Query 036604
Match_columns 257
No_of_seqs 409 out of 2651
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 03:43:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036604.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036604hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 2.7E-28 5.8E-33 199.4 3.1 133 52-211 128-266 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.6E-24 3.5E-29 177.3 4.4 106 52-184 159-264 (279)
3 KOG3623 Homeobox transcription 99.8 2.8E-20 6.1E-25 168.5 2.9 73 125-210 897-972 (1007)
4 KOG1074 Transcriptional repres 99.8 2.5E-19 5.5E-24 164.8 3.1 73 125-210 608-690 (958)
5 KOG1074 Transcriptional repres 99.7 7.5E-18 1.6E-22 155.2 3.6 50 62-111 613-662 (958)
6 KOG3576 Ovo and related transc 99.6 4E-16 8.7E-21 122.4 3.2 120 55-188 118-237 (267)
7 KOG3576 Ovo and related transc 99.6 3.3E-16 7.2E-21 122.8 -0.8 99 79-202 114-226 (267)
8 KOG3623 Homeobox transcription 99.5 8.7E-16 1.9E-20 139.8 1.0 82 78-184 890-971 (1007)
9 KOG3608 Zn finger proteins [Ge 99.5 1.2E-14 2.7E-19 122.7 1.4 115 59-187 184-316 (467)
10 KOG3608 Zn finger proteins [Ge 99.3 1.2E-12 2.6E-17 110.7 3.7 137 58-211 140-315 (467)
11 PHA02768 hypothetical protein; 99.1 5.8E-11 1.3E-15 74.5 1.7 43 162-204 4-47 (55)
12 PHA00733 hypothetical protein 99.0 6.3E-11 1.4E-15 89.3 0.4 84 78-188 36-124 (128)
13 PF13465 zf-H2C2_2: Zinc-finge 98.8 2.6E-09 5.6E-14 57.4 2.6 26 69-94 1-26 (26)
14 PLN03086 PRLI-interacting fact 98.8 1.9E-09 4.1E-14 98.9 3.3 93 80-203 451-556 (567)
15 PHA02768 hypothetical protein; 98.8 1.4E-09 3.1E-14 68.3 0.8 44 82-139 5-48 (55)
16 PLN03086 PRLI-interacting fact 98.8 5.4E-09 1.2E-13 96.0 4.5 97 56-184 455-561 (567)
17 PHA00733 hypothetical protein 98.7 1.1E-08 2.4E-13 77.1 2.4 69 64-147 56-124 (128)
18 PF13465 zf-H2C2_2: Zinc-finge 98.6 2.2E-08 4.8E-13 53.7 1.8 26 137-175 1-26 (26)
19 KOG3993 Transcription factor ( 98.6 2.5E-08 5.5E-13 86.7 1.9 152 62-213 275-483 (500)
20 PHA00616 hypothetical protein 98.3 1.1E-07 2.5E-12 56.8 0.1 32 82-113 1-32 (44)
21 PHA00732 hypothetical protein 98.3 3.6E-07 7.8E-12 62.7 2.2 38 163-200 1-39 (79)
22 KOG3993 Transcription factor ( 98.3 6.3E-08 1.4E-12 84.2 -2.2 95 82-188 267-381 (500)
23 PHA00616 hypothetical protein 98.2 3E-07 6.5E-12 55.0 0.1 33 163-195 1-33 (44)
24 PF00096 zf-C2H2: Zinc finger, 98.0 9.5E-07 2.1E-11 45.8 -0.1 23 164-186 1-23 (23)
25 PHA00732 hypothetical protein 98.0 2.6E-06 5.6E-11 58.5 1.3 47 82-146 1-48 (79)
26 COG5189 SFP1 Putative transcri 97.9 3.4E-06 7.3E-11 71.1 1.2 24 161-184 396-419 (423)
27 PF00096 zf-C2H2: Zinc finger, 97.9 4.9E-06 1.1E-10 43.1 0.8 23 83-105 1-23 (23)
28 PF13912 zf-C2H2_6: C2H2-type 97.7 1.2E-05 2.5E-10 43.4 0.7 26 163-188 1-26 (27)
29 PF13894 zf-C2H2_4: C2H2-type 97.6 1.6E-05 3.6E-10 41.2 0.3 24 164-187 1-24 (24)
30 PF12756 zf-C2H2_2: C2H2 type 97.6 2.3E-05 5.1E-10 56.0 0.7 72 84-186 1-73 (100)
31 PF13912 zf-C2H2_6: C2H2-type 97.5 4.5E-05 9.7E-10 41.1 1.2 25 82-106 1-25 (27)
32 PF05605 zf-Di19: Drought indu 97.5 5.9E-05 1.3E-09 47.9 1.8 24 162-187 30-53 (54)
33 PF13894 zf-C2H2_4: C2H2-type 97.3 9.8E-05 2.1E-09 38.2 0.8 23 83-105 1-23 (24)
34 smart00355 ZnF_C2H2 zinc finge 97.2 0.00013 2.9E-09 38.3 0.8 25 164-188 1-25 (26)
35 PF09237 GAGA: GAGA factor; I 97.0 0.00024 5.3E-09 43.5 0.9 30 161-190 22-51 (54)
36 smart00355 ZnF_C2H2 zinc finge 96.8 0.00052 1.1E-08 35.9 1.0 24 83-106 1-24 (26)
37 COG5048 FOG: Zn-finger [Genera 96.7 0.00092 2E-08 60.0 2.4 58 57-114 292-355 (467)
38 PF09237 GAGA: GAGA factor; I 96.7 0.00092 2E-08 41.0 1.5 33 78-110 20-52 (54)
39 PF12874 zf-met: Zinc-finger o 96.5 0.0007 1.5E-08 35.5 0.2 23 164-186 1-23 (25)
40 PF12874 zf-met: Zinc-finger o 96.2 0.0017 3.8E-08 34.0 0.7 23 83-105 1-23 (25)
41 PF12171 zf-C2H2_jaz: Zinc-fin 96.1 0.0029 6.3E-08 33.9 1.0 23 164-186 2-24 (27)
42 PF13909 zf-H2C2_5: C2H2-type 95.7 0.0024 5.2E-08 33.1 -0.2 23 164-187 1-23 (24)
43 PRK04860 hypothetical protein; 95.6 0.0053 1.2E-07 48.0 1.1 29 81-113 118-146 (160)
44 PF12171 zf-C2H2_jaz: Zinc-fin 95.4 0.0045 9.8E-08 33.1 0.1 23 83-105 2-24 (27)
45 COG5189 SFP1 Putative transcri 95.0 0.014 3E-07 49.8 1.8 50 161-210 347-420 (423)
46 PRK04860 hypothetical protein; 94.9 0.011 2.3E-07 46.3 1.0 36 125-177 122-157 (160)
47 PF05605 zf-Di19: Drought indu 94.7 0.011 2.3E-07 37.4 0.5 36 163-199 2-42 (54)
48 KOG1146 Homeobox protein [Gene 94.5 0.015 3.3E-07 58.2 1.1 80 76-184 459-539 (1406)
49 PF13913 zf-C2HC_2: zinc-finge 94.3 0.018 3.8E-07 30.3 0.6 21 164-185 3-23 (25)
50 PF13909 zf-H2C2_5: C2H2-type 94.3 0.016 3.4E-07 29.9 0.4 22 83-105 1-22 (24)
51 COG5048 FOG: Zn-finger [Genera 93.9 0.045 9.9E-07 49.0 2.9 117 81-209 288-439 (467)
52 KOG2893 Zn finger protein [Gen 93.4 0.057 1.2E-06 44.3 2.3 46 125-187 13-59 (341)
53 PF13913 zf-C2HC_2: zinc-finge 93.3 0.039 8.4E-07 29.0 0.8 21 83-104 3-23 (25)
54 smart00451 ZnF_U1 U1-like zinc 93.1 0.043 9.2E-07 31.0 0.9 23 163-185 3-25 (35)
55 PF12756 zf-C2H2_2: C2H2 type 92.8 0.055 1.2E-06 38.2 1.4 24 82-105 50-73 (100)
56 smart00451 ZnF_U1 U1-like zinc 91.6 0.094 2E-06 29.5 1.1 23 82-104 3-25 (35)
57 KOG2231 Predicted E3 ubiquitin 90.4 0.24 5.2E-06 47.1 3.1 22 125-146 185-206 (669)
58 COG5236 Uncharacterized conser 85.8 0.19 4E-06 43.6 -0.7 32 165-197 222-253 (493)
59 KOG0782 Predicted diacylglycer 84.8 0.81 1.8E-05 42.5 2.9 50 134-202 237-290 (1004)
60 KOG0978 E3 ubiquitin ligase in 83.8 0.37 7.9E-06 46.1 0.3 56 82-183 643-698 (698)
61 PF09986 DUF2225: Uncharacteri 83.0 0.63 1.4E-05 38.3 1.3 25 80-104 3-27 (214)
62 TIGR00622 ssl1 transcription f 82.9 1.5 3.2E-05 32.0 3.1 94 81-195 14-110 (112)
63 PF09986 DUF2225: Uncharacteri 82.5 0.6 1.3E-05 38.4 1.0 42 161-202 3-62 (214)
64 COG4049 Uncharacterized protei 82.3 0.46 1E-05 29.8 0.2 27 78-104 13-39 (65)
65 PF09538 FYDLN_acid: Protein o 81.3 0.62 1.3E-05 33.9 0.6 16 161-176 24-39 (108)
66 smart00614 ZnF_BED BED zinc fi 80.8 0.73 1.6E-05 28.4 0.7 25 163-187 18-48 (50)
67 cd00350 rubredoxin_like Rubred 80.5 1.2 2.7E-05 24.8 1.5 24 164-196 2-25 (33)
68 KOG2186 Cell growth-regulating 80.0 1.2 2.5E-05 37.2 1.9 49 122-186 3-51 (276)
69 KOG4173 Alpha-SNAP protein [In 79.1 0.79 1.7E-05 37.0 0.6 87 81-185 78-168 (253)
70 COG4049 Uncharacterized protei 78.9 0.64 1.4E-05 29.2 0.0 28 160-187 14-41 (65)
71 PF02892 zf-BED: BED zinc fing 78.4 0.97 2.1E-05 27.0 0.7 24 161-184 14-41 (45)
72 KOG2482 Predicted C2H2-type Zn 76.9 1.5 3.2E-05 38.2 1.6 23 82-104 195-217 (423)
73 KOG0320 Predicted E3 ubiquitin 76.0 1.1 2.4E-05 35.3 0.6 54 79-177 128-181 (187)
74 TIGR02098 MJ0042_CXXC MJ0042 f 75.3 1.3 2.8E-05 25.4 0.7 34 164-199 3-36 (38)
75 cd00729 rubredoxin_SM Rubredox 75.1 2.1 4.6E-05 24.1 1.5 25 163-196 2-26 (34)
76 PF09723 Zn-ribbon_8: Zinc rib 75.0 1.1 2.4E-05 26.6 0.3 30 163-196 5-34 (42)
77 smart00834 CxxC_CXXC_SSSS Puta 73.5 1.4 3E-05 25.6 0.5 31 163-197 5-35 (41)
78 KOG1146 Homeobox protein [Gene 72.3 0.73 1.6E-05 46.8 -1.4 89 83-188 1261-1353(1406)
79 PF05443 ROS_MUCR: ROS/MUCR tr 72.1 1.3 2.9E-05 33.4 0.2 27 161-190 70-96 (132)
80 PTZ00303 phosphatidylinositol 71.9 2.5 5.5E-05 40.9 2.0 39 83-132 461-499 (1374)
81 KOG2893 Zn finger protein [Gen 70.3 2.1 4.6E-05 35.4 1.0 19 85-103 13-31 (341)
82 KOG4124 Putative transcription 69.2 1.2 2.6E-05 38.8 -0.6 23 161-183 396-418 (442)
83 TIGR02605 CxxC_CxxC_SSSS putat 69.0 2 4.3E-05 26.6 0.5 30 163-196 5-34 (52)
84 COG5152 Uncharacterized conser 68.6 2.3 5E-05 34.1 0.8 12 162-173 229-240 (259)
85 TIGR02300 FYDLN_acid conserved 68.0 2.4 5.1E-05 31.6 0.8 20 161-180 24-43 (129)
86 PRK14890 putative Zn-ribbon RN 67.3 2.8 6E-05 26.8 0.9 10 162-171 47-56 (59)
87 PRK00398 rpoP DNA-directed RNA 64.7 2.6 5.6E-05 25.4 0.4 31 162-199 2-32 (46)
88 KOG4167 Predicted DNA-binding 63.4 1.1 2.5E-05 42.7 -2.0 26 162-187 791-816 (907)
89 smart00734 ZnF_Rad18 Rad18-lik 63.2 3.8 8.3E-05 21.5 0.8 20 164-184 2-21 (26)
90 COG1997 RPL43A Ribosomal prote 63.1 4.3 9.4E-05 28.1 1.3 33 162-202 34-67 (89)
91 TIGR00373 conserved hypothetic 63.0 3.6 7.9E-05 32.1 1.0 34 161-200 107-140 (158)
92 PF05443 ROS_MUCR: ROS/MUCR tr 61.6 4.4 9.5E-05 30.6 1.2 27 81-110 71-97 (132)
93 COG4957 Predicted transcriptio 60.7 3.5 7.5E-05 31.0 0.5 25 163-190 76-100 (148)
94 PRK06266 transcription initiat 59.8 4.3 9.3E-05 32.4 0.9 36 161-202 115-150 (178)
95 PRK00464 nrdR transcriptional 59.0 5.2 0.00011 31.1 1.2 39 164-204 1-44 (154)
96 PF13717 zinc_ribbon_4: zinc-r 58.5 6.2 0.00013 22.5 1.2 33 164-198 3-35 (36)
97 smart00659 RPOLCX RNA polymera 57.6 6 0.00013 23.7 1.1 27 163-197 2-28 (44)
98 COG1996 RPC10 DNA-directed RNA 56.7 5.1 0.00011 24.6 0.7 30 161-197 4-33 (49)
99 PF12013 DUF3505: Protein of u 56.7 4.6 0.0001 29.2 0.6 27 162-188 79-109 (109)
100 PF07975 C1_4: TFIIH C1-like d 55.7 5.5 0.00012 24.7 0.7 26 162-187 20-45 (51)
101 KOG2231 Predicted E3 ubiquitin 53.9 6.5 0.00014 37.7 1.2 49 130-195 220-275 (669)
102 KOG2186 Cell growth-regulating 53.5 5.6 0.00012 33.3 0.6 40 163-203 3-44 (276)
103 PF03604 DNA_RNApol_7kD: DNA d 53.0 10 0.00022 21.1 1.4 11 164-174 1-11 (32)
104 smart00531 TFIIE Transcription 52.4 7.3 0.00016 29.9 1.1 36 161-199 97-134 (147)
105 COG4530 Uncharacterized protei 51.4 5.3 0.00011 28.9 0.1 20 161-181 24-43 (129)
106 KOG4167 Predicted DNA-binding 50.0 2.8 6.1E-05 40.2 -1.8 26 81-106 791-816 (907)
107 PF14634 zf-RING_5: zinc-RING 49.0 13 0.00029 21.9 1.6 10 162-171 35-44 (44)
108 COG2888 Predicted Zn-ribbon RN 47.8 9.3 0.0002 24.4 0.8 10 162-171 49-58 (61)
109 PF13719 zinc_ribbon_5: zinc-r 47.7 11 0.00023 21.6 1.0 33 164-199 3-36 (37)
110 PF02176 zf-TRAF: TRAF-type zi 47.1 6.7 0.00014 24.7 0.1 46 118-176 5-55 (60)
111 PF01363 FYVE: FYVE zinc finge 46.8 7.9 0.00017 25.3 0.4 16 161-176 23-38 (69)
112 PF06524 NOA36: NOA36 protein; 46.8 13 0.00027 31.4 1.7 27 161-187 207-233 (314)
113 PF10571 UPF0547: Uncharacteri 46.6 9.7 0.00021 20.0 0.7 13 162-174 13-25 (26)
114 PF07754 DUF1610: Domain of un 45.8 12 0.00026 19.3 0.9 10 81-90 15-24 (24)
115 PF15269 zf-C2H2_7: Zinc-finge 44.1 9 0.0002 22.9 0.3 22 164-185 21-42 (54)
116 COG1198 PriA Primosomal protei 43.4 6.2 0.00013 38.5 -0.7 12 161-172 473-484 (730)
117 PF04959 ARS2: Arsenite-resist 43.4 11 0.00025 30.9 0.9 30 79-108 74-103 (214)
118 COG5236 Uncharacterized conser 42.4 16 0.00035 32.0 1.8 22 125-146 223-244 (493)
119 COG4957 Predicted transcriptio 42.1 12 0.00026 28.2 0.8 25 83-110 77-101 (148)
120 COG2331 Uncharacterized protei 42.0 9.7 0.00021 25.6 0.3 34 163-200 12-45 (82)
121 PF10013 DUF2256: Uncharacteri 42.0 16 0.00035 21.6 1.2 17 184-200 3-20 (42)
122 TIGR00373 conserved hypothetic 41.2 17 0.00036 28.4 1.5 23 77-99 104-126 (158)
123 PF04959 ARS2: Arsenite-resist 40.9 6.1 0.00013 32.5 -1.0 28 161-188 75-102 (214)
124 cd00065 FYVE FYVE domain; Zinc 40.3 14 0.0003 23.0 0.8 16 161-176 16-31 (57)
125 TIGR01206 lysW lysine biosynth 39.8 14 0.00029 23.3 0.7 30 163-199 2-33 (54)
126 PRK14873 primosome assembly pr 39.4 11 0.00024 36.6 0.3 11 162-172 421-431 (665)
127 PF09845 DUF2072: Zn-ribbon co 39.2 14 0.00031 27.7 0.8 28 163-197 1-28 (131)
128 smart00154 ZnF_AN1 AN1-like Zi 39.1 17 0.00038 21.0 1.0 15 82-96 12-26 (39)
129 PF05290 Baculo_IE-1: Baculovi 38.7 29 0.00063 26.2 2.4 41 161-203 78-136 (140)
130 PF08790 zf-LYAR: LYAR-type C2 38.3 18 0.0004 19.4 0.9 20 83-103 1-20 (28)
131 COG0068 HypF Hydrogenase matur 38.0 21 0.00046 34.5 1.9 58 84-172 125-182 (750)
132 PRK09678 DNA-binding transcrip 37.7 12 0.00025 25.1 0.1 10 83-92 2-11 (72)
133 KOG2482 Predicted C2H2-type Zn 37.6 14 0.00031 32.4 0.7 24 162-185 194-217 (423)
134 KOG2785 C2H2-type Zn-finger pr 37.3 24 0.00053 31.4 2.1 70 81-184 165-241 (390)
135 PLN02294 cytochrome c oxidase 37.1 14 0.00031 29.0 0.6 16 161-176 139-154 (174)
136 PHA00626 hypothetical protein 36.7 20 0.00044 22.6 1.1 14 81-94 22-35 (59)
137 PF11494 Ta0938: Ta0938; Inte 35.9 16 0.00035 25.8 0.6 41 78-135 10-50 (105)
138 cd00924 Cyt_c_Oxidase_Vb Cytoc 35.8 15 0.00033 26.2 0.5 15 161-175 77-91 (97)
139 TIGR00595 priA primosomal prot 35.7 17 0.00037 34.0 1.0 11 161-171 251-261 (505)
140 PF01286 XPA_N: XPA protein N- 35.1 18 0.00038 20.4 0.6 13 125-137 6-18 (34)
141 PF12013 DUF3505: Protein of u 34.9 21 0.00046 25.7 1.1 25 82-106 80-108 (109)
142 PRK14714 DNA polymerase II lar 34.6 38 0.00083 35.1 3.1 13 162-174 691-703 (1337)
143 COG3677 Transposase and inacti 34.1 20 0.00043 27.0 0.9 37 164-202 31-67 (129)
144 KOG2593 Transcription initiati 34.1 19 0.00041 32.6 0.9 38 161-198 126-163 (436)
145 smart00064 FYVE Protein presen 34.1 19 0.0004 23.4 0.7 15 161-175 24-38 (68)
146 PF01428 zf-AN1: AN1-like Zinc 33.3 20 0.00043 21.2 0.7 16 81-96 12-27 (43)
147 KOG2071 mRNA cleavage and poly 33.1 20 0.00043 33.8 0.9 27 161-187 416-442 (579)
148 COG1592 Rubrerythrin [Energy p 33.0 18 0.0004 28.4 0.6 10 161-170 147-156 (166)
149 KOG2807 RNA polymerase II tran 32.9 33 0.00072 30.0 2.1 30 162-194 344-373 (378)
150 COG3357 Predicted transcriptio 32.2 29 0.00063 24.3 1.4 27 161-194 56-82 (97)
151 PF01780 Ribosomal_L37ae: Ribo 32.2 15 0.00033 25.7 0.0 33 162-202 34-67 (90)
152 PRK05978 hypothetical protein; 32.0 30 0.00064 26.7 1.6 33 163-201 33-65 (148)
153 KOG2636 Splicing factor 3a, su 30.3 29 0.00062 31.6 1.4 36 158-193 396-435 (497)
154 COG3364 Zn-ribbon containing p 30.0 25 0.00055 25.1 0.8 27 163-196 2-28 (112)
155 COG1655 Uncharacterized protei 28.9 22 0.00047 29.5 0.4 28 161-188 17-44 (267)
156 PF13451 zf-trcl: Probable zin 28.9 22 0.00047 21.9 0.3 17 161-177 2-18 (49)
157 PF14311 DUF4379: Domain of un 28.4 38 0.00083 21.0 1.4 28 163-194 28-55 (55)
158 PRK04023 DNA polymerase II lar 28.4 33 0.00071 34.7 1.6 10 82-91 626-635 (1121)
159 TIGR00280 L37a ribosomal prote 27.7 28 0.0006 24.5 0.7 34 162-203 34-68 (91)
160 PF04423 Rad50_zn_hook: Rad50 27.7 56 0.0012 20.2 2.1 12 84-95 22-33 (54)
161 COG1773 Rubredoxin [Energy pro 27.3 24 0.00052 22.3 0.3 15 162-176 2-16 (55)
162 KOG4173 Alpha-SNAP protein [In 26.4 15 0.00033 29.8 -0.9 57 165-221 108-179 (253)
163 KOG2071 mRNA cleavage and poly 26.3 34 0.00074 32.3 1.2 30 78-107 414-443 (579)
164 COG4888 Uncharacterized Zn rib 25.9 20 0.00043 25.6 -0.3 38 161-200 20-58 (104)
165 PTZ00255 60S ribosomal protein 25.8 32 0.00068 24.1 0.7 33 162-202 35-68 (90)
166 PF13878 zf-C2H2_3: zinc-finge 25.2 31 0.00068 20.2 0.5 25 163-187 13-39 (41)
167 PF14353 CpXC: CpXC protein 25.1 30 0.00066 25.6 0.6 25 81-105 37-61 (128)
168 TIGR00622 ssl1 transcription f 25.1 62 0.0013 23.7 2.1 27 80-106 79-105 (112)
169 KOG3408 U1-like Zn-finger-cont 24.8 31 0.00066 25.6 0.5 27 78-104 53-79 (129)
170 KOG1813 Predicted E3 ubiquitin 24.3 39 0.00084 29.1 1.1 25 162-186 274-302 (313)
171 PF05191 ADK_lid: Adenylate ki 24.3 33 0.00071 19.5 0.5 14 162-175 20-33 (36)
172 KOG0717 Molecular chaperone (D 24.1 33 0.00071 31.5 0.7 22 83-104 293-314 (508)
173 KOG1280 Uncharacterized conser 24.1 58 0.0013 28.7 2.1 52 80-131 77-128 (381)
174 KOG0801 Predicted E3 ubiquitin 23.9 55 0.0012 25.6 1.7 28 176-203 126-153 (205)
175 PF12907 zf-met2: Zinc-binding 23.7 14 0.0003 21.7 -1.2 26 164-189 2-31 (40)
176 PRK03976 rpl37ae 50S ribosomal 23.3 36 0.00078 23.9 0.6 33 162-202 35-68 (90)
177 PF04216 FdhE: Protein involve 22.8 15 0.00033 31.6 -1.7 9 83-91 173-181 (290)
178 KOG3408 U1-like Zn-finger-cont 22.1 33 0.00071 25.4 0.2 24 162-185 56-79 (129)
179 PRK12496 hypothetical protein; 22.0 60 0.0013 25.4 1.7 29 162-199 126-154 (164)
180 KOG4317 Predicted Zn-finger pr 21.2 32 0.00069 29.9 -0.0 23 162-184 18-40 (383)
181 PF10276 zf-CHCC: Zinc-finger 20.8 54 0.0012 19.2 0.9 13 81-93 28-40 (40)
182 PF15227 zf-C3HC4_4: zinc fing 20.8 63 0.0014 18.9 1.2 7 163-169 36-42 (42)
183 COG5151 SSL1 RNA polymerase II 20.8 29 0.00063 30.1 -0.3 26 162-187 387-412 (421)
184 TIGR00143 hypF [NiFe] hydrogen 20.6 55 0.0012 32.1 1.5 59 84-173 92-150 (711)
185 PF01215 COX5B: Cytochrome c o 20.2 32 0.0007 26.1 -0.1 15 161-175 110-124 (136)
186 PF06397 Desulfoferrod_N: Desu 20.2 39 0.00084 19.3 0.2 13 161-173 4-16 (36)
187 PF11931 DUF3449: Domain of un 20.1 35 0.00075 27.7 0.0 31 161-191 99-133 (196)
188 TIGR00100 hypA hydrogenase nic 20.0 51 0.0011 24.1 0.9 27 162-197 69-95 (115)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.94 E-value=2.7e-28 Score=199.39 Aligned_cols=133 Identities=18% Similarity=0.289 Sum_probs=120.4
Q ss_pred CcccCCCCCCCCCCCchhHHHHHHHhC---CCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhh
Q 036604 52 AKKISSSSSSHHLDQPATTSKAAAVAT---GLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEE 128 (257)
Q Consensus 52 ~~~~~~~~~~~~f~~~~~l~~H~~~h~---~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C 128 (257)
.+......+++.+.+.++|.+|++.|- ..+.+.|++|+|+|....+|+.|+|+|+ -+++ |.+|
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~------------C~iC 193 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT--LPCE------------CGIC 193 (279)
T ss_pred CCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC--CCcc------------cccc
Confidence 445556678899999999999999995 4678999999999999999999999998 4555 8899
Q ss_pred hhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcccccccc---CCCcCccccCCCCcc
Q 036604 129 DDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRHRAFT---TSTTALTMGTSSSLD 205 (257)
Q Consensus 129 ~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~---c~~c~~~f~~~~~l~ 205 (257)
||.|.+.+.|+.|+|+|+| ||||.|..|+|+|+.+++|+.||++|.+.| |..|+|+|+..+-|+
T Consensus 194 GKaFSRPWLLQGHiRTHTG-------------EKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLn 260 (279)
T KOG2462|consen 194 GKAFSRPWLLQGHIRTHTG-------------EKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLN 260 (279)
T ss_pred cccccchHHhhcccccccC-------------CCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHH
Confidence 9999999999999999999 899999999999999999999999999877 999999999999997
Q ss_pred cccccc
Q 036604 206 RQSQQA 211 (257)
Q Consensus 206 ~~~~~~ 211 (257)
+|.+..
T Consensus 261 KH~ES~ 266 (279)
T KOG2462|consen 261 KHSESA 266 (279)
T ss_pred Hhhhhc
Confidence 776654
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.90 E-value=1.6e-24 Score=177.30 Aligned_cols=106 Identities=20% Similarity=0.285 Sum_probs=99.2
Q ss_pred CcccCCCCCCCCCCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhh
Q 036604 52 AKKISSSSSSHHLDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDR 131 (257)
Q Consensus 52 ~~~~~~~~~~~~f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~ 131 (257)
.....+..+++.|.....|+.|+|+|+ -+++|.+|||.|....-|+.|+|+|+|||||. |..|+|+
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~--l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~------------C~hC~kA 224 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT--LPCECGICGKAFSRPWLLQGHIRTHTGEKPFS------------CPHCGKA 224 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC--CCcccccccccccchHHhhcccccccCCCCcc------------CCcccch
Confidence 445667788999999999999999998 78999999999999999999999999999999 7889999
Q ss_pred ccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcc
Q 036604 132 FSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 132 f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r 184 (257)
|..+++|+.||++|.+ .|+|+|..|+|+|..++.|.+|..
T Consensus 225 FADRSNLRAHmQTHS~-------------~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 225 FADRSNLRAHMQTHSD-------------VKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred hcchHHHHHHHHhhcC-------------CccccCcchhhHHHHHHHHHHhhh
Confidence 9999999999999998 799999999999999999999965
No 3
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.79 E-value=2.8e-20 Score=168.54 Aligned_cols=73 Identities=19% Similarity=0.296 Sum_probs=68.6
Q ss_pred chhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcccccccc---CCCcCccccCC
Q 036604 125 MDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRHRAFT---TSTTALTMGTS 201 (257)
Q Consensus 125 C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~---c~~c~~~f~~~ 201 (257)
|+.|+|.|...+.|.+|.--|+| .|||+|.+|.|+|+.+.+|..|+|.|.||| |+.|+|.|+.+
T Consensus 897 CDqCDK~FqKqSSLaRHKYEHsG-------------qRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHS 963 (1007)
T KOG3623|consen 897 CDQCDKAFQKQSSLARHKYEHSG-------------QRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHS 963 (1007)
T ss_pred HHHHHHHHHhhHHHHHhhhhhcC-------------CCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccc
Confidence 99999999999999999999999 899999999999999999999999999999 99999999999
Q ss_pred CCccccccc
Q 036604 202 SSLDRQSQQ 210 (257)
Q Consensus 202 ~~l~~~~~~ 210 (257)
.+...|+.+
T Consensus 964 GSYSQHMNH 972 (1007)
T KOG3623|consen 964 GSYSQHMNH 972 (1007)
T ss_pred cchHhhhcc
Confidence 988555543
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.75 E-value=2.5e-19 Score=164.77 Aligned_cols=73 Identities=18% Similarity=0.208 Sum_probs=64.2
Q ss_pred chhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhccccccc-------cCC---Cc
Q 036604 125 MDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRHRAF-------TTS---TT 194 (257)
Q Consensus 125 C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~~-------~c~---~c 194 (257)
|-+|.+....++.|+.|.|+|+| ||||+|.|||++|.++.+|+.||-+|... .|+ +|
T Consensus 608 CiiC~rVlSC~saLqmHyrtHtG-------------ERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic 674 (958)
T KOG1074|consen 608 CIICLRVLSCPSALQMHYRTHTG-------------ERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFIC 674 (958)
T ss_pred eeeeeecccchhhhhhhhhcccC-------------cCccccccccchhccccchhhcccccccCccccccccCCchhhh
Confidence 88899999999999999999999 89999999999999999999999999742 288 99
Q ss_pred CccccCCCCccccccc
Q 036604 195 ALTMGTSSSLDRQSQQ 210 (257)
Q Consensus 195 ~~~f~~~~~l~~~~~~ 210 (257)
.+.|...-.|..+...
T Consensus 675 ~~kftn~V~lpQhIri 690 (958)
T KOG1074|consen 675 QKKFTNAVTLPQHIRI 690 (958)
T ss_pred cccccccccccceEEe
Confidence 9999988877444443
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.69 E-value=7.5e-18 Score=155.22 Aligned_cols=50 Identities=26% Similarity=0.404 Sum_probs=43.3
Q ss_pred CCCCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcCCCCcc
Q 036604 62 HHLDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVI 111 (257)
Q Consensus 62 ~~f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~ 111 (257)
+-..-++.|+.|.|+|+||+||+|.+||++|.++.+|+.|+-+|...-|+
T Consensus 613 rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~ 662 (958)
T KOG1074|consen 613 RVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPA 662 (958)
T ss_pred ecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccc
Confidence 33445678999999999999999999999999999999999999765443
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.60 E-value=4e-16 Score=122.35 Aligned_cols=120 Identities=12% Similarity=0.161 Sum_probs=78.0
Q ss_pred cCCCCCCCCCCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccC
Q 036604 55 ISSSSSSHHLDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSN 134 (257)
Q Consensus 55 ~~~~~~~~~f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~ 134 (257)
..+..|++.|....-|++|++.|..-|.|.|..|||.|.....|++|+|+|+|.+||+ |..|+|.|.+
T Consensus 118 ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpyk------------c~~c~kaftq 185 (267)
T KOG3576|consen 118 FTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYK------------CSLCEKAFTQ 185 (267)
T ss_pred eeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccc------------hhhhhHHHHh
Confidence 3344556667766777777777777777777777777777777777777777777777 5666677777
Q ss_pred cchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcccccc
Q 036604 135 MSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 135 ~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
.-.|..|.+.-.|....+.-+... +|.|.|+.||.+-.....+..|++.|..
T Consensus 186 rcsleshl~kvhgv~~~yaykerr--~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 186 RCSLESHLKKVHGVQHQYAYKERR--AKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred hccHHHHHHHHcCchHHHHHHHhh--hheeeecccCCCCCChhHHHHHHHhcCC
Confidence 777777766555533222221111 4667777777776666666777766654
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.56 E-value=3.3e-16 Score=122.81 Aligned_cols=99 Identities=16% Similarity=0.252 Sum_probs=85.8
Q ss_pred CCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcC
Q 036604 79 GLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNN 158 (257)
Q Consensus 79 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~ 158 (257)
+...|.|.+|+|.|....-|.+|++.|...|.|- |..|||.|.....|++|+++|+|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~l------------ct~cgkgfndtfdlkrh~rthtg----------- 170 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHL------------CTFCGKGFNDTFDLKRHTRTHTG----------- 170 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHH------------HhhccCcccchhhhhhhhccccC-----------
Confidence 4567999999999999999999999999999888 67789999999999999999999
Q ss_pred CCCCcccCCccccccCCchhhhhhcc-ccc----------ccc---CCCcCccccCCC
Q 036604 159 KANKVHECSICGAEFSSGQALGGHMR-RHR----------AFT---TSTTALTMGTSS 202 (257)
Q Consensus 159 ~~ekp~~C~~C~k~F~~~~~L~~H~r-~H~----------~~~---c~~c~~~f~~~~ 202 (257)
.+||+|..|+|+|.++-.|..|++ +|. +++ |..||-+-....
T Consensus 171 --vrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e 226 (267)
T KOG3576|consen 171 --VRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPE 226 (267)
T ss_pred --ccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChh
Confidence 799999999999999999999976 453 122 899987655433
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.55 E-value=8.7e-16 Score=139.76 Aligned_cols=82 Identities=20% Similarity=0.349 Sum_probs=78.1
Q ss_pred CCCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhc
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTN 157 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~ 157 (257)
+.+.+|.|+.|.|+|...+.|.+|.--|+|.+||+ |.+|.|+|+.+..|..|+|.|.|
T Consensus 890 te~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyq------------C~iCkKAFKHKHHLtEHkRLHSG---------- 947 (1007)
T KOG3623|consen 890 TEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQ------------CIICKKAFKHKHHLTEHKRLHSG---------- 947 (1007)
T ss_pred CccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcc------------cchhhHhhhhhhhhhhhhhhccC----------
Confidence 45678999999999999999999999999999999 78999999999999999999999
Q ss_pred CCCCCcccCCccccccCCchhhhhhcc
Q 036604 158 NKANKVHECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 158 ~~~ekp~~C~~C~k~F~~~~~L~~H~r 184 (257)
||||+|+.|+|.|.....+..||.
T Consensus 948 ---EKPfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 948 ---EKPFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred ---CCcchhhhhhhhcccccchHhhhc
Confidence 899999999999999999999986
No 9
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.46 E-value=1.2e-14 Score=122.65 Aligned_cols=115 Identities=16% Similarity=0.202 Sum_probs=80.8
Q ss_pred CCCCCCCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcC--CCCcccCchhhhhhcccC------------
Q 036604 59 SSSHHLDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHK--KPKVINNNIEASKKAFVL------------ 124 (257)
Q Consensus 59 ~~~~~f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~--~~kp~~C~~~~c~~~f~~------------ 124 (257)
.+-+.|.++..|++|++.|+++|...|+.||.-|.++..|-.|.+.-+ ...+|.| ..|-|.|.+
T Consensus 184 ~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC--~~C~KrFaTeklL~~Hv~rHv 261 (467)
T KOG3608|consen 184 MCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQC--AQCFKRFATEKLLKSHVVRHV 261 (467)
T ss_pred hhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHH--HHHHHHHhHHHHHHHHHHHhh
Confidence 446789999999999999999999999999999999999999987553 4568885 445444433
Q ss_pred ----chhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhccccc
Q 036604 125 ----MDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 125 ----C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
|+.|.......+.|.+|++. .|...|||+|+.|.+.|.+.+.|.+|..+|.
T Consensus 262 n~ykCplCdmtc~~~ssL~~H~r~------------rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS 316 (467)
T KOG3608|consen 262 NCYKCPLCDMTCSSASSLTTHIRY------------RHSKDKPFKCDECDTRCVRESDLAKHVQVHS 316 (467)
T ss_pred hcccccccccCCCChHHHHHHHHh------------hhccCCCccccchhhhhccHHHHHHHHHhcc
Confidence 44444444444445544442 3333566666666666666666666665553
No 10
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.31 E-value=1.2e-12 Score=110.74 Aligned_cols=137 Identities=18% Similarity=0.192 Sum_probs=108.6
Q ss_pred CCCCCCCCCchhHHHHHHHhCC------------C-cceecCC--CCcccCCccchhhhhhhcCCCCcccCchhhhhhcc
Q 036604 58 SSSSHHLDQPATTSKAAAVATG------------L-YVYQCKT--CNRCFPSFQALGGHRASHKKPKVINNNIEASKKAF 122 (257)
Q Consensus 58 ~~~~~~f~~~~~l~~H~~~h~~------------~-k~~~C~~--C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f 122 (257)
+.+...|.....+..|...|.- + ..+.|.. |-+.|..+..|.+|+|+|+++|...| ..|+.-|
T Consensus 140 edCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvAC--p~Cg~~F 217 (467)
T KOG3608|consen 140 EDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVAC--PHCGELF 217 (467)
T ss_pred hhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEec--chHHHHh
Confidence 4557779888889999888752 2 2367754 99999999999999999999999998 6777766
Q ss_pred cC--------------------chhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhh
Q 036604 123 VL--------------------MDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGH 182 (257)
Q Consensus 123 ~~--------------------C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H 182 (257)
.. |..|.|.|.+...|..|++.|- .-|+|+.|.-+....+.|.+|
T Consensus 218 ~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv---------------n~ykCplCdmtc~~~ssL~~H 282 (467)
T KOG3608|consen 218 RTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHV---------------NCYKCPLCDMTCSSASSLTTH 282 (467)
T ss_pred ccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhh---------------hcccccccccCCCChHHHHHH
Confidence 44 7778888888888888888774 578888888888888888888
Q ss_pred cc-cccccc---CCCcCccccCCCCcccccccc
Q 036604 183 MR-RHRAFT---TSTTALTMGTSSSLDRQSQQA 211 (257)
Q Consensus 183 ~r-~H~~~~---c~~c~~~f~~~~~l~~~~~~~ 211 (257)
+| .|...+ |+.|++.|...+.|.+|....
T Consensus 283 ~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~H 315 (467)
T KOG3608|consen 283 IRYRHSKDKPFKCDECDTRCVRESDLAKHVQVH 315 (467)
T ss_pred HHhhhccCCCccccchhhhhccHHHHHHHHHhc
Confidence 88 465544 888888888888776665533
No 11
>PHA02768 hypothetical protein; Provisional
Probab=99.06 E-value=5.8e-11 Score=74.52 Aligned_cols=43 Identities=21% Similarity=0.370 Sum_probs=40.2
Q ss_pred CcccCCccccccCCchhhhhhccccc-cccCCCcCccccCCCCc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHR-AFTTSTTALTMGTSSSL 204 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~-~~~c~~c~~~f~~~~~l 204 (257)
--|+|++|||.|.+.++|..||++|+ +.+|..|++.|.+.+.|
T Consensus 4 ~~y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 4 LGYECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cccCcchhCCeeccHHHHHHHHHhcCCcccCCcccceeccccee
Confidence 35999999999999999999999999 88899999999988877
No 12
>PHA00733 hypothetical protein
Probab=99.01 E-value=6.3e-11 Score=89.28 Aligned_cols=84 Identities=13% Similarity=0.050 Sum_probs=65.7
Q ss_pred CCCcceecCCCCcccCCccchhhh--hh---hcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchh
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGH--RA---SHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANL 152 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H--~~---~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~ 152 (257)
...+++.|.+|.+.|.....|..+ ++ .+.+++||. |+.|++.|.....|..|++.|
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~------------C~~Cgk~Fss~s~L~~H~r~h------- 96 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYV------------CPLCLMPFSSSVSLKQHIRYT------- 96 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCcc------------CCCCCCcCCCHHHHHHHHhcC-------
Confidence 356789999999988887777765 22 233477887 778888899999999998865
Q ss_pred hhhhcCCCCCcccCCccccccCCchhhhhhcccccc
Q 036604 153 CARTNNKANKVHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 153 ~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
+++|.|.+|++.|.....|..|++..++
T Consensus 97 --------~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 97 --------EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred --------CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 2578999999999999999999876543
No 13
>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=98.83 E-value=2.6e-09 Score=57.40 Aligned_cols=26 Identities=23% Similarity=0.545 Sum_probs=23.7
Q ss_pred hHHHHHHHhCCCcceecCCCCcccCC
Q 036604 69 TTSKAAAVATGLYVYQCKTCNRCFPS 94 (257)
Q Consensus 69 ~l~~H~~~h~~~k~~~C~~C~k~F~~ 94 (257)
+|.+|+++|++++||+|++|++.|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 48899999999999999999999964
No 14
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.83 E-value=1.9e-09 Score=98.94 Aligned_cols=93 Identities=10% Similarity=0.171 Sum_probs=74.1
Q ss_pred CcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcCC
Q 036604 80 LYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNK 159 (257)
Q Consensus 80 ~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~ 159 (257)
++.+.|+.|++.|. ...|..|+++|+ +++. |+ |++.+ .+..|..|+..|..
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~------------Cp-Cg~~~-~R~~L~~H~~thCp------------ 501 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQ------------CP-CGVVL-EKEQMVQHQASTCP------------ 501 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--CCcc------------CC-CCCCc-chhHHHhhhhccCC------------
Confidence 34578999999996 678999999975 7888 55 77544 56889999998888
Q ss_pred CCCcccCCccccccCC----------chhhhhhcccccccc---CCCcCccccCCCC
Q 036604 160 ANKVHECSICGAEFSS----------GQALGGHMRRHRAFT---TSTTALTMGTSSS 203 (257)
Q Consensus 160 ~ekp~~C~~C~k~F~~----------~~~L~~H~r~H~~~~---c~~c~~~f~~~~~ 203 (257)
+|++.|..|++.|.. ...|..|..++ |.+ |..|++.+..+..
T Consensus 502 -~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrlrdm 556 (567)
T PLN03086 502 -LRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVMLKEM 556 (567)
T ss_pred -CCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeeehhH
Confidence 799999999999952 34799999987 444 9999998876554
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.79 E-value=1.4e-09 Score=68.28 Aligned_cols=44 Identities=11% Similarity=0.255 Sum_probs=36.6
Q ss_pred ceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhH
Q 036604 82 VYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTL 139 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~ 139 (257)
-|+|+.|||.|...++|..|+++|+ ++|+ |..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~k------------c~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLK------------LSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--Cccc------------CCcccceecccceeE
Confidence 4899999999999999999999999 6777 666777777666554
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.78 E-value=5.4e-09 Score=95.95 Aligned_cols=97 Identities=14% Similarity=0.191 Sum_probs=77.9
Q ss_pred CCCCCCCCCCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhcc--
Q 036604 56 SSSSSSHHLDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFS-- 133 (257)
Q Consensus 56 ~~~~~~~~f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~-- 133 (257)
.+..|++.|. ...|..|+.+|+ +++.|+ ||+.| .+..|..|+++|.+.+++. |..|++.|.
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~------------C~fC~~~v~~g 517 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLIT------------CRFCGDMVQAG 517 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCcee------------CCCCCCccccC
Confidence 3456777785 578999999985 899999 99865 6789999999999999999 556776663
Q ss_pred --------CcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcc
Q 036604 134 --------NMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 134 --------~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r 184 (257)
....|..|...+ | .+++.|..||+.|..+ .|..|+.
T Consensus 518 ~~~~d~~d~~s~Lt~HE~~C-G-------------~rt~~C~~Cgk~Vrlr-dm~~H~~ 561 (567)
T PLN03086 518 GSAMDVRDRLRGMSEHESIC-G-------------SRTAPCDSCGRSVMLK-EMDIHQI 561 (567)
T ss_pred ccccchhhhhhhHHHHHHhc-C-------------CcceEccccCCeeeeh-hHHHHHH
Confidence 234788888875 4 6999999999999876 5677764
No 17
>PHA00733 hypothetical protein
Probab=98.66 E-value=1.1e-08 Score=77.08 Aligned_cols=69 Identities=20% Similarity=0.195 Sum_probs=55.7
Q ss_pred CCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHH
Q 036604 64 LDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQM 143 (257)
Q Consensus 64 f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~ 143 (257)
+.....|.+|+.++ +++||.|+.|++.|.....|..|++.| +.+|. |..|++.|.....|..|+.
T Consensus 56 l~~~~~l~~~~~~~-~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~------------C~~CgK~F~~~~sL~~H~~ 120 (128)
T PHA00733 56 LDESSYLYKLLTSK-AVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKV------------CPVCGKEFRNTDSTLDHVC 120 (128)
T ss_pred hcchHHHHhhcccC-CCCCccCCCCCCcCCCHHHHHHHHhcC--CcCcc------------CCCCCCccCCHHHHHHHHH
Confidence 33445566775554 488999999999999999999999987 34566 8899999999999999998
Q ss_pred hhcc
Q 036604 144 ANNR 147 (257)
Q Consensus 144 ~h~~ 147 (257)
...+
T Consensus 121 ~~h~ 124 (128)
T PHA00733 121 KKHN 124 (128)
T ss_pred HhcC
Confidence 6543
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=98.60 E-value=2.2e-08 Score=53.72 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=23.5
Q ss_pred hhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCC
Q 036604 137 TTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSS 175 (257)
Q Consensus 137 ~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~ 175 (257)
+|.+|+++|++ +|||+|++|++.|.+
T Consensus 1 ~l~~H~~~H~~-------------~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG-------------EKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSS-------------SSSEEESSSSEEESS
T ss_pred CHHHHhhhcCC-------------CCCCCCCCCcCeeCc
Confidence 47899999999 899999999999974
No 19
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.55 E-value=2.5e-08 Score=86.66 Aligned_cols=152 Identities=17% Similarity=0.188 Sum_probs=101.2
Q ss_pred CCCCCchhHHHHHHHhCCCcceecCCCCcccCCccchhhhhhhcCCC--------CcccCc-------------hhhhhh
Q 036604 62 HHLDQPATTSKAAAVATGLYVYQCKTCNRCFPSFQALGGHRASHKKP--------KVINNN-------------IEASKK 120 (257)
Q Consensus 62 ~~f~~~~~l~~H~~~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~--------kp~~C~-------------~~~c~~ 120 (257)
..|.+...|.+|.-...-.--|+|++|+|+|....+|..|+|.|... .|-+-. ...-..
T Consensus 275 ~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~ 354 (500)
T KOG3993|consen 275 EKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSS 354 (500)
T ss_pred HhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccC
Confidence 34777888999966555556799999999999999999999999532 110000 000111
Q ss_pred cccCchhhhhhccCcchhHHHHHhhccccchhh------------------h---h----hcCCC--------CCcccCC
Q 036604 121 AFVLMDEEDDRFSNMSTTLSLQMANNRDAANLC------------------A---R----TNNKA--------NKVHECS 167 (257)
Q Consensus 121 ~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~------------------~---~----~~~~~--------ekp~~C~ 167 (257)
..+.|.+|+|.|.+...|+.|+.+|.......- . + ..+.. ..-..|+
T Consensus 355 gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g~~vl~~a~sael~~pp 434 (500)
T KOG3993|consen 355 GIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHGDEVLYVAGSAELELPP 434 (500)
T ss_pred ceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccccceeeeeccccccCCC
Confidence 123399999999999999999988865221100 0 0 01111 1234577
Q ss_pred ccccccCCchhhhhhccccc---cccCCCcCccccCCCCcccccccccC
Q 036604 168 ICGAEFSSGQALGGHMRRHR---AFTTSTTALTMGTSSSLDRQSQQAKK 213 (257)
Q Consensus 168 ~C~k~F~~~~~L~~H~r~H~---~~~c~~c~~~f~~~~~l~~~~~~~~~ 213 (257)
.|+-.|..+..-..|.|.-. +..|..|..+|.....|.+|....+.
T Consensus 435 ~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hp 483 (500)
T KOG3993|consen 435 YDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHP 483 (500)
T ss_pred CCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcCh
Confidence 88888888777777766433 44488999999999998776665543
No 20
>PHA00616 hypothetical protein
Probab=98.32 E-value=1.1e-07 Score=56.81 Aligned_cols=32 Identities=25% Similarity=0.395 Sum_probs=30.5
Q ss_pred ceecCCCCcccCCccchhhhhhhcCCCCcccC
Q 036604 82 VYQCKTCNRCFPSFQALGGHRASHKKPKVINN 113 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C 113 (257)
||+|+.||+.|..++.|..|++.|++++++.|
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~ 32 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTL 32 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccce
Confidence 68999999999999999999999999999985
No 21
>PHA00732 hypothetical protein
Probab=98.30 E-value=3.6e-07 Score=62.71 Aligned_cols=38 Identities=24% Similarity=0.350 Sum_probs=35.4
Q ss_pred cccCCccccccCCchhhhhhcc-ccccccCCCcCccccC
Q 036604 163 VHECSICGAEFSSGQALGGHMR-RHRAFTTSTTALTMGT 200 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r-~H~~~~c~~c~~~f~~ 200 (257)
||.|.+|++.|.+...|+.|++ .|.+..|+.|+++|..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~~ 39 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYRR 39 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeCC
Confidence 6899999999999999999998 5888889999999984
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.29 E-value=6.3e-08 Score=84.25 Aligned_cols=95 Identities=21% Similarity=0.311 Sum_probs=71.4
Q ss_pred ceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchh--------h
Q 036604 82 VYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANL--------C 153 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~--------~ 153 (257)
-|.|..|...|.....|.+|.=.-.----|+ |++|+|.|....+|..|.|.|.-..... .
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RIV~vEYr------------CPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~ 334 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRIVHVEYR------------CPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQ 334 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCeeEEeeec------------CCcccccccCchhhhhhhcccCCchhhhhcCCCChhh
Confidence 4899999999999999999963322223355 8999999999999999999997522111 0
Q ss_pred h-------hhc-----CCCCCcccCCccccccCCchhhhhhcccccc
Q 036604 154 A-------RTN-----NKANKVHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 154 ~-------~~~-----~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
. +.. ...+-.|.|.+|+|.|++...|+.|+.+|..
T Consensus 335 ~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~ 381 (500)
T KOG3993|consen 335 AVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQR 381 (500)
T ss_pred hhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhc
Confidence 0 000 0123479999999999999999999988863
No 23
>PHA00616 hypothetical protein
Probab=98.20 E-value=3e-07 Score=55.02 Aligned_cols=33 Identities=18% Similarity=0.299 Sum_probs=29.7
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcC
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTA 195 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~ 195 (257)
||+|..||+.|...+.|.+|++.|++++...|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 799999999999999999999999998755554
No 24
>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=98.03 E-value=9.5e-07 Score=45.84 Aligned_cols=23 Identities=57% Similarity=1.022 Sum_probs=21.7
Q ss_pred ccCCccccccCCchhhhhhcccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRH 186 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H 186 (257)
|+|++|++.|.....|..|+++|
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 78999999999999999999875
No 25
>PHA00732 hypothetical protein
Probab=97.98 E-value=2.6e-06 Score=58.49 Aligned_cols=47 Identities=13% Similarity=0.207 Sum_probs=34.4
Q ss_pred ceecCCCCcccCCccchhhhhhh-cCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhc
Q 036604 82 VYQCKTCNRCFPSFQALGGHRAS-HKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANN 146 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~-H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~ 146 (257)
||.|..|++.|.....|..|++. |.+ +. |+.|++.|. .+..|.+...
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~------------C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TK------------CPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---Cc------------cCCCCCEeC---ChhhhhcccC
Confidence 57888898888888888888874 653 33 677777776 4677775544
No 26
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.92 E-value=3.4e-06 Score=71.15 Aligned_cols=24 Identities=21% Similarity=0.515 Sum_probs=21.9
Q ss_pred CCcccCCccccccCCchhhhhhcc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r 184 (257)
.|||+|++|+|.|+....|+.|..
T Consensus 396 ~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 396 DKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CCceeccccchhhccCccceeccc
Confidence 599999999999999999998854
No 27
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.86 E-value=4.9e-06 Score=43.08 Aligned_cols=23 Identities=35% Similarity=0.752 Sum_probs=20.1
Q ss_pred eecCCCCcccCCccchhhhhhhc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
|+|+.|++.|.....|..|++.|
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 68999999999999999998865
No 28
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.71 E-value=1.2e-05 Score=43.41 Aligned_cols=26 Identities=46% Similarity=0.698 Sum_probs=24.2
Q ss_pred cccCCccccccCCchhhhhhcccccc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
||+|.+|++.|.....|..|++.|..
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 69999999999999999999998864
No 29
>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=1.6e-05 Score=41.22 Aligned_cols=24 Identities=46% Similarity=0.928 Sum_probs=20.2
Q ss_pred ccCCccccccCCchhhhhhccccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
|.|++|++.|.....|..|+++|.
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 789999999999999999998863
No 30
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.56 E-value=2.3e-05 Score=56.03 Aligned_cols=72 Identities=24% Similarity=0.366 Sum_probs=22.1
Q ss_pred ecCCCCcccCCccchhhhhhhcCCC-CcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCC
Q 036604 84 QCKTCNRCFPSFQALGGHRASHKKP-KVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANK 162 (257)
Q Consensus 84 ~C~~C~k~F~~~~~L~~H~~~H~~~-kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ek 162 (257)
+|..|+..|.....|..|+....+. .+- ...+.....+..+.+.-. ..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~-----------------~~~l~~~~~~~~~~~~~~--------------~~ 49 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPD-----------------QKYLVDPNRLLNYLRKKV--------------KE 49 (100)
T ss_dssp -------------------------------------------------------------------------------S
T ss_pred Ccccccccccccccccccccccccccccc-----------------cccccccccccccccccc--------------CC
Confidence 5899999999999999998653332 110 011112222222222111 24
Q ss_pred cccCCccccccCCchhhhhhcccc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRH 186 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H 186 (257)
.+.|.+|++.|.....|..||+.+
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 799999999999999999999965
No 31
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.50 E-value=4.5e-05 Score=41.05 Aligned_cols=25 Identities=36% Similarity=0.812 Sum_probs=23.0
Q ss_pred ceecCCCCcccCCccchhhhhhhcC
Q 036604 82 VYQCKTCNRCFPSFQALGGHRASHK 106 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~H~ 106 (257)
||+|..|++.|.....|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6899999999999999999999885
No 32
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.49 E-value=5.9e-05 Score=47.92 Aligned_cols=24 Identities=25% Similarity=0.526 Sum_probs=14.5
Q ss_pred CcccCCccccccCCchhhhhhccccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
+.+.|++|...+. .+|.+|++.+.
T Consensus 30 ~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 30 KNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CCccCCCchhhhh--hHHHHHHHHhc
Confidence 4567777766544 36667766543
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.28 E-value=9.8e-05 Score=38.16 Aligned_cols=23 Identities=35% Similarity=0.742 Sum_probs=18.2
Q ss_pred eecCCCCcccCCccchhhhhhhc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
|.|++|++.|.....|..|++.|
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 67999999999999999998875
No 34
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.19 E-value=0.00013 Score=38.26 Aligned_cols=25 Identities=44% Similarity=0.747 Sum_probs=22.7
Q ss_pred ccCCccccccCCchhhhhhcccccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
|+|..|++.|.....|..|+++|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~~ 25 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHXX 25 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhcc
Confidence 6899999999999999999998753
No 35
>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=97.03 E-value=0.00024 Score=43.54 Aligned_cols=30 Identities=23% Similarity=0.460 Sum_probs=22.6
Q ss_pred CCcccCCccccccCCchhhhhhcccccccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFT 190 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~ 190 (257)
+.|..|++|+..+.+..+|++|+.++++.+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 799999999999999999999998877654
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.81 E-value=0.00052 Score=35.88 Aligned_cols=24 Identities=38% Similarity=0.766 Sum_probs=20.4
Q ss_pred eecCCCCcccCCccchhhhhhhcC
Q 036604 83 YQCKTCNRCFPSFQALGGHRASHK 106 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H~ 106 (257)
|+|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 578899999999999999988764
No 37
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.70 E-value=0.00092 Score=59.99 Aligned_cols=58 Identities=16% Similarity=0.269 Sum_probs=43.5
Q ss_pred CCCCCCCCCCchhHHHHHH--HhCCC--cceecC--CCCcccCCccchhhhhhhcCCCCcccCc
Q 036604 57 SSSSSHHLDQPATTSKAAA--VATGL--YVYQCK--TCNRCFPSFQALGGHRASHKKPKVINNN 114 (257)
Q Consensus 57 ~~~~~~~f~~~~~l~~H~~--~h~~~--k~~~C~--~C~k~F~~~~~L~~H~~~H~~~kp~~C~ 114 (257)
...+...|.....|..|.+ .|+++ +++.|+ .|++.|.....+..|...|.+.+++.+.
T Consensus 292 ~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 292 SKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred CccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 3344556777777888887 78888 888888 6888888888888888888877766653
No 38
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.68 E-value=0.00092 Score=41.04 Aligned_cols=33 Identities=15% Similarity=0.152 Sum_probs=23.6
Q ss_pred CCCcceecCCCCcccCCccchhhhhhhcCCCCc
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGHRASHKKPKV 110 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp 110 (257)
..+.|..|++|+..+....+|.+|+.++.+.||
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 456799999999999999999999988777665
No 39
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.54 E-value=0.0007 Score=35.53 Aligned_cols=23 Identities=39% Similarity=0.771 Sum_probs=21.2
Q ss_pred ccCCccccccCCchhhhhhcccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRH 186 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H 186 (257)
|.|.+|++.|.....|..|++.+
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 68999999999999999999865
No 40
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.24 E-value=0.0017 Score=33.95 Aligned_cols=23 Identities=35% Similarity=0.701 Sum_probs=19.9
Q ss_pred eecCCCCcccCCccchhhhhhhc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
|.|.+|++.|.....|..|++.+
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 67999999999999999998865
No 41
>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=96.05 E-value=0.0029 Score=33.87 Aligned_cols=23 Identities=35% Similarity=0.628 Sum_probs=21.1
Q ss_pred ccCCccccccCCchhhhhhcccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRH 186 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H 186 (257)
|-|..|++.|.....|..|++..
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 78999999999999999999863
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.75 E-value=0.0024 Score=33.12 Aligned_cols=23 Identities=30% Similarity=0.611 Sum_probs=18.7
Q ss_pred ccCCccccccCCchhhhhhccccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
|+|+.|+.... ...|.+|+++|.
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 78999999888 889999999865
No 43
>PRK04860 hypothetical protein; Provisional
Probab=95.56 E-value=0.0053 Score=48.01 Aligned_cols=29 Identities=21% Similarity=0.466 Sum_probs=26.1
Q ss_pred cceecCCCCcccCCccchhhhhhhcCCCCcccC
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRASHKKPKVINN 113 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C 113 (257)
-+|.|. |++ ....+.+|.++|+++++|.|
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC 146 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRC 146 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEEC
Confidence 479998 998 77889999999999999995
No 44
>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=95.38 E-value=0.0045 Score=33.11 Aligned_cols=23 Identities=30% Similarity=0.677 Sum_probs=20.2
Q ss_pred eecCCCCcccCCccchhhhhhhc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
|-|..|++.|.+...|..|+++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCcccCCCCcCCHHHHHHHHccC
Confidence 67999999999999999998753
No 45
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=94.96 E-value=0.014 Score=49.83 Aligned_cols=50 Identities=16% Similarity=0.360 Sum_probs=39.3
Q ss_pred CCcccCCc--cccccCCchhhhhhcc-cc------c---------------cccCCCcCccccCCCCccccccc
Q 036604 161 NKVHECSI--CGAEFSSGQALGGHMR-RH------R---------------AFTTSTTALTMGTSSSLDRQSQQ 210 (257)
Q Consensus 161 ekp~~C~~--C~k~F~~~~~L~~H~r-~H------~---------------~~~c~~c~~~f~~~~~l~~~~~~ 210 (257)
+|||+|++ |.|.|+..-.|+.||. -| . ..+|++|+|.+.....|+-|+.+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccc
Confidence 59999988 9999999999999985 23 1 12299999999988887655543
No 46
>PRK04860 hypothetical protein; Provisional
Probab=94.90 E-value=0.011 Score=46.30 Aligned_cols=36 Identities=14% Similarity=0.167 Sum_probs=30.0
Q ss_pred chhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCch
Q 036604 125 MDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQ 177 (257)
Q Consensus 125 C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~ 177 (257)
|. |++ ....+.+|.++|++ +++|.|..|++.|....
T Consensus 122 C~-C~~---~~~~~rrH~ri~~g-------------~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 122 CK-CQE---HQLTVRRHNRVVRG-------------EAVYRCRRCGETLVFKG 157 (160)
T ss_pred cC-CCC---eeCHHHHHHHHhcC-------------CccEECCCCCceeEEec
Confidence 54 665 66778999999999 79999999999987654
No 47
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=94.73 E-value=0.011 Score=37.44 Aligned_cols=36 Identities=25% Similarity=0.463 Sum_probs=26.9
Q ss_pred cccCCccccccCCchhhhhhcc-cccccc----CCCcCcccc
Q 036604 163 VHECSICGAEFSSGQALGGHMR-RHRAFT----TSTTALTMG 199 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r-~H~~~~----c~~c~~~f~ 199 (257)
.|.|++|++.|. ...|..|.. .|..+. |++|...+.
T Consensus 2 ~f~CP~C~~~~~-~~~L~~H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFS-ESSLVEHCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccC-HHHHHHHHHhHCcCCCCCccCCCchhhhh
Confidence 489999999554 578999966 455433 999987544
No 48
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=94.49 E-value=0.015 Score=58.19 Aligned_cols=80 Identities=18% Similarity=0.238 Sum_probs=52.0
Q ss_pred HhCCCcceecCCCCcccCCccchhhhhhhcCCC-CcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhh
Q 036604 76 VATGLYVYQCKTCNRCFPSFQALGGHRASHKKP-KVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCA 154 (257)
Q Consensus 76 ~h~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~-kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~ 154 (257)
+|+-.+.|+|+.|+..|+....|..|+|.-+.+ ..-.| .. ...|.+.-.+
T Consensus 459 L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c-----~~-----------------gq~~~~~arg------- 509 (1406)
T KOG1146|consen 459 LHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYC-----KA-----------------GQNHPRLARG------- 509 (1406)
T ss_pred eecccccccCCccchhhhhHHHhhhcccccccccchhHh-----Hh-----------------cccccccccc-------
Confidence 345568899999999999999999999973222 11111 00 0111111111
Q ss_pred hhcCCCCCcccCCccccccCCchhhhhhcc
Q 036604 155 RTNNKANKVHECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 155 ~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r 184 (257)
.....+.+||.|..|..+|..+.+|.+||.
T Consensus 510 ~~~~~~~~p~~C~~C~~stttng~Lsihlq 539 (1406)
T KOG1146|consen 510 EVYRCPGKPYPCRACNYSTTTNGNLSIHLQ 539 (1406)
T ss_pred ccccCCCCcccceeeeeeeecchHHHHHHH
Confidence 011112489999999999999999999985
No 49
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.27 E-value=0.018 Score=30.26 Aligned_cols=21 Identities=33% Similarity=0.716 Sum_probs=17.5
Q ss_pred ccCCccccccCCchhhhhhccc
Q 036604 164 HECSICGAEFSSGQALGGHMRR 185 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~ 185 (257)
..|++||+.| ....|.+|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4799999999 57789999764
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.26 E-value=0.016 Score=29.94 Aligned_cols=22 Identities=27% Similarity=0.553 Sum_probs=16.5
Q ss_pred eecCCCCcccCCccchhhhhhhc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
|+|+.|..... ...|.+|++.|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 68999998887 78888888875
No 51
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.88 E-value=0.045 Score=48.97 Aligned_cols=117 Identities=17% Similarity=0.164 Sum_probs=78.8
Q ss_pred cceecCCCCcccCCccchhhhhh--hcCCC--CcccCchhhhhhcccCch--hhhhhccCcchhHHHHHhhccccchhhh
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRA--SHKKP--KVINNNIEASKKAFVLMD--EEDDRFSNMSTTLSLQMANNRDAANLCA 154 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~--~H~~~--kp~~C~~~~c~~~f~~C~--~C~k~f~~~~~l~~H~~~h~~~~~~~~~ 154 (257)
.++.|..|...|.....|..|.+ .|+++ +++.| + .|++.|.+...+..|...|.+..+....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~------------p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSC------------PYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceee------------eccCCCccccccccccCCcccccCCCccccc
Confidence 47999999999999999999999 89999 99984 4 6889999999999999999885532221
Q ss_pred hh----------------------cCCCCCcccCC--ccccccCCchhhhhhcccccccc-----CCCcCccccCCCCcc
Q 036604 155 RT----------------------NNKANKVHECS--ICGAEFSSGQALGGHMRRHRAFT-----TSTTALTMGTSSSLD 205 (257)
Q Consensus 155 ~~----------------------~~~~ekp~~C~--~C~k~F~~~~~L~~H~r~H~~~~-----c~~c~~~f~~~~~l~ 205 (257)
-. .....+.+.|. .|-+.+.....+..|...|.... +..|.+.|.....+.
T Consensus 356 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 435 (467)
T COG5048 356 LLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLI 435 (467)
T ss_pred cccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccc
Confidence 00 01112333332 25566666666666666665422 566666666555553
Q ss_pred cccc
Q 036604 206 RQSQ 209 (257)
Q Consensus 206 ~~~~ 209 (257)
.+..
T Consensus 436 ~~~~ 439 (467)
T COG5048 436 PHKK 439 (467)
T ss_pred cccc
Confidence 3333
No 52
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=93.38 E-value=0.057 Score=44.31 Aligned_cols=46 Identities=26% Similarity=0.390 Sum_probs=37.6
Q ss_pred chhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhh-ccccc
Q 036604 125 MDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGH-MRRHR 187 (257)
Q Consensus 125 C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H-~r~H~ 187 (257)
|=+|++.|.....|..|++ .|.|+|.+|.|..-+.-.|..| |.+|.
T Consensus 13 cwycnrefddekiliqhqk-----------------akhfkchichkkl~sgpglsihcmqvhk 59 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK-----------------AKHFKCHICHKKLFSGPGLSIHCMQVHK 59 (341)
T ss_pred eeecccccchhhhhhhhhh-----------------hccceeeeehhhhccCCCceeehhhhhh
Confidence 6678888888888888887 4899999999887777778777 56664
No 53
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.29 E-value=0.039 Score=28.95 Aligned_cols=21 Identities=29% Similarity=0.532 Sum_probs=16.6
Q ss_pred eecCCCCcccCCccchhhhhhh
Q 036604 83 YQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
..|+.||+.| ....|.+|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 66778888763
No 54
>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=93.08 E-value=0.043 Score=31.01 Aligned_cols=23 Identities=17% Similarity=0.574 Sum_probs=20.7
Q ss_pred cccCCccccccCCchhhhhhccc
Q 036604 163 VHECSICGAEFSSGQALGGHMRR 185 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~ 185 (257)
+|.|.+|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 68899999999999999999864
No 55
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=92.83 E-value=0.055 Score=38.21 Aligned_cols=24 Identities=38% Similarity=0.695 Sum_probs=14.7
Q ss_pred ceecCCCCcccCCccchhhhhhhc
Q 036604 82 VYQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
.+.|..|++.|.....|..|++.+
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 466666666666666666666653
No 56
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=91.59 E-value=0.094 Score=29.54 Aligned_cols=23 Identities=26% Similarity=0.501 Sum_probs=20.1
Q ss_pred ceecCCCCcccCCccchhhhhhh
Q 036604 82 VYQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
+|.|++|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999998999888864
No 57
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.41 E-value=0.24 Score=47.06 Aligned_cols=22 Identities=9% Similarity=-0.007 Sum_probs=17.5
Q ss_pred chhhhhhccCcchhHHHHHhhc
Q 036604 125 MDEEDDRFSNMSTTLSLQMANN 146 (257)
Q Consensus 125 C~~C~k~f~~~~~l~~H~~~h~ 146 (257)
|..|...|.....|.+|++.+.
T Consensus 185 C~~C~~~fld~~el~rH~~~~h 206 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLRFDH 206 (669)
T ss_pred chhhhhhhccHHHHHHhhccce
Confidence 7788888888888888887543
No 58
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.75 E-value=0.19 Score=43.62 Aligned_cols=32 Identities=19% Similarity=0.310 Sum_probs=18.5
Q ss_pred cCCccccccCCchhhhhhccccccccCCCcCcc
Q 036604 165 ECSICGAEFSSGQALGGHMRRHRAFTTSTTALT 197 (257)
Q Consensus 165 ~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~ 197 (257)
.|..|.+.|-.-..|.+|+|.-+ |+|.+|++.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~H-E~ChICD~v 253 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRH-EACHICDMV 253 (493)
T ss_pred hhhhccceecChHHHHHHHHhhh-hhhhhhhcc
Confidence 36666666666666666666322 345555544
No 59
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=84.82 E-value=0.81 Score=42.49 Aligned_cols=50 Identities=16% Similarity=0.158 Sum_probs=31.7
Q ss_pred CcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcccccccc----CCCcCccccCCC
Q 036604 134 NMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRHRAFT----TSTTALTMGTSS 202 (257)
Q Consensus 134 ~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~----c~~c~~~f~~~~ 202 (257)
....+.+|...|.. ...=+|..|||.|.++-. .|..|. |+-|-.+|-.+.
T Consensus 237 rE~~fvrHHWVHrr-------------RqeGkC~~CgKgFQQKf~------FhsKEivAisCSWCKqayH~Kv 290 (1004)
T KOG0782|consen 237 RESGFVRHHWVHRR-------------RQEGKCNTCGKGFQQKFF------FHSKEIVAISCSWCKQAYHLKV 290 (1004)
T ss_pred ccccchHHhHhhHh-------------hhccccchhhhhhhhhee------eccccEEEEEehHHHHHhhcch
Confidence 33466677666654 344679999999987643 344433 777777665554
No 60
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=83.78 E-value=0.37 Score=46.08 Aligned_cols=56 Identities=20% Similarity=0.433 Sum_probs=38.0
Q ss_pred ceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcCCCC
Q 036604 82 VYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKAN 161 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~e 161 (257)
..+|+.|...+...- ...|+..| |..|-+.+.. .
T Consensus 643 ~LkCs~Cn~R~Kd~v------------------I~kC~H~F--C~~Cvq~r~e--------------------------t 676 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAV------------------ITKCGHVF--CEECVQTRYE--------------------------T 676 (698)
T ss_pred ceeCCCccCchhhHH------------------HHhcchHH--HHHHHHHHHH--------------------------H
Confidence 357999986554321 24566667 8887654421 3
Q ss_pred CcccCCccccccCCchhhhhhc
Q 036604 162 KVHECSICGAEFSSGQALGGHM 183 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~ 183 (257)
|.-+||.|+.+|....-+..|+
T Consensus 677 RqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred hcCCCCCCCCCCCcccccccCC
Confidence 6778999999999887766663
No 61
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=83.00 E-value=0.63 Score=38.32 Aligned_cols=25 Identities=16% Similarity=0.289 Sum_probs=19.2
Q ss_pred CcceecCCCCcccCCccchhhhhhh
Q 036604 80 LYVYQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 80 ~k~~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
++...|++|++.|....-+....+.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 3568999999999988766665543
No 62
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.91 E-value=1.5 Score=32.03 Aligned_cols=94 Identities=13% Similarity=0.089 Sum_probs=57.7
Q ss_pred cceecCCCCcccCCccchhhhhhhcCCCCcccCchhhh-hhc--ccCchhhhhhccCcchhHHHHHhhccccchhhhhhc
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEAS-KKA--FVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTN 157 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c-~~~--f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~ 157 (257)
-|-+|++||-......+|.+-..-=..-++|. +.- .+. -..|--|.+.|....... .++
T Consensus 14 LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~---ev~~~~~~~~~~C~~C~~~f~~~~~~~------~~~--------- 75 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARSYHHLFPLKAFQ---EIPLEEYNGSRFCFGCQGPFPKPPVSP------FDE--------- 75 (112)
T ss_pred CCCcCCcCCCEEeccchHHHhhhccCCCcccc---cccccccCCCCcccCcCCCCCCccccc------ccc---------
Confidence 47789999999988888887422112333342 110 001 112667777776432111 000
Q ss_pred CCCCCcccCCccccccCCchhhhhhccccccccCCCcC
Q 036604 158 NKANKVHECSICGAEFSSGQALGGHMRRHRAFTTSTTA 195 (257)
Q Consensus 158 ~~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~ 195 (257)
-.....|+|+.|.+.|-..-+.-.|...|. |+.|.
T Consensus 76 ~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~---CPGC~ 110 (112)
T TIGR00622 76 LKDSHRYVCAVCKNVFCVDCDVFVHESLHC---CPGCI 110 (112)
T ss_pred cccccceeCCCCCCccccccchhhhhhccC---CcCCC
Confidence 001357999999999999999999998887 66653
No 63
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=82.47 E-value=0.6 Score=38.44 Aligned_cols=42 Identities=19% Similarity=0.427 Sum_probs=30.6
Q ss_pred CCcccCCccccccCCchhhhhhccc---cc-------ccc--------CCCcCccccCCC
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRR---HR-------AFT--------TSTTALTMGTSS 202 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~---H~-------~~~--------c~~c~~~f~~~~ 202 (257)
+|.+.|++|++.|....-+....|+ .+ +.. |+.|+-+|....
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~~ 62 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEED 62 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCcccccc
Confidence 4889999999999988666655543 11 111 999999987654
No 64
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=82.27 E-value=0.46 Score=29.81 Aligned_cols=27 Identities=19% Similarity=0.320 Sum_probs=23.6
Q ss_pred CCCcceecCCCCcccCCccchhhhhhh
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
-||.-+.|+-|+..|.......+|...
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 577789999999999999999999864
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=81.26 E-value=0.62 Score=33.91 Aligned_cols=16 Identities=31% Similarity=0.719 Sum_probs=13.8
Q ss_pred CCcccCCccccccCCc
Q 036604 161 NKVHECSICGAEFSSG 176 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~ 176 (257)
..|..|+.||..|.-.
T Consensus 24 k~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCccCCCCCCccCcc
Confidence 3789999999999866
No 66
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=80.80 E-value=0.73 Score=28.40 Aligned_cols=25 Identities=32% Similarity=0.744 Sum_probs=20.1
Q ss_pred cccCCccccccCCc-----hhhhhhcc-ccc
Q 036604 163 VHECSICGAEFSSG-----QALGGHMR-RHR 187 (257)
Q Consensus 163 p~~C~~C~k~F~~~-----~~L~~H~r-~H~ 187 (257)
--.|..|++.+... ++|.+|++ +|.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 46799999999765 58999988 564
No 67
>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=80.55 E-value=1.2 Score=24.83 Aligned_cols=24 Identities=13% Similarity=0.459 Sum_probs=15.9
Q ss_pred ccCCccccccCCchhhhhhccccccccCCCcCc
Q 036604 164 HECSICGAEFSSGQALGGHMRRHRAFTTSTTAL 196 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~ 196 (257)
|+|.+||..+.-.. ...+|++|+.
T Consensus 2 ~~C~~CGy~y~~~~---------~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE---------APWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCc---------CCCcCcCCCC
Confidence 67888887765432 4556888864
No 68
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=80.05 E-value=1.2 Score=37.18 Aligned_cols=49 Identities=12% Similarity=0.200 Sum_probs=35.8
Q ss_pred ccCchhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCccccccCCchhhhhhcccc
Q 036604 122 FVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSICGAEFSSGQALGGHMRRH 186 (257)
Q Consensus 122 f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~C~k~F~~~~~L~~H~r~H 186 (257)
|++|..||..-.. ..+.+|+-..++ .-|.|-.|++.|-+ -.++.|...-
T Consensus 3 ~FtCnvCgEsvKK-p~vekH~srCrn--------------~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 3 FFTCNVCGESVKK-PQVEKHMSRCRN--------------AYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred EEehhhhhhhccc-cchHHHHHhccC--------------CeeEEeeccccccc-chhhhhhhhc
Confidence 4558888876653 445668876665 78999999999998 5677886643
No 69
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.07 E-value=0.79 Score=36.97 Aligned_cols=87 Identities=13% Similarity=0.230 Sum_probs=60.2
Q ss_pred cceecCC--CCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcC
Q 036604 81 YVYQCKT--CNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNN 158 (257)
Q Consensus 81 k~~~C~~--C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~ 158 (257)
..|.|++ |-+.|........|..+-.+.. |..|.+.|.+...|..|+..-+... -+....
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~s---------------Cs~C~r~~Pt~hLLd~HI~E~HDs~---Fqa~ve 139 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGNS---------------CSFCKRAFPTGHLLDAHILEWHDSL---FQALVE 139 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccch---------------hHHHHHhCCchhhhhHHHHHHHHHH---HHHHHH
Confidence 4578887 7888988888888875432221 8999999999999999986433200 000111
Q ss_pred CCCCcccCC--ccccccCCchhhhhhccc
Q 036604 159 KANKVHECS--ICGAEFSSGQALGGHMRR 185 (257)
Q Consensus 159 ~~ekp~~C~--~C~k~F~~~~~L~~H~r~ 185 (257)
.|.-.|+|- -|+..|.+...-+.||-+
T Consensus 140 RG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 140 RGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred cCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 124579995 499999999998999754
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=78.88 E-value=0.64 Score=29.17 Aligned_cols=28 Identities=18% Similarity=0.452 Sum_probs=23.9
Q ss_pred CCCcccCCccccccCCchhhhhhccccc
Q 036604 160 ANKVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 160 ~ekp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
+|--++|+.||..|.....+.+|...-+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 4778999999999999999999976433
No 71
>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=78.38 E-value=0.97 Score=26.96 Aligned_cols=24 Identities=25% Similarity=0.588 Sum_probs=16.3
Q ss_pred CCcccCCccccccCCc----hhhhhhcc
Q 036604 161 NKVHECSICGAEFSSG----QALGGHMR 184 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~----~~L~~H~r 184 (257)
..-.+|..|++.+... +.|.+|++
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 4678999999999874 68999983
No 72
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=76.92 E-value=1.5 Score=38.20 Aligned_cols=23 Identities=22% Similarity=0.457 Sum_probs=21.3
Q ss_pred ceecCCCCcccCCccchhhhhhh
Q 036604 82 VYQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
.+.|-.|.|.|+.+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 48999999999999999999985
No 73
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.96 E-value=1.1 Score=35.34 Aligned_cols=54 Identities=13% Similarity=0.293 Sum_probs=34.3
Q ss_pred CCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcC
Q 036604 79 GLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNN 158 (257)
Q Consensus 79 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~ 158 (257)
.+..|+|++|--.|..+.. +. ..||..| |..|-|...
T Consensus 128 ~~~~~~CPiCl~~~sek~~-------------vs---TkCGHvF--C~~Cik~al------------------------- 164 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVP-------------VS---TKCGHVF--CSQCIKDAL------------------------- 164 (187)
T ss_pred cccccCCCceecchhhccc-------------cc---cccchhH--HHHHHHHHH-------------------------
Confidence 3445889998776655432 22 4567777 777765432
Q ss_pred CCCCcccCCccccccCCch
Q 036604 159 KANKVHECSICGAEFSSGQ 177 (257)
Q Consensus 159 ~~ekp~~C~~C~k~F~~~~ 177 (257)
.+..+|+.|+|....+.
T Consensus 165 --k~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 165 --KNTNKCPTCRKKITHKQ 181 (187)
T ss_pred --HhCCCCCCcccccchhh
Confidence 36788999998655443
No 74
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=75.28 E-value=1.3 Score=25.42 Aligned_cols=34 Identities=12% Similarity=0.125 Sum_probs=22.0
Q ss_pred ccCCccccccCCchhhhhhccccccccCCCcCcccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMG 199 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~ 199 (257)
++|+.|+..|.-......-.. ...+|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~--~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANG--GKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCC--CEEECCCCCCEEE
Confidence 679999998887665432111 1244999987764
No 75
>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=75.08 E-value=2.1 Score=24.08 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=17.1
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTAL 196 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~ 196 (257)
.|+|.+||..+... +..+.|++|+.
T Consensus 2 ~~~C~~CG~i~~g~---------~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGE---------EAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECC---------cCCCcCcCCCC
Confidence 47888998776543 23457888875
No 76
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=75.04 E-value=1.1 Score=26.59 Aligned_cols=30 Identities=20% Similarity=0.362 Sum_probs=20.6
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTAL 196 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~ 196 (257)
.|+|..||..|.....+.. .....|+.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISE----DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCC----CCCCcCCCCCC
Confidence 4899999999976543222 23344999986
No 77
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=73.52 E-value=1.4 Score=25.60 Aligned_cols=31 Identities=19% Similarity=0.246 Sum_probs=20.3
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCcc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTALT 197 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~ 197 (257)
.|+|..||+.|........ -....|+.|+..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISD----DPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecCC----CCCCCCCCCCCc
Confidence 5899999999975433211 223349999863
No 78
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=72.33 E-value=0.73 Score=46.80 Aligned_cols=89 Identities=13% Similarity=0.092 Sum_probs=60.0
Q ss_pred eecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchh---hh-hhcC
Q 036604 83 YQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANL---CA-RTNN 158 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~---~~-~~~~ 158 (257)
+.|..|.+.|.....+. |+-. ..+|. |..|...|.....|..|.+.-....... .. -..+
T Consensus 1261 ~~c~~~~~~~~~~~~~~-~l~~---~~~~~------------~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~ 1324 (1406)
T KOG1146|consen 1261 GECGAVDELLTPSFGIS-TLDV---THRYL------------CRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRV 1324 (1406)
T ss_pred chhhhccccccCcccee-eccc---chhHH------------HHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccC
Confidence 78999999998877776 5432 23555 7888888888888888883221100000 00 0112
Q ss_pred CCCCcccCCccccccCCchhhhhhcccccc
Q 036604 159 KANKVHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 159 ~~ekp~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
...++| |.+|...|.....|.+|||+-..
T Consensus 1325 ~d~~~~-c~~c~~~~~~~~alqihm~~~~~ 1353 (1406)
T KOG1146|consen 1325 PDCTYH-CLACEVLLSGREALQIHMRSSAH 1353 (1406)
T ss_pred cccccc-chHHHhhcchhHHHHHHHHHhhh
Confidence 223667 99999999999999999996443
No 79
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=72.14 E-value=1.3 Score=33.40 Aligned_cols=27 Identities=33% Similarity=0.674 Sum_probs=17.1
Q ss_pred CCcccCCccccccCCchhhhhhcccccccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFT 190 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~ 190 (257)
+.-..|-+|||.|.. |++|++.|+|-.
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCC
Confidence 356789999999984 699999997643
No 80
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=71.91 E-value=2.5 Score=40.90 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=19.9
Q ss_pred eecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRF 132 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f 132 (257)
-.|..|++.|.....+... +.+-| ..||..| |..|...+
T Consensus 461 dtC~~C~kkFfSlsK~L~~-------RKHHC--RkCGrVF--C~~CSSnR 499 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGT-------RAHHC--RSCGIRL--CVFCITKR 499 (1374)
T ss_pred CcccCcCCccccccccccc-------ccccc--cCCcccc--CccccCCc
Confidence 3577888877654211111 12224 5566666 66665443
No 81
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=70.28 E-value=2.1 Score=35.37 Aligned_cols=19 Identities=37% Similarity=0.567 Sum_probs=10.2
Q ss_pred cCCCCcccCCccchhhhhh
Q 036604 85 CKTCNRCFPSFQALGGHRA 103 (257)
Q Consensus 85 C~~C~k~F~~~~~L~~H~~ 103 (257)
|=+|++.|....-|.+|++
T Consensus 13 cwycnrefddekiliqhqk 31 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQK 31 (341)
T ss_pred eeecccccchhhhhhhhhh
Confidence 5555555555555555544
No 82
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=69.21 E-value=1.2 Score=38.82 Aligned_cols=23 Identities=26% Similarity=0.525 Sum_probs=18.9
Q ss_pred CCcccCCccccccCCchhhhhhc
Q 036604 161 NKVHECSICGAEFSSGQALGGHM 183 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~ 183 (257)
.|+|+|++|.|.++..-.|+-|.
T Consensus 396 nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 396 NKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCcccChhhhhhhccCCCCCcee
Confidence 59999999999998777666653
No 83
>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=69.02 E-value=2 Score=26.56 Aligned_cols=30 Identities=20% Similarity=0.307 Sum_probs=19.5
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTAL 196 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~ 196 (257)
-|+|..||..|.....+.. -....|+.|+.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~----~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSD----DPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecCC----CCCCCCCCCCC
Confidence 4899999999985432211 12234999985
No 84
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=68.58 E-value=2.3 Score=34.14 Aligned_cols=12 Identities=42% Similarity=0.955 Sum_probs=8.9
Q ss_pred CcccCCcccccc
Q 036604 162 KVHECSICGAEF 173 (257)
Q Consensus 162 kp~~C~~C~k~F 173 (257)
+.-+|.+||+.-
T Consensus 229 kg~~C~~Cgk~t 240 (259)
T COG5152 229 KGDECGVCGKAT 240 (259)
T ss_pred cCCcceecchhh
Confidence 566799998853
No 85
>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=67.98 E-value=2.4 Score=31.60 Aligned_cols=20 Identities=20% Similarity=0.336 Sum_probs=15.1
Q ss_pred CCcccCCccccccCCchhhh
Q 036604 161 NKVHECSICGAEFSSGQALG 180 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~ 180 (257)
..|..|+.||..|.-...++
T Consensus 24 k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 24 RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred CCCccCCCcCCccCcchhhc
Confidence 37899999999987664444
No 86
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=67.34 E-value=2.8 Score=26.79 Aligned_cols=10 Identities=30% Similarity=0.743 Sum_probs=8.8
Q ss_pred CcccCCcccc
Q 036604 162 KVHECSICGA 171 (257)
Q Consensus 162 kp~~C~~C~k 171 (257)
.+|+|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 7899999984
No 87
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=64.72 E-value=2.6 Score=25.39 Aligned_cols=31 Identities=13% Similarity=0.190 Sum_probs=22.0
Q ss_pred CcccCCccccccCCchhhhhhccccccccCCCcCcccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMG 199 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~ 199 (257)
..|+|+.||..|...... ...+|+.|+..+.
T Consensus 2 ~~y~C~~CG~~~~~~~~~-------~~~~Cp~CG~~~~ 32 (46)
T PRK00398 2 AEYKCARCGREVELDEYG-------TGVRCPYCGYRIL 32 (46)
T ss_pred CEEECCCCCCEEEECCCC-------CceECCCCCCeEE
Confidence 469999999988764322 1456999987654
No 88
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=63.44 E-value=1.1 Score=42.70 Aligned_cols=26 Identities=31% Similarity=0.646 Sum_probs=24.1
Q ss_pred CcccCCccccccCCchhhhhhccccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
--|.|..|+|.|-....+..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 36999999999999999999999997
No 89
>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=63.23 E-value=3.8 Score=21.51 Aligned_cols=20 Identities=20% Similarity=0.589 Sum_probs=15.2
Q ss_pred ccCCccccccCCchhhhhhcc
Q 036604 164 HECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r 184 (257)
..|++|++.+ ....+..|..
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999998 5567778765
No 90
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=63.13 E-value=4.3 Score=28.08 Aligned_cols=33 Identities=15% Similarity=0.283 Sum_probs=25.3
Q ss_pred CcccCCccccccCCchhhhhhcccccccc-CCCcCccccCCC
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFT-TSTTALTMGTSS 202 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~-c~~c~~~f~~~~ 202 (257)
.+|.|+.|++. .+.|+-+|-- |..|+..|+--.
T Consensus 34 ~~~~Cp~C~~~--------~VkR~a~GIW~C~kCg~~fAGga 67 (89)
T COG1997 34 AKHVCPFCGRT--------TVKRIATGIWKCRKCGAKFAGGA 67 (89)
T ss_pred cCCcCCCCCCc--------ceeeeccCeEEcCCCCCeecccc
Confidence 68999999875 4556666655 999999997544
No 91
>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=63.01 E-value=3.6 Score=32.09 Aligned_cols=34 Identities=18% Similarity=0.242 Sum_probs=28.0
Q ss_pred CCcccCCccccccCCchhhhhhccccccccCCCcCccccC
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMGT 200 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~~ 200 (257)
..-|.|+.|+..|+.-.++. .+..|+.||.....
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~------~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAME------LNFTCPRCGAMLDY 140 (158)
T ss_pred CCeEECCCCCcEeeHHHHHH------cCCcCCCCCCEeee
Confidence 46799999999999988885 37889999976543
No 92
>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=61.62 E-value=4.4 Score=30.63 Aligned_cols=27 Identities=22% Similarity=0.379 Sum_probs=17.3
Q ss_pred cceecCCCCcccCCccchhhhhhhcCCCCc
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRASHKKPKV 110 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp 110 (257)
.--.|-+|||.|+. |++|++.|.|-.|
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred CeeEEccCCcccch---HHHHHHHccCCCH
Confidence 44689999999876 6999999976544
No 93
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=60.72 E-value=3.5 Score=31.00 Aligned_cols=25 Identities=28% Similarity=0.436 Sum_probs=21.0
Q ss_pred cccCCccccccCCchhhhhhcccccccc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFT 190 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~ 190 (257)
-..|-++||.|+ .|++|+.+|.+-.
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~gmT 100 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHYGLT 100 (148)
T ss_pred eEEEeccCcchH---HHHHHHhcccCCC
Confidence 467999999997 6899999998744
No 94
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=59.77 E-value=4.3 Score=32.38 Aligned_cols=36 Identities=17% Similarity=0.295 Sum_probs=28.7
Q ss_pred CCcccCCccccccCCchhhhhhccccccccCCCcCccccCCC
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMGTSS 202 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~~~~ 202 (257)
..-|.|+.|++.|+.-.++. .+..|+.|+.......
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~------~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME------YGFRCPQCGEMLEEYD 150 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh------cCCcCCCCCCCCeecc
Confidence 36799999999999888764 4788999997765444
No 95
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=59.03 E-value=5.2 Score=31.09 Aligned_cols=39 Identities=15% Similarity=0.275 Sum_probs=20.8
Q ss_pred ccCCccccccCC---chhhhh--hccccccccCCCcCccccCCCCc
Q 036604 164 HECSICGAEFSS---GQALGG--HMRRHRAFTTSTTALTMGTSSSL 204 (257)
Q Consensus 164 ~~C~~C~k~F~~---~~~L~~--H~r~H~~~~c~~c~~~f~~~~~l 204 (257)
++|+.||--+.. ...+.. +.+.+ ..|..|+.+|.+--.+
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~--~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRR--RECLACGKRFTTFERV 44 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeee--eeccccCCcceEeEec
Confidence 367888755421 111222 33333 3477888888765554
No 96
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=58.46 E-value=6.2 Score=22.47 Aligned_cols=33 Identities=15% Similarity=0.235 Sum_probs=19.0
Q ss_pred ccCCccccccCCchhhhhhccccccccCCCcCccc
Q 036604 164 HECSICGAEFSSGQALGGHMRRHRAFTTSTTALTM 198 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f 198 (257)
..|+.|+..|.-......= .-...+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~ip~--~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPP--KGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHCCC--CCcEEECCCCCCEe
Confidence 4677788877766553221 11133477777665
No 97
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=57.58 E-value=6 Score=23.72 Aligned_cols=27 Identities=15% Similarity=0.271 Sum_probs=19.3
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCcc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTALT 197 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~ 197 (257)
.|.|..||..|.-. .-...+|+.|+-.
T Consensus 2 ~Y~C~~Cg~~~~~~--------~~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIK--------SKDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecC--------CCCceECCCCCce
Confidence 38999999988754 2244559999754
No 98
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=56.74 E-value=5.1 Score=24.62 Aligned_cols=30 Identities=17% Similarity=0.295 Sum_probs=20.7
Q ss_pred CCcccCCccccccCCchhhhhhccccccccCCCcCcc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALT 197 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~ 197 (257)
...|.|-.||+.|... ..-.+.+|+.|+-.
T Consensus 4 ~~~Y~C~~Cg~~~~~~-------~~~~~irCp~Cg~r 33 (49)
T COG1996 4 MMEYKCARCGREVELD-------QETRGIRCPYCGSR 33 (49)
T ss_pred eEEEEhhhcCCeeehh-------hccCceeCCCCCcE
Confidence 3679999999999321 12345669999753
No 99
>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=56.66 E-value=4.6 Score=29.21 Aligned_cols=27 Identities=22% Similarity=0.417 Sum_probs=23.7
Q ss_pred CcccC----CccccccCCchhhhhhcccccc
Q 036604 162 KVHEC----SICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 162 kp~~C----~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
.-|.| ..|+..+.+...+.+|++.++|
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 34899 9999999999999999997764
No 100
>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=55.70 E-value=5.5 Score=24.75 Aligned_cols=26 Identities=19% Similarity=0.249 Sum_probs=18.0
Q ss_pred CcccCCccccccCCchhhhhhccccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
..|+|+.|.+.|-.--.+-.|...|.
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CeEECCCCCCccccCcChhhhccccC
Confidence 57999999999999989999998887
No 101
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.90 E-value=6.5 Score=37.72 Aligned_cols=49 Identities=12% Similarity=0.139 Sum_probs=28.8
Q ss_pred hhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCC--ccc-cccCCc----hhhhhhccccccccCCCcC
Q 036604 130 DRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECS--ICG-AEFSSG----QALGGHMRRHRAFTTSTTA 195 (257)
Q Consensus 130 k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~--~C~-k~F~~~----~~L~~H~r~H~~~~c~~c~ 195 (257)
.-|.....|..|-+ +.-|.|. .|. +.|... ..|++|.+.+.-++|..|.
T Consensus 220 eyy~~~~dLe~HfR-----------------~~HflCE~~~C~~~~f~~~~~~ei~lk~~~~~~~~e~~~~~~ 275 (669)
T KOG2231|consen 220 EYYNDYDDLEEHFR-----------------KGHFLCEEEFCRTKKFYVAFELEIELKAHNRFIQHEKCYICR 275 (669)
T ss_pred hhcccchHHHHHhh-----------------hcCccccccccccceeeehhHHHHHHHhhccccchheeccCC
Confidence 45566677887777 4567777 563 333333 4555555545556666665
No 102
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=53.50 E-value=5.6 Score=33.26 Aligned_cols=40 Identities=23% Similarity=0.366 Sum_probs=32.7
Q ss_pred cccCCccccccCCchhhhhhcccccccc--CCCcCccccCCCC
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFT--TSTTALTMGTSSS 203 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~--c~~c~~~f~~~~~ 203 (257)
-|.|.+||....-. .|-+|+.+-++.. |-.|+++|...+-
T Consensus 3 ~FtCnvCgEsvKKp-~vekH~srCrn~~fSCIDC~k~F~~~sY 44 (276)
T KOG2186|consen 3 FFTCNVCGESVKKP-QVEKHMSRCRNAYFSCIDCGKTFERVSY 44 (276)
T ss_pred EEehhhhhhhcccc-chHHHHHhccCCeeEEeecccccccchh
Confidence 38899999988755 5778998877755 9999999998554
No 103
>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=53.04 E-value=10 Score=21.05 Aligned_cols=11 Identities=45% Similarity=0.869 Sum_probs=7.1
Q ss_pred ccCCccccccC
Q 036604 164 HECSICGAEFS 174 (257)
Q Consensus 164 ~~C~~C~k~F~ 174 (257)
|.|..||..+.
T Consensus 1 Y~C~~Cg~~~~ 11 (32)
T PF03604_consen 1 YICGECGAEVE 11 (32)
T ss_dssp EBESSSSSSE-
T ss_pred CCCCcCCCeeE
Confidence 56777777765
No 104
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=52.38 E-value=7.3 Score=29.95 Aligned_cols=36 Identities=19% Similarity=0.293 Sum_probs=26.2
Q ss_pred CCcccCCccccccCCchhhhh-hcccccc-ccCCCcCcccc
Q 036604 161 NKVHECSICGAEFSSGQALGG-HMRRHRA-FTTSTTALTMG 199 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~-H~r~H~~-~~c~~c~~~f~ 199 (257)
..-|.|+.|++.|.....+.. ++ ++ ..|+.|+....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d~---~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLDM---DGTFTCPRCGEELE 134 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcCC---CCcEECCCCCCEEE
Confidence 467999999999997665543 32 33 56999987654
No 105
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.37 E-value=5.3 Score=28.89 Aligned_cols=20 Identities=5% Similarity=0.074 Sum_probs=15.0
Q ss_pred CCcccCCccccccCCchhhhh
Q 036604 161 NKVHECSICGAEFSSGQALGG 181 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~ 181 (257)
..|..|+.||++|.. +.|..
T Consensus 24 rdPiVsPytG~s~P~-s~fe~ 43 (129)
T COG4530 24 RDPIVSPYTGKSYPR-SYFEE 43 (129)
T ss_pred CCccccCcccccchH-HHHHh
Confidence 489999999999954 34433
No 106
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=49.98 E-value=2.8 Score=40.16 Aligned_cols=26 Identities=19% Similarity=0.672 Sum_probs=22.6
Q ss_pred cceecCCCCcccCCccchhhhhhhcC
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRASHK 106 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~~H~ 106 (257)
.-|.|.+|+|.|.....+..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 34899999999999889999999885
No 107
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=49.02 E-value=13 Score=21.89 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=7.6
Q ss_pred CcccCCcccc
Q 036604 162 KVHECSICGA 171 (257)
Q Consensus 162 kp~~C~~C~k 171 (257)
+...|++|++
T Consensus 35 ~~~~CP~C~k 44 (44)
T PF14634_consen 35 KSVKCPICRK 44 (44)
T ss_pred CCCCCcCCCC
Confidence 5678888875
No 108
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=47.80 E-value=9.3 Score=24.43 Aligned_cols=10 Identities=30% Similarity=0.760 Sum_probs=8.9
Q ss_pred CcccCCcccc
Q 036604 162 KVHECSICGA 171 (257)
Q Consensus 162 kp~~C~~C~k 171 (257)
.+|+|+.||.
T Consensus 49 ~~Y~Cp~CGF 58 (61)
T COG2888 49 NPYRCPKCGF 58 (61)
T ss_pred CceECCCcCc
Confidence 7999999984
No 109
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=47.72 E-value=11 Score=21.58 Aligned_cols=33 Identities=15% Similarity=0.265 Sum_probs=19.2
Q ss_pred ccCCccccccCCchh-hhhhccccccccCCCcCcccc
Q 036604 164 HECSICGAEFSSGQA-LGGHMRRHRAFTTSTTALTMG 199 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~-L~~H~r~H~~~~c~~c~~~f~ 199 (257)
..|+.|+..|.-... |... -...+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~---~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAG---GRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHHcccC---CcEEECCCCCcEee
Confidence 368888888876654 2211 11334888876663
No 110
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=47.12 E-value=6.7 Score=24.74 Aligned_cols=46 Identities=7% Similarity=-0.040 Sum_probs=24.4
Q ss_pred hhhcccCchh-hhhhccCcchhHHHHHhhccccchhhhhhcCCCCCcccCCc----cccccCCc
Q 036604 118 SKKAFVLMDE-EDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKVHECSI----CGAEFSSG 176 (257)
Q Consensus 118 c~~~f~~C~~-C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp~~C~~----C~k~F~~~ 176 (257)
|......|+. |+..-..+..|..|....-. .++..|.. |...+...
T Consensus 5 C~~~~v~C~~~cc~~~i~r~~l~~H~~~~C~-------------~~~v~C~~~~~GC~~~~~~~ 55 (60)
T PF02176_consen 5 CPFRPVPCPNGCCNEMIPRKELDDHLENECP-------------KRPVPCPYSPYGCKERVPRE 55 (60)
T ss_dssp STTSEEE-TT--S-BEEECCCHHHHHHTTST-------------TSEEE-SS----S--EEEHH
T ss_pred CCCCEeeCCCCCcccceeHHHHHHHHHccCC-------------CCcEECCCCCCCCCCccchh
Confidence 3444444655 33333346678888875444 57888999 88877643
No 111
>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=46.80 E-value=7.9 Score=25.29 Aligned_cols=16 Identities=31% Similarity=0.715 Sum_probs=9.0
Q ss_pred CCcccCCccccccCCc
Q 036604 161 NKVHECSICGAEFSSG 176 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~ 176 (257)
.+.|.|..||+.|-..
T Consensus 23 ~rrhhCr~CG~~vC~~ 38 (69)
T PF01363_consen 23 RRRHHCRNCGRVVCSS 38 (69)
T ss_dssp S-EEE-TTT--EEECC
T ss_pred eeeEccCCCCCEECCc
Confidence 3789999999988643
No 112
>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=46.79 E-value=13 Score=31.38 Aligned_cols=27 Identities=30% Similarity=0.495 Sum_probs=23.8
Q ss_pred CCcccCCccccccCCchhhhhhccccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
.+++.|+.||........|..-.|+|.
T Consensus 207 ~k~~PCPKCg~et~eTkdLSmStR~hk 233 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDLSMSTRSHK 233 (314)
T ss_pred CCCCCCCCCCCcccccccceeeeecch
Confidence 489999999999998889988888885
No 113
>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=46.56 E-value=9.7 Score=20.02 Aligned_cols=13 Identities=31% Similarity=0.830 Sum_probs=10.2
Q ss_pred CcccCCccccccC
Q 036604 162 KVHECSICGAEFS 174 (257)
Q Consensus 162 kp~~C~~C~k~F~ 174 (257)
..-.|+.||..|.
T Consensus 13 ~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 13 SAKFCPHCGYDFE 25 (26)
T ss_pred hcCcCCCCCCCCc
Confidence 3457999999985
No 114
>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=45.78 E-value=12 Score=19.33 Aligned_cols=10 Identities=20% Similarity=0.736 Sum_probs=8.3
Q ss_pred cceecCCCCc
Q 036604 81 YVYQCKTCNR 90 (257)
Q Consensus 81 k~~~C~~C~k 90 (257)
.+|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4799999985
No 115
>PF15269 zf-C2H2_7: Zinc-finger
Probab=44.05 E-value=9 Score=22.95 Aligned_cols=22 Identities=23% Similarity=0.339 Sum_probs=19.1
Q ss_pred ccCCccccccCCchhhhhhccc
Q 036604 164 HECSICGAEFSSGQALGGHMRR 185 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~ 185 (257)
|+|-+|..+...+++|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 7788999888899999999873
No 116
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=43.44 E-value=6.2 Score=38.51 Aligned_cols=12 Identities=33% Similarity=0.794 Sum_probs=9.1
Q ss_pred CCcccCCccccc
Q 036604 161 NKVHECSICGAE 172 (257)
Q Consensus 161 ekp~~C~~C~k~ 172 (257)
..|..|+.||-.
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 578888888754
No 117
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=43.38 E-value=11 Score=30.89 Aligned_cols=30 Identities=13% Similarity=0.285 Sum_probs=22.3
Q ss_pred CCcceecCCCCcccCCccchhhhhhhcCCC
Q 036604 79 GLYVYQCKTCNRCFPSFQALGGHRASHKKP 108 (257)
Q Consensus 79 ~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~ 108 (257)
.+..|.|..|+|.|.-..-+..|+..-..+
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 455699999999999999999998864433
No 118
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=42.38 E-value=16 Score=32.03 Aligned_cols=22 Identities=5% Similarity=-0.321 Sum_probs=17.1
Q ss_pred chhhhhhccCcchhHHHHHhhc
Q 036604 125 MDEEDDRFSNMSTTLSLQMANN 146 (257)
Q Consensus 125 C~~C~k~f~~~~~l~~H~~~h~ 146 (257)
|..|.+.|..-..|..|++..+
T Consensus 223 C~FC~~~FYdDDEL~~HcR~~H 244 (493)
T COG5236 223 CIFCKIYFYDDDELRRHCRLRH 244 (493)
T ss_pred hhhccceecChHHHHHHHHhhh
Confidence 7778888888888888887543
No 119
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=42.07 E-value=12 Score=28.16 Aligned_cols=25 Identities=24% Similarity=0.255 Sum_probs=20.9
Q ss_pred eecCCCCcccCCccchhhhhhhcCCCCc
Q 036604 83 YQCKTCNRCFPSFQALGGHRASHKKPKV 110 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~H~~~kp 110 (257)
..|-++||.|++ |++|+.+|.+--|
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 579999999975 9999999976544
No 120
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.04 E-value=9.7 Score=25.64 Aligned_cols=34 Identities=21% Similarity=0.349 Sum_probs=24.5
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCccccC
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMGT 200 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~~ 200 (257)
.|+|..||..|. +.+||+--.--.|+.|+..+..
T Consensus 12 ~Y~c~~cg~~~d----vvq~~~ddplt~ce~c~a~~kk 45 (82)
T COG2331 12 SYECTECGNRFD----VVQAMTDDPLTTCEECGARLKK 45 (82)
T ss_pred EEeecccchHHH----HHHhcccCccccChhhChHHHH
Confidence 599999998874 5566665554559999876543
No 121
>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=41.97 E-value=16 Score=21.60 Aligned_cols=17 Identities=0% Similarity=-0.117 Sum_probs=9.6
Q ss_pred ccccccc-CCCcCccccC
Q 036604 184 RRHRAFT-TSTTALTMGT 200 (257)
Q Consensus 184 r~H~~~~-c~~c~~~f~~ 200 (257)
+.+...+ |.+|++.|+-
T Consensus 3 K~~lp~K~C~~C~rpf~W 20 (42)
T PF10013_consen 3 KSNLPSKICPVCGRPFTW 20 (42)
T ss_pred cccCCCCcCcccCCcchH
Confidence 3344444 7777777654
No 122
>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=41.19 E-value=17 Score=28.38 Aligned_cols=23 Identities=17% Similarity=0.216 Sum_probs=18.6
Q ss_pred hCCCcceecCCCCcccCCccchh
Q 036604 77 ATGLYVYQCKTCNRCFPSFQALG 99 (257)
Q Consensus 77 h~~~k~~~C~~C~k~F~~~~~L~ 99 (257)
..+..-|.|+.|+..|....++.
T Consensus 104 e~~~~~Y~Cp~c~~r~tf~eA~~ 126 (158)
T TIGR00373 104 ETNNMFFICPNMCVRFTFNEAME 126 (158)
T ss_pred ccCCCeEECCCCCcEeeHHHHHH
Confidence 34556799999999998888875
No 123
>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=40.94 E-value=6.1 Score=32.45 Aligned_cols=28 Identities=18% Similarity=0.489 Sum_probs=21.6
Q ss_pred CCcccCCccccccCCchhhhhhcccccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
+..|.|..|+|.|.-..-..+|+..-+.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 5679999999999999999999875443
No 124
>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=40.31 E-value=14 Score=22.97 Aligned_cols=16 Identities=38% Similarity=0.810 Sum_probs=12.6
Q ss_pred CCcccCCccccccCCc
Q 036604 161 NKVHECSICGAEFSSG 176 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~ 176 (257)
.+.+.|..||+.|-..
T Consensus 16 ~rk~~Cr~Cg~~~C~~ 31 (57)
T cd00065 16 RRRHHCRNCGRIFCSK 31 (57)
T ss_pred ccccccCcCcCCcChH
Confidence 4778899999988653
No 125
>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=39.84 E-value=14 Score=23.30 Aligned_cols=30 Identities=20% Similarity=0.281 Sum_probs=20.2
Q ss_pred cccCCccccccCCchhhhhhccccccc--cCCCcCcccc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAF--TTSTTALTMG 199 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~--~c~~c~~~f~ 199 (257)
.|+|+.||..+.-.... .|+ .|+.|+..+-
T Consensus 2 ~~~CP~CG~~iev~~~~-------~GeiV~Cp~CGaele 33 (54)
T TIGR01206 2 QFECPDCGAEIELENPE-------LGELVICDECGAELE 33 (54)
T ss_pred ccCCCCCCCEEecCCCc-------cCCEEeCCCCCCEEE
Confidence 37899999987544322 133 3999997764
No 126
>PRK14873 primosome assembly protein PriA; Provisional
Probab=39.38 E-value=11 Score=36.56 Aligned_cols=11 Identities=27% Similarity=0.833 Sum_probs=8.2
Q ss_pred CcccCCccccc
Q 036604 162 KVHECSICGAE 172 (257)
Q Consensus 162 kp~~C~~C~k~ 172 (257)
.|..|+.||..
T Consensus 421 ~p~~Cp~Cgs~ 431 (665)
T PRK14873 421 PDWRCPRCGSD 431 (665)
T ss_pred cCccCCCCcCC
Confidence 57888888754
No 127
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=39.18 E-value=14 Score=27.72 Aligned_cols=28 Identities=21% Similarity=0.383 Sum_probs=19.7
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCcc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTALT 197 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~ 197 (257)
||+|..||+.|...+.= + -.-|+.||-.
T Consensus 1 PH~Ct~Cg~~f~dgs~e-----i--l~GCP~CGg~ 28 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKE-----I--LSGCPECGGN 28 (131)
T ss_pred CcccCcCCCCcCCCcHH-----H--HccCcccCCc
Confidence 78999999999976520 1 1238888753
No 128
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=39.14 E-value=17 Score=21.03 Aligned_cols=15 Identities=20% Similarity=0.656 Sum_probs=12.7
Q ss_pred ceecCCCCcccCCcc
Q 036604 82 VYQCKTCNRCFPSFQ 96 (257)
Q Consensus 82 ~~~C~~C~k~F~~~~ 96 (257)
||+|..|++.|-..-
T Consensus 12 ~f~C~~C~~~FC~~H 26 (39)
T smart00154 12 GFKCRHCGNLFCGEH 26 (39)
T ss_pred CeECCccCCcccccc
Confidence 899999999997644
No 129
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=38.67 E-value=29 Score=26.16 Aligned_cols=41 Identities=22% Similarity=0.244 Sum_probs=28.6
Q ss_pred CCcccCCccccccCCchhh------------------hhhccccccccCCCcCccccCCCC
Q 036604 161 NKVHECSICGAEFSSGQAL------------------GGHMRRHRAFTTSTTALTMGTSSS 203 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L------------------~~H~r~H~~~~c~~c~~~f~~~~~ 203 (257)
.+-|+|++|..+.....-| .+|-.+|. +|++|-.+|.++..
T Consensus 78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~yp--vCPvCkTSFKss~~ 136 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYP--VCPVCKTSFKSSSS 136 (140)
T ss_pred CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCC--CCCccccccccccc
Confidence 4789999998776655433 34444333 49999999987654
No 130
>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=38.27 E-value=18 Score=19.38 Aligned_cols=20 Identities=20% Similarity=0.619 Sum_probs=12.0
Q ss_pred eecCCCCcccCCccchhhhhh
Q 036604 83 YQCKTCNRCFPSFQALGGHRA 103 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~ 103 (257)
|.|-.|++.| .....+.|..
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 5688899998 4455555543
No 131
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=38.02 E-value=21 Score=34.52 Aligned_cols=58 Identities=19% Similarity=0.329 Sum_probs=38.5
Q ss_pred ecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCc
Q 036604 84 QCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKV 163 (257)
Q Consensus 84 ~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp 163 (257)
.|..||-+|.-...|-.- |-+|.- +.|..|+.|.+.|....+-+-| -.|
T Consensus 125 ~CT~CGPRfTIi~alPYD-R~nTsM-----------~~F~lC~~C~~EY~dP~nRRfH-------------------AQp 173 (750)
T COG0068 125 NCTNCGPRFTIIEALPYD-RENTSM-----------ADFPLCPFCDKEYKDPLNRRFH-------------------AQP 173 (750)
T ss_pred ccCCCCcceeeeccCCCC-cccCcc-----------ccCcCCHHHHHHhcCccccccc-------------------ccc
Confidence 588999999877665432 222222 2344599999988877664433 368
Q ss_pred ccCCccccc
Q 036604 164 HECSICGAE 172 (257)
Q Consensus 164 ~~C~~C~k~ 172 (257)
.-|+.||-.
T Consensus 174 ~aCp~CGP~ 182 (750)
T COG0068 174 IACPKCGPH 182 (750)
T ss_pred ccCcccCCC
Confidence 999999864
No 132
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=37.66 E-value=12 Score=25.13 Aligned_cols=10 Identities=20% Similarity=0.896 Sum_probs=6.8
Q ss_pred eecCCCCccc
Q 036604 83 YQCKTCNRCF 92 (257)
Q Consensus 83 ~~C~~C~k~F 92 (257)
+.|+.||..-
T Consensus 2 m~CP~Cg~~a 11 (72)
T PRK09678 2 FHCPLCQHAA 11 (72)
T ss_pred ccCCCCCCcc
Confidence 4578887655
No 133
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=37.63 E-value=14 Score=32.36 Aligned_cols=24 Identities=29% Similarity=0.574 Sum_probs=21.8
Q ss_pred CcccCCccccccCCchhhhhhccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRR 185 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~ 185 (257)
..++|-.|.|.|+.+..|+.|||.
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHh
Confidence 368899999999999999999984
No 134
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=37.25 E-value=24 Score=31.37 Aligned_cols=70 Identities=20% Similarity=0.185 Sum_probs=47.0
Q ss_pred cceecCCCCcccCCccchhhhhhhcCCCC----cccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhh
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRASHKKPK----VINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCART 156 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~~H~~~k----p~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~ 156 (257)
-|-.|-.|++.|..-..-..||..+.+-. -|- .....|..-+..-.
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL--------------------~D~~GLl~YLgeKV---------- 214 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYL--------------------TDEKGLLKYLGEKV---------- 214 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhh--------------------hchhHHHHHHHHHh----------
Confidence 35678999999988888888988776532 111 11222222222111
Q ss_pred cCCCCCcccCCccc---cccCCchhhhhhcc
Q 036604 157 NNKANKVHECSICG---AEFSSGQALGGHMR 184 (257)
Q Consensus 157 ~~~~ekp~~C~~C~---k~F~~~~~L~~H~r 184 (257)
..-|.|-.|+ +.|.+....+.||+
T Consensus 215 ----~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 215 ----GIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred ----ccCceEEEeccccCcccccHHHHHHHh
Confidence 2668899998 99999999999996
No 135
>PLN02294 cytochrome c oxidase subunit Vb
Probab=37.13 E-value=14 Score=29.03 Aligned_cols=16 Identities=31% Similarity=0.686 Sum_probs=13.4
Q ss_pred CCcccCCccccccCCc
Q 036604 161 NKVHECSICGAEFSSG 176 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~ 176 (257)
.+|++|+.||..|.-.
T Consensus 139 Gkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 139 GKSFECPVCTQYFELE 154 (174)
T ss_pred CCceeCCCCCCEEEEE
Confidence 3899999999999743
No 136
>PHA00626 hypothetical protein
Probab=36.67 E-value=20 Score=22.61 Aligned_cols=14 Identities=21% Similarity=0.325 Sum_probs=12.0
Q ss_pred cceecCCCCcccCC
Q 036604 81 YVYQCKTCNRCFPS 94 (257)
Q Consensus 81 k~~~C~~C~k~F~~ 94 (257)
..|+|+.||..|..
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 57999999998864
No 137
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=35.91 E-value=16 Score=25.76 Aligned_cols=41 Identities=17% Similarity=0.361 Sum_probs=17.5
Q ss_pred CCCcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCc
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNM 135 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~ 135 (257)
.|.|.-.|..||+++..... --.+++-|-| |+.|-+-|..-
T Consensus 10 ag~ke~~CalCG~tWg~~y~------Ev~G~rLfFC-----------Cd~ca~EF~nm 50 (105)
T PF11494_consen 10 AGTKEMGCALCGATWGDYYE------EVDGERLFFC-----------CDDCAKEFKNM 50 (105)
T ss_dssp --SGGGS-SS---S---SS-------B-TT--BSSS-------------SSSS-TTS-
T ss_pred cccccccccccCCcHHHHHH------hhcCCEEEEE-----------cHHHHHHHHHH
Confidence 35566789999998764321 1247888888 99999888753
No 138
>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=35.76 E-value=15 Score=26.15 Aligned_cols=15 Identities=33% Similarity=0.720 Sum_probs=13.0
Q ss_pred CCcccCCccccccCC
Q 036604 161 NKVHECSICGAEFSS 175 (257)
Q Consensus 161 ekp~~C~~C~k~F~~ 175 (257)
.+|++|..||..|.-
T Consensus 77 g~~~rC~eCG~~fkL 91 (97)
T cd00924 77 GKPKRCPECGHVFKL 91 (97)
T ss_pred CCceeCCCCCcEEEE
Confidence 389999999999964
No 139
>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=35.69 E-value=17 Score=34.01 Aligned_cols=11 Identities=27% Similarity=0.754 Sum_probs=7.6
Q ss_pred CCcccCCcccc
Q 036604 161 NKVHECSICGA 171 (257)
Q Consensus 161 ekp~~C~~C~k 171 (257)
.-|..|+.|+.
T Consensus 251 ~~~~~Cp~C~s 261 (505)
T TIGR00595 251 PIPKTCPQCGS 261 (505)
T ss_pred CCCCCCCCCCC
Confidence 35777888865
No 140
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=35.15 E-value=18 Score=20.44 Aligned_cols=13 Identities=23% Similarity=0.189 Sum_probs=6.0
Q ss_pred chhhhhhccCcch
Q 036604 125 MDEEDDRFSNMST 137 (257)
Q Consensus 125 C~~C~k~f~~~~~ 137 (257)
|.+|++.|..+..
T Consensus 6 C~eC~~~f~dSyL 18 (34)
T PF01286_consen 6 CDECGKPFMDSYL 18 (34)
T ss_dssp -TTT--EES-SSC
T ss_pred HhHhCCHHHHHHH
Confidence 7778877775544
No 141
>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=34.89 E-value=21 Score=25.71 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=22.0
Q ss_pred ceec----CCCCcccCCccchhhhhhhcC
Q 036604 82 VYQC----KTCNRCFPSFQALGGHRASHK 106 (257)
Q Consensus 82 ~~~C----~~C~k~F~~~~~L~~H~~~H~ 106 (257)
-|.| ..|+..+.+...+..|.+.+.
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 4899 999999999999999988754
No 142
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=34.56 E-value=38 Score=35.12 Aligned_cols=13 Identities=46% Similarity=0.805 Sum_probs=8.4
Q ss_pred CcccCCccccccC
Q 036604 162 KVHECSICGAEFS 174 (257)
Q Consensus 162 kp~~C~~C~k~F~ 174 (257)
.+|.|+.||....
T Consensus 691 ~vy~CPsCGaev~ 703 (1337)
T PRK14714 691 PVYVCPDCGAEVP 703 (1337)
T ss_pred CceeCccCCCccC
Confidence 4577777776543
No 143
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=34.14 E-value=20 Score=26.98 Aligned_cols=37 Identities=19% Similarity=0.392 Sum_probs=24.7
Q ss_pred ccCCccccccCCchhhhhhccccccccCCCcCccccCCC
Q 036604 164 HECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMGTSS 202 (257)
Q Consensus 164 ~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~~~~ 202 (257)
-.|+.|+... ...+....+.|...+|..|+++|....
T Consensus 31 ~~cP~C~s~~--~~k~g~~~~~~qRyrC~~C~~tf~~~~ 67 (129)
T COG3677 31 VNCPRCKSSN--VVKIGGIRRGHQRYKCKSCGSTFTVET 67 (129)
T ss_pred CcCCCCCccc--eeeECCccccccccccCCcCcceeeec
Confidence 5688887654 233445555577788999998887543
No 144
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=34.13 E-value=19 Score=32.60 Aligned_cols=38 Identities=16% Similarity=0.153 Sum_probs=25.4
Q ss_pred CCcccCCccccccCCchhhhhhccccccccCCCcCccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTM 198 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f 198 (257)
..-|.|+.|.+.|.....|+-=--.-....|..|+-..
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGEL 163 (436)
T ss_pred cccccCCccccchhhhHHHHhhcccCceEEEecCCCch
Confidence 46799999999999877664432212234488887554
No 145
>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 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=33.27 E-value=20 Score=21.15 Aligned_cols=16 Identities=25% Similarity=0.700 Sum_probs=10.3
Q ss_pred cceecCCCCcccCCcc
Q 036604 81 YVYQCKTCNRCFPSFQ 96 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~ 96 (257)
-|+.|+.|++.|-..-
T Consensus 12 ~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH 27 (43)
T ss_dssp SHEE-TTTS-EE-TTT
T ss_pred CCeECCCCCcccCccc
Confidence 4899999999997543
No 147
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=33.08 E-value=20 Score=33.82 Aligned_cols=27 Identities=26% Similarity=0.630 Sum_probs=23.8
Q ss_pred CCcccCCccccccCCchhhhhhccccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
.+|.+|..||..|........||.+|-
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh
Confidence 478999999999999998888888775
No 148
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=33.00 E-value=18 Score=28.41 Aligned_cols=10 Identities=40% Similarity=1.039 Sum_probs=9.1
Q ss_pred CCcccCCccc
Q 036604 161 NKVHECSICG 170 (257)
Q Consensus 161 ekp~~C~~C~ 170 (257)
+-|-+|++||
T Consensus 147 e~P~~CPiCg 156 (166)
T COG1592 147 EAPEVCPICG 156 (166)
T ss_pred CCCCcCCCCC
Confidence 6899999998
No 149
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=32.93 E-value=33 Score=29.95 Aligned_cols=30 Identities=17% Similarity=0.156 Sum_probs=24.6
Q ss_pred CcccCCccccccCCchhhhhhccccccccCCCc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFTTSTT 194 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c 194 (257)
-.|.|..|...|-.--+.-.|...|. |+.|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh~---CpgC 373 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLHN---CPGC 373 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhhc---CCCc
Confidence 56999999999998888888887776 5555
No 150
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=32.23 E-value=29 Score=24.26 Aligned_cols=27 Identities=19% Similarity=0.433 Sum_probs=19.8
Q ss_pred CCcccCCccccccCCchhhhhhccccccccCCCc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRAFTTSTT 194 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c 194 (257)
.+|-.|..||..|..- ++....+|+.|
T Consensus 56 v~Pa~CkkCGfef~~~-------~ik~pSRCP~C 82 (97)
T COG3357 56 VRPARCKKCGFEFRDD-------KIKKPSRCPKC 82 (97)
T ss_pred ecChhhcccCcccccc-------ccCCcccCCcc
Confidence 3789999999999862 23445568887
No 151
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=32.22 E-value=15 Score=25.68 Aligned_cols=33 Identities=12% Similarity=0.212 Sum_probs=20.9
Q ss_pred CcccCCccccccCCchhhhhhcccccccc-CCCcCccccCCC
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFT-TSTTALTMGTSS 202 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~-c~~c~~~f~~~~ 202 (257)
..|.|++||+.-. .|.-.|-- |..|++.|+--.
T Consensus 34 ~ky~Cp~Cgk~~v--------kR~a~GIW~C~~C~~~~AGGA 67 (90)
T PF01780_consen 34 AKYTCPFCGKTSV--------KRVATGIWKCKKCGKKFAGGA 67 (90)
T ss_dssp S-BEESSSSSSEE--------EEEETTEEEETTTTEEEE-BS
T ss_pred CCCcCCCCCCcee--------EEeeeEEeecCCCCCEEeCCC
Confidence 6799999997632 22334433 999998887543
No 152
>PRK05978 hypothetical protein; Provisional
Probab=31.97 E-value=30 Score=26.72 Aligned_cols=33 Identities=12% Similarity=0.090 Sum_probs=20.9
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCccccCC
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMGTS 201 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~~~ 201 (257)
.-+|+.||+.=-....|+. .++|+.|+..|...
T Consensus 33 ~grCP~CG~G~LF~g~Lkv------~~~C~~CG~~~~~~ 65 (148)
T PRK05978 33 RGRCPACGEGKLFRAFLKP------VDHCAACGEDFTHH 65 (148)
T ss_pred cCcCCCCCCCccccccccc------CCCccccCCccccC
Confidence 3579999754222334432 36699999888653
No 153
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=30.35 E-value=29 Score=31.63 Aligned_cols=36 Identities=22% Similarity=0.476 Sum_probs=27.3
Q ss_pred CCCCCcccCCccc-cccCCchhhhhhcc--ccc-cccCCC
Q 036604 158 NKANKVHECSICG-AEFSSGQALGGHMR--RHR-AFTTST 193 (257)
Q Consensus 158 ~~~ekp~~C~~C~-k~F~~~~~L~~H~r--~H~-~~~c~~ 193 (257)
|.-.+.|.|.||| +++.-+..+.+|-. .|. |-+|-.
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrCLG 435 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRCLG 435 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHhHHHHHhhcceecC
Confidence 3335889999999 89999999999964 453 666644
No 154
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=29.99 E-value=25 Score=25.13 Aligned_cols=27 Identities=22% Similarity=0.459 Sum_probs=19.5
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCcCc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTTAL 196 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~ 196 (257)
|++|..||..|...+.+. -.| |+.||-
T Consensus 2 pH~CtrCG~vf~~g~~~i-----l~G--Cp~CG~ 28 (112)
T COG3364 2 PHQCTRCGEVFDDGSEEI-----LSG--CPKCGC 28 (112)
T ss_pred CceecccccccccccHHH-----Hcc--Cccccc
Confidence 789999999999854332 122 888875
No 155
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.86 E-value=22 Score=29.50 Aligned_cols=28 Identities=25% Similarity=0.572 Sum_probs=21.7
Q ss_pred CCcccCCccccccCCchhhhhhcccccc
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRA 188 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~ 188 (257)
++.+.|++|+-.|....-+..-.|+-.|
T Consensus 17 kk~ieCPvC~tkFkkeev~tgsiRiiag 44 (267)
T COG1655 17 KKTIECPVCNTKFKKEEVKTGSIRIIAG 44 (267)
T ss_pred hceeccCcccchhhhhheeccceeEecc
Confidence 5789999999999987766666666554
No 156
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=28.85 E-value=22 Score=21.88 Aligned_cols=17 Identities=41% Similarity=0.730 Sum_probs=14.0
Q ss_pred CCcccCCccccccCCch
Q 036604 161 NKVHECSICGAEFSSGQ 177 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~ 177 (257)
.+++.|..||..|....
T Consensus 2 Dk~l~C~dCg~~FvfTa 18 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTA 18 (49)
T ss_pred CeeEEcccCCCeEEEeh
Confidence 48899999999987554
No 157
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=28.41 E-value=38 Score=21.00 Aligned_cols=28 Identities=21% Similarity=0.374 Sum_probs=18.1
Q ss_pred cccCCccccccCCchhhhhhccccccccCCCc
Q 036604 163 VHECSICGAEFSSGQALGGHMRRHRAFTTSTT 194 (257)
Q Consensus 163 p~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c 194 (257)
-++|..||..|...-.. |+..+..|+.|
T Consensus 28 ~W~C~~Cgh~w~~~v~~----R~~~~~~CP~C 55 (55)
T PF14311_consen 28 WWKCPKCGHEWKASVND----RTRRGKGCPYC 55 (55)
T ss_pred EEECCCCCCeeEccHhh----hccCCCCCCCC
Confidence 48999999888765332 33344457766
No 158
>PRK04023 DNA polymerase II large subunit; Validated
Probab=28.40 E-value=33 Score=34.69 Aligned_cols=10 Identities=20% Similarity=0.723 Sum_probs=7.5
Q ss_pred ceecCCCCcc
Q 036604 82 VYQCKTCNRC 91 (257)
Q Consensus 82 ~~~C~~C~k~ 91 (257)
...|+.||+.
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 4578888876
No 159
>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=27.72 E-value=28 Score=24.47 Aligned_cols=34 Identities=12% Similarity=0.210 Sum_probs=22.3
Q ss_pred CcccCCccccccCCchhhhhhcccccccc-CCCcCccccCCCC
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFT-TSTTALTMGTSSS 203 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~-c~~c~~~f~~~~~ 203 (257)
..|.|+.|++.-. .|.-.|-- |..|++.|+--.-
T Consensus 34 a~y~CpfCgk~~v--------kR~a~GIW~C~~C~~~~AGGAy 68 (91)
T TIGR00280 34 AKYVCPFCGKKTV--------KRGSTGIWTCRKCGAKFAGGAY 68 (91)
T ss_pred cCccCCCCCCCce--------EEEeeEEEEcCCCCCEEeCCcc
Confidence 6799999986522 12334433 9999998875443
No 160
>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=27.67 E-value=56 Score=20.16 Aligned_cols=12 Identities=25% Similarity=0.509 Sum_probs=6.3
Q ss_pred ecCCCCcccCCc
Q 036604 84 QCKTCNRCFPSF 95 (257)
Q Consensus 84 ~C~~C~k~F~~~ 95 (257)
.|++|++.|...
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 899999988653
No 161
>COG1773 Rubredoxin [Energy production and conversion]
Probab=27.33 E-value=24 Score=22.27 Aligned_cols=15 Identities=33% Similarity=0.818 Sum_probs=11.7
Q ss_pred CcccCCccccccCCc
Q 036604 162 KVHECSICGAEFSSG 176 (257)
Q Consensus 162 kp~~C~~C~k~F~~~ 176 (257)
+.|+|.+||..|.-.
T Consensus 2 ~~~~C~~CG~vYd~e 16 (55)
T COG1773 2 KRWRCSVCGYVYDPE 16 (55)
T ss_pred CceEecCCceEeccc
Confidence 468999999888643
No 162
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.40 E-value=15 Score=29.79 Aligned_cols=57 Identities=21% Similarity=0.348 Sum_probs=42.4
Q ss_pred cCCccccccCCchhhhhhccc-cc---------ccc---C--CCcCccccCCCCcccccccccCCCccccCC
Q 036604 165 ECSICGAEFSSGQALGGHMRR-HR---------AFT---T--STTALTMGTSSSLDRQSQQAKKPRNILQLD 221 (257)
Q Consensus 165 ~C~~C~k~F~~~~~L~~H~r~-H~---------~~~---c--~~c~~~f~~~~~l~~~~~~~~~~~~~~~~d 221 (257)
.|.+|.+.|.+...|..|+.- |. |.- | ..|+..|.+...-+.|...+++-+....+|
T Consensus 108 sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk~Pa~frFd 179 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHKYPADFRFD 179 (253)
T ss_pred hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhccCCcceeec
Confidence 899999999999999999753 31 211 4 789999999888777777776655544444
No 163
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.32 E-value=34 Score=32.32 Aligned_cols=30 Identities=23% Similarity=0.294 Sum_probs=24.9
Q ss_pred CCCcceecCCCCcccCCccchhhhhhhcCC
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGHRASHKK 107 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H~~~H~~ 107 (257)
...+|.+|..||.+|........||..|..
T Consensus 414 y~~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 414 YKDSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred ccCCcchhcccccccccchhhhhHhhhhhh
Confidence 345778999999999999988888887753
No 164
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=25.89 E-value=20 Score=25.59 Aligned_cols=38 Identities=18% Similarity=0.292 Sum_probs=24.3
Q ss_pred CCcccCCccccccCCchhhhhhcccccc-ccCCCcCccccC
Q 036604 161 NKVHECSICGAEFSSGQALGGHMRRHRA-FTTSTTALTMGT 200 (257)
Q Consensus 161 ekp~~C~~C~k~F~~~~~L~~H~r~H~~-~~c~~c~~~f~~ 200 (257)
.|.|.|+.||..-.....++.-. -.+ ..|..|+.+|.-
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk~~--~~g~~~Cg~CGls~e~ 58 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKKTV--NIGTAVCGNCGLSFEC 58 (104)
T ss_pred CceEecCccCCeeeeEEEEEecC--ceeEEEcccCcceEEE
Confidence 58899999998765544433211 111 129999998864
No 165
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=25.84 E-value=32 Score=24.13 Aligned_cols=33 Identities=15% Similarity=0.219 Sum_probs=21.6
Q ss_pred CcccCCccccccCCchhhhhhcccccccc-CCCcCccccCCC
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFT-TSTTALTMGTSS 202 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~-c~~c~~~f~~~~ 202 (257)
..|.|+.|++.=.. |.-.|-- |..|++.|+--.
T Consensus 35 a~y~CpfCgk~~vk--------R~a~GIW~C~~C~~~~AGGA 68 (90)
T PTZ00255 35 AKYFCPFCGKHAVK--------RQAVGIWRCKGCKKTVAGGA 68 (90)
T ss_pred CCccCCCCCCCcee--------eeeeEEEEcCCCCCEEeCCc
Confidence 67999999864221 2223433 999999887544
No 166
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=25.19 E-value=31 Score=20.18 Aligned_cols=25 Identities=28% Similarity=0.590 Sum_probs=18.5
Q ss_pred cccCCccccccCCc--hhhhhhccccc
Q 036604 163 VHECSICGAEFSSG--QALGGHMRRHR 187 (257)
Q Consensus 163 p~~C~~C~k~F~~~--~~L~~H~r~H~ 187 (257)
.-+|+.||-.|... ..-+.|.+-|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 46899999988754 45677777665
No 167
>PF14353 CpXC: CpXC protein
Probab=25.14 E-value=30 Score=25.64 Aligned_cols=25 Identities=20% Similarity=0.433 Sum_probs=19.8
Q ss_pred cceecCCCCcccCCccchhhhhhhc
Q 036604 81 YVYQCKTCNRCFPSFQALGGHRASH 105 (257)
Q Consensus 81 k~~~C~~C~k~F~~~~~L~~H~~~H 105 (257)
-.|.|+.||+.|.-...+..|-..+
T Consensus 37 ~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred CEEECCCCCCceecCCCEEEEcCCC
Confidence 4589999999998888777765544
No 168
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.11 E-value=62 Score=23.68 Aligned_cols=27 Identities=22% Similarity=0.264 Sum_probs=20.5
Q ss_pred CcceecCCCCcccCCccchhhhhhhcC
Q 036604 80 LYVYQCKTCNRCFPSFQALGGHRASHK 106 (257)
Q Consensus 80 ~k~~~C~~C~k~F~~~~~L~~H~~~H~ 106 (257)
...|+|+.|.+.|-..-.+-.|...|.
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred ccceeCCCCCCccccccchhhhhhccC
Confidence 346888888888887777777877775
No 169
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=24.79 E-value=31 Score=25.55 Aligned_cols=27 Identities=30% Similarity=0.459 Sum_probs=23.1
Q ss_pred CCCcceecCCCCcccCCccchhhhhhh
Q 036604 78 TGLYVYQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 78 ~~~k~~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
.|--.|-|-.|.+-|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 345568999999999999999999875
No 170
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.34 E-value=39 Score=29.11 Aligned_cols=25 Identities=20% Similarity=0.488 Sum_probs=12.5
Q ss_pred CcccCCccccc----cCCchhhhhhcccc
Q 036604 162 KVHECSICGAE----FSSGQALGGHMRRH 186 (257)
Q Consensus 162 kp~~C~~C~k~----F~~~~~L~~H~r~H 186 (257)
|.-+|.+|++. |.....|..-+..+
T Consensus 274 k~~~c~vC~~~t~g~~~~akeL~~~L~~k 302 (313)
T KOG1813|consen 274 KGEKCYVCSQQTHGSFNVAKELLVSLKLK 302 (313)
T ss_pred cCCcceecccccccccchHHHHHHHHHhh
Confidence 33456666653 44445555544433
No 171
>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=24.30 E-value=33 Score=19.52 Aligned_cols=14 Identities=29% Similarity=0.612 Sum_probs=9.4
Q ss_pred CcccCCccccccCC
Q 036604 162 KVHECSICGAEFSS 175 (257)
Q Consensus 162 kp~~C~~C~k~F~~ 175 (257)
.+=.|+.||-.+.+
T Consensus 20 ~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 20 VEGVCDNCGGELVQ 33 (36)
T ss_dssp STTBCTTTTEBEBE
T ss_pred CCCccCCCCCeeEe
Confidence 55678888865544
No 172
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=24.12 E-value=33 Score=31.51 Aligned_cols=22 Identities=36% Similarity=0.664 Sum_probs=20.0
Q ss_pred eecCCCCcccCCccchhhhhhh
Q 036604 83 YQCKTCNRCFPSFQALGGHRAS 104 (257)
Q Consensus 83 ~~C~~C~k~F~~~~~L~~H~~~ 104 (257)
+-|.+|.|+|.+..+|+.|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7799999999999999999764
No 173
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=24.06 E-value=58 Score=28.71 Aligned_cols=52 Identities=10% Similarity=0.037 Sum_probs=34.2
Q ss_pred CcceecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhh
Q 036604 80 LYVYQCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDR 131 (257)
Q Consensus 80 ~k~~~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~ 131 (257)
...|.|++|++.=.+...|..|+..-..+-++.+....|...-..|+.|.+.
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~~~~~qp~~~~~ 128 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAANPEMQPIHSKE 128 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeeccccCcccCchhhhh
Confidence 3479999999988888889999765444444444334555544445555544
No 174
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.89 E-value=55 Score=25.57 Aligned_cols=28 Identities=11% Similarity=0.195 Sum_probs=21.9
Q ss_pred chhhhhhccccccccCCCcCccccCCCC
Q 036604 176 GQALGGHMRRHRAFTTSTTALTMGTSSS 203 (257)
Q Consensus 176 ~~~L~~H~r~H~~~~c~~c~~~f~~~~~ 203 (257)
...|-.|+..|.|.||++|.|.......
T Consensus 126 a~slP~hi~~~~g~KCPvC~K~V~sDd~ 153 (205)
T KOG0801|consen 126 ADSLPVHIMDHSGMKCPVCHKVVPSDDA 153 (205)
T ss_pred hhccceeeeccCCccCCccccccCCCcc
Confidence 4467788888999999999887766553
No 175
>PF12907 zf-met2: Zinc-binding
Probab=23.66 E-value=14 Score=21.68 Aligned_cols=26 Identities=27% Similarity=0.479 Sum_probs=19.0
Q ss_pred ccCCccccccCCc---hhhhhhcc-ccccc
Q 036604 164 HECSICGAEFSSG---QALGGHMR-RHRAF 189 (257)
Q Consensus 164 ~~C~~C~k~F~~~---~~L~~H~r-~H~~~ 189 (257)
+.|.+|-.+|... ..|..|.. .|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 6899999888654 45888876 56654
No 176
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=23.26 E-value=36 Score=23.86 Aligned_cols=33 Identities=15% Similarity=0.286 Sum_probs=21.7
Q ss_pred CcccCCccccccCCchhhhhhcccccccc-CCCcCccccCCC
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFT-TSTTALTMGTSS 202 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~-c~~c~~~f~~~~ 202 (257)
..|.|+.|++.-. .|.-.|-- |..|++.|+--.
T Consensus 35 a~y~CpfCgk~~v--------kR~a~GIW~C~~C~~~~AGGA 68 (90)
T PRK03976 35 AKHVCPVCGRPKV--------KRVGTGIWECRKCGAKFAGGA 68 (90)
T ss_pred cCccCCCCCCCce--------EEEEEEEEEcCCCCCEEeCCc
Confidence 5799999986522 12334433 999998887544
No 177
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=22.76 E-value=15 Score=31.60 Aligned_cols=9 Identities=22% Similarity=0.512 Sum_probs=4.1
Q ss_pred eecCCCCcc
Q 036604 83 YQCKTCNRC 91 (257)
Q Consensus 83 ~~C~~C~k~ 91 (257)
-.|++||..
T Consensus 173 g~CPvCGs~ 181 (290)
T PF04216_consen 173 GYCPVCGSP 181 (290)
T ss_dssp SS-TTT---
T ss_pred CcCCCCCCc
Confidence 479999974
No 178
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=22.08 E-value=33 Score=25.41 Aligned_cols=24 Identities=25% Similarity=0.450 Sum_probs=21.7
Q ss_pred CcccCCccccccCCchhhhhhccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRR 185 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~ 185 (257)
-.|-|-.|.+-|.....|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 458899999999999999999875
No 179
>PRK12496 hypothetical protein; Provisional
Probab=21.97 E-value=60 Score=25.44 Aligned_cols=29 Identities=7% Similarity=0.089 Sum_probs=20.7
Q ss_pred CcccCCccccccCCchhhhhhccccccccCCCcCcccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALTMG 199 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~f~ 199 (257)
..|.|.-|++.|.... .++.|+.||....
T Consensus 126 w~~~C~gC~~~~~~~~---------~~~~C~~CG~~~~ 154 (164)
T PRK12496 126 WRKVCKGCKKKYPEDY---------PDDVCEICGSPVK 154 (164)
T ss_pred eeEECCCCCccccCCC---------CCCcCCCCCChhh
Confidence 3588999999996431 3456999986543
No 180
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=21.25 E-value=32 Score=29.89 Aligned_cols=23 Identities=17% Similarity=0.371 Sum_probs=17.1
Q ss_pred CcccCCccccccCCchhhhhhcc
Q 036604 162 KVHECSICGAEFSSGQALGGHMR 184 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r 184 (257)
+.|+|+.|+..|-+..-++.|..
T Consensus 18 ~~YtCPRCn~~YCsl~CYr~h~~ 40 (383)
T KOG4317|consen 18 REYTCPRCNLLYCSLKCYRNHKH 40 (383)
T ss_pred ccccCCCCCccceeeeeecCCCc
Confidence 34999999888877766666644
No 181
>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=20.80 E-value=54 Score=19.20 Aligned_cols=13 Identities=15% Similarity=0.345 Sum_probs=10.6
Q ss_pred cceecCCCCcccC
Q 036604 81 YVYQCKTCNRCFP 93 (257)
Q Consensus 81 k~~~C~~C~k~F~ 93 (257)
++-.|+.|+..|.
T Consensus 28 ~~~~CpYCg~~yv 40 (40)
T PF10276_consen 28 GPVVCPYCGTRYV 40 (40)
T ss_dssp CEEEETTTTEEEE
T ss_pred CeEECCCCCCEEC
Confidence 4689999999873
No 182
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=20.79 E-value=63 Score=18.86 Aligned_cols=7 Identities=29% Similarity=0.833 Sum_probs=2.5
Q ss_pred cccCCcc
Q 036604 163 VHECSIC 169 (257)
Q Consensus 163 p~~C~~C 169 (257)
.+.|++|
T Consensus 36 ~~~CP~C 42 (42)
T PF15227_consen 36 GFSCPEC 42 (42)
T ss_dssp T---SSS
T ss_pred CCCCcCC
Confidence 3778776
No 183
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=20.78 E-value=29 Score=30.09 Aligned_cols=26 Identities=23% Similarity=0.328 Sum_probs=22.8
Q ss_pred CcccCCccccccCCchhhhhhccccc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHR 187 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~ 187 (257)
-.|+|+.|...|-.--..-.|...|.
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHhh
Confidence 57999999999999888888888776
No 184
>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=20.55 E-value=55 Score=32.11 Aligned_cols=59 Identities=19% Similarity=0.355 Sum_probs=37.2
Q ss_pred ecCCCCcccCCccchhhhhhhcCCCCcccCchhhhhhcccCchhhhhhccCcchhHHHHHhhccccchhhhhhcCCCCCc
Q 036604 84 QCKTCNRCFPSFQALGGHRASHKKPKVINNNIEASKKAFVLMDEEDDRFSNMSTTLSLQMANNRDAANLCARTNNKANKV 163 (257)
Q Consensus 84 ~C~~C~k~F~~~~~L~~H~~~H~~~kp~~C~~~~c~~~f~~C~~C~k~f~~~~~l~~H~~~h~~~~~~~~~~~~~~~ekp 163 (257)
-|..||-.|.-...|-.-. .++.-+. |..|+.|.+-+....+.+.| -.+
T Consensus 92 nCt~CGPr~~i~~~lpydr-~~t~m~~-----------f~~C~~C~~ey~~p~~rr~h-------------------~~~ 140 (711)
T TIGR00143 92 SCTHCGPRFTIIEALPYDR-ENTSMAD-----------FPLCPDCAKEYKDPLDRRFH-------------------AQP 140 (711)
T ss_pred cccCCCCCeEEeecCCCCC-CCcCCCC-----------CcCCHHHHHHhcCCccccCC-------------------CCC
Confidence 5999999998777655322 2332233 34489998888765443322 257
Q ss_pred ccCCcccccc
Q 036604 164 HECSICGAEF 173 (257)
Q Consensus 164 ~~C~~C~k~F 173 (257)
-.|..||-..
T Consensus 141 ~~C~~Cgp~l 150 (711)
T TIGR00143 141 IACPRCGPQL 150 (711)
T ss_pred ccCCCCCcEE
Confidence 7899998543
No 185
>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=20.22 E-value=32 Score=26.10 Aligned_cols=15 Identities=33% Similarity=0.747 Sum_probs=12.9
Q ss_pred CCcccCCccccccCC
Q 036604 161 NKVHECSICGAEFSS 175 (257)
Q Consensus 161 ekp~~C~~C~k~F~~ 175 (257)
.+|.+|..||..|.-
T Consensus 110 g~~~RCpeCG~~fkL 124 (136)
T PF01215_consen 110 GKPQRCPECGQVFKL 124 (136)
T ss_dssp TSEEEETTTEEEEEE
T ss_pred CCccCCCCCCeEEEE
Confidence 379999999999974
No 186
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=20.19 E-value=39 Score=19.31 Aligned_cols=13 Identities=23% Similarity=0.652 Sum_probs=7.8
Q ss_pred CCcccCCcccccc
Q 036604 161 NKVHECSICGAEF 173 (257)
Q Consensus 161 ekp~~C~~C~k~F 173 (257)
.+-|+|.+||...
T Consensus 4 ~~~YkC~~CGniV 16 (36)
T PF06397_consen 4 GEFYKCEHCGNIV 16 (36)
T ss_dssp TEEEE-TTT--EE
T ss_pred ccEEEccCCCCEE
Confidence 3679999999764
No 187
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=20.12 E-value=35 Score=27.67 Aligned_cols=31 Identities=26% Similarity=0.637 Sum_probs=0.0
Q ss_pred CCcccCCccc-cccCCchhhhhhcc--ccc-cccC
Q 036604 161 NKVHECSICG-AEFSSGQALGGHMR--RHR-AFTT 191 (257)
Q Consensus 161 ekp~~C~~C~-k~F~~~~~L~~H~r--~H~-~~~c 191 (257)
.+.|.|.||| .+|.-+..+.+|-. +|. |-+|
T Consensus 99 ~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~Glrc 133 (196)
T PF11931_consen 99 GVEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRC 133 (196)
T ss_dssp -----------------------------------
T ss_pred CCeeeeEeCCCcceecHHHHHHhcChhHHHccChh
Confidence 4889999997 46777888888854 564 4455
No 188
>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=20.01 E-value=51 Score=24.13 Aligned_cols=27 Identities=19% Similarity=0.239 Sum_probs=19.6
Q ss_pred CcccCCccccccCCchhhhhhccccccccCCCcCcc
Q 036604 162 KVHECSICGAEFSSGQALGGHMRRHRAFTTSTTALT 197 (257)
Q Consensus 162 kp~~C~~C~k~F~~~~~L~~H~r~H~~~~c~~c~~~ 197 (257)
-...|..||+.|..... ...|+.|+..
T Consensus 69 ~~~~C~~Cg~~~~~~~~---------~~~CP~Cgs~ 95 (115)
T TIGR00100 69 VECECEDCSEEVSPEID---------LYRCPKCHGI 95 (115)
T ss_pred cEEEcccCCCEEecCCc---------CccCcCCcCC
Confidence 35889999998876532 3459999843
Done!