value=9e-06 Score=36.12 Aligned_cols=26 Identities=19% Similarity=0.262 Sum_probs=20.9
Q ss_pred CeeccCCcccccChHHHHhHHhhhcc
Q psy12022 96 KYQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 96 ~~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
+|.|..|+..|.....|..|++.|++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 47888888888888888888887654
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.87 E-value=8.7e-06 Score=34.72 Aligned_cols=23 Identities=35% Similarity=0.907 Sum_probs=21.1
Q ss_pred cccCcccccccChHHHHhhhhhh
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYD 90 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h 90 (143)
|+|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 57999999999999999999874
No 30
>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=97.75 E-value=4.2e-05 Score=39.95 Aligned_cols=52 Identities=23% Similarity=0.408 Sum_probs=38.0
Q ss_pred CCCCCccccccCChhHHhccccc-ccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcC
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKY-DCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~-h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
.|.|+.|++ ..+...|..|... |.... +.+.||+|...+. ..|..|+..+++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~-------------------~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSES-------------------KNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCC-------------------CCccCCCchhhhh--hHHHHHHHHhcC
Confidence 589999999 5667889999754 44332 2389999998654 378889887653
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.75 E-value=9.7e-06 Score=36.01 Aligned_cols=26 Identities=38% Similarity=0.884 Sum_probs=23.6
Q ss_pred CCCCCccccccCChhHHhcccccccC
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKYDCG 44 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~h~~ 44 (143)
||+|..|++.|.+...|..|++.|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999988753
No 32
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.56 E-value=5.5e-05 Score=32.24 Aligned_cols=24 Identities=33% Similarity=0.847 Sum_probs=19.8
Q ss_pred cccCcccccccChHHHHhhhhhhc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDC 91 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~ 91 (143)
|.|+.|++.|.+...|..|+..++
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 579999999999999999998764
No 33
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.45 E-value=0.00012 Score=42.82 Aligned_cols=24 Identities=25% Similarity=0.493 Sum_probs=0.0
Q ss_pred CCCccccccCChhHHhcccccccC
Q psy12022 21 ACDVCGKEYKQKYGLNRHKKYDCG 44 (143)
Q Consensus 21 ~C~~C~~~f~~~~~l~~h~~~h~~ 44 (143)
+|..|+..|.+...|..|+....+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~ 24 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHG 24 (100)
T ss_dssp ------------------------
T ss_pred Cccccccccccccccccccccccc
Confidence 488999999999999999854443
No 34
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.38 E-value=9.7e-05 Score=37.38 Aligned_cols=35 Identities=20% Similarity=0.349 Sum_probs=21.5
Q ss_pred hcCCCCCeeccCCcccccChHHHHhHHhhhccHHH
Q psy12022 90 DCGQEPKYQCLYCPYRAKLRFNLKTHINVKHSYEY 124 (143)
Q Consensus 90 h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~ 124 (143)
+..+.+|-.|++|+..+....+|++|+.+.|+.+.
T Consensus 18 ~~~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 18 KSQSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp CCTTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred hhccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 33334448888888888888888888888776543
No 35
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.29 E-value=0.00025 Score=30.44 Aligned_cols=24 Identities=38% Similarity=0.858 Sum_probs=15.7
Q ss_pred eeccCCcccccChHHHHhHHhhhcc
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
|+|..|+.... ...|..|++++|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 56777777766 6677777777653
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.24 E-value=0.00024 Score=30.63 Aligned_cols=23 Identities=30% Similarity=0.530 Sum_probs=17.8
Q ss_pred eeccCCcccccChHHHHhHHhhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVK 119 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~ 119 (143)
|.|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 46788888888888888887754
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.19 E-value=0.00018 Score=50.19 Aligned_cols=23 Identities=39% Similarity=0.876 Sum_probs=20.9
Q ss_pred CCCCCCCc--cccccCChhHHhccc
Q psy12022 17 AEMFACDV--CGKEYKQKYGLNRHK 39 (143)
Q Consensus 17 ~~~~~C~~--C~~~f~~~~~l~~h~ 39 (143)
+|||+|+. |.+.+.+...|.-|+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~ 371 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHM 371 (423)
T ss_pred CceecCCCCCchhhhccccchhhhh
Confidence 48999997 999999999999886
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.04 E-value=0.00022 Score=49.87 Aligned_cols=53 Identities=34% Similarity=0.611 Sum_probs=42.4
Q ss_pred CCCccccCc--ccccccChHHHHhhhhhhc-------------------CCCCCeeccCCcccccChHHHHhHHh
Q psy12022 64 HAEMFACDV--CGKEYKQKYGLNRHKKYDC-------------------GQEPKYQCLYCPYRAKLRFNLKTHIN 117 (143)
Q Consensus 64 ~~~~~~C~~--C~~~~~~~~~l~~h~~~h~-------------------~~~~~~~C~~C~~~f~~~~~l~~H~~ 117 (143)
+++||+|++ |.+.+.+...|.-|+.--+ .++| |.|.+|++.++....|+-|+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KP-YrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKP-YRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCc-eeccccchhhccCccceeccc
Confidence 359999987 9999999999998875211 1245 999999999999988887765
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.03 E-value=0.00034 Score=30.13 Aligned_cols=24 Identities=33% Similarity=0.748 Sum_probs=21.3
Q ss_pred CCCCccccccCChhHHhccccccc
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKYDC 43 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~h~ 43 (143)
|.|..|++.|.+...|..|+..|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999987554
No 40
>PRK04860 hypothetical protein; Provisional
Probab=96.89 E-value=0.00056 Score=43.80 Aligned_cols=39 Identities=21% Similarity=0.551 Sum_probs=33.2
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChH
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRF 110 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~ 110 (143)
+|.|. |+. ....+..|.+++.++++ |.|..|+..|....
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~-YrC~~C~~~l~~~~ 157 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAV-YRCRRCGETLVFKG 157 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCcc-EECCCCCceeEEec
Confidence 68998 987 56678899999999888 99999999887654
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.85 E-value=0.0012 Score=28.48 Aligned_cols=22 Identities=18% Similarity=0.413 Sum_probs=17.0
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
|.|.+|+..|.....|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 5678888888888888888764
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.69 E-value=0.0016 Score=33.07 Aligned_cols=31 Identities=26% Similarity=0.513 Sum_probs=22.5
Q ss_pred CCccccCcccccccChHHHHhhhhhhcCCCC
Q psy12022 65 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEP 95 (143)
Q Consensus 65 ~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~ 95 (143)
+.|..|++|+..+.+..+|..|+.+.++.+|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3468999999999999999999998888665
No 43
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.51 E-value=0.0024 Score=28.14 Aligned_cols=22 Identities=36% Similarity=0.751 Sum_probs=20.4
Q ss_pred CCCCccccccCChhHHhccccc
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKY 41 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~ 41 (143)
|.|..|++.|.+...+..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6899999999999999999875
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.44 E-value=0.0008 Score=29.02 Aligned_cols=23 Identities=30% Similarity=0.811 Sum_probs=20.5
Q ss_pred CCCCccccccCChhHHhcccccc
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKYD 42 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~h 42 (143)
|.|..|+..|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 57999999999999999998754
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.35 E-value=0.0029 Score=26.98 Aligned_cols=24 Identities=29% Similarity=0.497 Sum_probs=18.6
Q ss_pred cccCcccccccChHHHHhhhhhhcC
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
|.|+.|++... ...|..|++.+++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 57999999988 8899999998753
No 46
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.09 E-value=0.0031 Score=27.76 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=14.7
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
|.|..|++.|.....|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5677777777777777666653
No 47
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.26 E-value=0.017 Score=24.93 Aligned_cols=19 Identities=21% Similarity=0.319 Sum_probs=10.5
Q ss_pred eccCCcccccChHHHHhHHh
Q psy12022 98 QCLYCPYRAKLRFNLKTHIN 117 (143)
Q Consensus 98 ~C~~C~~~f~~~~~l~~H~~ 117 (143)
.|..|++.| ..+.|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 456666666 4445555554
No 48
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.38 E-value=0.042 Score=25.47 Aligned_cols=22 Identities=14% Similarity=0.427 Sum_probs=18.9
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
|-|.+|+..|.....+..|+..
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred eEccccCCccCCHHHHHHHHCh
Confidence 8899999999988888888764
No 49
>PRK04860 hypothetical protein; Provisional
Probab=94.08 E-value=0.017 Score=37.12 Aligned_cols=38 Identities=24% Similarity=0.665 Sum_probs=29.5
Q ss_pred CCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccCh
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQK 80 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~ 80 (143)
+|.|. |+. ....+..|.+++.+..+ |.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~--------------------YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAV--------------------YRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCcc--------------------EECCCCCceeEEe
Confidence 68897 887 55667788888887776 8999998877543
No 50
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=92.05 E-value=0.083 Score=24.39 Aligned_cols=24 Identities=33% Similarity=0.895 Sum_probs=17.1
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
|.|..||..+.... .+ +.|++|+.
T Consensus 2 ~~C~~CGy~y~~~~------------~~-~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE------------AP-WVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc------------CC-CcCcCCCC
Confidence 67888887765443 34 88999985
No 51
>KOG1146|consensus
Probab=91.34 E-value=0.26 Score=41.29 Aligned_cols=66 Identities=21% Similarity=0.390 Sum_probs=50.5
Q ss_pred ccCCCccccCcccccccChHHHHhhhhhhc-------------------------CCCCCeeccCCcccccChHHHHhHH
Q psy12022 62 QNHAEMFACDVCGKEYKQKYGLNRHKKYDC-------------------------GQEPKYQCLYCPYRAKLRFNLKTHI 116 (143)
Q Consensus 62 ~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~-------------------------~~~~~~~C~~C~~~f~~~~~l~~H~ 116 (143)
+...+.++|+.|+..|.....|..|++.-+ +.++ |.|..|+..+....+|..|+
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p-~~C~~C~~stttng~Lsihl 538 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP-YPCRACNYSTTTNGNLSIHL 538 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc-ccceeeeeeeecchHHHHHH
Confidence 444567999999999999999999998711 1134 89999999999999999998
Q ss_pred hhhccHHHHHHH
Q psy12022 117 NVKHSYEYIRII 128 (143)
Q Consensus 117 ~~~~~~~~~~~~ 128 (143)
+...........
T Consensus 539 qS~~h~~~lee~ 550 (1406)
T KOG1146|consen 539 QSDLHRNELEEA 550 (1406)
T ss_pred HHHhhHHHHHHH
Confidence 865443333333
No 52
>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=91.10 E-value=0.21 Score=33.69 Aligned_cols=35 Identities=20% Similarity=0.287 Sum_probs=25.5
Q ss_pred CCCCCeeccCCcccccChHHHHhHHhhhccHHHHHH
Q psy12022 92 GQEPKYQCLYCPYRAKLRFNLKTHINVKHSYEYIRI 127 (143)
Q Consensus 92 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~~~ 127 (143)
++.+ |.|..|++.|.-..-+.+|+...|.++.-.+
T Consensus 74 ~~~K-~~C~lc~KlFkg~eFV~KHI~nKH~e~ve~~ 108 (214)
T PF04959_consen 74 DEDK-WRCPLCGKLFKGPEFVRKHIFNKHPEKVEEV 108 (214)
T ss_dssp SSEE-EEE-SSS-EESSHHHHHHHHHHH-HHHHHHH
T ss_pred cCCE-ECCCCCCcccCChHHHHHHHhhcCHHHHHHH
Confidence 3446 9999999999999999999999898764433
No 53
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=91.09 E-value=0.064 Score=27.76 Aligned_cols=37 Identities=16% Similarity=0.411 Sum_probs=29.1
Q ss_pred CCCCCCcccCCCCCCCCCccccccCChhHHhcccccc
Q psy12022 6 FSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYD 42 (143)
Q Consensus 6 ~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~~~h 42 (143)
+....-+..-||..++|+-||..|....++..|.+..
T Consensus 4 ~KA~Kv~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 4 LKAIKVRDRDGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred ceeeEeeccCCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 3334445667888999999999999999999997543
No 54
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=90.21 E-value=0.16 Score=26.30 Aligned_cols=29 Identities=28% Similarity=0.477 Sum_probs=19.8
Q ss_pred CCCCCeeccCCcccccChHHHHhHHhhhcc
Q psy12022 92 GQEPKYQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 92 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
|+.- +.|+.|+..|....++.+|....|+
T Consensus 14 GE~~-lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 14 GEEF-LRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred Ccee-eeCCchhHHHHHhHHHHHHhhHHhh
Confidence 4444 6777777777777777777766554
No 55
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=88.61 E-value=0.13 Score=37.50 Aligned_cols=57 Identities=23% Similarity=0.403 Sum_probs=50.8
Q ss_pred CccccCcccccccChHHHHhhhh--hhcCC--CCCeecc--CCcccccChHHHHhHHhhhccHH
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKK--YDCGQ--EPKYQCL--YCPYRAKLRFNLKTHINVKHSYE 123 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~--~h~~~--~~~~~C~--~C~~~f~~~~~l~~H~~~~~~~~ 123 (143)
.++.|..|...|.....+..|.+ .|.++ ++ +.|. .|++.|.+...+..|..+|....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~-~~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP-FSCPYSLCGKLFSRNDALKRHILLHTSIS 350 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCc-eeeeccCCCccccccccccCCcccccCCC
Confidence 46889999999999999999999 79887 66 9999 79999999999999999887654
No 56
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=88.60 E-value=0.36 Score=27.82 Aligned_cols=24 Identities=25% Similarity=0.683 Sum_probs=19.8
Q ss_pred ccccCcccccccChHHHHhhhhhh
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYD 90 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h 90 (143)
.+.|..|++.|.+...|..|++.+
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCCccCCCCcCHHHHHHHHcCc
Confidence 478999999999999999999864
No 57
>KOG2231|consensus
Probab=88.35 E-value=0.43 Score=37.44 Aligned_cols=49 Identities=22% Similarity=0.415 Sum_probs=37.8
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCC------cccccChHHHHhHHhhhcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYC------PYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C------~~~f~~~~~l~~H~~~~~~ 121 (143)
-.|..|...|.....+..|++.++ |-|..| +..|....+|..|.+..|-
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h-----~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH-----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce-----eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 468899999999999999998765 444445 4567777889999888773
No 58
>KOG1146|consensus
Probab=87.81 E-value=0.63 Score=39.17 Aligned_cols=105 Identities=19% Similarity=0.385 Sum_probs=71.9
Q ss_pred CCCCCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccc-----cccCCCccccCcccccccChHHHHhhhhh
Q psy12022 15 NHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGE-----KQNHAEMFACDVCGKEYKQKYGLNRHKKY 89 (143)
Q Consensus 15 ~~~~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~-----~~~~~~~~~C~~C~~~~~~~~~l~~h~~~ 89 (143)
...+-|.|..|+..|.....|-.||+.-..+-..-.|..+...... .-.+.++|.|..|..++.....|..|+..
T Consensus 461 S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 461 SFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred cccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHHH
Confidence 3347899999999999999999999863333221334333222221 23456789999999999998888888752
Q ss_pred hc-------------------------------------C-----CCCCeeccCCcccccChHHHHhHHhhh
Q psy12022 90 DC-------------------------------------G-----QEPKYQCLYCPYRAKLRFNLKTHINVK 119 (143)
Q Consensus 90 h~-------------------------------------~-----~~~~~~C~~C~~~f~~~~~l~~H~~~~ 119 (143)
.. | .++.+.|.+|+..-+-..+|+.|+..-
T Consensus 541 ~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmtss 612 (1406)
T KOG1146|consen 541 DLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMTAS 612 (1406)
T ss_pred HhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccccC
Confidence 20 0 134588999998877777777777643
No 59
>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=87.58 E-value=0.29 Score=22.76 Aligned_cols=24 Identities=29% Similarity=0.677 Sum_probs=16.3
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
|.|..||..+... .+|..|++|+.
T Consensus 3 ~~C~~CG~i~~g~-------------~~p~~CP~Cg~ 26 (34)
T cd00729 3 WVCPVCGYIHEGE-------------EAPEKCPICGA 26 (34)
T ss_pred EECCCCCCEeECC-------------cCCCcCcCCCC
Confidence 7788888765432 23378888885
No 60
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=87.18 E-value=0.56 Score=24.71 Aligned_cols=32 Identities=28% Similarity=0.706 Sum_probs=20.8
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
.|.|+.||........- . |.+ + .+ |.|+.||.
T Consensus 27 ~F~CPnCGe~~I~Rc~~--C-Rk~-g-~~-Y~Cp~CGF 58 (61)
T COG2888 27 KFPCPNCGEVEIYRCAK--C-RKL-G-NP-YRCPKCGF 58 (61)
T ss_pred EeeCCCCCceeeehhhh--H-HHc-C-Cc-eECCCcCc
Confidence 38999999765554321 1 112 3 67 99999984
No 61
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=86.98 E-value=0.59 Score=22.13 Aligned_cols=34 Identities=15% Similarity=0.402 Sum_probs=23.2
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
..|+.|+..|.-..+- +..+... .+|..|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~-vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRK-VRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcE-EECCCCCcEee
Confidence 4689998888766542 1123345 89999998774
No 62
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=86.68 E-value=0.21 Score=33.72 Aligned_cols=44 Identities=34% Similarity=0.619 Sum_probs=28.2
Q ss_pred CccccCcccccccChHHHHhhhhh---h-------cCCCC----CeeccCCcccccCh
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKY---D-------CGQEP----KYQCLYCPYRAKLR 109 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~---h-------~~~~~----~~~C~~C~~~f~~~ 109 (143)
+...||.|+..|.+........+. . .+.+| +.+|+.||.+|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 457899999999876554444432 1 12233 24899999876543
No 63
>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=86.46 E-value=0.82 Score=22.38 Aligned_cols=24 Identities=42% Similarity=0.689 Sum_probs=14.9
Q ss_pred eeccCCcccccCh----HHHHhHHhhhc
Q psy12022 97 YQCLYCPYRAKLR----FNLKTHINVKH 120 (143)
Q Consensus 97 ~~C~~C~~~f~~~----~~l~~H~~~~~ 120 (143)
..|..|+..+... +.|..|++..|
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 7888888877653 67888885433
No 64
>PHA00626 hypothetical protein
Probab=85.58 E-value=0.33 Score=25.21 Aligned_cols=15 Identities=27% Similarity=0.687 Sum_probs=10.9
Q ss_pred CCCeeccCCcccccCh
Q psy12022 94 EPKYQCLYCPYRAKLR 109 (143)
Q Consensus 94 ~~~~~C~~C~~~f~~~ 109 (143)
+. |+|..||..|+..
T Consensus 22 nr-YkCkdCGY~ft~~ 36 (59)
T PHA00626 22 DD-YVCCDCGYNDSKD 36 (59)
T ss_pred cc-eEcCCCCCeechh
Confidence 45 8888888877543
No 65
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=85.40 E-value=0.43 Score=34.85 Aligned_cols=62 Identities=24% Similarity=0.516 Sum_probs=48.4
Q ss_pred CCCCCCccccccCChhHHhcccc--cccCC--CCcccCCCCCCCccccccCCCccccC--cccccccChHHHHhhhhhhc
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKK--YDCGQ--EPKYHGEDFSSWPGEKQNHAEMFACD--VCGKEYKQKYGLNRHKKYDC 91 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~--~h~~~--~~~~~c~~f~~~~~~~~~~~~~~~C~--~C~~~~~~~~~l~~h~~~h~ 91 (143)
.++.|..|...|.....+..|.. .|.++ .+ +.|+ .|++.|.....+..|...|.
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~--------------------~~~p~~~~~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP--------------------FSCPYSLCGKLFSRNDALKRHILLHT 347 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCc--------------------eeeeccCCCccccccccccCCccccc
Confidence 46888889999999988888888 56666 44 7888 78999988888888888887
Q ss_pred CCCCCeecc
Q psy12022 92 GQEPKYQCL 100 (143)
Q Consensus 92 ~~~~~~~C~ 100 (143)
+..+ +.+.
T Consensus 348 ~~~~-~~~~ 355 (467)
T COG5048 348 SISP-AKEK 355 (467)
T ss_pred CCCc-cccc
Confidence 7554 5444
No 66
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=84.24 E-value=0.57 Score=30.30 Aligned_cols=24 Identities=33% Similarity=0.760 Sum_probs=18.0
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
-|.|+.||+. +.| .+|-+|++||.
T Consensus 134 ~~vC~vCGy~-------------~~g-e~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT-------------HEG-EAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc-------------ccC-CCCCcCCCCCC
Confidence 5899999764 345 45599999983
No 67
>KOG2186|consensus
Probab=84.06 E-value=1.1 Score=30.97 Aligned_cols=54 Identities=20% Similarity=0.451 Sum_probs=40.1
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChHHHHhHHhhhccHHHH
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRFNLKTHINVKHSYEYI 125 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~~~~~~ 125 (143)
|.|..||.+..-+ .+..|+....+ .. |.|.-|+..|-. ..+..|..=-+..+.|
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~-fSCIDC~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AY-FSCIDCGKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-Ce-eEEeeccccccc-chhhhhhhhcchHHHh
Confidence 6789999888765 45669988877 55 999999999966 6777887654444433
No 68
>KOG2893|consensus
Probab=84.04 E-value=0.34 Score=33.05 Aligned_cols=44 Identities=23% Similarity=0.480 Sum_probs=35.4
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChHHHHhH
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRFNLKTH 115 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~~l~~H 115 (143)
++| |=+|++.|.....|..|++. +. |+|.+|-+...+.-.|..|
T Consensus 10 kpw-cwycnrefddekiliqhqka----kh-fkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 10 KPW-CWYCNREFDDEKILIQHQKA----KH-FKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred Cce-eeecccccchhhhhhhhhhh----cc-ceeeeehhhhccCCCceee
Confidence 455 77899999999999998874 34 9999999877777677777
No 69
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=83.78 E-value=0.45 Score=30.40 Aligned_cols=19 Identities=21% Similarity=0.401 Sum_probs=14.0
Q ss_pred cccCcccccccChHHHHhh
Q psy12022 68 FACDVCGKEYKQKYGLNRH 86 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h 86 (143)
+.|+.||++|.+...+..-
T Consensus 29 ~~c~~c~~~f~~~e~~~~~ 47 (154)
T PRK00464 29 RECLACGKRFTTFERVELV 47 (154)
T ss_pred eeccccCCcceEeEeccCc
Confidence 7899999998876555433
No 70
>KOG4173|consensus
Probab=83.03 E-value=0.41 Score=31.91 Aligned_cols=53 Identities=25% Similarity=0.379 Sum_probs=39.4
Q ss_pred cccCcccccccChHHHHhhhhhhc---------CCCCCeeccC--CcccccChHHHHhHHhhhc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDC---------GQEPKYQCLY--CPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~---------~~~~~~~C~~--C~~~f~~~~~l~~H~~~~~ 120 (143)
..|..|.+.|++..-|..|+.-.+ .++.-|+|-+ |+..|.+....+.|+-.-|
T Consensus 107 ~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 107 NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 369999999999988888886433 1133378875 8889988888888876554
No 71
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=82.20 E-value=1.2 Score=20.92 Aligned_cols=34 Identities=15% Similarity=0.220 Sum_probs=23.0
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
..|+.|+..|.-..... -..... .+|..|+..|.
T Consensus 3 i~Cp~C~~~y~i~d~~i-----p~~g~~-v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKI-----PPKGRK-VRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHC-----CCCCcE-EECCCCCCEeC
Confidence 46888988887765532 122245 89999998773
No 72
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=82.00 E-value=1.4 Score=26.24 Aligned_cols=25 Identities=24% Similarity=0.650 Sum_probs=21.3
Q ss_pred eec----cCCcccccChHHHHhHHhhhcc
Q psy12022 97 YQC----LYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 97 ~~C----~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
|.| ..|+..+.....+.+|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 888 8888888888889999888774
No 73
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=81.66 E-value=2.4 Score=25.57 Aligned_cols=92 Identities=15% Similarity=0.144 Sum_probs=51.9
Q ss_pred CCCCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcCCCCCe
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKY 97 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~ 97 (143)
-|-.|+.||-+.....+|.+......... .|...... .......|--|...|........ ..-..... |
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~------~f~ev~~~--~~~~~~~C~~C~~~f~~~~~~~~--~~~~~~~~-y 82 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLK------AFQEIPLE--EYNGSRFCFGCQGPFPKPPVSPF--DELKDSHR-Y 82 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCc------cccccccc--ccCCCCcccCcCCCCCCcccccc--cccccccc-e
Confidence 47789999988888777765422111111 12111100 01111348888888875431110 00112234 9
Q ss_pred eccCCcccccChHHHHhHHhhhc
Q psy12022 98 QCLYCPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 98 ~C~~C~~~f~~~~~l~~H~~~~~ 120 (143)
.|..|...|-..-+.-.|...|.
T Consensus 83 ~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 83 VCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred eCCCCCCccccccchhhhhhccC
Confidence 99999999988888888887764
No 74
>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=81.05 E-value=1.1 Score=21.06 Aligned_cols=34 Identities=12% Similarity=0.215 Sum_probs=22.2
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
+.|+.|+..|.-..... ...... ..|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~-v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGK-VRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCE-EECCCCCCEEE
Confidence 57999998877654432 112224 88999998764
No 75
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=80.78 E-value=1.3 Score=21.89 Aligned_cols=26 Identities=35% Similarity=0.919 Sum_probs=18.1
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
|.|..||..|... ...+ ..|+.||..
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~-irC~~CG~r 28 (44)
T smart00659 3 YICGECGRENEIK-----------SKDV-VRCRECGYR 28 (44)
T ss_pred EECCCCCCEeecC-----------CCCc-eECCCCCce
Confidence 7788888876643 2244 889999854
No 76
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=78.88 E-value=1.1 Score=28.68 Aligned_cols=33 Identities=12% Similarity=0.296 Sum_probs=25.4
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccC
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKL 108 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~ 108 (143)
.-|.|+.|+..|....++. .. |.|+.||.....
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~-F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LN-FTCPRCGAMLDY 140 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cC-CcCCCCCCEeee
Confidence 4589999998888877764 23 999999976443
No 77
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=78.29 E-value=1 Score=29.53 Aligned_cols=34 Identities=15% Similarity=0.360 Sum_probs=25.4
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccCh
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLR 109 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~ 109 (143)
.-|.|+.|+..|....++. .. |.|+.||......
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~-F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YG-FRCPQCGEMLEEY 149 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cC-CcCCCCCCCCeec
Confidence 3489999998888776653 24 9999999765443
No 78
>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=76.24 E-value=0.87 Score=31.54 Aligned_cols=29 Identities=17% Similarity=0.358 Sum_probs=19.0
Q ss_pred CCcccCCCCCCCCCccccccCChhHHhccc
Q psy12022 10 PGEKQNHAEMFACDVCGKEYKQKYGLNRHK 39 (143)
Q Consensus 10 ~~~~~~~~~~~~C~~C~~~f~~~~~l~~h~ 39 (143)
+..+.+|.+.|+|..|...... .+--.|+
T Consensus 133 R~vw~hGGrif~CsfC~~flCE-DDQFEHQ 161 (314)
T PF06524_consen 133 RGVWDHGGRIFKCSFCDNFLCE-DDQFEHQ 161 (314)
T ss_pred cccccCCCeEEEeecCCCeeec-cchhhhh
Confidence 4456788889999999874443 3333454
No 79
>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=76.07 E-value=2.7 Score=18.14 Aligned_cols=19 Identities=32% Similarity=0.553 Sum_probs=11.1
Q ss_pred ccCcccccccChHHHHhhhh
Q psy12022 69 ACDVCGKEYKQKYGLNRHKK 88 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~ 88 (143)
.||.|++.+ ....++.|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 567777666 3345555554
No 80
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=75.29 E-value=2.3 Score=22.44 Aligned_cols=31 Identities=29% Similarity=0.791 Sum_probs=19.1
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
|.|+.||.....+-. .-++ -..+ |.|+.||.
T Consensus 26 F~CPnCG~~~I~RC~--~CRk---~~~~-Y~CP~CGF 56 (59)
T PRK14890 26 FLCPNCGEVIIYRCE--KCRK---QSNP-YTCPKCGF 56 (59)
T ss_pred eeCCCCCCeeEeech--hHHh---cCCc-eECCCCCC
Confidence 889999976333321 1111 1256 99999984
No 81
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=75.17 E-value=2.6 Score=21.27 Aligned_cols=21 Identities=29% Similarity=0.637 Sum_probs=12.3
Q ss_pred eeccCCcccccCh-----HHHHhHHh
Q psy12022 97 YQCLYCPYRAKLR-----FNLKTHIN 117 (143)
Q Consensus 97 ~~C~~C~~~f~~~-----~~l~~H~~ 117 (143)
-.|..|++.+... +.|.+|+.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 4566666655433 46666666
No 82
>KOG2893|consensus
Probab=73.48 E-value=0.91 Score=31.06 Aligned_cols=20 Identities=30% Similarity=0.596 Sum_probs=17.6
Q ss_pred CCccccccCChhHHhccccc
Q psy12022 22 CDVCGKEYKQKYGLNRHKKY 41 (143)
Q Consensus 22 C~~C~~~f~~~~~l~~h~~~ 41 (143)
|=.|++.|-...-|.+|++.
T Consensus 13 cwycnrefddekiliqhqka 32 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA 32 (341)
T ss_pred eeecccccchhhhhhhhhhh
Confidence 66799999999999999865
No 83
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.27 E-value=3.5 Score=26.09 Aligned_cols=38 Identities=16% Similarity=0.379 Sum_probs=25.4
Q ss_pred CCccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 65 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 65 ~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
..-|.|+.|+..|.....+.. . .. ... |.|+.||....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~-~--d~-~~~-f~Cp~Cg~~l~ 134 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL-L--DM-DGT-FTCPRCGEELE 134 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh-c--CC-CCc-EECCCCCCEEE
Confidence 345899999998886554432 1 11 234 99999997653
No 84
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=72.98 E-value=4.8 Score=25.07 Aligned_cols=24 Identities=29% Similarity=0.516 Sum_probs=15.3
Q ss_pred eeccCCcccccChHHHHhHHhhhccHH
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKHSYE 123 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~~~~ 123 (143)
..|-+||+.|... ++|+..||+-.
T Consensus 73 i~clecGk~~k~L---krHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFKTL---KRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EESBH---HHHHHHTT-S-
T ss_pred eEEccCCcccchH---HHHHHHccCCC
Confidence 6899999988765 78999987643
No 85
>PF14353 CpXC: CpXC protein
Probab=72.14 E-value=4 Score=25.00 Aligned_cols=40 Identities=25% Similarity=0.525 Sum_probs=21.0
Q ss_pred cccCcccccccCh----------HHHHhhhhhhcCCCCCeeccCCcccccCh
Q psy12022 68 FACDVCGKEYKQK----------YGLNRHKKYDCGQEPKYQCLYCPYRAKLR 109 (143)
Q Consensus 68 ~~C~~C~~~~~~~----------~~l~~h~~~h~~~~~~~~C~~C~~~f~~~ 109 (143)
..|+.|+..|... ..+. .++..|+--.+.|+.||..|.-.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~--e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELK--EKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHH--HHHHcCCcCEEECCCCCCceecC
Confidence 3577787665311 1222 22333433237888888766533
No 86
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=70.30 E-value=1.1 Score=22.78 Aligned_cols=29 Identities=17% Similarity=0.501 Sum_probs=18.1
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
|.|..||..|.....+ .. +.. ..|+.|+.
T Consensus 6 y~C~~Cg~~fe~~~~~------~~-~~~-~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQKM------SD-DPL-ATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEec------CC-CCC-CCCCCCCC
Confidence 6888898877643221 11 233 67888885
No 87
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=70.13 E-value=1.9 Score=23.80 Aligned_cols=41 Identities=15% Similarity=0.237 Sum_probs=22.7
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeecc--CCcccccChHH
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCL--YCPYRAKLRFN 111 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~--~C~~~f~~~~~ 111 (143)
+.|+.||.......+-.... ...+.. +.|. .||..|.....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~--~~~~~Y-~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITD--TTKERY-HQCQNVNCSATFITYES 44 (72)
T ss_pred ccCCCCCCccEEEEChhcCh--hhheee-eecCCCCCCCEEEEEEE
Confidence 46888886543332222111 123344 7888 89988865543
No 88
>KOG2186|consensus
Probab=70.07 E-value=1.2 Score=30.64 Aligned_cols=50 Identities=28% Similarity=0.616 Sum_probs=33.6
Q ss_pred CCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccccccChHHHHhhhhhhcC
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
|.|..||....-. .+..|+-.-.+ .- |.|..|++.|.. .+...|..--+.
T Consensus 4 FtCnvCgEsvKKp-~vekH~srCrn-~~--------------------fSCIDC~k~F~~-~sYknH~kCITE 53 (276)
T KOG2186|consen 4 FTCNVCGESVKKP-QVEKHMSRCRN-AY--------------------FSCIDCGKTFER-VSYKNHTKCITE 53 (276)
T ss_pred Eehhhhhhhcccc-chHHHHHhccC-Ce--------------------eEEeeccccccc-chhhhhhhhcch
Confidence 6799999876654 35667643333 22 899999999998 456667664433
No 89
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=67.57 E-value=3.4 Score=20.98 Aligned_cols=28 Identities=32% Similarity=0.781 Sum_probs=17.9
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
-|.|..||+.+.. ...... ..|+.||..
T Consensus 6 ~Y~C~~Cg~~~~~----------~~~~~~-irCp~Cg~r 33 (49)
T COG1996 6 EYKCARCGREVEL----------DQETRG-IRCPYCGSR 33 (49)
T ss_pred EEEhhhcCCeeeh----------hhccCc-eeCCCCCcE
Confidence 4889999988711 111133 889999854
No 90
>KOG2593|consensus
Probab=67.50 E-value=3.8 Score=30.58 Aligned_cols=36 Identities=19% Similarity=0.461 Sum_probs=26.0
Q ss_pred CCccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 65 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 65 ~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
...|.|+.|.+.|.....+..- ..- ... |.|..|+-
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~-~~~--~~~-F~C~~C~g 161 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLL-DNE--TGE-FHCENCGG 161 (436)
T ss_pred cccccCCccccchhhhHHHHhh-ccc--Cce-EEEecCCC
Confidence 4569999999999988776532 222 235 99999984
No 91
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=67.33 E-value=4.6 Score=23.99 Aligned_cols=27 Identities=22% Similarity=0.540 Sum_probs=23.6
Q ss_pred Ccccc----CcccccccChHHHHhhhhhhcC
Q psy12022 66 EMFAC----DVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 66 ~~~~C----~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
..|.| ..|++.+.+...+..|.+.++|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 45889 9999999999999999998764
No 92
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=66.17 E-value=3.8 Score=18.46 Aligned_cols=25 Identities=32% Similarity=0.676 Sum_probs=10.9
Q ss_pred ccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 69 ACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
+|+.|+..+.. ..+.- +.|+.|+..
T Consensus 4 ~Cp~C~se~~y-----------~D~~~-~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGEL-LVCPECGHE 28 (30)
T ss_dssp --TTT-----E-----------E-SSS-EEETTTTEE
T ss_pred CCCCCCCccee-----------ccCCE-EeCCccccc
Confidence 57777655443 23344 888888754
No 93
>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=65.97 E-value=3.2 Score=17.96 Aligned_cols=11 Identities=27% Similarity=0.854 Sum_probs=8.0
Q ss_pred cccCccccccc
Q psy12022 68 FACDVCGKEYK 78 (143)
Q Consensus 68 ~~C~~C~~~~~ 78 (143)
-.|+.||+.|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 35888888774
No 94
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=64.45 E-value=2.2 Score=21.14 Aligned_cols=30 Identities=30% Similarity=0.698 Sum_probs=18.5
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
.|.|+.||..+..... ... ..|+.||..+.
T Consensus 3 ~y~C~~CG~~~~~~~~----------~~~-~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEY----------GTG-VRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCC----------CCc-eECCCCCCeEE
Confidence 3778888876654211 013 78888886543
No 95
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=64.23 E-value=2.9 Score=17.79 Aligned_cols=10 Identities=40% Similarity=0.879 Sum_probs=7.4
Q ss_pred CccccCcccc
Q psy12022 66 EMFACDVCGK 75 (143)
Q Consensus 66 ~~~~C~~C~~ 75 (143)
..|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 3588998874
No 96
>KOG4173|consensus
Probab=63.78 E-value=5.9 Score=26.61 Aligned_cols=51 Identities=25% Similarity=0.428 Sum_probs=37.7
Q ss_pred CccccCc--ccccccChHHHHhhhhhhcCCCCCeeccCCcccccChHHHHhHHhhhc
Q psy12022 66 EMFACDV--CGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRFNLKTHINVKH 120 (143)
Q Consensus 66 ~~~~C~~--C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~~l~~H~~~~~ 120 (143)
..+.|+. |...|.+......|-...++ -+|.+|.+.|.+..-|..|..--|
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~----~sCs~C~r~~Pt~hLLd~HI~E~H 130 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG----NSCSFCKRAFPTGHLLDAHILEWH 130 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc----chhHHHHHhCCchhhhhHHHHHHH
Confidence 3467876 66777777767666655545 689999999999988888866444
No 97
>KOG2231|consensus
Probab=62.94 E-value=9.7 Score=30.31 Aligned_cols=23 Identities=26% Similarity=0.664 Sum_probs=16.6
Q ss_pred CCCccccccCChhHHhccccccc
Q psy12022 21 ACDVCGKEYKQKYGLNRHKKYDC 43 (143)
Q Consensus 21 ~C~~C~~~f~~~~~l~~h~~~h~ 43 (143)
.|..|...|.....|..|++.+.
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h 206 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDH 206 (669)
T ss_pred cchhhhhhhccHHHHHHhhccce
Confidence 57777777777777777776544
No 98
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.76 E-value=11 Score=27.57 Aligned_cols=23 Identities=22% Similarity=0.382 Sum_probs=17.7
Q ss_pred ccCcccccccChHHHHhhhhhhc
Q psy12022 69 ACDVCGKEYKQKYGLNRHKKYDC 91 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~~h~ 91 (143)
.|..|...|-.-..|..|++..+
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H 244 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH 244 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh
Confidence 58888888877788888887543
No 99
>PF15269 zf-C2H2_7: Zinc-finger
Probab=61.20 E-value=7.4 Score=19.25 Aligned_cols=22 Identities=27% Similarity=0.819 Sum_probs=14.8
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
|+|-+|......++.|-.|++-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 5677777777777777666653
No 100
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=59.51 E-value=4.1 Score=21.13 Aligned_cols=45 Identities=24% Similarity=0.595 Sum_probs=24.2
Q ss_pred ccccCc--ccccccChHHHHhhhhhhcCCCCCeeccC----CcccccChHHHHh
Q psy12022 67 MFACDV--CGKEYKQKYGLNRHKKYDCGQEPKYQCLY----CPYRAKLRFNLKT 114 (143)
Q Consensus 67 ~~~C~~--C~~~~~~~~~l~~h~~~h~~~~~~~~C~~----C~~~f~~~~~l~~ 114 (143)
+..|+. |...+.. ..|..|+...-...+ ..|.. |+..+... .|..
T Consensus 9 ~v~C~~~cc~~~i~r-~~l~~H~~~~C~~~~-v~C~~~~~GC~~~~~~~-~l~~ 59 (60)
T PF02176_consen 9 PVPCPNGCCNEMIPR-KELDDHLENECPKRP-VPCPYSPYGCKERVPRE-DLEE 59 (60)
T ss_dssp EEE-TT--S-BEEEC-CCHHHHHHTTSTTSE-EE-SS----S--EEEHH-HHHH
T ss_pred EeeCCCCCcccceeH-HHHHHHHHccCCCCc-EECCCCCCCCCCccchh-HHhC
Confidence 367877 4444554 468889884444355 88998 88766433 3443
No 101
>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=59.34 E-value=1.7 Score=19.25 Aligned_cols=9 Identities=33% Similarity=1.066 Sum_probs=5.0
Q ss_pred ccCcccccc
Q psy12022 69 ACDVCGKEY 77 (143)
Q Consensus 69 ~C~~C~~~~ 77 (143)
.|..|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 355555555
No 102
>KOG4167|consensus
Probab=59.10 E-value=2.2 Score=34.03 Aligned_cols=25 Identities=32% Similarity=0.575 Sum_probs=22.4
Q ss_pred ccccCcccccccChHHHHhhhhhhc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDC 91 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~ 91 (143)
=|.|.+|++.|.-..+++.||+.|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 3899999999999999999999884
No 103
>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=58.79 E-value=6.5 Score=19.20 Aligned_cols=17 Identities=18% Similarity=0.225 Sum_probs=12.9
Q ss_pred eccCCcccccChHHHHh
Q psy12022 98 QCLYCPYRAKLRFNLKT 114 (143)
Q Consensus 98 ~C~~C~~~f~~~~~l~~ 114 (143)
.|.+|++.|...-.+.+
T Consensus 10 ~C~~C~rpf~WRKKW~~ 26 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWAR 26 (42)
T ss_pred cCcccCCcchHHHHHHH
Confidence 58889988887766643
No 104
>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=58.63 E-value=5 Score=20.54 Aligned_cols=26 Identities=12% Similarity=0.340 Sum_probs=17.1
Q ss_pred CCCCCCccccccCChhHHhccccccc
Q psy12022 18 EMFACDVCGKEYKQKYGLNRHKKYDC 43 (143)
Q Consensus 18 ~~~~C~~C~~~f~~~~~l~~h~~~h~ 43 (143)
..|+|+.|.+.|-..-+...|...|.
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CeEECCCCCCccccCcChhhhccccC
Confidence 46999999999999999998987664
No 105
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=58.04 E-value=13 Score=17.95 Aligned_cols=24 Identities=33% Similarity=0.556 Sum_probs=17.0
Q ss_pred cccCcccccc--cChHHHHhhhhhhc
Q psy12022 68 FACDVCGKEY--KQKYGLNRHKKYDC 91 (143)
Q Consensus 68 ~~C~~C~~~~--~~~~~l~~h~~~h~ 91 (143)
..|+.||-.| ....+-..|.+.|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 5899999655 45566777877663
No 106
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=56.41 E-value=12 Score=27.26 Aligned_cols=76 Identities=24% Similarity=0.418 Sum_probs=43.9
Q ss_pred CCCCccccccCChhHHhcccccccCCCCcccCCCCCCCccccccCCCccccCcccc----cccChHHHHhhhhhhcCCCC
Q psy12022 20 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYHGEDFSSWPGEKQNHAEMFACDVCGK----EYKQKYGLNRHKKYDCGQEP 95 (143)
Q Consensus 20 ~~C~~C~~~f~~~~~l~~h~~~h~~~~~~~~c~~f~~~~~~~~~~~~~~~C~~C~~----~~~~~~~l~~h~~~h~~~~~ 95 (143)
-.|..|...|-+...|..|++.....- +.|+.-+. -|.+...|..|-+. ..
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~~HE~C---------------------hICD~v~p~~~QYFK~Y~~Le~HF~~----~h 275 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRLRHEAC---------------------HICDMVGPIRYQYFKSYEDLEAHFRN----AH 275 (493)
T ss_pred chhhhccceecChHHHHHHHHhhhhhh---------------------hhhhccCccchhhhhCHHHHHHHhhc----Cc
Confidence 358888888888888888876433221 33333221 23344445555442 22
Q ss_pred CeeccC--Cc----ccccChHHHHhHHhhhcc
Q psy12022 96 KYQCLY--CP----YRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 96 ~~~C~~--C~----~~f~~~~~l~~H~~~~~~ 121 (143)
|.|.+ |. ..|..-..|..|+...|+
T Consensus 276 -y~ct~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 276 -YCCTFQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred -eEEEEEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 66664 32 467777777788766664
No 107
>KOG2785|consensus
Probab=54.38 E-value=20 Score=26.54 Aligned_cols=52 Identities=19% Similarity=0.260 Sum_probs=41.9
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCC----------------------CCeeccCCc---ccccChHHHHhHHhh
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQE----------------------PKYQCLYCP---YRAKLRFNLKTHINV 118 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 118 (143)
|-.|..|++.+.+......||..++|-- ..+.|-.|+ +.|......+.||..
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4679999999999988889998777521 126888899 889999999999874
No 108
>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=52.30 E-value=7.8 Score=18.25 Aligned_cols=13 Identities=23% Similarity=0.544 Sum_probs=10.1
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
|+|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (41)
T smart00834 6 YRCEDCGHTFEVL 18 (41)
T ss_pred EEcCCCCCEEEEE
Confidence 7899999877543
No 109
>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=52.18 E-value=7.8 Score=18.75 Aligned_cols=13 Identities=23% Similarity=0.562 Sum_probs=10.2
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
|.|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 8899999877544
No 110
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=51.77 E-value=5.3 Score=24.94 Aligned_cols=15 Identities=33% Similarity=0.899 Sum_probs=11.9
Q ss_pred CccccCcccccccCh
Q psy12022 66 EMFACDVCGKEYKQK 80 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~ 80 (143)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 458999999887654
No 111
>KOG3408|consensus
Probab=51.46 E-value=10 Score=23.18 Aligned_cols=23 Identities=30% Similarity=0.454 Sum_probs=19.1
Q ss_pred eeccCCcccccChHHHHhHHhhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVK 119 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~ 119 (143)
|-|..|.+.|.....|..|.+..
T Consensus 58 fyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred eehhhhhhhhcchHHHHHHHhcc
Confidence 88888998898888888887754
No 112
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=51.30 E-value=9.1 Score=23.89 Aligned_cols=23 Identities=26% Similarity=0.333 Sum_probs=18.4
Q ss_pred eeccCCcccccChHHHHhHHhhhccH
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKHSY 122 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~~~ 122 (143)
..|-++|+.|+ .|++|+.+|++-
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCC
Confidence 57888998886 468999998863
No 113
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=51.14 E-value=11 Score=21.64 Aligned_cols=11 Identities=27% Similarity=1.099 Sum_probs=8.8
Q ss_pred cccCccccccc
Q psy12022 68 FACDVCGKEYK 78 (143)
Q Consensus 68 ~~C~~C~~~~~ 78 (143)
|.|..||..|.
T Consensus 54 W~C~kCg~~fA 64 (89)
T COG1997 54 WKCRKCGAKFA 64 (89)
T ss_pred EEcCCCCCeec
Confidence 78888888775
No 114
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=51.14 E-value=6.9 Score=18.69 Aligned_cols=16 Identities=25% Similarity=0.578 Sum_probs=13.2
Q ss_pred CCCCCccccccCChhH
Q psy12022 19 MFACDVCGKEYKQKYG 34 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~ 34 (143)
|++|..|++.|-..-.
T Consensus 12 ~f~C~~C~~~FC~~HR 27 (39)
T smart00154 12 GFKCRHCGNLFCGEHR 27 (39)
T ss_pred CeECCccCCccccccC
Confidence 8899999999987543
No 115
>KOG4167|consensus
Probab=50.79 E-value=1.9 Score=34.28 Aligned_cols=27 Identities=33% Similarity=0.554 Sum_probs=24.1
Q ss_pred CCCCCccccccCChhHHhcccccccCC
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKYDCGQ 45 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~h~~~ 45 (143)
-|.|.+|++.|-....+..||++|.-.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~q 818 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQQ 818 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHHH
Confidence 489999999999999999999998744
No 116
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=49.67 E-value=2.4 Score=20.40 Aligned_cols=11 Identities=36% Similarity=0.785 Sum_probs=8.4
Q ss_pred eeccCCccccc
Q psy12022 97 YQCLYCPYRAK 107 (143)
Q Consensus 97 ~~C~~C~~~f~ 107 (143)
|.|..|+..|.
T Consensus 29 y~C~~C~~~w~ 39 (40)
T smart00440 29 YVCTKCGHRWR 39 (40)
T ss_pred EEeCCCCCEeC
Confidence 78888887654
No 117
>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=49.60 E-value=6 Score=26.81 Aligned_cols=29 Identities=21% Similarity=0.417 Sum_probs=21.8
Q ss_pred CCCccccCcccccccChHHHHhhhhhhcC
Q psy12022 64 HAEMFACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 64 ~~~~~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
.+..|.|+.|+|.|....-+..|+..-|.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 45569999999999999999999876554
No 118
>PHA00689 hypothetical protein
Probab=49.26 E-value=10 Score=19.09 Aligned_cols=26 Identities=19% Similarity=0.521 Sum_probs=18.6
Q ss_pred CCCCCCCCcccCCCCCCCCCcccccc
Q psy12022 4 KDFSSWPGEKQNHAEMFACDVCGKEY 29 (143)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~C~~C~~~f 29 (143)
.+|..+.+....+.+...|..||++-
T Consensus 2 tyfdeydqdhdqepravtckrcgktg 27 (62)
T PHA00689 2 TYFDEYDQDHDQEPRAVTCKRCGKTG 27 (62)
T ss_pred ccccccccccccCcceeehhhccccC
Confidence 35666666666666778899999863
No 119
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.76 E-value=6.7 Score=24.10 Aligned_cols=13 Identities=23% Similarity=0.324 Sum_probs=7.2
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
--|..||+.|.+.
T Consensus 69 sfchncgs~fpwt 81 (160)
T COG4306 69 SFCHNCGSRFPWT 81 (160)
T ss_pred chhhcCCCCCCcH
Confidence 4455666665543
No 120
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.82 E-value=7.9 Score=19.46 Aligned_cols=19 Identities=16% Similarity=0.167 Sum_probs=14.5
Q ss_pred eeccCCcccccChHHHHhH
Q psy12022 97 YQCLYCPYRAKLRFNLKTH 115 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H 115 (143)
-.|++|++.|.+...+..-
T Consensus 13 KICpvCqRPFsWRkKW~~c 31 (54)
T COG4338 13 KICPVCQRPFSWRKKWARC 31 (54)
T ss_pred hhhhhhcCchHHHHHHHHH
Confidence 4699999999888766543
No 121
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=47.15 E-value=12 Score=19.00 Aligned_cols=12 Identities=25% Similarity=0.822 Sum_probs=8.9
Q ss_pred CCCeeccCCcccc
Q psy12022 94 EPKYQCLYCPYRA 106 (143)
Q Consensus 94 ~~~~~C~~C~~~f 106 (143)
.. +.|..|+..+
T Consensus 36 ~r-~~C~~Cgyt~ 47 (50)
T PRK00432 36 DR-WHCGKCGYTE 47 (50)
T ss_pred Cc-EECCCcCCEE
Confidence 45 8999998653
No 122
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=44.59 E-value=12 Score=18.67 Aligned_cols=12 Identities=25% Similarity=0.863 Sum_probs=8.5
Q ss_pred eeccCCcccccC
Q psy12022 97 YQCLYCPYRAKL 108 (143)
Q Consensus 97 ~~C~~C~~~f~~ 108 (143)
+.|+.|+..+.-
T Consensus 21 ~vC~~Cg~~~~~ 32 (52)
T smart00661 21 FVCRKCGYEEPI 32 (52)
T ss_pred EECCcCCCeEEC
Confidence 788888866543
No 123
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.71 E-value=5.2 Score=27.36 Aligned_cols=40 Identities=23% Similarity=0.527 Sum_probs=27.3
Q ss_pred CccccCcccccccChHHHHhhhhhhcCC----------CCC----eeccCCccc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQ----------EPK----YQCLYCPYR 105 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~----------~~~----~~C~~C~~~ 105 (143)
+.+.||.|+..|.....+..-.++-.|+ .|+ ..|+.|..+
T Consensus 18 k~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 18 KTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred ceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 4478999999998776666666655543 121 378989853
No 124
>PLN02294 cytochrome c oxidase subunit Vb
Probab=41.59 E-value=13 Score=24.26 Aligned_cols=17 Identities=24% Similarity=0.724 Sum_probs=13.5
Q ss_pred CCCCCCCCCccccccCC
Q psy12022 15 NHAEMFACDVCGKEYKQ 31 (143)
Q Consensus 15 ~~~~~~~C~~C~~~f~~ 31 (143)
...+|.+|.+||.-|.-
T Consensus 137 ~kGkp~RCpeCG~~fkL 153 (174)
T PLN02294 137 EKGKSFECPVCTQYFEL 153 (174)
T ss_pred cCCCceeCCCCCCEEEE
Confidence 44579999999998764
No 125
>PF12907 zf-met2: Zinc-binding
Probab=40.89 E-value=16 Score=17.67 Aligned_cols=27 Identities=26% Similarity=0.326 Sum_probs=18.7
Q ss_pred eeccCCcccc---cChHHHHhHHhhhccHH
Q psy12022 97 YQCLYCPYRA---KLRFNLKTHINVKHSYE 123 (143)
Q Consensus 97 ~~C~~C~~~f---~~~~~l~~H~~~~~~~~ 123 (143)
+.|.+|...| .....|..|....|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 5788888555 34467888888767653
No 126
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=40.14 E-value=13 Score=21.81 Aligned_cols=15 Identities=27% Similarity=0.618 Sum_probs=12.3
Q ss_pred CCCCCCCccccccCC
Q psy12022 17 AEMFACDVCGKEYKQ 31 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~ 31 (143)
.+|++|..||.-|.-
T Consensus 77 g~~~rC~eCG~~fkL 91 (97)
T cd00924 77 GKPKRCPECGHVFKL 91 (97)
T ss_pred CCceeCCCCCcEEEE
Confidence 479999999998753
No 127
>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=39.99 E-value=10 Score=18.67 Aligned_cols=27 Identities=33% Similarity=0.892 Sum_probs=15.1
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
+.|+.||.. ....+.. ... |.|..|++
T Consensus 19 ~~CP~Cg~~--~~~~~~~-------~~~-~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST--KHYRLKT-------RGR-YRCKACRK 45 (46)
T ss_pred CCCCCCCCe--eeEEeCC-------CCe-EECCCCCC
Confidence 568888854 1111111 234 88888864
No 128
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=39.29 E-value=32 Score=21.69 Aligned_cols=13 Identities=38% Similarity=0.872 Sum_probs=6.2
Q ss_pred cccCcccccccCh
Q psy12022 68 FACDVCGKEYKQK 80 (143)
Q Consensus 68 ~~C~~C~~~~~~~ 80 (143)
+.|+.||+.|..-
T Consensus 125 ~~C~~C~kiyW~G 137 (147)
T PF01927_consen 125 WRCPGCGKIYWEG 137 (147)
T ss_pred EECCCCCCEeccc
Confidence 4455555544443
No 129
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=38.52 E-value=14 Score=23.57 Aligned_cols=34 Identities=24% Similarity=0.581 Sum_probs=22.1
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
-+|.|. |+..+.+... |-..--|+ . |.|..|+..
T Consensus 116 ~~Y~C~-C~q~~l~~RR---hn~~~~g~-~-YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRIRR---HNTVRRGE-V-YRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchhhh---cccccccc-e-EEeccCCce
Confidence 368888 8877665443 33333354 5 999999854
No 130
>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=38.12 E-value=20 Score=21.51 Aligned_cols=14 Identities=29% Similarity=0.835 Sum_probs=11.5
Q ss_pred ccccCcccccccCh
Q psy12022 67 MFACDVCGKEYKQK 80 (143)
Q Consensus 67 ~~~C~~C~~~~~~~ 80 (143)
|..|+.||..|.-.
T Consensus 26 PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 26 PIVCPKCGTEFPPE 39 (108)
T ss_pred CccCCCCCCccCcc
Confidence 37899999988766
No 131
>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=37.59 E-value=14 Score=18.83 Aligned_cols=14 Identities=14% Similarity=0.164 Sum_probs=7.4
Q ss_pred eeccCCcccccChH
Q psy12022 97 YQCLYCPYRAKLRF 110 (143)
Q Consensus 97 ~~C~~C~~~f~~~~ 110 (143)
-.|++|++.|....
T Consensus 21 ~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 21 GCCPLCGRPLDEEH 34 (54)
T ss_dssp EE-TTT--EE-HHH
T ss_pred CcCCCCCCCCCHHH
Confidence 48999999986543
No 132
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=36.88 E-value=7.9 Score=18.52 Aligned_cols=19 Identities=21% Similarity=0.677 Sum_probs=9.2
Q ss_pred hhhhhcCCCCCeeccCCccc
Q psy12022 86 HKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 86 h~~~h~~~~~~~~C~~C~~~ 105 (143)
......+.+. +.|..|+..
T Consensus 15 ~~~~~~~~~~-w~C~~C~~~ 33 (40)
T PF04810_consen 15 FCQFDDGGKT-WICNFCGTK 33 (40)
T ss_dssp TSEEETTTTE-EEETTT--E
T ss_pred cceEcCCCCE-EECcCCCCc
Confidence 3333334455 777777754
No 133
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=36.68 E-value=15 Score=29.46 Aligned_cols=30 Identities=30% Similarity=0.823 Sum_probs=21.6
Q ss_pred ccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 69 ACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
-|+.|.+.+....+ +|.|. ++ ..|+.||..
T Consensus 153 lC~~C~~EY~dP~n----RRfHA--Qp-~aCp~CGP~ 182 (750)
T COG0068 153 LCPFCDKEYKDPLN----RRFHA--QP-IACPKCGPH 182 (750)
T ss_pred CCHHHHHHhcCccc----ccccc--cc-ccCcccCCC
Confidence 58889887776643 45553 56 999999964
No 134
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=36.12 E-value=24 Score=18.01 Aligned_cols=13 Identities=38% Similarity=1.071 Sum_probs=9.0
Q ss_pred cccCcccccccCh
Q psy12022 68 FACDVCGKEYKQK 80 (143)
Q Consensus 68 ~~C~~C~~~~~~~ 80 (143)
+.|+.||..+...
T Consensus 29 W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 29 WKCPKCGHEWKAS 41 (55)
T ss_pred EECCCCCCeeEcc
Confidence 6788787766554
No 135
>PRK04351 hypothetical protein; Provisional
Probab=35.79 E-value=14 Score=23.50 Aligned_cols=34 Identities=29% Similarity=0.745 Sum_probs=21.1
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccCh
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLR 109 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~ 109 (143)
.|.|..||..+.+. +.+ .... |.|..|+..+...
T Consensus 112 ~Y~C~~Cg~~~~r~-------Rr~-n~~~-yrCg~C~g~L~~~ 145 (149)
T PRK04351 112 LYECQSCGQQYLRK-------RRI-NTKR-YRCGKCRGKLKLI 145 (149)
T ss_pred EEECCCCCCEeeee-------eec-CCCc-EEeCCCCcEeeec
Confidence 37888888655432 122 1255 9999998765443
No 136
>KOG1842|consensus
Probab=35.55 E-value=23 Score=26.85 Aligned_cols=27 Identities=26% Similarity=0.385 Sum_probs=22.2
Q ss_pred CccccCcccccccChHHHHhhhhhhcC
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
..|.||.|...|.+...|..|...-|+
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcc
Confidence 348899999999999999999876554
No 137
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.51 E-value=19 Score=21.63 Aligned_cols=14 Identities=21% Similarity=0.365 Sum_probs=11.0
Q ss_pred ccccCcccccccCh
Q psy12022 67 MFACDVCGKEYKQK 80 (143)
Q Consensus 67 ~~~C~~C~~~~~~~ 80 (143)
|..|++||++|+.+
T Consensus 26 PiVsPytG~s~P~s 39 (129)
T COG4530 26 PIVSPYTGKSYPRS 39 (129)
T ss_pred ccccCcccccchHH
Confidence 47899999998643
No 138
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=35.46 E-value=11 Score=17.72 Aligned_cols=12 Identities=33% Similarity=1.032 Sum_probs=6.6
Q ss_pred CCCCCCcccccc
Q psy12022 18 EMFACDVCGKEY 29 (143)
Q Consensus 18 ~~~~C~~C~~~f 29 (143)
+-|+|..||+.+
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 358999999854
No 139
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=35.42 E-value=23 Score=28.80 Aligned_cols=12 Identities=33% Similarity=0.678 Sum_probs=8.7
Q ss_pred CCccccCccccc
Q psy12022 65 AEMFACDVCGKE 76 (143)
Q Consensus 65 ~~~~~C~~C~~~ 76 (143)
..|..|+.||..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 456788888854
No 140
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=35.28 E-value=22 Score=22.21 Aligned_cols=20 Identities=15% Similarity=0.602 Sum_probs=15.5
Q ss_pred CCCCCCCccccccCChhHHh
Q psy12022 17 AEMFACDVCGKEYKQKYGLN 36 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~~l~ 36 (143)
.+.|+|..|..+......|.
T Consensus 78 ~~lYeCnIC~etS~ee~FLK 97 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLK 97 (140)
T ss_pred CCceeccCcccccchhhcCC
Confidence 36799999999877766654
No 141
>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=34.84 E-value=45 Score=15.34 Aligned_cols=21 Identities=14% Similarity=0.349 Sum_probs=11.9
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
+.|+.|++... .+.+..|+..
T Consensus 5 ~~C~nC~R~v~-a~RfA~HLek 25 (33)
T PF08209_consen 5 VECPNCGRPVA-ASRFAPHLEK 25 (33)
T ss_dssp EE-TTTSSEEE-GGGHHHHHHH
T ss_pred EECCCCcCCcc-hhhhHHHHHH
Confidence 67888877653 3345566654
No 142
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=34.66 E-value=38 Score=18.04 Aligned_cols=30 Identities=20% Similarity=0.588 Sum_probs=17.8
Q ss_pred ccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccCh
Q psy12022 69 ACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLR 109 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~ 109 (143)
.|+.||..... ...... |.|+.||..+...
T Consensus 30 ~C~~CG~~~~~----------~~~~r~-~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 30 TCPRCGHRNKK----------RRSGRV-FTCPNCGFEMDRD 59 (69)
T ss_pred CccCccccccc----------ccccce-EEcCCCCCEECcH
Confidence 57777755444 112234 8899998765443
No 143
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=33.85 E-value=24 Score=21.99 Aligned_cols=15 Identities=20% Similarity=0.671 Sum_probs=12.8
Q ss_pred CCCCCccccccCChh
Q psy12022 19 MFACDVCGKEYKQKY 33 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~ 33 (143)
|++|.-||+.|.+-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 678999999999765
No 144
>KOG2907|consensus
Probab=33.50 E-value=22 Score=21.52 Aligned_cols=40 Identities=30% Similarity=0.516 Sum_probs=22.7
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccC
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKL 108 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~ 108 (143)
..|+.||..=-.-..++. +....|+--=|.|..|++.|..
T Consensus 75 ~kCpkCghe~m~Y~T~Ql-RSADEGQTVFYTC~kC~~k~~e 114 (116)
T KOG2907|consen 75 HKCPKCGHEEMSYHTLQL-RSADEGQTVFYTCPKCKYKFTE 114 (116)
T ss_pred ccCcccCCchhhhhhhhc-ccccCCceEEEEcCccceeeec
Confidence 579999865333333331 1223332222789999988764
No 145
>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=32.81 E-value=18 Score=17.49 Aligned_cols=13 Identities=23% Similarity=0.590 Sum_probs=7.8
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
+.|..|+..|-..
T Consensus 14 ~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 14 FKCKHCGKSFCLK 26 (43)
T ss_dssp EE-TTTS-EE-TT
T ss_pred eECCCCCcccCcc
Confidence 8899898887544
No 146
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=32.72 E-value=22 Score=22.02 Aligned_cols=36 Identities=17% Similarity=0.484 Sum_probs=21.5
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccCh
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLR 109 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~ 109 (143)
..||.|+..... ......+ |.+. |+|..|++.|...
T Consensus 31 ~~cP~C~s~~~~--k~g~~~~---~~qR-yrC~~C~~tf~~~ 66 (129)
T COG3677 31 VNCPRCKSSNVV--KIGGIRR---GHQR-YKCKSCGSTFTVE 66 (129)
T ss_pred CcCCCCCcccee--eECCccc---cccc-cccCCcCcceeee
Confidence 468888754411 1111222 3455 9999999998644
No 147
>KOG1842|consensus
Probab=32.43 E-value=20 Score=27.12 Aligned_cols=27 Identities=26% Similarity=0.437 Sum_probs=24.7
Q ss_pred eeccCCcccccChHHHHhHHhhhccHH
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKHSYE 123 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~~~~ 123 (143)
|.|+.|...|.....|..|+.+-|+++
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 999999999999999999999888653
No 148
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=32.41 E-value=39 Score=25.91 Aligned_cols=27 Identities=15% Similarity=0.282 Sum_probs=17.7
Q ss_pred eeccCCcccccChHHHHhHHhhhccHH
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKHSYE 123 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~~~~ 123 (143)
+.|+.|.+.|.....+..|+..-|.+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 467777777777777777766555443
No 149
>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=32.23 E-value=25 Score=20.91 Aligned_cols=35 Identities=23% Similarity=0.500 Sum_probs=19.6
Q ss_pred CccccCcccccc--cChHHHHhhhhhhcCCCCC-eeccCCc
Q psy12022 66 EMFACDVCGKEY--KQKYGLNRHKKYDCGQEPK-YQCLYCP 103 (143)
Q Consensus 66 ~~~~C~~C~~~~--~~~~~l~~h~~~h~~~~~~-~~C~~C~ 103 (143)
+|..|+.||... ...+.+..+... +-+. |.|.-|+
T Consensus 1 ~p~~CpYCg~~~~l~~~~~iYg~~~~---~~~~~y~C~~C~ 38 (102)
T PF11672_consen 1 KPIICPYCGGPAELVDGSEIYGHRYD---DGPYLYVCTPCD 38 (102)
T ss_pred CCcccCCCCCeeEEcccchhcCccCC---CCceeEECCCCC
Confidence 357899999543 233334332221 1232 7999998
No 150
>KOG2071|consensus
Probab=32.15 E-value=29 Score=27.25 Aligned_cols=28 Identities=21% Similarity=0.434 Sum_probs=23.7
Q ss_pred CCCCeeccCCcccccChHHHHhHHhhhcc
Q psy12022 93 QEPKYQCLYCPYRAKLRFNLKTHINVKHS 121 (143)
Q Consensus 93 ~~~~~~C~~C~~~f~~~~~l~~H~~~~~~ 121 (143)
..+ -.|..||..|.......+|+..|-.
T Consensus 416 ~~p-nqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSP-NQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCc-chhcccccccccchhhhhHhhhhhh
Confidence 344 8999999999999999999988654
No 151
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=31.18 E-value=18 Score=18.35 Aligned_cols=17 Identities=24% Similarity=0.628 Sum_probs=12.5
Q ss_pred CCCCCCCccccccCChh
Q psy12022 17 AEMFACDVCGKEYKQKY 33 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~ 33 (143)
.+.+.|..||..|.--.
T Consensus 2 Dk~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTA 18 (49)
T ss_pred CeeEEcccCCCeEEEeh
Confidence 35678999999877543
No 152
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=30.99 E-value=17 Score=22.86 Aligned_cols=32 Identities=31% Similarity=0.830 Sum_probs=19.3
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
.|.|..|+..+.. +.+. .... |.|..|+..+.
T Consensus 123 ~~~C~~C~~~~~r------~~~~--~~~~-~~C~~C~~~l~ 154 (157)
T PF10263_consen 123 VYRCPSCGREYKR------HRRS--KRKR-YRCGRCGGPLV 154 (157)
T ss_pred EEEcCCCCCEeee------eccc--chhh-EECCCCCCEEE
Confidence 4788888866632 2232 1134 88888886553
No 153
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.73 E-value=33 Score=25.87 Aligned_cols=30 Identities=30% Similarity=0.757 Sum_probs=19.7
Q ss_pred ccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChH
Q psy12022 69 ACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRF 110 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~ 110 (143)
.|+.||.+..+ .|.+. |+|+.|+..+....
T Consensus 352 ~Cp~Cg~~m~S-----------~G~~g-~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKS-----------AGRNG-FRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhh-----------cCCCC-cccccccccCCccc
Confidence 68888865333 24344 99999998776553
No 154
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=30.14 E-value=15 Score=17.22 Aligned_cols=30 Identities=27% Similarity=0.718 Sum_probs=17.3
Q ss_pred cccCcccccccChHHHHhhhhhhcCCCCCeeccCC
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYC 102 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C 102 (143)
..|+.|+.. ..+..|=....|.+. |.|..|
T Consensus 6 v~CP~C~s~----~~v~k~G~~~~G~qr-yrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQST----EGVKKNGKSPSGHQR-YRCKDC 35 (36)
T ss_pred eeCCCCCCC----CcceeCCCCCCCCEe-EecCcC
Confidence 467777533 224445555556556 888877
No 155
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=29.22 E-value=19 Score=17.37 Aligned_cols=12 Identities=33% Similarity=0.919 Sum_probs=9.2
Q ss_pred CccccCcccccc
Q psy12022 66 EMFACDVCGKEY 77 (143)
Q Consensus 66 ~~~~C~~C~~~~ 77 (143)
++..|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 357899998766
No 156
>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=28.76 E-value=23 Score=21.43 Aligned_cols=27 Identities=22% Similarity=0.504 Sum_probs=18.2
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
....|..|+..|..... . +.|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~-~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEID------------L-YRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCCc------------C-ccCcCCcCC
Confidence 34689999977665421 3 778888853
No 157
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=28.43 E-value=25 Score=16.26 Aligned_cols=9 Identities=33% Similarity=0.929 Sum_probs=5.9
Q ss_pred cccCccccc
Q psy12022 68 FACDVCGKE 76 (143)
Q Consensus 68 ~~C~~C~~~ 76 (143)
+.|+.||..
T Consensus 23 ~vC~~Cg~I 31 (34)
T PF14803_consen 23 LVCPACGFI 31 (34)
T ss_dssp EEETTTTEE
T ss_pred eECCCCCCE
Confidence 677777653
No 158
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=28.05 E-value=26 Score=21.08 Aligned_cols=26 Identities=19% Similarity=0.241 Sum_probs=17.0
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPY 104 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~ 104 (143)
....|..||..|.... .. +.|+.|+.
T Consensus 69 ~~~~C~~Cg~~~~~~~------------~~-~~CP~Cgs 94 (113)
T PRK12380 69 AQAWCWDCSQVVEIHQ------------HD-AQCPHCHG 94 (113)
T ss_pred cEEEcccCCCEEecCC------------cC-ccCcCCCC
Confidence 3468999986665432 22 67888884
No 159
>KOG1280|consensus
Probab=28.00 E-value=60 Score=23.87 Aligned_cols=38 Identities=18% Similarity=0.379 Sum_probs=27.2
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCC-CCeeccCCc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQE-PKYQCLYCP 103 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~-~~~~C~~C~ 103 (143)
..|.|++|+..=.+...+..|....+.+- +...|++|.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 46899999987777788888886544433 335678776
No 160
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=27.93 E-value=42 Score=20.17 Aligned_cols=13 Identities=23% Similarity=0.450 Sum_probs=8.8
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
|.|+.|+..+...
T Consensus 20 ~iCpeC~~EW~~~ 32 (109)
T TIGR00686 20 LICPSCLYEWNEN 32 (109)
T ss_pred eECcccccccccc
Confidence 7777777666544
No 161
>PRK14873 primosome assembly protein PriA; Provisional
Probab=27.91 E-value=32 Score=27.68 Aligned_cols=10 Identities=30% Similarity=0.989 Sum_probs=7.5
Q ss_pred ccccCccccc
Q psy12022 67 MFACDVCGKE 76 (143)
Q Consensus 67 ~~~C~~C~~~ 76 (143)
++.|+.||..
T Consensus 422 p~~Cp~Cgs~ 431 (665)
T PRK14873 422 DWRCPRCGSD 431 (665)
T ss_pred CccCCCCcCC
Confidence 5788888854
No 162
>KOG2482|consensus
Probab=27.86 E-value=38 Score=24.84 Aligned_cols=52 Identities=27% Similarity=0.471 Sum_probs=36.1
Q ss_pred cccCcccccc-cChHHHHhhhhhhcCC---CC------------------CeeccCCcccccChHHHHhHHhhh
Q psy12022 68 FACDVCGKEY-KQKYGLNRHKKYDCGQ---EP------------------KYQCLYCPYRAKLRFNLKTHINVK 119 (143)
Q Consensus 68 ~~C~~C~~~~-~~~~~l~~h~~~h~~~---~~------------------~~~C~~C~~~f~~~~~l~~H~~~~ 119 (143)
.+|..|...+ ..++.+..|+-.-++- .| .+.|-.|.+.|..+..|+.||+..
T Consensus 145 lqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 145 LQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred eEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhc
Confidence 4788887544 4555666676433221 11 268999999999999999999854
No 163
>PTZ00448 hypothetical protein; Provisional
Probab=27.80 E-value=35 Score=25.26 Aligned_cols=25 Identities=16% Similarity=0.481 Sum_probs=20.7
Q ss_pred CCCCCccccccCChhHHhccccccc
Q psy12022 19 MFACDVCGKEYKQKYGLNRHKKYDC 43 (143)
Q Consensus 19 ~~~C~~C~~~f~~~~~l~~h~~~h~ 43 (143)
.|.|..|+-.|.+......|.++..
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDw 338 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEW 338 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhH
Confidence 5889999999998888888876543
No 164
>COG1773 Rubredoxin [Energy production and conversion]
Probab=27.44 E-value=30 Score=18.03 Aligned_cols=11 Identities=27% Similarity=0.845 Sum_probs=8.6
Q ss_pred eeccCCccccc
Q psy12022 97 YQCLYCPYRAK 107 (143)
Q Consensus 97 ~~C~~C~~~f~ 107 (143)
|+|.+||..|.
T Consensus 4 ~~C~~CG~vYd 14 (55)
T COG1773 4 WRCSVCGYVYD 14 (55)
T ss_pred eEecCCceEec
Confidence 88888887664
No 165
>PHA02998 RNA polymerase subunit; Provisional
Probab=26.89 E-value=14 Score=24.34 Aligned_cols=39 Identities=18% Similarity=0.271 Sum_probs=22.8
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCC---eeccCCcccccCh
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPK---YQCLYCPYRAKLR 109 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~---~~C~~C~~~f~~~ 109 (143)
..+|+.|+..=..... +++..+++|. |.|..|+..|...
T Consensus 143 ~v~CPkCg~~~A~f~q----lQTRSADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 143 NTPCPNCKSKNTTPMM----IQTRAADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred CCCCCCCCCCceEEEE----EeeccCCCCceEEEEcCCCCCccCCc
Confidence 4679999844222221 2233344443 6999999887644
No 166
>KOG2482|consensus
Probab=26.73 E-value=40 Score=24.77 Aligned_cols=23 Identities=26% Similarity=0.538 Sum_probs=20.8
Q ss_pred ccccCcccccccChHHHHhhhhh
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKY 89 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~ 89 (143)
.+.|-.|.+.|..+..|..||+.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 47899999999999999999974
No 167
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=26.69 E-value=41 Score=17.87 Aligned_cols=11 Identities=36% Similarity=1.096 Sum_probs=4.2
Q ss_pred cccCccccccc
Q psy12022 68 FACDVCGKEYK 78 (143)
Q Consensus 68 ~~C~~C~~~~~ 78 (143)
-.|..|++.|.
T Consensus 10 ~~C~~C~~~F~ 20 (69)
T PF01363_consen 10 SNCMICGKKFS 20 (69)
T ss_dssp SB-TTT--B-B
T ss_pred CcCcCcCCcCC
Confidence 35667777764
No 168
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=26.44 E-value=34 Score=23.50 Aligned_cols=18 Identities=11% Similarity=0.466 Sum_probs=14.4
Q ss_pred CCCCCCCCCccccccCCh
Q psy12022 15 NHAEMFACDVCGKEYKQK 32 (143)
Q Consensus 15 ~~~~~~~C~~C~~~f~~~ 32 (143)
.+.++.+|..||..|.-.
T Consensus 177 rEGkpqRCpECGqVFKLV 194 (268)
T PTZ00043 177 REGFLYRCGECDQIFMLV 194 (268)
T ss_pred cCCCCccCCCCCcEEEEE
Confidence 456689999999988753
No 169
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=26.34 E-value=30 Score=17.57 Aligned_cols=26 Identities=23% Similarity=0.535 Sum_probs=15.4
Q ss_pred ccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 69 ACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 69 ~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
.|+-||.+.. |..| . ++ +.|..|+..
T Consensus 21 ~CPrCG~gvf--------mA~H-~-dR-~~CGkCgyT 46 (51)
T COG1998 21 FCPRCGPGVF--------MADH-K-DR-WACGKCGYT 46 (51)
T ss_pred cCCCCCCcch--------hhhc-C-ce-eEeccccce
Confidence 5887875432 2222 3 35 889988854
No 170
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=25.18 E-value=41 Score=19.99 Aligned_cols=13 Identities=23% Similarity=0.189 Sum_probs=8.0
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
..|..||..|...
T Consensus 3 H~CtrCG~vf~~g 15 (112)
T COG3364 3 HQCTRCGEVFDDG 15 (112)
T ss_pred ceecccccccccc
Confidence 5666666666553
No 171
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=24.66 E-value=11 Score=22.21 Aligned_cols=38 Identities=18% Similarity=0.360 Sum_probs=21.4
Q ss_pred CCccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 65 AEMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 65 ~~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
.+.|.|+.||..-...-.+. -.....-..|..||..|.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvk-----k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVK-----KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CceEecCccCCeeeeEEEEE-----ecCceeEEEcccCcceEE
Confidence 34588999986544433221 111122167888987764
No 172
>KOG2071|consensus
Probab=24.21 E-value=41 Score=26.49 Aligned_cols=28 Identities=14% Similarity=0.332 Sum_probs=22.7
Q ss_pred CCCCCCCccccccCChhHHhcccccccC
Q psy12022 17 AEMFACDVCGKEYKQKYGLNRHKKYDCG 44 (143)
Q Consensus 17 ~~~~~C~~C~~~f~~~~~l~~h~~~h~~ 44 (143)
..|..|..||..|-+......||..|..
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhh
Confidence 3478999999999999888777777653
No 173
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=23.86 E-value=36 Score=17.28 Aligned_cols=35 Identities=23% Similarity=0.586 Sum_probs=20.0
Q ss_pred cccCcccccccChHHHHhhhhhhcC------CCCCeeccCCcc
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKYDCG------QEPKYQCLYCPY 104 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~h~~------~~~~~~C~~C~~ 104 (143)
|+|..||+.+.....-.. ..+-.| ..- |.|++|+.
T Consensus 2 y~C~~CgyiYd~~~Gd~~-~~i~pGt~f~~Lp~~-w~CP~C~a 42 (50)
T cd00730 2 YECRICGYIYDPAEGDPD-EGIPPGTPFEDLPDD-WVCPVCGA 42 (50)
T ss_pred cCCCCCCeEECCCCCCcc-cCcCCCCCHhHCCCC-CCCCCCCC
Confidence 789999988875432111 111111 122 89999984
No 174
>KOG4118|consensus
Probab=23.82 E-value=16 Score=19.68 Aligned_cols=27 Identities=26% Similarity=0.383 Sum_probs=16.0
Q ss_pred eeccCCcccccChHHHHhHHhhhccHH
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVKHSYE 123 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~~~~~ 123 (143)
|+|.+|-........+..|....|+.+
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~ 65 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKE 65 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCC
Confidence 566666655555555666666655543
No 175
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=22.91 E-value=39 Score=15.90 Aligned_cols=15 Identities=13% Similarity=0.084 Sum_probs=8.4
Q ss_pred eeccCCcccccChHH
Q psy12022 97 YQCLYCPYRAKLRFN 111 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~ 111 (143)
-.|..|++.|.+.++
T Consensus 3 ~~CprC~kg~Hwa~~ 17 (36)
T PF14787_consen 3 GLCPRCGKGFHWASE 17 (36)
T ss_dssp -C-TTTSSSCS-TTT
T ss_pred ccCcccCCCcchhhh
Confidence 357778887766654
No 176
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.81 E-value=19 Score=23.05 Aligned_cols=14 Identities=14% Similarity=0.095 Sum_probs=9.2
Q ss_pred eeccCCcccccChH
Q psy12022 97 YQCLYCPYRAKLRF 110 (143)
Q Consensus 97 ~~C~~C~~~f~~~~ 110 (143)
.-|..||+.|.|-.
T Consensus 69 sYC~~CGkpyPWt~ 82 (158)
T PF10083_consen 69 SYCHNCGKPYPWTE 82 (158)
T ss_pred hhHHhCCCCCchHH
Confidence 66777777766553
No 177
>cd00974 DSRD Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small, single-domain homodimeric protein; each subunit contains an iron atom bound to four cysteinyl sulfur atoms, Fe(S-Cys)4, in a distorted tetrahedral coordination. Its metal center is similar to that found in rubredoxin type proteins. Desulforedoxin is regarded as a potential redox partner for rubredoxin. Desulfoferrodoxin forms a homodimeric protein, with each protomer comprised of two domains, the N-terminal DSRD domain and C-terminal superoxide reductase-like (SORL) domain. Each domain has a distinct iron center: the DSRD iron center I, Fe(S-Cys)4; and the SORL iron center II, Fe[His4Cys(Glu)].
Probab=22.75 E-value=33 Score=15.57 Aligned_cols=13 Identities=31% Similarity=1.114 Sum_probs=9.4
Q ss_pred CCCCCCccccccC
Q psy12022 18 EMFACDVCGKEYK 30 (143)
Q Consensus 18 ~~~~C~~C~~~f~ 30 (143)
+-|+|..||..+.
T Consensus 3 ~~ykC~~CGniv~ 15 (34)
T cd00974 3 EVYKCEICGNIVE 15 (34)
T ss_pred cEEEcCCCCcEEE
Confidence 3588889888653
No 178
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=22.55 E-value=48 Score=16.57 Aligned_cols=11 Identities=45% Similarity=0.987 Sum_probs=8.2
Q ss_pred eeccCCccccc
Q psy12022 97 YQCLYCPYRAK 107 (143)
Q Consensus 97 ~~C~~C~~~f~ 107 (143)
|.|.+|+..+.
T Consensus 2 y~C~~CgyvYd 12 (47)
T PF00301_consen 2 YQCPVCGYVYD 12 (47)
T ss_dssp EEETTTSBEEE
T ss_pred cCCCCCCEEEc
Confidence 78888886654
No 179
>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=22.26 E-value=46 Score=15.74 Aligned_cols=10 Identities=40% Similarity=0.790 Sum_probs=5.3
Q ss_pred eeccCCcccc
Q psy12022 97 YQCLYCPYRA 106 (143)
Q Consensus 97 ~~C~~C~~~f 106 (143)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 4555555443
No 180
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=22.00 E-value=43 Score=19.45 Aligned_cols=29 Identities=21% Similarity=0.584 Sum_probs=19.6
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
.|-.|..||+.|... .+ ++|-.|+.|...
T Consensus 57 ~Pa~CkkCGfef~~~-~i----------k~pSRCP~CKSE 85 (97)
T COG3357 57 RPARCKKCGFEFRDD-KI----------KKPSRCPKCKSE 85 (97)
T ss_pred cChhhcccCcccccc-cc----------CCcccCCcchhh
Confidence 467899999998762 11 233778888643
No 181
>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=21.96 E-value=60 Score=25.14 Aligned_cols=10 Identities=30% Similarity=0.657 Sum_probs=7.0
Q ss_pred CccccCcccc
Q psy12022 66 EMFACDVCGK 75 (143)
Q Consensus 66 ~~~~C~~C~~ 75 (143)
-|..|+.|+.
T Consensus 252 ~~~~Cp~C~s 261 (505)
T TIGR00595 252 IPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCC
Confidence 3577888875
No 182
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=21.95 E-value=84 Score=14.81 Aligned_cols=20 Identities=30% Similarity=0.398 Sum_probs=7.7
Q ss_pred eeccCCcccccCh--HHHHhHH
Q psy12022 97 YQCLYCPYRAKLR--FNLKTHI 116 (143)
Q Consensus 97 ~~C~~C~~~f~~~--~~l~~H~ 116 (143)
|=|..|+..|... ...+.|.
T Consensus 4 yyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 4 YYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -B-TTT--B-S--SHHHHHHHT
T ss_pred eecccccceecCCChHHHHHhh
Confidence 7788898888433 3334553
No 183
>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=21.87 E-value=30 Score=16.07 Aligned_cols=13 Identities=46% Similarity=1.209 Sum_probs=6.7
Q ss_pred CCCccccccCChh
Q psy12022 21 ACDVCGKEYKQKY 33 (143)
Q Consensus 21 ~C~~C~~~f~~~~ 33 (143)
.|..|++.|....
T Consensus 5 ~C~eC~~~f~dSy 17 (34)
T PF01286_consen 5 KCDECGKPFMDSY 17 (34)
T ss_dssp E-TTT--EES-SS
T ss_pred hHhHhCCHHHHHH
Confidence 5888999887754
No 184
>KOG3214|consensus
Probab=21.80 E-value=32 Score=20.34 Aligned_cols=40 Identities=25% Similarity=0.461 Sum_probs=22.3
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccChH
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLRF 110 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~~ 110 (143)
..|.|+.|+..-.-.-.+. +....| . ..|.+|+..|....
T Consensus 22 t~FnClfcnHek~v~~~~D--k~~~iG--~-~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 22 TQFNCLFCNHEKSVSCTLD--KKHNIG--K-ASCRICEESFQTTI 61 (109)
T ss_pred eeeccCccccccceeeeeh--hhcCcc--e-eeeeehhhhhccch
Confidence 3478888874432222221 121222 3 78999999997653
No 185
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=21.68 E-value=23 Score=21.40 Aligned_cols=37 Identities=30% Similarity=0.686 Sum_probs=20.1
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCC---eeccCCccccc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPK---YQCLYCPYRAK 107 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~---~~C~~C~~~f~ 107 (143)
...|+.||..=..-..+ ++-.++.|. |.|..||..|.
T Consensus 72 ~~~CpkCg~~ea~y~~~----QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 72 KEKCPKCGNKEAYYWQL----QTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred cccCCCCCCceeEEEee----ehhccCCCceEEEEecccCCEee
Confidence 36788888432221111 122223332 79999998775
No 186
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=21.65 E-value=87 Score=22.44 Aligned_cols=22 Identities=27% Similarity=0.552 Sum_probs=19.3
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
|.|..|-+.|.....|.+|+..
T Consensus 49 yiCe~Clky~~~~~~l~~H~~~ 70 (290)
T PLN03238 49 YICEYCLKYMRKKKSLLRHLAK 70 (290)
T ss_pred EEcCCCcchhCCHHHHHHHHHh
Confidence 8999999999999999999874
No 187
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=21.36 E-value=64 Score=16.77 Aligned_cols=31 Identities=10% Similarity=0.320 Sum_probs=15.2
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccC
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLY 101 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~ 101 (143)
.|+....|+..|.... +..+++ .... ..|++
T Consensus 23 ~PV~s~~C~H~fek~a-I~~~i~---~~~~-~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFEKEA-ILQYIQ---RNGS-KRCPV 53 (57)
T ss_dssp SEEEESSS--EEEHHH-HHHHCT---TTS--EE-SC
T ss_pred CCcCcCCCCCeecHHH-HHHHHH---hcCC-CCCCC
Confidence 4566667888777654 333442 2233 77777
No 188
>PF12230 PRP21_like_P: Pre-mRNA splicing factor PRP21 like protein; InterPro: IPR022030 This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with PF01805 from PFAM. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form. ; PDB: 4DGW_B.
Probab=20.97 E-value=32 Score=23.41 Aligned_cols=25 Identities=16% Similarity=0.410 Sum_probs=0.0
Q ss_pred ccccCcccccccChHHHHhhhhhhcC
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCG 92 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~ 92 (143)
...|+.||...+.. .+..||++..-
T Consensus 168 ~~~cPitGe~IP~~-e~~eHmRi~Ll 192 (229)
T PF12230_consen 168 MIICPITGEMIPAD-EMDEHMRIELL 192 (229)
T ss_dssp --------------------------
T ss_pred cccccccccccccc-ccccccccccc
Confidence 35777787776653 57777777655
No 189
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.86 E-value=54 Score=20.58 Aligned_cols=33 Identities=21% Similarity=0.596 Sum_probs=19.1
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccccc
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAK 107 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~ 107 (143)
.|.|..|+..+.. +.+.. .-.. |.|..|+..+.
T Consensus 112 ~y~C~~C~~~~~~------~rr~~-~~~~-y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYLR------VRRSN-NVSR-YRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCce------Ecccc-Ccce-EEcCCCCCEEE
Confidence 5788778866532 22211 1144 88888886553
No 190
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=20.76 E-value=51 Score=16.86 Aligned_cols=13 Identities=23% Similarity=0.562 Sum_probs=7.0
Q ss_pred eeccCCcccccCh
Q psy12022 97 YQCLYCPYRAKLR 109 (143)
Q Consensus 97 ~~C~~C~~~f~~~ 109 (143)
|+|.+|++.+...
T Consensus 36 ~rC~YCe~~~~~~ 48 (52)
T PF02748_consen 36 LRCHYCERIITED 48 (52)
T ss_dssp EEETTT--EEEHH
T ss_pred EEeeCCCCEeccc
Confidence 7777777665443
No 191
>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=20.65 E-value=46 Score=21.18 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=5.9
Q ss_pred ccCcccccc
Q psy12022 69 ACDVCGKEY 77 (143)
Q Consensus 69 ~C~~C~~~~ 77 (143)
+|+.|+...
T Consensus 132 ~Cp~C~~~~ 140 (146)
T PF07295_consen 132 PCPKCGHTE 140 (146)
T ss_pred CCCCCCCCe
Confidence 677777543
No 192
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=20.59 E-value=37 Score=15.36 Aligned_cols=13 Identities=31% Similarity=1.073 Sum_probs=9.9
Q ss_pred CCCCCCccccccC
Q psy12022 18 EMFACDVCGKEYK 30 (143)
Q Consensus 18 ~~~~C~~C~~~f~ 30 (143)
+-|+|..||..+.
T Consensus 6 ~~ykC~~Cgniv~ 18 (34)
T TIGR00319 6 QVYKCEVCGNIVE 18 (34)
T ss_pred cEEEcCCCCcEEE
Confidence 4689999998653
No 193
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=20.56 E-value=74 Score=24.48 Aligned_cols=25 Identities=16% Similarity=0.381 Sum_probs=21.5
Q ss_pred cccCcccccccChHHHHhhhhh-hcC
Q psy12022 68 FACDVCGKEYKQKYGLNRHKKY-DCG 92 (143)
Q Consensus 68 ~~C~~C~~~~~~~~~l~~h~~~-h~~ 92 (143)
|.|+.|.+.|.....+..|+.. |.+
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhh
Confidence 7899999999999999999974 444
No 194
>TIGR03831 YgiT_finger YgiT-type zinc finger domain. This domain model describes a small domain with two copies of a putative zinc-binding motif CXXC (usually CXXCG). Most member proteins consist largely of this domain or else carry an additional C-terminal helix-turn-helix domain, resembling that of the phage protein Cro and modeled by pfam01381.
Probab=20.49 E-value=45 Score=15.83 Aligned_cols=12 Identities=42% Similarity=1.135 Sum_probs=9.3
Q ss_pred cccCcccccccC
Q psy12022 68 FACDVCGKEYKQ 79 (143)
Q Consensus 68 ~~C~~C~~~~~~ 79 (143)
+.|+.||..+.+
T Consensus 33 ~~C~~CGE~~~~ 44 (46)
T TIGR03831 33 LVCPQCGEEYLD 44 (46)
T ss_pred cccccCCCEeeC
Confidence 679999987654
No 195
>KOG2857|consensus
Probab=20.33 E-value=51 Score=20.88 Aligned_cols=21 Identities=24% Similarity=0.331 Sum_probs=18.5
Q ss_pred eeccCCcccccChHHHHhHHh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHIN 117 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~ 117 (143)
|+|+.|...+-+...++.|..
T Consensus 18 YKCpkC~vPYCSl~CfKiHk~ 38 (157)
T KOG2857|consen 18 YKCPKCSVPYCSLPCFKIHKS 38 (157)
T ss_pred ccCCCCCCccccchhhhhccC
Confidence 999999988888888888877
No 196
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=20.28 E-value=41 Score=19.87 Aligned_cols=35 Identities=20% Similarity=0.508 Sum_probs=19.9
Q ss_pred ccccCcccccccChHHHHhhhhhhcCCCCCeeccCCcccccCh
Q psy12022 67 MFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYRAKLR 109 (143)
Q Consensus 67 ~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~f~~~ 109 (143)
-+.|+.|+.. .-.-.+.. + .+...|..|+..+...
T Consensus 21 ~f~CP~Cge~-~v~v~~~k------~-~~h~~C~~CG~y~~~~ 55 (99)
T PRK14892 21 IFECPRCGKV-SISVKIKK------N-IAIITCGNCGLYTEFE 55 (99)
T ss_pred EeECCCCCCe-EeeeecCC------C-cceEECCCCCCccCEE
Confidence 4789999832 11111111 2 4447899999776543
No 197
>KOG2807|consensus
Probab=20.26 E-value=1.2e+02 Score=22.32 Aligned_cols=23 Identities=22% Similarity=0.408 Sum_probs=13.3
Q ss_pred eeccCCcccccChHHHHhHHhhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINVK 119 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~~ 119 (143)
|.|..|...|-..-+.-.|...|
T Consensus 346 y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 346 YRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred EEchhccceeeccchHHHHhhhh
Confidence 66666666665555555555443
No 198
>KOG0717|consensus
Probab=20.03 E-value=71 Score=24.55 Aligned_cols=22 Identities=32% Similarity=0.443 Sum_probs=19.2
Q ss_pred eeccCCcccccChHHHHhHHhh
Q psy12022 97 YQCLYCPYRAKLRFNLKTHINV 118 (143)
Q Consensus 97 ~~C~~C~~~f~~~~~l~~H~~~ 118 (143)
+-|.+|++.|.+--.|..|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999888653
No 199
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.00 E-value=41 Score=20.40 Aligned_cols=28 Identities=18% Similarity=0.354 Sum_probs=16.9
Q ss_pred CccccCcccccccChHHHHhhhhhhcCCCCCeeccCCccc
Q psy12022 66 EMFACDVCGKEYKQKYGLNRHKKYDCGQEPKYQCLYCPYR 105 (143)
Q Consensus 66 ~~~~C~~C~~~~~~~~~l~~h~~~h~~~~~~~~C~~C~~~ 105 (143)
....|..||..|..... ..+.|+.|+..
T Consensus 70 ~~~~C~~Cg~~~~~~~~------------~~~~CP~Cgs~ 97 (117)
T PRK00564 70 VELECKDCSHVFKPNAL------------DYGVCEKCHSK 97 (117)
T ss_pred CEEEhhhCCCccccCCc------------cCCcCcCCCCC
Confidence 34689999866654311 20348888853
Done!