Query psy10072
Match_columns 84
No_of_seqs 119 out of 1166
Neff 11.2
Searched_HMMs 46136
Date Fri Aug 16 17:14:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10072.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10072hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 99.9 6.3E-23 1.4E-27 112.7 3.0 72 1-74 177-249 (279)
2 KOG2462|consensus 99.9 2.7E-22 5.8E-27 110.3 2.6 62 1-62 203-265 (279)
3 KOG3623|consensus 99.5 4.1E-15 8.8E-20 91.2 1.5 65 10-74 891-956 (1007)
4 KOG3623|consensus 99.5 1.2E-14 2.6E-19 89.2 1.3 71 1-71 910-982 (1007)
5 KOG3576|consensus 99.4 1.3E-14 2.7E-19 77.7 -0.3 60 2-61 134-194 (267)
6 KOG1074|consensus 99.4 2.4E-14 5.2E-19 88.6 0.0 64 1-64 621-692 (958)
7 KOG3576|consensus 99.4 1.7E-13 3.7E-18 73.5 1.0 65 11-75 115-180 (267)
8 PHA00733 hypothetical protein 99.3 3.4E-12 7.5E-17 64.8 4.2 61 3-65 64-124 (128)
9 PF13465 zf-H2C2_2: Zinc-finge 99.3 6.2E-13 1.3E-17 50.0 1.1 25 1-25 2-26 (26)
10 PHA02768 hypothetical protein; 99.3 1.5E-12 3.3E-17 56.4 1.4 44 13-57 5-48 (55)
11 KOG3608|consensus 99.1 9.8E-11 2.1E-15 67.5 2.8 83 1-83 279-368 (467)
12 KOG1074|consensus 99.0 5.2E-11 1.1E-15 74.4 0.9 59 14-72 880-939 (958)
13 KOG3608|consensus 99.0 7.1E-10 1.5E-14 64.0 3.1 70 1-73 253-324 (467)
14 PHA00616 hypothetical protein 98.7 3.1E-09 6.6E-14 44.2 0.9 30 41-70 2-31 (44)
15 PF13465 zf-H2C2_2: Zinc-finge 98.7 1.6E-08 3.4E-13 37.8 2.1 24 28-51 1-25 (26)
16 PHA00732 hypothetical protein 98.7 2.7E-08 5.8E-13 46.7 3.2 46 13-63 1-47 (79)
17 PHA00616 hypothetical protein 98.7 7.4E-09 1.6E-13 43.0 0.9 33 13-45 1-34 (44)
18 PHA02768 hypothetical protein; 98.6 2E-08 4.2E-13 43.7 1.8 29 41-71 6-34 (55)
19 PLN03086 PRLI-interacting fact 98.6 5.4E-08 1.2E-12 59.7 3.8 57 12-72 452-508 (567)
20 PF05605 zf-Di19: Drought indu 98.5 5.4E-07 1.2E-11 39.4 3.9 49 13-64 2-53 (54)
21 PLN03086 PRLI-interacting fact 98.5 1.9E-07 4.1E-12 57.4 3.2 69 1-74 468-547 (567)
22 PF00096 zf-C2H2: Zinc finger, 98.4 2.2E-07 4.8E-12 33.5 1.8 20 42-61 2-21 (23)
23 PF00096 zf-C2H2: Zinc finger, 98.4 2.1E-07 4.6E-12 33.6 1.7 23 14-36 1-23 (23)
24 KOG3993|consensus 98.4 1.7E-07 3.6E-12 55.5 1.2 52 13-64 295-380 (500)
25 PHA00733 hypothetical protein 98.3 1.7E-07 3.7E-12 47.8 0.0 60 11-72 38-103 (128)
26 PF13894 zf-C2H2_4: C2H2-type 98.2 1.6E-06 3.4E-11 31.3 2.2 23 41-63 1-23 (24)
27 PF13912 zf-C2H2_6: C2H2-type 98.1 2.7E-06 6E-11 31.8 1.8 24 13-36 1-24 (27)
28 PF13894 zf-C2H2_4: C2H2-type 98.0 7.6E-06 1.6E-10 29.4 2.2 23 14-36 1-23 (24)
29 PF13912 zf-C2H2_6: C2H2-type 98.0 6.5E-06 1.4E-10 30.7 1.7 25 41-65 2-26 (27)
30 KOG3993|consensus 98.0 1.2E-06 2.6E-11 52.0 -0.6 52 14-65 268-320 (500)
31 PF09237 GAGA: GAGA factor; I 97.8 3.5E-05 7.5E-10 32.9 2.4 29 41-69 25-53 (54)
32 COG5189 SFP1 Putative transcri 97.7 1.5E-05 3.3E-10 46.1 1.3 51 11-61 347-419 (423)
33 smart00355 ZnF_C2H2 zinc finge 97.6 5E-05 1.1E-09 27.5 1.8 20 42-61 2-21 (26)
34 smart00355 ZnF_C2H2 zinc finge 97.6 7E-05 1.5E-09 27.1 2.0 24 14-37 1-24 (26)
35 PF12756 zf-C2H2_2: C2H2 type 97.6 6.2E-05 1.3E-09 36.4 2.2 23 41-63 51-73 (100)
36 PF09237 GAGA: GAGA factor; I 97.4 0.00021 4.5E-09 30.6 2.4 30 9-38 20-49 (54)
37 PF13909 zf-H2C2_5: C2H2-type 97.4 0.00015 3.2E-09 26.2 1.8 23 41-64 1-23 (24)
38 PF12874 zf-met: Zinc-finger o 97.4 0.00013 2.9E-09 26.5 1.5 21 14-34 1-21 (25)
39 PRK04860 hypothetical protein; 97.3 0.00027 5.8E-09 37.5 2.7 35 13-51 119-154 (160)
40 PF12874 zf-met: Zinc-finger o 97.2 0.00029 6.2E-09 25.6 1.6 23 41-63 1-23 (25)
41 PRK04860 hypothetical protein; 96.8 0.00063 1.4E-08 36.1 1.3 25 2-26 132-156 (160)
42 PF12171 zf-C2H2_jaz: Zinc-fin 96.7 0.00051 1.1E-08 25.5 0.3 21 41-61 2-22 (27)
43 PF13913 zf-C2HC_2: zinc-finge 96.4 0.0033 7.3E-08 23.0 1.8 20 14-34 3-22 (25)
44 COG4049 Uncharacterized protei 96.4 0.0019 4.2E-08 28.1 1.1 29 37-65 13-42 (65)
45 PHA00732 hypothetical protein 96.4 0.0031 6.7E-08 29.7 1.9 25 41-65 2-27 (79)
46 smart00451 ZnF_U1 U1-like zinc 96.3 0.0045 9.8E-08 24.2 1.9 22 13-34 3-24 (35)
47 PF05605 zf-Di19: Drought indu 95.9 0.0072 1.6E-07 26.2 1.7 34 41-75 3-38 (54)
48 KOG2186|consensus 95.6 0.0098 2.1E-07 33.8 1.8 50 13-64 3-52 (276)
49 PF13719 zinc_ribbon_5: zinc-r 95.3 0.029 6.2E-07 22.4 2.3 34 14-51 3-36 (37)
50 PF13717 zinc_ribbon_4: zinc-r 95.2 0.034 7.3E-07 22.1 2.3 33 14-50 3-35 (36)
51 PF12756 zf-C2H2_2: C2H2 type 95.0 0.033 7.1E-07 26.7 2.5 24 13-36 50-73 (100)
52 COG5048 FOG: Zn-finger [Genera 94.7 0.0086 1.9E-07 35.6 -0.0 60 12-71 288-354 (467)
53 COG4049 Uncharacterized protei 94.6 0.016 3.4E-07 25.3 0.7 30 7-36 11-40 (65)
54 TIGR02098 MJ0042_CXXC MJ0042 f 94.5 0.053 1.2E-06 21.6 2.2 34 14-51 3-36 (38)
55 KOG2893|consensus 94.2 0.011 2.4E-07 33.4 -0.2 46 11-60 9-54 (341)
56 cd00350 rubredoxin_like Rubred 94.1 0.041 9E-07 21.4 1.4 24 14-48 2-25 (33)
57 COG5189 SFP1 Putative transcri 93.8 0.017 3.6E-07 34.1 -0.1 26 9-34 394-419 (423)
58 PF09986 DUF2225: Uncharacteri 92.4 0.037 8E-07 30.9 -0.0 43 11-53 3-61 (214)
59 KOG1146|consensus 92.3 0.093 2E-06 36.4 1.6 55 8-62 460-540 (1406)
60 PF10571 UPF0547: Uncharacteri 92.2 0.14 2.9E-06 18.9 1.4 11 41-51 15-25 (26)
61 smart00834 CxxC_CXXC_SSSS Puta 92.0 0.052 1.1E-06 21.9 0.2 30 14-49 6-35 (41)
62 PF09538 FYDLN_acid: Protein o 91.6 0.19 4.1E-06 25.2 2.0 30 14-53 10-39 (108)
63 PF04959 ARS2: Arsenite-resist 91.4 0.15 3.2E-06 28.6 1.6 27 10-36 74-100 (214)
64 TIGR00373 conserved hypothetic 91.3 0.17 3.8E-06 26.9 1.7 35 9-51 105-139 (158)
65 PRK00464 nrdR transcriptional 91.2 0.068 1.5E-06 28.4 0.2 12 41-52 29-40 (154)
66 COG1997 RPL43A Ribosomal prote 91.1 0.2 4.4E-06 24.0 1.7 30 12-51 34-64 (89)
67 smart00659 RPOLCX RNA polymera 91.1 0.31 6.7E-06 20.3 2.1 26 13-48 2-27 (44)
68 COG2888 Predicted Zn-ribbon RN 91.1 0.36 7.7E-06 21.5 2.3 11 13-23 27-37 (61)
69 TIGR02605 CxxC_CxxC_SSSS putat 91.0 0.073 1.6E-06 22.7 0.1 29 14-48 6-34 (52)
70 PF14353 CpXC: CpXC protein 91.0 0.47 1E-05 24.2 3.1 43 15-59 3-57 (128)
71 smart00531 TFIIE Transcription 91.0 0.31 6.7E-06 25.6 2.5 39 10-51 96-134 (147)
72 PF15269 zf-C2H2_7: Zinc-finge 91.0 0.21 4.6E-06 20.9 1.5 25 38-62 16-42 (54)
73 PRK00398 rpoP DNA-directed RNA 90.7 0.28 6.2E-06 20.4 1.8 30 13-51 3-32 (46)
74 cd00924 Cyt_c_Oxidase_Vb Cytoc 90.1 0.11 2.5E-06 25.4 0.4 20 5-25 72-91 (97)
75 smart00440 ZnF_C2C2 C2C2 Zinc 89.8 0.08 1.7E-06 21.6 -0.3 35 15-51 2-39 (40)
76 COG5048 FOG: Zn-finger [Genera 89.2 0.13 2.8E-06 30.7 0.2 43 1-43 305-354 (467)
77 PRK06266 transcription initiat 88.5 0.34 7.3E-06 26.4 1.5 34 10-51 114-147 (178)
78 PF12013 DUF3505: Protein of u 88.1 0.56 1.2E-05 23.3 2.1 25 41-65 81-109 (109)
79 smart00614 ZnF_BED BED zinc fi 87.7 0.81 1.8E-05 19.4 2.2 21 41-61 19-44 (50)
80 COG1571 Predicted DNA-binding 87.0 0.47 1E-05 29.3 1.6 29 15-54 352-381 (421)
81 cd00729 rubredoxin_SM Rubredox 86.5 0.59 1.3E-05 18.3 1.3 25 13-48 2-26 (34)
82 PLN02294 cytochrome c oxidase 86.0 0.28 6.2E-06 26.5 0.3 21 5-26 134-154 (174)
83 TIGR01206 lysW lysine biosynth 85.7 0.72 1.6E-05 20.2 1.5 31 14-51 3-33 (54)
84 KOG4167|consensus 85.6 0.17 3.7E-06 33.2 -0.7 25 41-65 793-817 (907)
85 KOG2593|consensus 85.0 0.87 1.9E-05 28.2 2.0 37 9-48 124-161 (436)
86 PRK09678 DNA-binding transcrip 84.4 0.56 1.2E-05 21.8 0.9 39 14-54 2-43 (72)
87 COG2331 Uncharacterized protei 84.0 0.44 9.5E-06 22.3 0.4 31 14-51 13-44 (82)
88 PF02892 zf-BED: BED zinc fing 83.9 1.6 3.4E-05 17.8 2.1 21 41-61 17-41 (45)
89 TIGR02300 FYDLN_acid conserved 83.6 1.2 2.6E-05 23.0 1.9 32 14-55 10-41 (129)
90 PRK14890 putative Zn-ribbon RN 82.9 1.4 3.1E-05 19.6 1.8 9 14-22 26-34 (59)
91 KOG4173|consensus 82.9 0.29 6.3E-06 27.3 -0.4 48 15-62 108-168 (253)
92 PF01096 TFIIS_C: Transcriptio 82.8 0.05 1.1E-06 22.0 -2.6 10 41-50 29-38 (39)
93 smart00734 ZnF_Rad18 Rad18-lik 82.7 1.7 3.7E-05 15.8 1.8 19 15-34 3-21 (26)
94 PF01780 Ribosomal_L37ae: Ribo 82.6 0.62 1.4E-05 22.6 0.7 31 12-51 34-64 (90)
95 PF07754 DUF1610: Domain of un 82.4 0.8 1.7E-05 16.5 0.8 11 11-21 14-24 (24)
96 PF05443 ROS_MUCR: ROS/MUCR tr 82.3 0.92 2E-05 23.6 1.2 25 41-68 73-97 (132)
97 PRK03824 hypA hydrogenase nick 82.3 0.55 1.2E-05 24.4 0.4 15 12-26 69-83 (135)
98 PF11672 DUF3268: Protein of u 81.0 1.1 2.5E-05 22.2 1.3 37 12-48 1-39 (102)
99 KOG3408|consensus 80.7 0.99 2.1E-05 23.1 1.0 22 41-62 58-79 (129)
100 PF08274 PhnA_Zn_Ribbon: PhnA 80.7 1.1 2.5E-05 17.0 1.0 25 15-49 4-28 (30)
101 PF03604 DNA_RNApol_7kD: DNA d 80.5 1.5 3.2E-05 17.0 1.3 25 14-48 1-25 (32)
102 TIGR00280 L37a ribosomal prote 79.1 1.5 3.2E-05 21.4 1.3 30 12-51 34-64 (91)
103 PF13878 zf-C2H2_3: zinc-finge 79.0 2.5 5.4E-05 17.2 1.8 25 13-37 13-39 (41)
104 PF09845 DUF2072: Zn-ribbon co 78.4 1.2 2.7E-05 23.1 0.9 15 13-27 1-15 (131)
105 PF08790 zf-LYAR: LYAR-type C2 78.4 0.7 1.5E-05 17.4 0.1 9 15-23 2-10 (28)
106 PF04959 ARS2: Arsenite-resist 77.9 1 2.3E-05 25.3 0.7 27 41-67 78-104 (214)
107 PHA00626 hypothetical protein 77.9 1.6 3.6E-05 19.2 1.1 16 12-27 22-37 (59)
108 PRK12380 hydrogenase nickel in 76.8 1.6 3.4E-05 22.0 1.0 25 13-48 70-94 (113)
109 PF13451 zf-trcl: Probable zin 76.7 1.3 2.8E-05 19.0 0.6 17 11-27 2-18 (49)
110 COG1656 Uncharacterized conser 76.7 5.8 0.00013 21.5 3.1 44 14-57 98-147 (165)
111 COG1996 RPC10 DNA-directed RNA 76.5 2.2 4.7E-05 18.3 1.3 27 12-48 5-32 (49)
112 PF09723 Zn-ribbon_8: Zinc rib 76.5 1.4 3.1E-05 18.0 0.7 29 14-48 6-34 (42)
113 KOG4167|consensus 76.4 0.45 9.7E-06 31.5 -1.1 26 13-38 792-817 (907)
114 PHA02998 RNA polymerase subuni 76.4 0.9 2E-05 24.9 0.1 39 13-53 143-184 (195)
115 PTZ00255 60S ribosomal protein 75.9 2.8 6.1E-05 20.4 1.7 30 12-51 35-65 (90)
116 PF13453 zf-TFIIB: Transcripti 75.3 4.7 0.0001 16.2 2.5 21 38-58 16-37 (41)
117 PF10276 zf-CHCC: Zinc-finger 75.2 0.89 1.9E-05 18.6 -0.0 11 13-23 29-39 (40)
118 KOG1280|consensus 74.1 4.1 9E-05 24.8 2.4 38 11-48 77-117 (381)
119 KOG2907|consensus 73.9 3.1 6.6E-05 21.1 1.6 37 13-51 74-113 (116)
120 TIGR00100 hypA hydrogenase nic 73.8 2.2 4.7E-05 21.6 1.1 25 13-48 70-94 (115)
121 KOG2785|consensus 73.8 15 0.00033 22.8 4.6 60 12-71 165-252 (390)
122 PF01215 COX5B: Cytochrome c o 73.8 0.7 1.5E-05 24.2 -0.7 21 5-26 105-125 (136)
123 PRK00432 30S ribosomal protein 72.3 4.1 8.8E-05 17.4 1.6 11 41-51 38-48 (50)
124 COG4391 Uncharacterized protei 71.9 1.5 3.2E-05 19.7 0.2 45 4-52 15-60 (62)
125 smart00154 ZnF_AN1 AN1-like Zi 71.8 2.8 6.1E-05 16.9 1.0 14 13-26 12-25 (39)
126 PF01363 FYVE: FYVE zinc finge 71.6 4.7 0.0001 18.0 1.9 27 14-51 10-36 (69)
127 PF08271 TF_Zn_Ribbon: TFIIB z 71.2 3.2 6.9E-05 16.9 1.2 29 14-51 1-30 (43)
128 PF09963 DUF2197: Uncharacteri 71.0 2.2 4.8E-05 18.8 0.7 36 14-49 3-40 (56)
129 KOG2482|consensus 70.5 2.7 5.8E-05 25.6 1.1 22 41-62 196-217 (423)
130 COG4957 Predicted transcriptio 70.2 3.5 7.6E-05 21.6 1.4 26 41-69 77-102 (148)
131 PF10537 WAC_Acf1_DNA_bd: ATP- 70.2 12 0.00025 18.7 3.2 37 12-48 2-38 (102)
132 PRK00564 hypA hydrogenase nick 70.2 2.9 6.3E-05 21.2 1.1 25 13-48 71-96 (117)
133 PF04780 DUF629: Protein of un 69.2 4.2 9.1E-05 25.8 1.8 26 13-38 57-83 (466)
134 PRK04351 hypothetical protein; 68.5 4.5 9.8E-05 21.5 1.6 10 41-50 113-122 (149)
135 KOG1146|consensus 67.6 2 4.3E-05 30.5 0.3 52 11-62 1282-1350(1406)
136 KOG0696|consensus 67.5 5.1 0.00011 25.5 1.9 57 10-74 70-127 (683)
137 COG1594 RPB9 DNA-directed RNA 67.3 2.8 6E-05 21.2 0.7 36 14-51 73-111 (113)
138 PF02176 zf-TRAF: TRAF-type zi 66.6 9.9 0.00021 16.3 2.9 40 11-51 7-53 (60)
139 PF07295 DUF1451: Protein of u 66.5 1.5 3.3E-05 23.2 -0.3 33 7-48 102-138 (146)
140 COG1592 Rubrerythrin [Energy p 66.2 3.7 8.1E-05 22.3 1.1 8 13-20 134-141 (166)
141 COG3364 Zn-ribbon containing p 66.1 3.2 7E-05 20.6 0.8 15 13-27 2-16 (112)
142 PF01927 Mut7-C: Mut7-C RNAse 65.7 5.2 0.00011 21.0 1.5 46 13-58 91-142 (147)
143 PF01428 zf-AN1: AN1-like Zinc 65.6 2.5 5.4E-05 17.3 0.3 15 12-26 12-26 (43)
144 PF04423 Rad50_zn_hook: Rad50 65.4 2.6 5.6E-05 18.1 0.3 12 15-26 22-33 (54)
145 PF12760 Zn_Tnp_IS1595: Transp 65.1 5.8 0.00013 16.4 1.4 26 14-48 19-45 (46)
146 KOG2071|consensus 64.6 5.5 0.00012 25.9 1.7 27 11-37 416-442 (579)
147 PF15135 UPF0515: Uncharacteri 64.2 6.7 0.00014 22.9 1.8 11 41-51 156-166 (278)
148 COG4888 Uncharacterized Zn rib 64.1 2.3 5.1E-05 21.1 0.1 37 11-51 20-57 (104)
149 PRK03681 hypA hydrogenase nick 63.8 3.4 7.4E-05 20.9 0.6 25 13-48 70-95 (114)
150 TIGR01384 TFS_arch transcripti 63.7 2 4.3E-05 21.1 -0.2 11 41-51 91-101 (104)
151 PF03811 Zn_Tnp_IS1: InsA N-te 63.3 2.4 5.1E-05 16.9 -0.0 29 14-46 6-35 (36)
152 PF01155 HypA: Hydrogenase exp 62.9 4 8.7E-05 20.5 0.8 25 14-49 71-95 (113)
153 COG3091 SprT Zn-dependent meta 62.4 6.5 0.00014 21.1 1.5 7 41-47 141-147 (156)
154 PF14787 zf-CCHC_5: GAG-polypr 62.4 6 0.00013 15.8 1.1 15 14-28 3-17 (36)
155 PTZ00043 cytochrome c oxidase 61.8 4.7 0.0001 23.1 1.0 16 11-26 179-194 (268)
156 PF10013 DUF2256: Uncharacteri 61.1 4.7 0.0001 16.7 0.7 13 15-27 10-22 (42)
157 COG3357 Predicted transcriptio 60.6 4.4 9.5E-05 19.8 0.6 14 12-25 57-70 (97)
158 PF14446 Prok-RING_1: Prokaryo 60.6 11 0.00023 16.6 1.8 26 14-50 6-31 (54)
159 COG3677 Transposase and inacti 60.5 5.1 0.00011 20.8 0.9 16 11-26 51-66 (129)
160 COG1326 Uncharacterized archae 60.3 20 0.00043 20.2 3.1 35 13-51 6-41 (201)
161 COG1998 RPS31 Ribosomal protei 60.3 11 0.00023 16.3 1.7 26 15-49 21-46 (51)
162 KOG2071|consensus 59.6 6.2 0.00013 25.7 1.3 24 41-64 419-442 (579)
163 PF04780 DUF629: Protein of un 59.6 8.7 0.00019 24.5 1.9 24 41-64 58-81 (466)
164 PF07282 OrfB_Zn_ribbon: Putat 59.2 12 0.00027 16.7 2.0 12 41-52 47-58 (69)
165 PRK14892 putative transcriptio 58.6 6.7 0.00014 19.4 1.1 34 12-52 20-54 (99)
166 KOG4118|consensus 57.8 6.1 0.00013 18.0 0.8 31 41-71 39-69 (74)
167 PF02891 zf-MIZ: MIZ/SP-RING z 57.3 2.7 5.9E-05 17.9 -0.3 7 14-20 42-48 (50)
168 TIGR00686 phnA alkylphosphonat 56.7 10 0.00022 19.1 1.6 28 15-52 4-31 (109)
169 COG1773 Rubredoxin [Energy pro 56.3 5.9 0.00013 17.4 0.6 37 12-48 2-44 (55)
170 PF10263 SprT-like: SprT-like 56.3 9.5 0.0002 20.0 1.5 11 13-23 123-133 (157)
171 KOG1994|consensus 55.6 5.4 0.00012 22.9 0.6 21 41-61 240-260 (268)
172 smart00731 SprT SprT homologue 55.4 8.1 0.00018 20.2 1.2 11 13-23 112-122 (146)
173 PRK10220 hypothetical protein; 55.4 14 0.00031 18.7 1.9 29 15-53 5-33 (111)
174 TIGR00416 sms DNA repair prote 55.3 12 0.00026 23.7 2.0 10 13-22 7-16 (454)
175 PF11494 Ta0938: Ta0938; Inte 54.6 5.5 0.00012 19.6 0.4 40 9-53 10-50 (105)
176 PRK11823 DNA repair protein Ra 53.6 13 0.00029 23.4 2.0 11 13-23 7-17 (446)
177 TIGR01385 TFSII transcription 53.5 5 0.00011 23.9 0.2 37 13-51 258-297 (299)
178 PRK05978 hypothetical protein; 52.2 5.8 0.00013 21.2 0.3 32 14-53 34-65 (148)
179 TIGR00622 ssl1 transcription f 51.9 19 0.00041 18.3 2.1 49 15-65 57-106 (112)
180 PF01286 XPA_N: XPA protein N- 51.2 7 0.00015 15.4 0.4 14 14-27 4-17 (34)
181 COG0068 HypF Hydrogenase matur 50.9 1.2 2.6E-05 29.5 -2.6 47 15-61 125-172 (750)
182 TIGR00310 ZPR1_znf ZPR1 zinc f 50.6 4.5 9.8E-05 22.5 -0.2 36 15-51 2-41 (192)
183 COG1675 TFA1 Transcription ini 50.4 15 0.00033 20.2 1.7 34 9-50 109-142 (176)
184 PF07975 C1_4: TFIIH C1-like d 50.4 7 0.00015 16.9 0.4 24 41-64 22-45 (51)
185 PLN03238 probable histone acet 50.3 24 0.00051 21.1 2.6 23 41-63 49-71 (290)
186 KOG1842|consensus 50.2 8.9 0.00019 24.3 0.9 26 41-66 16-41 (505)
187 COG1779 C4-type Zn-finger prot 50.1 4 8.7E-05 22.8 -0.5 38 14-53 15-56 (201)
188 KOG1088|consensus 49.8 10 0.00022 19.5 0.9 20 8-27 93-112 (124)
189 PF14311 DUF4379: Domain of un 49.7 14 0.00031 15.8 1.3 13 41-53 29-41 (55)
190 PF03966 Trm112p: Trm112p-like 49.6 6.3 0.00014 17.8 0.2 17 8-24 48-64 (68)
191 KOG2231|consensus 49.0 23 0.00049 23.8 2.5 19 16-34 185-203 (669)
192 PF00301 Rubredoxin: Rubredoxi 48.8 9.8 0.00021 16.1 0.7 12 41-52 2-13 (47)
193 PF06220 zf-U1: U1 zinc finger 48.7 16 0.00034 14.6 1.3 12 13-24 3-14 (38)
194 PF05191 ADK_lid: Adenylate ki 48.4 8.1 0.00017 15.3 0.4 30 14-51 2-32 (36)
195 cd00065 FYVE FYVE domain; Zinc 48.4 17 0.00038 15.4 1.5 11 15-25 4-14 (57)
196 PF09332 Mcm10: Mcm10 replicat 48.3 9 0.00019 23.4 0.7 40 12-51 251-296 (344)
197 COG4530 Uncharacterized protei 47.9 11 0.00025 19.1 0.9 11 16-26 12-22 (129)
198 KOG4727|consensus 47.8 11 0.00025 20.7 1.0 22 13-34 75-96 (193)
199 KOG0717|consensus 47.3 13 0.00029 23.7 1.4 22 14-35 293-314 (508)
200 KOG3507|consensus 47.3 18 0.00039 16.2 1.4 28 13-50 20-47 (62)
201 cd00730 rubredoxin Rubredoxin; 46.5 9.6 0.00021 16.3 0.5 12 41-52 2-13 (50)
202 PRK00762 hypA hydrogenase nick 46.2 9.8 0.00021 19.5 0.6 31 13-48 70-100 (124)
203 PF04606 Ogr_Delta: Ogr/Delta- 45.6 12 0.00027 15.5 0.8 36 15-52 1-39 (47)
204 smart00064 FYVE Protein presen 45.6 18 0.00038 16.1 1.3 27 14-51 11-37 (68)
205 COG2879 Uncharacterized small 45.3 25 0.00053 16.0 1.7 19 52-70 24-42 (65)
206 TIGR03831 YgiT_finger YgiT-typ 44.7 11 0.00023 15.1 0.5 13 13-25 32-44 (46)
207 cd01121 Sms Sms (bacterial rad 44.6 20 0.00044 22.1 1.8 13 12-24 13-25 (372)
208 COG4896 Uncharacterized protei 44.3 19 0.00041 16.3 1.2 37 15-51 4-42 (68)
209 COG5112 UFD2 U1-like Zn-finger 44.2 12 0.00026 18.8 0.7 21 41-61 56-76 (126)
210 KOG3352|consensus 44.1 12 0.00026 20.1 0.7 13 13-25 133-145 (153)
211 PF10083 DUF2321: Uncharacteri 44.0 9.4 0.0002 20.6 0.3 18 11-28 66-83 (158)
212 PF13824 zf-Mss51: Zinc-finger 44.0 17 0.00038 16.0 1.1 15 10-24 11-25 (55)
213 PF08209 Sgf11: Sgf11 (transcr 43.9 24 0.00052 13.7 2.5 20 41-61 5-24 (33)
214 PF02591 DUF164: Putative zinc 43.8 27 0.0006 15.0 1.8 8 41-48 47-54 (56)
215 PRK12860 transcriptional activ 43.3 18 0.00039 20.2 1.3 12 13-24 134-145 (189)
216 KOG2807|consensus 42.7 69 0.0015 19.8 3.7 53 12-64 289-369 (378)
217 PF08792 A2L_zn_ribbon: A2L zi 42.2 16 0.00034 14.1 0.8 12 13-24 21-32 (33)
218 PRK05452 anaerobic nitric oxid 40.5 7.2 0.00016 24.8 -0.5 16 11-26 423-438 (479)
219 PF14447 Prok-RING_4: Prokaryo 40.2 18 0.0004 15.9 0.9 15 11-25 37-51 (55)
220 PF04810 zf-Sec23_Sec24: Sec23 39.7 14 0.0003 14.8 0.5 32 13-50 2-34 (40)
221 PF14369 zf-RING_3: zinc-finge 39.6 16 0.00035 14.3 0.6 10 15-24 23-32 (35)
222 KOG0227|consensus 39.5 17 0.00037 20.4 0.9 27 5-33 47-73 (222)
223 cd04476 RPA1_DBD_C RPA1_DBD_C: 39.5 22 0.00047 19.0 1.3 10 41-50 52-61 (166)
224 COG4338 Uncharacterized protei 39.4 13 0.00028 15.9 0.4 16 41-56 13-28 (54)
225 KOG2636|consensus 39.1 26 0.00056 22.4 1.7 21 12-32 400-421 (497)
226 PF14690 zf-ISL3: zinc-finger 39.0 19 0.00042 14.6 0.9 9 13-21 2-10 (47)
227 PF14803 Nudix_N_2: Nudix N-te 38.7 21 0.00045 13.9 0.9 9 41-49 23-31 (34)
228 KOG2857|consensus 38.6 18 0.00039 19.3 0.8 22 40-61 17-38 (157)
229 PF05180 zf-DNL: DNL zinc fing 38.0 16 0.00035 16.7 0.6 41 13-56 4-45 (66)
230 PTZ00064 histone acetyltransfe 37.6 35 0.00077 22.3 2.1 23 41-63 281-303 (552)
231 PRK12722 transcriptional activ 37.5 28 0.0006 19.5 1.5 27 14-48 135-162 (187)
232 PF05876 Terminase_GpA: Phage 37.3 18 0.00039 23.6 0.9 37 14-53 201-242 (557)
233 PRK03976 rpl37ae 50S ribosomal 37.1 17 0.00037 17.7 0.6 13 13-25 54-66 (90)
234 PF05766 NinG: Bacteriophage L 37.0 14 0.00031 20.6 0.4 17 11-27 4-20 (189)
235 PRK01343 zinc-binding protein; 37.0 36 0.00078 15.1 1.5 10 14-23 10-19 (57)
236 PLN00104 MYST -like histone ac 36.6 33 0.00072 22.0 1.9 23 41-63 199-221 (450)
237 PF06397 Desulfoferrod_N: Desu 36.5 20 0.00043 14.3 0.7 11 13-23 6-16 (36)
238 PF06044 DRP: Dam-replacing fa 36.2 20 0.00044 20.9 0.9 35 14-54 32-67 (254)
239 TIGR00244 transcriptional regu 36.1 18 0.0004 19.3 0.7 15 14-28 29-43 (147)
240 KOG3014|consensus 35.9 29 0.00063 20.4 1.5 25 14-38 38-64 (257)
241 PF12907 zf-met2: Zinc-binding 35.8 14 0.00031 15.1 0.2 20 42-61 3-25 (40)
242 COG0675 Transposase and inacti 35.3 60 0.0013 19.1 2.8 15 41-55 323-337 (364)
243 PRK08222 hydrogenase 4 subunit 34.1 33 0.00071 18.8 1.5 20 11-30 112-131 (181)
244 COG1327 Predicted transcriptio 33.6 20 0.00044 19.3 0.6 15 14-28 29-43 (156)
245 PF07503 zf-HYPF: HypF finger; 32.0 38 0.00082 13.3 1.1 13 12-24 20-32 (35)
246 COG4306 Uncharacterized protei 31.9 25 0.00053 18.4 0.7 17 11-27 66-82 (160)
247 PTZ00448 hypothetical protein; 31.9 34 0.00073 21.3 1.4 22 41-62 315-336 (373)
248 CHL00174 accD acetyl-CoA carbo 31.8 20 0.00043 21.5 0.4 31 14-53 39-70 (296)
249 COG1066 Sms Predicted ATP-depe 31.6 38 0.00083 21.6 1.6 12 12-23 6-17 (456)
250 PF10071 DUF2310: Zn-ribbon-co 31.5 36 0.00078 20.1 1.4 31 13-49 220-250 (258)
251 KOG0978|consensus 31.4 16 0.00035 24.6 0.1 47 13-59 643-697 (698)
252 COG5246 PRP11 Splicing factor 31.1 37 0.00081 19.0 1.3 27 6-34 48-74 (222)
253 KOG0782|consensus 30.9 19 0.00042 23.9 0.3 25 28-52 240-265 (1004)
254 PF11789 zf-Nse: Zinc-finger o 30.7 37 0.00081 14.8 1.1 14 13-26 24-37 (57)
255 TIGR00515 accD acetyl-CoA carb 30.5 22 0.00047 21.2 0.4 30 14-52 27-57 (285)
256 PF00130 C1_1: Phorbol esters/ 30.4 52 0.0011 13.6 2.0 28 11-49 9-37 (53)
257 TIGR03830 CxxCG_CxxCG_HTH puta 30.2 54 0.0012 16.4 1.8 19 12-30 30-48 (127)
258 PRK07218 replication factor A; 30.1 36 0.00079 21.6 1.3 10 14-23 298-307 (423)
259 PF00649 Copper-fist: Copper f 30.0 52 0.0011 13.5 1.4 15 37-51 5-19 (40)
260 PF02748 PyrI_C: Aspartate car 29.5 22 0.00048 15.3 0.3 14 11-24 33-46 (52)
261 PTZ00303 phosphatidylinositol 29.3 39 0.00084 23.7 1.4 32 14-51 461-492 (1374)
262 TIGR00319 desulf_FeS4 desulfof 28.6 37 0.00079 12.9 0.8 12 12-23 6-17 (34)
263 KOG2461|consensus 28.6 29 0.00064 21.7 0.8 59 8-66 326-385 (396)
264 PF13240 zinc_ribbon_2: zinc-r 28.6 34 0.00074 11.9 0.7 6 16-21 2-7 (23)
265 cd00974 DSRD Desulforedoxin (D 28.5 37 0.00079 12.9 0.8 11 13-23 4-14 (34)
266 PF04438 zf-HIT: HIT zinc fing 28.4 36 0.00078 12.8 0.8 10 41-50 14-23 (30)
267 KOG3277|consensus 28.2 59 0.0013 17.7 1.7 40 13-55 79-119 (165)
268 PRK12387 formate hydrogenlyase 28.2 42 0.0009 18.3 1.3 18 12-29 113-130 (180)
269 PF04032 Rpr2: RNAse P Rpr2/Rp 28.1 4.2 9.1E-05 19.0 -2.3 18 9-26 42-59 (85)
270 PRK05654 acetyl-CoA carboxylas 27.7 26 0.00056 21.0 0.4 30 14-52 28-58 (292)
271 COG5152 Uncharacterized conser 27.6 31 0.00067 19.6 0.7 16 11-26 194-209 (259)
272 COG1655 Uncharacterized protei 27.6 29 0.00062 20.2 0.6 24 11-34 17-40 (267)
273 KOG2747|consensus 27.2 43 0.00092 21.1 1.3 24 41-64 159-182 (396)
274 PF06170 DUF983: Protein of un 27.1 27 0.00059 16.8 0.4 12 41-52 9-20 (86)
275 PF03884 DUF329: Domain of unk 27.0 72 0.0016 14.1 2.3 9 42-50 4-12 (57)
276 COG5236 Uncharacterized conser 26.8 76 0.0017 19.8 2.2 22 41-62 221-242 (493)
277 PLN03239 histone acetyltransfe 26.8 48 0.001 20.5 1.4 22 41-62 107-128 (351)
278 smart00647 IBR In Between Ring 26.5 67 0.0015 13.6 1.7 12 41-52 41-52 (64)
279 KOG0801|consensus 26.3 32 0.00068 18.9 0.6 11 14-24 139-149 (205)
280 TIGR00155 pqiA_fam integral me 26.2 89 0.0019 19.7 2.5 36 8-50 8-43 (403)
281 PF02146 SIR2: Sir2 family; I 26.1 1E+02 0.0022 16.6 2.5 35 13-50 105-139 (178)
282 PF05290 Baculo_IE-1: Baculovi 25.7 39 0.00085 17.9 0.8 49 6-54 73-135 (140)
283 PF13248 zf-ribbon_3: zinc-rib 25.6 27 0.00058 12.4 0.2 6 16-21 19-24 (26)
284 smart00132 LIM Zinc-binding do 25.6 37 0.00079 12.6 0.6 10 14-23 28-37 (39)
285 smart00661 RPOL9 RNA polymeras 25.4 49 0.0011 13.6 1.0 31 15-53 2-33 (52)
286 PRK07591 threonine synthase; V 25.3 57 0.0012 20.5 1.6 12 13-24 18-29 (421)
287 PF14375 Cys_rich_CWC: Cystein 25.2 45 0.00098 14.0 0.9 7 17-23 2-8 (50)
288 PRK06260 threonine synthase; V 25.2 68 0.0015 19.9 1.9 10 14-23 4-13 (397)
289 PRK11032 hypothetical protein; 24.6 26 0.00055 19.1 0.1 27 13-48 124-150 (160)
290 COG1198 PriA Primosomal protei 24.5 25 0.00054 23.9 0.0 8 41-48 476-483 (730)
291 KOG1702|consensus 24.4 33 0.00072 19.6 0.4 33 15-47 6-38 (264)
292 PF14255 Cys_rich_CPXG: Cystei 24.3 38 0.00081 14.7 0.5 12 15-26 2-13 (52)
293 PF04161 Arv1: Arv1-like famil 24.2 56 0.0012 18.4 1.3 31 14-48 1-32 (208)
294 PF12773 DZR: Double zinc ribb 23.9 44 0.00095 13.7 0.7 9 41-49 30-38 (50)
295 PLN02748 tRNA dimethylallyltra 23.8 69 0.0015 20.7 1.8 23 12-34 417-440 (468)
296 PF12230 PRP21_like_P: Pre-mRN 23.7 26 0.00057 19.9 0.0 29 41-70 169-197 (229)
297 PF03145 Sina: Seven in absent 23.6 1.4E+02 0.0031 16.4 4.0 52 13-66 14-73 (198)
298 PRK14138 NAD-dependent deacety 23.5 1.1E+02 0.0024 17.7 2.5 34 12-48 118-151 (244)
299 PF09855 DUF2082: Nucleic-acid 23.4 35 0.00076 15.5 0.4 8 41-48 1-8 (64)
300 COG2956 Predicted N-acetylgluc 23.4 57 0.0012 20.3 1.3 8 13-20 354-361 (389)
301 COG3024 Uncharacterized protei 23.3 51 0.0011 15.1 0.8 12 14-25 8-19 (65)
302 COG5151 SSL1 RNA polymerase II 23.2 47 0.001 20.4 0.9 23 41-63 389-411 (421)
303 cd01413 SIR2_Af2 SIR2_Af2: Arc 22.3 1.2E+02 0.0025 17.3 2.4 33 12-48 112-144 (222)
304 PF04216 FdhE: Protein involve 22.2 14 0.00031 21.7 -1.3 9 14-22 173-181 (290)
305 COG1579 Zn-ribbon protein, pos 22.1 84 0.0018 18.4 1.8 9 41-49 222-230 (239)
306 TIGR03829 YokU_near_AblA uncha 22.0 63 0.0014 15.8 1.1 17 14-30 36-52 (89)
307 PF01194 RNA_pol_N: RNA polyme 22.0 64 0.0014 14.5 1.0 15 13-27 4-18 (60)
308 PF11931 DUF3449: Domain of un 21.7 31 0.00066 19.5 0.0 21 41-61 102-123 (196)
309 PF13821 DUF4187: Domain of un 21.7 42 0.00091 14.6 0.4 19 41-59 28-46 (55)
310 COG0846 SIR2 NAD-dependent pro 21.5 59 0.0013 19.1 1.1 36 10-48 119-154 (250)
311 COG5188 PRP9 Splicing factor 3 21.1 1.9E+02 0.0042 18.3 3.1 24 36-59 369-394 (470)
312 PF05495 zf-CHY: CHY zinc fing 21.0 64 0.0014 14.7 1.0 11 14-24 11-21 (71)
313 PF11238 DUF3039: Protein of u 21.0 28 0.0006 15.5 -0.2 10 41-50 45-54 (58)
314 PF03107 C1_2: C1 domain; Int 20.9 68 0.0015 11.8 0.9 7 41-47 16-22 (30)
315 PF06524 NOA36: NOA36 protein; 20.8 19 0.00041 21.3 -0.9 17 41-57 210-226 (314)
316 COG5027 SAS2 Histone acetyltra 20.7 67 0.0014 20.1 1.2 24 41-64 159-182 (395)
317 PF01844 HNH: HNH endonuclease 20.5 47 0.001 13.2 0.5 10 16-25 1-10 (47)
318 KOG3214|consensus 20.5 60 0.0013 16.3 0.8 40 11-53 21-60 (109)
319 PRK08270 anaerobic ribonucleos 20.4 68 0.0015 21.7 1.3 8 41-48 640-647 (656)
320 PRK12366 replication factor A; 20.2 73 0.0016 21.4 1.4 25 14-49 533-557 (637)
No 1
>KOG2462|consensus
Probab=99.87 E-value=6.3e-23 Score=112.71 Aligned_cols=72 Identities=26% Similarity=0.483 Sum_probs=64.2
Q ss_pred ChhhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCCCCChhhhHH
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHMPGDVLGHIQ 74 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~ 74 (84)
|+.|+|+|+ -++.|.+||+.|.++.-|+.|+++|+|++ |.|..|++.|.+.++|..||++|.+.+.|.|..+
T Consensus 177 LkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C 249 (279)
T KOG2462|consen 177 LKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRC 249 (279)
T ss_pred HhhHhhccC--CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcch
Confidence 567888887 57999999999999999999999999988 9999999999999999999999999999988443
No 2
>KOG2462|consensus
Probab=99.85 E-value=2.7e-22 Score=110.27 Aligned_cols=62 Identities=40% Similarity=0.779 Sum_probs=59.4
Q ss_pred ChhhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhh
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
|+.|+|+|||||||.|+.|++.|.+.++|..|+++|.+.+ |+|..|++.|...+.|.+|...
T Consensus 203 LQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 203 LQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred hhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 6789999999999999999999999999999999999988 9999999999999999999764
No 3
>KOG3623|consensus
Probab=99.51 E-value=4.1e-15 Score=91.16 Aligned_cols=65 Identities=15% Similarity=0.225 Sum_probs=52.4
Q ss_pred CCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCCCCChhhhHH
Q psy10072 10 GEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHMPGDVLGHIQ 74 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~ 74 (84)
.+.+|.|..|++.|.-.+.|.+|.--|+|.+ |+|..|.++|.....|+.|.+.|.||+||+|..+
T Consensus 891 e~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKC 956 (1007)
T KOG3623|consen 891 EDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKC 956 (1007)
T ss_pred ccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhh
Confidence 3457888888888888888888888888877 8888888888888888888888888888888655
No 4
>KOG3623|consensus
Probab=99.47 E-value=1.2e-14 Score=89.16 Aligned_cols=71 Identities=21% Similarity=0.492 Sum_probs=61.1
Q ss_pred ChhhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhh-hCCCCChhh
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIER-RHMPGDVLG 71 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~-~~~~~~~~~ 71 (84)
|.+|.=-|+|.+||.|.+|.+.|..+..|.-|.+.|.|.+ |+|..|++.|...+++..||.- -.-=+||..
T Consensus 910 LaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMNHRYSYCKpyrE 982 (1007)
T KOG3623|consen 910 LARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMNHRYSYCKPYRE 982 (1007)
T ss_pred HHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhccchhcccchhh
Confidence 4567778999999999999999999999999999999999 9999999999999999999863 233344443
No 5
>KOG3576|consensus
Probab=99.43 E-value=1.3e-14 Score=77.74 Aligned_cols=60 Identities=25% Similarity=0.535 Sum_probs=31.3
Q ss_pred hhhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHh
Q psy10072 2 RNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 2 ~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~ 61 (84)
.+|++-|...+.+.|..||+.|...-+|.+|+++|+|.. |+|..|++.|.+.-+|..|.+
T Consensus 134 nrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 134 NRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred HHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 344555555555555555555555555555555555544 555555555555555555544
No 6
>KOG1074|consensus
Probab=99.42 E-value=2.4e-14 Score=88.63 Aligned_cols=64 Identities=31% Similarity=0.652 Sum_probs=58.4
Q ss_pred ChhhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-----eeCC---CCccccccchHHHHHHhhhC
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-----VKCP---HCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-----~~c~---~C~~~f~~~~~l~~H~~~~~ 64 (84)
|+.|.|+|+|++||+|++|++.|.++.+|..|+..|...+ +.|+ .|.+.|...-.|..|++.|.
T Consensus 621 LqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 621 LQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTLPQHIRIHL 692 (958)
T ss_pred hhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccccceEEeec
Confidence 6789999999999999999999999999999999887543 7899 89999999999999999987
No 7
>KOG3576|consensus
Probab=99.36 E-value=1.7e-13 Score=73.46 Aligned_cols=65 Identities=18% Similarity=0.341 Sum_probs=60.2
Q ss_pred CCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCCCCChhhhHHH
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHMPGDVLGHIQQ 75 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~~~ 75 (84)
...+.|.+|++.|....-|.+|++-|...+ +-|..||+.|.+.-.|++|.++|++..||.|..+.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~ 180 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCE 180 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhh
Confidence 346899999999999999999999999988 99999999999999999999999999999996654
No 8
>PHA00733 hypothetical protein
Probab=99.32 E-value=3.4e-12 Score=64.84 Aligned_cols=61 Identities=20% Similarity=0.494 Sum_probs=51.0
Q ss_pred hhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchHHHHHHhhhCC
Q psy10072 3 NHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 3 ~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
+|+..+ +.+||.|+.|++.|.....|..|++.+. .++.|..|++.|.....|..|+...+.
T Consensus 64 ~~~~~~-~~kPy~C~~Cgk~Fss~s~L~~H~r~h~-~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 64 KLLTSK-AVSPYVCPLCLMPFSSSVSLKQHIRYTE-HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred hhcccC-CCCCccCCCCCCcCCCHHHHHHHHhcCC-cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 444444 4789999999999999999999998662 239999999999999999999887654
No 9
>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=99.31 E-value=6.2e-13 Score=49.99 Aligned_cols=25 Identities=56% Similarity=1.182 Sum_probs=22.4
Q ss_pred ChhhhhhhcCCCCeecCCCCccccC
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAH 25 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~ 25 (84)
|.+||++|+|++||.|+.|++.|.+
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEESS
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 5789999999999999999998863
No 10
>PHA02768 hypothetical protein; Provisional
Probab=99.27 E-value=1.5e-12 Score=56.43 Aligned_cols=44 Identities=23% Similarity=0.452 Sum_probs=39.0
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchHHH
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLN 57 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~l~ 57 (84)
-|.|++||+.|...+.|..|++.|. .+++|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceecccceeE
Confidence 3799999999999999999999998 3489999999999877664
No 11
>KOG3608|consensus
Probab=99.07 E-value=9.8e-11 Score=67.49 Aligned_cols=83 Identities=24% Similarity=0.546 Sum_probs=57.5
Q ss_pred Chhhhh-hhcCCCCeecCCCCccccChhhHHHHHHhcCCceeeCCC--CccccccchHHHHHHhhhC-CCC--ChhhhH-
Q psy10072 1 MRNHIR-THTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPH--CAYKCVKQKDLNTHIERRH-MPG--DVLGHI- 73 (84)
Q Consensus 1 l~~h~~-~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~--C~~~f~~~~~l~~H~~~~~-~~~--~~~~~~- 73 (84)
|..|++ .|...|||.|..|+..+.+.+.|.+|...|....|+|.. |...+++...+.+|+..++ +.. +|.|..
T Consensus 279 L~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~C 358 (467)
T KOG3608|consen 279 LTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCC 358 (467)
T ss_pred HHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecc
Confidence 356777 477778888888888888888888888877744488866 8888888778888877654 333 456633
Q ss_pred HHHHHhccCC
Q psy10072 74 QQMLEIGHNM 83 (84)
Q Consensus 74 ~~~~~~~~~~ 83 (84)
+..+..|.++
T Consensus 359 dr~ft~G~~L 368 (467)
T KOG3608|consen 359 DRFFTSGKSL 368 (467)
T ss_pred hhhhccchhH
Confidence 3455555543
No 12
>KOG1074|consensus
Probab=99.04 E-value=5.2e-11 Score=74.36 Aligned_cols=59 Identities=19% Similarity=0.339 Sum_probs=54.9
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCCCCChhhh
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHMPGDVLGH 72 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 72 (84)
..|..|++.|...+.|..|+++|++.+ |.|..|++.|....+|+.||.+|.+..|..-.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srr 939 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRR 939 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCccC
Confidence 689999999999999999999999999 99999999999999999999999888776543
No 13
>KOG3608|consensus
Probab=98.95 E-value=7.1e-10 Score=64.04 Aligned_cols=70 Identities=29% Similarity=0.648 Sum_probs=57.3
Q ss_pred ChhhhhhhcCCCCeecCCCCccccChhhHHHHHHh-cCCce-eeCCCCccccccchHHHHHHhhhCCCCChhhhH
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRI-HQDLK-VKCPHCAYKCVKQKDLNTHIERRHMPGDVLGHI 73 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~-~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~~ 73 (84)
|+.|++.|..- |.|+.|+.+....+.|..|++. |...+ |+|+.|++.|...+.|.+|..+|. +..|.|..
T Consensus 253 L~~Hv~rHvn~--ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h 324 (467)
T KOG3608|consen 253 LKSHVVRHVNC--YKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEH 324 (467)
T ss_pred HHHHHHHhhhc--ccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-ccceecCC
Confidence 45677777554 8999999999999999999986 66666 999999999999999999998877 56676643
No 14
>PHA00616 hypothetical protein
Probab=98.75 E-value=3.1e-09 Score=44.17 Aligned_cols=30 Identities=20% Similarity=0.361 Sum_probs=16.1
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCChh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGDVL 70 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~ 70 (84)
|+|+.||+.|.+.+.+..|++.+++++++.
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~ 31 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLT 31 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCccc
Confidence 345555555555555555555555555543
No 15
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.70 E-value=1.6e-08 Score=37.82 Aligned_cols=24 Identities=33% Similarity=0.665 Sum_probs=21.3
Q ss_pred hHHHHHHhcCCce-eeCCCCccccc
Q psy10072 28 TMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 28 ~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
+|..|++.|++.+ |.|+.|++.|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 4788999999988 99999999886
No 16
>PHA00732 hypothetical protein
Probab=98.69 E-value=2.7e-08 Score=46.69 Aligned_cols=46 Identities=33% Similarity=0.612 Sum_probs=38.3
Q ss_pred CeecCCCCccccChhhHHHHHHh-cCCceeeCCCCccccccchHHHHHHhhh
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRI-HQDLKVKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~-~~~~~~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
||.|..|++.|.....|..|++. |.+ +.|..|++.|. .+..|....
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~--~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL--TKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC--CccCCCCCEeC---Chhhhhccc
Confidence 68899999999999999999984 554 58999999998 467887553
No 17
>PHA00616 hypothetical protein
Probab=98.67 E-value=7.4e-09 Score=43.04 Aligned_cols=33 Identities=15% Similarity=0.158 Sum_probs=29.3
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCC
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPH 45 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~ 45 (84)
||.|..||+.|...+.+..|++.+++.+ +.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 6899999999999999999999998877 77653
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.64 E-value=2e-08 Score=43.71 Aligned_cols=29 Identities=24% Similarity=0.550 Sum_probs=25.5
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCChhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGDVLG 71 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~ 71 (84)
|.|+.||+.|.+.++|..|++.|+ +++.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc 34 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKL 34 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccC
Confidence 899999999999999999999998 34444
No 19
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.62 E-value=5.4e-08 Score=59.70 Aligned_cols=57 Identities=14% Similarity=0.332 Sum_probs=23.8
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchHHHHHHhhhCCCCChhhh
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLNTHIERRHMPGDVLGH 72 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 72 (84)
+.+.|+.|++.|. ...+..|+..+. .++.|+ |+..+ ....|..|+..+.+++++.|.
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H-kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~ 508 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH-EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCR 508 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC-CCccCC-CCCCc-chhHHHhhhhccCCCCceeCC
Confidence 3344444444443 233444444432 224444 44322 234444444444444444443
No 20
>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=98.45 E-value=5.4e-07 Score=39.36 Aligned_cols=49 Identities=27% Similarity=0.616 Sum_probs=37.4
Q ss_pred CeecCCCCccccChhhHHHHHHh-cCCc-e-eeCCCCccccccchHHHHHHhhhC
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRI-HQDL-K-VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~-~~~~-~-~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
.|.|+.|++. .....|..|... |... + +.|+.|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 4789999994 556789999764 6554 3 89999997644 48999988765
No 21
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.45 E-value=1.9e-07 Score=57.41 Aligned_cols=69 Identities=16% Similarity=0.319 Sum_probs=55.4
Q ss_pred ChhhhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcccccc----------chHHHHHHhhhCCCCCh
Q psy10072 1 MRNHIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVK----------QKDLNTHIERRHMPGDV 69 (84)
Q Consensus 1 l~~h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~----------~~~l~~H~~~~~~~~~~ 69 (84)
|..|+.+++ +++.|+ |++.+ ....|..|+..+.+.+ +.|..|++.+.. ...|..|.... +.+++
T Consensus 468 LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~ 542 (567)
T PLN03086 468 MEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTA 542 (567)
T ss_pred HHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcce
Confidence 357888874 789999 99765 5678999998888877 999999998842 34789998774 88899
Q ss_pred hhhHH
Q psy10072 70 LGHIQ 74 (84)
Q Consensus 70 ~~~~~ 74 (84)
.|..+
T Consensus 543 ~C~~C 547 (567)
T PLN03086 543 PCDSC 547 (567)
T ss_pred Ecccc
Confidence 98655
No 22
>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=98.41 E-value=2.2e-07 Score=33.54 Aligned_cols=20 Identities=30% Similarity=0.762 Sum_probs=9.7
Q ss_pred eCCCCccccccchHHHHHHh
Q psy10072 42 KCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 42 ~c~~C~~~f~~~~~l~~H~~ 61 (84)
.|+.|++.|.....|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 2 KCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHh
Confidence 44444444444444444444
No 23
>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=98.41 E-value=2.1e-07 Score=33.59 Aligned_cols=23 Identities=35% Similarity=0.743 Sum_probs=21.0
Q ss_pred eecCCCCccccChhhHHHHHHhc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIH 36 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~ 36 (84)
|.|+.|++.|.....|..|++.|
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 68999999999999999999764
No 24
>KOG3993|consensus
Probab=98.35 E-value=1.7e-07 Score=55.53 Aligned_cols=52 Identities=23% Similarity=0.431 Sum_probs=44.6
Q ss_pred CeecCCCCccccChhhHHHHHHhcCC---------------------------------ce-eeCCCCccccccchHHHH
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQD---------------------------------LK-VKCPHCAYKCVKQKDLNT 58 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~---------------------------------~~-~~c~~C~~~f~~~~~l~~ 58 (84)
-|+|++|++.|.-+.+|.-|.++|.. .. |.|..|++.|++...|+.
T Consensus 295 EYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrK 374 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRK 374 (500)
T ss_pred eecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHH
Confidence 48999999999999999999988731 12 789999999999999999
Q ss_pred HHhhhC
Q psy10072 59 HIERRH 64 (84)
Q Consensus 59 H~~~~~ 64 (84)
|+.+|+
T Consensus 375 Hqlthq 380 (500)
T KOG3993|consen 375 HQLTHQ 380 (500)
T ss_pred hHHhhh
Confidence 987765
No 25
>PHA00733 hypothetical protein
Probab=98.27 E-value=1.7e-07 Score=47.82 Aligned_cols=60 Identities=13% Similarity=0.119 Sum_probs=44.1
Q ss_pred CCCeecCCCCccccChhhHHHH------HHhcCCceeeCCCCccccccchHHHHHHhhhCCCCChhhh
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYH------LRIHQDLKVKCPHCAYKCVKQKDLNTHIERRHMPGDVLGH 72 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h------~~~~~~~~~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~~ 72 (84)
.+++.|.+|...|..+..|..+ +..+...+|.|..|++.|.....|..|+..+ +.++.|.
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~ 103 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCP 103 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCC
Confidence 5678899999888877665554 2223333399999999999999999999865 2345553
No 26
>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=98.21 E-value=1.6e-06 Score=31.27 Aligned_cols=23 Identities=22% Similarity=0.634 Sum_probs=11.7
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
|.|+.|++.|.....|..|+..+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 45555555555555555555543
No 27
>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=98.09 E-value=2.7e-06 Score=31.78 Aligned_cols=24 Identities=33% Similarity=0.592 Sum_probs=12.5
Q ss_pred CeecCCCCccccChhhHHHHHHhc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIH 36 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~ 36 (84)
||.|..|++.|.....|..|++.|
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 345555555555555555555443
No 28
>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=98.00 E-value=7.6e-06 Score=29.39 Aligned_cols=23 Identities=26% Similarity=0.670 Sum_probs=19.1
Q ss_pred eecCCCCccccChhhHHHHHHhc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIH 36 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~ 36 (84)
|.|+.|++.|.....+..|+..+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 68999999999999999999865
No 29
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.97 E-value=6.5e-06 Score=30.73 Aligned_cols=25 Identities=16% Similarity=0.337 Sum_probs=22.5
Q ss_pred eeCCCCccccccchHHHHHHhhhCC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
|.|..|++.|.....|..|++.|..
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCccCCccCChhHHHHHhHHhcC
Confidence 7899999999999999999987653
No 30
>KOG3993|consensus
Probab=97.96 E-value=1.2e-06 Score=52.04 Aligned_cols=52 Identities=17% Similarity=0.314 Sum_probs=45.5
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCC
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
|.|..|...|.+.-.|.+|.-...... |+|++|+++|.-..+|..|++.|..
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKP 320 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKP 320 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCC
Confidence 889999999999999998876555544 9999999999999999999998864
No 31
>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=97.77 E-value=3.5e-05 Score=32.94 Aligned_cols=29 Identities=28% Similarity=0.568 Sum_probs=20.9
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCCh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGDV 69 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~~ 69 (84)
..|+.|+..+++..+|.+|+...+..+|.
T Consensus 25 atCP~C~a~~~~srnLrRHle~~H~~k~~ 53 (54)
T PF09237_consen 25 ATCPICGAVIRQSRNLRRHLEIRHFKKPG 53 (54)
T ss_dssp EE-TTT--EESSHHHHHHHHHHHTTTS--
T ss_pred CCCCcchhhccchhhHHHHHHHHhcccCC
Confidence 78999999999999999999888877763
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.72 E-value=1.5e-05 Score=46.11 Aligned_cols=51 Identities=27% Similarity=0.574 Sum_probs=41.3
Q ss_pred CCCeecCC--CCccccChhhHHHHHHh-c---------C---------Cce-eeCCCCccccccchHHHHHHh
Q psy10072 11 EKPYKCTF--CPFTAAHSSTMSYHLRI-H---------Q---------DLK-VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 11 ~k~~~c~~--C~~~f~~~~~l~~h~~~-~---------~---------~~~-~~c~~C~~~f~~~~~l~~H~~ 61 (84)
+|||.|++ |.+.|...-.|.-|+.. | . ..+ |.|++|++.|.....|+-|+.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 59999986 99999999899888763 3 0 114 899999999999988988853
No 33
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.64 E-value=5e-05 Score=27.52 Aligned_cols=20 Identities=25% Similarity=0.715 Sum_probs=10.0
Q ss_pred eCCCCccccccchHHHHHHh
Q psy10072 42 KCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 42 ~c~~C~~~f~~~~~l~~H~~ 61 (84)
.|..|++.|.....+..|+.
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 34455555555555555544
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.61 E-value=7e-05 Score=27.11 Aligned_cols=24 Identities=29% Similarity=0.610 Sum_probs=21.1
Q ss_pred eecCCCCccccChhhHHHHHHhcC
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQ 37 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~ 37 (84)
+.|..|++.|.....+..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 579999999999999999988654
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.59 E-value=6.2e-05 Score=36.36 Aligned_cols=23 Identities=22% Similarity=0.647 Sum_probs=20.4
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
+.|..|++.|.....|..|++.+
T Consensus 51 ~~C~~C~~~f~s~~~l~~Hm~~~ 73 (100)
T PF12756_consen 51 FRCPYCNKTFRSREALQEHMRSK 73 (100)
T ss_dssp EEBSSSS-EESSHHHHHHHHHHT
T ss_pred CCCCccCCCCcCHHHHHHHHcCc
Confidence 78999999999999999999964
No 36
>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=97.42 E-value=0.00021 Score=30.62 Aligned_cols=30 Identities=27% Similarity=0.512 Sum_probs=21.0
Q ss_pred cCCCCeecCCCCccccChhhHHHHHHhcCC
Q psy10072 9 TGEKPYKCTFCPFTAAHSSTMSYHLRIHQD 38 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~ 38 (84)
..+.|..|++|+..+....+|.+|+....+
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 456799999999999999999999976544
No 37
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.42 E-value=0.00015 Score=26.20 Aligned_cols=23 Identities=43% Similarity=1.099 Sum_probs=13.7
Q ss_pred eeCCCCccccccchHHHHHHhhhC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
|+|..|+.... ...|.+|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 56777776665 667777766643
No 38
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.38 E-value=0.00013 Score=26.51 Aligned_cols=21 Identities=24% Similarity=0.653 Sum_probs=10.8
Q ss_pred eecCCCCccccChhhHHHHHH
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~ 34 (84)
|.|..|++.|.....+..|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555555555555555544
No 39
>PRK04860 hypothetical protein; Provisional
Probab=97.32 E-value=0.00027 Score=37.52 Aligned_cols=35 Identities=31% Similarity=0.710 Sum_probs=19.6
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
+|.|. |+. ....+..|.+.+.+.+ |.|..|+..|.
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~ 154 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLV 154 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeE
Confidence 45565 654 3444556666666555 66666665554
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.22 E-value=0.00029 Score=25.59 Aligned_cols=23 Identities=17% Similarity=0.481 Sum_probs=20.5
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
|.|..|.+.|.....+..|++.+
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 67999999999999999998753
No 41
>PRK04860 hypothetical protein; Provisional
Probab=96.84 E-value=0.00063 Score=36.12 Aligned_cols=25 Identities=36% Similarity=0.596 Sum_probs=22.4
Q ss_pred hhhhhhhcCCCCeecCCCCccccCh
Q psy10072 2 RNHIRTHTGEKPYKCTFCPFTAAHS 26 (84)
Q Consensus 2 ~~h~~~h~~~k~~~c~~C~~~f~~~ 26 (84)
++|.++|+++++|.|..|+..|...
T Consensus 132 rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 132 RRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred HHHHHHhcCCccEECCCCCceeEEe
Confidence 6899999999999999999988654
No 42
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.69 E-value=0.00051 Score=25.51 Aligned_cols=21 Identities=19% Similarity=0.496 Sum_probs=12.6
Q ss_pred eeCCCCccccccchHHHHHHh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~ 61 (84)
|.|..|++.|.....+..|+.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 446666666666666665554
No 43
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=96.44 E-value=0.0033 Score=22.98 Aligned_cols=20 Identities=15% Similarity=0.403 Sum_probs=12.5
Q ss_pred eecCCCCccccChhhHHHHHH
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~ 34 (84)
..|+.|++.| ....|.+|+.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 3577777777 4445666654
No 44
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=96.41 E-value=0.0019 Score=28.15 Aligned_cols=29 Identities=24% Similarity=0.628 Sum_probs=21.8
Q ss_pred CCce-eeCCCCccccccchHHHHHHhhhCC
Q psy10072 37 QDLK-VKCPHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 37 ~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
.|+. +.|+-|+..|+....+.+|....++
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3555 7888888888888888888776543
No 45
>PHA00732 hypothetical protein
Probab=96.40 E-value=0.0031 Score=29.68 Aligned_cols=25 Identities=32% Similarity=0.712 Sum_probs=21.9
Q ss_pred eeCCCCccccccchHHHHHHhh-hCC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIER-RHM 65 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~-~~~ 65 (84)
|.|..|++.|.+...|..|++. |.+
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~~ 27 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHTL 27 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccCC
Confidence 6899999999999999999984 554
No 46
>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=96.31 E-value=0.0045 Score=24.15 Aligned_cols=22 Identities=23% Similarity=0.593 Sum_probs=16.5
Q ss_pred CeecCCCCccccChhhHHHHHH
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~ 34 (84)
+|.|..|+..|.....+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4778888888887777777765
No 47
>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=95.87 E-value=0.0072 Score=26.22 Aligned_cols=34 Identities=26% Similarity=0.467 Sum_probs=24.2
Q ss_pred eeCCCCccccccchHHHHHHhhhCC-C-CChhhhHHH
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHM-P-GDVLGHIQQ 75 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~-~-~~~~~~~~~ 75 (84)
|.|+.|++. .+...|..|....+. + +.+.|.++.
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~ 38 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICS 38 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCch
Confidence 789999995 556789999886543 2 356665554
No 48
>KOG2186|consensus
Probab=95.59 E-value=0.0098 Score=33.80 Aligned_cols=50 Identities=12% Similarity=0.321 Sum_probs=38.4
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchHHHHHHhhhC
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
.|.|..||....-+ .+.+|+....+..|.|.-|+..|.. ..+..|...-+
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccCCeeEEeeccccccc-chhhhhhhhcc
Confidence 37899999876654 5788988777755999999999998 55777765433
No 49
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=95.25 E-value=0.029 Score=22.45 Aligned_cols=34 Identities=21% Similarity=0.357 Sum_probs=23.7
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
..|+.|+..|..... .....+.+.+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~----~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDD----KLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHH----HcccCCcEEECCCCCcEee
Confidence 479999998877653 1223344589999998774
No 50
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=95.19 E-value=0.034 Score=22.14 Aligned_cols=33 Identities=18% Similarity=0.343 Sum_probs=23.2
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCcccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKC 50 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f 50 (84)
..|+.|+..|.-... +....+.+.+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~----~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDE----KIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHH----HCCCCCcEEECCCCCCEe
Confidence 479999988877654 222334458999998876
No 51
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=95.00 E-value=0.033 Score=26.69 Aligned_cols=24 Identities=21% Similarity=0.623 Sum_probs=21.2
Q ss_pred CeecCCCCccccChhhHHHHHHhc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIH 36 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~ 36 (84)
.+.|..|++.|.....|..|++.+
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 589999999999999999999864
No 52
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.69 E-value=0.0086 Score=35.60 Aligned_cols=60 Identities=27% Similarity=0.409 Sum_probs=48.9
Q ss_pred CCeecCCCCccccChhhHHHHHH--hcCCc--e-eeCC--CCccccccchHHHHHHhhhCCCCChhh
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLR--IHQDL--K-VKCP--HCAYKCVKQKDLNTHIERRHMPGDVLG 71 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~--~~~~~--~-~~c~--~C~~~f~~~~~l~~H~~~~~~~~~~~~ 71 (84)
.++.|..|...|.....+..|.+ .|.+. + +.|+ .|++.|.+...+..|...+....+..+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 36788889999999888888888 78877 6 8888 799999999888888888777665544
No 53
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=94.58 E-value=0.016 Score=25.35 Aligned_cols=30 Identities=17% Similarity=0.332 Sum_probs=25.3
Q ss_pred hhcCCCCeecCCCCccccChhhHHHHHHhc
Q psy10072 7 THTGEKPYKCTFCPFTAAHSSTMSYHLRIH 36 (84)
Q Consensus 7 ~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~ 36 (84)
...|+.-+.|+.|+..|....+...|+...
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKa 40 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNKA 40 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhHH
Confidence 456788899999999999999999998643
No 54
>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=94.53 E-value=0.053 Score=21.60 Aligned_cols=34 Identities=18% Similarity=0.289 Sum_probs=22.5
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
..|+.|+..|...... ....+....|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~----~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQ----LGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHH----cCCCCCEEECCCCCCEEE
Confidence 5799999888666432 112223489999998764
No 55
>KOG2893|consensus
Probab=94.20 E-value=0.011 Score=33.44 Aligned_cols=46 Identities=24% Similarity=0.507 Sum_probs=34.4
Q ss_pred CCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchHHHHHH
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLNTHI 60 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~l~~H~ 60 (84)
.||| |=.|++.|.....|.+|++ .+-|+|-.|.+....-..|..|-
T Consensus 9 ~kpw-cwycnrefddekiliqhqk---akhfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQK---AKHFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred CCce-eeecccccchhhhhhhhhh---hccceeeeehhhhccCCCceeeh
Confidence 4565 6789999999999988876 33399999987665555566663
No 56
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=94.11 E-value=0.041 Score=21.38 Aligned_cols=24 Identities=25% Similarity=0.688 Sum_probs=15.8
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
|.|..||..+.... .++.|+.|+.
T Consensus 2 ~~C~~CGy~y~~~~-----------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE-----------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc-----------CCCcCcCCCC
Confidence 67888886654332 2378888875
No 57
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=93.79 E-value=0.017 Score=34.10 Aligned_cols=26 Identities=27% Similarity=0.715 Sum_probs=21.0
Q ss_pred cCCCCeecCCCCccccChhhHHHHHH
Q psy10072 9 TGEKPYKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~~~l~~h~~ 34 (84)
...|||+|++|++.|.....|.-|..
T Consensus 394 ~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 394 AKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred ccCCceeccccchhhccCccceeccc
Confidence 34599999999999998877776643
No 58
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=92.41 E-value=0.037 Score=30.88 Aligned_cols=43 Identities=23% Similarity=0.542 Sum_probs=27.7
Q ss_pred CCCeecCCCCccccChhhHHHHHHh---c-------CC-ce-----eeCCCCccccccc
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRI---H-------QD-LK-----VKCPHCAYKCVKQ 53 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~---~-------~~-~~-----~~c~~C~~~f~~~ 53 (84)
++...|++|+..|....-.....+. . .+ .+ ..|+.||.++...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 3567999999999877544433321 1 11 12 4899999877643
No 59
>KOG1146|consensus
Probab=92.28 E-value=0.093 Score=36.38 Aligned_cols=55 Identities=25% Similarity=0.526 Sum_probs=44.5
Q ss_pred hcCCCCeecCCCCccccChhhHHHHHHh-c-------------------------CCceeeCCCCccccccchHHHHHHh
Q psy10072 8 HTGEKPYKCTFCPFTAAHSSTMSYHLRI-H-------------------------QDLKVKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 8 h~~~k~~~c~~C~~~f~~~~~l~~h~~~-~-------------------------~~~~~~c~~C~~~f~~~~~l~~H~~ 61 (84)
+.-.+.+.|+.|+..|.....|..|++. | .+.+|.|..|...+....+|.+|+.
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 4445789999999999999999999987 1 0122788999999999999999987
Q ss_pred h
Q psy10072 62 R 62 (84)
Q Consensus 62 ~ 62 (84)
.
T Consensus 540 S 540 (1406)
T KOG1146|consen 540 S 540 (1406)
T ss_pred H
Confidence 5
No 60
>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=92.15 E-value=0.14 Score=18.89 Aligned_cols=11 Identities=45% Similarity=1.141 Sum_probs=7.3
Q ss_pred eeCCCCccccc
Q psy10072 41 VKCPHCAYKCV 51 (84)
Q Consensus 41 ~~c~~C~~~f~ 51 (84)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 36777777664
No 61
>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=91.95 E-value=0.052 Score=21.87 Aligned_cols=30 Identities=27% Similarity=0.615 Sum_probs=19.1
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~ 49 (84)
|.|..||..|...... ..+....|+.|+..
T Consensus 6 y~C~~Cg~~fe~~~~~------~~~~~~~CP~Cg~~ 35 (41)
T smart00834 6 YRCEDCGHTFEVLQKI------SDDPLATCPECGGD 35 (41)
T ss_pred EEcCCCCCEEEEEEec------CCCCCCCCCCCCCc
Confidence 7899999887654332 11223678888863
No 62
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=91.61 E-value=0.19 Score=25.15 Aligned_cols=30 Identities=17% Similarity=0.404 Sum_probs=21.7
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQ 53 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~ 53 (84)
..|+.||..|.... ..+..|+.||..|...
T Consensus 10 R~Cp~CG~kFYDLn----------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLN----------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCC----------CCCccCCCCCCccCcc
Confidence 38999998886531 2336899999888755
No 63
>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=91.43 E-value=0.15 Score=28.61 Aligned_cols=27 Identities=15% Similarity=0.326 Sum_probs=20.7
Q ss_pred CCCCeecCCCCccccChhhHHHHHHhc
Q psy10072 10 GEKPYKCTFCPFTAAHSSTMSYHLRIH 36 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~~~~~l~~h~~~~ 36 (84)
.+..|.|+.|+|.|.-...+.+|+...
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nK 100 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNK 100 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhc
Confidence 445699999999999999999998763
No 64
>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=91.27 E-value=0.17 Score=26.93 Aligned_cols=35 Identities=20% Similarity=0.373 Sum_probs=23.6
Q ss_pred cCCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 9 TGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
....-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFNEAME--------LNFTCPRCGAMLD 139 (158)
T ss_pred cCCCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCEee
Confidence 3445688999988876655442 1389999987543
No 65
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=91.17 E-value=0.068 Score=28.39 Aligned_cols=12 Identities=17% Similarity=0.542 Sum_probs=9.1
Q ss_pred eeCCCCcccccc
Q psy10072 41 VKCPHCAYKCVK 52 (84)
Q Consensus 41 ~~c~~C~~~f~~ 52 (84)
++|+.|++.|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 788888887754
No 66
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=91.15 E-value=0.2 Score=24.00 Aligned_cols=30 Identities=30% Similarity=0.485 Sum_probs=20.3
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
.+|.|+.|++. .. .+ .+.. |.|..|+..|.
T Consensus 34 ~~~~Cp~C~~~-~V-------kR--~a~GIW~C~kCg~~fA 64 (89)
T COG1997 34 AKHVCPFCGRT-TV-------KR--IATGIWKCRKCGAKFA 64 (89)
T ss_pred cCCcCCCCCCc-ce-------ee--eccCeEEcCCCCCeec
Confidence 46899999865 11 12 1233 99999998875
No 67
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=91.12 E-value=0.31 Score=20.31 Aligned_cols=26 Identities=27% Similarity=0.586 Sum_probs=18.3
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
.|.|..||..|... .+....|+.|+.
T Consensus 2 ~Y~C~~Cg~~~~~~----------~~~~irC~~CG~ 27 (44)
T smart00659 2 IYICGECGRENEIK----------SKDVVRCRECGY 27 (44)
T ss_pred EEECCCCCCEeecC----------CCCceECCCCCc
Confidence 37899999877543 223378999985
No 68
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=91.12 E-value=0.36 Score=21.49 Aligned_cols=11 Identities=18% Similarity=0.558 Sum_probs=5.8
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
.|.|+.||..-
T Consensus 27 ~F~CPnCGe~~ 37 (61)
T COG2888 27 KFPCPNCGEVE 37 (61)
T ss_pred EeeCCCCCcee
Confidence 35566665443
No 69
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=91.01 E-value=0.073 Score=22.73 Aligned_cols=29 Identities=31% Similarity=0.675 Sum_probs=18.7
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
|.|..|+..|...... .......|+.|+.
T Consensus 6 y~C~~Cg~~fe~~~~~------~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQKM------SDDPLATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEec------CCCCCCCCCCCCC
Confidence 7899999888754321 1122267888885
No 70
>PF14353 CpXC: CpXC protein
Probab=90.98 E-value=0.47 Score=24.21 Aligned_cols=43 Identities=21% Similarity=0.380 Sum_probs=25.4
Q ss_pred ecCCCCccccChh----------hHHHHHHhcCCce--eeCCCCccccccchHHHHH
Q psy10072 15 KCTFCPFTAAHSS----------TMSYHLRIHQDLK--VKCPHCAYKCVKQKDLNTH 59 (84)
Q Consensus 15 ~c~~C~~~f~~~~----------~l~~h~~~~~~~~--~~c~~C~~~f~~~~~l~~H 59 (84)
.|+.|+..|...- .+..- .-.|.- +.|+.||..|.-...+.-|
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~--il~g~l~~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEK--ILDGSLFSFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHH--HHcCCcCEEECCCCCCceecCCCEEEE
Confidence 6888887765331 12211 223433 8999999888755554444
No 71
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=90.96 E-value=0.31 Score=25.61 Aligned_cols=39 Identities=21% Similarity=0.433 Sum_probs=24.5
Q ss_pred CCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 10 GEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
...-|.|+.|+..|.....+.. ......|.|+.|+....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~---~d~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL---LDMDGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh---cCCCCcEECCCCCCEEE
Confidence 3456899999988875432211 12222299999997554
No 72
>PF15269 zf-C2H2_7: Zinc-finger
Probab=90.95 E-value=0.21 Score=20.87 Aligned_cols=25 Identities=24% Similarity=0.630 Sum_probs=20.1
Q ss_pred Cce--eeCCCCccccccchHHHHHHhh
Q psy10072 38 DLK--VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 38 ~~~--~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
|++ |+|-+|.......+.|..||..
T Consensus 16 gkp~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 16 GKPFKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred CCCccceeecCCcccchHHHHHHHHHH
Confidence 455 7899998888888888888865
No 73
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=90.73 E-value=0.28 Score=20.41 Aligned_cols=30 Identities=30% Similarity=0.743 Sum_probs=20.1
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
.|.|+.||..|..... ...+.|+.|+..+.
T Consensus 3 ~y~C~~CG~~~~~~~~---------~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEY---------GTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCC---------CCceECCCCCCeEE
Confidence 5889999987755332 11379999986443
No 74
>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=90.05 E-value=0.11 Score=25.42 Aligned_cols=20 Identities=25% Similarity=0.517 Sum_probs=14.5
Q ss_pred hhhhcCCCCeecCCCCccccC
Q psy10072 5 IRTHTGEKPYKCTFCPFTAAH 25 (84)
Q Consensus 5 ~~~h~~~k~~~c~~C~~~f~~ 25 (84)
+..+.| +|.+|.+||..|..
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL 91 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKL 91 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEE
Confidence 445566 68889889888754
No 75
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=89.77 E-value=0.08 Score=21.56 Aligned_cols=35 Identities=17% Similarity=0.322 Sum_probs=18.6
Q ss_pred ecCCCCccccChhhHHHHHHh-cCC-ce-eeCCCCccccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRI-HQD-LK-VKCPHCAYKCV 51 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~-~~~-~~-~~c~~C~~~f~ 51 (84)
.|+.|+..-.....+ .++. ..+ .. |.|..|+..+.
T Consensus 2 ~Cp~C~~~~a~~~q~--Q~RsaDE~mT~fy~C~~C~~~w~ 39 (40)
T smart00440 2 PCPKCGNREATFFQL--QTRSADEPMTVFYVCTKCGHRWR 39 (40)
T ss_pred cCCCCCCCeEEEEEE--cccCCCCCCeEEEEeCCCCCEeC
Confidence 578887543222222 2232 222 23 79999987654
No 76
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=89.18 E-value=0.13 Score=30.67 Aligned_cols=43 Identities=28% Similarity=0.706 Sum_probs=36.1
Q ss_pred Chhhhh--hhcCC--CCeecC--CCCccccChhhHHHHHHhcCCce-eeC
Q psy10072 1 MRNHIR--THTGE--KPYKCT--FCPFTAAHSSTMSYHLRIHQDLK-VKC 43 (84)
Q Consensus 1 l~~h~~--~h~~~--k~~~c~--~C~~~f~~~~~l~~h~~~~~~~~-~~c 43 (84)
|..|.+ .|+++ +|+.|+ .|++.|.+...+..|...+.+.. +.+
T Consensus 305 l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (467)
T COG5048 305 LTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKE 354 (467)
T ss_pred ccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccc
Confidence 356777 79999 999999 79999999999999988888766 444
No 77
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=88.48 E-value=0.34 Score=26.40 Aligned_cols=34 Identities=18% Similarity=0.472 Sum_probs=23.1
Q ss_pred CCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 10 GEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
...-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~ 147 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLE 147 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCe
Confidence 345688999998876654321 1389999987543
No 78
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=88.11 E-value=0.56 Score=23.25 Aligned_cols=25 Identities=32% Similarity=0.801 Sum_probs=22.0
Q ss_pred eeC----CCCccccccchHHHHHHhhhCC
Q psy10072 41 VKC----PHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 41 ~~c----~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
|.| ..|+........+..|.+.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 789 9999999999999999987664
No 79
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=87.68 E-value=0.81 Score=19.36 Aligned_cols=21 Identities=29% Similarity=0.653 Sum_probs=14.0
Q ss_pred eeCCCCccccccc-----hHHHHHHh
Q psy10072 41 VKCPHCAYKCVKQ-----KDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~~f~~~-----~~l~~H~~ 61 (84)
-.|..|++.+... ++|.+|+.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHH
Confidence 5777777766543 57777776
No 80
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=87.04 E-value=0.47 Score=29.32 Aligned_cols=29 Identities=14% Similarity=0.382 Sum_probs=20.9
Q ss_pred ecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccch
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQK 54 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~ 54 (84)
.|+.||....+ .|.. |.|+.|+..+....
T Consensus 352 ~Cp~Cg~~m~S-----------~G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKS-----------AGRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhh-----------cCCCCcccccccccCCccc
Confidence 79999875332 2554 99999998877553
No 81
>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=86.52 E-value=0.59 Score=18.27 Aligned_cols=25 Identities=24% Similarity=0.681 Sum_probs=14.8
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
.|.|..||..+.... .+..|+.|+.
T Consensus 2 ~~~C~~CG~i~~g~~-----------~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGEE-----------APEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECCc-----------CCCcCcCCCC
Confidence 478888886543221 1157777765
No 82
>PLN02294 cytochrome c oxidase subunit Vb
Probab=86.03 E-value=0.28 Score=26.49 Aligned_cols=21 Identities=19% Similarity=0.476 Sum_probs=13.4
Q ss_pred hhhhcCCCCeecCCCCccccCh
Q psy10072 5 IRTHTGEKPYKCTFCPFTAAHS 26 (84)
Q Consensus 5 ~~~h~~~k~~~c~~C~~~f~~~ 26 (84)
+..+.| +|.+|++||..|...
T Consensus 134 f~L~kG-kp~RCpeCG~~fkL~ 154 (174)
T PLN02294 134 FWLEKG-KSFECPVCTQYFELE 154 (174)
T ss_pred EEecCC-CceeCCCCCCEEEEE
Confidence 334444 577888888777543
No 83
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=85.72 E-value=0.72 Score=20.16 Aligned_cols=31 Identities=16% Similarity=0.361 Sum_probs=21.5
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
+.|+.|+..+..... ..+....|+.|+..+.
T Consensus 3 ~~CP~CG~~iev~~~-------~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 3 FECPDCGAEIELENP-------ELGELVICDECGAELE 33 (54)
T ss_pred cCCCCCCCEEecCCC-------ccCCEEeCCCCCCEEE
Confidence 689999987755432 1244489999997664
No 84
>KOG4167|consensus
Probab=85.63 E-value=0.17 Score=33.22 Aligned_cols=25 Identities=24% Similarity=0.466 Sum_probs=22.5
Q ss_pred eeCCCCccccccchHHHHHHhhhCC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
|.|..|++.|.-..++..||+.|.-
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHHHHH
Confidence 8999999999999999999988753
No 85
>KOG2593|consensus
Probab=85.04 E-value=0.87 Score=28.23 Aligned_cols=37 Identities=16% Similarity=0.402 Sum_probs=25.1
Q ss_pred cCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 9 TGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
+...-|.|+.|.+.|.....++ ......- |.|..|+-
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGG 161 (436)
T ss_pred cccccccCCccccchhhhHHHH---hhcccCceEEEecCCC
Confidence 4456799999999987755432 3333333 89998875
No 86
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=84.44 E-value=0.56 Score=21.75 Aligned_cols=39 Identities=13% Similarity=0.435 Sum_probs=22.3
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCC--CCccccccch
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCP--HCAYKCVKQK 54 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~--~C~~~f~~~~ 54 (84)
+.|+.|+..-....+.... ....+. ++|. .|+..|....
T Consensus 2 m~CP~Cg~~a~irtSr~~s--~~~~~~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYIT--DTTKERYHQCQNVNCSATFITYE 43 (72)
T ss_pred ccCCCCCCccEEEEChhcC--hhhheeeeecCCCCCCCEEEEEE
Confidence 5799998765333321111 112233 6897 8999887543
No 87
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.00 E-value=0.44 Score=22.29 Aligned_cols=31 Identities=23% Similarity=0.485 Sum_probs=20.4
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
|.|..|+..| .+.+++. +.+ -.|+.|+..++
T Consensus 13 Y~c~~cg~~~----dvvq~~~---ddplt~ce~c~a~~k 44 (82)
T COG2331 13 YECTECGNRF----DVVQAMT---DDPLTTCEECGARLK 44 (82)
T ss_pred EeecccchHH----HHHHhcc---cCccccChhhChHHH
Confidence 7899998765 3344433 555 68888876543
No 88
>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=83.93 E-value=1.6 Score=17.80 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=11.4
Q ss_pred eeCCCCcccccc----chHHHHHHh
Q psy10072 41 VKCPHCAYKCVK----QKDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~~f~~----~~~l~~H~~ 61 (84)
..|..|++.+.. .++|..|+.
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHH
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 567777765543 456666663
No 89
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.58 E-value=1.2 Score=23.04 Aligned_cols=32 Identities=6% Similarity=-0.065 Sum_probs=22.0
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchH
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKD 55 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~ 55 (84)
..|+.||+.|.... ..+..|+.||..|.....
T Consensus 10 r~Cp~cg~kFYDLn----------k~p~vcP~cg~~~~~~~~ 41 (129)
T TIGR02300 10 RICPNTGSKFYDLN----------RRPAVSPYTGEQFPPEEA 41 (129)
T ss_pred ccCCCcCccccccC----------CCCccCCCcCCccCcchh
Confidence 47999998885431 223789999988765533
No 90
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=82.94 E-value=1.4 Score=19.59 Aligned_cols=9 Identities=22% Similarity=0.648 Sum_probs=4.2
Q ss_pred eecCCCCcc
Q psy10072 14 YKCTFCPFT 22 (84)
Q Consensus 14 ~~c~~C~~~ 22 (84)
|.|+.||..
T Consensus 26 F~CPnCG~~ 34 (59)
T PRK14890 26 FLCPNCGEV 34 (59)
T ss_pred eeCCCCCCe
Confidence 445555443
No 91
>KOG4173|consensus
Probab=82.89 E-value=0.29 Score=27.35 Aligned_cols=48 Identities=23% Similarity=0.498 Sum_probs=35.7
Q ss_pred ecCCCCccccChhhHHHHHHh-c---------CCce-eeCC--CCccccccchHHHHHHhh
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRI-H---------QDLK-VKCP--HCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~-~---------~~~~-~~c~--~C~~~f~~~~~l~~H~~~ 62 (84)
.|..|.+.|++..-|..|+.. | .|.. |+|. .|+..|........|+-.
T Consensus 108 sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 788999999988888888753 2 2445 8884 488888887777777654
No 92
>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=82.77 E-value=0.05 Score=22.03 Aligned_cols=10 Identities=20% Similarity=0.610 Sum_probs=8.0
Q ss_pred eeCCCCcccc
Q psy10072 41 VKCPHCAYKC 50 (84)
Q Consensus 41 ~~c~~C~~~f 50 (84)
|.|..|+..+
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 7898898765
No 93
>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=82.75 E-value=1.7 Score=15.83 Aligned_cols=19 Identities=21% Similarity=0.485 Sum_probs=9.7
Q ss_pred ecCCCCccccChhhHHHHHH
Q psy10072 15 KCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~ 34 (84)
.|+.|++.+ ....+..|..
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 466666665 3334444443
No 94
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=82.62 E-value=0.62 Score=22.56 Aligned_cols=31 Identities=32% Similarity=0.761 Sum_probs=19.0
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
..|.|+.|++.-.. +...|. |.|..|++.|.
T Consensus 34 ~ky~Cp~Cgk~~vk--------R~a~GI-W~C~~C~~~~A 64 (90)
T PF01780_consen 34 AKYTCPFCGKTSVK--------RVATGI-WKCKKCGKKFA 64 (90)
T ss_dssp S-BEESSSSSSEEE--------EEETTE-EEETTTTEEEE
T ss_pred CCCcCCCCCCceeE--------EeeeEE-eecCCCCCEEe
Confidence 35889999875211 112222 89999998774
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=82.44 E-value=0.8 Score=16.54 Aligned_cols=11 Identities=36% Similarity=1.083 Sum_probs=8.2
Q ss_pred CCCeecCCCCc
Q psy10072 11 EKPYKCTFCPF 21 (84)
Q Consensus 11 ~k~~~c~~C~~ 21 (84)
..+|.|+.||.
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 34788999874
No 96
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=82.28 E-value=0.92 Score=23.61 Aligned_cols=25 Identities=24% Similarity=0.453 Sum_probs=16.0
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGD 68 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~ 68 (84)
..|.+||+.|.. |.+|+..|++-.|
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred eEEccCCcccch---HHHHHHHccCCCH
Confidence 689999998875 4799999876554
No 97
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=82.28 E-value=0.55 Score=24.42 Aligned_cols=15 Identities=20% Similarity=0.259 Sum_probs=11.8
Q ss_pred CCeecCCCCccccCh
Q psy10072 12 KPYKCTFCPFTAAHS 26 (84)
Q Consensus 12 k~~~c~~C~~~f~~~ 26 (84)
..+.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 458999999887654
No 98
>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=80.98 E-value=1.1 Score=22.20 Aligned_cols=37 Identities=22% Similarity=0.300 Sum_probs=20.0
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCce--eeCCCCcc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLK--VKCPHCAY 48 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~--~~c~~C~~ 48 (84)
||-.|+.||..-.....-...-......+ |.|..|+.
T Consensus 1 ~p~~CpYCg~~~~l~~~~~iYg~~~~~~~~~y~C~~C~A 39 (102)
T PF11672_consen 1 KPIICPYCGGPAELVDGSEIYGHRYDDGPYLYVCTPCDA 39 (102)
T ss_pred CCcccCCCCCeeEEcccchhcCccCCCCceeEECCCCCc
Confidence 57789999975433322111111111223 89999875
No 99
>KOG3408|consensus
Probab=80.72 E-value=0.99 Score=23.11 Aligned_cols=22 Identities=32% Similarity=0.578 Sum_probs=20.2
Q ss_pred eeCCCCccccccchHHHHHHhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
|-|..|.+-|.....|..|.+.
T Consensus 58 fyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eehhhhhhhhcchHHHHHHHhc
Confidence 8999999999999999999764
No 100
>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=80.71 E-value=1.1 Score=17.04 Aligned_cols=25 Identities=24% Similarity=0.628 Sum_probs=10.9
Q ss_pred ecCCCCccccChhhHHHHHHhcCCceeeCCCCccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~ 49 (84)
.|+.|+..+.. ..+..+.|+.|+..
T Consensus 4 ~Cp~C~se~~y----------~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY----------EDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----E----------E-SSSEEETTTTEE
T ss_pred CCCCCCCccee----------ccCCEEeCCccccc
Confidence 57788766554 22333888888753
No 101
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=80.48 E-value=1.5 Score=16.96 Aligned_cols=25 Identities=24% Similarity=0.654 Sum_probs=13.6
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
|.|..|+..+.... +.+..|..||.
T Consensus 1 Y~C~~Cg~~~~~~~----------~~~irC~~CG~ 25 (32)
T PF03604_consen 1 YICGECGAEVELKP----------GDPIRCPECGH 25 (32)
T ss_dssp EBESSSSSSE-BST----------SSTSSBSSSS-
T ss_pred CCCCcCCCeeEcCC----------CCcEECCcCCC
Confidence 46777877654221 22267777774
No 102
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=79.11 E-value=1.5 Score=21.35 Aligned_cols=30 Identities=23% Similarity=0.584 Sum_probs=19.0
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
..|.|+.|++.-- . -.+.- |.|..|++.|.
T Consensus 34 a~y~CpfCgk~~v---------k-R~a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKTV---------K-RGSTGIWTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCce---------E-EEeeEEEEcCCCCCEEe
Confidence 3588999985310 1 11223 89999998775
No 103
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=79.02 E-value=2.5 Score=17.22 Aligned_cols=25 Identities=16% Similarity=0.367 Sum_probs=16.7
Q ss_pred CeecCCCCccccCh--hhHHHHHHhcC
Q psy10072 13 PYKCTFCPFTAAHS--STMSYHLRIHQ 37 (84)
Q Consensus 13 ~~~c~~C~~~f~~~--~~l~~h~~~~~ 37 (84)
.-.|+.||..|... .+-..|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 35899999877644 45566666553
No 104
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=78.45 E-value=1.2 Score=23.09 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=12.8
Q ss_pred CeecCCCCccccChh
Q psy10072 13 PYKCTFCPFTAAHSS 27 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~ 27 (84)
|+.|..||+.|...+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 689999999998754
No 105
>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=78.45 E-value=0.7 Score=17.35 Aligned_cols=9 Identities=22% Similarity=0.475 Sum_probs=4.3
Q ss_pred ecCCCCccc
Q psy10072 15 KCTFCPFTA 23 (84)
Q Consensus 15 ~c~~C~~~f 23 (84)
.|..|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 344455554
No 106
>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=77.88 E-value=1 Score=25.35 Aligned_cols=27 Identities=22% Similarity=0.388 Sum_probs=20.7
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPG 67 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~ 67 (84)
|.|..|+|.|.-......|+..-|.+.
T Consensus 78 ~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 78 WRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp EEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred ECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 999999999999999999998655443
No 107
>PHA00626 hypothetical protein
Probab=77.88 E-value=1.6 Score=19.20 Aligned_cols=16 Identities=19% Similarity=0.644 Sum_probs=12.0
Q ss_pred CCeecCCCCccccChh
Q psy10072 12 KPYKCTFCPFTAAHSS 27 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~ 27 (84)
..|.|+.|+..|+...
T Consensus 22 nrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 22 DDYVCCDCGYNDSKDA 37 (59)
T ss_pred cceEcCCCCCeechhh
Confidence 4689999988876543
No 108
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=76.79 E-value=1.6 Score=22.03 Aligned_cols=25 Identities=24% Similarity=0.492 Sum_probs=15.5
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
...|..|+..|.... ..+.|+.|+.
T Consensus 70 ~~~C~~Cg~~~~~~~-----------~~~~CP~Cgs 94 (113)
T PRK12380 70 QAWCWDCSQVVEIHQ-----------HDAQCPHCHG 94 (113)
T ss_pred EEEcccCCCEEecCC-----------cCccCcCCCC
Confidence 367888886664432 1156888874
No 109
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=76.72 E-value=1.3 Score=18.99 Aligned_cols=17 Identities=18% Similarity=0.413 Sum_probs=12.3
Q ss_pred CCCeecCCCCccccChh
Q psy10072 11 EKPYKCTFCPFTAAHSS 27 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~ 27 (84)
.+++.|..||..|....
T Consensus 2 Dk~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTA 18 (49)
T ss_pred CeeEEcccCCCeEEEeh
Confidence 45678888888776554
No 110
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=76.67 E-value=5.8 Score=21.55 Aligned_cols=44 Identities=16% Similarity=0.328 Sum_probs=25.0
Q ss_pred eecCCCCccccChh--hHHHHHH--h-cCCce-eeCCCCccccccchHHH
Q psy10072 14 YKCTFCPFTAAHSS--TMSYHLR--I-HQDLK-VKCPHCAYKCVKQKDLN 57 (84)
Q Consensus 14 ~~c~~C~~~f~~~~--~l~~h~~--~-~~~~~-~~c~~C~~~f~~~~~l~ 57 (84)
-.|++|+......+ ....-+. . -.... +.|+.|++.|.-.+++.
T Consensus 98 ~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~GsHw~ 147 (165)
T COG1656 98 SRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCPKCGKIYWKGSHWR 147 (165)
T ss_pred ccCcccCCEeccCcHHHHhhccchhhhhcccceeECCCCcccccCchHHH
Confidence 57999997654332 2111111 1 11223 68999999998765543
No 111
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=76.52 E-value=2.2 Score=18.30 Aligned_cols=27 Identities=30% Similarity=0.776 Sum_probs=17.4
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
..|.|-.||+.|... .... ..|+.|+.
T Consensus 5 ~~Y~C~~Cg~~~~~~----------~~~~~irCp~Cg~ 32 (49)
T COG1996 5 MEYKCARCGREVELD----------QETRGIRCPYCGS 32 (49)
T ss_pred EEEEhhhcCCeeehh----------hccCceeCCCCCc
Confidence 358899999887211 1223 68888875
No 112
>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=76.47 E-value=1.4 Score=17.98 Aligned_cols=29 Identities=28% Similarity=0.684 Sum_probs=19.6
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
|.|..||..|...... .......|+.|+.
T Consensus 6 y~C~~Cg~~fe~~~~~------~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSI------SEDDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEc------CCCCCCcCCCCCC
Confidence 7899999888765432 1122278888886
No 113
>KOG4167|consensus
Probab=76.43 E-value=0.45 Score=31.46 Aligned_cols=26 Identities=15% Similarity=0.360 Sum_probs=22.7
Q ss_pred CeecCCCCccccChhhHHHHHHhcCC
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQD 38 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~ 38 (84)
.|.|++|++.|.--..+..|++.|..
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 58999999999888889999988764
No 114
>PHA02998 RNA polymerase subunit; Provisional
Probab=76.41 E-value=0.9 Score=24.86 Aligned_cols=39 Identities=15% Similarity=0.297 Sum_probs=22.6
Q ss_pred CeecCCCCccccChhhHHHHHHhcC-C-ce-eeCCCCccccccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQ-D-LK-VKCPHCAYKCVKQ 53 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~-~-~~-~~c~~C~~~f~~~ 53 (84)
.-.|+.|+..-.....+ +++..- + .. |.|..|+..|.-+
T Consensus 143 ~v~CPkCg~~~A~f~ql--QTRSADEPmT~FYkC~~CG~~wkpp 184 (195)
T PHA02998 143 NTPCPNCKSKNTTPMMI--QTRAADEPPLVRHACRDCKKHFKPP 184 (195)
T ss_pred CCCCCCCCCCceEEEEE--eeccCCCCceEEEEcCCCCCccCCc
Confidence 45789998653333222 233221 2 23 7999999887644
No 115
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=75.89 E-value=2.8 Score=20.35 Aligned_cols=30 Identities=27% Similarity=0.624 Sum_probs=19.1
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
..|.|+.|++.-- . -.+.- |.|..|++.|.
T Consensus 35 a~y~CpfCgk~~v---------k-R~a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 35 AKYFCPFCGKHAV---------K-RQAVGIWRCKGCKKTVA 65 (90)
T ss_pred CCccCCCCCCCce---------e-eeeeEEEEcCCCCCEEe
Confidence 4688999985311 1 11223 89999998775
No 116
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=75.34 E-value=4.7 Score=16.21 Aligned_cols=21 Identities=24% Similarity=0.539 Sum_probs=14.4
Q ss_pred Cce-eeCCCCccccccchHHHH
Q psy10072 38 DLK-VKCPHCAYKCVKQKDLNT 58 (84)
Q Consensus 38 ~~~-~~c~~C~~~f~~~~~l~~ 58 (84)
+.. ..|..|+-.+.....|.+
T Consensus 16 ~~~id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 16 DVEIDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred CEEEEECCCCCeEEccHHHHHH
Confidence 344 788888877776666554
No 117
>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=75.21 E-value=0.89 Score=18.57 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=6.5
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
+-.|+.|+..|
T Consensus 29 ~~~CpYCg~~y 39 (40)
T PF10276_consen 29 PVVCPYCGTRY 39 (40)
T ss_dssp EEEETTTTEEE
T ss_pred eEECCCCCCEE
Confidence 45666666554
No 118
>KOG1280|consensus
Probab=74.11 E-value=4.1 Score=24.80 Aligned_cols=38 Identities=24% Similarity=0.641 Sum_probs=27.8
Q ss_pred CCCeecCCCCccccChhhHHHHHHh-cCCce--eeCCCCcc
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRI-HQDLK--VKCPHCAY 48 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~-~~~~~--~~c~~C~~ 48 (84)
..-|.|+.|+++-.+...+..|+.. |.... ..|+.|..
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~ 117 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA 117 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeecccc
Confidence 3468999999988888888888764 55433 57777764
No 119
>KOG2907|consensus
Probab=73.89 E-value=3.1 Score=21.10 Aligned_cols=37 Identities=30% Similarity=0.626 Sum_probs=21.1
Q ss_pred CeecCCCCccccChhhHHHHHHh-cCCce--eeCCCCccccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRI-HQDLK--VKCPHCAYKCV 51 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~-~~~~~--~~c~~C~~~f~ 51 (84)
-..|+.||-.--.-..+ .++. ..|.. |.|+.|++.|.
T Consensus 74 ~~kCpkCghe~m~Y~T~--QlRSADEGQTVFYTC~kC~~k~~ 113 (116)
T KOG2907|consen 74 KHKCPKCGHEEMSYHTL--QLRSADEGQTVFYTCPKCKYKFT 113 (116)
T ss_pred hccCcccCCchhhhhhh--hcccccCCceEEEEcCccceeee
Confidence 35788888532111111 2333 34555 79999998775
No 120
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=73.78 E-value=2.2 Score=21.56 Aligned_cols=25 Identities=20% Similarity=0.526 Sum_probs=15.9
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
...|..|+..|..... .+.|+.|+.
T Consensus 70 ~~~C~~Cg~~~~~~~~-----------~~~CP~Cgs 94 (115)
T TIGR00100 70 ECECEDCSEEVSPEID-----------LYRCPKCHG 94 (115)
T ss_pred EEEcccCCCEEecCCc-----------CccCcCCcC
Confidence 4678888876654321 257888874
No 121
>KOG2785|consensus
Probab=73.76 E-value=15 Score=22.80 Aligned_cols=60 Identities=17% Similarity=0.284 Sum_probs=41.5
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCc-----------------------e-eeCCCCc---cccccchHHHHHHhh-h
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDL-----------------------K-VKCPHCA---YKCVKQKDLNTHIER-R 63 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~-----------------------~-~~c~~C~---~~f~~~~~l~~H~~~-~ 63 (84)
.|-.|-.|++.+.....-..||..+.+- . +.|..|. +.|........||.. .
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K~ 244 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDKG 244 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhcc
Confidence 4556777888877776666777543221 2 6788887 899999999999974 4
Q ss_pred CCCCChhh
Q psy10072 64 HMPGDVLG 71 (84)
Q Consensus 64 ~~~~~~~~ 71 (84)
|..-+|-.
T Consensus 245 HCkl~yd~ 252 (390)
T KOG2785|consen 245 HCKLPYDG 252 (390)
T ss_pred CcccCCCh
Confidence 55556633
No 122
>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....
Probab=73.76 E-value=0.7 Score=24.16 Aligned_cols=21 Identities=29% Similarity=0.526 Sum_probs=13.9
Q ss_pred hhhhcCCCCeecCCCCccccCh
Q psy10072 5 IRTHTGEKPYKCTFCPFTAAHS 26 (84)
Q Consensus 5 ~~~h~~~k~~~c~~C~~~f~~~ 26 (84)
+..+.| +|.+|++||..|...
T Consensus 105 ~~l~~g-~~~RCpeCG~~fkL~ 125 (136)
T PF01215_consen 105 FWLHKG-KPQRCPECGQVFKLK 125 (136)
T ss_dssp EEEETT-SEEEETTTEEEEEEE
T ss_pred EEEeCC-CccCCCCCCeEEEEE
Confidence 344555 477888888877654
No 123
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=72.34 E-value=4.1 Score=17.43 Aligned_cols=11 Identities=27% Similarity=0.773 Sum_probs=8.4
Q ss_pred eeCCCCccccc
Q psy10072 41 VKCPHCAYKCV 51 (84)
Q Consensus 41 ~~c~~C~~~f~ 51 (84)
+.|..|+..+.
T Consensus 38 ~~C~~Cgyt~~ 48 (50)
T PRK00432 38 WHCGKCGYTEF 48 (50)
T ss_pred EECCCcCCEEe
Confidence 88999987543
No 124
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.90 E-value=1.5 Score=19.70 Aligned_cols=45 Identities=22% Similarity=0.366 Sum_probs=28.0
Q ss_pred hhhhhcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcccccc
Q psy10072 4 HIRTHTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVK 52 (84)
Q Consensus 4 h~~~h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~ 52 (84)
|..++.+..++.|+--+..|..+.-+. .. .... ..|+.|+..|+.
T Consensus 15 ~~~I~~~~~~l~C~g~~~p~~HPrV~L---~m-g~~gev~CPYC~t~y~l 60 (62)
T COG4391 15 HETIEIGDLPLMCPGPEPPNDHPRVFL---DM-GDEGEVVCPYCSTRYRL 60 (62)
T ss_pred ceEEEeCCeeEEcCCCCCCCCCCEEEE---Ec-CCCCcEecCccccEEEe
Confidence 445677888889987666555443211 11 1223 799999998864
No 125
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=71.83 E-value=2.8 Score=16.88 Aligned_cols=14 Identities=21% Similarity=0.486 Sum_probs=10.8
Q ss_pred CeecCCCCccccCh
Q psy10072 13 PYKCTFCPFTAAHS 26 (84)
Q Consensus 13 ~~~c~~C~~~f~~~ 26 (84)
|+.|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78888888887554
No 126
>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=71.55 E-value=4.7 Score=18.03 Aligned_cols=27 Identities=15% Similarity=0.380 Sum_probs=11.8
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
-.|..|++.|... ..++.|..||..|-
T Consensus 10 ~~C~~C~~~F~~~-----------~rrhhCr~CG~~vC 36 (69)
T PF01363_consen 10 SNCMICGKKFSLF-----------RRRHHCRNCGRVVC 36 (69)
T ss_dssp SB-TTT--B-BSS-----------S-EEE-TTT--EEE
T ss_pred CcCcCcCCcCCCc-----------eeeEccCCCCCEEC
Confidence 4688899888431 22377777777664
No 127
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=71.18 E-value=3.2 Score=16.90 Aligned_cols=29 Identities=21% Similarity=0.504 Sum_probs=16.4
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
+.|+.|+.... ....... +.|..||....
T Consensus 1 m~Cp~Cg~~~~---------~~D~~~g~~vC~~CG~Vl~ 30 (43)
T PF08271_consen 1 MKCPNCGSKEI---------VFDPERGELVCPNCGLVLE 30 (43)
T ss_dssp ESBTTTSSSEE---------EEETTTTEEEETTT-BBEE
T ss_pred CCCcCCcCCce---------EEcCCCCeEECCCCCCEee
Confidence 46888886541 1122223 78999987543
No 128
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=70.97 E-value=2.2 Score=18.81 Aligned_cols=36 Identities=19% Similarity=0.364 Sum_probs=20.6
Q ss_pred eecCCCCccccChhh--HHHHHHhcCCceeeCCCCccc
Q psy10072 14 YKCTFCPFTAAHSST--MSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~--l~~h~~~~~~~~~~c~~C~~~ 49 (84)
-.|..|++.+.-... ..+.++...-..|.|..|...
T Consensus 3 vkC~lCdk~~~Id~~~~~aKrLrnrPi~tYmC~eC~~R 40 (56)
T PF09963_consen 3 VKCILCDKKEEIDEDTPEAKRLRNRPIHTYMCDECKER 40 (56)
T ss_pred eEEEecCCEEEeccCCHHHHHhhcCCCcceeChhHHHH
Confidence 368888887664433 333333332222999998643
No 129
>KOG2482|consensus
Probab=70.52 E-value=2.7 Score=25.60 Aligned_cols=22 Identities=18% Similarity=0.532 Sum_probs=20.5
Q ss_pred eeCCCCccccccchHHHHHHhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
+.|..|.+.|+....|..||+.
T Consensus 196 ~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred heeeeeccccCCcHHHHHHHHh
Confidence 6899999999999999999985
No 130
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=70.25 E-value=3.5 Score=21.62 Aligned_cols=26 Identities=15% Similarity=0.105 Sum_probs=20.2
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCCh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGDV 69 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~~ 69 (84)
..|.++|+.|. +|++|+.+|.+-.|.
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~gmTPd 102 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYGLTPD 102 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccCCCHH
Confidence 47888999887 578999888776653
No 131
>PF10537 WAC_Acf1_DNA_bd: ATP-utilising chromatin assembly and remodelling N-terminal; InterPro: IPR013136 ACF (for ATP-utilising chromatin assembly and remodeling factor) is a chromatin-remodeling complex that catalyzes the ATP-dependent assembly of periodic nucleosome arrays. This reaction utilises the energy of ATP hydrolysis by ISWI, the smaller of the two subunits of ACF. Acf1, the large subunit of ACF, is essential for the full activity of the complex. The WAC (WSTF/Acf1/cbp146) domain is an ~110-residue module present at the N-termini of Acf1-related proteins in a variety of organisms. It is found in association with other domains such as the bromodomain, the PHD-type zinc finger, DDT or WAKS. The DNA-binding region of Acf1 includes the WAC domain, which is necessary for the efficient binding of ACF complex to DNA. It seems probable that the WAC domain will be involved in DNA binding in other related factors [, ]. Some proteins known to contain a WAC domain are the Drosophila melanogaster (Fruit fly) ATP-dependent chromatin assembly factor large subunit Acf1, human WSTF (Williams syndrome transcription factor), mouse cbp146, yeast imitation switch two complex protein 1 (ITC1 or YGL133w), and yeast protein YPL216w.
Probab=70.23 E-value=12 Score=18.68 Aligned_cols=37 Identities=5% Similarity=-0.028 Sum_probs=29.0
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
..|.|+.-+..|.+-......+.......|.|...|+
T Consensus 2 eVf~i~~T~EiF~dYe~Y~~R~~~y~~~vwtC~~TGk 38 (102)
T PF10537_consen 2 EVFYIPFTGEIFRDYEEYLKRMILYNQRVWTCEITGK 38 (102)
T ss_pred ceEEeCCCCcccCCHHHHHHHHHHHhCCeeEEecCCC
Confidence 4578888888998888777777766655599998886
No 132
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=70.23 E-value=2.9 Score=21.20 Aligned_cols=25 Identities=16% Similarity=0.433 Sum_probs=15.7
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
...|..|+..|..... . +.|+.|+.
T Consensus 71 ~~~C~~Cg~~~~~~~~-----------~~~~CP~Cgs 96 (117)
T PRK00564 71 ELECKDCSHVFKPNAL-----------DYGVCEKCHS 96 (117)
T ss_pred EEEhhhCCCccccCCc-----------cCCcCcCCCC
Confidence 4678888876654321 2 35888874
No 133
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=69.16 E-value=4.2 Score=25.78 Aligned_cols=26 Identities=15% Similarity=0.324 Sum_probs=22.0
Q ss_pred CeecCCCCccccChhhHHHHHHh-cCC
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRI-HQD 38 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~-~~~ 38 (84)
-|.|+.|.+.|.....+..|+.. |.+
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 47899999999999999999874 554
No 134
>PRK04351 hypothetical protein; Provisional
Probab=68.55 E-value=4.5 Score=21.51 Aligned_cols=10 Identities=20% Similarity=0.750 Sum_probs=4.9
Q ss_pred eeCCCCcccc
Q psy10072 41 VKCPHCAYKC 50 (84)
Q Consensus 41 ~~c~~C~~~f 50 (84)
|.|..|+..+
T Consensus 113 Y~C~~Cg~~~ 122 (149)
T PRK04351 113 YECQSCGQQY 122 (149)
T ss_pred EECCCCCCEe
Confidence 4555555433
No 135
>KOG1146|consensus
Probab=67.63 E-value=2 Score=30.51 Aligned_cols=52 Identities=19% Similarity=0.414 Sum_probs=40.5
Q ss_pred CCCeecCCCCccccChhhHHHHHHhc-----------------CCceeeCCCCccccccchHHHHHHhh
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIH-----------------QDLKVKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~-----------------~~~~~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
..+|.|..|...|.....+..|.+.- ....+.|..|...|.....|..|++.
T Consensus 1282 ~~~~~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~c~~c~~~~~~~~alqihm~~ 1350 (1406)
T KOG1146|consen 1282 THRYLCRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYHCLACEVLLSGREALQIHMRS 1350 (1406)
T ss_pred chhHHHHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCccccccchHHHhhcchhHHHHHHHHH
Confidence 35688999999999888888887521 11233399999999999999999986
No 136
>KOG0696|consensus
Probab=67.52 E-value=5.1 Score=25.52 Aligned_cols=57 Identities=16% Similarity=0.285 Sum_probs=35.2
Q ss_pred CCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccchHHHHHHh-hhCCCCChhhhHH
Q psy10072 10 GEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQKDLNTHIE-RRHMPGDVLGHIQ 74 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~~~l~~H~~-~~~~~~~~~~~~~ 74 (84)
|..-++|.+|. +..|.+-|.-..|.|+--++.+...+....|.. .|+-..|.-|.-+
T Consensus 70 gKQGfQCqvC~--------fvvHkrChefVtF~CPGadkg~dtDdpr~kHkf~~~tYssPTFCDhC 127 (683)
T KOG0696|consen 70 GKQGFQCQVCC--------FVVHKRCHEFVTFSCPGADKGPDTDDPRSKHKFKIHTYSSPTFCDHC 127 (683)
T ss_pred ccCceeeeEEe--------ehhhhhhcceEEEECCCCCCCCCCCCcccccceeeeecCCCchhhhH
Confidence 34456666663 456777666666888877777776666666643 3555555555443
No 137
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=67.32 E-value=2.8 Score=21.21 Aligned_cols=36 Identities=25% Similarity=0.488 Sum_probs=19.0
Q ss_pred eecCCCCccccChhhHHHHHHh-cCC-ce-eeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRI-HQD-LK-VKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~-~~~-~~-~~c~~C~~~f~ 51 (84)
..|+.|+..=..- ...+.+. ..+ .. |.|..|+..++
T Consensus 73 ~~CpkCg~~ea~y--~~~QtRsaDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYY--WQLQTRSADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEE--EeeehhccCCCceEEEEecccCCEee
Confidence 4577777532222 2222332 222 33 79999997764
No 138
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=66.61 E-value=9.9 Score=16.33 Aligned_cols=40 Identities=23% Similarity=0.419 Sum_probs=21.7
Q ss_pred CCCeecCC--CCccccChhhHHHHHHhcCC-ceeeCCC----Cccccc
Q psy10072 11 EKPYKCTF--CPFTAAHSSTMSYHLRIHQD-LKVKCPH----CAYKCV 51 (84)
Q Consensus 11 ~k~~~c~~--C~~~f~~~~~l~~h~~~~~~-~~~~c~~----C~~~f~ 51 (84)
..+..|+. |...+. ...|..|....-. ....|.. |...+.
T Consensus 7 ~~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 7 FRPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp TSEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CCEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 34667877 444444 4578889884333 3478888 776554
No 139
>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=66.55 E-value=1.5 Score=23.19 Aligned_cols=33 Identities=27% Similarity=0.600 Sum_probs=19.1
Q ss_pred hhcCCC----CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 7 THTGEK----PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 7 ~h~~~k----~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
-++|++ .+.|..||..... .+++.-..|+.|+.
T Consensus 102 Y~sGE~~g~G~l~C~~Cg~~~~~---------~~~~~l~~Cp~C~~ 138 (146)
T PF07295_consen 102 YHSGEVVGPGTLVCENCGHEVEL---------THPERLPPCPKCGH 138 (146)
T ss_pred eecCcEecCceEecccCCCEEEe---------cCCCcCCCCCCCCC
Confidence 345554 4888889864321 12222268888875
No 140
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=66.18 E-value=3.7 Score=22.28 Aligned_cols=8 Identities=25% Similarity=0.924 Sum_probs=4.8
Q ss_pred CeecCCCC
Q psy10072 13 PYKCTFCP 20 (84)
Q Consensus 13 ~~~c~~C~ 20 (84)
.|.|++||
T Consensus 134 ~~vC~vCG 141 (166)
T COG1592 134 VWVCPVCG 141 (166)
T ss_pred EEEcCCCC
Confidence 46666665
No 141
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=66.14 E-value=3.2 Score=20.65 Aligned_cols=15 Identities=33% Similarity=0.536 Sum_probs=12.5
Q ss_pred CeecCCCCccccChh
Q psy10072 13 PYKCTFCPFTAAHSS 27 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~ 27 (84)
|+.|..||..|..-+
T Consensus 2 pH~CtrCG~vf~~g~ 16 (112)
T COG3364 2 PHQCTRCGEVFDDGS 16 (112)
T ss_pred Cceeccccccccccc
Confidence 789999999998753
No 142
>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=65.73 E-value=5.2 Score=21.04 Aligned_cols=46 Identities=13% Similarity=0.179 Sum_probs=26.8
Q ss_pred CeecCCCCccccChhh--HHHHHHh---cCCce-eeCCCCccccccchHHHH
Q psy10072 13 PYKCTFCPFTAAHSST--MSYHLRI---HQDLK-VKCPHCAYKCVKQKDLNT 58 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~--l~~h~~~---~~~~~-~~c~~C~~~f~~~~~l~~ 58 (84)
...|..|+..+...+. ...-+.. ..... +.|+.|++.|..-+.+..
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~~~ 142 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHWRR 142 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEecccccHHH
Confidence 3679999986543321 1111111 11233 799999999987765543
No 143
>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=65.58 E-value=2.5 Score=17.29 Aligned_cols=15 Identities=27% Similarity=0.662 Sum_probs=8.5
Q ss_pred CCeecCCCCccccCh
Q psy10072 12 KPYKCTFCPFTAAHS 26 (84)
Q Consensus 12 k~~~c~~C~~~f~~~ 26 (84)
.|+.|+.|++.|-..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 477888888877543
No 144
>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=65.43 E-value=2.6 Score=18.12 Aligned_cols=12 Identities=17% Similarity=0.465 Sum_probs=6.1
Q ss_pred ecCCCCccccCh
Q psy10072 15 KCTFCPFTAAHS 26 (84)
Q Consensus 15 ~c~~C~~~f~~~ 26 (84)
.|+.|++.|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 889998887654
No 145
>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=65.07 E-value=5.8 Score=16.40 Aligned_cols=26 Identities=19% Similarity=0.550 Sum_probs=14.4
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
+.|+.|+.. ....+. ... |+|..|.+
T Consensus 19 ~~CP~Cg~~--~~~~~~-------~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST--KHYRLK-------TRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe--eeEEeC-------CCCeEECCCCCC
Confidence 568888864 111111 133 88888864
No 146
>KOG2071|consensus
Probab=64.58 E-value=5.5 Score=25.93 Aligned_cols=27 Identities=30% Similarity=0.604 Sum_probs=21.9
Q ss_pred CCCeecCCCCccccChhhHHHHHHhcC
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIHQ 37 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~~ 37 (84)
..|-.|..||..|........|+..|.
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 356889999999999988887777654
No 147
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=64.24 E-value=6.7 Score=22.86 Aligned_cols=11 Identities=27% Similarity=0.821 Sum_probs=9.0
Q ss_pred eeCCCCccccc
Q psy10072 41 VKCPHCAYKCV 51 (84)
Q Consensus 41 ~~c~~C~~~f~ 51 (84)
|.|+.|+..|.
T Consensus 156 f~C~~C~h~F~ 166 (278)
T PF15135_consen 156 FHCPKCRHNFR 166 (278)
T ss_pred eecccccccch
Confidence 78888888776
No 148
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=64.14 E-value=2.3 Score=21.05 Aligned_cols=37 Identities=19% Similarity=0.460 Sum_probs=21.8
Q ss_pred CCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
.+.|.|+.|+..-.....+. .-...- ..|..|+..|.
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 45689999996543332211 111122 68999998775
No 149
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=63.84 E-value=3.4 Score=20.85 Aligned_cols=25 Identities=20% Similarity=0.514 Sum_probs=15.2
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
...|..|+..|.... .. +.|+.|+.
T Consensus 70 ~~~C~~Cg~~~~~~~-----------~~~~~CP~Cgs 95 (114)
T PRK03681 70 ECWCETCQQYVTLLT-----------QRVRRCPQCHG 95 (114)
T ss_pred EEEcccCCCeeecCC-----------ccCCcCcCcCC
Confidence 467888886554321 11 56888874
No 150
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=63.74 E-value=2 Score=21.09 Aligned_cols=11 Identities=36% Similarity=0.890 Sum_probs=7.2
Q ss_pred eeCCCCccccc
Q psy10072 41 VKCPHCAYKCV 51 (84)
Q Consensus 41 ~~c~~C~~~f~ 51 (84)
|.|..|+..++
T Consensus 91 y~C~~C~~~w~ 101 (104)
T TIGR01384 91 YKCTKCGYVWR 101 (104)
T ss_pred EEeCCCCCeeE
Confidence 67777776543
No 151
>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=63.31 E-value=2.4 Score=16.87 Aligned_cols=29 Identities=17% Similarity=0.441 Sum_probs=15.6
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCC
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHC 46 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C 46 (84)
..|+.|...- .+.+|-....|.. |.|..|
T Consensus 6 v~CP~C~s~~----~v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQSTE----GVKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCC----cceeCCCCCCCCEeEecCcC
Confidence 4577776431 1334444445555 777766
No 152
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=62.94 E-value=4 Score=20.51 Aligned_cols=25 Identities=20% Similarity=0.514 Sum_probs=13.8
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~ 49 (84)
..|..|+..|...... +.|+.|+..
T Consensus 71 ~~C~~Cg~~~~~~~~~-----------~~CP~Cgs~ 95 (113)
T PF01155_consen 71 ARCRDCGHEFEPDEFD-----------FSCPRCGSP 95 (113)
T ss_dssp EEETTTS-EEECHHCC-----------HH-SSSSSS
T ss_pred EECCCCCCEEecCCCC-----------CCCcCCcCC
Confidence 6688888777554321 347777653
No 153
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=62.41 E-value=6.5 Score=21.11 Aligned_cols=7 Identities=29% Similarity=1.146 Sum_probs=3.7
Q ss_pred eeCCCCc
Q psy10072 41 VKCPHCA 47 (84)
Q Consensus 41 ~~c~~C~ 47 (84)
|.|..|+
T Consensus 141 YrC~~C~ 147 (156)
T COG3091 141 YRCGKCG 147 (156)
T ss_pred EEeccCC
Confidence 5555554
No 154
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=62.40 E-value=6 Score=15.76 Aligned_cols=15 Identities=20% Similarity=0.160 Sum_probs=8.8
Q ss_pred eecCCCCccccChhh
Q psy10072 14 YKCTFCPFTAAHSST 28 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~ 28 (84)
-.|+.|++.|.+...
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 358888888876654
No 155
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=61.77 E-value=4.7 Score=23.12 Aligned_cols=16 Identities=19% Similarity=0.258 Sum_probs=12.7
Q ss_pred CCCeecCCCCccccCh
Q psy10072 11 EKPYKCTFCPFTAAHS 26 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~ 26 (84)
.++.+|.+||..|...
T Consensus 179 GkpqRCpECGqVFKLV 194 (268)
T PTZ00043 179 GFLYRCGECDQIFMLV 194 (268)
T ss_pred CCCccCCCCCcEEEEE
Confidence 3588999999888653
No 156
>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=61.10 E-value=4.7 Score=16.68 Aligned_cols=13 Identities=15% Similarity=0.355 Sum_probs=10.1
Q ss_pred ecCCCCccccChh
Q psy10072 15 KCTFCPFTAAHSS 27 (84)
Q Consensus 15 ~c~~C~~~f~~~~ 27 (84)
.|..|++.|....
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 4889999987653
No 157
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=60.59 E-value=4.4 Score=19.75 Aligned_cols=14 Identities=29% Similarity=0.795 Sum_probs=11.6
Q ss_pred CCeecCCCCccccC
Q psy10072 12 KPYKCTFCPFTAAH 25 (84)
Q Consensus 12 k~~~c~~C~~~f~~ 25 (84)
+|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 67899999988865
No 158
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=60.58 E-value=11 Score=16.56 Aligned_cols=26 Identities=27% Similarity=0.609 Sum_probs=15.1
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCcccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKC 50 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f 50 (84)
..|..|++.|..... ...|+.|+..+
T Consensus 6 ~~C~~Cg~~~~~~dD-----------iVvCp~Cgapy 31 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDD-----------IVVCPECGAPY 31 (54)
T ss_pred ccChhhCCcccCCCC-----------EEECCCCCCcc
Confidence 367788877643321 15677776544
No 159
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=60.45 E-value=5.1 Score=20.75 Aligned_cols=16 Identities=31% Similarity=0.561 Sum_probs=12.1
Q ss_pred CCCeecCCCCccccCh
Q psy10072 11 EKPYKCTFCPFTAAHS 26 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~ 26 (84)
...|.|+.|++.|...
T Consensus 51 ~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 51 HQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccCCcCcceeee
Confidence 4568888888888755
No 160
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=60.30 E-value=20 Score=20.16 Aligned_cols=35 Identities=17% Similarity=0.388 Sum_probs=20.3
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
.+.|+.|+ .-.....+ ++.-.... ..|..||..+.
T Consensus 6 y~~Cp~Cg-~eev~hEV---ik~~g~~~lvrC~eCG~V~~ 41 (201)
T COG1326 6 YIECPSCG-SEEVSHEV---IKERGREPLVRCEECGTVHP 41 (201)
T ss_pred EEECCCCC-cchhhHHH---HHhcCCceEEEccCCCcEee
Confidence 46899998 22111111 22223345 89999998773
No 161
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=60.29 E-value=11 Score=16.27 Aligned_cols=26 Identities=27% Similarity=0.554 Sum_probs=15.1
Q ss_pred ecCCCCccccChhhHHHHHHhcCCceeeCCCCccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~ 49 (84)
.|+.||... .+..| ...+.|..|+..
T Consensus 21 ~CPrCG~gv----fmA~H-----~dR~~CGkCgyT 46 (51)
T COG1998 21 FCPRCGPGV----FMADH-----KDRWACGKCGYT 46 (51)
T ss_pred cCCCCCCcc----hhhhc-----CceeEeccccce
Confidence 588888521 22222 224888888864
No 162
>KOG2071|consensus
Probab=59.62 E-value=6.2 Score=25.72 Aligned_cols=24 Identities=13% Similarity=0.476 Sum_probs=20.7
Q ss_pred eeCCCCccccccchHHHHHHhhhC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
-+|..||..|.+......||..|-
T Consensus 419 nqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 419 NQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred chhcccccccccchhhhhHhhhhh
Confidence 589999999999988888887664
No 163
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=59.57 E-value=8.7 Score=24.47 Aligned_cols=24 Identities=29% Similarity=0.638 Sum_probs=21.2
Q ss_pred eeCCCCccccccchHHHHHHhhhC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
|.|+.|.+.|.....+..|+..-|
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH 81 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEH 81 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhh
Confidence 699999999999999999998533
No 164
>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=59.19 E-value=12 Score=16.67 Aligned_cols=12 Identities=25% Similarity=1.046 Sum_probs=9.2
Q ss_pred eeCCCCcccccc
Q psy10072 41 VKCPHCAYKCVK 52 (84)
Q Consensus 41 ~~c~~C~~~f~~ 52 (84)
|.|+.|+.....
T Consensus 47 ~~C~~Cg~~~~r 58 (69)
T PF07282_consen 47 FTCPNCGFEMDR 58 (69)
T ss_pred EEcCCCCCEECc
Confidence 899999876543
No 165
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=58.64 E-value=6.7 Score=19.43 Aligned_cols=34 Identities=18% Similarity=0.485 Sum_probs=20.7
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcccccc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVK 52 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~ 52 (84)
..+.|+.|+. ....-.+. .+.. ..|..|+..+..
T Consensus 20 t~f~CP~Cge-~~v~v~~~------k~~~h~~C~~CG~y~~~ 54 (99)
T PRK14892 20 KIFECPRCGK-VSISVKIK------KNIAIITCGNCGLYTEF 54 (99)
T ss_pred cEeECCCCCC-eEeeeecC------CCcceEECCCCCCccCE
Confidence 4588999993 22221211 1444 799999986653
No 166
>KOG4118|consensus
Probab=57.78 E-value=6.1 Score=18.01 Aligned_cols=31 Identities=23% Similarity=0.425 Sum_probs=24.4
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCChhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGDVLG 71 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~~ 71 (84)
+.|.+|.........+..|...-+...|++.
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~~~P~ 69 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKEPLPE 69 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCCCCCH
Confidence 7899998888888888888877666666654
No 167
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=57.29 E-value=2.7 Score=17.88 Aligned_cols=7 Identities=43% Similarity=1.450 Sum_probs=1.9
Q ss_pred eecCCCC
Q psy10072 14 YKCTFCP 20 (84)
Q Consensus 14 ~~c~~C~ 20 (84)
|.|+.|+
T Consensus 42 W~CPiC~ 48 (50)
T PF02891_consen 42 WKCPICN 48 (50)
T ss_dssp -B-TTT-
T ss_pred eECcCCc
Confidence 4444443
No 168
>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=56.74 E-value=10 Score=19.14 Aligned_cols=28 Identities=21% Similarity=0.573 Sum_probs=18.3
Q ss_pred ecCCCCccccChhhHHHHHHhcCCceeeCCCCcccccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVK 52 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~ 52 (84)
.|+.|...|.+.. +..|.|+.|+.....
T Consensus 4 ~CP~C~seytY~d----------g~~~iCpeC~~EW~~ 31 (109)
T TIGR00686 4 PCPKCNSEYTYHD----------GTQLICPSCLYEWNE 31 (109)
T ss_pred cCCcCCCcceEec----------CCeeECccccccccc
Confidence 6888876665432 333888888876553
No 169
>COG1773 Rubredoxin [Energy production and conversion]
Probab=56.34 E-value=5.9 Score=17.41 Aligned_cols=37 Identities=22% Similarity=0.499 Sum_probs=20.8
Q ss_pred CCeecCCCCccccChhhHHHHHHh----cCCce--eeCCCCcc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRI----HQDLK--VKCPHCAY 48 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~----~~~~~--~~c~~C~~ 48 (84)
+.|+|..||-.|.-...-...-.. ....+ +.|+.|+.
T Consensus 2 ~~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 2 KRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGV 44 (55)
T ss_pred CceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCC
Confidence 358999999877654322211110 01122 78999984
No 170
>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=56.29 E-value=9.5 Score=19.98 Aligned_cols=11 Identities=27% Similarity=0.664 Sum_probs=6.5
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
.|.|..|+..+
T Consensus 123 ~~~C~~C~~~~ 133 (157)
T PF10263_consen 123 VYRCPSCGREY 133 (157)
T ss_pred EEEcCCCCCEe
Confidence 35666666554
No 171
>KOG1994|consensus
Probab=55.57 E-value=5.4 Score=22.90 Aligned_cols=21 Identities=29% Similarity=0.504 Sum_probs=18.9
Q ss_pred eeCCCCccccccchHHHHHHh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~ 61 (84)
|-|..||..|.....|..|-.
T Consensus 240 ~YC~fCG~~y~~~edl~ehCP 260 (268)
T KOG1994|consen 240 YYCFFCGIKYKDEEDLYEHCP 260 (268)
T ss_pred eEEEEeccccCCHHHHHHhCC
Confidence 999999999999999998843
No 172
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=55.44 E-value=8.1 Score=20.23 Aligned_cols=11 Identities=45% Similarity=0.963 Sum_probs=6.2
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
.|.|..|+..+
T Consensus 112 ~y~C~~C~~~~ 122 (146)
T smart00731 112 PYRCTGCGQRY 122 (146)
T ss_pred EEECCCCCCCC
Confidence 45666666544
No 173
>PRK10220 hypothetical protein; Provisional
Probab=55.41 E-value=14 Score=18.67 Aligned_cols=29 Identities=21% Similarity=0.417 Sum_probs=18.7
Q ss_pred ecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQ 53 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~ 53 (84)
.|+.|...|.+.. +..|.|+.|+..+...
T Consensus 5 ~CP~C~seytY~d----------~~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 5 HCPKCNSEYTYED----------NGMYICPECAHEWNDA 33 (111)
T ss_pred cCCCCCCcceEcC----------CCeEECCcccCcCCcc
Confidence 6888876665432 2338899998766533
No 174
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=55.26 E-value=12 Score=23.66 Aligned_cols=10 Identities=20% Similarity=0.726 Sum_probs=7.0
Q ss_pred CeecCCCCcc
Q psy10072 13 PYKCTFCPFT 22 (84)
Q Consensus 13 ~~~c~~C~~~ 22 (84)
.|.|..||..
T Consensus 7 ~y~C~~Cg~~ 16 (454)
T TIGR00416 7 KFVCQHCGAD 16 (454)
T ss_pred eEECCcCCCC
Confidence 4778888754
No 175
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=54.56 E-value=5.5 Score=19.64 Aligned_cols=40 Identities=20% Similarity=0.364 Sum_probs=15.8
Q ss_pred cCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccc
Q psy10072 9 TGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQ 53 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~ 53 (84)
.|.|--.|..|+.+...-. +......- |.|..|.+.|...
T Consensus 10 ag~ke~~CalCG~tWg~~y-----~Ev~G~rLfFCCd~ca~EF~nm 50 (105)
T PF11494_consen 10 AGTKEMGCALCGATWGDYY-----EEVDGERLFFCCDDCAKEFKNM 50 (105)
T ss_dssp --SGGGS-SS---S---SS------B-TT--BSSS--SSSS-TTS-
T ss_pred cccccccccccCCcHHHHH-----HhhcCCEEEEEcHHHHHHHHHH
Confidence 4556678999998765322 23333334 7899999999764
No 176
>PRK11823 DNA repair protein RadA; Provisional
Probab=53.56 E-value=13 Score=23.40 Aligned_cols=11 Identities=27% Similarity=0.685 Sum_probs=7.7
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
.|.|..||...
T Consensus 7 ~y~C~~Cg~~~ 17 (446)
T PRK11823 7 AYVCQECGAES 17 (446)
T ss_pred eEECCcCCCCC
Confidence 58888887543
No 177
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=53.51 E-value=5 Score=23.92 Aligned_cols=37 Identities=16% Similarity=0.395 Sum_probs=19.7
Q ss_pred CeecCCCCccccChhhHHHHHHhcC-C-ce-eeCCCCccccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQ-D-LK-VKCPHCAYKCV 51 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~-~-~~-~~c~~C~~~f~ 51 (84)
.+.|+.|+..=.....+ +.+... + .. |.|..|+..+.
T Consensus 258 ~~~C~~C~~~~~~~~q~--QtrsaDEpmT~f~~C~~Cg~~w~ 297 (299)
T TIGR01385 258 LFTCGKCKQKKCTYYQL--QTRSADEPMTTFVTCEECGNRWK 297 (299)
T ss_pred cccCCCCCCccceEEEe--cccCCCCCCeEEEEcCCCCCeee
Confidence 47899998543222222 222211 2 33 68988987543
No 178
>PRK05978 hypothetical protein; Provisional
Probab=52.17 E-value=5.8 Score=21.16 Aligned_cols=32 Identities=13% Similarity=0.300 Sum_probs=17.6
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQ 53 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~ 53 (84)
-+|+.|++.=.....| ...-.|+.|+..|...
T Consensus 34 grCP~CG~G~LF~g~L--------kv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 34 GRCPACGEGKLFRAFL--------KPVDHCAACGEDFTHH 65 (148)
T ss_pred CcCCCCCCCccccccc--------ccCCCccccCCccccC
Confidence 4688888652222111 1115788888776543
No 179
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.88 E-value=19 Score=18.34 Aligned_cols=49 Identities=14% Similarity=0.170 Sum_probs=32.8
Q ss_pred ecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCC
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHM 65 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~ 65 (84)
.|--|...|.......+- .-.... |+|..|...|-..-....|...|.-
T Consensus 57 ~C~~C~~~f~~~~~~~~~--~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~C 106 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFD--ELKDSHRYVCAVCKNVFCVDCDVFVHESLHCC 106 (112)
T ss_pred cccCcCCCCCCccccccc--ccccccceeCCCCCCccccccchhhhhhccCC
Confidence 388888888765321111 122333 9999999999988888888776653
No 180
>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=51.17 E-value=7 Score=15.37 Aligned_cols=14 Identities=29% Similarity=0.289 Sum_probs=6.9
Q ss_pred eecCCCCccccChh
Q psy10072 14 YKCTFCPFTAAHSS 27 (84)
Q Consensus 14 ~~c~~C~~~f~~~~ 27 (84)
-.|.+|++.|..+.
T Consensus 4 ~~C~eC~~~f~dSy 17 (34)
T PF01286_consen 4 PKCDECGKPFMDSY 17 (34)
T ss_dssp EE-TTT--EES-SS
T ss_pred chHhHhCCHHHHHH
Confidence 36888888886653
No 181
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=50.85 E-value=1.2 Score=29.46 Aligned_cols=47 Identities=17% Similarity=0.300 Sum_probs=27.1
Q ss_pred ecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHh
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~ 61 (84)
.|..||..|+--..+.--...-+... ..|+.|.+.|.+..+..-|.+
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQ 172 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQ 172 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccc
Confidence 37888888775544332222222333 467777777777766555544
No 182
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=50.62 E-value=4.5 Score=22.47 Aligned_cols=36 Identities=17% Similarity=0.299 Sum_probs=19.9
Q ss_pred ecCCCCccccChhhHHHHHHhcCCc---e-eeCCCCccccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDL---K-VKCPHCAYKCV 51 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~---~-~~c~~C~~~f~ 51 (84)
.|+.|+........+..+ -.+.+. . |.|+.||....
T Consensus 2 ~Cp~C~~~~~~~~~~~~~-IP~F~evii~sf~C~~CGyr~~ 41 (192)
T TIGR00310 2 DCPSCGGECETVMKTVND-IPYFGEVLETSTICEHCGYRSN 41 (192)
T ss_pred cCCCCCCCCEEEEEEEcC-CCCcceEEEEEEECCCCCCccc
Confidence 488888654443332222 222332 2 78999987654
No 183
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=50.40 E-value=15 Score=20.24 Aligned_cols=34 Identities=21% Similarity=0.542 Sum_probs=20.1
Q ss_pred cCCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCcccc
Q psy10072 9 TGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKC 50 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f 50 (84)
+...-|.|+.|...|+.... ...+ |.|+.||...
T Consensus 109 ~~~~~y~C~~~~~r~sfdeA------~~~~--F~Cp~Cg~~L 142 (176)
T COG1675 109 TENNYYVCPNCHVKYSFDEA------MELG--FTCPKCGEDL 142 (176)
T ss_pred ccCCceeCCCCCCcccHHHH------HHhC--CCCCCCCchh
Confidence 44556888887766544321 1111 8899998643
No 184
>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=50.36 E-value=7 Score=16.87 Aligned_cols=24 Identities=21% Similarity=0.451 Sum_probs=12.5
Q ss_pred eeCCCCccccccchHHHHHHhhhC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
|.|+.|...|-..-....|...|.
T Consensus 22 y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp E--TTTT--B-HHHHHTTTTTS-S
T ss_pred EECCCCCCccccCcChhhhccccC
Confidence 888888888876666666655554
No 185
>PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=50.31 E-value=24 Score=21.15 Aligned_cols=23 Identities=26% Similarity=0.397 Sum_probs=20.1
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
|.|..|-+-|.....+.+|+...
T Consensus 49 yiCe~Clky~~~~~~l~~H~~~C 71 (290)
T PLN03238 49 YICEYCLKYMRKKKSLLRHLAKC 71 (290)
T ss_pred EEcCCCcchhCCHHHHHHHHHhC
Confidence 89999999999999999998753
No 186
>KOG1842|consensus
Probab=50.22 E-value=8.9 Score=24.32 Aligned_cols=26 Identities=27% Similarity=0.593 Sum_probs=21.1
Q ss_pred eeCCCCccccccchHHHHHHhhhCCC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMP 66 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~ 66 (84)
|.|+.|...|..-..|.-|...-|.+
T Consensus 16 flCPiC~~dl~~~~~L~~H~d~eH~~ 41 (505)
T KOG1842|consen 16 FLCPICLLDLPNLSALNDHLDVEHFE 41 (505)
T ss_pred ccCchHhhhhhhHHHHHHHHhhhccc
Confidence 88999999898888888888765543
No 187
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=50.13 E-value=4 Score=22.82 Aligned_cols=38 Identities=16% Similarity=0.207 Sum_probs=23.0
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce----eeCCCCccccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK----VKCPHCAYKCVKQ 53 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~----~~c~~C~~~f~~~ 53 (84)
..|+.|+..+.....+ ....|.|.- +.|..|++.+..-
T Consensus 15 ~~CPvCg~~l~~~~~~--~~IPyFG~V~i~t~~C~~CgYR~~DV 56 (201)
T COG1779 15 IDCPVCGGTLKAHMYL--YDIPYFGEVLISTGVCERCGYRSTDV 56 (201)
T ss_pred ecCCcccceeeEEEee--ecCCccceEEEEEEEccccCCcccce
Confidence 5799999855433221 122344533 6899999876543
No 188
>KOG1088|consensus
Probab=49.75 E-value=10 Score=19.47 Aligned_cols=20 Identities=15% Similarity=-0.046 Sum_probs=12.7
Q ss_pred hcCCCCeecCCCCccccChh
Q psy10072 8 HTGEKPYKCTFCPFTAAHSS 27 (84)
Q Consensus 8 h~~~k~~~c~~C~~~f~~~~ 27 (84)
+.-+....|++||+.|+-+.
T Consensus 93 ~v~EG~l~CpetG~vfpI~~ 112 (124)
T KOG1088|consen 93 DVIEGELVCPETGRVFPISD 112 (124)
T ss_pred hhccceEecCCCCcEeeccc
Confidence 34445567888887776543
No 189
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=49.65 E-value=14 Score=15.80 Aligned_cols=13 Identities=31% Similarity=0.728 Sum_probs=9.0
Q ss_pred eeCCCCccccccc
Q psy10072 41 VKCPHCAYKCVKQ 53 (84)
Q Consensus 41 ~~c~~C~~~f~~~ 53 (84)
+.|..|+..|...
T Consensus 29 W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 29 WKCPKCGHEWKAS 41 (55)
T ss_pred EECCCCCCeeEcc
Confidence 6888887766544
No 190
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=49.62 E-value=6.3 Score=17.80 Aligned_cols=17 Identities=18% Similarity=0.174 Sum_probs=9.5
Q ss_pred hcCCCCeecCCCCcccc
Q psy10072 8 HTGEKPYKCTFCPFTAA 24 (84)
Q Consensus 8 h~~~k~~~c~~C~~~f~ 24 (84)
+..+....|+.|++.|.
T Consensus 48 ~i~eg~L~Cp~c~r~YP 64 (68)
T PF03966_consen 48 EIVEGELICPECGREYP 64 (68)
T ss_dssp ETTTTEEEETTTTEEEE
T ss_pred cccCCEEEcCCCCCEEe
Confidence 33444556666666654
No 191
>KOG2231|consensus
Probab=48.96 E-value=23 Score=23.85 Aligned_cols=19 Identities=32% Similarity=0.641 Sum_probs=8.7
Q ss_pred cCCCCccccChhhHHHHHH
Q psy10072 16 CTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 16 c~~C~~~f~~~~~l~~h~~ 34 (84)
|+.|...|.....+.+|++
T Consensus 185 C~~C~~~fld~~el~rH~~ 203 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLR 203 (669)
T ss_pred chhhhhhhccHHHHHHhhc
Confidence 4444444444444444443
No 192
>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=48.80 E-value=9.8 Score=16.07 Aligned_cols=12 Identities=33% Similarity=0.877 Sum_probs=8.7
Q ss_pred eeCCCCcccccc
Q psy10072 41 VKCPHCAYKCVK 52 (84)
Q Consensus 41 ~~c~~C~~~f~~ 52 (84)
|+|..|+..|.-
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 678888877653
No 193
>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=48.74 E-value=16 Score=14.61 Aligned_cols=12 Identities=25% Similarity=0.736 Sum_probs=4.3
Q ss_pred CeecCCCCcccc
Q psy10072 13 PYKCTFCPFTAA 24 (84)
Q Consensus 13 ~~~c~~C~~~f~ 24 (84)
.|-|..|...+.
T Consensus 3 ryyCdyC~~~~~ 14 (38)
T PF06220_consen 3 RYYCDYCKKYLT 14 (38)
T ss_dssp S-B-TTT--B-S
T ss_pred Ceecccccceec
Confidence 356777777663
No 194
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=48.41 E-value=8.1 Score=15.27 Aligned_cols=30 Identities=17% Similarity=0.194 Sum_probs=17.5
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~ 51 (84)
+.|+.||..|.... ..... -.|..|+-.+.
T Consensus 2 r~C~~Cg~~Yh~~~--------~pP~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 2 RICPKCGRIYHIEF--------NPPKVEGVCDNCGGELV 32 (36)
T ss_dssp EEETTTTEEEETTT--------B--SSTTBCTTTTEBEB
T ss_pred cCcCCCCCcccccc--------CCCCCCCccCCCCCeeE
Confidence 46888888875432 22233 57787875443
No 195
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=48.40 E-value=17 Score=15.37 Aligned_cols=11 Identities=18% Similarity=0.271 Sum_probs=6.7
Q ss_pred ecCCCCccccC
Q psy10072 15 KCTFCPFTAAH 25 (84)
Q Consensus 15 ~c~~C~~~f~~ 25 (84)
.|..|++.|..
T Consensus 4 ~C~~C~~~F~~ 14 (57)
T cd00065 4 SCMGCGKPFTL 14 (57)
T ss_pred cCcccCccccC
Confidence 46667766654
No 196
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=48.30 E-value=9 Score=23.41 Aligned_cols=40 Identities=30% Similarity=0.580 Sum_probs=18.1
Q ss_pred CCeecCCCCccccChhhHH---HHHH-hcCCce--eeCCCCccccc
Q psy10072 12 KPYKCTFCPFTAAHSSTMS---YHLR-IHQDLK--VKCPHCAYKCV 51 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~---~h~~-~~~~~~--~~c~~C~~~f~ 51 (84)
+.+.|..|..+.-.....- .|.. .+.+.+ |+|..|+....
T Consensus 251 kav~C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~ 296 (344)
T PF09332_consen 251 KAVTCKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTI 296 (344)
T ss_dssp EEEEETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEE
T ss_pred EEEEcCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeee
Confidence 4588999987655554433 2221 233444 79999987544
No 197
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.87 E-value=11 Score=19.06 Aligned_cols=11 Identities=0% Similarity=-0.556 Sum_probs=5.2
Q ss_pred cCCCCccccCh
Q psy10072 16 CTFCPFTAAHS 26 (84)
Q Consensus 16 c~~C~~~f~~~ 26 (84)
|+.|++.|...
T Consensus 12 dPetg~KFYDL 22 (129)
T COG4530 12 DPETGKKFYDL 22 (129)
T ss_pred Cccccchhhcc
Confidence 44555544433
No 198
>KOG4727|consensus
Probab=47.84 E-value=11 Score=20.65 Aligned_cols=22 Identities=23% Similarity=0.493 Sum_probs=19.2
Q ss_pred CeecCCCCccccChhhHHHHHH
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~ 34 (84)
-|-|.+|+-+|..+.++..|+.
T Consensus 75 GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 75 GYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred ceeeeecceeehhhHHHHHHhc
Confidence 4889999999999988888875
No 199
>KOG0717|consensus
Probab=47.34 E-value=13 Score=23.72 Aligned_cols=22 Identities=14% Similarity=0.288 Sum_probs=17.5
Q ss_pred eecCCCCccccChhhHHHHHHh
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRI 35 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~ 35 (84)
+.|..|+++|.+...+..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 6789999999888777777653
No 200
>KOG3507|consensus
Probab=47.29 E-value=18 Score=16.18 Aligned_cols=28 Identities=21% Similarity=0.587 Sum_probs=17.0
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKC 50 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f 50 (84)
.|.|.+|+..-.. ..+..+.|..||...
T Consensus 20 iYiCgdC~~en~l----------k~~D~irCReCG~RI 47 (62)
T KOG3507|consen 20 IYICGDCGQENTL----------KRGDVIRCRECGYRI 47 (62)
T ss_pred EEEeccccccccc----------cCCCcEehhhcchHH
Confidence 4788888753221 113338999998644
No 201
>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=46.54 E-value=9.6 Score=16.32 Aligned_cols=12 Identities=25% Similarity=0.617 Sum_probs=9.0
Q ss_pred eeCCCCcccccc
Q psy10072 41 VKCPHCAYKCVK 52 (84)
Q Consensus 41 ~~c~~C~~~f~~ 52 (84)
|+|..|+..|.-
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 678888887763
No 202
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=46.20 E-value=9.8 Score=19.53 Aligned_cols=31 Identities=19% Similarity=0.520 Sum_probs=16.4
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
...| .|+..|.....-.. +..-.+.|+.|+.
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~----~~~~~~~CP~Cgs 100 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEID----HYAAVIECPVCGN 100 (124)
T ss_pred eEEe-eCcCcccccccchh----ccccCCcCcCCCC
Confidence 4678 89877665421000 0111157888873
No 203
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=45.60 E-value=12 Score=15.53 Aligned_cols=36 Identities=17% Similarity=0.360 Sum_probs=18.4
Q ss_pred ecCCCCccccChhhHHHHHHhcCCce-eeCCC--Ccccccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPH--CAYKCVK 52 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~--C~~~f~~ 52 (84)
.|+.||....-......+ ....+. ++|.. ||..|..
T Consensus 1 ~CP~Cg~~a~ir~S~~~s--~~~~~~Y~qC~N~~Cg~tfv~ 39 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLS--PLTRELYCQCTNPECGHTFVA 39 (47)
T ss_pred CcCCCCCeeEEEEchhhC--cceEEEEEEECCCcCCCEEEE
Confidence 378888654433322211 111223 68855 8887753
No 204
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the COG2879 Uncharacterized small protein [Function unknown]
Probab=45.30 E-value=25 Score=15.98 Aligned_cols=19 Identities=11% Similarity=0.275 Sum_probs=14.8
Q ss_pred cchHHHHHHhhhCCCCChh
Q psy10072 52 KQKDLNTHIERRHMPGDVL 70 (84)
Q Consensus 52 ~~~~l~~H~~~~~~~~~~~ 70 (84)
+=+++..||+.++..+|.-
T Consensus 24 dYdnYVehmr~~hPd~p~m 42 (65)
T COG2879 24 DYDNYVEHMRKKHPDKPPM 42 (65)
T ss_pred cHHHHHHHHHHhCcCCCcc
Confidence 4467889999998888763
No 206
>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=44.73 E-value=11 Score=15.13 Aligned_cols=13 Identities=15% Similarity=0.271 Sum_probs=9.1
Q ss_pred CeecCCCCccccC
Q psy10072 13 PYKCTFCPFTAAH 25 (84)
Q Consensus 13 ~~~c~~C~~~f~~ 25 (84)
.+.|+.||..+..
T Consensus 32 ~~~C~~CGE~~~~ 44 (46)
T TIGR03831 32 ALVCPQCGEEYLD 44 (46)
T ss_pred ccccccCCCEeeC
Confidence 4678888876543
No 207
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=44.61 E-value=20 Score=22.08 Aligned_cols=13 Identities=23% Similarity=0.102 Sum_probs=7.4
Q ss_pred CCeecCCCCcccc
Q psy10072 12 KPYKCTFCPFTAA 24 (84)
Q Consensus 12 k~~~c~~C~~~f~ 24 (84)
..++|+.|+.+-+
T Consensus 13 ~~g~cp~c~~w~~ 25 (372)
T cd01121 13 WLGKCPECGEWNT 25 (372)
T ss_pred ccEECcCCCCcee
Confidence 3466666665433
No 208
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.30 E-value=19 Score=16.25 Aligned_cols=37 Identities=24% Similarity=0.498 Sum_probs=19.1
Q ss_pred ecCCCCcc-ccChhhHH-HHHHhcCCceeeCCCCccccc
Q psy10072 15 KCTFCPFT-AAHSSTMS-YHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 15 ~c~~C~~~-f~~~~~l~-~h~~~~~~~~~~c~~C~~~f~ 51 (84)
.|..|++. +.....+. +.++...-..|.|+.|.-...
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~Rva 42 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRVA 42 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHhhhc
Confidence 57777763 33333333 333322223399999975433
No 209
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=44.23 E-value=12 Score=18.83 Aligned_cols=21 Identities=29% Similarity=0.461 Sum_probs=18.4
Q ss_pred eeCCCCccccccchHHHHHHh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~ 61 (84)
+-|..|.+-|.....|..|.+
T Consensus 56 hYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 56 HYCIECARYFITEKALMEHKK 76 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhc
Confidence 789999999999999998864
No 210
>KOG3352|consensus
Probab=44.12 E-value=12 Score=20.10 Aligned_cols=13 Identities=15% Similarity=0.311 Sum_probs=9.4
Q ss_pred CeecCCCCccccC
Q psy10072 13 PYKCTFCPFTAAH 25 (84)
Q Consensus 13 ~~~c~~C~~~f~~ 25 (84)
..+|.+||..|..
T Consensus 133 ~~rc~eCG~~fkL 145 (153)
T KOG3352|consen 133 TQRCPECGHYFKL 145 (153)
T ss_pred cccCCcccceEEe
Confidence 4578888877754
No 211
>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=44.00 E-value=9.4 Score=20.58 Aligned_cols=18 Identities=22% Similarity=0.392 Sum_probs=14.6
Q ss_pred CCCeecCCCCccccChhh
Q psy10072 11 EKPYKCTFCPFTAAHSST 28 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~ 28 (84)
+.|.-|..||+.|++...
T Consensus 66 ~~PsYC~~CGkpyPWt~~ 83 (158)
T PF10083_consen 66 EAPSYCHNCGKPYPWTEN 83 (158)
T ss_pred CCChhHHhCCCCCchHHH
Confidence 468889999999988754
No 212
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=43.98 E-value=17 Score=15.97 Aligned_cols=15 Identities=13% Similarity=0.501 Sum_probs=9.4
Q ss_pred CCCCeecCCCCcccc
Q psy10072 10 GEKPYKCTFCPFTAA 24 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~ 24 (84)
+...|.|+.||..+.
T Consensus 11 ~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 11 AHVNFECPDCGIPTH 25 (55)
T ss_pred cccCCcCCCCCCcCc
Confidence 345677888876543
No 213
>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=43.90 E-value=24 Score=13.72 Aligned_cols=20 Identities=30% Similarity=0.806 Sum_probs=9.8
Q ss_pred eeCCCCccccccchHHHHHHh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~ 61 (84)
+.|+.|++... .+.+..|+.
T Consensus 5 ~~C~nC~R~v~-a~RfA~HLe 24 (33)
T PF08209_consen 5 VECPNCGRPVA-ASRFAPHLE 24 (33)
T ss_dssp EE-TTTSSEEE-GGGHHHHHH
T ss_pred EECCCCcCCcc-hhhhHHHHH
Confidence 56777766443 223445544
No 214
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=43.76 E-value=27 Score=14.97 Aligned_cols=8 Identities=50% Similarity=1.273 Sum_probs=3.8
Q ss_pred eeCCCCcc
Q psy10072 41 VKCPHCAY 48 (84)
Q Consensus 41 ~~c~~C~~ 48 (84)
..|+.|++
T Consensus 47 ~~Cp~CgR 54 (56)
T PF02591_consen 47 VFCPNCGR 54 (56)
T ss_pred EECcCCCc
Confidence 44555543
No 215
>PRK12860 transcriptional activator FlhC; Provisional
Probab=43.31 E-value=18 Score=20.21 Aligned_cols=12 Identities=17% Similarity=0.240 Sum_probs=7.3
Q ss_pred CeecCCCCcccc
Q psy10072 13 PYKCTFCPFTAA 24 (84)
Q Consensus 13 ~~~c~~C~~~f~ 24 (84)
...|..|+..|.
T Consensus 134 l~~C~~Cgg~fv 145 (189)
T PRK12860 134 LARCCRCGGKFV 145 (189)
T ss_pred eccCCCCCCCee
Confidence 345667766664
No 216
>KOG2807|consensus
Probab=42.65 E-value=69 Score=19.81 Aligned_cols=53 Identities=17% Similarity=0.331 Sum_probs=31.5
Q ss_pred CCeecCCCCccccChhhHHHHHHh--c-------------------------CCce-eeCCCCccccccchHHHHHHhhh
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRI--H-------------------------QDLK-VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~--~-------------------------~~~~-~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
-|..|+.|+-+......|.+.-.. . .+.. |.|..|...|-..-....|-..|
T Consensus 289 LP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhh
Confidence 467788888776666665543220 0 0112 66777777777666666665555
Q ss_pred C
Q psy10072 64 H 64 (84)
Q Consensus 64 ~ 64 (84)
.
T Consensus 369 ~ 369 (378)
T KOG2807|consen 369 N 369 (378)
T ss_pred c
Confidence 4
No 217
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=42.17 E-value=16 Score=14.15 Aligned_cols=12 Identities=25% Similarity=0.473 Sum_probs=7.8
Q ss_pred CeecCCCCcccc
Q psy10072 13 PYKCTFCPFTAA 24 (84)
Q Consensus 13 ~~~c~~C~~~f~ 24 (84)
.+.|..|+..|.
T Consensus 21 ~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 21 YEVCIFCGSSFP 32 (33)
T ss_pred eEEcccCCcEee
Confidence 456777776653
No 218
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=40.50 E-value=7.2 Score=24.75 Aligned_cols=16 Identities=13% Similarity=0.499 Sum_probs=11.8
Q ss_pred CCCeecCCCCccccCh
Q psy10072 11 EKPYKCTFCPFTAAHS 26 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~ 26 (84)
.+.|.|..|+..|...
T Consensus 423 ~~~~~c~~c~~~yd~~ 438 (479)
T PRK05452 423 GPRMQCSVCQWIYDPA 438 (479)
T ss_pred CCeEEECCCCeEECCC
Confidence 3568999999777654
No 219
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=40.17 E-value=18 Score=15.90 Aligned_cols=15 Identities=27% Similarity=0.549 Sum_probs=7.6
Q ss_pred CCCeecCCCCccccC
Q psy10072 11 EKPYKCTFCPFTAAH 25 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~ 25 (84)
++--.|+.|++.|..
T Consensus 37 ~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 37 ERYNGCPFCGTPFEF 51 (55)
T ss_pred hhccCCCCCCCcccC
Confidence 344455666655543
No 220
>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=39.74 E-value=14 Score=14.82 Aligned_cols=32 Identities=22% Similarity=0.412 Sum_probs=13.2
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCcccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKC 50 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f 50 (84)
|.+|..|+. +..+. .....+.+ |.|..|+..-
T Consensus 2 p~rC~~C~a-ylNp~-----~~~~~~~~~w~C~~C~~~N 34 (40)
T PF04810_consen 2 PVRCRRCRA-YLNPF-----CQFDDGGKTWICNFCGTKN 34 (40)
T ss_dssp S-B-TTT---BS-TT-----SEEETTTTEEEETTT--EE
T ss_pred ccccCCCCC-EECCc-----ceEcCCCCEEECcCCCCcC
Confidence 456777753 32222 23333433 8888887643
No 221
>PF14369 zf-RING_3: zinc-finger
Probab=39.63 E-value=16 Score=14.29 Aligned_cols=10 Identities=20% Similarity=0.331 Sum_probs=8.1
Q ss_pred ecCCCCcccc
Q psy10072 15 KCTFCPFTAA 24 (84)
Q Consensus 15 ~c~~C~~~f~ 24 (84)
.|+.|+..|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 5999998874
No 222
>KOG0227|consensus
Probab=39.54 E-value=17 Score=20.42 Aligned_cols=27 Identities=22% Similarity=0.604 Sum_probs=15.3
Q ss_pred hhhhcCCCCeecCCCCccccChhhHHHHH
Q psy10072 5 IRTHTGEKPYKCTFCPFTAAHSSTMSYHL 33 (84)
Q Consensus 5 ~~~h~~~k~~~c~~C~~~f~~~~~l~~h~ 33 (84)
|+.|.|. |.|..|.-.-.+..+...|.
T Consensus 47 mkNh~G~--yeCkLClT~H~ne~Syl~Ht 73 (222)
T KOG0227|consen 47 MKNHLGK--YECKLCLTLHNNEGSYLAHT 73 (222)
T ss_pred hhccCcc--eeehhhhhhhcchhhhhhhh
Confidence 4556664 77777765544444444443
No 223
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=39.48 E-value=22 Score=18.97 Aligned_cols=10 Identities=20% Similarity=0.747 Sum_probs=6.8
Q ss_pred eeCCCCcccc
Q psy10072 41 VKCPHCAYKC 50 (84)
Q Consensus 41 ~~c~~C~~~f 50 (84)
|.|..|+..+
T Consensus 52 ~~C~~C~~~~ 61 (166)
T cd04476 52 YRCEKCNKSV 61 (166)
T ss_pred EECCCCCCcC
Confidence 7777777653
No 224
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.44 E-value=13 Score=15.86 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=11.0
Q ss_pred eeCCCCccccccchHH
Q psy10072 41 VKCPHCAYKCVKQKDL 56 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l 56 (84)
-.|+.|++.|......
T Consensus 13 KICpvCqRPFsWRkKW 28 (54)
T COG4338 13 KICPVCQRPFSWRKKW 28 (54)
T ss_pred hhhhhhcCchHHHHHH
Confidence 3688888888765443
No 225
>KOG2636|consensus
Probab=39.08 E-value=26 Score=22.43 Aligned_cols=21 Identities=19% Similarity=0.575 Sum_probs=10.2
Q ss_pred CCeecCCCC-ccccChhhHHHH
Q psy10072 12 KPYKCTFCP-FTAAHSSTMSYH 32 (84)
Q Consensus 12 k~~~c~~C~-~~f~~~~~l~~h 32 (84)
+-|.|..|| .++.-+..+.+|
T Consensus 400 ~ey~CEICGNy~Y~GrkaF~RH 421 (497)
T KOG2636|consen 400 IEYNCEICGNYVYKGRKAFDRH 421 (497)
T ss_pred cccceeeccCccccCcHHHHHH
Confidence 345555555 344444444444
No 226
>PF14690 zf-ISL3: zinc-finger of transposase IS204/IS1001/IS1096/IS1165
Probab=39.02 E-value=19 Score=14.58 Aligned_cols=9 Identities=33% Similarity=0.954 Sum_probs=6.5
Q ss_pred CeecCCCCc
Q psy10072 13 PYKCTFCPF 21 (84)
Q Consensus 13 ~~~c~~C~~ 21 (84)
|..|+.||.
T Consensus 2 ~~~Cp~Cg~ 10 (47)
T PF14690_consen 2 PPRCPHCGS 10 (47)
T ss_pred CccCCCcCC
Confidence 567888884
No 227
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=38.65 E-value=21 Score=13.93 Aligned_cols=9 Identities=33% Similarity=1.235 Sum_probs=6.5
Q ss_pred eeCCCCccc
Q psy10072 41 VKCPHCAYK 49 (84)
Q Consensus 41 ~~c~~C~~~ 49 (84)
+.|+.|+..
T Consensus 23 ~vC~~Cg~I 31 (34)
T PF14803_consen 23 LVCPACGFI 31 (34)
T ss_dssp EEETTTTEE
T ss_pred eECCCCCCE
Confidence 788888753
No 228
>KOG2857|consensus
Probab=38.58 E-value=18 Score=19.28 Aligned_cols=22 Identities=27% Similarity=0.552 Sum_probs=18.2
Q ss_pred eeeCCCCccccccchHHHHHHh
Q psy10072 40 KVKCPHCAYKCVKQKDLNTHIE 61 (84)
Q Consensus 40 ~~~c~~C~~~f~~~~~l~~H~~ 61 (84)
+|+|+.|...|.+..-++.|..
T Consensus 17 KYKCpkC~vPYCSl~CfKiHk~ 38 (157)
T KOG2857|consen 17 KYKCPKCSVPYCSLPCFKIHKS 38 (157)
T ss_pred hccCCCCCCccccchhhhhccC
Confidence 4899999988888888888865
No 229
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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 DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=37.98 E-value=16 Score=16.71 Aligned_cols=41 Identities=24% Similarity=0.597 Sum_probs=21.0
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHH
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDL 56 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l 56 (84)
.|.|..|+..-... +.++ ..+.|.- .+|+.|.....-.++|
T Consensus 4 ~FTC~~C~~Rs~~~--~sk~-aY~~GvViv~C~gC~~~HlIaDnL 45 (66)
T PF05180_consen 4 TFTCNKCGTRSAKM--FSKQ-AYHKGVVIVQCPGCKNRHLIADNL 45 (66)
T ss_dssp EEEETTTTEEEEEE--EEHH-HHHTSEEEEE-TTS--EEES--SS
T ss_pred EEEcCCCCCcccee--eCHH-HHhCCeEEEECCCCcceeeehhhh
Confidence 37899998543322 2222 3456666 7999998755444443
No 230
>PTZ00064 histone acetyltransferase; Provisional
Probab=37.57 E-value=35 Score=22.27 Aligned_cols=23 Identities=22% Similarity=0.306 Sum_probs=20.4
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
|.|..|.+-|.....|.+|+...
T Consensus 281 YICEfCLkY~~s~~~l~rH~~~C 303 (552)
T PTZ00064 281 HFCEYCLDFFCFEDELIRHLSRC 303 (552)
T ss_pred EEccchhhhhCCHHHHHHHHhcC
Confidence 89999999999999999998753
No 231
>PRK12722 transcriptional activator FlhC; Provisional
Probab=37.49 E-value=28 Score=19.46 Aligned_cols=27 Identities=15% Similarity=0.339 Sum_probs=14.7
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
..|..|+..|..... .... |.|+.|..
T Consensus 135 ~~C~~Cgg~fv~~~~--------e~~~~f~CplC~~ 162 (187)
T PRK12722 135 SSCNCCGGHFVTHAH--------DPVGSFVCGLCQP 162 (187)
T ss_pred ccCCCCCCCeecccc--------ccCCCCcCCCCCC
Confidence 457777766653321 1222 67777754
No 232
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=37.27 E-value=18 Score=23.57 Aligned_cols=37 Identities=19% Similarity=0.486 Sum_probs=22.3
Q ss_pred eecCCCCccccChhhHHHHHHhcC----Cce-eeCCCCccccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQ----DLK-VKCPHCAYKCVKQ 53 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~----~~~-~~c~~C~~~f~~~ 53 (84)
..|+.|+..+...-. .++... ..- |.|+.|+......
T Consensus 201 vpCPhCg~~~~l~~~---~l~w~~~~~~~~a~y~C~~Cg~~i~e~ 242 (557)
T PF05876_consen 201 VPCPHCGEEQVLEWE---NLKWDKGEAPETARYVCPHCGCEIEEH 242 (557)
T ss_pred ccCCCCCCCcccccc---ceeecCCCCccceEEECCCCcCCCCHH
Confidence 569999987664411 122221 222 8999999876643
No 233
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=37.06 E-value=17 Score=17.74 Aligned_cols=13 Identities=23% Similarity=0.439 Sum_probs=8.6
Q ss_pred CeecCCCCccccC
Q psy10072 13 PYKCTFCPFTAAH 25 (84)
Q Consensus 13 ~~~c~~C~~~f~~ 25 (84)
.|.|..|++.|.-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PRK03976 54 IWECRKCGAKFAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 4777777776653
No 234
>PF05766 NinG: Bacteriophage Lambda NinG protein; InterPro: IPR008713 The ninR region of phage lambda contains two recombination genes, ninB (also known as orf) and ninG (also known as rap). These genes are involved in the RecF and RecBCD recombination pathways of Escherichia coli that operate on phage lambda [, ]. NinB and NinG participate in Red recombination, the primary pathway operating when wild-type lambda grows lytically in rec+ cells [].
Probab=37.04 E-value=14 Score=20.58 Aligned_cols=17 Identities=24% Similarity=0.296 Sum_probs=12.4
Q ss_pred CCCeecCCCCccccChh
Q psy10072 11 EKPYKCTFCPFTAAHSS 27 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~ 27 (84)
.++-.|..|+..|....
T Consensus 4 ~k~rKCKvCg~~F~P~~ 20 (189)
T PF05766_consen 4 PKRRKCKVCGEWFVPAR 20 (189)
T ss_pred CCCCcCcccCCccccCC
Confidence 35668999998887543
No 235
>PRK01343 zinc-binding protein; Provisional
Probab=36.95 E-value=36 Score=15.12 Aligned_cols=10 Identities=20% Similarity=0.437 Sum_probs=6.3
Q ss_pred eecCCCCccc
Q psy10072 14 YKCTFCPFTA 23 (84)
Q Consensus 14 ~~c~~C~~~f 23 (84)
..|+.|++.+
T Consensus 10 ~~CP~C~k~~ 19 (57)
T PRK01343 10 RPCPECGKPS 19 (57)
T ss_pred CcCCCCCCcC
Confidence 4577777654
No 236
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=36.55 E-value=33 Score=21.95 Aligned_cols=23 Identities=17% Similarity=0.433 Sum_probs=20.3
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
|.|..|.+-|.....|.+|+...
T Consensus 199 yiCe~Cl~y~~~~~~~~~H~~~C 221 (450)
T PLN00104 199 YFCEFCLKFMKRKEQLQRHMKKC 221 (450)
T ss_pred EEchhhhhhhcCHHHHHHHHhcC
Confidence 89999999999999999998743
No 237
>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=36.54 E-value=20 Score=14.27 Aligned_cols=11 Identities=36% Similarity=0.751 Sum_probs=5.5
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
.|.|..||...
T Consensus 6 ~YkC~~CGniV 16 (36)
T PF06397_consen 6 FYKCEHCGNIV 16 (36)
T ss_dssp EEE-TTT--EE
T ss_pred EEEccCCCCEE
Confidence 57788887654
No 238
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=36.16 E-value=20 Score=20.91 Aligned_cols=35 Identities=14% Similarity=0.341 Sum_probs=12.9
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccch
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQK 54 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~ 54 (84)
..|+.||....... ....... |.|..|...|...+
T Consensus 32 ~yCP~Cg~~~L~~f------~NN~PVaDF~C~~C~eeyELKS 67 (254)
T PF06044_consen 32 MYCPNCGSKPLSKF------ENNRPVADFYCPNCNEEYELKS 67 (254)
T ss_dssp ---TTT--SS-EE--------------EEE-TTT--EEEEEE
T ss_pred CcCCCCCChhHhhc------cCCCccceeECCCCchHHhhhh
Confidence 57999986532221 1222333 99999998886544
No 239
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=36.12 E-value=18 Score=19.33 Aligned_cols=15 Identities=13% Similarity=0.162 Sum_probs=12.1
Q ss_pred eecCCCCccccChhh
Q psy10072 14 YKCTFCPFTAAHSST 28 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~ 28 (84)
=.|..|++.|++-..
T Consensus 29 ReC~~C~~RFTTyEr 43 (147)
T TIGR00244 29 RECLECHERFTTFER 43 (147)
T ss_pred ccCCccCCccceeee
Confidence 479999999987654
No 240
>KOG3014|consensus
Probab=35.87 E-value=29 Score=20.36 Aligned_cols=25 Identities=20% Similarity=0.426 Sum_probs=19.2
Q ss_pred eecCCCCccccCh--hhHHHHHHhcCC
Q psy10072 14 YKCTFCPFTAAHS--STMSYHLRIHQD 38 (84)
Q Consensus 14 ~~c~~C~~~f~~~--~~l~~h~~~~~~ 38 (84)
-.|.+|+..|+.. .+-..|.++|+.
T Consensus 38 ~~C~~Cgm~Yt~~s~EDe~~H~~fH~~ 64 (257)
T KOG3014|consen 38 VKCKECGMKYTVTSPEDEALHEKFHNR 64 (257)
T ss_pred eehhhcCceecCCCHHHHHHHHHHHHh
Confidence 4799999877654 567789898874
No 241
>PF12907 zf-met2: Zinc-binding
Probab=35.77 E-value=14 Score=15.06 Aligned_cols=20 Identities=25% Similarity=0.551 Sum_probs=8.4
Q ss_pred eCCCCccccc---cchHHHHHHh
Q psy10072 42 KCPHCAYKCV---KQKDLNTHIE 61 (84)
Q Consensus 42 ~c~~C~~~f~---~~~~l~~H~~ 61 (84)
.|..|...|. ....|..|-.
T Consensus 3 ~C~iC~qtF~~t~~~~~L~eH~e 25 (40)
T PF12907_consen 3 ICKICRQTFMQTTNEPQLKEHAE 25 (40)
T ss_pred CcHHhhHHHHhcCCHHHHHHHHH
Confidence 3444543332 2233555544
No 242
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=35.29 E-value=60 Score=19.08 Aligned_cols=15 Identities=27% Similarity=0.851 Sum_probs=11.1
Q ss_pred eeCCCCccccccchH
Q psy10072 41 VKCPHCAYKCVKQKD 55 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~ 55 (84)
|.|+.|+..+...-+
T Consensus 323 ~~C~~cg~~~~rD~n 337 (364)
T COG0675 323 FKCPRCGFVHDRDVN 337 (364)
T ss_pred EECCCCCCeehhhHH
Confidence 999999987654433
No 243
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=34.14 E-value=33 Score=18.83 Aligned_cols=20 Identities=20% Similarity=0.295 Sum_probs=15.0
Q ss_pred CCCeecCCCCccccChhhHH
Q psy10072 11 EKPYKCTFCPFTAAHSSTMS 30 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~ 30 (84)
..+..|..||+.|.....+.
T Consensus 112 ~~~~~C~~Cg~~f~~~k~i~ 131 (181)
T PRK08222 112 FHLQRCSRCERPFAPQKTVA 131 (181)
T ss_pred cccCcCcccCCccCcHhHHH
Confidence 35778999999998665444
No 244
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=33.59 E-value=20 Score=19.30 Aligned_cols=15 Identities=13% Similarity=0.151 Sum_probs=12.1
Q ss_pred eecCCCCccccChhh
Q psy10072 14 YKCTFCPFTAAHSST 28 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~ 28 (84)
=.|..|+..|++-..
T Consensus 29 ReC~~C~~RFTTfE~ 43 (156)
T COG1327 29 RECLECGERFTTFER 43 (156)
T ss_pred hcccccccccchhhe
Confidence 479999999987654
No 245
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=31.98 E-value=38 Score=13.30 Aligned_cols=13 Identities=23% Similarity=0.330 Sum_probs=7.0
Q ss_pred CCeecCCCCcccc
Q psy10072 12 KPYKCTFCPFTAA 24 (84)
Q Consensus 12 k~~~c~~C~~~f~ 24 (84)
.+..|..||..+.
T Consensus 20 ~~isC~~CGPr~~ 32 (35)
T PF07503_consen 20 QFISCTNCGPRYS 32 (35)
T ss_dssp TT--BTTCC-SCC
T ss_pred cCccCCCCCCCEE
Confidence 3567888887664
No 246
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.88 E-value=25 Score=18.38 Aligned_cols=17 Identities=24% Similarity=0.380 Sum_probs=13.6
Q ss_pred CCCeecCCCCccccChh
Q psy10072 11 EKPYKCTFCPFTAAHSS 27 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~ 27 (84)
+.|..|..||+.|++..
T Consensus 66 e~psfchncgs~fpwte 82 (160)
T COG4306 66 EPPSFCHNCGSRFPWTE 82 (160)
T ss_pred CCcchhhcCCCCCCcHH
Confidence 45778999999998764
No 247
>PTZ00448 hypothetical protein; Provisional
Probab=31.86 E-value=34 Score=21.31 Aligned_cols=22 Identities=14% Similarity=0.508 Sum_probs=18.4
Q ss_pred eeCCCCccccccchHHHHHHhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
|.|..|+..|........|.+.
T Consensus 315 ~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 315 LLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred ccccccccccCCHHHHHHHhhh
Confidence 7899999999877778888764
No 248
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=31.81 E-value=20 Score=21.54 Aligned_cols=31 Identities=19% Similarity=0.370 Sum_probs=18.0
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQ 53 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~ 53 (84)
..|+.|+.....+. | ... +.|+.|+.-|+..
T Consensus 39 ~kc~~C~~~~~~~~-l--------~~~~~vcp~c~~h~rlt 70 (296)
T CHL00174 39 VQCENCYGLNYKKF-L--------KSKMNICEQCGYHLKMS 70 (296)
T ss_pred eECCCccchhhHHH-H--------HHcCCCCCCCCCCcCCC
Confidence 45888876543321 1 122 6888888877643
No 249
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=31.62 E-value=38 Score=21.64 Aligned_cols=12 Identities=17% Similarity=0.764 Sum_probs=8.6
Q ss_pred CCeecCCCCccc
Q psy10072 12 KPYKCTFCPFTA 23 (84)
Q Consensus 12 k~~~c~~C~~~f 23 (84)
..|.|..||...
T Consensus 6 t~f~C~~CG~~s 17 (456)
T COG1066 6 TAFVCQECGYVS 17 (456)
T ss_pred cEEEcccCCCCC
Confidence 458888888654
No 250
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=31.53 E-value=36 Score=20.07 Aligned_cols=31 Identities=23% Similarity=0.432 Sum_probs=19.3
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~ 49 (84)
.-.|+.||+.......+ |.--.|+|..|...
T Consensus 220 ~r~CP~Cg~~W~L~~pl------h~iFdFKCD~CRLV 250 (258)
T PF10071_consen 220 ARKCPSCGGDWRLKEPL------HDIFDFKCDPCRLV 250 (258)
T ss_pred CCCCCCCCCccccCCch------hhceeccCCcceee
Confidence 34688898866555544 22222888888654
No 251
>KOG0978|consensus
Probab=31.41 E-value=16 Score=24.57 Aligned_cols=47 Identities=19% Similarity=0.373 Sum_probs=27.0
Q ss_pred CeecCCCCccccChhhHH-HH------HHhcCCce-eeCCCCccccccchHHHHH
Q psy10072 13 PYKCTFCPFTAAHSSTMS-YH------LRIHQDLK-VKCPHCAYKCVKQKDLNTH 59 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~-~h------~~~~~~~~-~~c~~C~~~f~~~~~l~~H 59 (84)
...|+.|+..+....-.. .| ++.-.+.+ -+||.|+..|...+.+..|
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence 367999986554432111 11 11112333 6999999999877655444
No 252
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=31.08 E-value=37 Score=18.99 Aligned_cols=27 Identities=26% Similarity=0.562 Sum_probs=16.7
Q ss_pred hhhcCCCCeecCCCCccccChhhHHHHHH
Q psy10072 6 RTHTGEKPYKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 6 ~~h~~~k~~~c~~C~~~f~~~~~l~~h~~ 34 (84)
+.|+|. |.|..|...-.+..+..+|..
T Consensus 48 knh~Gk--~vC~LC~T~H~~e~Sy~~H~~ 74 (222)
T COG5246 48 KNHTGK--YVCLLCKTKHLTEMSYVKHRE 74 (222)
T ss_pred hcCCCc--EEeeeeccccccHHHHHHhhc
Confidence 446664 788888766655555555543
No 253
>KOG0782|consensus
Probab=30.94 E-value=19 Score=23.91 Aligned_cols=25 Identities=20% Similarity=0.375 Sum_probs=10.5
Q ss_pred hHHHHHHhcCCce-eeCCCCcccccc
Q psy10072 28 TMSYHLRIHQDLK-VKCPHCAYKCVK 52 (84)
Q Consensus 28 ~l~~h~~~~~~~~-~~c~~C~~~f~~ 52 (84)
.+..|-..|.... -+|..|++.|.+
T Consensus 240 ~fvrHHWVHrrRqeGkC~~CgKgFQQ 265 (1004)
T KOG0782|consen 240 GFVRHHWVHRRRQEGKCNTCGKGFQQ 265 (1004)
T ss_pred cchHHhHhhHhhhccccchhhhhhhh
Confidence 3333433333333 345555554443
No 254
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=30.70 E-value=37 Score=14.84 Aligned_cols=14 Identities=29% Similarity=0.415 Sum_probs=5.7
Q ss_pred CeecCCCCccccCh
Q psy10072 13 PYKCTFCPFTAAHS 26 (84)
Q Consensus 13 ~~~c~~C~~~f~~~ 26 (84)
|.....|+-.|...
T Consensus 24 PV~s~~C~H~fek~ 37 (57)
T PF11789_consen 24 PVKSKKCGHTFEKE 37 (57)
T ss_dssp EEEESSS--EEEHH
T ss_pred CcCcCCCCCeecHH
Confidence 44444555555443
No 255
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=30.53 E-value=22 Score=21.19 Aligned_cols=30 Identities=20% Similarity=0.434 Sum_probs=18.1
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCcccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVK 52 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~ 52 (84)
..|+.|+.....+. | ... +.|+.|+.-|+.
T Consensus 27 ~~c~~c~~~~~~~~-l--------~~~~~vc~~c~~h~rl 57 (285)
T TIGR00515 27 TKCPKCGQVLYTKE-L--------ERNLEVCPKCDHHMRM 57 (285)
T ss_pred eECCCCcchhhHHH-H--------HhhCCCCCCCCCcCcC
Confidence 46888876543321 1 122 688889887764
No 256
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=30.43 E-value=52 Score=13.62 Aligned_cols=28 Identities=21% Similarity=0.476 Sum_probs=16.5
Q ss_pred CCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccc
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYK 49 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~ 49 (84)
.+|-.|..|++.. ...+.. +.|..|+..
T Consensus 9 ~~~~~C~~C~~~i-----------~g~~~~g~~C~~C~~~ 37 (53)
T PF00130_consen 9 SKPTYCDVCGKFI-----------WGLGKQGYRCSWCGLV 37 (53)
T ss_dssp SSTEB-TTSSSBE-----------CSSSSCEEEETTTT-E
T ss_pred CCCCCCcccCccc-----------CCCCCCeEEECCCCCh
Confidence 4677888888764 112333 888888754
No 257
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=30.20 E-value=54 Score=16.36 Aligned_cols=19 Identities=11% Similarity=0.216 Sum_probs=14.0
Q ss_pred CCeecCCCCccccChhhHH
Q psy10072 12 KPYKCTFCPFTAAHSSTMS 30 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~ 30 (84)
.-+.|+.||..+.......
T Consensus 30 ~~~~C~~CGe~~~~~e~~~ 48 (127)
T TIGR03830 30 PGWYCPACGEELLDPEESK 48 (127)
T ss_pred eeeECCCCCCEEEcHHHHH
Confidence 3478999999887776544
No 258
>PRK07218 replication factor A; Provisional
Probab=30.05 E-value=36 Score=21.56 Aligned_cols=10 Identities=20% Similarity=0.454 Sum_probs=6.6
Q ss_pred eecCCCCccc
Q psy10072 14 YKCTFCPFTA 23 (84)
Q Consensus 14 ~~c~~C~~~f 23 (84)
.+|+.|++..
T Consensus 298 ~rCP~C~r~v 307 (423)
T PRK07218 298 ERCPECGRVI 307 (423)
T ss_pred ecCcCccccc
Confidence 4677777654
No 259
>PF00649 Copper-fist: Copper fist DNA binding domain; InterPro: IPR001083 Some fungal transcription factors contain an N-terminal domain, the copper fist, which seems to be involved in copper-dependent DNA-binding [, ]. These proteins activate the transcription of the metallothionein gene in response to copper. Metallothionein maintains copper levels in yeast [, ]. The copper fist domain, which is similar in structure to metallothionein itself, undergoes a large conformational change on copper-binding that allows DNA-binding. The domain contains a conserved array of zinc-binding residues (Cys-X2-Cys-X8-Cys-X-His) and forms a three-stranded antiparallel beta-sheet with two short helical segments that project from one end of the beta-sheet []. Conserved residues form a basic patch that may be important for DNA binding. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0005507 copper ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1CO4_A.
Probab=30.01 E-value=52 Score=13.47 Aligned_cols=15 Identities=20% Similarity=0.339 Sum_probs=9.9
Q ss_pred CCceeeCCCCccccc
Q psy10072 37 QDLKVKCPHCAYKCV 51 (84)
Q Consensus 37 ~~~~~~c~~C~~~f~ 51 (84)
.+.+|.|..|-+.-+
T Consensus 5 ~g~KyAC~~CirGHR 19 (40)
T PF00649_consen 5 DGEKYACESCIRGHR 19 (40)
T ss_dssp TTEEEEETTTTTTSG
T ss_pred CCeEEEhhhhhCccc
Confidence 355688888866544
No 260
>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=29.53 E-value=22 Score=15.32 Aligned_cols=14 Identities=14% Similarity=0.543 Sum_probs=6.5
Q ss_pred CCCeecCCCCcccc
Q psy10072 11 EKPYKCTFCPFTAA 24 (84)
Q Consensus 11 ~k~~~c~~C~~~f~ 24 (84)
...++|..|++.+.
T Consensus 33 ~~~~rC~YCe~~~~ 46 (52)
T PF02748_consen 33 PIKLRCHYCERIIT 46 (52)
T ss_dssp TCEEEETTT--EEE
T ss_pred CCEEEeeCCCCEec
Confidence 34466666665543
No 261
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=29.29 E-value=39 Score=23.65 Aligned_cols=32 Identities=16% Similarity=0.247 Sum_probs=17.6
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCV 51 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~ 51 (84)
-.|..|++.|...... -...+..|..||..|.
T Consensus 461 dtC~~C~kkFfSlsK~------L~~RKHHCRkCGrVFC 492 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRP------LGTRAHHCRSCGIRLC 492 (1374)
T ss_pred CcccCcCCcccccccc------cccccccccCCccccC
Confidence 4589999988654110 0112255666666554
No 262
>TIGR00319 desulf_FeS4 desulfoferrodoxin FeS4 iron-binding domain. Neelaredoxin, a monomeric blue non-heme iron protein, lacks this domain.
Probab=28.61 E-value=37 Score=12.88 Aligned_cols=12 Identities=33% Similarity=0.791 Sum_probs=8.6
Q ss_pred CCeecCCCCccc
Q psy10072 12 KPYKCTFCPFTA 23 (84)
Q Consensus 12 k~~~c~~C~~~f 23 (84)
+-|.|..|+...
T Consensus 6 ~~ykC~~Cgniv 17 (34)
T TIGR00319 6 QVYKCEVCGNIV 17 (34)
T ss_pred cEEEcCCCCcEE
Confidence 467888888654
No 263
>KOG2461|consensus
Probab=28.60 E-value=29 Score=21.73 Aligned_cols=59 Identities=14% Similarity=-0.104 Sum_probs=24.2
Q ss_pred hcCCCCeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchHHHHHHhhhCCC
Q psy10072 8 HTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKDLNTHIERRHMP 66 (84)
Q Consensus 8 h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~l~~H~~~~~~~ 66 (84)
+++..+..++.+.+.+.....+..+...+.+.+ +.+..+...+.....+..++.++...
T Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 385 (396)
T KOG2461|consen 326 ATVSVWTGETIPVRTPAGQLIYTQSHSMEVAEPTDMAPNQIWKIYHTGVLGFLIITTDES 385 (396)
T ss_pred ccccccCcCcccccccccccchhhhhhcccCCCCcccccccccceeccccceeeeecccc
Confidence 344444444444444444444444444444433 34443333333333334444444433
No 264
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=28.57 E-value=34 Score=11.90 Aligned_cols=6 Identities=33% Similarity=0.894 Sum_probs=2.8
Q ss_pred cCCCCc
Q psy10072 16 CTFCPF 21 (84)
Q Consensus 16 c~~C~~ 21 (84)
|+.||.
T Consensus 2 Cp~CG~ 7 (23)
T PF13240_consen 2 CPNCGA 7 (23)
T ss_pred CcccCC
Confidence 444544
No 265
>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=28.52 E-value=37 Score=12.90 Aligned_cols=11 Identities=36% Similarity=0.845 Sum_probs=7.3
Q ss_pred CeecCCCCccc
Q psy10072 13 PYKCTFCPFTA 23 (84)
Q Consensus 13 ~~~c~~C~~~f 23 (84)
-|.|..|+...
T Consensus 4 ~ykC~~CGniv 14 (34)
T cd00974 4 VYKCEICGNIV 14 (34)
T ss_pred EEEcCCCCcEE
Confidence 46777777654
No 266
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=28.42 E-value=36 Score=12.78 Aligned_cols=10 Identities=30% Similarity=1.109 Sum_probs=4.8
Q ss_pred eeCCCCcccc
Q psy10072 41 VKCPHCAYKC 50 (84)
Q Consensus 41 ~~c~~C~~~f 50 (84)
|.|+.|+..+
T Consensus 14 Y~Cp~C~~~~ 23 (30)
T PF04438_consen 14 YRCPRCGARY 23 (30)
T ss_dssp EE-TTT--EE
T ss_pred EECCCcCCce
Confidence 7777777654
No 267
>KOG3277|consensus
Probab=28.23 E-value=59 Score=17.71 Aligned_cols=40 Identities=23% Similarity=0.595 Sum_probs=22.9
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCce-eeCCCCccccccchH
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVKQKD 55 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~~~~ 55 (84)
.|.|.+|+..-.. .+.++ ..+.|.- .+|+.|..--...++
T Consensus 79 ~yTCkvCntRs~k--tisk~-AY~~GvVivqC~gC~~~HliaDn 119 (165)
T KOG3277|consen 79 AYTCKVCNTRSTK--TISKQ-AYEKGVVIVQCPGCKNHHLIADN 119 (165)
T ss_pred EEEeeccCCcccc--ccChh-hhhCceEEEECCCCccceeehhh
Confidence 3889999865331 22222 3355666 799998754333333
No 268
>PRK12387 formate hydrogenlyase complex iron-sulfur subunit; Provisional
Probab=28.16 E-value=42 Score=18.30 Aligned_cols=18 Identities=17% Similarity=0.309 Sum_probs=13.8
Q ss_pred CCeecCCCCccccChhhH
Q psy10072 12 KPYKCTFCPFTAAHSSTM 29 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l 29 (84)
.++.|..||+.|.....+
T Consensus 113 ~~~~C~~CG~~f~~~~~i 130 (180)
T PRK12387 113 ALCNCRVCGRPFAVQKEI 130 (180)
T ss_pred CcccchhhCCccccHHHH
Confidence 467899999999866543
No 269
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=28.06 E-value=4.2 Score=18.98 Aligned_cols=18 Identities=17% Similarity=0.119 Sum_probs=7.1
Q ss_pred cCCCCeecCCCCccccCh
Q psy10072 9 TGEKPYKCTFCPFTAAHS 26 (84)
Q Consensus 9 ~~~k~~~c~~C~~~f~~~ 26 (84)
...+..-|..|+..+...
T Consensus 42 ~~~kr~~Ck~C~~~liPG 59 (85)
T PF04032_consen 42 PEIKRTICKKCGSLLIPG 59 (85)
T ss_dssp TTCCCTB-TTT--B--CT
T ss_pred hHHhcccccCCCCEEeCC
Confidence 334455677777655443
No 270
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=27.66 E-value=26 Score=20.96 Aligned_cols=30 Identities=20% Similarity=0.459 Sum_probs=17.9
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCcccccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAYKCVK 52 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~~f~~ 52 (84)
..|+.|+.....+. | ... +.|+.|+.-|+-
T Consensus 28 ~~c~~c~~~~~~~~-l--------~~~~~vc~~c~~h~rl 58 (292)
T PRK05654 28 TKCPSCGQVLYRKE-L--------EANLNVCPKCGHHMRI 58 (292)
T ss_pred eECCCccchhhHHH-H--------HhcCCCCCCCCCCeeC
Confidence 46888876543221 1 122 688889887764
No 271
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=27.63 E-value=31 Score=19.61 Aligned_cols=16 Identities=19% Similarity=0.557 Sum_probs=13.5
Q ss_pred CCCeecCCCCccccCh
Q psy10072 11 EKPYKCTFCPFTAAHS 26 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~ 26 (84)
..||.|..|.+.|..+
T Consensus 194 ~IPF~C~iCKkdy~sp 209 (259)
T COG5152 194 KIPFLCGICKKDYESP 209 (259)
T ss_pred CCceeehhchhhccch
Confidence 4699999999988766
No 272
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.58 E-value=29 Score=20.22 Aligned_cols=24 Identities=17% Similarity=0.375 Sum_probs=16.4
Q ss_pred CCCeecCCCCccccChhhHHHHHH
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLR 34 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~ 34 (84)
++...|++|+..|.....+....+
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiR 40 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIR 40 (267)
T ss_pred hceeccCcccchhhhhheecccee
Confidence 456899999998876654443333
No 273
>KOG2747|consensus
Probab=27.15 E-value=43 Score=21.10 Aligned_cols=24 Identities=17% Similarity=0.404 Sum_probs=21.3
Q ss_pred eeCCCCccccccchHHHHHHhhhC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
|.|..|.+-+.....|.+|+....
T Consensus 159 YiCEfCLkY~~s~~~l~rH~~kC~ 182 (396)
T KOG2747|consen 159 YICEFCLKYMKSRTSLQRHLKKCK 182 (396)
T ss_pred EEehHHHhHhchHHHHHHHHHhcC
Confidence 899999999999999999987644
No 274
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=27.09 E-value=27 Score=16.79 Aligned_cols=12 Identities=33% Similarity=1.043 Sum_probs=8.0
Q ss_pred eeCCCCcccccc
Q psy10072 41 VKCPHCAYKCVK 52 (84)
Q Consensus 41 ~~c~~C~~~f~~ 52 (84)
-+|+.||..|..
T Consensus 9 ~~C~~CG~d~~~ 20 (86)
T PF06170_consen 9 PRCPHCGLDYSH 20 (86)
T ss_pred CcccccCCcccc
Confidence 467778776653
No 275
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=27.04 E-value=72 Score=14.14 Aligned_cols=9 Identities=44% Similarity=1.088 Sum_probs=2.6
Q ss_pred eCCCCcccc
Q psy10072 42 KCPHCAYKC 50 (84)
Q Consensus 42 ~c~~C~~~f 50 (84)
.|+.|++.+
T Consensus 4 ~CP~C~k~~ 12 (57)
T PF03884_consen 4 KCPICGKPV 12 (57)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCee
Confidence 344444433
No 276
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=26.82 E-value=76 Score=19.84 Aligned_cols=22 Identities=18% Similarity=0.351 Sum_probs=12.4
Q ss_pred eeCCCCccccccchHHHHHHhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
..|..|...|-..+.|..|++.
T Consensus 221 P~C~FC~~~FYdDDEL~~HcR~ 242 (493)
T COG5236 221 PLCIFCKIYFYDDDELRRHCRL 242 (493)
T ss_pred chhhhccceecChHHHHHHHHh
Confidence 3555555555555556555554
No 277
>PLN03239 histone acetyltransferase; Provisional
Probab=26.79 E-value=48 Score=20.54 Aligned_cols=22 Identities=9% Similarity=0.099 Sum_probs=19.6
Q ss_pred eeCCCCccccccchHHHHHHhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIER 62 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~ 62 (84)
|.|..|.+-|.....|.+|+..
T Consensus 107 YiCE~Clky~~~~~~l~~H~~~ 128 (351)
T PLN03239 107 YVCEFSFGFFARKSELLRFQAK 128 (351)
T ss_pred EEeccchhhhcCHHHHHHHHHh
Confidence 9999999999999999999753
No 278
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=26.49 E-value=67 Score=13.65 Aligned_cols=12 Identities=33% Similarity=1.007 Sum_probs=8.7
Q ss_pred eeCCCCcccccc
Q psy10072 41 VKCPHCAYKCVK 52 (84)
Q Consensus 41 ~~c~~C~~~f~~ 52 (84)
..|+.|+..|-.
T Consensus 41 v~C~~C~~~fC~ 52 (64)
T smart00647 41 VTCPKCGFSFCF 52 (64)
T ss_pred eECCCCCCeECC
Confidence 788888877653
No 279
>KOG0801|consensus
Probab=26.34 E-value=32 Score=18.89 Aligned_cols=11 Identities=27% Similarity=0.673 Sum_probs=8.2
Q ss_pred eecCCCCcccc
Q psy10072 14 YKCTFCPFTAA 24 (84)
Q Consensus 14 ~~c~~C~~~f~ 24 (84)
++|++|.+...
T Consensus 139 ~KCPvC~K~V~ 149 (205)
T KOG0801|consen 139 MKCPVCHKVVP 149 (205)
T ss_pred ccCCccccccC
Confidence 67888887654
No 280
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=26.22 E-value=89 Score=19.69 Aligned_cols=36 Identities=31% Similarity=0.625 Sum_probs=22.3
Q ss_pred hcCCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCcccc
Q psy10072 8 HTGEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKC 50 (84)
Q Consensus 8 h~~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f 50 (84)
+.....-.|++|+.....+ ....++...|+.|+...
T Consensus 8 ~~~~~~~~C~~Cd~l~~~~-------~l~~g~~a~CpRCg~~L 43 (403)
T TIGR00155 8 HPAAKHILCSQCDMLVALP-------RIESGQKAACPRCGTTL 43 (403)
T ss_pred CCCCCeeeCCCCCCccccc-------CCCCCCeeECCCCCCCC
Confidence 4444555699999765433 12234457899998654
No 281
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=26.09 E-value=1e+02 Score=16.65 Aligned_cols=35 Identities=17% Similarity=0.463 Sum_probs=19.8
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcccc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKC 50 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f 50 (84)
...|..|++.+....... .........|+.|+...
T Consensus 105 ~~~C~~C~~~~~~~~~~~---~~~~~~~~~C~~C~~~l 139 (178)
T PF02146_consen 105 RLRCSKCGKEYDREDIVD---SIDEEEPPRCPKCGGLL 139 (178)
T ss_dssp EEEETTTSBEEEGHHHHH---HHHTTSSCBCTTTSCBE
T ss_pred eeeecCCCccccchhhcc---cccccccccccccCccC
Confidence 467888988776543211 11222225788887643
No 282
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=25.72 E-value=39 Score=17.87 Aligned_cols=49 Identities=18% Similarity=0.272 Sum_probs=27.8
Q ss_pred hhhcCCCCeecCCCCccccChhhHHHHH------------H-hcCCce-eeCCCCccccccch
Q psy10072 6 RTHTGEKPYKCTFCPFTAAHSSTMSYHL------------R-IHQDLK-VKCPHCAYKCVKQK 54 (84)
Q Consensus 6 ~~h~~~k~~~c~~C~~~f~~~~~l~~h~------------~-~~~~~~-~~c~~C~~~f~~~~ 54 (84)
..-...+.|+|..|..+......|..-. . +..... ..|+.|.-.|...+
T Consensus 73 nvF~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 73 NVFLDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred eeecCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 3446668899999987765544432110 0 111123 47888877776543
No 283
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=25.65 E-value=27 Score=12.44 Aligned_cols=6 Identities=33% Similarity=0.894 Sum_probs=3.1
Q ss_pred cCCCCc
Q psy10072 16 CTFCPF 21 (84)
Q Consensus 16 c~~C~~ 21 (84)
|+.||.
T Consensus 19 C~~CG~ 24 (26)
T PF13248_consen 19 CPNCGA 24 (26)
T ss_pred ChhhCC
Confidence 555553
No 284
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=25.60 E-value=37 Score=12.57 Aligned_cols=10 Identities=30% Similarity=0.783 Sum_probs=6.3
Q ss_pred eecCCCCccc
Q psy10072 14 YKCTFCPFTA 23 (84)
Q Consensus 14 ~~c~~C~~~f 23 (84)
|.|..|+..+
T Consensus 28 f~C~~C~~~L 37 (39)
T smart00132 28 FKCSKCGKPL 37 (39)
T ss_pred CCCcccCCcC
Confidence 5677776654
No 285
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=25.45 E-value=49 Score=13.64 Aligned_cols=31 Identities=16% Similarity=0.401 Sum_probs=18.5
Q ss_pred ecCCCCccccChhhHHHHHHhcCCc-eeeCCCCccccccc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDL-KVKCPHCAYKCVKQ 53 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~-~~~c~~C~~~f~~~ 53 (84)
.|+.||....... .... .+.|+.|+..+...
T Consensus 2 FCp~Cg~~l~~~~--------~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPKE--------GKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCcccccc--------CCCCCEEECCcCCCeEECC
Confidence 4788886442221 1122 38999999876543
No 286
>PRK07591 threonine synthase; Validated
Probab=25.30 E-value=57 Score=20.49 Aligned_cols=12 Identities=25% Similarity=0.459 Sum_probs=8.7
Q ss_pred CeecCCCCcccc
Q psy10072 13 PYKCTFCPFTAA 24 (84)
Q Consensus 13 ~~~c~~C~~~f~ 24 (84)
-+.|..|++.|.
T Consensus 18 ~l~C~~Cg~~~~ 29 (421)
T PRK07591 18 ALKCRECGAEYP 29 (421)
T ss_pred EEEeCCCCCcCC
Confidence 367888887765
No 287
>PF14375 Cys_rich_CWC: Cysteine-rich CWC
Probab=25.17 E-value=45 Score=14.04 Aligned_cols=7 Identities=14% Similarity=0.111 Sum_probs=2.8
Q ss_pred CCCCccc
Q psy10072 17 TFCPFTA 23 (84)
Q Consensus 17 ~~C~~~f 23 (84)
+.|+..|
T Consensus 2 P~Cg~~f 8 (50)
T PF14375_consen 2 PRCGAPF 8 (50)
T ss_pred CCCCCcC
Confidence 3444433
No 288
>PRK06260 threonine synthase; Validated
Probab=25.16 E-value=68 Score=19.92 Aligned_cols=10 Identities=30% Similarity=0.484 Sum_probs=5.2
Q ss_pred eecCCCCccc
Q psy10072 14 YKCTFCPFTA 23 (84)
Q Consensus 14 ~~c~~C~~~f 23 (84)
+.|..|+..|
T Consensus 4 ~~C~~cg~~~ 13 (397)
T PRK06260 4 LKCIECGKEY 13 (397)
T ss_pred EEECCCCCCC
Confidence 4555555544
No 289
>PRK11032 hypothetical protein; Provisional
Probab=24.62 E-value=26 Score=19.06 Aligned_cols=27 Identities=22% Similarity=0.536 Sum_probs=15.9
Q ss_pred CeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 13 PYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
...|..||..... .+++....|+.|+.
T Consensus 124 ~LvC~~Cg~~~~~---------~~p~~i~pCp~C~~ 150 (160)
T PRK11032 124 NLVCEKCHHHLAF---------YTPEVLPLCPKCGH 150 (160)
T ss_pred eEEecCCCCEEEe---------cCCCcCCCCCCCCC
Confidence 4778888854211 12233368888875
No 290
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=24.52 E-value=25 Score=23.93 Aligned_cols=8 Identities=38% Similarity=1.173 Sum_probs=5.2
Q ss_pred eeCCCCcc
Q psy10072 41 VKCPHCAY 48 (84)
Q Consensus 41 ~~c~~C~~ 48 (84)
..|+.|+-
T Consensus 476 ~~Cp~Cgs 483 (730)
T COG1198 476 QSCPECGS 483 (730)
T ss_pred CCCCCCCC
Confidence 56777764
No 291
>KOG1702|consensus
Probab=24.37 E-value=33 Score=19.62 Aligned_cols=33 Identities=15% Similarity=0.213 Sum_probs=16.7
Q ss_pred ecCCCCccccChhhHHHHHHhcCCceeeCCCCc
Q psy10072 15 KCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCA 47 (84)
Q Consensus 15 ~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~ 47 (84)
.|..||+....-..+..-........|+|..|+
T Consensus 6 n~~~cgk~vYPvE~v~cldk~whk~cfkce~c~ 38 (264)
T KOG1702|consen 6 NREDCGKTVYPVEEVKCLDKVWHKQCFKCEVCG 38 (264)
T ss_pred hhhhhccccccHHHHhhHHHHHHHHhheeeecc
Confidence 455666654433334433344444446666665
No 292
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=24.28 E-value=38 Score=14.67 Aligned_cols=12 Identities=17% Similarity=0.534 Sum_probs=8.4
Q ss_pred ecCCCCccccCh
Q psy10072 15 KCTFCPFTAAHS 26 (84)
Q Consensus 15 ~c~~C~~~f~~~ 26 (84)
.|+.||..+...
T Consensus 2 ~CPyCge~~~~~ 13 (52)
T PF14255_consen 2 QCPYCGEPIEIL 13 (52)
T ss_pred CCCCCCCeeEEE
Confidence 588888776543
No 293
>PF04161 Arv1: Arv1-like family ; InterPro: IPR007290 Arv1 is a transmembrane protein, with potential zinc-binding motifs, that mediates sterol homeostasis. Its action is important in lipid homeostasis, which prevents free sterol toxicity []. Arv1 contains a homology domain (AHD), which consists of an N-terminal cysteine-rich subdomain with a putative zinc-binding motif, followed by a C-terminal subdomain of 33 amino acids. The C-terminal subdomain of the AHD is critical for the protein's function []. In yeast, Arv1p is important for the delivery of an early glycosylphosphatidylinositol GPI intermediate, GlcN-acylPI, to the first mannosyltransferase of GPI synthesis in the ER lumen []. It is important for the traffic of sterol in yeast and in humans. In eukaryotic cells, it may fuction in the sphingolipid metabolic pathway as a transporter of ceramides between the ER and Golgi [].
Probab=24.16 E-value=56 Score=18.38 Aligned_cols=31 Identities=19% Similarity=0.465 Sum_probs=16.2
Q ss_pred eecCCCCccccChhhHHHHHHhcCCce-eeCCCCcc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLK-VKCPHCAY 48 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~-~~c~~C~~ 48 (84)
+.|.+||.....-. .+. .....+ -.|+.|++
T Consensus 1 miCIeCg~~v~~Ly--~~Y--s~~~irLt~C~~C~~ 32 (208)
T PF04161_consen 1 MICIECGHPVKSLY--RQY--SPGNIRLTKCPNCGK 32 (208)
T ss_pred CEeccCCCcchhhh--hcc--CCCcEEEeeccccCC
Confidence 36888886632211 111 122234 68888876
No 294
>PF12773 DZR: Double zinc ribbon
Probab=23.92 E-value=44 Score=13.73 Aligned_cols=9 Identities=33% Similarity=1.017 Sum_probs=6.1
Q ss_pred eeCCCCccc
Q psy10072 41 VKCPHCAYK 49 (84)
Q Consensus 41 ~~c~~C~~~ 49 (84)
..|+.|+..
T Consensus 30 ~~C~~Cg~~ 38 (50)
T PF12773_consen 30 KICPNCGAE 38 (50)
T ss_pred CCCcCCcCC
Confidence 567777764
No 295
>PLN02748 tRNA dimethylallyltransferase
Probab=23.83 E-value=69 Score=20.69 Aligned_cols=23 Identities=17% Similarity=0.326 Sum_probs=13.7
Q ss_pred CCeecCCCCc-cccChhhHHHHHH
Q psy10072 12 KPYKCTFCPF-TAAHSSTMSYHLR 34 (84)
Q Consensus 12 k~~~c~~C~~-~f~~~~~l~~h~~ 34 (84)
+.|.|..|++ ++........|+.
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlk 440 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQ 440 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhc
Confidence 3456777775 5655555555554
No 296
>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=23.65 E-value=26 Score=19.85 Aligned_cols=29 Identities=10% Similarity=0.224 Sum_probs=0.0
Q ss_pred eeCCCCccccccchHHHHHHhhhCCCCChh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRHMPGDVL 70 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~~~~~~~ 70 (84)
..|+.||.... .+.+..||++.....-|.
T Consensus 169 ~~cPitGe~IP-~~e~~eHmRi~LlDP~wk 197 (229)
T PF12230_consen 169 IICPITGEMIP-ADEMDEHMRIELLDPRWK 197 (229)
T ss_dssp ------------------------------
T ss_pred ccccccccccc-cccccccccccccccccc
Confidence 57777776554 334667776655444443
No 297
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=23.58 E-value=1.4e+02 Score=16.44 Aligned_cols=52 Identities=23% Similarity=0.377 Sum_probs=27.8
Q ss_pred CeecCC----CCccccChhhHHHHHHhcCCceeeCCC----CccccccchHHHHHHhhhCCC
Q psy10072 13 PYKCTF----CPFTAAHSSTMSYHLRIHQDLKVKCPH----CAYKCVKQKDLNTHIERRHMP 66 (84)
Q Consensus 13 ~~~c~~----C~~~f~~~~~l~~h~~~~~~~~~~c~~----C~~~f~~~~~l~~H~~~~~~~ 66 (84)
.+.|+. |...+... ....|.....-.++.|+. |+-.- ....|..|....|..
T Consensus 14 ~~pC~~~~~GC~~~~~~~-~~~~HE~~C~~~p~~CP~~~~~C~~~G-~~~~l~~Hl~~~H~~ 73 (198)
T PF03145_consen 14 KFPCKNAKYGCTETFPYS-EKREHEEECPFRPCSCPFPGSGCDWQG-SYKELLDHLRDKHSW 73 (198)
T ss_dssp -EE-CCGGGT---EE-GG-GHHHHHHT-TTSEEE-SSSSTT---EE-ECCCHHHHHHHHTTT
T ss_pred eecCCCCCCCCccccccc-ChhhHhccCCCcCCcCCCCCCCccccC-CHHHHHHHHHHHCCC
Confidence 466765 77665544 567888877777788877 44322 345688898876654
No 298
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=23.50 E-value=1.1e+02 Score=17.67 Aligned_cols=34 Identities=15% Similarity=0.430 Sum_probs=18.4
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
....|..|++.+....... .........|+.|+-
T Consensus 118 ~~~~C~~C~~~~~~~~~~~---~~~~~~~p~Cp~Cgg 151 (244)
T PRK14138 118 EEYYCVRCGKRYTVEDVIE---KLEKSDVPRCDDCSG 151 (244)
T ss_pred CeeEECCCCCcccHHHHHH---HHhcCCCCCCCCCCC
Confidence 4467888988776543322 111111256888863
No 299
>PF09855 DUF2082: Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); InterPro: IPR018652 This family of proteins contains various hypothetical prokaryotic proteins as well as some Zn-ribbon nucleic-acid-binding proteins.
Probab=23.45 E-value=35 Score=15.46 Aligned_cols=8 Identities=50% Similarity=1.348 Sum_probs=4.6
Q ss_pred eeCCCCcc
Q psy10072 41 VKCPHCAY 48 (84)
Q Consensus 41 ~~c~~C~~ 48 (84)
|.|+.|+.
T Consensus 1 y~C~KCg~ 8 (64)
T PF09855_consen 1 YKCPKCGN 8 (64)
T ss_pred CCCCCCCC
Confidence 45666654
No 300
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=23.41 E-value=57 Score=20.30 Aligned_cols=8 Identities=38% Similarity=1.161 Sum_probs=4.4
Q ss_pred CeecCCCC
Q psy10072 13 PYKCTFCP 20 (84)
Q Consensus 13 ~~~c~~C~ 20 (84)
+|.|..||
T Consensus 354 ~YRC~~CG 361 (389)
T COG2956 354 RYRCQNCG 361 (389)
T ss_pred CceecccC
Confidence 35555555
No 301
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.27 E-value=51 Score=15.05 Aligned_cols=12 Identities=17% Similarity=0.384 Sum_probs=8.8
Q ss_pred eecCCCCccccC
Q psy10072 14 YKCTFCPFTAAH 25 (84)
Q Consensus 14 ~~c~~C~~~f~~ 25 (84)
-.|+.|++....
T Consensus 8 v~CP~Cgkpv~w 19 (65)
T COG3024 8 VPCPTCGKPVVW 19 (65)
T ss_pred ccCCCCCCcccc
Confidence 468999887554
No 302
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=23.20 E-value=47 Score=20.35 Aligned_cols=23 Identities=17% Similarity=0.300 Sum_probs=15.3
Q ss_pred eeCCCCccccccchHHHHHHhhh
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERR 63 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~ 63 (84)
|+|+.|...|...-....|...|
T Consensus 389 Y~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 389 YQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred eechhhhhhhhhhhHHHHHHHHh
Confidence 77777777777666666665444
No 303
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=22.32 E-value=1.2e+02 Score=17.25 Aligned_cols=33 Identities=15% Similarity=0.335 Sum_probs=18.0
Q ss_pred CCeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 12 KPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 12 k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
....|..|+..+..... . .........|+.|+.
T Consensus 112 ~~~~C~~C~~~~~~~~~-~---~~~~~~~p~C~~Cgg 144 (222)
T cd01413 112 QTAYCVNCGSKYDLEEV-K---YAKKHEVPRCPKCGG 144 (222)
T ss_pred CcceECCCCCCcchhHH-H---HhccCCCCcCCCCCC
Confidence 44678889887765432 1 111112257888864
No 304
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=22.16 E-value=14 Score=21.72 Aligned_cols=9 Identities=22% Similarity=0.475 Sum_probs=4.0
Q ss_pred eecCCCCcc
Q psy10072 14 YKCTFCPFT 22 (84)
Q Consensus 14 ~~c~~C~~~ 22 (84)
-.|++||..
T Consensus 173 g~CPvCGs~ 181 (290)
T PF04216_consen 173 GYCPVCGSP 181 (290)
T ss_dssp SS-TTT---
T ss_pred CcCCCCCCc
Confidence 379999964
No 305
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.14 E-value=84 Score=18.38 Aligned_cols=9 Identities=44% Similarity=0.929 Sum_probs=7.4
Q ss_pred eeCCCCccc
Q psy10072 41 VKCPHCAYK 49 (84)
Q Consensus 41 ~~c~~C~~~ 49 (84)
..|+.||+-
T Consensus 222 v~CP~CgRI 230 (239)
T COG1579 222 VFCPYCGRI 230 (239)
T ss_pred ccCCccchH
Confidence 789999873
No 306
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=21.96 E-value=63 Score=15.78 Aligned_cols=17 Identities=18% Similarity=0.548 Sum_probs=12.8
Q ss_pred eecCCCCccccChhhHH
Q psy10072 14 YKCTFCPFTAAHSSTMS 30 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~ 30 (84)
..|+.||..|.....+.
T Consensus 36 ~~C~~CGe~y~~dev~~ 52 (89)
T TIGR03829 36 ISCSHCGMEYQDDTTVK 52 (89)
T ss_pred ccccCCCcEeecHHHHH
Confidence 56999999887776544
No 307
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=21.95 E-value=64 Score=14.51 Aligned_cols=15 Identities=20% Similarity=0.458 Sum_probs=9.8
Q ss_pred CeecCCCCccccChh
Q psy10072 13 PYKCTFCPFTAAHSS 27 (84)
Q Consensus 13 ~~~c~~C~~~f~~~~ 27 (84)
|-+|-.||+......
T Consensus 4 PVRCFTCGkvi~~~~ 18 (60)
T PF01194_consen 4 PVRCFTCGKVIGNKW 18 (60)
T ss_dssp SSS-STTTSBTCGHH
T ss_pred ceecCCCCCChhHhH
Confidence 667888888766543
No 308
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=21.69 E-value=31 Score=19.46 Aligned_cols=21 Identities=24% Similarity=0.547 Sum_probs=0.0
Q ss_pred eeCCCCcc-ccccchHHHHHHh
Q psy10072 41 VKCPHCAY-KCVKQKDLNTHIE 61 (84)
Q Consensus 41 ~~c~~C~~-~f~~~~~l~~H~~ 61 (84)
|.|..||- .|.=+..+.+|-.
T Consensus 102 y~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 102 YKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp ----------------------
T ss_pred eeeEeCCCcceecHHHHHHhcC
Confidence 88888874 5555666666643
No 309
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=21.65 E-value=42 Score=14.65 Aligned_cols=19 Identities=26% Similarity=0.466 Sum_probs=14.5
Q ss_pred eeCCCCccccccchHHHHH
Q psy10072 41 VKCPHCAYKCVKQKDLNTH 59 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H 59 (84)
+-|..|+..|.....|..+
T Consensus 28 ~YC~~Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 28 NYCFWCGTKYDDEEDLERN 46 (55)
T ss_pred ceeeeeCCccCCHHHHHhC
Confidence 6788899888887776543
No 310
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=21.49 E-value=59 Score=19.07 Aligned_cols=36 Identities=22% Similarity=0.404 Sum_probs=20.0
Q ss_pred CCCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCcc
Q psy10072 10 GEKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAY 48 (84)
Q Consensus 10 ~~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~ 48 (84)
.-..+.|..|+..+..... .. ....+....|+.|+.
T Consensus 119 sl~~~~C~~C~~~~~~~~~-~~--~~~~~~~p~C~~Cg~ 154 (250)
T COG0846 119 SLKRVRCSKCGNQYYDEDV-IK--FIEDGLIPRCPKCGG 154 (250)
T ss_pred ceeeeEeCCCcCccchhhh-hh--hcccCCCCcCccCCC
Confidence 3456788999877764431 11 111122267888876
No 311
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.15 E-value=1.9e+02 Score=18.26 Aligned_cols=24 Identities=21% Similarity=0.447 Sum_probs=12.1
Q ss_pred cCCce-eeCCCCc-cccccchHHHHH
Q psy10072 36 HQDLK-VKCPHCA-YKCVKQKDLNTH 59 (84)
Q Consensus 36 ~~~~~-~~c~~C~-~~f~~~~~l~~H 59 (84)
|.-.+ |.|..|+ +++.-...+-+|
T Consensus 369 hgLd~ef~CEICgNyvy~GR~~FdrH 394 (470)
T COG5188 369 HGLDIEFECEICGNYVYYGRDRFDRH 394 (470)
T ss_pred cCCCcceeeeecccccccchHHHHhh
Confidence 44334 6666666 444444444444
No 312
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=21.03 E-value=64 Score=14.74 Aligned_cols=11 Identities=9% Similarity=0.102 Sum_probs=6.4
Q ss_pred eecCCCCcccc
Q psy10072 14 YKCTFCPFTAA 24 (84)
Q Consensus 14 ~~c~~C~~~f~ 24 (84)
..++-|++.|.
T Consensus 11 ~~~~cC~~~y~ 21 (71)
T PF05495_consen 11 IRFPCCGKYYP 21 (71)
T ss_dssp EEETTTTEEES
T ss_pred EECCcccCeec
Confidence 45566666554
No 313
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=20.96 E-value=28 Score=15.52 Aligned_cols=10 Identities=30% Similarity=0.727 Sum_probs=4.9
Q ss_pred eeCCCCcccc
Q psy10072 41 VKCPHCAYKC 50 (84)
Q Consensus 41 ~~c~~C~~~f 50 (84)
..|+.|...|
T Consensus 45 PVCP~Ck~iy 54 (58)
T PF11238_consen 45 PVCPECKEIY 54 (58)
T ss_pred CCCcCHHHHH
Confidence 3555555443
No 314
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=20.86 E-value=68 Score=11.77 Aligned_cols=7 Identities=29% Similarity=1.132 Sum_probs=4.1
Q ss_pred eeCCCCc
Q psy10072 41 VKCPHCA 47 (84)
Q Consensus 41 ~~c~~C~ 47 (84)
|.|..|.
T Consensus 16 Y~C~~c~ 22 (30)
T PF03107_consen 16 YHCSECC 22 (30)
T ss_pred EEeCCCC
Confidence 5665555
No 315
>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=20.83 E-value=19 Score=21.32 Aligned_cols=17 Identities=41% Similarity=1.081 Sum_probs=9.0
Q ss_pred eeCCCCccccccchHHH
Q psy10072 41 VKCPHCAYKCVKQKDLN 57 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~ 57 (84)
+.|+.|+........|.
T Consensus 210 ~PCPKCg~et~eTkdLS 226 (314)
T PF06524_consen 210 IPCPKCGYETQETKDLS 226 (314)
T ss_pred CCCCCCCCcccccccce
Confidence 56666665544444433
No 316
>COG5027 SAS2 Histone acetyltransferase (MYST family) [Chromatin structure and dynamics]
Probab=20.65 E-value=67 Score=20.07 Aligned_cols=24 Identities=21% Similarity=0.281 Sum_probs=21.2
Q ss_pred eeCCCCccccccchHHHHHHhhhC
Q psy10072 41 VKCPHCAYKCVKQKDLNTHIERRH 64 (84)
Q Consensus 41 ~~c~~C~~~f~~~~~l~~H~~~~~ 64 (84)
|.|..|.+.|.....|.+|+....
T Consensus 159 yICefClkY~~s~~~~~rH~~kC~ 182 (395)
T COG5027 159 YICEFCLKYYGSQTSLVRHRKKCS 182 (395)
T ss_pred EEhhhhHHHhcchhHHHHHHhcCc
Confidence 899999999999999999987643
No 317
>PF01844 HNH: HNH endonuclease; InterPro: IPR002711 HNH endonuclease is found in bacteria and viruses [, , ]. This family includes pyocins, colicins and anaredoxins.; GO: 0003676 nucleic acid binding, 0004519 endonuclease activity; PDB: 2QGP_C.
Probab=20.53 E-value=47 Score=13.17 Aligned_cols=10 Identities=20% Similarity=0.843 Sum_probs=2.4
Q ss_pred cCCCCccccC
Q psy10072 16 CTFCPFTAAH 25 (84)
Q Consensus 16 c~~C~~~f~~ 25 (84)
|..|++.+..
T Consensus 1 C~~C~~~~~~ 10 (47)
T PF01844_consen 1 CQYCGKPGSD 10 (47)
T ss_dssp -TTT--B--G
T ss_pred CCCCCCcCcc
Confidence 4455554433
No 318
>KOG3214|consensus
Probab=20.45 E-value=60 Score=16.29 Aligned_cols=40 Identities=23% Similarity=0.505 Sum_probs=21.1
Q ss_pred CCCeecCCCCccccChhhHHHHHHhcCCceeeCCCCccccccc
Q psy10072 11 EKPYKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYKCVKQ 53 (84)
Q Consensus 11 ~k~~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~f~~~ 53 (84)
+..|.|+.|.---...-.+. +.+.-....|..|+..|...
T Consensus 21 dt~FnClfcnHek~v~~~~D---k~~~iG~~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 21 DTQFNCLFCNHEKSVSCTLD---KKHNIGKASCRICEESFQTT 60 (109)
T ss_pred heeeccCccccccceeeeeh---hhcCcceeeeeehhhhhccc
Confidence 34577888864321111111 11222226899999888754
No 319
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=20.41 E-value=68 Score=21.67 Aligned_cols=8 Identities=38% Similarity=0.991 Sum_probs=5.2
Q ss_pred eeCCCCcc
Q psy10072 41 VKCPHCAY 48 (84)
Q Consensus 41 ~~c~~C~~ 48 (84)
+.|+.||.
T Consensus 640 ~~CP~CG~ 647 (656)
T PRK08270 640 EFCPKCGE 647 (656)
T ss_pred CCCcCCcC
Confidence 66777764
No 320
>PRK12366 replication factor A; Reviewed
Probab=20.19 E-value=73 Score=21.41 Aligned_cols=25 Identities=24% Similarity=0.495 Sum_probs=16.0
Q ss_pred eecCCCCccccChhhHHHHHHhcCCceeeCCCCccc
Q psy10072 14 YKCTFCPFTAAHSSTMSYHLRIHQDLKVKCPHCAYK 49 (84)
Q Consensus 14 ~~c~~C~~~f~~~~~l~~h~~~~~~~~~~c~~C~~~ 49 (84)
..|+.|++.... ....|.|+.|++.
T Consensus 533 ~aCp~CnkKv~~-----------~~g~~~C~~c~~~ 557 (637)
T PRK12366 533 YLCPNCRKRVEE-----------VDGEYICEFCGEV 557 (637)
T ss_pred ecccccCeEeEc-----------CCCcEECCCCCCC
Confidence 468888776431 1123899999875
Done!