Query psy12258
Match_columns 171
No_of_seqs 137 out of 1906
Neff 10.9
Searched_HMMs 46136
Date Fri Aug 16 22:45:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12258.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12258hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 1.7E-32 3.8E-37 185.3 4.7 131 1-134 132-265 (279)
2 KOG2462|consensus 99.9 7.5E-25 1.6E-29 148.5 5.4 103 1-106 163-265 (279)
3 KOG1074|consensus 99.9 1.5E-22 3.1E-27 154.5 1.9 87 56-142 605-698 (958)
4 KOG3608|consensus 99.8 5.5E-21 1.2E-25 133.6 7.5 133 2-136 182-316 (467)
5 KOG3576|consensus 99.8 7.5E-20 1.6E-24 119.1 2.1 115 26-141 116-241 (267)
6 KOG1074|consensus 99.8 2.1E-19 4.6E-24 137.5 4.7 143 1-144 607-939 (958)
7 KOG3608|consensus 99.7 1.9E-18 4.1E-23 121.1 5.9 132 2-136 240-376 (467)
8 KOG3576|consensus 99.7 3.5E-19 7.5E-24 116.0 2.0 110 2-112 120-240 (267)
9 KOG3623|consensus 99.7 1.1E-17 2.5E-22 126.6 2.6 106 28-133 211-330 (1007)
10 KOG3623|consensus 99.6 2.8E-16 6.1E-21 119.2 3.8 80 54-133 892-971 (1007)
11 PLN03086 PRLI-interacting fact 99.4 2.9E-13 6.3E-18 102.5 5.3 103 26-136 452-564 (567)
12 PHA00733 hypothetical protein 99.3 6.1E-12 1.3E-16 78.8 4.3 82 54-137 38-124 (128)
13 PHA00733 hypothetical protein 99.2 2.6E-11 5.7E-16 75.9 3.7 83 25-109 38-124 (128)
14 PHA02768 hypothetical protein; 99.1 3.2E-11 7E-16 62.9 2.1 44 84-129 5-48 (55)
15 PLN03086 PRLI-interacting fact 99.1 1.7E-10 3.7E-15 87.8 6.3 98 1-106 455-562 (567)
16 PHA02768 hypothetical protein; 98.9 7E-10 1.5E-14 58.0 2.1 39 28-69 6-44 (55)
17 KOG3993|consensus 98.8 4.1E-10 8.8E-15 81.5 -0.3 49 1-49 269-317 (500)
18 PF13465 zf-H2C2_2: Zinc-finge 98.8 3.1E-09 6.8E-14 47.6 1.9 25 99-123 1-25 (26)
19 PF13465 zf-H2C2_2: Zinc-finge 98.8 4.4E-09 9.6E-14 47.1 2.0 25 14-38 1-25 (26)
20 KOG3993|consensus 98.7 2.7E-09 5.8E-14 77.3 -0.1 110 28-138 268-382 (500)
21 PHA00616 hypothetical protein 98.6 4.8E-08 1E-12 48.6 2.4 33 84-116 1-33 (44)
22 PHA00616 hypothetical protein 98.5 4.9E-08 1.1E-12 48.6 1.5 30 112-141 1-30 (44)
23 PHA00732 hypothetical protein 98.5 9E-08 1.9E-12 54.7 2.5 43 85-133 2-45 (79)
24 PF05605 zf-Di19: Drought indu 98.5 3.4E-07 7.4E-12 48.6 4.1 50 84-136 2-53 (54)
25 PF00096 zf-C2H2: Zinc finger, 98.3 3.3E-07 7.1E-12 39.7 1.4 23 113-135 1-23 (23)
26 PF05605 zf-Di19: Drought indu 98.2 1.5E-06 3.3E-11 46.1 3.3 36 28-64 3-39 (54)
27 PF13894 zf-C2H2_4: C2H2-type 98.2 1.1E-06 2.5E-11 38.3 1.6 24 113-136 1-24 (24)
28 PHA00732 hypothetical protein 98.1 1E-06 2.2E-11 50.4 1.5 17 30-46 4-20 (79)
29 PF13912 zf-C2H2_6: C2H2-type 98.0 2E-06 4.2E-11 38.8 0.8 26 112-137 1-26 (27)
30 PF12756 zf-C2H2_2: C2H2 type 97.9 5.1E-06 1.1E-10 49.9 1.8 24 112-135 50-73 (100)
31 PF12756 zf-C2H2_2: C2H2 type 97.9 8.6E-06 1.9E-10 48.9 2.3 24 84-107 50-73 (100)
32 COG5189 SFP1 Putative transcri 97.9 3.5E-06 7.6E-11 59.5 0.5 53 81-133 346-419 (423)
33 PF00096 zf-C2H2: Zinc finger, 97.8 8.2E-06 1.8E-10 35.2 1.2 22 85-106 1-22 (23)
34 COG5189 SFP1 Putative transcri 97.6 1.7E-05 3.7E-10 56.1 0.6 71 25-105 347-419 (423)
35 PF13894 zf-C2H2_4: C2H2-type 97.6 4.1E-05 8.9E-10 33.1 1.6 23 85-107 1-23 (24)
36 smart00355 ZnF_C2H2 zinc finge 97.5 8.3E-05 1.8E-09 32.7 2.1 24 113-136 1-24 (26)
37 PF13912 zf-C2H2_6: C2H2-type 97.4 4.8E-05 1E-09 34.1 0.7 21 28-48 2-22 (27)
38 PF13909 zf-H2C2_5: C2H2-type 97.4 8.2E-05 1.8E-09 32.3 1.4 23 113-136 1-23 (24)
39 KOG1146|consensus 97.4 0.0001 2.2E-09 61.3 2.8 102 30-134 439-540 (1406)
40 PF09237 GAGA: GAGA factor; I 97.1 0.00016 3.5E-09 36.9 0.6 30 109-138 21-50 (54)
41 PF12874 zf-met: Zinc-finger o 97.1 0.0002 4.3E-09 31.4 0.9 23 113-135 1-23 (25)
42 PF09237 GAGA: GAGA factor; I 97.0 0.0009 1.9E-08 34.3 2.6 20 58-77 26-45 (54)
43 smart00355 ZnF_C2H2 zinc finge 97.0 0.00086 1.9E-08 29.2 2.3 23 85-107 1-23 (26)
44 COG5236 Uncharacterized conser 97.0 0.0042 9.1E-08 44.9 6.7 125 5-140 159-309 (493)
45 PRK04860 hypothetical protein; 96.9 0.00031 6.7E-09 45.8 0.8 40 83-126 118-157 (160)
46 KOG2231|consensus 96.7 0.0067 1.5E-07 48.0 6.4 95 9-109 124-237 (669)
47 KOG2231|consensus 96.6 0.0048 1E-07 48.8 5.0 99 30-136 118-236 (669)
48 PF13909 zf-H2C2_5: C2H2-type 96.5 0.0016 3.4E-08 28.2 1.3 23 85-108 1-23 (24)
49 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0011 2.3E-08 29.7 -0.5 22 113-134 2-23 (27)
50 PF12171 zf-C2H2_jaz: Zinc-fin 96.0 0.0017 3.7E-08 29.0 0.0 21 28-48 2-22 (27)
51 PF13913 zf-C2HC_2: zinc-finge 95.8 0.0072 1.6E-07 26.4 1.6 19 114-133 4-22 (25)
52 COG5236 Uncharacterized conser 95.6 0.0059 1.3E-07 44.2 1.5 103 27-136 151-275 (493)
53 PRK04860 hypothetical protein; 95.5 0.0064 1.4E-07 39.8 1.1 38 56-97 119-156 (160)
54 COG5048 FOG: Zn-finger [Genera 95.1 0.0049 1.1E-07 46.5 -0.4 139 1-140 291-446 (467)
55 COG4049 Uncharacterized protei 95.0 0.0098 2.1E-07 31.0 0.7 25 82-106 15-39 (65)
56 KOG1146|consensus 94.8 0.014 2.9E-07 49.4 1.4 104 28-136 1229-1352(1406)
57 cd00350 rubredoxin_like Rubred 94.6 0.012 2.5E-07 27.6 0.4 10 111-120 16-25 (33)
58 PF12013 DUF3505: Protein of u 94.3 0.069 1.5E-06 32.6 3.4 83 54-137 9-109 (109)
59 smart00451 ZnF_U1 U1-like zinc 94.2 0.031 6.7E-07 26.3 1.3 22 112-133 3-24 (35)
60 COG4049 Uncharacterized protei 94.2 0.027 5.9E-07 29.4 1.1 29 108-136 13-41 (65)
61 KOG2482|consensus 94.1 0.067 1.5E-06 38.9 3.3 107 27-133 195-355 (423)
62 smart00451 ZnF_U1 U1-like zinc 93.9 0.031 6.7E-07 26.3 1.0 22 27-48 3-24 (35)
63 KOG4173|consensus 93.7 0.049 1.1E-06 36.7 1.9 47 28-78 80-128 (253)
64 KOG4173|consensus 93.7 0.17 3.8E-06 34.2 4.4 79 54-135 77-170 (253)
65 PF09538 FYDLN_acid: Protein o 93.4 0.038 8.2E-07 33.7 1.0 30 28-69 10-39 (108)
66 PF12013 DUF3505: Protein of u 93.1 0.15 3.3E-06 31.1 3.4 83 26-109 10-109 (109)
67 KOG2893|consensus 92.4 0.053 1.1E-06 37.4 0.7 41 30-75 13-53 (341)
68 KOG2482|consensus 92.2 0.4 8.6E-06 35.1 4.8 110 27-136 144-303 (423)
69 TIGR00622 ssl1 transcription f 91.7 0.15 3.3E-06 31.1 2.1 92 25-136 13-105 (112)
70 TIGR00622 ssl1 transcription f 91.1 0.2 4.4E-06 30.6 2.1 18 1-18 17-34 (112)
71 PF10571 UPF0547: Uncharacteri 90.5 0.15 3.2E-06 22.5 0.9 10 29-38 16-25 (26)
72 COG2888 Predicted Zn-ribbon RN 90.5 0.17 3.6E-06 26.9 1.2 9 111-119 49-57 (61)
73 PRK14890 putative Zn-ribbon RN 90.2 0.16 3.5E-06 27.0 1.0 9 111-119 47-55 (59)
74 PHA00626 hypothetical protein 89.8 0.075 1.6E-06 27.8 -0.4 15 110-124 21-35 (59)
75 PRK00464 nrdR transcriptional 89.7 0.037 8.1E-07 35.9 -1.9 12 113-124 29-40 (154)
76 cd00729 rubredoxin_SM Rubredox 89.6 0.11 2.5E-06 24.4 0.2 8 112-119 18-25 (34)
77 KOG2893|consensus 89.1 0.085 1.8E-06 36.5 -0.7 35 59-97 13-47 (341)
78 PF13719 zinc_ribbon_5: zinc-r 88.8 0.16 3.4E-06 24.5 0.3 8 113-120 26-33 (37)
79 COG5048 FOG: Zn-finger [Genera 88.7 0.13 2.8E-06 38.8 -0.0 58 83-140 288-351 (467)
80 TIGR02300 FYDLN_acid conserved 88.4 0.24 5.2E-06 30.8 1.0 30 28-69 10-39 (129)
81 KOG2186|consensus 86.9 0.39 8.4E-06 33.6 1.5 46 28-77 4-49 (276)
82 PF13717 zinc_ribbon_4: zinc-r 86.9 0.26 5.6E-06 23.6 0.4 6 114-119 27-32 (36)
83 PF06524 NOA36: NOA36 protein; 86.8 0.24 5.2E-06 34.7 0.4 80 54-135 140-232 (314)
84 COG1592 Rubrerythrin [Energy p 86.7 0.32 7E-06 32.0 0.9 24 84-120 134-157 (166)
85 smart00659 RPOLCX RNA polymera 86.4 0.26 5.7E-06 24.7 0.3 10 85-94 3-12 (44)
86 PF09986 DUF2225: Uncharacteri 86.2 0.13 2.8E-06 35.5 -1.2 40 1-40 7-61 (214)
87 TIGR02098 MJ0042_CXXC MJ0042 f 86.2 0.49 1.1E-05 22.7 1.2 14 28-41 3-16 (38)
88 KOG2785|consensus 85.9 0.66 1.4E-05 34.5 2.2 21 28-48 4-24 (390)
89 PF09986 DUF2225: Uncharacteri 85.8 0.24 5.3E-06 34.1 0.0 45 25-69 3-61 (214)
90 TIGR00373 conserved hypothetic 85.5 0.69 1.5E-05 30.3 2.0 36 79-123 104-139 (158)
91 smart00834 CxxC_CXXC_SSSS Puta 84.9 0.11 2.4E-06 25.4 -1.5 10 85-94 6-15 (41)
92 smart00734 ZnF_Rad18 Rad18-lik 84.2 1 2.2E-05 19.8 1.6 18 2-20 4-21 (26)
93 TIGR00373 conserved hypothetic 84.1 0.7 1.5E-05 30.3 1.6 16 56-71 109-124 (158)
94 PF02892 zf-BED: BED zinc fing 83.1 0.92 2E-05 22.6 1.5 25 110-134 14-42 (45)
95 PF14353 CpXC: CpXC protein 82.9 0.52 1.1E-05 29.6 0.6 47 1-48 3-59 (128)
96 smart00531 TFIIE Transcription 82.5 1.2 2.7E-05 28.7 2.3 15 25-39 97-111 (147)
97 TIGR02605 CxxC_CxxC_SSSS putat 81.9 0.19 4.1E-06 26.1 -1.4 11 85-95 6-16 (52)
98 PF08274 PhnA_Zn_Ribbon: PhnA 81.9 0.46 1E-05 21.7 0.1 24 86-120 4-27 (30)
99 PRK06266 transcription initiat 81.6 0.89 1.9E-05 30.5 1.4 35 81-124 114-148 (178)
100 PRK06266 transcription initiat 80.7 1 2.2E-05 30.2 1.4 14 27-40 117-130 (178)
101 PRK00398 rpoP DNA-directed RNA 79.5 0.41 8.9E-06 24.2 -0.6 10 85-94 4-13 (46)
102 smart00614 ZnF_BED BED zinc fi 79.2 1.5 3.4E-05 22.5 1.5 22 113-134 19-45 (50)
103 PF04959 ARS2: Arsenite-resist 78.0 0.94 2E-05 31.2 0.6 27 111-137 76-102 (214)
104 COG1997 RPL43A Ribosomal prote 77.5 0.82 1.8E-05 26.5 0.2 31 83-123 34-64 (89)
105 PF09723 Zn-ribbon_8: Zinc rib 77.1 1.3 2.8E-05 21.9 0.8 13 28-40 6-18 (42)
106 PRK09678 DNA-binding transcrip 77.0 0.42 9.2E-06 26.8 -1.0 41 85-127 2-44 (72)
107 COG1996 RPC10 DNA-directed RNA 76.4 0.88 1.9E-05 23.4 0.1 10 85-94 7-16 (49)
108 PF05443 ROS_MUCR: ROS/MUCR tr 75.8 1.5 3.2E-05 27.8 1.0 25 111-138 71-95 (132)
109 COG4530 Uncharacterized protei 75.5 1.4 3E-05 26.7 0.8 27 29-67 11-37 (129)
110 PF13878 zf-C2H2_3: zinc-finge 74.7 3.5 7.6E-05 20.3 2.0 22 1-22 15-38 (41)
111 KOG2785|consensus 74.4 4 8.6E-05 30.6 3.0 51 84-134 166-242 (390)
112 PF03604 DNA_RNApol_7kD: DNA d 73.6 0.95 2E-05 21.0 -0.2 6 114-119 19-24 (32)
113 PF12907 zf-met2: Zinc-binding 72.8 1.7 3.6E-05 21.3 0.6 10 43-52 20-29 (40)
114 PF05191 ADK_lid: Adenylate ki 71.9 0.75 1.6E-05 22.0 -0.8 8 113-120 22-29 (36)
115 COG3357 Predicted transcriptio 69.1 2.2 4.7E-05 24.9 0.6 14 83-96 57-70 (97)
116 PF01927 Mut7-C: Mut7-C RNAse 66.7 2.9 6.3E-05 27.0 0.9 47 85-131 92-143 (147)
117 PF13453 zf-TFIIB: Transcripti 66.5 2 4.4E-05 21.0 0.1 16 57-72 20-35 (41)
118 PF07754 DUF1610: Domain of un 66.2 2.4 5.2E-05 18.2 0.3 8 112-119 16-23 (24)
119 KOG2807|consensus 65.0 9.1 0.0002 28.2 3.1 27 112-138 345-371 (378)
120 KOG2593|consensus 64.3 7 0.00015 29.9 2.6 39 80-121 124-162 (436)
121 PF12760 Zn_Tnp_IS1595: Transp 64.3 7.8 0.00017 19.4 2.0 21 16-36 7-27 (46)
122 KOG2186|consensus 64.2 4.4 9.6E-05 28.6 1.4 48 56-106 3-50 (276)
123 PRK04023 DNA polymerase II lar 64.2 7 0.00015 33.4 2.7 49 27-123 626-674 (1121)
124 COG4957 Predicted transcriptio 63.8 4.3 9.3E-05 25.7 1.2 21 2-25 79-99 (148)
125 COG0068 HypF Hydrogenase matur 63.5 1.4 3.1E-05 35.7 -1.1 60 58-123 125-184 (750)
126 PF13240 zinc_ribbon_2: zinc-r 63.3 3.2 6.9E-05 17.5 0.4 7 2-8 2-8 (23)
127 KOG1280|consensus 63.2 6.3 0.00014 29.2 2.1 27 27-53 79-105 (381)
128 KOG2907|consensus 62.5 4 8.7E-05 24.9 0.9 35 28-67 75-113 (116)
129 PF13824 zf-Mss51: Zinc-finger 62.3 6.7 0.00015 20.7 1.6 15 24-38 11-25 (55)
130 TIGR01206 lysW lysine biosynth 61.8 1.8 4E-05 22.8 -0.6 31 85-123 3-33 (54)
131 PF00301 Rubredoxin: Rubredoxi 61.3 4.6 0.0001 20.6 0.9 15 28-42 2-16 (47)
132 PF14446 Prok-RING_1: Prokaryo 60.3 1.6 3.5E-05 22.9 -0.9 9 2-10 8-16 (54)
133 COG1656 Uncharacterized conser 59.6 9.3 0.0002 25.2 2.2 49 85-133 98-151 (165)
134 KOG2593|consensus 59.6 6.7 0.00014 30.0 1.8 42 22-67 123-164 (436)
135 PF15135 UPF0515: Uncharacteri 59.3 8.7 0.00019 27.1 2.1 27 11-37 91-122 (278)
136 PRK03824 hypA hydrogenase nick 58.6 2.7 5.9E-05 26.8 -0.3 11 57-67 71-81 (135)
137 KOG4167|consensus 58.4 2.3 5E-05 34.6 -0.8 23 2-24 795-817 (907)
138 COG2331 Uncharacterized protei 58.3 5.8 0.00013 22.4 1.0 10 28-37 13-22 (82)
139 KOG3408|consensus 57.9 5.3 0.00012 24.8 0.9 23 26-48 56-78 (129)
140 TIGR00244 transcriptional regu 57.6 1.4 3.1E-05 28.3 -1.7 13 113-125 29-41 (147)
141 PF15269 zf-C2H2_7: Zinc-finge 57.2 6.9 0.00015 19.6 1.0 22 113-134 21-42 (54)
142 COG5151 SSL1 RNA polymerase II 57.1 16 0.00034 26.8 3.2 80 26-107 321-411 (421)
143 PF13451 zf-trcl: Probable zin 56.8 11 0.00024 19.4 1.8 14 56-69 4-17 (49)
144 PF08271 TF_Zn_Ribbon: TFIIB z 56.3 2.4 5.2E-05 20.9 -0.7 12 110-121 17-28 (43)
145 COG1594 RPB9 DNA-directed RNA 56.1 2.8 6E-05 25.9 -0.6 39 28-67 73-111 (113)
146 PF07282 OrfB_Zn_ribbon: Putat 55.7 8.4 0.00018 21.1 1.4 32 27-69 28-59 (69)
147 COG1327 Predicted transcriptio 55.3 2.1 4.6E-05 27.6 -1.2 11 114-124 30-40 (156)
148 COG1655 Uncharacterized protei 54.9 3 6.5E-05 29.0 -0.6 36 1-36 21-71 (267)
149 KOG4167|consensus 53.8 3.4 7.3E-05 33.7 -0.5 29 111-139 791-819 (907)
150 PF04780 DUF629: Protein of un 53.6 6.7 0.00015 30.5 1.0 27 28-54 58-84 (466)
151 COG4896 Uncharacterized protei 53.5 7.8 0.00017 20.8 0.9 8 57-64 32-39 (68)
152 smart00440 ZnF_C2C2 C2C2 Zinc 52.1 1.6 3.4E-05 21.4 -1.7 9 57-65 29-37 (40)
153 KOG4124|consensus 52.0 2.4 5.2E-05 31.3 -1.5 50 82-131 347-417 (442)
154 PF04959 ARS2: Arsenite-resist 51.8 8.5 0.00018 26.7 1.2 30 81-110 74-103 (214)
155 COG3091 SprT Zn-dependent meta 51.6 4.3 9.4E-05 26.3 -0.2 35 82-121 115-149 (156)
156 PF07503 zf-HYPF: HypF finger; 51.4 2.6 5.6E-05 20.0 -1.0 12 112-123 21-32 (35)
157 smart00661 RPOL9 RNA polymeras 50.8 12 0.00025 19.1 1.4 14 27-40 20-33 (52)
158 KOG2807|consensus 50.3 17 0.00036 26.9 2.5 31 83-119 344-374 (378)
159 smart00154 ZnF_AN1 AN1-like Zi 49.2 9.2 0.0002 18.5 0.8 14 27-40 12-25 (39)
160 PF07975 C1_4: TFIIH C1-like d 49.0 4.2 9.2E-05 21.1 -0.5 17 57-73 22-38 (51)
161 KOG1280|consensus 48.6 16 0.00034 27.2 2.1 36 84-119 79-116 (381)
162 PF14787 zf-CCHC_5: GAG-polypr 48.4 9.1 0.0002 18.2 0.6 15 113-127 3-17 (36)
163 PF02176 zf-TRAF: TRAF-type zi 48.3 8.2 0.00018 20.3 0.6 41 26-68 8-54 (60)
164 PTZ00255 60S ribosomal protein 48.2 4 8.6E-05 24.0 -0.7 31 83-123 35-65 (90)
165 PF01096 TFIIS_C: Transcriptio 47.7 0.14 3E-06 25.0 -5.9 10 113-122 29-38 (39)
166 PHA02998 RNA polymerase subuni 47.2 1.8 3.8E-05 28.8 -2.5 41 84-124 143-183 (195)
167 PRK00432 30S ribosomal protein 47.2 12 0.00025 19.4 1.0 12 55-66 36-47 (50)
168 COG1998 RPS31 Ribosomal protei 47.2 8.8 0.00019 19.7 0.5 10 112-121 37-46 (51)
169 PF04780 DUF629: Protein of un 47.1 14 0.0003 28.9 1.7 31 107-137 52-82 (466)
170 PRK12380 hydrogenase nickel in 46.1 6.5 0.00014 24.2 -0.1 10 85-94 71-80 (113)
171 COG2879 Uncharacterized small 44.3 25 0.00055 19.1 2.0 20 122-141 22-41 (65)
172 KOG1842|consensus 44.2 13 0.00028 28.6 1.2 25 84-108 15-39 (505)
173 COG1571 Predicted DNA-binding 43.5 13 0.00029 28.5 1.2 30 85-125 351-380 (421)
174 COG1675 TFA1 Transcription ini 43.3 26 0.00057 23.5 2.4 36 79-123 108-143 (176)
175 PRK14714 DNA polymerase II lar 42.7 18 0.0004 31.8 2.0 9 28-36 668-676 (1337)
176 PF07800 DUF1644: Protein of u 42.7 32 0.00069 22.6 2.6 60 84-144 80-140 (162)
177 PLN02294 cytochrome c oxidase 42.6 11 0.00025 24.9 0.7 16 109-124 138-153 (174)
178 KOG2857|consensus 42.2 32 0.00069 22.1 2.5 20 113-132 18-37 (157)
179 PF01363 FYVE: FYVE zinc finge 41.7 15 0.00032 20.0 1.0 9 29-37 11-19 (69)
180 TIGR00280 L37a ribosomal prote 41.4 4.3 9.4E-05 23.9 -1.3 31 83-123 34-64 (91)
181 PF09845 DUF2072: Zn-ribbon co 41.2 14 0.0003 23.4 0.8 12 113-124 2-13 (131)
182 KOG1842|consensus 40.7 12 0.00026 28.8 0.6 28 27-54 15-42 (505)
183 PF04423 Rad50_zn_hook: Rad50 40.6 8.7 0.00019 20.0 -0.1 12 86-97 22-33 (54)
184 COG5151 SSL1 RNA polymerase II 40.5 33 0.00071 25.3 2.7 27 111-137 387-413 (421)
185 TIGR00100 hypA hydrogenase nic 40.1 13 0.00028 23.0 0.6 27 26-65 69-95 (115)
186 PF09963 DUF2197: Uncharacteri 39.5 15 0.00032 19.5 0.7 12 54-65 29-40 (56)
187 PRK12496 hypothetical protein; 39.5 13 0.00027 24.6 0.5 29 83-123 126-154 (164)
188 COG1198 PriA Primosomal protei 39.4 4.1 8.8E-05 33.6 -2.1 15 107-121 470-484 (730)
189 TIGR00686 phnA alkylphosphonat 39.3 18 0.0004 22.0 1.1 15 26-40 18-32 (109)
190 PF03811 Zn_Tnp_IS1: InsA N-te 39.1 6.2 0.00013 18.8 -0.7 30 28-62 6-35 (36)
191 PRK10220 hypothetical protein; 38.9 23 0.00049 21.7 1.5 15 26-40 19-33 (111)
192 PRK05978 hypothetical protein; 38.1 11 0.00025 24.4 0.1 10 58-67 54-63 (148)
193 KOG2071|consensus 38.1 25 0.00053 28.3 1.9 27 109-135 415-441 (579)
194 COG4888 Uncharacterized Zn rib 37.8 6.2 0.00013 23.6 -1.0 38 25-67 20-57 (104)
195 cd00924 Cyt_c_Oxidase_Vb Cytoc 37.3 15 0.00033 22.0 0.6 14 110-123 77-90 (97)
196 PRK00564 hypA hydrogenase nick 37.1 10 0.00022 23.5 -0.2 10 85-94 72-81 (117)
197 PF14311 DUF4379: Domain of un 37.1 21 0.00046 18.5 1.1 15 28-42 29-43 (55)
198 KOG0717|consensus 37.0 18 0.00039 28.1 1.0 21 113-133 293-313 (508)
199 cd00730 rubredoxin Rubredoxin; 36.3 15 0.00032 19.0 0.4 12 113-124 2-13 (50)
200 PF01428 zf-AN1: AN1-like Zinc 36.2 13 0.00028 18.3 0.1 15 26-40 12-26 (43)
201 COG4640 Predicted membrane pro 36.2 23 0.0005 27.0 1.4 18 111-128 14-31 (465)
202 COG0068 HypF Hydrogenase matur 35.0 17 0.00037 29.9 0.7 58 29-94 125-183 (750)
203 TIGR00515 accD acetyl-CoA carb 34.9 20 0.00043 26.1 0.9 11 113-123 46-56 (285)
204 smart00064 FYVE Protein presen 34.7 26 0.00056 19.0 1.2 11 28-38 11-21 (68)
205 COG1198 PriA Primosomal protei 34.6 10 0.00023 31.4 -0.5 11 25-35 473-483 (730)
206 COG1773 Rubredoxin [Energy pro 34.6 14 0.00031 19.5 0.1 12 112-123 3-14 (55)
207 PRK00420 hypothetical protein; 34.5 24 0.00051 21.8 1.1 29 28-68 24-52 (112)
208 COG3364 Zn-ribbon containing p 34.3 22 0.00047 21.4 0.9 14 112-125 2-15 (112)
209 PF10276 zf-CHCC: Zinc-finger 33.8 16 0.00034 17.9 0.2 12 26-37 28-39 (40)
210 cd00065 FYVE FYVE domain; Zinc 33.5 30 0.00066 17.8 1.3 8 30-37 5-12 (57)
211 PF12773 DZR: Double zinc ribb 33.3 29 0.00063 17.4 1.2 10 29-38 14-23 (50)
212 PF05290 Baculo_IE-1: Baculovi 33.2 22 0.00048 22.6 0.8 18 52-69 76-93 (140)
213 PF10013 DUF2256: Uncharacteri 33.1 23 0.00049 17.6 0.7 13 114-126 10-22 (42)
214 PF11672 DUF3268: Protein of u 33.0 12 0.00025 22.7 -0.4 7 113-119 32-38 (102)
215 KOG2636|consensus 32.8 42 0.00091 26.1 2.3 28 105-132 394-422 (497)
216 PF02891 zf-MIZ: MIZ/SP-RING z 32.4 18 0.0004 18.5 0.3 7 113-119 42-48 (50)
217 PF06397 Desulfoferrod_N: Desu 32.3 17 0.00036 17.4 0.1 12 111-122 5-16 (36)
218 PRK04351 hypothetical protein; 32.1 12 0.00025 24.4 -0.5 33 84-124 112-144 (149)
219 PF01155 HypA: Hydrogenase exp 31.9 10 0.00022 23.3 -0.8 13 85-97 71-83 (113)
220 PF15616 TerY-C: TerY-C metal 31.6 8.5 0.00018 24.4 -1.2 13 54-66 103-115 (131)
221 PF10263 SprT-like: SprT-like 31.6 8.6 0.00019 24.9 -1.2 33 83-123 122-154 (157)
222 TIGR00310 ZPR1_znf ZPR1 zinc f 31.1 6.9 0.00015 26.6 -1.7 39 1-40 2-43 (192)
223 PF05495 zf-CHY: CHY zinc fing 30.8 5.8 0.00013 22.1 -1.8 9 112-120 61-69 (71)
224 CHL00174 accD acetyl-CoA carbo 30.6 17 0.00037 26.6 0.1 11 57-67 58-68 (296)
225 PTZ00448 hypothetical protein; 30.5 36 0.00078 25.7 1.6 23 112-134 314-336 (373)
226 PF15176 LRR19-TM: Leucine-ric 30.3 19 0.0004 21.6 0.2 12 114-125 39-50 (102)
227 COG4338 Uncharacterized protei 30.3 14 0.0003 18.8 -0.3 9 2-10 15-23 (54)
228 KOG0978|consensus 30.1 14 0.0003 30.4 -0.5 17 112-128 678-694 (698)
229 COG3677 Transposase and inacti 29.1 27 0.00058 22.1 0.7 35 85-124 31-65 (129)
230 PF14205 Cys_rich_KTR: Cystein 28.6 15 0.00033 19.3 -0.3 8 27-34 28-35 (55)
231 PF08792 A2L_zn_ribbon: A2L zi 28.4 24 0.00053 16.4 0.3 13 111-123 20-32 (33)
232 COG4391 Uncharacterized protei 28.3 34 0.00073 18.5 0.9 13 26-38 47-59 (62)
233 PF14803 Nudix_N_2: Nudix N-te 28.2 8.8 0.00019 18.0 -1.2 8 57-64 23-30 (34)
234 PRK05654 acetyl-CoA carboxylas 28.2 20 0.00043 26.2 0.1 11 57-67 47-57 (292)
235 PF02318 FYVE_2: FYVE-type zin 27.8 30 0.00065 21.4 0.8 14 26-39 53-66 (118)
236 TIGR00143 hypF [NiFe] hydrogen 27.5 7.8 0.00017 32.0 -2.3 60 57-122 91-150 (711)
237 PF14369 zf-RING_3: zinc-finge 27.4 29 0.00063 16.3 0.5 8 2-9 24-31 (35)
238 KOG3214|consensus 26.1 14 0.0003 22.1 -0.8 14 111-124 46-59 (109)
239 KOG0717|consensus 25.8 45 0.00098 26.1 1.5 23 113-135 461-483 (508)
240 PF06220 zf-U1: U1 zinc finger 25.7 40 0.00086 16.2 0.8 11 28-38 4-14 (38)
241 KOG0782|consensus 25.6 21 0.00045 28.7 -0.2 26 15-40 241-266 (1004)
242 PRK03681 hypA hydrogenase nick 25.3 23 0.00051 21.8 -0.0 28 26-65 69-96 (114)
243 PF04810 zf-Sec23_Sec24: Sec23 25.3 46 0.001 16.0 1.1 9 56-64 24-32 (40)
244 PF08790 zf-LYAR: LYAR-type C2 24.5 18 0.00039 16.2 -0.4 9 29-37 2-10 (28)
245 PTZ00043 cytochrome c oxidase 24.2 36 0.00078 23.8 0.7 16 109-124 178-193 (268)
246 PF09855 DUF2082: Nucleic-acid 24.1 34 0.00073 18.7 0.5 9 113-121 1-9 (64)
247 COG5188 PRP9 Splicing factor 3 23.8 61 0.0013 24.4 1.8 28 105-132 367-395 (470)
248 KOG4118|consensus 23.6 58 0.0013 17.8 1.3 26 28-53 39-64 (74)
249 KOG4377|consensus 23.4 23 0.00051 27.1 -0.3 21 118-138 409-429 (480)
250 TIGR00595 priA primosomal prot 23.3 8.5 0.00018 30.4 -2.7 14 107-120 248-261 (505)
251 KOG4317|consensus 23.1 20 0.00043 26.3 -0.7 20 84-103 19-38 (383)
252 KOG4727|consensus 22.8 37 0.0008 22.6 0.5 23 26-48 74-96 (193)
253 PRK00762 hypA hydrogenase nick 22.7 21 0.00045 22.4 -0.6 11 85-96 71-81 (124)
254 PF07295 DUF1451: Protein of u 22.5 15 0.00033 23.8 -1.3 29 83-121 111-139 (146)
255 TIGR01384 TFS_arch transcripti 22.5 12 0.00027 22.4 -1.6 39 27-67 62-101 (104)
256 PF04438 zf-HIT: HIT zinc fing 22.1 30 0.00066 15.6 0.0 11 112-122 13-23 (30)
257 COG5112 UFD2 U1-like Zn-finger 21.5 35 0.00075 20.7 0.2 24 26-49 54-77 (126)
258 KOG2272|consensus 21.3 48 0.001 23.7 0.8 13 111-123 220-232 (332)
259 PF11781 RRN7: RNA polymerase 21.2 38 0.00082 16.1 0.3 9 28-36 9-17 (36)
260 PF01215 COX5B: Cytochrome c o 21.1 28 0.0006 22.3 -0.3 15 110-124 110-124 (136)
261 smart00731 SprT SprT homologue 20.8 27 0.00059 22.4 -0.4 32 84-122 112-143 (146)
262 PF02591 DUF164: Putative zinc 20.2 82 0.0018 16.4 1.5 32 29-65 24-55 (56)
No 1
>KOG2462|consensus
Probab=99.97 E-value=1.7e-32 Score=185.35 Aligned_cols=131 Identities=37% Similarity=0.750 Sum_probs=124.3
Q ss_pred CCCccccccCChhhHHHHHHHcCC---CCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHh
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLG---LKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRR 77 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~ 77 (171)
+|++|++.+.+..+|.+|.+.|.. .+.+.|++|++.+.+...|..|++ +|. -+.+|.+||+.|...|.|+.|++
T Consensus 132 ~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHir-TH~--l~c~C~iCGKaFSRPWLLQGHiR 208 (279)
T KOG2462|consen 132 KCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIR-THT--LPCECGICGKAFSRPWLLQGHIR 208 (279)
T ss_pred eccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhh-ccC--CCcccccccccccchHHhhcccc
Confidence 699999999999999999999876 467999999999999999999998 575 57899999999999999999999
Q ss_pred hhcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCchhHHHHHHH
Q psy12258 78 IHTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDMKRHLNT 134 (171)
Q Consensus 78 ~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 134 (171)
.|+|+|||.|+.|+++|...+.|+.|+++|.+.++|.|..|+|.|...+.|.+|...
T Consensus 209 THTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 209 THTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999764
No 2
>KOG2462|consensus
Probab=99.91 E-value=7.5e-25 Score=148.50 Aligned_cols=103 Identities=38% Similarity=0.703 Sum_probs=99.2
Q ss_pred CCCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhc
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHT 80 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~ 80 (171)
+|+.|+++|.....|..|+++|. -++.|.+||+.|+..+.|+.|++ .|+|++||.|+.|++.|-++++|..||.+|.
T Consensus 163 ~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiR-THTGEKPF~C~hC~kAFADRSNLRAHmQTHS 239 (279)
T KOG2462|consen 163 SCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIR-THTGEKPFSCPHCGKAFADRSNLRAHMQTHS 239 (279)
T ss_pred cCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccc-cccCCCCccCCcccchhcchHHHHHHHHhhc
Confidence 59999999999999999999997 67999999999999999999999 7999999999999999999999999999999
Q ss_pred CCCCccCccchhhcCCHHHHHHHHHH
Q psy12258 81 GERNYQCEFCHKAFRASSYLQNHRRI 106 (171)
Q Consensus 81 ~~~~~~C~~C~~~~~~~~~l~~H~~~ 106 (171)
+.|+|.|+.|++.|...+.|.+|...
T Consensus 240 ~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 240 DVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred CCccccCcchhhHHHHHHHHHHhhhh
Confidence 99999999999999999999999764
No 3
>KOG1074|consensus
Probab=99.85 E-value=1.5e-22 Score=154.47 Aligned_cols=87 Identities=29% Similarity=0.591 Sum_probs=75.9
Q ss_pred cccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHHhcCC----CCccCc---ccccccCCchhH
Q psy12258 56 AFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRIHTGE----KPHFCP---VCNKMFRVRSDM 128 (171)
Q Consensus 56 ~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~----~~~~C~---~C~~~f~~~~~l 128 (171)
+.+|.+|.+...-.+.|+.|++.|+|++||+|.+||++|+.+..|+.|+.+|... .++.|+ +|-+.|...-.|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~kftn~V~l 684 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKKFTNAVTL 684 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhcccccccccc
Confidence 3689999999999999999999999999999999999999999999999888543 457899 999999999999
Q ss_pred HHHHHHhccCcccc
Q psy12258 129 KRHLNTHNVDARQY 142 (171)
Q Consensus 129 ~~H~~~h~~~~~~~ 142 (171)
..|+++|.++..+.
T Consensus 685 pQhIriH~~~~~s~ 698 (958)
T KOG1074|consen 685 PQHIRIHLGGQISN 698 (958)
T ss_pred cceEEeecCCCCCC
Confidence 99999998665543
No 4
>KOG3608|consensus
Probab=99.84 E-value=5.5e-21 Score=133.63 Aligned_cols=133 Identities=30% Similarity=0.511 Sum_probs=103.9
Q ss_pred CCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhhcC-CCCCcccccchhhhccChHHHHHHHhhhc
Q psy12258 2 CDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLH-SDVKAFQCEYCGKDFARKYSLVVHRRIHT 80 (171)
Q Consensus 2 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h-~~~~~~~C~~C~~~~~~~~~l~~h~~~~~ 80 (171)
|..|-..+..+..|++|++.|.+++...|+.||..|.....|..|.+... ....+|.|..|.+.|-+...|..|+..|.
T Consensus 182 W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv 261 (467)
T KOG3608|consen 182 WAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV 261 (467)
T ss_pred chhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh
Confidence 45688899999999999999999999999999999999999999987422 23456778888888877777777777763
Q ss_pred CCCCccCccchhhcCCHHHHHHHHHH-hcCCCCccCcccccccCCchhHHHHHHHhc
Q psy12258 81 GERNYQCEFCHKAFRASSYLQNHRRI-HTGEKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 81 ~~~~~~C~~C~~~~~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
.-|+|+.|+......++|..|++. |...+||+|..|++.|...++|.+|+..|.
T Consensus 262 --n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS 316 (467)
T KOG3608|consen 262 --NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS 316 (467)
T ss_pred --hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc
Confidence 456777777777777777777765 555677777777777777777777776665
No 5
>KOG3576|consensus
Probab=99.77 E-value=7.5e-20 Score=119.05 Aligned_cols=115 Identities=34% Similarity=0.618 Sum_probs=103.3
Q ss_pred CCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHH
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRR 105 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~ 105 (171)
..|.|.+|++.|.....|.+|++ -|...+.+.|..||+.|.+.-+|.+|++.|+|.+||+|..|+++|++.-+|..|.+
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~k-ch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~ 194 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLK-CHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLK 194 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhh-hccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHH
Confidence 34899999999999999999998 69889999999999999999999999999999999999999999999999999988
Q ss_pred HhcC-----------CCCccCcccccccCCchhHHHHHHHhccCccc
Q psy12258 106 IHTG-----------EKPHFCPVCNKMFRVRSDMKRHLNTHNVDARQ 141 (171)
Q Consensus 106 ~h~~-----------~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 141 (171)
..++ .+.|.|..||..-.....+..|+..||.....
T Consensus 195 kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Spa 241 (267)
T KOG3576|consen 195 KVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSPA 241 (267)
T ss_pred HHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCHH
Confidence 7554 45699999999888888899999998876543
No 6
>KOG1074|consensus
Probab=99.77 E-value=2.1e-19 Score=137.45 Aligned_cols=143 Identities=36% Similarity=0.715 Sum_probs=120.7
Q ss_pred CCCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhhcCCCCC----ccccc---chhhhccChHHHH
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVK----AFQCE---YCGKDFARKYSLV 73 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~----~~~C~---~C~~~~~~~~~l~ 73 (171)
+|-+|.++...+..|+.|.++|++++||+|.+||+.|....+|+.||. .|.... .+.|+ +|.+-|.+.-.|.
T Consensus 607 qCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~-vHka~p~~R~q~ScP~~~ic~~kftn~V~lp 685 (958)
T KOG1074|consen 607 QCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMS-VHKAKPPARVQFSCPSTFICQKKFTNAVTLP 685 (958)
T ss_pred ceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhccc-ccccCccccccccCCchhhhccccccccccc
Confidence 588999999999999999999999999999999999999999999997 675433 35666 6776666666666
Q ss_pred HHHhhhcCC-----------------------------------------------------------------------
Q psy12258 74 VHRRIHTGE----------------------------------------------------------------------- 82 (171)
Q Consensus 74 ~h~~~~~~~----------------------------------------------------------------------- 82 (171)
.|++.|.+.
T Consensus 686 QhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~ 765 (958)
T KOG1074|consen 686 QHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGR 765 (958)
T ss_pred ceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhhhccCCcccCCcccccccccccccccCCCcccccccc
Confidence 666555410
Q ss_pred --------------------------------------------------------------------------------
Q psy12258 83 -------------------------------------------------------------------------------- 82 (171)
Q Consensus 83 -------------------------------------------------------------------------------- 82 (171)
T Consensus 766 ~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~ 845 (958)
T KOG1074|consen 766 ELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTSEKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKT 845 (958)
T ss_pred ccCcccccccccchhhhhcChhhhcCccccchhhhhcccCCCCcccccCCCcCCccccccCchhhccccccccccccccc
Confidence
Q ss_pred --------------------------------CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCchhHHH
Q psy12258 83 --------------------------------RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDMKR 130 (171)
Q Consensus 83 --------------------------------~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~ 130 (171)
....|..|++.|...+.|+.|+++|++++||.|.+|++.|..+.+|..
T Consensus 846 n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKv 925 (958)
T KOG1074|consen 846 NEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKV 925 (958)
T ss_pred ccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhh
Confidence 005699999999999999999999999999999999999999999999
Q ss_pred HHHHhccCcccccc
Q psy12258 131 HLNTHNVDARQYLT 144 (171)
Q Consensus 131 H~~~h~~~~~~~~~ 144 (171)
||..|+....+..-
T Consensus 926 HMgtH~w~q~~srr 939 (958)
T KOG1074|consen 926 HMGTHMWVQPPSRR 939 (958)
T ss_pred hhccccccCCCccC
Confidence 99999877665444
No 7
>KOG3608|consensus
Probab=99.75 E-value=1.9e-18 Score=121.07 Aligned_cols=132 Identities=28% Similarity=0.543 Sum_probs=102.0
Q ss_pred CCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcC
Q psy12258 2 CDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTG 81 (171)
Q Consensus 2 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~ 81 (171)
|..|.+.|.+...|..|+..|. ..|+|+.|..+....++|..|++.-|+..+||+|..|+..+...+.|+.|...|.
T Consensus 240 C~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS- 316 (467)
T KOG3608|consen 240 CAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHS- 316 (467)
T ss_pred HHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhcc-
Confidence 5566666666666666666664 3478888888888888888888888888888888888888888888888888765
Q ss_pred CCCccCcc--chhhcCCHHHHHHHHHHhc-C--CCCccCcccccccCCchhHHHHHHHhc
Q psy12258 82 ERNYQCEF--CHKAFRASSYLQNHRRIHT-G--EKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 82 ~~~~~C~~--C~~~~~~~~~l~~H~~~h~-~--~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
+..|.|.- |...+.+...+.+|...++ + +-+|.|..|.+-|++-.+|..|++.-|
T Consensus 317 ~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH 376 (467)
T KOG3608|consen 317 KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKH 376 (467)
T ss_pred ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhh
Confidence 66788866 8888888888888887655 3 446889999999988888988875443
No 8
>KOG3576|consensus
Probab=99.75 E-value=3.5e-19 Score=115.96 Aligned_cols=110 Identities=31% Similarity=0.575 Sum_probs=101.8
Q ss_pred CCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcC
Q psy12258 2 CDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTG 81 (171)
Q Consensus 2 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~ 81 (171)
|.+|++.|.-..-|.+|++-|..-+.+.|..||++|.+-.+|.+|++ +|++.+||+|..|++.|+....|..|++.-++
T Consensus 120 CrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~r-thtgvrpykc~~c~kaftqrcsleshl~kvhg 198 (267)
T KOG3576|consen 120 CRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTR-THTGVRPYKCSLCEKAFTQRCSLESHLKKVHG 198 (267)
T ss_pred eehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhc-cccCccccchhhhhHHHHhhccHHHHHHHHcC
Confidence 88999999999999999999999999999999999999999999999 79999999999999999999999999887665
Q ss_pred -----------CCCccCccchhhcCCHHHHHHHHHHhcCCCC
Q psy12258 82 -----------ERNYQCEFCHKAFRASSYLQNHRRIHTGEKP 112 (171)
Q Consensus 82 -----------~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~ 112 (171)
.+.|.|..||..-.....+..|+..|+...|
T Consensus 199 v~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 199 VQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred chHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 4679999999999999999999998876543
No 9
>KOG3623|consensus
Probab=99.68 E-value=1.1e-17 Score=126.59 Aligned_cols=106 Identities=34% Similarity=0.674 Sum_probs=94.9
Q ss_pred eeCCccchhccCcccHHHhhhhcCCC-CCcccccchhhhccChHHHHHHHhhhcC-------------CCCccCccchhh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSD-VKAFQCEYCGKDFARKYSLVVHRRIHTG-------------ERNYQCEFCHKA 93 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~-~~~~~C~~C~~~~~~~~~l~~h~~~~~~-------------~~~~~C~~C~~~ 93 (171)
.+|++|.+++.+...|+.|++..|.. +..|.|..|..+|-+...|.+||..|.. .+.|+|++|+++
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKA 290 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKA 290 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchh
Confidence 67999999999999999998876653 4458899999999999999999988753 345999999999
Q ss_pred cCCHHHHHHHHHHhcCCCCccCcccccccCCchhHHHHHH
Q psy12258 94 FRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 94 ~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 133 (171)
|+.+..|..|+++|.|++||.|+-|+|.|...+.+..||-
T Consensus 291 FKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmS 330 (1007)
T KOG3623|consen 291 FKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMS 330 (1007)
T ss_pred hhhHHHHHhhheeecCCCCcCCcccccccccCCccccccc
Confidence 9999999999999999999999999999999999999984
No 10
>KOG3623|consensus
Probab=99.62 E-value=2.8e-16 Score=119.22 Aligned_cols=80 Identities=39% Similarity=0.810 Sum_probs=77.0
Q ss_pred CCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCchhHHHHHH
Q psy12258 54 VKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 54 ~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 133 (171)
...|.|..|+++|--.+.|.+|...|+|.+||+|.+|.++|+.+..|..|.+.|.|++||.|.+|+|.|...+.+..||.
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccccchHhhhc
Confidence 35699999999999999999999999999999999999999999999999999999999999999999999999999985
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.41 E-value=2.9e-13 Score=102.52 Aligned_cols=103 Identities=25% Similarity=0.553 Sum_probs=81.6
Q ss_pred CCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcC----------
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFR---------- 95 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~---------- 95 (171)
+.+.|+.|++.|. ...|..|+...| .++.|+ |+..+ ....|..|+..+.+.+++.|+.|+..+.
T Consensus 452 ~H~~C~~Cgk~f~-~s~LekH~~~~H---kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d 525 (567)
T PLN03086 452 NHVHCEKCGQAFQ-QGEMEKHMKVFH---EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRD 525 (567)
T ss_pred cCccCCCCCCccc-hHHHHHHHHhcC---CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhh
Confidence 3468999999986 577899988533 678999 99755 5678899999898999999999998884
Q ss_pred CHHHHHHHHHHhcCCCCccCcccccccCCchhHHHHHHHhc
Q psy12258 96 ASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 96 ~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
....|..|.... +.+++.|..||+.+..+ .|..|+...|
T Consensus 526 ~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~~h 564 (567)
T PLN03086 526 RLRGMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIAVH 564 (567)
T ss_pred hhhhHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHHhh
Confidence 235788898874 88899999999888655 6778876544
No 12
>PHA00733 hypothetical protein
Probab=99.26 E-value=6.1e-12 Score=78.79 Aligned_cols=82 Identities=23% Similarity=0.332 Sum_probs=65.2
Q ss_pred CCcccccchhhhccChHHHHHH--H---hhhcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCchhH
Q psy12258 54 VKAFQCEYCGKDFARKYSLVVH--R---RIHTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDM 128 (171)
Q Consensus 54 ~~~~~C~~C~~~~~~~~~l~~h--~---~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 128 (171)
.+++.|.+|...|.....|..+ + ..+++.++|.|+.|++.|.+...|..|++.+ ..+|.|+.|++.|...+.|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 4567888888777776666554 1 2334578999999999999999999999876 4579999999999999999
Q ss_pred HHHHHHhcc
Q psy12258 129 KRHLNTHNV 137 (171)
Q Consensus 129 ~~H~~~h~~ 137 (171)
..|+...|.
T Consensus 116 ~~H~~~~h~ 124 (128)
T PHA00733 116 LDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC
Confidence 999876653
No 13
>PHA00733 hypothetical protein
Probab=99.17 E-value=2.6e-11 Score=75.94 Aligned_cols=83 Identities=22% Similarity=0.224 Sum_probs=68.8
Q ss_pred CCCeeCCccchhccCcccHHHh--hh--hcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHH
Q psy12258 25 LKPYGCEVCGRHFRQWGDLKYH--KA--SLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYL 100 (171)
Q Consensus 25 ~~~~~C~~C~~~f~~~~~l~~H--~~--~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l 100 (171)
.+++.|.+|...|.....|..+ +. ..+...++|.|..|++.|.....|..|+..+ ..++.|..|++.|.....|
T Consensus 38 ~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL 115 (128)
T PHA00733 38 QKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDST 115 (128)
T ss_pred hhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHH
Confidence 5678999999988887666655 11 1234578999999999999999999999876 4579999999999999999
Q ss_pred HHHHHHhcC
Q psy12258 101 QNHRRIHTG 109 (171)
Q Consensus 101 ~~H~~~h~~ 109 (171)
..|+...++
T Consensus 116 ~~H~~~~h~ 124 (128)
T PHA00733 116 LDHVCKKHN 124 (128)
T ss_pred HHHHHHhcC
Confidence 999988765
No 14
>PHA02768 hypothetical protein; Provisional
Probab=99.12 E-value=3.2e-11 Score=62.94 Aligned_cols=44 Identities=16% Similarity=0.371 Sum_probs=36.9
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCchhHH
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRSDMK 129 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~ 129 (171)
.|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|.
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 4789999999999999999999887 6888999999888777653
No 15
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.11 E-value=1.7e-10 Score=87.81 Aligned_cols=98 Identities=22% Similarity=0.555 Sum_probs=80.9
Q ss_pred CCCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccC----------hH
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR----------KY 70 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~----------~~ 70 (171)
.|+.|+..|. ...|..|+++++ +++.|+ |+..+ ....|..|+. .|...+++.|..|+..+.. ..
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~-thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s 528 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQA-STCPLRLITCRFCGDMVQAGGSAMDVRDRLR 528 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhh-ccCCCCceeCCCCCCccccCccccchhhhhh
Confidence 4899999985 678999999986 889999 99765 6689999987 6888999999999998852 34
Q ss_pred HHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHH
Q psy12258 71 SLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRI 106 (171)
Q Consensus 71 ~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~ 106 (171)
.|..|.... +.+++.|..||+.+... .|..|+..
T Consensus 529 ~Lt~HE~~C-G~rt~~C~~Cgk~Vrlr-dm~~H~~~ 562 (567)
T PLN03086 529 GMSEHESIC-GSRTAPCDSCGRSVMLK-EMDIHQIA 562 (567)
T ss_pred hHHHHHHhc-CCcceEccccCCeeeeh-hHHHHHHH
Confidence 788888875 88999999999888665 56667654
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.92 E-value=7e-10 Score=57.96 Aligned_cols=39 Identities=21% Similarity=0.507 Sum_probs=18.7
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccCh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 69 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 69 (171)
|.|+.||+.|....+|..|++. |. ++++|..|++.|...
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~-H~--k~~kc~~C~k~f~~~ 44 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRK-HN--TNLKLSNCKRISLRT 44 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHh-cC--CcccCCcccceeccc
Confidence 4455555555555555555542 33 344555555544433
No 17
>KOG3993|consensus
Probab=98.85 E-value=4.1e-10 Score=81.46 Aligned_cols=49 Identities=22% Similarity=0.446 Sum_probs=30.5
Q ss_pred CCCccccccCChhhHHHHHHHcCCCCCeeCCccchhccCcccHHHhhhh
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKAS 49 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 49 (171)
+|..|...|.+...|.+|.-.-.--.-|.|+.|+++|+-..+|..|+++
T Consensus 269 iCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRW 317 (500)
T KOG3993|consen 269 ICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRW 317 (500)
T ss_pred HHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcc
Confidence 3566666666666666664433333346677777777777777777665
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.80 E-value=3.1e-09 Score=47.57 Aligned_cols=25 Identities=56% Similarity=1.003 Sum_probs=19.5
Q ss_pred HHHHHHHHhcCCCCccCcccccccC
Q psy12258 99 YLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 99 ~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
+|.+|+++|++++||.|+.|++.|.
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 4677888888888888888888775
No 19
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.78 E-value=4.4e-09 Score=47.08 Aligned_cols=25 Identities=48% Similarity=1.015 Sum_probs=22.1
Q ss_pred hHHHHHHHcCCCCCeeCCccchhcc
Q psy12258 14 ALKVHNRVHLGLKPYGCEVCGRHFR 38 (171)
Q Consensus 14 ~l~~H~~~h~~~~~~~C~~C~~~f~ 38 (171)
+|..|+++|.+++||.|++|++.|.
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 4788999999999999999999885
No 20
>KOG3993|consensus
Probab=98.69 E-value=2.7e-09 Score=77.32 Aligned_cols=110 Identities=23% Similarity=0.384 Sum_probs=71.9
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCcc---CccchhhcCCHHHHHHHH
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQ---CEFCHKAFRASSYLQNHR 104 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~---C~~C~~~~~~~~~l~~H~ 104 (171)
|.|+.|...|.+...|.+|.. .......|+|+.|++.|+-..+|..|++.|....--. -+.=.+........+.-.
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC-~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRC-PRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccC-CeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 899999999999999999976 4666677999999999999999999999884322100 000000000000000000
Q ss_pred H--HhcCCCCccCcccccccCCchhHHHHHHHhccC
Q psy12258 105 R--IHTGEKPHFCPVCNKMFRVRSDMKRHLNTHNVD 138 (171)
Q Consensus 105 ~--~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 138 (171)
+ ....+..|.|..|++.|.....|++|+-.|+..
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 0 012244688888888888888888887766543
No 21
>PHA00616 hypothetical protein
Probab=98.57 E-value=4.8e-08 Score=48.64 Aligned_cols=33 Identities=21% Similarity=0.242 Sum_probs=18.3
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCP 116 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~ 116 (171)
||+|+.||+.|.....|..|++.|++++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 355555555555555555555555555555543
No 22
>PHA00616 hypothetical protein
Probab=98.52 E-value=4.9e-08 Score=48.61 Aligned_cols=30 Identities=20% Similarity=0.406 Sum_probs=27.7
Q ss_pred CccCcccccccCCchhHHHHHHHhccCccc
Q psy12258 112 PHFCPVCNKMFRVRSDMKRHLNTHNVDARQ 141 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~ 141 (171)
||.|+.||+.|..+++|.+|++.||+....
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~ 30 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKL 30 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcc
Confidence 689999999999999999999999988654
No 23
>PHA00732 hypothetical protein
Probab=98.49 E-value=9e-08 Score=54.70 Aligned_cols=43 Identities=35% Similarity=0.718 Sum_probs=20.8
Q ss_pred ccCccchhhcCCHHHHHHHHHH-hcCCCCccCcccccccCCchhHHHHHH
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRI-HTGEKPHFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~ 133 (171)
|.|..|++.|.+...|..|++. |. ++.|+.||+.|. .|..|++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~ 45 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFY 45 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhc
Confidence 4455555555555555555542 32 134555555554 3444443
No 24
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=98.47 E-value=3.4e-07 Score=48.63 Aligned_cols=50 Identities=28% Similarity=0.606 Sum_probs=34.0
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcC--CCCccCcccccccCCchhHHHHHHHhc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTG--EKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~--~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
.|.||.|++ ..+...|..|+...+. .+.+.||+|...+. .+|.+|+..+|
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 367888888 4556677788766433 24578888887544 47888887765
No 25
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=98.31 E-value=3.3e-07 Score=39.73 Aligned_cols=23 Identities=43% Similarity=0.998 Sum_probs=18.3
Q ss_pred ccCcccccccCCchhHHHHHHHh
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNTH 135 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~h 135 (171)
|.|+.|++.|.+...|.+|++.|
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 57888888888888888888764
No 26
>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=98.23 E-value=1.5e-06 Score=46.09 Aligned_cols=36 Identities=25% Similarity=0.516 Sum_probs=16.4
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCC-Ccccccchhh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDV-KAFQCEYCGK 64 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~-~~~~C~~C~~ 64 (171)
|.|++|++. .+...|..|....|..+ +.+.|++|..
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchh
Confidence 455555552 23344555554444432 2344555544
No 27
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=98.17 E-value=1.1e-06 Score=38.25 Aligned_cols=24 Identities=42% Similarity=1.072 Sum_probs=17.5
Q ss_pred ccCcccccccCCchhHHHHHHHhc
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
|.|++|++.|.+...|..|++.||
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 578888888888888888887765
No 28
>PHA00732 hypothetical protein
Probab=98.15 E-value=1e-06 Score=50.39 Aligned_cols=17 Identities=35% Similarity=0.585 Sum_probs=6.2
Q ss_pred CCccchhccCcccHHHh
Q psy12258 30 CEVCGRHFRQWGDLKYH 46 (171)
Q Consensus 30 C~~C~~~f~~~~~l~~H 46 (171)
|+.|++.|.+...|..|
T Consensus 4 C~~Cgk~F~s~s~Lk~H 20 (79)
T PHA00732 4 CPICGFTTVTLFALKQH 20 (79)
T ss_pred CCCCCCccCCHHHHHHH
Confidence 33333333333333333
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=98.02 E-value=2e-06 Score=38.79 Aligned_cols=26 Identities=31% Similarity=0.607 Sum_probs=21.2
Q ss_pred CccCcccccccCCchhHHHHHHHhcc
Q psy12258 112 PHFCPVCNKMFRVRSDMKRHLNTHNV 137 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 137 (171)
||.|..|++.|.+...|..|++.|+.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 57888888888888888888877753
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.93 E-value=5.1e-06 Score=49.86 Aligned_cols=24 Identities=38% Similarity=0.891 Sum_probs=15.9
Q ss_pred CccCcccccccCCchhHHHHHHHh
Q psy12258 112 PHFCPVCNKMFRVRSDMKRHLNTH 135 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l~~H~~~h 135 (171)
.+.|..|++.|.+...|..|++.+
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 467777777777777777777653
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.89 E-value=8.6e-06 Score=48.87 Aligned_cols=24 Identities=38% Similarity=0.917 Sum_probs=14.4
Q ss_pred CccCccchhhcCCHHHHHHHHHHh
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIH 107 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h 107 (171)
.+.|..|+..|.+...|..|++.+
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 456666666666666666666653
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.88 E-value=3.5e-06 Score=59.48 Aligned_cols=53 Identities=26% Similarity=0.590 Sum_probs=44.0
Q ss_pred CCCCccCcc--chhhcCCHHHHHHHHHHhc-------------------CCCCccCcccccccCCchhHHHHHH
Q psy12258 81 GERNYQCEF--CHKAFRASSYLQNHRRIHT-------------------GEKPHFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 81 ~~~~~~C~~--C~~~~~~~~~l~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H~~ 133 (171)
+++||+|++ |.+.|+..-.|..|+..-+ ..+||+|++|+|.++....|.-|..
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 358999987 9999999999999976422 2479999999999999999988753
No 33
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.84 E-value=8.2e-06 Score=35.18 Aligned_cols=22 Identities=41% Similarity=0.862 Sum_probs=13.3
Q ss_pred ccCccchhhcCCHHHHHHHHHH
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRI 106 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~ 106 (171)
|.|+.|++.|.....|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 3566666666666666666554
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.61 E-value=1.7e-05 Score=56.10 Aligned_cols=71 Identities=30% Similarity=0.599 Sum_probs=48.4
Q ss_pred CCCeeCCc--cchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHH
Q psy12258 25 LKPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQN 102 (171)
Q Consensus 25 ~~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~ 102 (171)
++||+|++ |.+.+.+...|+.|+..-|-..+...-+ ....+.......|||+|.+|++.|+....|..
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p----------~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKY 416 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENP----------SPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKY 416 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCC----------CccccccccccCCceeccccchhhccCcccee
Confidence 58999987 9999999999999986433211111000 11122233445689999999999999988888
Q ss_pred HHH
Q psy12258 103 HRR 105 (171)
Q Consensus 103 H~~ 105 (171)
|..
T Consensus 417 Hr~ 419 (423)
T COG5189 417 HRK 419 (423)
T ss_pred ccc
Confidence 753
No 35
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.60 E-value=4.1e-05 Score=33.09 Aligned_cols=23 Identities=48% Similarity=0.973 Sum_probs=12.2
Q ss_pred ccCccchhhcCCHHHHHHHHHHh
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIH 107 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h 107 (171)
|.|+.|+..|.+...|..|+..+
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 34566666666666666665544
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.53 E-value=8.3e-05 Score=32.66 Aligned_cols=24 Identities=42% Similarity=0.909 Sum_probs=16.4
Q ss_pred ccCcccccccCCchhHHHHHHHhc
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
|.|+.|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 467777777777777777776543
No 37
>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=97.44 E-value=4.8e-05 Score=34.09 Aligned_cols=21 Identities=33% Similarity=0.890 Sum_probs=12.0
Q ss_pred eeCCccchhccCcccHHHhhh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~ 48 (171)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHC
T ss_pred CCCCccCCccCChhHHHHHhH
Confidence 455555555555555555554
No 38
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.44 E-value=8.2e-05 Score=32.34 Aligned_cols=23 Identities=39% Similarity=0.778 Sum_probs=16.1
Q ss_pred ccCcccccccCCchhHHHHHHHhc
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
|+|+.|+.... ...|.+|++.+|
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 57888887777 778888887765
No 39
>KOG1146|consensus
Probab=97.43 E-value=0.0001 Score=61.29 Aligned_cols=102 Identities=22% Similarity=0.306 Sum_probs=68.9
Q ss_pred CCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHHhcC
Q psy12258 30 CEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRIHTG 109 (171)
Q Consensus 30 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~ 109 (171)
|.-|+..+.+...+..|+...+...+.++|+.|++.+.....|..||+..+.+-.- .+|. .+.....+.+-.....+
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~--~~c~-~gq~~~~~arg~~~~~~ 515 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS--AYCK-AGQNHPRLARGEVYRCP 515 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccch--hHhH-hccccccccccccccCC
Confidence 44556666666666666666777778899999999999999999999875433221 3332 22222222222222345
Q ss_pred CCCccCcccccccCCchhHHHHHHH
Q psy12258 110 EKPHFCPVCNKMFRVRSDMKRHLNT 134 (171)
Q Consensus 110 ~~~~~C~~C~~~f~~~~~l~~H~~~ 134 (171)
.++|.|..|..++.....|.+|+..
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHH
Confidence 6789999999999999999999864
No 40
>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=97.13 E-value=0.00016 Score=36.92 Aligned_cols=30 Identities=30% Similarity=0.825 Sum_probs=16.4
Q ss_pred CCCCccCcccccccCCchhHHHHHHHhccC
Q psy12258 109 GEKPHFCPVCNKMFRVRSDMKRHLNTHNVD 138 (171)
Q Consensus 109 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 138 (171)
.+.|..|++|+..+.+.-+|++|+.+.|..
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 355666777777777777777777666543
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.13 E-value=0.0002 Score=31.38 Aligned_cols=23 Identities=30% Similarity=0.912 Sum_probs=17.5
Q ss_pred ccCcccccccCCchhHHHHHHHh
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNTH 135 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~h 135 (171)
|.|.+|++.|.+...|..|++.+
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 56788888888888888887643
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=97.00 E-value=0.0009 Score=34.26 Aligned_cols=20 Identities=25% Similarity=0.507 Sum_probs=6.4
Q ss_pred cccchhhhccChHHHHHHHh
Q psy12258 58 QCEYCGKDFARKYSLVVHRR 77 (171)
Q Consensus 58 ~C~~C~~~~~~~~~l~~h~~ 77 (171)
.|++|+..+....+|.+|+.
T Consensus 26 tCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 26 TCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp E-TTT--EESSHHHHHHHHH
T ss_pred CCCcchhhccchhhHHHHHH
Confidence 33333333333333333333
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.97 E-value=0.00086 Score=29.20 Aligned_cols=23 Identities=43% Similarity=0.891 Sum_probs=15.7
Q ss_pred ccCccchhhcCCHHHHHHHHHHh
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIH 107 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h 107 (171)
|.|..|++.|.....|..|+..|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 45677777777777777776654
No 44
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.96 E-value=0.0042 Score=44.95 Aligned_cols=125 Identities=23% Similarity=0.417 Sum_probs=79.6
Q ss_pred cccccCChhhHHHHHHHcCCCCCeeCCccch---hccC------cccHHHhhhhcCCCCCc----ccccchhhhccChHH
Q psy12258 5 CGKSFFSSTALKVHNRVHLGLKPYGCEVCGR---HFRQ------WGDLKYHKASLHSDVKA----FQCEYCGKDFARKYS 71 (171)
Q Consensus 5 C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~---~f~~------~~~l~~H~~~~h~~~~~----~~C~~C~~~~~~~~~ 71 (171)
|..+...-..|..|.++.++. +.|.+|-. .|.. ...|..|... ...+.. -.|..|...|-+...
T Consensus 159 c~~~C~~~k~lk~H~K~~H~~--~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~-G~~e~GFKGHP~C~FC~~~FYdDDE 235 (493)
T COG5236 159 CHRRCGSLKELKKHYKAQHGF--VLCSECIGNKKDFWNEIRLFRSSTLRDHKNG-GLEEEGFKGHPLCIFCKIYFYDDDE 235 (493)
T ss_pred hhhhhhhHHHHHHHHHhhcCc--EEhHhhhcCcccCccceeeeecccccccccC-CccccCcCCCchhhhccceecChHH
Confidence 445555567788888876543 56777633 3332 3445555442 111112 259999999999999
Q ss_pred HHHHHhhhcCCCCccCccchhh-------cCCHHHHHHHHHHhcCCCCccCcc--cc----cccCCchhHHHHHHHhccC
Q psy12258 72 LVVHRRIHTGERNYQCEFCHKA-------FRASSYLQNHRRIHTGEKPHFCPV--CN----KMFRVRSDMKRHLNTHNVD 138 (171)
Q Consensus 72 l~~h~~~~~~~~~~~C~~C~~~-------~~~~~~l~~H~~~h~~~~~~~C~~--C~----~~f~~~~~l~~H~~~h~~~ 138 (171)
|..|++..+. +|.+|+++ |.+..+|..|... .-|.|.+ |. ..|.+...|..|+-..|+.
T Consensus 236 L~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~----~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~ 307 (493)
T COG5236 236 LRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRN----AHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKV 307 (493)
T ss_pred HHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhc----CceEEEEEEEecCcEEEeccHHHHHHHHHHHhhc
Confidence 9999987653 56666653 6777778777653 3356643 22 4688889999998665544
Q ss_pred cc
Q psy12258 139 AR 140 (171)
Q Consensus 139 ~~ 140 (171)
..
T Consensus 308 ~~ 309 (493)
T COG5236 308 NA 309 (493)
T ss_pred cc
Confidence 33
No 45
>PRK04860 hypothetical protein; Provisional
Probab=96.94 E-value=0.00031 Score=45.84 Aligned_cols=40 Identities=23% Similarity=0.580 Sum_probs=33.7
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCch
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVRS 126 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 126 (171)
-+|.|. |+. ....+.+|.+++.++++|+|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 368998 986 6778889999999999999999999887543
No 46
>KOG2231|consensus
Probab=96.67 E-value=0.0067 Score=47.99 Aligned_cols=95 Identities=25% Similarity=0.364 Sum_probs=61.7
Q ss_pred cCChhhHHHHHHHcCCCCCeeCCccch---hc------cCcccHHHhhhhcCCCCC----cccccchhhhccChHHHHHH
Q psy12258 9 FFSSTALKVHNRVHLGLKPYGCEVCGR---HF------RQWGDLKYHKASLHSDVK----AFQCEYCGKDFARKYSLVVH 75 (171)
Q Consensus 9 f~~~~~l~~H~~~h~~~~~~~C~~C~~---~f------~~~~~l~~H~~~~h~~~~----~~~C~~C~~~~~~~~~l~~h 75 (171)
|.....|+.|+...+. .+.|.+|-. .| -....|..|++.--.+++ .-.|..|...|.....|..|
T Consensus 124 ~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH 201 (669)
T KOG2231|consen 124 FKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRH 201 (669)
T ss_pred hhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHh
Confidence 3367789999865443 345555432 22 234556677664222222 24689999999999999999
Q ss_pred HhhhcCCCCccCccc------hhhcCCHHHHHHHHHHhcC
Q psy12258 76 RRIHTGERNYQCEFC------HKAFRASSYLQNHRRIHTG 109 (171)
Q Consensus 76 ~~~~~~~~~~~C~~C------~~~~~~~~~l~~H~~~h~~ 109 (171)
++..+ |.|..| +..|.....|..|.+..|-
T Consensus 202 ~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf 237 (669)
T KOG2231|consen 202 LRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF 237 (669)
T ss_pred hccce----eheeecCcccccchhcccchHHHHHhhhcCc
Confidence 98765 445555 4567888999999886543
No 47
>KOG2231|consensus
Probab=96.57 E-value=0.0048 Score=48.78 Aligned_cols=99 Identities=26% Similarity=0.567 Sum_probs=59.7
Q ss_pred CCccchhccCcccHHHhhhhcCCCCCcccccchh---hhcc------ChHHHHHHHhhhcC-CC----CccCccchhhcC
Q psy12258 30 CEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCG---KDFA------RKYSLVVHRRIHTG-ER----NYQCEFCHKAFR 95 (171)
Q Consensus 30 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~---~~~~------~~~~l~~h~~~~~~-~~----~~~C~~C~~~~~ 95 (171)
|..| ..|.....|..|+...|.. +.|..|- +.|. +...|..|+..--. .. .-.|..|...|.
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~~---~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fl 193 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHKL---HLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFL 193 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhhh---hccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhc
Confidence 4444 3444778899999877754 3333332 2222 33456666554321 11 346889999999
Q ss_pred CHHHHHHHHHHhcCCCCccCcccc------cccCCchhHHHHHHHhc
Q psy12258 96 ASSYLQNHRRIHTGEKPHFCPVCN------KMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 96 ~~~~l~~H~~~h~~~~~~~C~~C~------~~f~~~~~l~~H~~~h~ 136 (171)
....|.+|++.++ |.|..|. .-|.....|..|.|.+|
T Consensus 194 d~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 194 DDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred cHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhhcC
Confidence 9999999987543 3455552 33556667777776655
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.53 E-value=0.0016 Score=28.16 Aligned_cols=23 Identities=30% Similarity=0.647 Sum_probs=12.1
Q ss_pred ccCccchhhcCCHHHHHHHHHHhc
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIHT 108 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h~ 108 (171)
|+|+.|+.... ...|..|++.++
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 45666666555 556666665543
No 49
>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=96.11 E-value=0.0011 Score=29.66 Aligned_cols=22 Identities=27% Similarity=0.896 Sum_probs=15.7
Q ss_pred ccCcccccccCCchhHHHHHHH
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNT 134 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~ 134 (171)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5677777777777777777643
No 50
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=96.03 E-value=0.0017 Score=28.98 Aligned_cols=21 Identities=29% Similarity=0.654 Sum_probs=13.0
Q ss_pred eeCCccchhccCcccHHHhhh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~ 48 (171)
|.|..|++.|.+...+..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 456666666666666666654
No 51
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.84 E-value=0.0072 Score=26.42 Aligned_cols=19 Identities=26% Similarity=0.814 Sum_probs=11.1
Q ss_pred cCcccccccCCchhHHHHHH
Q psy12258 114 FCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 114 ~C~~C~~~f~~~~~l~~H~~ 133 (171)
.|+.||+.| ..+.|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 466666666 4555666654
No 52
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.65 E-value=0.0059 Score=44.21 Aligned_cols=103 Identities=27% Similarity=0.521 Sum_probs=70.9
Q ss_pred CeeCCc--cchhccCcccHHHhhhhcCCCCCcccccchh---hhcc------ChHHHHHHHhhhcCC----CCccCccch
Q psy12258 27 PYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCG---KDFA------RKYSLVVHRRIHTGE----RNYQCEFCH 91 (171)
Q Consensus 27 ~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~---~~~~------~~~~l~~h~~~~~~~----~~~~C~~C~ 91 (171)
.|.|+. |..+......|..|.+..|.. +.|..|- +.|. ....|..|...-..+ ..-.|..|.
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~---~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~ 227 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGF---VLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCK 227 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCc---EEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhcc
Confidence 478875 777777778899999876654 4565554 3333 234455565433222 123689999
Q ss_pred hhcCCHHHHHHHHHHhcCCCCccCcccccc-------cCCchhHHHHHHHhc
Q psy12258 92 KAFRASSYLQNHRRIHTGEKPHFCPVCNKM-------FRVRSDMKRHLNTHN 136 (171)
Q Consensus 92 ~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~-------f~~~~~l~~H~~~h~ 136 (171)
.-|-....|..|.+..+. +|-+|+++ |.++.+|..|.+..|
T Consensus 228 ~~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h 275 (493)
T COG5236 228 IYFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH 275 (493)
T ss_pred ceecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc
Confidence 999999999999886433 67777755 778899999987544
No 53
>PRK04860 hypothetical protein; Provisional
Probab=95.50 E-value=0.0064 Score=39.75 Aligned_cols=38 Identities=24% Similarity=0.699 Sum_probs=31.6
Q ss_pred cccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCH
Q psy12258 56 AFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRAS 97 (171)
Q Consensus 56 ~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~ 97 (171)
+|.|. |+. ....+..|.+.+.++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 58898 887 456788999999999999999999887644
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=95.09 E-value=0.0049 Score=46.53 Aligned_cols=139 Identities=24% Similarity=0.401 Sum_probs=80.4
Q ss_pred CCCccccccCChhhHHHHHH--HcCCC--CCeeCC--ccchhccCcccHHHhhhhcCCCCCcccccc--hhhhccChHH-
Q psy12258 1 MCDTCGKSFFSSTALKVHNR--VHLGL--KPYGCE--VCGRHFRQWGDLKYHKASLHSDVKAFQCEY--CGKDFARKYS- 71 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~--C~~~~~~~~~- 71 (171)
+|..|...|.+...|..|.+ .|.++ +++.|+ .|++.|.....+..|.. .|....+..+.. +...+.....
T Consensus 291 ~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 369 (467)
T COG5048 291 KSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHIL-LHTSISPAKEKLLNSSSKFSPLLNN 369 (467)
T ss_pred CCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcc-cccCCCccccccccCccccccccCC
Confidence 35677788888888888888 78888 888888 68888888888888876 566655544433 2222111111
Q ss_pred ----HHHHHhhhcCCCCccCc--cchhhcCCHHHHHHHHHHhcCCC--CccCcccccccCCchhHHHHHHHhccCcc
Q psy12258 72 ----LVVHRRIHTGERNYQCE--FCHKAFRASSYLQNHRRIHTGEK--PHFCPVCNKMFRVRSDMKRHLNTHNVDAR 140 (171)
Q Consensus 72 ----l~~h~~~~~~~~~~~C~--~C~~~~~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 140 (171)
...............+. .|...+.....+..|...+.... .+.+..|.+.+.....+..|++.|.....
T Consensus 370 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (467)
T COG5048 370 EPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAP 446 (467)
T ss_pred CCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCc
Confidence 00000111111222222 24444444444455544444433 45677788888888888777776654443
No 55
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=95.03 E-value=0.0098 Score=31.00 Aligned_cols=25 Identities=24% Similarity=0.372 Sum_probs=12.4
Q ss_pred CCCccCccchhhcCCHHHHHHHHHH
Q psy12258 82 ERNYQCEFCHKAFRASSYLQNHRRI 106 (171)
Q Consensus 82 ~~~~~C~~C~~~~~~~~~l~~H~~~ 106 (171)
+.-++||.|+..|...-++.+|+..
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhhH
Confidence 3344555555555555555555444
No 56
>KOG1146|consensus
Probab=94.85 E-value=0.014 Score=49.40 Aligned_cols=104 Identities=15% Similarity=0.271 Sum_probs=58.0
Q ss_pred eeCCccchhccCcccHHHhhhhcC---CCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHH
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLH---SDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHR 104 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h---~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~ 104 (171)
..|+.|...|........+-...- .....+.|..|++.+...-.+. ++-. ...|.|..|...|.....|..|.
T Consensus 1229 l~~~~~e~~f~~~~~~~~~a~~~~~~~~~sGe~~c~~~~~~~~~~~~~~-~l~~---~~~~~~~~~~~~~~~~~~l~~~~ 1304 (1406)
T KOG1146|consen 1229 LLPNALEQPFPQEPEPTATAPPKPPELPASGEGECGAVDELLTPSFGIS-TLDV---THRYLCRQCKMAFDGEAPLTAHQ 1304 (1406)
T ss_pred ccHHhhhcCccCcccccccCCCCCCcCcCCCcchhhhccccccCcccee-eccc---chhHHHHHHHhhhcchhHHHHHH
Confidence 345555666655555443322110 0112245555555555443333 2222 23455666666666666665554
Q ss_pred HH-----------------hcCCCCccCcccccccCCchhHHHHHHHhc
Q psy12258 105 RI-----------------HTGEKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 105 ~~-----------------h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
+. +....+| |..|...|.....|..|+++.+
T Consensus 1305 ~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~~~alqihm~~~~ 1352 (1406)
T KOG1146|consen 1305 RKFCFAGRGSGGSMPPPLRVPDCTYH-CLACEVLLSGREALQIHMRSSA 1352 (1406)
T ss_pred HHHHhccCccccCCCCcccCcccccc-chHHHhhcchhHHHHHHHHHhh
Confidence 32 2233456 9999999999999999998743
No 57
>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=94.64 E-value=0.012 Score=27.64 Aligned_cols=10 Identities=50% Similarity=1.348 Sum_probs=5.5
Q ss_pred CCccCccccc
Q psy12258 111 KPHFCPVCNK 120 (171)
Q Consensus 111 ~~~~C~~C~~ 120 (171)
.++.|++||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4456666653
No 58
>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=94.33 E-value=0.069 Score=32.59 Aligned_cols=83 Identities=16% Similarity=0.227 Sum_probs=47.0
Q ss_pred CCcccccchhhhccChHHHHHHHhhhcCCC-CccCccchhhcCCHHHHHHH-HHHh---cC---------CCCccC----
Q psy12258 54 VKAFQCEYCGKDFARKYSLVVHRRIHTGER-NYQCEFCHKAFRASSYLQNH-RRIH---TG---------EKPHFC---- 115 (171)
Q Consensus 54 ~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~-~~~C~~C~~~~~~~~~l~~H-~~~h---~~---------~~~~~C---- 115 (171)
.+.+.|..|...... +.+..|++..+... ...-..=...+.....+... ...- .. ..-|.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 455789999988776 78889988554322 11110000011000000000 0000 00 123899
Q ss_pred cccccccCCchhHHHHHHHhcc
Q psy12258 116 PVCNKMFRVRSDMKRHLNTHNV 137 (171)
Q Consensus 116 ~~C~~~f~~~~~l~~H~~~h~~ 137 (171)
..|+..+.+...+++|++.+|+
T Consensus 88 ~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 88 PHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCCcEeccHHHHHHHHHHhcC
Confidence 9999999999999999998874
No 59
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=94.21 E-value=0.031 Score=26.34 Aligned_cols=22 Identities=27% Similarity=0.683 Sum_probs=18.4
Q ss_pred CccCcccccccCCchhHHHHHH
Q psy12258 112 PHFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l~~H~~ 133 (171)
+|.|..|++.|.+...+..|++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 5789999999998888888874
No 60
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=94.18 E-value=0.027 Score=29.37 Aligned_cols=29 Identities=41% Similarity=0.752 Sum_probs=22.5
Q ss_pred cCCCCccCcccccccCCchhHHHHHHHhc
Q psy12258 108 TGEKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 108 ~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
-++..++|+.||..|....++.+|....|
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 46677888888888888888888876544
No 61
>KOG2482|consensus
Probab=94.08 E-value=0.067 Score=38.89 Aligned_cols=107 Identities=21% Similarity=0.362 Sum_probs=64.7
Q ss_pred CeeCCccchhccCcccHHHhhhhc-CCCCCc----c-cccchhhhccChHHHHHHH----hhh--c-------------C
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKASL-HSDVKA----F-QCEYCGKDFARKYSLVVHR----RIH--T-------------G 81 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~~~-h~~~~~----~-~C~~C~~~~~~~~~l~~h~----~~~--~-------------~ 81 (171)
.+.|-+|.+.|.+...|+.||+.. |.+..| | +--.-+..-..++....|. ..- . +
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~ 274 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDD 274 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCC
Confidence 378999999999999999999863 332222 1 0000111001111111111 110 0 1
Q ss_pred CCC--ccCccchhhcCCHHHHHHHHHHhcC---------------------------CCCccCcccccccCCchhHHHHH
Q psy12258 82 ERN--YQCEFCHKAFRASSYLQNHRRIHTG---------------------------EKPHFCPVCNKMFRVRSDMKRHL 132 (171)
Q Consensus 82 ~~~--~~C~~C~~~~~~~~~l~~H~~~h~~---------------------------~~~~~C~~C~~~f~~~~~l~~H~ 132 (171)
..+ .+|-.|...+.....|..|+...+. .....|-.|...|.....|..||
T Consensus 275 a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm 354 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHM 354 (423)
T ss_pred CCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhc
Confidence 112 5788898888888888888876442 11246888999999999999998
Q ss_pred H
Q psy12258 133 N 133 (171)
Q Consensus 133 ~ 133 (171)
-
T Consensus 355 ~ 355 (423)
T KOG2482|consen 355 V 355 (423)
T ss_pred c
Confidence 4
No 62
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=93.88 E-value=0.031 Score=26.34 Aligned_cols=22 Identities=18% Similarity=0.415 Sum_probs=13.9
Q ss_pred CeeCCccchhccCcccHHHhhh
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~ 48 (171)
+|.|++|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4566666666666666666654
No 63
>KOG4173|consensus
Probab=93.69 E-value=0.049 Score=36.69 Aligned_cols=47 Identities=28% Similarity=0.634 Sum_probs=33.3
Q ss_pred eeCCc--cchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhh
Q psy12258 28 YGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRI 78 (171)
Q Consensus 28 ~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~ 78 (171)
+.|++ |...|.+......|....|.. .|.+|.+.|++...|..|+..
T Consensus 80 ~~cqvagc~~~~d~lD~~E~hY~~~h~~----sCs~C~r~~Pt~hLLd~HI~E 128 (253)
T KOG4173|consen 80 FACQVAGCCQVFDALDDYEHHYHTLHGN----SCSFCKRAFPTGHLLDAHILE 128 (253)
T ss_pred ccccccchHHHHhhhhhHHHhhhhcccc----hhHHHHHhCCchhhhhHHHHH
Confidence 66765 777777777777776655543 688888888887777777654
No 64
>KOG4173|consensus
Probab=93.67 E-value=0.17 Score=34.15 Aligned_cols=79 Identities=29% Similarity=0.559 Sum_probs=59.9
Q ss_pred CCcccccc--hhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHHhc----------CCCCccC--cccc
Q psy12258 54 VKAFQCEY--CGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRIHT----------GEKPHFC--PVCN 119 (171)
Q Consensus 54 ~~~~~C~~--C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~----------~~~~~~C--~~C~ 119 (171)
.+.+.|.+ |-..|.+...+..|...-++. .|..|.+.|.....|..|+.-.+ |..-|.| ..|+
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h~~---sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt 153 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLHGN---SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCT 153 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcccc---hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhh
Confidence 34467876 777888877777777655442 69999999999999999976433 3455888 5599
Q ss_pred cccCCchhHHHHHH-Hh
Q psy12258 120 KMFRVRSDMKRHLN-TH 135 (171)
Q Consensus 120 ~~f~~~~~l~~H~~-~h 135 (171)
..|.+...-..|+- +|
T Consensus 154 ~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 154 EKFKTSRDRKDHMIRMH 170 (253)
T ss_pred hhhhhhhhhhhHHHHhc
Confidence 99999999889974 44
No 65
>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=93.43 E-value=0.038 Score=33.65 Aligned_cols=30 Identities=33% Similarity=0.843 Sum_probs=17.1
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccCh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 69 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 69 (171)
..|+.||..|. .|. ..|..|+.||..|...
T Consensus 10 R~Cp~CG~kFY---DLn---------k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFY---DLN---------KDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhc---cCC---------CCCccCCCCCCccCcc
Confidence 35777777662 211 2456677777666654
No 66
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=93.10 E-value=0.15 Score=31.07 Aligned_cols=83 Identities=17% Similarity=0.274 Sum_probs=48.2
Q ss_pred CCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHH-H--Hhhhc-C---------CCCccC----c
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVV-H--RRIHT-G---------ERNYQC----E 88 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~-h--~~~~~-~---------~~~~~C----~ 88 (171)
+-..|..|+..... ..+..|++..|..........-...+.....|.. . +.... . -.-|.| .
T Consensus 10 ~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~~ 88 (109)
T PF12013_consen 10 RVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDPP 88 (109)
T ss_pred CEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCCC
Confidence 45789999988766 8899999865643322111111111111110100 0 00000 0 123889 9
Q ss_pred cchhhcCCHHHHHHHHHHhcC
Q psy12258 89 FCHKAFRASSYLQNHRRIHTG 109 (171)
Q Consensus 89 ~C~~~~~~~~~l~~H~~~h~~ 109 (171)
.|+....+...+..|++.+++
T Consensus 89 ~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 89 HCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCcEeccHHHHHHHHHHhcC
Confidence 999999999999999998764
No 67
>KOG2893|consensus
Probab=92.43 E-value=0.053 Score=37.41 Aligned_cols=41 Identities=32% Similarity=0.599 Sum_probs=19.8
Q ss_pred CCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHH
Q psy12258 30 CEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVH 75 (171)
Q Consensus 30 C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h 75 (171)
|=+|.+-|.++.-|++|++. +.|+|.+|.+-+.+--.|..|
T Consensus 13 cwycnrefddekiliqhqka-----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA-----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred eeecccccchhhhhhhhhhh-----ccceeeeehhhhccCCCceee
Confidence 44555555555555555542 235555555443333334443
No 68
>KOG2482|consensus
Probab=92.16 E-value=0.4 Score=35.09 Aligned_cols=110 Identities=18% Similarity=0.271 Sum_probs=61.1
Q ss_pred CeeCCccchhc-cCcccHHHhhhhcCCCC---------------------CcccccchhhhccChHHHHHHHhhhc-CCC
Q psy12258 27 PYGCEVCGRHF-RQWGDLKYHKASLHSDV---------------------KAFQCEYCGKDFARKYSLVVHRRIHT-GER 83 (171)
Q Consensus 27 ~~~C~~C~~~f-~~~~~l~~H~~~~h~~~---------------------~~~~C~~C~~~~~~~~~l~~h~~~~~-~~~ 83 (171)
+..|-.|...+ .+++....|+-..|.-. ..+.|-.|.+.|.++..|..||+... .+-
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r~~CLyCekifrdkntLkeHMrkK~Hrri 223 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLERLRCLYCEKIFRDKNTLKEHMRKKRHRRI 223 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhhheeeeeccccCCcHHHHHHHHhccCccc
Confidence 45677775543 34566677766555321 23688899999999999999987532 111
Q ss_pred CccCccchh------hcCCHHHHHHHHHH----h--c-------------CCCC--ccCcccccccCCchhHHHHHHHhc
Q psy12258 84 NYQCEFCHK------AFRASSYLQNHRRI----H--T-------------GEKP--HFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 84 ~~~C~~C~~------~~~~~~~l~~H~~~----h--~-------------~~~~--~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
.-+-.+-++ .-..++....|... . . +..+ .+|-.|.........|..||+..|
T Consensus 224 nPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~~~~en~~~l~eHmk~vH 303 (423)
T KOG2482|consen 224 NPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDDAEALSVVCLFCTNFYENPVFLFEHMKIVH 303 (423)
T ss_pred CCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCCCCccceEEEeeccchhhHHHHHHHHHHHH
Confidence 111111111 00011111111111 0 0 1112 589999999888999999997644
No 69
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.73 E-value=0.15 Score=31.09 Aligned_cols=92 Identities=23% Similarity=0.306 Sum_probs=47.1
Q ss_pred CCCeeCCccchhccCcccHHHhhhhcCC-CCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHH
Q psy12258 25 LKPYGCEVCGRHFRQWGDLKYHKASLHS-DVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNH 103 (171)
Q Consensus 25 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~-~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H 103 (171)
+-|..|+.|+-+.-+...|.+... |- ..++|.=. . + ........|..|...|........
T Consensus 13 ~LP~~CpiCgLtLVss~HLARSyH--HLfPl~~f~ev------~--~--------~~~~~~~~C~~C~~~f~~~~~~~~- 73 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARSYH--HLFPLKAFQEI------P--L--------EEYNGSRFCFGCQGPFPKPPVSPF- 73 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHhhh--ccCCCcccccc------c--c--------cccCCCCcccCcCCCCCCcccccc-
Confidence 346677777777777777776542 21 11222100 0 0 000111237777776654321100
Q ss_pred HHHhcCCCCccCcccccccCCchhHHHHHHHhc
Q psy12258 104 RRIHTGEKPHFCPVCNKMFRVRSDMKRHLNTHN 136 (171)
Q Consensus 104 ~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 136 (171)
..-.....|+|+.|...|-..-++..|...|+
T Consensus 74 -~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 74 -DELKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred -cccccccceeCCCCCCccccccchhhhhhccC
Confidence 00122345778888888877777777766665
No 70
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.06 E-value=0.2 Score=30.57 Aligned_cols=18 Identities=33% Similarity=0.591 Sum_probs=12.4
Q ss_pred CCCccccccCChhhHHHH
Q psy12258 1 MCDTCGKSFFSSTALKVH 18 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H 18 (171)
.|++|+...-....|.+-
T Consensus 17 ~CpiCgLtLVss~HLARS 34 (112)
T TIGR00622 17 ECPICGLTLILSTHLARS 34 (112)
T ss_pred cCCcCCCEEeccchHHHh
Confidence 478888877666666553
No 71
>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=90.51 E-value=0.15 Score=22.45 Aligned_cols=10 Identities=40% Similarity=0.929 Sum_probs=7.1
Q ss_pred eCCccchhcc
Q psy12258 29 GCEVCGRHFR 38 (171)
Q Consensus 29 ~C~~C~~~f~ 38 (171)
.|+.||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5777877764
No 72
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=90.49 E-value=0.17 Score=26.93 Aligned_cols=9 Identities=44% Similarity=1.195 Sum_probs=5.1
Q ss_pred CCccCcccc
Q psy12258 111 KPHFCPVCN 119 (171)
Q Consensus 111 ~~~~C~~C~ 119 (171)
.+|+|+.||
T Consensus 49 ~~Y~Cp~CG 57 (61)
T COG2888 49 NPYRCPKCG 57 (61)
T ss_pred CceECCCcC
Confidence 455666555
No 73
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=90.16 E-value=0.16 Score=27.04 Aligned_cols=9 Identities=44% Similarity=1.231 Sum_probs=5.5
Q ss_pred CCccCcccc
Q psy12258 111 KPHFCPVCN 119 (171)
Q Consensus 111 ~~~~C~~C~ 119 (171)
.+|+|+.||
T Consensus 47 ~~Y~CP~CG 55 (59)
T PRK14890 47 NPYTCPKCG 55 (59)
T ss_pred CceECCCCC
Confidence 456666666
No 74
>PHA00626 hypothetical protein
Probab=89.82 E-value=0.075 Score=27.84 Aligned_cols=15 Identities=13% Similarity=0.104 Sum_probs=10.8
Q ss_pred CCCccCcccccccCC
Q psy12258 110 EKPHFCPVCNKMFRV 124 (171)
Q Consensus 110 ~~~~~C~~C~~~f~~ 124 (171)
...|+|+.||..|+.
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 356888888877753
No 75
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=89.73 E-value=0.037 Score=35.94 Aligned_cols=12 Identities=33% Similarity=0.728 Sum_probs=6.1
Q ss_pred ccCcccccccCC
Q psy12258 113 HFCPVCNKMFRV 124 (171)
Q Consensus 113 ~~C~~C~~~f~~ 124 (171)
++|+.||+.|..
T Consensus 29 ~~c~~c~~~f~~ 40 (154)
T PRK00464 29 RECLACGKRFTT 40 (154)
T ss_pred eeccccCCcceE
Confidence 455555555543
No 76
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=89.65 E-value=0.11 Score=24.44 Aligned_cols=8 Identities=50% Similarity=1.613 Sum_probs=4.1
Q ss_pred CccCcccc
Q psy12258 112 PHFCPVCN 119 (171)
Q Consensus 112 ~~~C~~C~ 119 (171)
|..|++||
T Consensus 18 p~~CP~Cg 25 (34)
T cd00729 18 PEKCPICG 25 (34)
T ss_pred CCcCcCCC
Confidence 34555555
No 77
>KOG2893|consensus
Probab=89.11 E-value=0.085 Score=36.45 Aligned_cols=35 Identities=29% Similarity=0.904 Sum_probs=16.6
Q ss_pred ccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCH
Q psy12258 59 CEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRAS 97 (171)
Q Consensus 59 C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~ 97 (171)
|=+|++.|.+..-|..|++. +.|+|.+|.+.+-+-
T Consensus 13 cwycnrefddekiliqhqka----khfkchichkkl~sg 47 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKA----KHFKCHICHKKLFSG 47 (341)
T ss_pred eeecccccchhhhhhhhhhh----ccceeeeehhhhccC
Confidence 44455555555555544443 234555555444333
No 78
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=88.82 E-value=0.16 Score=24.47 Aligned_cols=8 Identities=38% Similarity=1.028 Sum_probs=3.1
Q ss_pred ccCccccc
Q psy12258 113 HFCPVCNK 120 (171)
Q Consensus 113 ~~C~~C~~ 120 (171)
.+|+.|+.
T Consensus 26 vrC~~C~~ 33 (37)
T PF13719_consen 26 VRCPKCGH 33 (37)
T ss_pred EECCCCCc
Confidence 33444433
No 79
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=88.73 E-value=0.13 Score=38.84 Aligned_cols=58 Identities=36% Similarity=0.646 Sum_probs=48.6
Q ss_pred CCccCccchhhcCCHHHHHHHHH--HhcCC--CCccCc--ccccccCCchhHHHHHHHhccCcc
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRR--IHTGE--KPHFCP--VCNKMFRVRSDMKRHLNTHNVDAR 140 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~h~~~~~ 140 (171)
.++.|..|...|.....+..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISP 351 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCc
Confidence 35788889999999999999998 78888 899998 799999999988888887765543
No 80
>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=88.39 E-value=0.24 Score=30.84 Aligned_cols=30 Identities=23% Similarity=0.464 Sum_probs=19.8
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccCh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 69 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 69 (171)
..|+.||..|.. | +..|..|+.|+..+...
T Consensus 10 r~Cp~cg~kFYD---L---------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYD---L---------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccc---c---------CCCCccCCCcCCccCcc
Confidence 468888888722 2 13467788888876654
No 81
>KOG2186|consensus
Probab=86.94 E-value=0.39 Score=33.60 Aligned_cols=46 Identities=30% Similarity=0.673 Sum_probs=26.6
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRR 77 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~ 77 (171)
|.|+.||....-.. +-.|+.. .++ .-|.|..|+..|.. ..+..|..
T Consensus 4 FtCnvCgEsvKKp~-vekH~sr-Crn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQ-VEKHMSR-CRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccccc-hHHHHHh-ccC-CeeEEeeccccccc-chhhhhhh
Confidence 66777777655443 4446652 332 55677777777776 34455543
No 82
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=86.89 E-value=0.26 Score=23.55 Aligned_cols=6 Identities=33% Similarity=1.049 Sum_probs=2.2
Q ss_pred cCcccc
Q psy12258 114 FCPVCN 119 (171)
Q Consensus 114 ~C~~C~ 119 (171)
+|+.|+
T Consensus 27 ~C~~C~ 32 (36)
T PF13717_consen 27 RCSKCG 32 (36)
T ss_pred ECCCCC
Confidence 333333
No 83
>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=86.80 E-value=0.24 Score=34.74 Aligned_cols=80 Identities=21% Similarity=0.464 Sum_probs=47.0
Q ss_pred CCcccccchhhhccChHHHHHHHhhh--cCCCCccCccchhhcCCHHHH-------HHHHHH----hcCCCCccCccccc
Q psy12258 54 VKAFQCEYCGKDFARKYSLVVHRRIH--TGERNYQCEFCHKAFRASSYL-------QNHRRI----HTGEKPHFCPVCNK 120 (171)
Q Consensus 54 ~~~~~C~~C~~~~~~~~~l~~h~~~~--~~~~~~~C~~C~~~~~~~~~l-------~~H~~~----h~~~~~~~C~~C~~ 120 (171)
-+.|.|..|+..+-....+. |+..- .....|+|..|++.-.+. -| ..|++. ....+++.||+||.
T Consensus 140 Grif~CsfC~~flCEDDQFE-HQAsCQvLe~E~~KC~SCNrlGq~s-CLRCK~cfCddHvrrKg~ky~k~k~~PCPKCg~ 217 (314)
T PF06524_consen 140 GRIFKCSFCDNFLCEDDQFE-HQASCQVLESETFKCQSCNRLGQYS-CLRCKICFCDDHVRRKGFKYEKGKPIPCPKCGY 217 (314)
T ss_pred CeEEEeecCCCeeeccchhh-hhhhhhhhhcccccccccccccchh-hhheeeeehhhhhhhcccccccCCCCCCCCCCC
Confidence 45688888887555444433 33221 223467777776543222 11 134332 23468899999999
Q ss_pred ccCCchhHHHHHHHh
Q psy12258 121 MFRVRSDMKRHLNTH 135 (171)
Q Consensus 121 ~f~~~~~l~~H~~~h 135 (171)
.......|..-.|.|
T Consensus 218 et~eTkdLSmStR~h 232 (314)
T PF06524_consen 218 ETQETKDLSMSTRSH 232 (314)
T ss_pred cccccccceeeeecc
Confidence 888777776666655
No 84
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=86.66 E-value=0.32 Score=31.99 Aligned_cols=24 Identities=38% Similarity=1.077 Sum_probs=18.2
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCccccc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNK 120 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~ 120 (171)
-|.|++||.. +.++-|-+||+||.
T Consensus 134 ~~vC~vCGy~-------------~~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYT-------------HEGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCc-------------ccCCCCCcCCCCCC
Confidence 5899999854 34577889999983
No 85
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=86.41 E-value=0.26 Score=24.72 Aligned_cols=10 Identities=30% Similarity=0.747 Sum_probs=5.1
Q ss_pred ccCccchhhc
Q psy12258 85 YQCEFCHKAF 94 (171)
Q Consensus 85 ~~C~~C~~~~ 94 (171)
|.|..||..|
T Consensus 3 Y~C~~Cg~~~ 12 (44)
T smart00659 3 YICGECGREN 12 (44)
T ss_pred EECCCCCCEe
Confidence 4455555544
No 86
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=86.21 E-value=0.13 Score=35.53 Aligned_cols=40 Identities=30% Similarity=0.561 Sum_probs=23.4
Q ss_pred CCCccccccCChhhHHHHHHHcC----------CCCC-----eeCCccchhccCc
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHL----------GLKP-----YGCEVCGRHFRQW 40 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~----------~~~~-----~~C~~C~~~f~~~ 40 (171)
.||+|+..|.+..-.....+.-. +..| ..|+.||..+...
T Consensus 7 ~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 7 TCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred ECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 48999998887765444433211 1111 5678887766544
No 87
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=86.17 E-value=0.49 Score=22.69 Aligned_cols=14 Identities=29% Similarity=0.591 Sum_probs=7.3
Q ss_pred eeCCccchhccCcc
Q psy12258 28 YGCEVCGRHFRQWG 41 (171)
Q Consensus 28 ~~C~~C~~~f~~~~ 41 (171)
+.|+.|+..|.-..
T Consensus 3 ~~CP~C~~~~~v~~ 16 (38)
T TIGR02098 3 IQCPNCKTSFRVVD 16 (38)
T ss_pred EECCCCCCEEEeCH
Confidence 34666666554443
No 88
>KOG2785|consensus
Probab=85.87 E-value=0.66 Score=34.47 Aligned_cols=21 Identities=19% Similarity=0.570 Sum_probs=13.2
Q ss_pred eeCCccchhccCcccHHHhhh
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~ 48 (171)
|+|.-|...|........|++
T Consensus 4 ftC~tC~v~F~~ad~Qr~HyK 24 (390)
T KOG2785|consen 4 FTCNTCNVEFDDADEQRAHYK 24 (390)
T ss_pred ceeeceeeeeccHHHHHHHhh
Confidence 566666666666665555654
No 89
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=85.79 E-value=0.24 Score=34.15 Aligned_cols=45 Identities=22% Similarity=0.424 Sum_probs=28.1
Q ss_pred CCCeeCCccchhccCcccHHHhhhhcC---------CCCCc-----ccccchhhhccCh
Q psy12258 25 LKPYGCEVCGRHFRQWGDLKYHKASLH---------SDVKA-----FQCEYCGKDFARK 69 (171)
Q Consensus 25 ~~~~~C~~C~~~f~~~~~l~~H~~~~h---------~~~~~-----~~C~~C~~~~~~~ 69 (171)
++...||+|+..|....-.....+... .+..| +.|+.||.++...
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 456899999999987754443333211 12223 5789998776643
No 90
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=85.50 E-value=0.69 Score=30.32 Aligned_cols=36 Identities=19% Similarity=0.401 Sum_probs=26.4
Q ss_pred hcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 79 HTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 79 ~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
.....-|.|+.|+..|+....+. ..|.|+.||....
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 34456688988988888777774 2588999987654
No 91
>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=84.88 E-value=0.11 Score=25.36 Aligned_cols=10 Identities=50% Similarity=1.271 Sum_probs=4.9
Q ss_pred ccCccchhhc
Q psy12258 85 YQCEFCHKAF 94 (171)
Q Consensus 85 ~~C~~C~~~~ 94 (171)
|+|+.||..|
T Consensus 6 y~C~~Cg~~f 15 (41)
T smart00834 6 YRCEDCGHTF 15 (41)
T ss_pred EEcCCCCCEE
Confidence 4455555444
No 92
>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=84.18 E-value=1 Score=19.76 Aligned_cols=18 Identities=17% Similarity=0.469 Sum_probs=9.6
Q ss_pred CCccccccCChhhHHHHHH
Q psy12258 2 CDTCGKSFFSSTALKVHNR 20 (171)
Q Consensus 2 C~~C~~~f~~~~~l~~H~~ 20 (171)
||+|+..+ ....+..|+.
T Consensus 4 CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 4 CPVCFREV-PENLINSHLD 21 (26)
T ss_pred CCCCcCcc-cHHHHHHHHH
Confidence 66666655 3444555543
No 93
>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=84.13 E-value=0.7 Score=30.30 Aligned_cols=16 Identities=19% Similarity=0.233 Sum_probs=7.1
Q ss_pred cccccchhhhccChHH
Q psy12258 56 AFQCEYCGKDFARKYS 71 (171)
Q Consensus 56 ~~~C~~C~~~~~~~~~ 71 (171)
-|.|+.|+..|+...+
T Consensus 109 ~Y~Cp~c~~r~tf~eA 124 (158)
T TIGR00373 109 FFICPNMCVRFTFNEA 124 (158)
T ss_pred eEECCCCCcEeeHHHH
Confidence 3444444444444333
No 94
>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=83.09 E-value=0.92 Score=22.57 Aligned_cols=25 Identities=36% Similarity=0.728 Sum_probs=14.5
Q ss_pred CCCccCcccccccCC----chhHHHHHHH
Q psy12258 110 EKPHFCPVCNKMFRV----RSDMKRHLNT 134 (171)
Q Consensus 110 ~~~~~C~~C~~~f~~----~~~l~~H~~~ 134 (171)
....+|..|++.+.. .+.|.+|++.
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 445678888877765 3678888743
No 95
>PF14353 CpXC: CpXC protein
Probab=82.90 E-value=0.52 Score=29.60 Aligned_cols=47 Identities=32% Similarity=0.533 Sum_probs=29.9
Q ss_pred CCCccccccCChhh----------HHHHHHHcCCCCCeeCCccchhccCcccHHHhhh
Q psy12258 1 MCDTCGKSFFSSTA----------LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 1 ~C~~C~~~f~~~~~----------l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 48 (171)
.||.|+..|...-. |+.-+. --.-..+.|+.||..|.-...+..|..
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il-~g~l~~~~CP~Cg~~~~~~~p~lY~D~ 59 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKIL-DGSLFSFTCPSCGHKFRLEYPLLYHDP 59 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHH-cCCcCEEECCCCCCceecCCCEEEEcC
Confidence 48889887654432 222222 111235889999999988888777765
No 96
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=82.51 E-value=1.2 Score=28.73 Aligned_cols=15 Identities=20% Similarity=0.494 Sum_probs=8.8
Q ss_pred CCCeeCCccchhccC
Q psy12258 25 LKPYGCEVCGRHFRQ 39 (171)
Q Consensus 25 ~~~~~C~~C~~~f~~ 39 (171)
...|.|+.|+..|..
T Consensus 97 ~~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 97 NAYYKCPNCQSKYTF 111 (147)
T ss_pred CcEEECcCCCCEeeH
Confidence 345666666666654
No 97
>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=81.86 E-value=0.19 Score=26.08 Aligned_cols=11 Identities=36% Similarity=1.086 Sum_probs=5.5
Q ss_pred ccCccchhhcC
Q psy12258 85 YQCEFCHKAFR 95 (171)
Q Consensus 85 ~~C~~C~~~~~ 95 (171)
|+|..|+..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44555555443
No 98
>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=81.85 E-value=0.46 Score=21.67 Aligned_cols=24 Identities=21% Similarity=0.742 Sum_probs=9.4
Q ss_pred cCccchhhcCCHHHHHHHHHHhcCCCCccCccccc
Q psy12258 86 QCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNK 120 (171)
Q Consensus 86 ~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~ 120 (171)
+|+.|+..+.. .....+.|+.|+.
T Consensus 4 ~Cp~C~se~~y-----------~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 4 KCPLCGSEYTY-----------EDGELLVCPECGH 27 (30)
T ss_dssp --TTT-----E-----------E-SSSEEETTTTE
T ss_pred CCCCCCCccee-----------ccCCEEeCCcccc
Confidence 46666655544 3345566666664
No 99
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=81.60 E-value=0.89 Score=30.46 Aligned_cols=35 Identities=23% Similarity=0.550 Sum_probs=25.8
Q ss_pred CCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCC
Q psy12258 81 GERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRV 124 (171)
Q Consensus 81 ~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 124 (171)
...-|.|+.|+..|+....+. ..|.|+.||-....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 345688999998887777653 35899999976553
No 100
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=80.65 E-value=1 Score=30.17 Aligned_cols=14 Identities=21% Similarity=0.292 Sum_probs=6.5
Q ss_pred CeeCCccchhccCc
Q psy12258 27 PYGCEVCGRHFRQW 40 (171)
Q Consensus 27 ~~~C~~C~~~f~~~ 40 (171)
-|.|+.|+..|+..
T Consensus 117 ~Y~Cp~C~~rytf~ 130 (178)
T PRK06266 117 FFFCPNCHIRFTFD 130 (178)
T ss_pred EEECCCCCcEEeHH
Confidence 34455555444433
No 101
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=79.54 E-value=0.41 Score=24.18 Aligned_cols=10 Identities=30% Similarity=1.016 Sum_probs=5.3
Q ss_pred ccCccchhhc
Q psy12258 85 YQCEFCHKAF 94 (171)
Q Consensus 85 ~~C~~C~~~~ 94 (171)
|+|+.||..+
T Consensus 4 y~C~~CG~~~ 13 (46)
T PRK00398 4 YKCARCGREV 13 (46)
T ss_pred EECCCCCCEE
Confidence 4555555544
No 102
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=79.18 E-value=1.5 Score=22.46 Aligned_cols=22 Identities=32% Similarity=0.662 Sum_probs=14.6
Q ss_pred ccCcccccccCCc-----hhHHHHHHH
Q psy12258 113 HFCPVCNKMFRVR-----SDMKRHLNT 134 (171)
Q Consensus 113 ~~C~~C~~~f~~~-----~~l~~H~~~ 134 (171)
..|..|++.+... +.|.+|++.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 4677777776544 578888763
No 103
>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=77.95 E-value=0.94 Score=31.24 Aligned_cols=27 Identities=22% Similarity=0.607 Sum_probs=17.1
Q ss_pred CCccCcccccccCCchhHHHHHHHhcc
Q psy12258 111 KPHFCPVCNKMFRVRSDMKRHLNTHNV 137 (171)
Q Consensus 111 ~~~~C~~C~~~f~~~~~l~~H~~~h~~ 137 (171)
..|.|+.|+|.|.-..-.++|+..-|.
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CEECCCCCCcccCChHHHHHHHhhcCH
Confidence 347788888888777777777765443
No 104
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=77.47 E-value=0.82 Score=26.46 Aligned_cols=31 Identities=19% Similarity=0.478 Sum_probs=20.3
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
..+.||.|++.- +. -.+...+.|..||..|.
T Consensus 34 ~~~~Cp~C~~~~--------Vk--R~a~GIW~C~kCg~~fA 64 (89)
T COG1997 34 AKHVCPFCGRTT--------VK--RIATGIWKCRKCGAKFA 64 (89)
T ss_pred cCCcCCCCCCcc--------ee--eeccCeEEcCCCCCeec
Confidence 357888887541 11 12346688989988875
No 105
>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=77.11 E-value=1.3 Score=21.90 Aligned_cols=13 Identities=46% Similarity=1.135 Sum_probs=7.2
Q ss_pred eeCCccchhccCc
Q psy12258 28 YGCEVCGRHFRQW 40 (171)
Q Consensus 28 ~~C~~C~~~f~~~ 40 (171)
|.|+.||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 5566666665433
No 106
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=77.03 E-value=0.42 Score=26.78 Aligned_cols=41 Identities=24% Similarity=0.484 Sum_probs=24.8
Q ss_pred ccCccchhhcCCHHHHHHHHHHhcCCCCccCc--ccccccCCchh
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIHTGEKPHFCP--VCNKMFRVRSD 127 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~--~C~~~f~~~~~ 127 (171)
+.|+.||.......+-.... ...+.-+.|. .||..|...-.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~--~~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITD--TTKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred ccCCCCCCccEEEEChhcCh--hhheeeeecCCCCCCCEEEEEEE
Confidence 57888887653333322221 1445668897 89999875533
No 107
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=76.45 E-value=0.88 Score=23.37 Aligned_cols=10 Identities=30% Similarity=1.016 Sum_probs=5.3
Q ss_pred ccCccchhhc
Q psy12258 85 YQCEFCHKAF 94 (171)
Q Consensus 85 ~~C~~C~~~~ 94 (171)
|+|..||+.|
T Consensus 7 Y~C~~Cg~~~ 16 (49)
T COG1996 7 YKCARCGREV 16 (49)
T ss_pred EEhhhcCCee
Confidence 4555555554
No 108
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=75.80 E-value=1.5 Score=27.83 Aligned_cols=25 Identities=40% Similarity=0.671 Sum_probs=15.6
Q ss_pred CCccCcccccccCCchhHHHHHHHhccC
Q psy12258 111 KPHFCPVCNKMFRVRSDMKRHLNTHNVD 138 (171)
Q Consensus 111 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~ 138 (171)
.-..|-+||+.|+. |.+|++.||+-
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S
T ss_pred CeeEEccCCcccch---HHHHHHHccCC
Confidence 34679999998874 58999998543
No 109
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=75.54 E-value=1.4 Score=26.68 Aligned_cols=27 Identities=22% Similarity=0.402 Sum_probs=15.9
Q ss_pred eCCccchhccCcccHHHhhhhcCCCCCcccccchhhhcc
Q psy12258 29 GCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 67 (171)
Q Consensus 29 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~ 67 (171)
+|+.|++.|-. | ...|..|++|+++|+
T Consensus 11 idPetg~KFYD---L---------NrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYD---L---------NRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhc---c---------CCCccccCcccccch
Confidence 56677766622 1 134567777777764
No 110
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=74.67 E-value=3.5 Score=20.26 Aligned_cols=22 Identities=36% Similarity=0.733 Sum_probs=13.3
Q ss_pred CCCccccccC--ChhhHHHHHHHc
Q psy12258 1 MCDTCGKSFF--SSTALKVHNRVH 22 (171)
Q Consensus 1 ~C~~C~~~f~--~~~~l~~H~~~h 22 (171)
+|+.|+..|. ...+-..|.+.|
T Consensus 15 ~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 15 TCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred CCCCCCCEECCCCHHHHHHHHHHH
Confidence 4777776653 455566666554
No 111
>KOG2785|consensus
Probab=74.36 E-value=4 Score=30.59 Aligned_cols=51 Identities=22% Similarity=0.402 Sum_probs=33.5
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCC-----------------------CCccCcccc---cccCCchhHHHHHHH
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGE-----------------------KPHFCPVCN---KMFRVRSDMKRHLNT 134 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 134 (171)
|-.|-.|+..+........|+..+|+- .-+.|-.|+ +.|.+....++||+.
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 345556666666665555665555441 236788888 888888899999853
No 112
>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=73.59 E-value=0.95 Score=21.00 Aligned_cols=6 Identities=50% Similarity=1.436 Sum_probs=2.2
Q ss_pred cCcccc
Q psy12258 114 FCPVCN 119 (171)
Q Consensus 114 ~C~~C~ 119 (171)
+|+.||
T Consensus 19 rC~~CG 24 (32)
T PF03604_consen 19 RCPECG 24 (32)
T ss_dssp SBSSSS
T ss_pred ECCcCC
Confidence 333333
No 113
>PF12907 zf-met2: Zinc-binding
Probab=72.80 E-value=1.7 Score=21.32 Aligned_cols=10 Identities=40% Similarity=0.511 Sum_probs=4.3
Q ss_pred HHHhhhhcCC
Q psy12258 43 LKYHKASLHS 52 (171)
Q Consensus 43 l~~H~~~~h~ 52 (171)
|..|...-|+
T Consensus 20 L~eH~enKHp 29 (40)
T PF12907_consen 20 LKEHAENKHP 29 (40)
T ss_pred HHHHHHccCC
Confidence 4444443343
No 114
>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=71.94 E-value=0.75 Score=21.96 Aligned_cols=8 Identities=25% Similarity=0.754 Sum_probs=3.5
Q ss_pred ccCccccc
Q psy12258 113 HFCPVCNK 120 (171)
Q Consensus 113 ~~C~~C~~ 120 (171)
-.|..||-
T Consensus 22 ~~Cd~cg~ 29 (36)
T PF05191_consen 22 GVCDNCGG 29 (36)
T ss_dssp TBCTTTTE
T ss_pred CccCCCCC
Confidence 34444443
No 115
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=69.06 E-value=2.2 Score=24.95 Aligned_cols=14 Identities=36% Similarity=0.731 Sum_probs=7.9
Q ss_pred CCccCccchhhcCC
Q psy12258 83 RNYQCEFCHKAFRA 96 (171)
Q Consensus 83 ~~~~C~~C~~~~~~ 96 (171)
.|-+|..||+.|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34556666666644
No 116
>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=66.70 E-value=2.9 Score=27.01 Aligned_cols=47 Identities=23% Similarity=0.396 Sum_probs=27.2
Q ss_pred ccCccchhhcCCHHHHHH--HHH---HhcCCCCccCcccccccCCchhHHHH
Q psy12258 85 YQCEFCHKAFRASSYLQN--HRR---IHTGEKPHFCPVCNKMFRVRSDMKRH 131 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~--H~~---~h~~~~~~~C~~C~~~f~~~~~l~~H 131 (171)
-+|+.|+..+...+.-.. -+. .......+.|+.||+.|-.-+...+-
T Consensus 92 sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~~~~ 143 (147)
T PF01927_consen 92 SRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHWRRM 143 (147)
T ss_pred CccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEecccccHHHH
Confidence 589999876644322111 010 01224468999999999766555443
No 117
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=66.48 E-value=2 Score=20.98 Aligned_cols=16 Identities=25% Similarity=0.357 Sum_probs=7.2
Q ss_pred ccccchhhhccChHHH
Q psy12258 57 FQCEYCGKDFARKYSL 72 (171)
Q Consensus 57 ~~C~~C~~~~~~~~~l 72 (171)
..|+.|+-.+.+...|
T Consensus 20 d~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGEL 35 (41)
T ss_pred EECCCCCeEEccHHHH
Confidence 3444444444444433
No 118
>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=66.24 E-value=2.4 Score=18.22 Aligned_cols=8 Identities=50% Similarity=1.352 Sum_probs=4.4
Q ss_pred CccCcccc
Q psy12258 112 PHFCPVCN 119 (171)
Q Consensus 112 ~~~C~~C~ 119 (171)
+|.|+.||
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 45555555
No 119
>KOG2807|consensus
Probab=65.00 E-value=9.1 Score=28.20 Aligned_cols=27 Identities=26% Similarity=0.461 Sum_probs=21.1
Q ss_pred CccCcccccccCCchhHHHHHHHhccC
Q psy12258 112 PHFCPVCNKMFRVRSDMKRHLNTHNVD 138 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l~~H~~~h~~~ 138 (171)
.|.|..|...|-..-+...|-..|.-.
T Consensus 345 ~y~C~~Ck~~FCldCDv~iHesLh~Cp 371 (378)
T KOG2807|consen 345 RYRCESCKNVFCLDCDVFIHESLHNCP 371 (378)
T ss_pred cEEchhccceeeccchHHHHhhhhcCC
Confidence 488888988888888888887777543
No 120
>KOG2593|consensus
Probab=64.33 E-value=7 Score=29.87 Aligned_cols=39 Identities=23% Similarity=0.468 Sum_probs=26.8
Q ss_pred cCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccc
Q psy12258 80 TGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKM 121 (171)
Q Consensus 80 ~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~ 121 (171)
+...-|.||.|.+.|+....++- .......|.|..|+-.
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGE 162 (436)
T ss_pred cccccccCCccccchhhhHHHHh---hcccCceEEEecCCCc
Confidence 34567999999998877766542 2333456889888844
No 121
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=64.30 E-value=7.8 Score=19.44 Aligned_cols=21 Identities=14% Similarity=0.172 Sum_probs=12.0
Q ss_pred HHHHHHcCCCCCeeCCccchh
Q psy12258 16 KVHNRVHLGLKPYGCEVCGRH 36 (171)
Q Consensus 16 ~~H~~~h~~~~~~~C~~C~~~ 36 (171)
..++....-...+.|+.||..
T Consensus 7 ~~~l~~~RW~~g~~CP~Cg~~ 27 (46)
T PF12760_consen 7 REYLEEIRWPDGFVCPHCGST 27 (46)
T ss_pred HHHHHHhcCCCCCCCCCCCCe
Confidence 344444444555677777754
No 122
>KOG2186|consensus
Probab=64.21 E-value=4.4 Score=28.58 Aligned_cols=48 Identities=23% Similarity=0.519 Sum_probs=38.4
Q ss_pred cccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHH
Q psy12258 56 AFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRI 106 (171)
Q Consensus 56 ~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~ 106 (171)
-|.|..||.+..-. .+..|+...++ ..|.|-.|+..|.. .++..|..-
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 37899999988765 56679888877 67999999999987 677788653
No 123
>PRK04023 DNA polymerase II large subunit; Validated
Probab=64.18 E-value=7 Score=33.35 Aligned_cols=49 Identities=24% Similarity=0.629 Sum_probs=29.6
Q ss_pred CeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHH
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRI 106 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~ 106 (171)
...|+.||... ..+.|+.||.. ....+.|+.|+...
T Consensus 626 ~RfCpsCG~~t-----------------~~frCP~CG~~---------------Te~i~fCP~CG~~~------------ 661 (1121)
T PRK04023 626 RRKCPSCGKET-----------------FYRRCPFCGTH---------------TEPVYRCPRCGIEV------------ 661 (1121)
T ss_pred CccCCCCCCcC-----------------CcccCCCCCCC---------------CCcceeCccccCcC------------
Confidence 45788888762 12568888775 12346777775332
Q ss_pred hcCCCCccCcccccccC
Q psy12258 107 HTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 107 h~~~~~~~C~~C~~~f~ 123 (171)
.++.|+.||..-.
T Consensus 662 ----~~y~CPKCG~El~ 674 (1121)
T PRK04023 662 ----EEDECEKCGREPT 674 (1121)
T ss_pred ----CCCcCCCCCCCCC
Confidence 2366777775543
No 124
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=63.76 E-value=4.3 Score=25.68 Aligned_cols=21 Identities=48% Similarity=0.744 Sum_probs=11.4
Q ss_pred CCccccccCChhhHHHHHHHcCCC
Q psy12258 2 CDTCGKSFFSSTALKVHNRVHLGL 25 (171)
Q Consensus 2 C~~C~~~f~~~~~l~~H~~~h~~~ 25 (171)
|-++|+.| .+|.+|+.+|.+-
T Consensus 79 cLEDGkkf---KSLKRHL~t~~gm 99 (148)
T COG4957 79 CLEDGKKF---KSLKRHLTTHYGL 99 (148)
T ss_pred EeccCcch---HHHHHHHhcccCC
Confidence 44555555 5556666665543
No 125
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=63.54 E-value=1.4 Score=35.66 Aligned_cols=60 Identities=25% Similarity=0.519 Sum_probs=37.4
Q ss_pred cccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 58 QCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 58 ~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
.|..||-.|+-...|.--+..-+-..--.|+.|.+.|.....-+-| .+|.-|+.||-...
T Consensus 125 ~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfH------AQp~aCp~CGP~~~ 184 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFH------AQPIACPKCGPHLF 184 (750)
T ss_pred ccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccc------cccccCcccCCCeE
Confidence 5788887777654443322222222223688888888887766555 45678888986543
No 126
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=63.35 E-value=3.2 Score=17.54 Aligned_cols=7 Identities=43% Similarity=1.388 Sum_probs=3.8
Q ss_pred CCccccc
Q psy12258 2 CDTCGKS 8 (171)
Q Consensus 2 C~~C~~~ 8 (171)
|+.|+..
T Consensus 2 Cp~CG~~ 8 (23)
T PF13240_consen 2 CPNCGAE 8 (23)
T ss_pred CcccCCC
Confidence 5555554
No 127
>KOG1280|consensus
Probab=63.19 E-value=6.3 Score=29.20 Aligned_cols=27 Identities=22% Similarity=0.343 Sum_probs=17.5
Q ss_pred CeeCCccchhccCcccHHHhhhhcCCC
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKASLHSD 53 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~~~h~~ 53 (171)
.|.|++|+.+=.....|..|....|..
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcc
Confidence 467777776666666666676666653
No 128
>KOG2907|consensus
Probab=62.48 E-value=4 Score=24.92 Aligned_cols=35 Identities=29% Similarity=0.729 Sum_probs=19.5
Q ss_pred eeCCccchhccCcccHHHhhhhcCCC----CCcccccchhhhcc
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSD----VKAFQCEYCGKDFA 67 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~----~~~~~C~~C~~~~~ 67 (171)
..|+.||-- .|..|-++..+. ..-|.|+.|+.-|.
T Consensus 75 ~kCpkCghe-----~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~ 113 (116)
T KOG2907|consen 75 HKCPKCGHE-----EMSYHTLQLRSADEGQTVFYTCPKCKYKFT 113 (116)
T ss_pred ccCcccCCc-----hhhhhhhhcccccCCceEEEEcCccceeee
Confidence 568888743 344443332221 22378888887665
No 129
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=62.28 E-value=6.7 Score=20.71 Aligned_cols=15 Identities=20% Similarity=0.476 Sum_probs=9.4
Q ss_pred CCCCeeCCccchhcc
Q psy12258 24 GLKPYGCEVCGRHFR 38 (171)
Q Consensus 24 ~~~~~~C~~C~~~f~ 38 (171)
+...|.|+.||..+.
T Consensus 11 ~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 11 AHVNFECPDCGIPTH 25 (55)
T ss_pred cccCCcCCCCCCcCc
Confidence 345577777776653
No 130
>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=61.75 E-value=1.8 Score=22.76 Aligned_cols=31 Identities=13% Similarity=0.344 Sum_probs=16.0
Q ss_pred ccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
++|+.|+..+.-.... ......|+.||..+.
T Consensus 3 ~~CP~CG~~iev~~~~--------~GeiV~Cp~CGaele 33 (54)
T TIGR01206 3 FECPDCGAEIELENPE--------LGELVICDECGAELE 33 (54)
T ss_pred cCCCCCCCEEecCCCc--------cCCEEeCCCCCCEEE
Confidence 4677777655332221 122456777775543
No 131
>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=61.25 E-value=4.6 Score=20.55 Aligned_cols=15 Identities=33% Similarity=0.773 Sum_probs=8.6
Q ss_pred eeCCccchhccCccc
Q psy12258 28 YGCEVCGRHFRQWGD 42 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~ 42 (171)
|.|..|+..+.....
T Consensus 2 y~C~~CgyvYd~~~G 16 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKG 16 (47)
T ss_dssp EEETTTSBEEETTTB
T ss_pred cCCCCCCEEEcCCcC
Confidence 556666666555443
No 132
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=60.35 E-value=1.6 Score=22.92 Aligned_cols=9 Identities=56% Similarity=1.327 Sum_probs=4.4
Q ss_pred CCccccccC
Q psy12258 2 CDTCGKSFF 10 (171)
Q Consensus 2 C~~C~~~f~ 10 (171)
|+.|+..|.
T Consensus 8 C~~Cg~~~~ 16 (54)
T PF14446_consen 8 CPVCGKKFK 16 (54)
T ss_pred ChhhCCccc
Confidence 455555543
No 133
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=59.64 E-value=9.3 Score=25.20 Aligned_cols=49 Identities=20% Similarity=0.402 Sum_probs=26.9
Q ss_pred ccCccchhhcCCHHHH--HHHHH--H-hcCCCCccCcccccccCCchhHHHHHH
Q psy12258 85 YQCEFCHKAFRASSYL--QNHRR--I-HTGEKPHFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l--~~H~~--~-h~~~~~~~C~~C~~~f~~~~~l~~H~~ 133 (171)
-+|+.|+....-.+.= ..-+. + --....|.|+.||+.|-.-+....-.+
T Consensus 98 ~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~GsHw~~m~~ 151 (165)
T COG1656 98 SRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCPKCGKIYWKGSHWRRMVE 151 (165)
T ss_pred ccCcccCCEeccCcHHHHhhccchhhhhcccceeECCCCcccccCchHHHHHHH
Confidence 4789998765332221 10000 0 011345889999999976665544433
No 134
>KOG2593|consensus
Probab=59.63 E-value=6.7 Score=29.98 Aligned_cols=42 Identities=21% Similarity=0.634 Sum_probs=27.5
Q ss_pred cCCCCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhcc
Q psy12258 22 HLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 67 (171)
Q Consensus 22 h~~~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~ 67 (171)
-.....|.|+.|.+.|.+...+..- -...-.|.|..|+....
T Consensus 123 ~t~~~~Y~Cp~C~kkyt~Lea~~L~----~~~~~~F~C~~C~gelv 164 (436)
T KOG2593|consen 123 DTNVAGYVCPNCQKKYTSLEALQLL----DNETGEFHCENCGGELV 164 (436)
T ss_pred ccccccccCCccccchhhhHHHHhh----cccCceEEEecCCCchh
Confidence 3445679999999998776665432 22244688988886543
No 135
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=59.29 E-value=8.7 Score=27.11 Aligned_cols=27 Identities=15% Similarity=0.588 Sum_probs=15.8
Q ss_pred ChhhHHHHHHHcCCC-----CCeeCCccchhc
Q psy12258 11 SSTALKVHNRVHLGL-----KPYGCEVCGRHF 37 (171)
Q Consensus 11 ~~~~l~~H~~~h~~~-----~~~~C~~C~~~f 37 (171)
+..+|+.....+... ..|.|..|....
T Consensus 91 Te~Nlrm~d~a~~~~ip~~drqFaC~~Cd~~W 122 (278)
T PF15135_consen 91 TEENLRMFDDAQENLIPSVDRQFACSSCDHMW 122 (278)
T ss_pred hHHHHHHhhhhhhccccccceeeeccccchHH
Confidence 344555554444333 678898887654
No 136
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=58.56 E-value=2.7 Score=26.76 Aligned_cols=11 Identities=27% Similarity=1.220 Sum_probs=5.3
Q ss_pred ccccchhhhcc
Q psy12258 57 FQCEYCGKDFA 67 (171)
Q Consensus 57 ~~C~~C~~~~~ 67 (171)
+.|..|+..|.
T Consensus 71 ~~C~~CG~~~~ 81 (135)
T PRK03824 71 LKCRNCGNEWS 81 (135)
T ss_pred EECCCCCCEEe
Confidence 44555554443
No 137
>KOG4167|consensus
Probab=58.44 E-value=2.3 Score=34.62 Aligned_cols=23 Identities=35% Similarity=0.767 Sum_probs=19.2
Q ss_pred CCccccccCChhhHHHHHHHcCC
Q psy12258 2 CDTCGKSFFSSTALKVHNRVHLG 24 (171)
Q Consensus 2 C~~C~~~f~~~~~l~~H~~~h~~ 24 (171)
|.+|+++|....++..||+.|..
T Consensus 795 CreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 795 CRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred hHHHHHHHHHHhhhhHHHHHHHH
Confidence 77888898888888888888854
No 138
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.27 E-value=5.8 Score=22.37 Aligned_cols=10 Identities=50% Similarity=1.414 Sum_probs=5.3
Q ss_pred eeCCccchhc
Q psy12258 28 YGCEVCGRHF 37 (171)
Q Consensus 28 ~~C~~C~~~f 37 (171)
|.|..|+..|
T Consensus 13 Y~c~~cg~~~ 22 (82)
T COG2331 13 YECTECGNRF 22 (82)
T ss_pred EeecccchHH
Confidence 4555555544
No 139
>KOG3408|consensus
Probab=57.94 E-value=5.3 Score=24.77 Aligned_cols=23 Identities=30% Similarity=0.426 Sum_probs=15.9
Q ss_pred CCeeCCccchhccCcccHHHhhh
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~ 48 (171)
.+|-|-.|.+-|.+...|..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~k 78 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFK 78 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHh
Confidence 44667777777777777777765
No 140
>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=57.63 E-value=1.4 Score=28.29 Aligned_cols=13 Identities=23% Similarity=0.508 Sum_probs=7.0
Q ss_pred ccCcccccccCCc
Q psy12258 113 HFCPVCNKMFRVR 125 (171)
Q Consensus 113 ~~C~~C~~~f~~~ 125 (171)
-.|..||+.|++.
T Consensus 29 ReC~~C~~RFTTy 41 (147)
T TIGR00244 29 RECLECHERFTTF 41 (147)
T ss_pred ccCCccCCcccee
Confidence 3455555555544
No 141
>PF15269 zf-C2H2_7: Zinc-finger
Probab=57.15 E-value=6.9 Score=19.56 Aligned_cols=22 Identities=18% Similarity=0.271 Sum_probs=17.1
Q ss_pred ccCcccccccCCchhHHHHHHH
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNT 134 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~ 134 (171)
|+|-.|......++.|..||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6777788777788888888764
No 142
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=57.09 E-value=16 Score=26.84 Aligned_cols=80 Identities=23% Similarity=0.382 Sum_probs=45.3
Q ss_pred CCeeCCccchhccCcccHHHhhhhcCC----CC-------CcccccchhhhccChHHHHHHHhhhcCCCCccCccchhhc
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKASLHS----DV-------KAFQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAF 94 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~~h~----~~-------~~~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~ 94 (171)
-|..|+.|.-..-....|.+-.....+ .+ +.--|-.|...|+-...-. .-..+..-.|.|+.|...|
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~--~~~~~ss~rY~Ce~CK~~F 398 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSP--FDESTSSGRYQCELCKSTF 398 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCCCCCCCCCc--ccccccccceechhhhhhh
Confidence 356788888777666666554431111 01 1123667777666432100 0111223468899998888
Q ss_pred CCHHHHHHHHHHh
Q psy12258 95 RASSYLQNHRRIH 107 (171)
Q Consensus 95 ~~~~~l~~H~~~h 107 (171)
...-..-.|...|
T Consensus 399 C~dCdvfiHe~Lh 411 (421)
T COG5151 399 CSDCDVFIHETLH 411 (421)
T ss_pred hhhhHHHHHHHHh
Confidence 8887777776655
No 143
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=56.80 E-value=11 Score=19.38 Aligned_cols=14 Identities=29% Similarity=0.878 Sum_probs=7.4
Q ss_pred cccccchhhhccCh
Q psy12258 56 AFQCEYCGKDFARK 69 (171)
Q Consensus 56 ~~~C~~C~~~~~~~ 69 (171)
.+.|..|+..|...
T Consensus 4 ~l~C~dCg~~FvfT 17 (49)
T PF13451_consen 4 TLTCKDCGAEFVFT 17 (49)
T ss_pred eEEcccCCCeEEEe
Confidence 34555566555543
No 144
>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=56.28 E-value=2.4 Score=20.95 Aligned_cols=12 Identities=25% Similarity=0.703 Sum_probs=6.1
Q ss_pred CCCccCcccccc
Q psy12258 110 EKPHFCPVCNKM 121 (171)
Q Consensus 110 ~~~~~C~~C~~~ 121 (171)
...+.|+.||..
T Consensus 17 ~g~~vC~~CG~V 28 (43)
T PF08271_consen 17 RGELVCPNCGLV 28 (43)
T ss_dssp TTEEEETTT-BB
T ss_pred CCeEECCCCCCE
Confidence 344566666654
No 145
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=56.11 E-value=2.8 Score=25.86 Aligned_cols=39 Identities=18% Similarity=0.509 Sum_probs=19.5
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhcc
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 67 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~ 67 (171)
..|+.||..=.....++.-. ..-+...-|.|..|+..+.
T Consensus 73 ~~CpkCg~~ea~y~~~QtRs-aDEp~T~Fy~C~~Cg~~wr 111 (113)
T COG1594 73 EKCPKCGNKEAYYWQLQTRS-ADEPETRFYKCTRCGYRWR 111 (113)
T ss_pred ccCCCCCCceeEEEeeehhc-cCCCceEEEEecccCCEee
Confidence 56888876433333222111 1122233478888887654
No 146
>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=55.72 E-value=8.4 Score=21.07 Aligned_cols=32 Identities=25% Similarity=0.708 Sum_probs=20.2
Q ss_pred CeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccCh
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 69 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~~ 69 (171)
+-.|+.||..... -...+.|.|+.|+......
T Consensus 28 Sq~C~~CG~~~~~-----------~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 28 SQTCPRCGHRNKK-----------RRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred ccCccCccccccc-----------ccccceEEcCCCCCEECcH
Confidence 3468888877544 1124457888888775543
No 147
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=55.33 E-value=2.1 Score=27.62 Aligned_cols=11 Identities=27% Similarity=0.655 Sum_probs=5.6
Q ss_pred cCcccccccCC
Q psy12258 114 FCPVCNKMFRV 124 (171)
Q Consensus 114 ~C~~C~~~f~~ 124 (171)
.|+.||..|++
T Consensus 30 eC~~C~~RFTT 40 (156)
T COG1327 30 ECLECGERFTT 40 (156)
T ss_pred cccccccccch
Confidence 45555555543
No 148
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.86 E-value=3 Score=28.99 Aligned_cols=36 Identities=19% Similarity=0.319 Sum_probs=23.2
Q ss_pred CCCccccccCChhhHHHHHHHcCCCC---------------CeeCCccchh
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLGLK---------------PYGCEVCGRH 36 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~~~---------------~~~C~~C~~~ 36 (171)
.||+|+.+|....-+..-.++-.++- -+.||.|...
T Consensus 21 eCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 21 ECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred ccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 49999999977665554444443331 1568888763
No 149
>KOG4167|consensus
Probab=53.81 E-value=3.4 Score=33.72 Aligned_cols=29 Identities=24% Similarity=0.397 Sum_probs=24.8
Q ss_pred CCccCcccccccCCchhHHHHHHHhccCc
Q psy12258 111 KPHFCPVCNKMFRVRSDMKRHLNTHNVDA 139 (171)
Q Consensus 111 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 139 (171)
..|.|..|++.|.-..++..||+.|....
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~q~ 819 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQQE 819 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 35999999999999999999999986443
No 150
>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=53.56 E-value=6.7 Score=30.51 Aligned_cols=27 Identities=19% Similarity=0.333 Sum_probs=24.1
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCC
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDV 54 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~ 54 (171)
+.|+.|.+.|.+...+..|+...|.+.
T Consensus 58 WiCp~CskkF~d~~~~~~H~~~eH~~~ 84 (466)
T PF04780_consen 58 WICPRCSKKFSDAESCLSHMEQEHPAG 84 (466)
T ss_pred eeCCcccceeCCHHHHHHHHHHhhhhh
Confidence 779999999999999999999888653
No 151
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.47 E-value=7.8 Score=20.83 Aligned_cols=8 Identities=25% Similarity=0.986 Sum_probs=3.8
Q ss_pred ccccchhh
Q psy12258 57 FQCEYCGK 64 (171)
Q Consensus 57 ~~C~~C~~ 64 (171)
|-|+.|..
T Consensus 32 ymC~eC~~ 39 (68)
T COG4896 32 YMCPECEH 39 (68)
T ss_pred EechhhHh
Confidence 44555444
No 152
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=52.12 E-value=1.6 Score=21.37 Aligned_cols=9 Identities=33% Similarity=1.158 Sum_probs=4.4
Q ss_pred ccccchhhh
Q psy12258 57 FQCEYCGKD 65 (171)
Q Consensus 57 ~~C~~C~~~ 65 (171)
|.|..|+..
T Consensus 29 y~C~~C~~~ 37 (40)
T smart00440 29 YVCTKCGHR 37 (40)
T ss_pred EEeCCCCCE
Confidence 455555543
No 153
>KOG4124|consensus
Probab=52.04 E-value=2.4 Score=31.34 Aligned_cols=50 Identities=30% Similarity=0.681 Sum_probs=36.0
Q ss_pred CCCccCcc--chhhcCCHHHHHHHHHHhc-------------------CCCCccCcccccccCCchhHHHH
Q psy12258 82 ERNYQCEF--CHKAFRASSYLQNHRRIHT-------------------GEKPHFCPVCNKMFRVRSDMKRH 131 (171)
Q Consensus 82 ~~~~~C~~--C~~~~~~~~~l~~H~~~h~-------------------~~~~~~C~~C~~~f~~~~~l~~H 131 (171)
.++|+|++ |.+.+.....|..|...-+ ..++|+|++|.++++....|.-|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 46788866 8888888777776654311 25789999999999876665444
No 154
>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=51.77 E-value=8.5 Score=26.67 Aligned_cols=30 Identities=23% Similarity=0.609 Sum_probs=22.1
Q ss_pred CCCCccCccchhhcCCHHHHHHHHHHhcCC
Q psy12258 81 GERNYQCEFCHKAFRASSYLQNHRRIHTGE 110 (171)
Q Consensus 81 ~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~ 110 (171)
.+..|.|++|++.|....-...|+..-|.+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 345699999999999999999999875543
No 155
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=51.55 E-value=4.3 Score=26.28 Aligned_cols=35 Identities=23% Similarity=0.625 Sum_probs=22.0
Q ss_pred CCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccc
Q psy12258 82 ERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKM 121 (171)
Q Consensus 82 ~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~ 121 (171)
.-+|.|. |+..|... ++|-.+-.++ .|.|..|+-.
T Consensus 115 ~~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred ceeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 3468888 88765443 3343333444 7999988854
No 156
>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=51.40 E-value=2.6 Score=19.99 Aligned_cols=12 Identities=17% Similarity=0.420 Sum_probs=5.2
Q ss_pred CccCcccccccC
Q psy12258 112 PHFCPVCNKMFR 123 (171)
Q Consensus 112 ~~~C~~C~~~f~ 123 (171)
+.-|..||-.++
T Consensus 21 ~isC~~CGPr~~ 32 (35)
T PF07503_consen 21 FISCTNCGPRYS 32 (35)
T ss_dssp T--BTTCC-SCC
T ss_pred CccCCCCCCCEE
Confidence 345666665543
No 157
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=50.76 E-value=12 Score=19.08 Aligned_cols=14 Identities=21% Similarity=0.401 Sum_probs=8.6
Q ss_pred CeeCCccchhccCc
Q psy12258 27 PYGCEVCGRHFRQW 40 (171)
Q Consensus 27 ~~~C~~C~~~f~~~ 40 (171)
.+.|+.|+..+...
T Consensus 20 ~~vC~~Cg~~~~~~ 33 (52)
T smart00661 20 RFVCRKCGYEEPIE 33 (52)
T ss_pred EEECCcCCCeEECC
Confidence 46677777655443
No 158
>KOG2807|consensus
Probab=50.29 E-value=17 Score=26.89 Aligned_cols=31 Identities=32% Similarity=0.772 Sum_probs=23.6
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccc
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCN 119 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~ 119 (171)
..|+|..|...|-..-+.-.|...| .|+.|.
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh------~CpgCe 374 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH------NCPGCE 374 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh------cCCCcC
Confidence 3588999999998887777776665 677665
No 159
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=49.25 E-value=9.2 Score=18.53 Aligned_cols=14 Identities=29% Similarity=0.674 Sum_probs=11.6
Q ss_pred CeeCCccchhccCc
Q psy12258 27 PYGCEVCGRHFRQW 40 (171)
Q Consensus 27 ~~~C~~C~~~f~~~ 40 (171)
++.|+.|+..|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 78999999998554
No 160
>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=49.00 E-value=4.2 Score=21.11 Aligned_cols=17 Identities=18% Similarity=0.679 Sum_probs=4.9
Q ss_pred ccccchhhhccChHHHH
Q psy12258 57 FQCEYCGKDFARKYSLV 73 (171)
Q Consensus 57 ~~C~~C~~~~~~~~~l~ 73 (171)
|.|+.|...|=..-++.
T Consensus 22 y~C~~C~~~FC~dCD~f 38 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVF 38 (51)
T ss_dssp E--TTTT--B-HHHHHT
T ss_pred EECCCCCCccccCcChh
Confidence 44444444444333333
No 161
>KOG1280|consensus
Probab=48.58 E-value=16 Score=27.22 Aligned_cols=36 Identities=19% Similarity=0.514 Sum_probs=22.8
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCC--ccCcccc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKP--HFCPVCN 119 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~--~~C~~C~ 119 (171)
-|.|++|+..-.....|..|+...+.+-. ..|++|+
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 57777777777777777777766444332 2355555
No 162
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=48.41 E-value=9.1 Score=18.21 Aligned_cols=15 Identities=40% Similarity=0.857 Sum_probs=9.5
Q ss_pred ccCcccccccCCchh
Q psy12258 113 HFCPVCNKMFRVRSD 127 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~ 127 (171)
-.|+.|++.|...++
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 368899999887655
No 163
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=48.29 E-value=8.2 Score=20.31 Aligned_cols=41 Identities=22% Similarity=0.571 Sum_probs=20.3
Q ss_pred CCeeCCc--cchhccCcccHHHhhhhcCCCCCcccccc----hhhhccC
Q psy12258 26 KPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEY----CGKDFAR 68 (171)
Q Consensus 26 ~~~~C~~--C~~~f~~~~~l~~H~~~~h~~~~~~~C~~----C~~~~~~ 68 (171)
.+..|+. |...+. +..|..|+.. .=..++..|.. |+..+..
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~-~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLEN-ECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHT-TSTTSEEE-SS----S--EEEH
T ss_pred CEeeCCCCCccccee-HHHHHHHHHc-cCCCCcEECCCCCCCCCCccch
Confidence 4466776 444343 5567778763 22345566777 7665543
No 164
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=48.17 E-value=4 Score=23.99 Aligned_cols=31 Identities=26% Similarity=0.543 Sum_probs=17.8
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
..|.|+.|++.- +. -....++.|..|++.|.
T Consensus 35 a~y~CpfCgk~~-----vk-----R~a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 35 AKYFCPFCGKHA-----VK-----RQAVGIWRCKGCKKTVA 65 (90)
T ss_pred CCccCCCCCCCc-----ee-----eeeeEEEEcCCCCCEEe
Confidence 457787776431 11 11235678888887765
No 165
>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=47.74 E-value=0.14 Score=24.97 Aligned_cols=10 Identities=20% Similarity=0.617 Sum_probs=6.1
Q ss_pred ccCccccccc
Q psy12258 113 HFCPVCNKMF 122 (171)
Q Consensus 113 ~~C~~C~~~f 122 (171)
|.|..||..+
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 6666666544
No 166
>PHA02998 RNA polymerase subunit; Provisional
Probab=47.24 E-value=1.8 Score=28.77 Aligned_cols=41 Identities=22% Similarity=0.376 Sum_probs=22.7
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCC
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRV 124 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 124 (171)
...|+.|+..=.....++..-.-......|+|..||+.|.-
T Consensus 143 ~v~CPkCg~~~A~f~qlQTRSADEPmT~FYkC~~CG~~wkp 183 (195)
T PHA02998 143 NTPCPNCKSKNTTPMMIQTRAADEPPLVRHACRDCKKHFKP 183 (195)
T ss_pred CCCCCCCCCCceEEEEEeeccCCCCceEEEEcCCCCCccCC
Confidence 46788887543333232222111222344899999988764
No 167
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=47.23 E-value=12 Score=19.36 Aligned_cols=12 Identities=25% Similarity=0.706 Sum_probs=7.6
Q ss_pred Ccccccchhhhc
Q psy12258 55 KAFQCEYCGKDF 66 (171)
Q Consensus 55 ~~~~C~~C~~~~ 66 (171)
..+.|..|+..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 346777777643
No 168
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=47.15 E-value=8.8 Score=19.71 Aligned_cols=10 Identities=20% Similarity=0.448 Sum_probs=6.6
Q ss_pred CccCcccccc
Q psy12258 112 PHFCPVCNKM 121 (171)
Q Consensus 112 ~~~C~~C~~~ 121 (171)
.|.|..||..
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 4677777754
No 169
>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=47.13 E-value=14 Score=28.89 Aligned_cols=31 Identities=19% Similarity=0.411 Sum_probs=22.5
Q ss_pred hcCCCCccCcccccccCCchhHHHHHHHhcc
Q psy12258 107 HTGEKPHFCPVCNKMFRVRSDMKRHLNTHNV 137 (171)
Q Consensus 107 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~ 137 (171)
+..-+.+.|+.|.+.|.....+..|+..-|.
T Consensus 52 n~sWrFWiCp~CskkF~d~~~~~~H~~~eH~ 82 (466)
T PF04780_consen 52 NKSWRFWICPRCSKKFSDAESCLSHMEQEHP 82 (466)
T ss_pred cCceeEeeCCcccceeCCHHHHHHHHHHhhh
Confidence 3344567888888888888888888865443
No 170
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=46.11 E-value=6.5 Score=24.19 Aligned_cols=10 Identities=20% Similarity=0.361 Sum_probs=6.2
Q ss_pred ccCccchhhc
Q psy12258 85 YQCEFCHKAF 94 (171)
Q Consensus 85 ~~C~~C~~~~ 94 (171)
+.|..|+..|
T Consensus 71 ~~C~~Cg~~~ 80 (113)
T PRK12380 71 AWCWDCSQVV 80 (113)
T ss_pred EEcccCCCEE
Confidence 5666666555
No 171
>COG2879 Uncharacterized small protein [Function unknown]
Probab=44.35 E-value=25 Score=19.07 Aligned_cols=20 Identities=10% Similarity=0.137 Sum_probs=15.4
Q ss_pred cCCchhHHHHHHHhccCccc
Q psy12258 122 FRVRSDMKRHLNTHNVDARQ 141 (171)
Q Consensus 122 f~~~~~l~~H~~~h~~~~~~ 141 (171)
..+.++...|||.+|.+..+
T Consensus 22 vpdYdnYVehmr~~hPd~p~ 41 (65)
T COG2879 22 VPDYDNYVEHMRKKHPDKPP 41 (65)
T ss_pred CCcHHHHHHHHHHhCcCCCc
Confidence 45677888999988877664
No 172
>KOG1842|consensus
Probab=44.17 E-value=13 Score=28.65 Aligned_cols=25 Identities=20% Similarity=0.473 Sum_probs=15.8
Q ss_pred CccCccchhhcCCHHHHHHHHHHhc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHT 108 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~ 108 (171)
.|.||+|...|.+...|..|...-|
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH 39 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEH 39 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhc
Confidence 4666666666666666666665533
No 173
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=43.52 E-value=13 Score=28.50 Aligned_cols=30 Identities=20% Similarity=0.454 Sum_probs=19.9
Q ss_pred ccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCCc
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRVR 125 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 125 (171)
-.|+.||....+. |..-|+|+.||..+...
T Consensus 351 p~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 351 PVCPRCGGRMKSA-----------GRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCCccCCchhhc-----------CCCCcccccccccCCcc
Confidence 3788888654332 22378999999777654
No 174
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=43.26 E-value=26 Score=23.52 Aligned_cols=36 Identities=22% Similarity=0.565 Sum_probs=22.6
Q ss_pred hcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 79 HTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 79 ~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
-.....|.|+.|...|+....+. ..|.|+.||-...
T Consensus 108 ~~~~~~y~C~~~~~r~sfdeA~~---------~~F~Cp~Cg~~L~ 143 (176)
T COG1675 108 ETENNYYVCPNCHVKYSFDEAME---------LGFTCPKCGEDLE 143 (176)
T ss_pred hccCCceeCCCCCCcccHHHHHH---------hCCCCCCCCchhh
Confidence 34556688887776665554432 2278888886544
No 175
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=42.72 E-value=18 Score=31.84 Aligned_cols=9 Identities=33% Similarity=0.944 Sum_probs=6.9
Q ss_pred eeCCccchh
Q psy12258 28 YGCEVCGRH 36 (171)
Q Consensus 28 ~~C~~C~~~ 36 (171)
+.|+.||..
T Consensus 668 rkCPkCG~~ 676 (1337)
T PRK14714 668 RRCPSCGTE 676 (1337)
T ss_pred EECCCCCCc
Confidence 678888864
No 176
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=42.67 E-value=32 Score=22.64 Aligned_cols=60 Identities=17% Similarity=0.304 Sum_probs=33.0
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCccccccc-CCchhHHHHHHHhccCcccccc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMF-RVRSDMKRHLNTHNVDARQYLT 144 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f-~~~~~l~~H~~~h~~~~~~~~~ 144 (171)
...||+|.-...- +....-.+.+-+.++--|..=+=.| .++..|++|.+.-|....+...
T Consensus 80 ~L~CPLCRG~V~G-Wtvve~AR~~LN~K~RsC~~e~C~F~GtY~eLrKHar~~HP~~rP~~v 140 (162)
T PF07800_consen 80 ELACPLCRGEVKG-WTVVEPARRFLNAKKRSCSQESCSFSGTYSELRKHARSEHPSARPSEV 140 (162)
T ss_pred cccCccccCceec-eEEchHHHHHhccCCccCcccccccccCHHHHHHHHHhhCCCCCCccC
Confidence 4688988533211 1111222333344555554422233 3788999999998877775443
No 177
>PLN02294 cytochrome c oxidase subunit Vb
Probab=42.58 E-value=11 Score=24.91 Aligned_cols=16 Identities=38% Similarity=0.889 Sum_probs=13.0
Q ss_pred CCCCccCcccccccCC
Q psy12258 109 GEKPHFCPVCNKMFRV 124 (171)
Q Consensus 109 ~~~~~~C~~C~~~f~~ 124 (171)
..++++|++||..|..
T Consensus 138 kGkp~RCpeCG~~fkL 153 (174)
T PLN02294 138 KGKSFECPVCTQYFEL 153 (174)
T ss_pred CCCceeCCCCCCEEEE
Confidence 3578999999988863
No 178
>KOG2857|consensus
Probab=42.17 E-value=32 Score=22.12 Aligned_cols=20 Identities=25% Similarity=0.391 Sum_probs=10.4
Q ss_pred ccCcccccccCCchhHHHHH
Q psy12258 113 HFCPVCNKMFRVRSDMKRHL 132 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~ 132 (171)
|+|+.|..-|-+..-+..|.
T Consensus 18 YKCpkC~vPYCSl~CfKiHk 37 (157)
T KOG2857|consen 18 YKCPKCSVPYCSLPCFKIHK 37 (157)
T ss_pred ccCCCCCCccccchhhhhcc
Confidence 55555555555555554443
No 179
>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=41.71 E-value=15 Score=20.03 Aligned_cols=9 Identities=44% Similarity=1.531 Sum_probs=2.6
Q ss_pred eCCccchhc
Q psy12258 29 GCEVCGRHF 37 (171)
Q Consensus 29 ~C~~C~~~f 37 (171)
.|..|++.|
T Consensus 11 ~C~~C~~~F 19 (69)
T PF01363_consen 11 NCMICGKKF 19 (69)
T ss_dssp B-TTT--B-
T ss_pred cCcCcCCcC
Confidence 355555555
No 180
>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=41.43 E-value=4.3 Score=23.87 Aligned_cols=31 Identities=26% Similarity=0.575 Sum_probs=17.8
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
..|.|+.|++.- + .-..-.++.|..|++.|.
T Consensus 34 a~y~CpfCgk~~-----v-----kR~a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 34 AKYVCPFCGKKT-----V-----KRGSTGIWTCRKCGAKFA 64 (91)
T ss_pred cCccCCCCCCCc-----e-----EEEeeEEEEcCCCCCEEe
Confidence 457788776431 0 012235578888887765
No 181
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=41.23 E-value=14 Score=23.40 Aligned_cols=12 Identities=33% Similarity=0.944 Sum_probs=5.5
Q ss_pred ccCcccccccCC
Q psy12258 113 HFCPVCNKMFRV 124 (171)
Q Consensus 113 ~~C~~C~~~f~~ 124 (171)
++|..||+.|..
T Consensus 2 H~Ct~Cg~~f~d 13 (131)
T PF09845_consen 2 HQCTKCGRVFED 13 (131)
T ss_pred cccCcCCCCcCC
Confidence 344444444443
No 182
>KOG1842|consensus
Probab=40.70 E-value=12 Score=28.82 Aligned_cols=28 Identities=18% Similarity=0.305 Sum_probs=20.5
Q ss_pred CeeCCccchhccCcccHHHhhhhcCCCC
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKASLHSDV 54 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~~~h~~~ 54 (171)
.|.||+|..-|.+...|..|....|..+
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 4777888777777777777777666554
No 183
>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=40.56 E-value=8.7 Score=19.98 Aligned_cols=12 Identities=17% Similarity=0.711 Sum_probs=6.3
Q ss_pred cCccchhhcCCH
Q psy12258 86 QCEFCHKAFRAS 97 (171)
Q Consensus 86 ~C~~C~~~~~~~ 97 (171)
.||+|++.|...
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 899999888654
No 184
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=40.51 E-value=33 Score=25.27 Aligned_cols=27 Identities=22% Similarity=0.338 Sum_probs=22.3
Q ss_pred CCccCcccccccCCchhHHHHHHHhcc
Q psy12258 111 KPHFCPVCNKMFRVRSDMKRHLNTHNV 137 (171)
Q Consensus 111 ~~~~C~~C~~~f~~~~~l~~H~~~h~~ 137 (171)
..|.|+.|...|-...+...|...|..
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh~C 413 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLHFC 413 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHhhC
Confidence 459999999999988888888777753
No 185
>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=40.12 E-value=13 Score=22.96 Aligned_cols=27 Identities=22% Similarity=0.452 Sum_probs=17.8
Q ss_pred CCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhh
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKD 65 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 65 (171)
....|+.|+..|..... .+.|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~-------------~~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEID-------------LYRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCCc-------------CccCcCCcCC
Confidence 34788899877755432 2568888854
No 186
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=39.54 E-value=15 Score=19.52 Aligned_cols=12 Identities=17% Similarity=0.866 Sum_probs=6.7
Q ss_pred CCcccccchhhh
Q psy12258 54 VKAFQCEYCGKD 65 (171)
Q Consensus 54 ~~~~~C~~C~~~ 65 (171)
...|.|..|...
T Consensus 29 i~tYmC~eC~~R 40 (56)
T PF09963_consen 29 IHTYMCDECKER 40 (56)
T ss_pred CcceeChhHHHH
Confidence 334666666654
No 187
>PRK12496 hypothetical protein; Provisional
Probab=39.52 E-value=13 Score=24.64 Aligned_cols=29 Identities=17% Similarity=0.529 Sum_probs=18.1
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
+.+.|+.|++.|.... ..-.|++||....
T Consensus 126 w~~~C~gC~~~~~~~~------------~~~~C~~CG~~~~ 154 (164)
T PRK12496 126 WRKVCKGCKKKYPEDY------------PDDVCEICGSPVK 154 (164)
T ss_pred eeEECCCCCccccCCC------------CCCcCCCCCChhh
Confidence 3478999998874321 1126999996543
No 188
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=39.38 E-value=4.1 Score=33.63 Aligned_cols=15 Identities=27% Similarity=0.614 Sum_probs=10.8
Q ss_pred hcCCCCccCcccccc
Q psy12258 107 HTGEKPHFCPVCNKM 121 (171)
Q Consensus 107 h~~~~~~~C~~C~~~ 121 (171)
+....|..|+.||-.
T Consensus 470 ~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 470 YQEPIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCCCCC
Confidence 445677889999844
No 189
>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=39.26 E-value=18 Score=22.00 Aligned_cols=15 Identities=13% Similarity=0.293 Sum_probs=9.5
Q ss_pred CCeeCCccchhccCc
Q psy12258 26 KPYGCEVCGRHFRQW 40 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~ 40 (171)
..|.|+.|+..+...
T Consensus 18 ~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 18 TQLICPSCLYEWNEN 32 (109)
T ss_pred CeeECcccccccccc
Confidence 447777777666544
No 190
>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=39.09 E-value=6.2 Score=18.82 Aligned_cols=30 Identities=20% Similarity=0.460 Sum_probs=14.0
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccch
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYC 62 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C 62 (171)
..|+.|+..- .+..|-. ...+...|.|..|
T Consensus 6 v~CP~C~s~~----~v~k~G~-~~~G~qryrC~~C 35 (36)
T PF03811_consen 6 VHCPRCQSTE----GVKKNGK-SPSGHQRYRCKDC 35 (36)
T ss_pred eeCCCCCCCC----cceeCCC-CCCCCEeEecCcC
Confidence 3466665431 2333333 2344455666655
No 191
>PRK10220 hypothetical protein; Provisional
Probab=38.95 E-value=23 Score=21.65 Aligned_cols=15 Identities=20% Similarity=0.514 Sum_probs=8.6
Q ss_pred CCeeCCccchhccCc
Q psy12258 26 KPYGCEVCGRHFRQW 40 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~ 40 (171)
..|.|+.|+.-+...
T Consensus 19 ~~~vCpeC~hEW~~~ 33 (111)
T PRK10220 19 GMYICPECAHEWNDA 33 (111)
T ss_pred CeEECCcccCcCCcc
Confidence 346677776655443
No 192
>PRK05978 hypothetical protein; Provisional
Probab=38.10 E-value=11 Score=24.42 Aligned_cols=10 Identities=50% Similarity=1.401 Sum_probs=5.9
Q ss_pred cccchhhhcc
Q psy12258 58 QCEYCGKDFA 67 (171)
Q Consensus 58 ~C~~C~~~~~ 67 (171)
.|+.|+..|.
T Consensus 54 ~C~~CG~~~~ 63 (148)
T PRK05978 54 HCAACGEDFT 63 (148)
T ss_pred CccccCCccc
Confidence 4666665554
No 193
>KOG2071|consensus
Probab=38.08 E-value=25 Score=28.26 Aligned_cols=27 Identities=22% Similarity=0.617 Sum_probs=22.5
Q ss_pred CCCCccCcccccccCCchhHHHHHHHh
Q psy12258 109 GEKPHFCPVCNKMFRVRSDMKRHLNTH 135 (171)
Q Consensus 109 ~~~~~~C~~C~~~f~~~~~l~~H~~~h 135 (171)
...+..|..||..|.......+||..|
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H 441 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIH 441 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhh
Confidence 456789999999999988888887766
No 194
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=37.85 E-value=6.2 Score=23.61 Aligned_cols=38 Identities=24% Similarity=0.510 Sum_probs=19.7
Q ss_pred CCCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhcc
Q psy12258 25 LKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 67 (171)
Q Consensus 25 ~~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~ 67 (171)
++.|.|+.|+..-.....+.. -.......|..|+..|.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk-----~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKK-----TVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CceEecCccCCeeeeEEEEEe-----cCceeEEEcccCcceEE
Confidence 455778777765544333221 11122345777776554
No 195
>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=37.30 E-value=15 Score=21.95 Aligned_cols=14 Identities=43% Similarity=1.151 Sum_probs=10.4
Q ss_pred CCCccCcccccccC
Q psy12258 110 EKPHFCPVCNKMFR 123 (171)
Q Consensus 110 ~~~~~C~~C~~~f~ 123 (171)
.++++|+.||.-|.
T Consensus 77 g~~~rC~eCG~~fk 90 (97)
T cd00924 77 GKPKRCPECGHVFK 90 (97)
T ss_pred CCceeCCCCCcEEE
Confidence 36788888887775
No 196
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.10 E-value=10 Score=23.54 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=6.0
Q ss_pred ccCccchhhc
Q psy12258 85 YQCEFCHKAF 94 (171)
Q Consensus 85 ~~C~~C~~~~ 94 (171)
+.|..|+..|
T Consensus 72 ~~C~~Cg~~~ 81 (117)
T PRK00564 72 LECKDCSHVF 81 (117)
T ss_pred EEhhhCCCcc
Confidence 5566666554
No 197
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=37.07 E-value=21 Score=18.53 Aligned_cols=15 Identities=20% Similarity=0.735 Sum_probs=10.7
Q ss_pred eeCCccchhccCccc
Q psy12258 28 YGCEVCGRHFRQWGD 42 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~ 42 (171)
+.|+.|+..+...-.
T Consensus 29 W~C~~Cgh~w~~~v~ 43 (55)
T PF14311_consen 29 WKCPKCGHEWKASVN 43 (55)
T ss_pred EECCCCCCeeEccHh
Confidence 789999877755443
No 198
>KOG0717|consensus
Probab=37.00 E-value=18 Score=28.14 Aligned_cols=21 Identities=43% Similarity=0.901 Sum_probs=19.0
Q ss_pred ccCcccccccCCchhHHHHHH
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLN 133 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~ 133 (171)
+-|.+|+++|.+...|..|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred eEEeeccccccchHHHHhhHH
Confidence 789999999999999999974
No 199
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=36.30 E-value=15 Score=18.97 Aligned_cols=12 Identities=17% Similarity=0.636 Sum_probs=9.7
Q ss_pred ccCcccccccCC
Q psy12258 113 HFCPVCNKMFRV 124 (171)
Q Consensus 113 ~~C~~C~~~f~~ 124 (171)
|+|.+||..+.-
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 789999988763
No 200
>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=36.20 E-value=13 Score=18.33 Aligned_cols=15 Identities=33% Similarity=0.899 Sum_probs=9.4
Q ss_pred CCeeCCccchhccCc
Q psy12258 26 KPYGCEVCGRHFRQW 40 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~ 40 (171)
.++.|+.|+..|-..
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 478999999998544
No 201
>COG4640 Predicted membrane protein [Function unknown]
Probab=36.17 E-value=23 Score=26.99 Aligned_cols=18 Identities=22% Similarity=0.493 Sum_probs=10.5
Q ss_pred CCccCcccccccCCchhH
Q psy12258 111 KPHFCPVCNKMFRVRSDM 128 (171)
Q Consensus 111 ~~~~C~~C~~~f~~~~~l 128 (171)
..+.|+.||..|.....+
T Consensus 14 d~~qC~qCG~~~t~~~sq 31 (465)
T COG4640 14 DDVQCTQCGHKFTSRQSQ 31 (465)
T ss_pred ccccccccCCcCCchhhh
Confidence 344577777666655544
No 202
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=35.01 E-value=17 Score=29.92 Aligned_cols=58 Identities=26% Similarity=0.728 Sum_probs=40.2
Q ss_pred eCCccchhccCcccHHHhhhhcCCCCCcc-cccchhhhccChHHHHHHHhhhcCCCCccCccchhhc
Q psy12258 29 GCEVCGRHFRQWGDLKYHKASLHSDVKAF-QCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAF 94 (171)
Q Consensus 29 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~-~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~ 94 (171)
.|..||-.|+--..|-.-+. ++..+.| -|+.|.+.+.+..+ ++.|. .+..|+.||-..
T Consensus 125 ~CT~CGPRfTIi~alPYDR~--nTsM~~F~lC~~C~~EY~dP~n----RRfHA--Qp~aCp~CGP~~ 183 (750)
T COG0068 125 NCTNCGPRFTIIEALPYDRE--NTSMADFPLCPFCDKEYKDPLN----RRFHA--QPIACPKCGPHL 183 (750)
T ss_pred ccCCCCcceeeeccCCCCcc--cCccccCcCCHHHHHHhcCccc----ccccc--ccccCcccCCCe
Confidence 49999999987777655443 3334444 49999998887754 34453 567899999743
No 203
>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=34.91 E-value=20 Score=26.15 Aligned_cols=11 Identities=36% Similarity=1.126 Sum_probs=5.0
Q ss_pred ccCcccccccC
Q psy12258 113 HFCPVCNKMFR 123 (171)
Q Consensus 113 ~~C~~C~~~f~ 123 (171)
+.|+.|+.-|.
T Consensus 46 ~vc~~c~~h~r 56 (285)
T TIGR00515 46 EVCPKCDHHMR 56 (285)
T ss_pred CCCCCCCCcCc
Confidence 34555554443
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 COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=34.58 E-value=10 Score=31.36 Aligned_cols=11 Identities=36% Similarity=0.875 Sum_probs=4.8
Q ss_pred CCCeeCCccch
Q psy12258 25 LKPYGCEVCGR 35 (171)
Q Consensus 25 ~~~~~C~~C~~ 35 (171)
..|..|+.||.
T Consensus 473 ~~p~~Cp~Cgs 483 (730)
T COG1198 473 PIPQSCPECGS 483 (730)
T ss_pred CCCCCCCCCCC
Confidence 34444444443
No 206
>COG1773 Rubredoxin [Energy production and conversion]
Probab=34.58 E-value=14 Score=19.52 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=9.9
Q ss_pred CccCcccccccC
Q psy12258 112 PHFCPVCNKMFR 123 (171)
Q Consensus 112 ~~~C~~C~~~f~ 123 (171)
.|+|..||..|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 478999998875
No 207
>PRK00420 hypothetical protein; Validated
Probab=34.46 E-value=24 Score=21.78 Aligned_cols=29 Identities=24% Similarity=0.442 Sum_probs=16.3
Q ss_pred eeCCccchhccCcccHHHhhhhcCCCCCcccccchhhhccC
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 68 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~~~~ 68 (171)
-.|+.||..+... ......|+.|+....-
T Consensus 24 ~~CP~Cg~pLf~l------------k~g~~~Cp~Cg~~~~v 52 (112)
T PRK00420 24 KHCPVCGLPLFEL------------KDGEVVCPVHGKVYIV 52 (112)
T ss_pred CCCCCCCCcceec------------CCCceECCCCCCeeee
Confidence 4688888654221 0123568888875543
No 208
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=34.31 E-value=22 Score=21.43 Aligned_cols=14 Identities=36% Similarity=0.907 Sum_probs=7.8
Q ss_pred CccCcccccccCCc
Q psy12258 112 PHFCPVCNKMFRVR 125 (171)
Q Consensus 112 ~~~C~~C~~~f~~~ 125 (171)
|++|..||..|..-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 34566666666553
No 209
>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=33.75 E-value=16 Score=17.90 Aligned_cols=12 Identities=33% Similarity=0.988 Sum_probs=9.6
Q ss_pred CCeeCCccchhc
Q psy12258 26 KPYGCEVCGRHF 37 (171)
Q Consensus 26 ~~~~C~~C~~~f 37 (171)
++..|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 457899999876
No 210
>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=33.51 E-value=30 Score=17.84 Aligned_cols=8 Identities=50% Similarity=1.369 Sum_probs=3.7
Q ss_pred CCccchhc
Q psy12258 30 CEVCGRHF 37 (171)
Q Consensus 30 C~~C~~~f 37 (171)
|..|++.|
T Consensus 5 C~~C~~~F 12 (57)
T cd00065 5 CMGCGKPF 12 (57)
T ss_pred CcccCccc
Confidence 44444444
No 211
>PF12773 DZR: Double zinc ribbon
Probab=33.30 E-value=29 Score=17.43 Aligned_cols=10 Identities=30% Similarity=0.723 Sum_probs=6.0
Q ss_pred eCCccchhcc
Q psy12258 29 GCEVCGRHFR 38 (171)
Q Consensus 29 ~C~~C~~~f~ 38 (171)
.|+.||..+.
T Consensus 14 fC~~CG~~l~ 23 (50)
T PF12773_consen 14 FCPHCGTPLP 23 (50)
T ss_pred CChhhcCChh
Confidence 4666666554
No 212
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=33.15 E-value=22 Score=22.60 Aligned_cols=18 Identities=28% Similarity=0.632 Sum_probs=11.4
Q ss_pred CCCCcccccchhhhccCh
Q psy12258 52 SDVKAFQCEYCGKDFARK 69 (171)
Q Consensus 52 ~~~~~~~C~~C~~~~~~~ 69 (171)
...+.|+|..|.+++...
T Consensus 76 ~d~~lYeCnIC~etS~ee 93 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEE 93 (140)
T ss_pred cCCCceeccCcccccchh
Confidence 344567777777765544
No 213
>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=33.09 E-value=23 Score=17.55 Aligned_cols=13 Identities=46% Similarity=1.145 Sum_probs=7.9
Q ss_pred cCcccccccCCch
Q psy12258 114 FCPVCNKMFRVRS 126 (171)
Q Consensus 114 ~C~~C~~~f~~~~ 126 (171)
.|++||+.|....
T Consensus 10 ~C~~C~rpf~WRK 22 (42)
T PF10013_consen 10 ICPVCGRPFTWRK 22 (42)
T ss_pred cCcccCCcchHHH
Confidence 4666776666443
No 214
>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=33.01 E-value=12 Score=22.67 Aligned_cols=7 Identities=29% Similarity=1.018 Sum_probs=3.5
Q ss_pred ccCcccc
Q psy12258 113 HFCPVCN 119 (171)
Q Consensus 113 ~~C~~C~ 119 (171)
|.|.-|+
T Consensus 32 y~C~~C~ 38 (102)
T PF11672_consen 32 YVCTPCD 38 (102)
T ss_pred EECCCCC
Confidence 4555554
No 215
>KOG2636|consensus
Probab=32.82 E-value=42 Score=26.08 Aligned_cols=28 Identities=21% Similarity=0.597 Sum_probs=22.0
Q ss_pred HHhcCCCCccCcccc-cccCCchhHHHHH
Q psy12258 105 RIHTGEKPHFCPVCN-KMFRVRSDMKRHL 132 (171)
Q Consensus 105 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~ 132 (171)
..|.-...|.|.+|| +++.-+..+.+|.
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF 422 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHF 422 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHh
Confidence 345666779999999 7888888888886
No 216
>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=32.37 E-value=18 Score=18.54 Aligned_cols=7 Identities=57% Similarity=1.587 Sum_probs=2.0
Q ss_pred ccCcccc
Q psy12258 113 HFCPVCN 119 (171)
Q Consensus 113 ~~C~~C~ 119 (171)
|+|++|+
T Consensus 42 W~CPiC~ 48 (50)
T PF02891_consen 42 WKCPICN 48 (50)
T ss_dssp -B-TTT-
T ss_pred eECcCCc
Confidence 4555544
No 217
>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=32.29 E-value=17 Score=17.38 Aligned_cols=12 Identities=17% Similarity=0.451 Sum_probs=6.5
Q ss_pred CCccCccccccc
Q psy12258 111 KPHFCPVCNKMF 122 (171)
Q Consensus 111 ~~~~C~~C~~~f 122 (171)
+.|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 468999998654
No 218
>PRK04351 hypothetical protein; Provisional
Probab=32.07 E-value=12 Score=24.38 Aligned_cols=33 Identities=24% Similarity=0.613 Sum_probs=19.4
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCC
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRV 124 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 124 (171)
.|.|..|+..+... .+ .+...|.|..|+-.+..
T Consensus 112 ~Y~C~~Cg~~~~r~------Rr--~n~~~yrCg~C~g~L~~ 144 (149)
T PRK04351 112 LYECQSCGQQYLRK------RR--INTKRYRCGKCRGKLKL 144 (149)
T ss_pred EEECCCCCCEeeee------ee--cCCCcEEeCCCCcEeee
Confidence 47787787655332 11 13456888888766543
No 219
>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=31.88 E-value=10 Score=23.27 Aligned_cols=13 Identities=23% Similarity=0.657 Sum_probs=6.6
Q ss_pred ccCccchhhcCCH
Q psy12258 85 YQCEFCHKAFRAS 97 (171)
Q Consensus 85 ~~C~~C~~~~~~~ 97 (171)
+.|..|+..|...
T Consensus 71 ~~C~~Cg~~~~~~ 83 (113)
T PF01155_consen 71 ARCRDCGHEFEPD 83 (113)
T ss_dssp EEETTTS-EEECH
T ss_pred EECCCCCCEEecC
Confidence 4566666665443
No 220
>PF15616 TerY-C: TerY-C metal binding domain
Probab=31.59 E-value=8.5 Score=24.41 Aligned_cols=13 Identities=23% Similarity=0.733 Sum_probs=8.5
Q ss_pred CCcccccchhhhc
Q psy12258 54 VKAFQCEYCGKDF 66 (171)
Q Consensus 54 ~~~~~C~~C~~~~ 66 (171)
.....|++|+..-
T Consensus 103 ~~~~~CPwCg~~g 115 (131)
T PF15616_consen 103 EGEVTCPWCGNEG 115 (131)
T ss_pred CCCEECCCCCCee
Confidence 3456788888653
No 221
>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=31.57 E-value=8.6 Score=24.88 Aligned_cols=33 Identities=18% Similarity=0.425 Sum_probs=19.1
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccC
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFR 123 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 123 (171)
-.|.|+.|+..+..... + +...|.|+.|+..+.
T Consensus 122 ~~~~C~~C~~~~~r~~~------~--~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKRHRR------S--KRKRYRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeeeecc------c--chhhEECCCCCCEEE
Confidence 35778888866533222 2 223378888886553
No 222
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=31.05 E-value=6.9 Score=26.61 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=22.3
Q ss_pred CCCccccccCChhhHHHHHHHcCCC---CCeeCCccchhccCc
Q psy12258 1 MCDTCGKSFFSSTALKVHNRVHLGL---KPYGCEVCGRHFRQW 40 (171)
Q Consensus 1 ~C~~C~~~f~~~~~l~~H~~~h~~~---~~~~C~~C~~~f~~~ 40 (171)
.|+.|+....+...+..+ --+.++ ..|.|+.||.....-
T Consensus 2 ~Cp~C~~~~~~~~~~~~~-IP~F~evii~sf~C~~CGyr~~ev 43 (192)
T TIGR00310 2 DCPSCGGECETVMKTVND-IPYFGEVLETSTICEHCGYRSNDV 43 (192)
T ss_pred cCCCCCCCCEEEEEEEcC-CCCcceEEEEEEECCCCCCcccee
Confidence 488888654444443332 122222 358899999876543
No 223
>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=30.79 E-value=5.8 Score=22.13 Aligned_cols=9 Identities=44% Similarity=1.335 Sum_probs=4.5
Q ss_pred CccCccccc
Q psy12258 112 PHFCPVCNK 120 (171)
Q Consensus 112 ~~~C~~C~~ 120 (171)
.|.|+.|+.
T Consensus 61 ~~~C~~C~~ 69 (71)
T PF05495_consen 61 DYFCPICGL 69 (71)
T ss_dssp SEEETTTTE
T ss_pred CccCcCcCC
Confidence 355555543
No 224
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=30.64 E-value=17 Score=26.56 Aligned_cols=11 Identities=36% Similarity=0.800 Sum_probs=5.1
Q ss_pred ccccchhhhcc
Q psy12258 57 FQCEYCGKDFA 67 (171)
Q Consensus 57 ~~C~~C~~~~~ 67 (171)
+.|+.|+..|.
T Consensus 58 ~vcp~c~~h~r 68 (296)
T CHL00174 58 NICEQCGYHLK 68 (296)
T ss_pred CCCCCCCCCcC
Confidence 34555554443
No 225
>PTZ00448 hypothetical protein; Provisional
Probab=30.46 E-value=36 Score=25.74 Aligned_cols=23 Identities=22% Similarity=0.457 Sum_probs=20.7
Q ss_pred CccCcccccccCCchhHHHHHHH
Q psy12258 112 PHFCPVCNKMFRVRSDMKRHLNT 134 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l~~H~~~ 134 (171)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 58899999999999999999875
No 226
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=30.30 E-value=19 Score=21.64 Aligned_cols=12 Identities=33% Similarity=0.512 Sum_probs=6.9
Q ss_pred cCcccccccCCc
Q psy12258 114 FCPVCNKMFRVR 125 (171)
Q Consensus 114 ~C~~C~~~f~~~ 125 (171)
+|+.|-+-|.++
T Consensus 39 KC~~~~k~~~SY 50 (102)
T PF15176_consen 39 KCPVWYKYLASY 50 (102)
T ss_pred HhHHHHHHHhcc
Confidence 566666555544
No 227
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.30 E-value=14 Score=18.84 Aligned_cols=9 Identities=33% Similarity=1.058 Sum_probs=4.5
Q ss_pred CCccccccC
Q psy12258 2 CDTCGKSFF 10 (171)
Q Consensus 2 C~~C~~~f~ 10 (171)
|+.|+..|.
T Consensus 15 CpvCqRPFs 23 (54)
T COG4338 15 CPVCQRPFS 23 (54)
T ss_pred hhhhcCchH
Confidence 555555443
No 228
>KOG0978|consensus
Probab=30.14 E-value=14 Score=30.41 Aligned_cols=17 Identities=29% Similarity=0.616 Sum_probs=10.9
Q ss_pred CccCcccccccCCchhH
Q psy12258 112 PHFCPVCNKMFRVRSDM 128 (171)
Q Consensus 112 ~~~C~~C~~~f~~~~~l 128 (171)
.-+||.|+.+|..-.-+
T Consensus 678 qRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 678 QRKCPKCNAAFGANDVH 694 (698)
T ss_pred cCCCCCCCCCCCccccc
Confidence 34788888887654433
No 229
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=29.10 E-value=27 Score=22.10 Aligned_cols=35 Identities=23% Similarity=0.501 Sum_probs=21.5
Q ss_pred ccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccccCC
Q psy12258 85 YQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMFRV 124 (171)
Q Consensus 85 ~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 124 (171)
..||.|+... ...+-..-.+...|+|+.|++.|..
T Consensus 31 ~~cP~C~s~~-----~~k~g~~~~~~qRyrC~~C~~tf~~ 65 (129)
T COG3677 31 VNCPRCKSSN-----VVKIGGIRRGHQRYKCKSCGSTFTV 65 (129)
T ss_pred CcCCCCCccc-----eeeECCccccccccccCCcCcceee
Confidence 4788887443 1111112233567999999999974
No 230
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=28.61 E-value=15 Score=19.27 Aligned_cols=8 Identities=38% Similarity=0.970 Sum_probs=3.4
Q ss_pred CeeCCccc
Q psy12258 27 PYGCEVCG 34 (171)
Q Consensus 27 ~~~C~~C~ 34 (171)
|.-|+.|.
T Consensus 28 PlyCpKCK 35 (55)
T PF14205_consen 28 PLYCPKCK 35 (55)
T ss_pred cccCCCCC
Confidence 34444443
No 231
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=28.36 E-value=24 Score=16.37 Aligned_cols=13 Identities=23% Similarity=0.606 Sum_probs=7.6
Q ss_pred CCccCcccccccC
Q psy12258 111 KPHFCPVCNKMFR 123 (171)
Q Consensus 111 ~~~~C~~C~~~f~ 123 (171)
..+.|..||..|.
T Consensus 20 ~~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 20 DYEVCIFCGSSFP 32 (33)
T ss_pred CeEEcccCCcEee
Confidence 3456666666553
No 232
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.31 E-value=34 Score=18.52 Aligned_cols=13 Identities=23% Similarity=0.667 Sum_probs=9.8
Q ss_pred CCeeCCccchhcc
Q psy12258 26 KPYGCEVCGRHFR 38 (171)
Q Consensus 26 ~~~~C~~C~~~f~ 38 (171)
+...|++|+..|.
T Consensus 47 gev~CPYC~t~y~ 59 (62)
T COG4391 47 GEVVCPYCSTRYR 59 (62)
T ss_pred CcEecCccccEEE
Confidence 4467999988875
No 233
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=28.18 E-value=8.8 Score=18.03 Aligned_cols=8 Identities=38% Similarity=1.003 Sum_probs=4.0
Q ss_pred ccccchhh
Q psy12258 57 FQCEYCGK 64 (171)
Q Consensus 57 ~~C~~C~~ 64 (171)
+.|+.|+.
T Consensus 23 ~vC~~Cg~ 30 (34)
T PF14803_consen 23 LVCPACGF 30 (34)
T ss_dssp EEETTTTE
T ss_pred eECCCCCC
Confidence 45555544
No 234
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=28.16 E-value=20 Score=26.21 Aligned_cols=11 Identities=27% Similarity=0.739 Sum_probs=6.3
Q ss_pred ccccchhhhcc
Q psy12258 57 FQCEYCGKDFA 67 (171)
Q Consensus 57 ~~C~~C~~~~~ 67 (171)
+.|+.|+..|.
T Consensus 47 ~vc~~c~~h~r 57 (292)
T PRK05654 47 NVCPKCGHHMR 57 (292)
T ss_pred CCCCCCCCCee
Confidence 45666665554
No 235
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=27.81 E-value=30 Score=21.39 Aligned_cols=14 Identities=29% Similarity=0.662 Sum_probs=8.0
Q ss_pred CCeeCCccchhccC
Q psy12258 26 KPYGCEVCGRHFRQ 39 (171)
Q Consensus 26 ~~~~C~~C~~~f~~ 39 (171)
....|..|+..|..
T Consensus 53 ~~~~C~~C~~~fg~ 66 (118)
T PF02318_consen 53 GERHCARCGKPFGF 66 (118)
T ss_dssp CCSB-TTTS-BCSC
T ss_pred CCcchhhhCCcccc
Confidence 34578889887743
No 236
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=27.47 E-value=7.8 Score=32.05 Aligned_cols=60 Identities=23% Similarity=0.457 Sum_probs=32.2
Q ss_pred ccccchhhhccChHHHHHHHhhhcCCCCccCccchhhcCCHHHHHHHHHHhcCCCCccCccccccc
Q psy12258 57 FQCEYCGKDFARKYSLVVHRRIHTGERNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMF 122 (171)
Q Consensus 57 ~~C~~C~~~~~~~~~l~~h~~~~~~~~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f 122 (171)
..|..||-.|+-...|.--...-.-..---|+.|.+.+.+....+.| -.+.-|+.||-..
T Consensus 91 ~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h------~~~~~C~~Cgp~l 150 (711)
T TIGR00143 91 ISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFH------AQPIACPRCGPQL 150 (711)
T ss_pred ccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCC------CCCccCCCCCcEE
Confidence 35777887666443322111111111223578888777666554433 3456788888654
No 237
>PF14369 zf-RING_3: zinc-finger
Probab=27.40 E-value=29 Score=16.33 Aligned_cols=8 Identities=38% Similarity=1.124 Sum_probs=4.2
Q ss_pred CCcccccc
Q psy12258 2 CDTCGKSF 9 (171)
Q Consensus 2 C~~C~~~f 9 (171)
||.|+..|
T Consensus 24 CP~C~~gF 31 (35)
T PF14369_consen 24 CPRCHGGF 31 (35)
T ss_pred CcCCCCcE
Confidence 55555544
No 238
>KOG3214|consensus
Probab=26.15 E-value=14 Score=22.09 Aligned_cols=14 Identities=21% Similarity=0.693 Sum_probs=9.5
Q ss_pred CCccCcccccccCC
Q psy12258 111 KPHFCPVCNKMFRV 124 (171)
Q Consensus 111 ~~~~C~~C~~~f~~ 124 (171)
....|.+|+.+|..
T Consensus 46 G~~sC~iC~esFqt 59 (109)
T KOG3214|consen 46 GKASCRICEESFQT 59 (109)
T ss_pred ceeeeeehhhhhcc
Confidence 34567778777764
No 239
>KOG0717|consensus
Probab=25.82 E-value=45 Score=26.10 Aligned_cols=23 Identities=26% Similarity=0.573 Sum_probs=20.6
Q ss_pred ccCcccccccCCchhHHHHHHHh
Q psy12258 113 HFCPVCNKMFRVRSDMKRHLNTH 135 (171)
Q Consensus 113 ~~C~~C~~~f~~~~~l~~H~~~h 135 (171)
..|.-|+.+|.++..|..|++..
T Consensus 461 ~~C~tCr~~FdSRnkLF~Hlk~t 483 (508)
T KOG0717|consen 461 ISCTTCRESFDSRNKLFAHLKKT 483 (508)
T ss_pred HhhhhhhhhccchhHHHHHhhhc
Confidence 57999999999999999999753
No 240
>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=25.72 E-value=40 Score=16.19 Aligned_cols=11 Identities=27% Similarity=0.896 Sum_probs=3.8
Q ss_pred eeCCccchhcc
Q psy12258 28 YGCEVCGRHFR 38 (171)
Q Consensus 28 ~~C~~C~~~f~ 38 (171)
|-|+.|...|.
T Consensus 4 yyCdyC~~~~~ 14 (38)
T PF06220_consen 4 YYCDYCKKYLT 14 (38)
T ss_dssp -B-TTT--B-S
T ss_pred eecccccceec
Confidence 56777776663
No 241
>KOG0782|consensus
Probab=25.64 E-value=21 Score=28.68 Aligned_cols=26 Identities=31% Similarity=0.556 Sum_probs=11.6
Q ss_pred HHHHHHHcCCCCCeeCCccchhccCc
Q psy12258 15 LKVHNRVHLGLKPYGCEVCGRHFRQW 40 (171)
Q Consensus 15 l~~H~~~h~~~~~~~C~~C~~~f~~~ 40 (171)
|.+|-=+|....--.|..|++.|-+.
T Consensus 241 fvrHHWVHrrRqeGkC~~CgKgFQQK 266 (1004)
T KOG0782|consen 241 FVRHHWVHRRRQEGKCNTCGKGFQQK 266 (1004)
T ss_pred chHHhHhhHhhhccccchhhhhhhhh
Confidence 33343333333333466666655443
No 242
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=25.29 E-value=23 Score=21.78 Aligned_cols=28 Identities=21% Similarity=0.489 Sum_probs=17.2
Q ss_pred CCeeCCccchhccCcccHHHhhhhcCCCCCcccccchhhh
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKD 65 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 65 (171)
..+.|..|+..|..... ..+.|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~------------~~~~CP~Cgs~ 96 (114)
T PRK03681 69 AECWCETCQQYVTLLTQ------------RVRRCPQCHGD 96 (114)
T ss_pred cEEEcccCCCeeecCCc------------cCCcCcCcCCC
Confidence 44788899876643321 11468888853
No 243
>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=25.26 E-value=46 Score=16.04 Aligned_cols=9 Identities=33% Similarity=1.405 Sum_probs=3.4
Q ss_pred cccccchhh
Q psy12258 56 AFQCEYCGK 64 (171)
Q Consensus 56 ~~~C~~C~~ 64 (171)
.|.|..|+.
T Consensus 24 ~w~C~~C~~ 32 (40)
T PF04810_consen 24 TWICNFCGT 32 (40)
T ss_dssp EEEETTT--
T ss_pred EEECcCCCC
Confidence 345555543
No 244
>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=24.52 E-value=18 Score=16.18 Aligned_cols=9 Identities=33% Similarity=1.047 Sum_probs=5.0
Q ss_pred eCCccchhc
Q psy12258 29 GCEVCGRHF 37 (171)
Q Consensus 29 ~C~~C~~~f 37 (171)
.|-.|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 455555555
No 245
>PTZ00043 cytochrome c oxidase subunit; Provisional
Probab=24.25 E-value=36 Score=23.82 Aligned_cols=16 Identities=19% Similarity=0.422 Sum_probs=13.2
Q ss_pred CCCCccCcccccccCC
Q psy12258 109 GEKPHFCPVCNKMFRV 124 (171)
Q Consensus 109 ~~~~~~C~~C~~~f~~ 124 (171)
..++.+|+.||..|..
T Consensus 178 EGkpqRCpECGqVFKL 193 (268)
T PTZ00043 178 EGFLYRCGECDQIFML 193 (268)
T ss_pred CCCCccCCCCCcEEEE
Confidence 4568999999998874
No 246
>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=24.06 E-value=34 Score=18.74 Aligned_cols=9 Identities=33% Similarity=0.837 Sum_probs=6.5
Q ss_pred ccCcccccc
Q psy12258 113 HFCPVCNKM 121 (171)
Q Consensus 113 ~~C~~C~~~ 121 (171)
|.|++||-.
T Consensus 1 y~C~KCg~~ 9 (64)
T PF09855_consen 1 YKCPKCGNE 9 (64)
T ss_pred CCCCCCCCc
Confidence 678888853
No 247
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=23.85 E-value=61 Score=24.42 Aligned_cols=28 Identities=21% Similarity=0.564 Sum_probs=21.6
Q ss_pred HHhcCCCCccCcccc-cccCCchhHHHHH
Q psy12258 105 RIHTGEKPHFCPVCN-KMFRVRSDMKRHL 132 (171)
Q Consensus 105 ~~h~~~~~~~C~~C~-~~f~~~~~l~~H~ 132 (171)
..|.-.+.|.|.+|| +++.-+..+.+|.
T Consensus 367 klhgLd~ef~CEICgNyvy~GR~~FdrHF 395 (470)
T COG5188 367 KLHGLDIEFECEICGNYVYYGRDRFDRHF 395 (470)
T ss_pred HhcCCCcceeeeecccccccchHHHHhhh
Confidence 456667789999999 7777777777776
No 248
>KOG4118|consensus
Probab=23.61 E-value=58 Score=17.84 Aligned_cols=26 Identities=23% Similarity=0.336 Sum_probs=21.5
Q ss_pred eeCCccchhccCcccHHHhhhhcCCC
Q psy12258 28 YGCEVCGRHFRQWGDLKYHKASLHSD 53 (171)
Q Consensus 28 ~~C~~C~~~f~~~~~l~~H~~~~h~~ 53 (171)
|.|..|-........+..|...-|+.
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk 64 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPK 64 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCC
Confidence 78999998888888888888766654
No 249
>KOG4377|consensus
Probab=23.43 E-value=23 Score=27.05 Aligned_cols=21 Identities=24% Similarity=0.406 Sum_probs=16.8
Q ss_pred cccccCCchhHHHHHHHhccC
Q psy12258 118 CNKMFRVRSDMKRHLNTHNVD 138 (171)
Q Consensus 118 C~~~f~~~~~l~~H~~~h~~~ 138 (171)
|+..+.+.+.+..|.|.|-..
T Consensus 409 c~~tl~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 409 CEATLYSVSQMASHKRKHERQ 429 (480)
T ss_pred CceEEEehhhhhhhhhhhhhh
Confidence 778888888999998887544
No 250
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.31 E-value=8.5 Score=30.42 Aligned_cols=14 Identities=29% Similarity=0.714 Sum_probs=9.0
Q ss_pred hcCCCCccCccccc
Q psy12258 107 HTGEKPHFCPVCNK 120 (171)
Q Consensus 107 h~~~~~~~C~~C~~ 120 (171)
+...-|..|+.||.
T Consensus 248 ~~~~~~~~Cp~C~s 261 (505)
T TIGR00595 248 YQEPIPKTCPQCGS 261 (505)
T ss_pred CcCCCCCCCCCCCC
Confidence 33345677888875
No 251
>KOG4317|consensus
Probab=23.14 E-value=20 Score=26.35 Aligned_cols=20 Identities=25% Similarity=0.645 Sum_probs=14.6
Q ss_pred CccCccchhhcCCHHHHHHH
Q psy12258 84 NYQCEFCHKAFRASSYLQNH 103 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H 103 (171)
.|.||.|+..|.+..-++.|
T Consensus 19 ~YtCPRCn~~YCsl~CYr~h 38 (383)
T KOG4317|consen 19 EYTCPRCNLLYCSLKCYRNH 38 (383)
T ss_pred cccCCCCCccceeeeeecCC
Confidence 48888888887776665555
No 252
>KOG4727|consensus
Probab=22.84 E-value=37 Score=22.61 Aligned_cols=23 Identities=22% Similarity=0.362 Sum_probs=20.3
Q ss_pred CCeeCCccchhccCcccHHHhhh
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKA 48 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~ 48 (171)
..|-|++|.-+|...-++..|++
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred CceeeeecceeehhhHHHHHHhc
Confidence 35899999999999999999976
No 253
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.69 E-value=21 Score=22.37 Aligned_cols=11 Identities=18% Similarity=0.289 Sum_probs=6.5
Q ss_pred ccCccchhhcCC
Q psy12258 85 YQCEFCHKAFRA 96 (171)
Q Consensus 85 ~~C~~C~~~~~~ 96 (171)
+.| .|+..|..
T Consensus 71 ~~C-~Cg~~~~~ 81 (124)
T PRK00762 71 IEC-ECGYEGVV 81 (124)
T ss_pred EEe-eCcCcccc
Confidence 567 67755543
No 254
>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=22.50 E-value=15 Score=23.80 Aligned_cols=29 Identities=24% Similarity=0.578 Sum_probs=16.9
Q ss_pred CCccCccchhhcCCHHHHHHHHHHhcCCCCccCcccccc
Q psy12258 83 RNYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKM 121 (171)
Q Consensus 83 ~~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~ 121 (171)
..|.|..||.... ..+....-.|+.||..
T Consensus 111 G~l~C~~Cg~~~~----------~~~~~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 111 GTLVCENCGHEVE----------LTHPERLPPCPKCGHT 139 (146)
T ss_pred ceEecccCCCEEE----------ecCCCcCCCCCCCCCC
Confidence 3477888875431 1123445678888754
No 255
>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=22.48 E-value=12 Score=22.40 Aligned_cols=39 Identities=18% Similarity=0.449 Sum_probs=20.4
Q ss_pred CeeCCccchhccCcccHHHhhhh-cCCCCCcccccchhhhcc
Q psy12258 27 PYGCEVCGRHFRQWGDLKYHKAS-LHSDVKAFQCEYCGKDFA 67 (171)
Q Consensus 27 ~~~C~~C~~~f~~~~~l~~H~~~-~h~~~~~~~C~~C~~~~~ 67 (171)
...|+.||..-.....++ ++. .-....-|.|..|+..+.
T Consensus 62 ~~~Cp~Cg~~~a~f~~~Q--~RsadE~~T~fy~C~~C~~~w~ 101 (104)
T TIGR01384 62 RVECPKCGHKEAYYWLLQ--TRRADEPETRFYKCTKCGYVWR 101 (104)
T ss_pred cCCCCCCCCCeeEEEEec--cCCCCCCcEEEEEeCCCCCeeE
Confidence 367999986533223222 111 111223488988887553
No 256
>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=22.08 E-value=30 Score=15.62 Aligned_cols=11 Identities=27% Similarity=0.787 Sum_probs=4.9
Q ss_pred CccCccccccc
Q psy12258 112 PHFCPVCNKMF 122 (171)
Q Consensus 112 ~~~C~~C~~~f 122 (171)
.|.|+.|+..+
T Consensus 13 kY~Cp~C~~~~ 23 (30)
T PF04438_consen 13 KYRCPRCGARY 23 (30)
T ss_dssp SEE-TTT--EE
T ss_pred EEECCCcCCce
Confidence 46777776554
No 257
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=21.49 E-value=35 Score=20.71 Aligned_cols=24 Identities=29% Similarity=0.306 Sum_probs=17.8
Q ss_pred CCeeCCccchhccCcccHHHhhhh
Q psy12258 26 KPYGCEVCGRHFRQWGDLKYHKAS 49 (171)
Q Consensus 26 ~~~~C~~C~~~f~~~~~l~~H~~~ 49 (171)
..|-|-.|.+-|.....|..|.+.
T Consensus 54 GqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhcc
Confidence 447788888888888888877653
No 258
>KOG2272|consensus
Probab=21.26 E-value=48 Score=23.68 Aligned_cols=13 Identities=31% Similarity=0.723 Sum_probs=8.6
Q ss_pred CCccCcccccccC
Q psy12258 111 KPHFCPVCNKMFR 123 (171)
Q Consensus 111 ~~~~C~~C~~~f~ 123 (171)
.-|.|..|.+.|-
T Consensus 220 eHFvCa~CekPFl 232 (332)
T KOG2272|consen 220 EHFVCAKCEKPFL 232 (332)
T ss_pred hheeehhcCCccc
Confidence 3467777777764
No 259
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=21.18 E-value=38 Score=16.06 Aligned_cols=9 Identities=44% Similarity=1.058 Sum_probs=5.0
Q ss_pred eeCCccchh
Q psy12258 28 YGCEVCGRH 36 (171)
Q Consensus 28 ~~C~~C~~~ 36 (171)
..|++|+..
T Consensus 9 ~~C~~C~~~ 17 (36)
T PF11781_consen 9 EPCPVCGSR 17 (36)
T ss_pred CcCCCCCCe
Confidence 346666554
No 260
>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=21.07 E-value=28 Score=22.31 Aligned_cols=15 Identities=40% Similarity=1.147 Sum_probs=12.1
Q ss_pred CCCccCcccccccCC
Q psy12258 110 EKPHFCPVCNKMFRV 124 (171)
Q Consensus 110 ~~~~~C~~C~~~f~~ 124 (171)
.++.+|+.||.-|..
T Consensus 110 g~~~RCpeCG~~fkL 124 (136)
T PF01215_consen 110 GKPQRCPECGQVFKL 124 (136)
T ss_dssp TSEEEETTTEEEEEE
T ss_pred CCccCCCCCCeEEEE
Confidence 468899999988864
No 261
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=20.76 E-value=27 Score=22.44 Aligned_cols=32 Identities=22% Similarity=0.505 Sum_probs=16.4
Q ss_pred CccCccchhhcCCHHHHHHHHHHhcCCCCccCccccccc
Q psy12258 84 NYQCEFCHKAFRASSYLQNHRRIHTGEKPHFCPVCNKMF 122 (171)
Q Consensus 84 ~~~C~~C~~~~~~~~~l~~H~~~h~~~~~~~C~~C~~~f 122 (171)
.|.|..|+..+. ++.+ +.....|.|..|+..+
T Consensus 112 ~y~C~~C~~~~~------~~rr-~~~~~~y~C~~C~g~l 143 (146)
T smart00731 112 PYRCTGCGQRYL------RVRR-SNNVSRYRCGKCGGKL 143 (146)
T ss_pred EEECCCCCCCCc------eEcc-ccCcceEEcCCCCCEE
Confidence 567777775542 1111 1111457777777554
No 262
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=20.16 E-value=82 Score=16.37 Aligned_cols=32 Identities=16% Similarity=0.285 Sum_probs=17.1
Q ss_pred eCCccchhccCcccHHHhhhhcCCCCCcccccchhhh
Q psy12258 29 GCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKD 65 (171)
Q Consensus 29 ~C~~C~~~f~~~~~l~~H~~~~h~~~~~~~C~~C~~~ 65 (171)
.|.-|+...+...-. -+ ..+.....|+.|+..
T Consensus 24 ~C~gC~~~l~~~~~~--~i---~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 24 TCSGCHMELPPQELN--EI---RKGDEIVFCPNCGRI 55 (56)
T ss_pred ccCCCCEEcCHHHHH--HH---HcCCCeEECcCCCcc
Confidence 577777665433221 11 222455678888753
Done!