Query 015460
Match_columns 406
No_of_seqs 310 out of 1901
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:31:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015460.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015460hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2893 Zn finger protein [Gen 99.9 4.3E-25 9.4E-30 208.1 21.0 93 1-94 1-93 (341)
2 KOG2462 C2H2-type Zn-finger pr 99.5 1.4E-14 2.9E-19 140.1 5.5 75 14-100 164-240 (279)
3 KOG2462 C2H2-type Zn-finger pr 99.4 7.6E-14 1.7E-18 134.9 2.2 72 13-96 189-264 (279)
4 KOG3623 Homeobox transcription 99.2 4.1E-12 8.8E-17 135.2 1.2 81 4-96 886-971 (1007)
5 KOG3576 Ovo and related transc 99.1 1.8E-11 3.9E-16 114.2 0.5 91 10-100 116-237 (267)
6 KOG3576 Ovo and related transc 99.0 3.7E-11 8.1E-16 112.1 0.3 62 9-70 142-219 (267)
7 KOG3623 Homeobox transcription 98.9 2E-10 4.3E-15 122.5 1.6 62 10-71 239-317 (1007)
8 KOG1074 Transcriptional repres 98.8 1.7E-09 3.7E-14 117.1 1.9 79 14-100 608-693 (958)
9 KOG1074 Transcriptional repres 98.7 4.9E-09 1.1E-13 113.6 2.2 76 10-85 352-431 (958)
10 PHA00733 hypothetical protein 98.5 6.2E-08 1.3E-12 85.3 3.9 76 11-100 39-124 (128)
11 PHA00733 hypothetical protein 98.5 6.8E-08 1.5E-12 85.1 4.1 54 8-61 69-125 (128)
12 KOG3608 Zn finger proteins [Ge 98.5 5.2E-08 1.1E-12 97.4 2.7 95 8-104 203-321 (467)
13 PHA02768 hypothetical protein; 98.5 5.6E-08 1.2E-12 73.4 1.9 39 14-52 8-48 (55)
14 KOG3608 Zn finger proteins [Ge 98.3 6.3E-07 1.4E-11 89.8 5.4 83 14-97 266-374 (467)
15 KOG3993 Transcription factor ( 98.3 1.6E-07 3.5E-12 95.7 1.0 90 13-103 268-384 (500)
16 PLN03086 PRLI-interacting fact 98.3 9.8E-07 2.1E-11 94.3 6.0 58 9-69 450-510 (567)
17 PHA02768 hypothetical protein; 98.2 2.9E-07 6.4E-12 69.5 0.2 44 35-92 5-48 (55)
18 PHA00616 hypothetical protein 97.9 2.7E-06 5.7E-11 61.6 0.7 33 35-67 1-33 (44)
19 PHA00732 hypothetical protein 97.9 6.7E-06 1.4E-10 66.7 3.0 42 14-58 4-47 (79)
20 PHA00732 hypothetical protein 97.7 1.8E-05 3.8E-10 64.3 2.2 49 35-100 1-49 (79)
21 KOG3993 Transcription factor ( 97.6 1.5E-05 3.2E-10 81.7 0.9 48 14-61 298-382 (500)
22 COG5189 SFP1 Putative transcri 97.6 2.1E-05 4.6E-10 78.2 0.9 64 33-96 347-419 (423)
23 PF05605 zf-Di19: Drought indu 97.4 0.00014 3E-09 54.5 3.7 46 12-60 3-54 (54)
24 PF13465 zf-H2C2_2: Zinc-finge 97.4 6.6E-05 1.4E-09 48.2 1.4 21 26-46 1-25 (26)
25 KOG2893 Zn finger protein [Gen 97.3 0.0027 6E-08 61.3 11.8 54 291-344 283-336 (341)
26 PF00096 zf-C2H2: Zinc finger, 97.3 8.1E-05 1.7E-09 45.8 0.9 22 36-57 1-22 (23)
27 PF13894 zf-C2H2_4: C2H2-type 97.2 0.00015 3.2E-09 44.2 1.2 24 36-59 1-24 (24)
28 PLN03086 PRLI-interacting fact 97.2 0.00033 7.3E-09 75.3 4.6 64 33-100 451-539 (567)
29 PF12756 zf-C2H2_2: C2H2 type 97.1 0.00024 5.2E-09 57.7 1.6 72 14-99 2-74 (100)
30 PF13912 zf-C2H2_6: C2H2-type 96.9 0.00033 7.1E-09 44.8 1.0 26 35-60 1-26 (27)
31 PHA00616 hypothetical protein 96.7 0.00072 1.6E-08 49.0 1.1 29 13-41 2-35 (44)
32 COG5189 SFP1 Putative transcri 96.4 0.0011 2.4E-08 66.2 0.9 48 8-55 345-418 (423)
33 PF00096 zf-C2H2: Zinc finger, 96.4 0.0018 3.9E-08 39.7 1.5 19 14-32 3-21 (23)
34 PF12756 zf-C2H2_2: C2H2 type 96.3 0.0015 3.3E-08 52.9 1.3 23 35-57 50-72 (100)
35 PF09237 GAGA: GAGA factor; I 96.3 0.0015 3.2E-08 48.8 0.9 31 33-63 22-52 (54)
36 smart00355 ZnF_C2H2 zinc finge 96.2 0.003 6.5E-08 38.6 1.8 23 36-58 1-23 (26)
37 KOG1924 RhoA GTPase effector D 96.0 0.082 1.8E-06 58.6 12.8 9 242-250 608-616 (1102)
38 PF05605 zf-Di19: Drought indu 95.9 0.0088 1.9E-07 44.7 3.3 51 35-98 2-52 (54)
39 PF13465 zf-H2C2_2: Zinc-finge 95.6 0.0071 1.5E-07 38.7 1.5 19 50-68 1-19 (26)
40 PF13894 zf-C2H2_4: C2H2-type 95.2 0.013 2.8E-07 35.4 1.7 19 14-32 3-21 (24)
41 PF12171 zf-C2H2_jaz: Zinc-fin 95.0 0.01 2.3E-07 38.0 1.0 20 13-32 3-22 (27)
42 PF13909 zf-H2C2_5: C2H2-type 94.8 0.013 2.9E-07 36.3 1.0 24 36-60 1-24 (24)
43 KOG3671 Actin regulatory prote 94.6 2.7 5.7E-05 45.0 17.8 18 332-349 541-558 (569)
44 PF12874 zf-met: Zinc-finger o 94.5 0.016 3.5E-07 36.1 0.8 21 36-56 1-21 (25)
45 PF13912 zf-C2H2_6: C2H2-type 94.3 0.025 5.4E-07 35.9 1.5 19 14-32 4-22 (27)
46 KOG2231 Predicted E3 ubiquitin 94.0 0.057 1.2E-06 59.3 4.4 42 14-56 118-170 (669)
47 COG5236 Uncharacterized conser 93.9 0.041 8.9E-07 55.8 2.9 72 14-97 223-303 (493)
48 KOG1924 RhoA GTPase effector D 93.9 0.21 4.6E-06 55.5 8.5 10 370-379 692-701 (1102)
49 PF12171 zf-C2H2_jaz: Zinc-fin 93.8 0.027 5.9E-07 36.1 0.9 22 36-57 2-23 (27)
50 smart00355 ZnF_C2H2 zinc finge 93.4 0.057 1.2E-06 32.7 1.9 19 14-32 3-21 (26)
51 PF12874 zf-met: Zinc-finger o 92.6 0.075 1.6E-06 33.0 1.5 20 13-32 2-21 (25)
52 KOG2482 Predicted C2H2-type Zn 91.9 0.082 1.8E-06 53.6 1.7 91 10-100 194-359 (423)
53 PF09237 GAGA: GAGA factor; I 91.3 0.17 3.7E-06 38.0 2.5 26 7-32 19-45 (54)
54 COG5048 FOG: Zn-finger [Genera 91.0 0.079 1.7E-06 52.5 0.5 54 14-67 292-355 (467)
55 smart00451 ZnF_U1 U1-like zinc 90.9 0.18 3.9E-06 33.6 2.1 20 13-32 5-24 (35)
56 KOG1146 Homeobox protein [Gene 90.4 0.12 2.6E-06 60.1 1.4 84 14-97 439-540 (1406)
57 PRK04860 hypothetical protein; 88.9 0.25 5.5E-06 45.3 2.0 32 34-69 118-149 (160)
58 KOG2231 Predicted E3 ubiquitin 88.5 0.35 7.6E-06 53.3 3.1 46 14-59 185-236 (669)
59 PF09538 FYDLN_acid: Protein o 88.1 0.3 6.4E-06 42.1 1.8 37 8-51 6-42 (108)
60 PF13913 zf-C2HC_2: zinc-finge 87.2 0.43 9.4E-06 30.4 1.7 18 14-32 5-22 (25)
61 smart00451 ZnF_U1 U1-like zinc 86.8 0.39 8.4E-06 32.0 1.5 23 35-57 3-25 (35)
62 COG5048 FOG: Zn-finger [Genera 85.6 0.36 7.8E-06 47.8 1.1 60 34-103 288-351 (467)
63 PF13913 zf-C2HC_2: zinc-finge 85.5 0.49 1.1E-05 30.1 1.4 20 36-56 3-22 (25)
64 KOG1146 Homeobox protein [Gene 84.8 0.37 7.9E-06 56.3 0.9 82 14-97 1263-1350(1406)
65 TIGR02300 FYDLN_acid conserved 83.1 0.73 1.6E-05 40.8 1.8 38 8-52 6-43 (129)
66 PHA03247 large tegument protei 82.2 1.7E+02 0.0037 38.0 23.6 10 41-50 2470-2479(3151)
67 COG5236 Uncharacterized conser 80.3 1.1 2.5E-05 45.7 2.3 87 14-108 154-253 (493)
68 PF05443 ROS_MUCR: ROS/MUCR tr 79.9 0.79 1.7E-05 40.9 0.9 28 33-63 70-97 (132)
69 COG4049 Uncharacterized protei 76.5 1.1 2.4E-05 34.4 0.7 26 7-32 12-38 (65)
70 PF13909 zf-H2C2_5: C2H2-type 74.3 2.3 5E-05 26.1 1.6 18 14-32 3-20 (24)
71 KOG4173 Alpha-SNAP protein [In 73.8 0.95 2.1E-05 43.3 -0.3 82 14-97 82-168 (253)
72 PF09986 DUF2225: Uncharacteri 73.3 0.81 1.8E-05 43.7 -0.9 35 14-48 8-61 (214)
73 smart00531 TFIIE Transcription 72.4 1.8 3.8E-05 38.9 1.1 19 34-52 98-116 (147)
74 KOG4173 Alpha-SNAP protein [In 71.5 1.2 2.5E-05 42.7 -0.3 47 14-60 109-171 (253)
75 PF02892 zf-BED: BED zinc fing 70.7 2.3 4.9E-05 30.1 1.1 22 35-56 16-41 (45)
76 COG4888 Uncharacterized Zn rib 69.7 0.99 2.1E-05 38.4 -1.0 14 33-46 20-33 (104)
77 KOG1280 Uncharacterized conser 69.1 2.8 6.1E-05 42.9 1.8 82 10-100 7-105 (381)
78 PRK06266 transcription initiat 68.5 2.9 6.2E-05 39.0 1.6 18 34-51 116-133 (178)
79 PRK00464 nrdR transcriptional 67.6 1.4 3E-05 40.3 -0.7 39 14-53 3-46 (154)
80 TIGR00373 conserved hypothetic 67.3 3 6.5E-05 38.0 1.5 17 35-51 109-125 (158)
81 PF14353 CpXC: CpXC protein 66.6 2.9 6.2E-05 36.3 1.2 44 14-57 4-60 (128)
82 COG4957 Predicted transcriptio 66.5 2.4 5.2E-05 38.0 0.7 25 36-63 77-101 (148)
83 smart00614 ZnF_BED BED zinc fi 65.6 3.8 8.2E-05 30.0 1.5 8 49-56 37-44 (50)
84 PF13717 zinc_ribbon_4: zinc-r 63.7 3 6.5E-05 28.8 0.6 32 14-46 5-36 (36)
85 PF13719 zinc_ribbon_5: zinc-r 61.5 2.9 6.3E-05 28.9 0.2 31 14-46 5-36 (37)
86 COG4530 Uncharacterized protei 61.4 5.3 0.00011 34.7 1.8 38 8-53 6-43 (129)
87 PF06220 zf-U1: U1 zinc finger 61.0 6 0.00013 27.7 1.7 22 11-32 3-26 (38)
88 KOG3408 U1-like Zn-finger-cont 60.7 3.7 8E-05 36.1 0.7 23 35-57 57-79 (129)
89 COG2331 Uncharacterized protei 60.6 3.9 8.5E-05 33.2 0.8 29 14-46 15-44 (82)
90 PF04959 ARS2: Arsenite-resist 60.5 2.8 6E-05 40.4 -0.1 30 33-62 75-104 (214)
91 TIGR02098 MJ0042_CXXC MJ0042 f 59.9 3.1 6.6E-05 28.5 0.1 32 14-46 5-36 (38)
92 KOG3214 Uncharacterized Zn rib 59.4 4 8.7E-05 34.8 0.7 35 14-48 26-60 (109)
93 PF09986 DUF2225: Uncharacteri 57.3 4.1 8.8E-05 38.9 0.5 55 33-88 3-61 (214)
94 PRK09678 DNA-binding transcrip 55.3 2.9 6.3E-05 33.5 -0.7 38 13-50 3-44 (72)
95 PHA00626 hypothetical protein 54.7 4.1 8.8E-05 31.2 -0.0 33 14-48 3-36 (59)
96 KOG2785 C2H2-type Zn-finger pr 54.7 10 0.00023 39.3 2.9 45 12-56 166-241 (390)
97 KOG4124 Putative transcription 54.0 3 6.5E-05 42.8 -1.1 62 33-94 347-417 (442)
98 KOG3671 Actin regulatory prote 54.0 3.3E+02 0.0071 29.7 15.7 6 349-354 506-511 (569)
99 COG3357 Predicted transcriptio 53.1 5.3 0.00011 33.5 0.4 15 33-47 56-70 (97)
100 PRK04023 DNA polymerase II lar 52.6 13 0.00028 43.2 3.5 24 62-85 650-673 (1121)
101 PF04959 ARS2: Arsenite-resist 52.6 5.8 0.00013 38.2 0.7 26 7-32 72-98 (214)
102 smart00614 ZnF_BED BED zinc fi 52.6 8.1 0.00017 28.2 1.3 20 13-32 20-44 (50)
103 COG1198 PriA Primosomal protei 51.9 9.3 0.0002 43.1 2.2 8 14-21 438-445 (730)
104 COG1571 Predicted DNA-binding 51.5 8 0.00017 40.8 1.5 33 10-49 349-381 (421)
105 KOG2186 Cell growth-regulating 50.9 7.3 0.00016 38.4 1.0 44 14-59 6-52 (276)
106 PF12013 DUF3505: Protein of u 49.7 9 0.0002 32.3 1.3 25 36-60 81-109 (109)
107 PF10716 NdhL: NADH dehydrogen 49.5 11 0.00023 31.0 1.6 19 383-401 45-63 (81)
108 PF05191 ADK_lid: Adenylate ki 48.9 6 0.00013 27.4 0.1 32 14-49 4-35 (36)
109 KOG0119 Splicing factor 1/bran 48.8 3.9E+02 0.0085 29.1 19.5 9 77-85 287-295 (554)
110 COG0068 HypF Hydrogenase matur 48.7 4.8 0.00011 44.8 -0.6 50 14-69 126-179 (750)
111 COG3677 Transposase and inacti 47.8 5.6 0.00012 35.2 -0.3 37 11-49 30-67 (129)
112 cd00729 rubredoxin_SM Rubredox 46.5 11 0.00024 25.6 1.2 22 14-43 5-26 (34)
113 COG4049 Uncharacterized protei 45.5 7.1 0.00015 30.0 0.1 29 33-61 15-43 (65)
114 PRK14890 putative Zn-ribbon RN 45.0 14 0.00031 28.5 1.6 10 35-44 25-34 (59)
115 KOG4849 mRNA cleavage factor I 44.7 3.9E+02 0.0085 28.0 13.2 15 300-314 327-341 (498)
116 KOG2186 Cell growth-regulating 43.9 15 0.00033 36.2 2.0 46 36-96 4-49 (276)
117 COG5112 UFD2 U1-like Zn-finger 43.1 8.2 0.00018 33.3 0.1 21 36-56 56-76 (126)
118 KOG1813 Predicted E3 ubiquitin 43.1 23 0.0005 35.7 3.2 58 33-98 239-302 (313)
119 PTZ00255 60S ribosomal protein 43.0 10 0.00022 31.8 0.6 11 33-43 34-44 (90)
120 KOG2932 E3 ubiquitin ligase in 42.8 4E+02 0.0086 27.5 17.2 18 80-97 152-169 (389)
121 PRK00398 rpoP DNA-directed RNA 42.4 9.2 0.0002 27.4 0.2 27 14-46 6-32 (46)
122 PRK14873 primosome assembly pr 42.3 15 0.00033 40.9 2.0 23 62-84 409-431 (665)
123 COG2888 Predicted Zn-ribbon RN 42.2 16 0.00034 28.4 1.5 32 13-50 11-42 (61)
124 KOG2071 mRNA cleavage and poly 41.5 20 0.00044 39.2 2.7 77 9-85 415-523 (579)
125 PF15269 zf-C2H2_7: Zinc-finge 41.4 14 0.0003 27.3 1.0 21 36-56 21-41 (54)
126 KOG2932 E3 ubiquitin ligase in 41.3 4.2E+02 0.0091 27.3 12.7 28 33-60 142-172 (389)
127 PF04404 ERF: ERF superfamily; 40.9 18 0.00039 32.5 1.9 67 319-396 45-116 (160)
128 KOG2593 Transcription initiati 40.8 15 0.00032 38.8 1.5 35 33-70 126-160 (436)
129 cd00350 rubredoxin_like Rubred 40.6 13 0.00028 25.0 0.7 9 34-42 16-24 (33)
130 PRK14892 putative transcriptio 40.4 12 0.00026 31.8 0.6 7 1-7 1-7 (99)
131 PTZ00303 phosphatidylinositol 40.2 13 0.00029 42.0 1.1 33 14-49 463-495 (1374)
132 KOG4167 Predicted DNA-binding 40.0 6 0.00013 44.2 -1.5 26 35-60 792-817 (907)
133 cd00065 FYVE FYVE domain; Zinc 39.3 18 0.00039 26.5 1.4 27 14-48 5-31 (57)
134 KOG2482 Predicted C2H2-type Zn 39.2 22 0.00047 36.7 2.3 23 35-57 195-217 (423)
135 TIGR00622 ssl1 transcription f 38.8 40 0.00087 29.3 3.6 26 74-99 80-105 (112)
136 KOG2593 Transcription initiati 38.7 14 0.00031 38.9 1.0 33 12-44 128-162 (436)
137 PF01286 XPA_N: XPA protein N- 38.3 11 0.00025 25.9 0.2 24 13-42 5-28 (34)
138 PF01363 FYVE: FYVE zinc finge 37.9 12 0.00026 28.7 0.3 28 13-48 11-38 (69)
139 TIGR02605 CxxC_CxxC_SSSS putat 37.8 8.7 0.00019 28.0 -0.5 11 36-46 6-16 (52)
140 KOG1923 Rac1 GTPase effector F 37.5 1.3E+02 0.0028 34.2 8.1 33 320-352 387-427 (830)
141 KOG2785 C2H2-type Zn-finger pr 36.5 23 0.0005 36.9 2.1 62 36-97 167-242 (390)
142 PF09723 Zn-ribbon_8: Zinc rib 36.0 7.8 0.00017 27.5 -1.0 13 36-48 6-18 (42)
143 PF10571 UPF0547: Uncharacteri 35.8 21 0.00045 23.0 1.1 10 37-46 16-25 (26)
144 smart00659 RPOLCX RNA polymera 34.7 19 0.0004 26.1 0.8 23 14-43 5-27 (44)
145 PF01155 HypA: Hydrogenase exp 34.2 16 0.00035 31.4 0.5 24 13-44 72-95 (113)
146 KOG0717 Molecular chaperone (D 34.2 21 0.00046 38.1 1.4 24 9-32 290-313 (508)
147 COG1997 RPL43A Ribosomal prote 34.2 19 0.00041 30.0 0.9 9 35-43 35-43 (89)
148 smart00064 FYVE Protein presen 34.0 24 0.00052 27.0 1.4 27 14-48 13-39 (68)
149 PF04573 SPC22: Signal peptida 33.9 31 0.00067 32.2 2.3 36 317-353 99-138 (175)
150 TIGR00622 ssl1 transcription f 33.6 22 0.00048 30.9 1.3 19 11-29 14-33 (112)
151 PRK12380 hydrogenase nickel in 32.4 21 0.00045 30.8 0.9 10 14-23 73-82 (113)
152 PF03604 DNA_RNApol_7kD: DNA d 32.3 25 0.00055 23.8 1.1 9 14-22 3-11 (32)
153 PF10013 DUF2256: Uncharacteri 32.0 39 0.00085 24.4 2.1 15 14-28 11-25 (42)
154 TIGR00244 transcriptional regu 31.8 14 0.00031 33.5 -0.2 22 33-54 26-47 (147)
155 PF02176 zf-TRAF: TRAF-type zi 31.1 13 0.00027 27.6 -0.6 33 14-47 12-54 (60)
156 COG1996 RPC10 DNA-directed RNA 30.7 22 0.00049 26.5 0.7 26 12-43 6-32 (49)
157 KOG2807 RNA polymerase II tran 29.9 50 0.0011 33.9 3.2 66 33-100 288-370 (378)
158 COG3364 Zn-ribbon containing p 29.4 31 0.00068 29.6 1.4 24 14-43 5-28 (112)
159 PF09845 DUF2072: Zn-ribbon co 29.1 28 0.00061 31.1 1.1 12 14-25 4-15 (131)
160 PF13878 zf-C2H2_3: zinc-finge 28.9 35 0.00075 24.2 1.4 24 76-99 14-39 (41)
161 COG5188 PRP9 Splicing factor 3 28.6 21 0.00045 37.0 0.3 24 9-32 236-259 (470)
162 KOG0132 RNA polymerase II C-te 28.4 9.8E+02 0.021 27.7 15.7 11 82-92 510-520 (894)
163 COG1327 Predicted transcriptio 28.3 19 0.00041 33.0 -0.0 18 33-50 26-43 (156)
164 KOG4215 Hepatocyte nuclear fac 28.0 18 0.00038 37.7 -0.3 18 14-32 39-56 (432)
165 COG1198 PriA Primosomal protei 27.9 24 0.00051 40.0 0.6 12 73-84 473-484 (730)
166 PF07975 C1_4: TFIIH C1-like d 27.8 20 0.00043 26.9 -0.0 43 14-58 2-44 (51)
167 PF12013 DUF3505: Protein of u 27.7 44 0.00096 28.1 2.1 27 73-99 78-108 (109)
168 PF09416 UPF1_Zn_bind: RNA hel 27.6 42 0.0009 30.8 2.0 28 33-60 12-46 (152)
169 TIGR00100 hypA hydrogenase nic 27.1 30 0.00065 29.9 1.0 12 36-47 71-82 (115)
170 PRK00564 hypA hydrogenase nick 27.0 31 0.00067 29.9 1.0 10 14-23 74-83 (117)
171 KOG3815 Transcription factor D 26.8 23 0.0005 35.9 0.3 42 9-51 34-78 (322)
172 TIGR00515 accD acetyl-CoA carb 25.8 46 0.001 33.4 2.1 31 14-49 29-59 (285)
173 KOG3408 U1-like Zn-finger-cont 25.0 29 0.00062 30.7 0.5 22 10-31 56-77 (129)
174 COG5222 Uncharacterized conser 24.9 1.6E+02 0.0034 30.1 5.6 25 41-70 293-317 (427)
175 PF09332 Mcm10: Mcm10 replicat 24.6 25 0.00053 36.3 -0.0 35 14-48 255-298 (344)
176 PF13240 zinc_ribbon_2: zinc-r 24.6 38 0.00082 21.1 0.8 7 14-20 2-8 (23)
177 smart00531 TFIIE Transcription 24.6 40 0.00086 30.2 1.3 39 9-48 96-136 (147)
178 PF14369 zf-RING_3: zinc-finge 24.3 35 0.00077 23.4 0.7 31 12-47 3-33 (35)
179 COG4338 Uncharacterized protei 24.3 43 0.00093 25.0 1.2 17 14-30 15-31 (54)
180 PRK03681 hypA hydrogenase nick 24.2 35 0.00076 29.4 0.9 8 14-21 73-80 (114)
181 PRK00432 30S ribosomal protein 24.1 38 0.00082 25.1 0.9 27 13-46 22-48 (50)
182 PF05443 ROS_MUCR: ROS/MUCR tr 23.6 42 0.00092 30.0 1.3 17 13-32 74-90 (132)
183 TIGR00280 L37a ribosomal prote 23.5 25 0.00055 29.5 -0.1 11 33-43 33-43 (91)
184 PF07282 OrfB_Zn_ribbon: Putat 23.4 41 0.00089 25.7 1.0 27 14-47 31-58 (69)
185 PRK06266 transcription initiat 23.2 33 0.00073 31.9 0.6 34 10-48 115-149 (178)
186 PRK05654 acetyl-CoA carboxylas 22.8 58 0.0013 32.8 2.2 30 14-48 30-59 (292)
187 cd01410 SIRT7 SIRT7: Eukaryoti 22.6 82 0.0018 29.8 3.1 30 14-43 98-128 (206)
188 smart00734 ZnF_Rad18 Rad18-lik 22.5 67 0.0015 20.5 1.7 17 14-31 4-20 (26)
189 KOG4849 mRNA cleavage factor I 22.1 9.3E+02 0.02 25.3 15.3 17 148-164 237-253 (498)
190 PF07754 DUF1610: Domain of un 22.0 52 0.0011 21.0 1.1 9 34-42 15-23 (24)
191 KOG2636 Splicing factor 3a, su 21.9 55 0.0012 34.9 1.9 41 28-68 394-438 (497)
192 COG1779 C4-type Zn-finger prot 21.9 20 0.00043 34.2 -1.2 31 14-50 17-58 (201)
193 COG1592 Rubrerythrin [Energy p 21.5 47 0.001 30.8 1.2 24 35-71 134-157 (166)
194 COG0186 RpsQ Ribosomal protein 21.5 26 0.00056 29.2 -0.5 37 340-390 45-84 (87)
195 PRK05978 hypothetical protein; 21.4 36 0.00078 31.0 0.4 11 37-47 54-64 (148)
196 PF14446 Prok-RING_1: Prokaryo 21.4 26 0.00057 26.6 -0.4 26 14-47 8-33 (54)
197 cd00730 rubredoxin Rubredoxin; 20.9 33 0.00071 25.5 0.0 11 36-46 2-12 (50)
198 PF13408 Zn_ribbon_recom: Reco 20.7 85 0.0018 22.7 2.2 49 36-96 6-54 (58)
199 smart00834 CxxC_CXXC_SSSS Puta 20.6 39 0.00084 23.0 0.4 15 35-49 5-19 (41)
200 KOG4167 Predicted DNA-binding 20.6 22 0.00047 40.0 -1.4 21 12-32 792-813 (907)
201 TIGR00373 conserved hypothetic 20.6 49 0.0011 30.1 1.1 34 9-47 106-140 (158)
202 KOG1740 Predicted mitochondria 20.4 92 0.002 26.7 2.6 37 340-390 39-78 (107)
203 CHL00142 rps17 ribosomal prote 20.0 27 0.00059 28.8 -0.6 55 319-390 21-79 (84)
204 PRK08572 rps17p 30S ribosomal 20.0 30 0.00066 29.9 -0.4 67 304-389 34-105 (108)
No 1
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=99.94 E-value=4.3e-25 Score=208.14 Aligned_cols=93 Identities=61% Similarity=1.170 Sum_probs=87.1
Q ss_pred CCCCccCCCCccccCccCcccCChHHHHHHhhccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceee
Q 015460 1 MGKKKKRVSSKVWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEI 80 (406)
Q Consensus 1 M~rKkkr~gEKp~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~i 80 (406)
|+||||| ..|+||-+|++.|.++..|.+|++.|.|||++|+|.+.+--.|..|..++|+|...+.+++..+|...+.+|
T Consensus 1 mgrkkkk-~~kpwcwycnrefddekiliqhqkakhfkchichkkl~sgpglsihcmqvhketid~ip~av~gr~~i~vei 79 (341)
T KOG2893|consen 1 MGRKKKK-VDKPWCWYCNREFDDEKILIQHQKAKHFKCHICHKKLFSGPGLSIHCMQVHKETIDKIPAAVHGRDNIHVEI 79 (341)
T ss_pred CCccccc-cCCceeeecccccchhhhhhhhhhhccceeeeehhhhccCCCceeehhhhhhhhhhcccccccCCcceeEEE
Confidence 8999998 789999999999999999999999999999999999999999999999999998889999999999999999
Q ss_pred cCCCCCCHhHHHHH
Q 015460 81 YGMQGIPPDVLAAH 94 (406)
Q Consensus 81 CG~~fi~~~~L~~H 94 (406)
+|+.+|.+...+.-
T Consensus 80 ygmqgip~~~~r~~ 93 (341)
T KOG2893|consen 80 YGMQGIPSGAYRGA 93 (341)
T ss_pred eeccCCCchhhhhh
Confidence 99999999766543
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.51 E-value=1.4e-14 Score=140.09 Aligned_cols=75 Identities=21% Similarity=0.342 Sum_probs=63.6
Q ss_pred cCccCcccCChHHHHHHhh--ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHH
Q 015460 14 CYYCDREFDDEKILVQHQK--AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVL 91 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R--EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L 91 (406)
|++|||.|.....|+.|+| .-+++|.+|||.|.+...|+.|+|+|+|||+|.|+. |++.|.++++|
T Consensus 164 C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~h------------C~kAFADRSNL 231 (279)
T KOG2462|consen 164 CKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPH------------CGKAFADRSNL 231 (279)
T ss_pred CCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCc------------ccchhcchHHH
Confidence 9999999999999999999 669999999999999999999999999999887764 55666666666
Q ss_pred HHHhhhccC
Q 015460 92 AAHYGEEEE 100 (406)
Q Consensus 92 ~~H~k~he~ 100 (406)
+.|+++|.+
T Consensus 232 RAHmQTHS~ 240 (279)
T KOG2462|consen 232 RAHMQTHSD 240 (279)
T ss_pred HHHHHhhcC
Confidence 666666655
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.40 E-value=7.6e-14 Score=134.93 Aligned_cols=72 Identities=19% Similarity=0.309 Sum_probs=66.3
Q ss_pred ccCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCH
Q 015460 13 WCYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPP 88 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~ 88 (406)
.|.+|||.|.+.=.|..|+| ||||.|..|+|+|..++||+.|+++|.+.|.| .|..||+.|...
T Consensus 189 ~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~------------qC~~C~KsFsl~ 256 (279)
T KOG2462|consen 189 ECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKH------------QCPRCGKSFALK 256 (279)
T ss_pred ccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccc------------cCcchhhHHHHH
Confidence 39999999999999999999 99999999999999999999999999888754 456699999999
Q ss_pred hHHHHHhh
Q 015460 89 DVLAAHYG 96 (406)
Q Consensus 89 ~~L~~H~k 96 (406)
+.|.+|++
T Consensus 257 SyLnKH~E 264 (279)
T KOG2462|consen 257 SYLNKHSE 264 (279)
T ss_pred HHHHHhhh
Confidence 99999974
No 4
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.19 E-value=4.1e-12 Score=135.16 Aligned_cols=81 Identities=16% Similarity=0.350 Sum_probs=71.6
Q ss_pred CccCCCCccc-cCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccce
Q 015460 4 KKKRVSSKVW-CYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDI 78 (406)
Q Consensus 4 Kkkr~gEKp~-C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c 78 (406)
|.++..+..| |+.|+|.|...+.|.||.- .|||+|.+|.|+|+.+.+|..|+|.|.|||+|.|
T Consensus 886 k~~kte~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQC------------ 953 (1007)
T KOG3623|consen 886 KHAKTEDGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQC------------ 953 (1007)
T ss_pred ccccCccccchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchh------------
Confidence 3445556678 9999999999999999976 8999999999999999999999999999997655
Q ss_pred eecCCCCCCHhHHHHHhh
Q 015460 79 EIYGMQGIPPDVLAAHYG 96 (406)
Q Consensus 79 ~iCG~~fi~~~~L~~H~k 96 (406)
+.|+++|.+.....+||.
T Consensus 954 dKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 954 DKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred hhhhhhcccccchHhhhc
Confidence 568899999999999985
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.09 E-value=1.8e-11 Score=114.19 Aligned_cols=91 Identities=20% Similarity=0.278 Sum_probs=69.0
Q ss_pred CccccCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccCcccccCCCC---CCC---------
Q 015460 10 SKVWCYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAK---PGR--------- 73 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~---~~r--------- 73 (406)
..+.|.+|+|.|....-|.+|++ .|.|.|..|||.|...-+|+||+|+|+|.++|+|..|. ..|
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 34449999999999999999998 78889999999999999999999999998887776531 111
Q ss_pred ---------------CccceeecCCCCCCHhHHHHHhhhccC
Q 015460 74 ---------------ESTDIEIYGMQGIPPDVLAAHYGEEEE 100 (406)
Q Consensus 74 ---------------~s~~c~iCG~~fi~~~~L~~H~k~he~ 100 (406)
+-|.|+.||-.....+.+..|.+.|..
T Consensus 196 vhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 196 VHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred HcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 124667777776777777777766554
No 6
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.04 E-value=3.7e-11 Score=112.09 Aligned_cols=62 Identities=23% Similarity=0.544 Sum_probs=54.1
Q ss_pred CCccc-cCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccC-----------cccccCCCC
Q 015460 9 SSKVW-CYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKE-----------NVTKVPNAK 70 (406)
Q Consensus 9 gEKp~-C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHge-----------k~~~Cp~~~ 70 (406)
.-|.+ |..|||.|.+-.+|++|+| .|||+|..|+|+|+++..|..|.+.+||. |.|.|..|-
T Consensus 142 ~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg 219 (267)
T KOG3576|consen 142 DVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCG 219 (267)
T ss_pred HHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccC
Confidence 34556 9999999999999999999 89999999999999999999999988863 447787743
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.95 E-value=2e-10 Score=122.51 Aligned_cols=62 Identities=24% Similarity=0.428 Sum_probs=56.0
Q ss_pred CccccCccCcccCChHHHHHHhh-----------------ccccccccccCccCCchhhHhhhhhhccCcccccCCCCC
Q 015460 10 SKVWCYYCDREFDDEKILVQHQK-----------------AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKP 71 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~R-----------------EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~ 71 (406)
+.+.|..|..+|..+..|.+|+. .|.|||.+|||+|+.+.+|+.|+|+|.|||+|.|++|+.
T Consensus 239 ~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkK 317 (1007)
T KOG3623|consen 239 PNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKK 317 (1007)
T ss_pred CCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCccccc
Confidence 33449999999999999999986 678999999999999999999999999999999998653
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.79 E-value=1.7e-09 Score=117.13 Aligned_cols=79 Identities=24% Similarity=0.408 Sum_probs=70.0
Q ss_pred cCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCcccee---ecCCCCC
Q 015460 14 CYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIE---IYGMQGI 86 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~---iCG~~fi 86 (406)
|-+|-|+.+.++.|+.|.| ||||||.+||++|+++.+|+.|+-. |+.|+ ..|-.+.|. +|.+.|.
T Consensus 608 CiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~v-Hka~p-------~~R~q~ScP~~~ic~~kft 679 (958)
T KOG1074|consen 608 CIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSV-HKAKP-------PARVQFSCPSTFICQKKFT 679 (958)
T ss_pred eeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccc-cccCc-------cccccccCCchhhhccccc
Confidence 9999999999999999999 9999999999999999999999844 44443 345667787 9999999
Q ss_pred CHhHHHHHhhhccC
Q 015460 87 PPDVLAAHYGEEEE 100 (406)
Q Consensus 87 ~~~~L~~H~k~he~ 100 (406)
..-.|.+|++.|..
T Consensus 680 n~V~lpQhIriH~~ 693 (958)
T KOG1074|consen 680 NAVTLPQHIRIHLG 693 (958)
T ss_pred ccccccceEEeecC
Confidence 99999999999884
No 9
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.71 E-value=4.9e-09 Score=113.64 Aligned_cols=76 Identities=24% Similarity=0.452 Sum_probs=59.7
Q ss_pred CccccCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCC
Q 015460 10 SKVWCYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQG 85 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~f 85 (406)
.|..|.+|.|.|...+.|+.|.| ||||+|.+||++|+++.+|+.|..+|+.+-+..--+.+..-.-++|.+|-..+
T Consensus 352 ~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e~~p~~~m~p~~~~e~l~~~i~st~~ 431 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHREKYPHVQMNPHPVQEHLQYVITSTGL 431 (958)
T ss_pred ccchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeeccccCCccccCCCCchhhhcceeecccc
Confidence 34459999999999999999999 99999999999999999999998777655443333445555556666664433
No 10
>PHA00733 hypothetical protein
Probab=98.54 E-value=6.2e-08 Score=85.33 Aligned_cols=76 Identities=14% Similarity=0.181 Sum_probs=62.5
Q ss_pred ccc-cCccCcccCChHHHHHH------hh---ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceee
Q 015460 11 KVW-CYYCDREFDDEKILVQH------QK---AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEI 80 (406)
Q Consensus 11 Kp~-C~~CgK~Fs~ks~Lk~H------~R---EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~i 80 (406)
|.+ |.+|++.|.....|+.| +. +++|+|.+|++.|.+...|+.|++.+ ++ .+.|.+
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~------------~~~C~~ 104 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EH------------SKVCPV 104 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCCHHHHHHHHhcC--Cc------------CccCCC
Confidence 344 99999999888777666 22 78999999999999999999998754 21 367889
Q ss_pred cCCCCCCHhHHHHHhhhccC
Q 015460 81 YGMQGIPPDVLAAHYGEEEE 100 (406)
Q Consensus 81 CG~~fi~~~~L~~H~k~he~ 100 (406)
|++.|.....|.+|+....+
T Consensus 105 CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 105 CGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CCCccCCHHHHHHHHHHhcC
Confidence 99999999999999876543
No 11
>PHA00733 hypothetical protein
Probab=98.54 E-value=6.8e-08 Score=85.07 Aligned_cols=54 Identities=24% Similarity=0.398 Sum_probs=49.5
Q ss_pred CCCccc-cCccCcccCChHHHHHHhh--ccccccccccCccCCchhhHhhhhhhccC
Q 015460 8 VSSKVW-CYYCDREFDDEKILVQHQK--AKHFKCHVCHKKLSTAGGMAIHVLQVHKE 61 (406)
Q Consensus 8 ~gEKp~-C~~CgK~Fs~ks~Lk~H~R--EKPfkC~~CgksFss~s~LkrH~rthHge 61 (406)
.+++++ |..||+.|.....|++|++ +++|+|.+|++.|.....|++|++..|+.
T Consensus 69 ~~~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 69 KAVSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred CCCCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 356778 9999999999999999998 78999999999999999999999888763
No 12
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.50 E-value=5.2e-08 Score=97.44 Aligned_cols=95 Identities=20% Similarity=0.331 Sum_probs=69.1
Q ss_pred CCCccc-cCccCcccCChHHHHHHhh------ccccccccccCccCCchhhHhhhhhhccCcccccCCCC----------
Q 015460 8 VSSKVW-CYYCDREFDDEKILVQHQK------AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAK---------- 70 (406)
Q Consensus 8 ~gEKp~-C~~CgK~Fs~ks~Lk~H~R------EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~---------- 70 (406)
.+||.. |.+||+-|+++..|-.|.| ..+|.|..|.|+|.++..|+.|+++|-. .|+|+.|.
T Consensus 203 s~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn--~ykCplCdmtc~~~ssL~ 280 (467)
T KOG3608|consen 203 SNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVN--CYKCPLCDMTCSSASSLT 280 (467)
T ss_pred CCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhh--cccccccccCCCChHHHH
Confidence 467776 8888888888888888876 5678888888888888888888766643 46777531
Q ss_pred -------CCCCccceeecCCCCCCHhHHHHHhhhccCCCCc
Q 015460 71 -------PGRESTDIEIYGMQGIPPDVLAAHYGEEEEVPSK 104 (406)
Q Consensus 71 -------~~r~s~~c~iCG~~fi~~~~L~~H~k~he~~~sk 104 (406)
...+.|+|+.|...+..+.+|.+|...|.+....
T Consensus 281 ~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~ 321 (467)
T KOG3608|consen 281 THIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQ 321 (467)
T ss_pred HHHHhhhccCCCccccchhhhhccHHHHHHHHHhcccccee
Confidence 2245678888888888888888888777654333
No 13
>PHA02768 hypothetical protein; Provisional
Probab=98.48 E-value=5.6e-08 Score=73.43 Aligned_cols=39 Identities=18% Similarity=0.425 Sum_probs=32.7
Q ss_pred cCccCcccCChHHHHHHhh--ccccccccccCccCCchhhH
Q 015460 14 CYYCDREFDDEKILVQHQK--AKHFKCHVCHKKLSTAGGMA 52 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R--EKPfkC~~CgksFss~s~Lk 52 (406)
|++|||.|.+.++|.+|+| .|+|+|..|++.|.+.+.|.
T Consensus 8 C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 8 CPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cchhCCeeccHHHHHHHHHhcCCcccCCcccceecccceeE
Confidence 8888888888888888888 67888888888888877765
No 14
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.32 E-value=6.3e-07 Score=89.83 Aligned_cols=83 Identities=20% Similarity=0.280 Sum_probs=65.5
Q ss_pred cCccCcccCChHHHHHHhh-----ccccccccccCccCCchhhHhhhhhhccCcccccCC--CC----------------
Q 015460 14 CYYCDREFDDEKILVQHQK-----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPN--AK---------------- 70 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~--~~---------------- 70 (406)
|..|+.+....+.|.+|+| +|+|||+.|++.|.+.++|.+|...| .+..|.|.. |.
T Consensus 266 CplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~H-S~~~y~C~h~~C~~s~r~~~q~~~H~~ev 344 (467)
T KOG3608|consen 266 CPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVH-SKTVYQCEHPDCHYSVRTYTQMRRHFLEV 344 (467)
T ss_pred ccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhc-cccceecCCCCCcHHHHHHHHHHHHHHHh
Confidence 7777777777777777777 89999999999999999999998644 477788876 31
Q ss_pred ---CCCCccceeecCCCCCCHhHHHHHhhh
Q 015460 71 ---PGRESTDIEIYGMQGIPPDVLAAHYGE 97 (406)
Q Consensus 71 ---~~r~s~~c~iCG~~fi~~~~L~~H~k~ 97 (406)
.....|.|+.|.+-|..-..|.+|+..
T Consensus 345 hEg~np~~Y~CH~Cdr~ft~G~~L~~HL~k 374 (467)
T KOG3608|consen 345 HEGNNPILYACHCCDRFFTSGKSLSAHLMK 374 (467)
T ss_pred ccCCCCCceeeecchhhhccchhHHHHHHH
Confidence 112347899999999999999999754
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.31 E-value=1.6e-07 Score=95.71 Aligned_cols=90 Identities=19% Similarity=0.310 Sum_probs=69.3
Q ss_pred c-cCccCcccCChHHHHHHhh----ccccccccccCccCCchhhHhhhhhhccCccccc--CC--CC-------------
Q 015460 13 W-CYYCDREFDDEKILVQHQK----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKV--PN--AK------------- 70 (406)
Q Consensus 13 ~-C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~CgksFss~s~LkrH~rthHgek~~~C--p~--~~------------- 70 (406)
| |+.|...|.+...|.+|.- ..-|+|.+|+|.|+...||..|.|.|. -+...- .. .+
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHK-PR~eaa~a~~~P~k~~~~~rae~~ea~ 346 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHK-PRPEAAKAGSPPPKQAVETRAEVQEAE 346 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccC-CchhhhhcCCCChhhhhhhhhhhhhcc
Confidence 5 9999999999999999965 456999999999999999999965554 322111 00 00
Q ss_pred -----CCCCccceeecCCCCCCHhHHHHHhhhccCCCC
Q 015460 71 -----PGRESTDIEIYGMQGIPPDVLAAHYGEEEEVPS 103 (406)
Q Consensus 71 -----~~r~s~~c~iCG~~fi~~~~L~~H~k~he~~~s 103 (406)
....-|.|.+||+.|.++..|++|...|.....
T Consensus 347 rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~ 384 (500)
T KOG3993|consen 347 RSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPL 384 (500)
T ss_pred ccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhcccc
Confidence 111238999999999999999999998877333
No 16
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.27 E-value=9.8e-07 Score=94.34 Aligned_cols=58 Identities=17% Similarity=0.315 Sum_probs=49.0
Q ss_pred CCccc-cCccCcccCChHHHHHHhh--ccccccccccCccCCchhhHhhhhhhccCcccccCCC
Q 015460 9 SSKVW-CYYCDREFDDEKILVQHQK--AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNA 69 (406)
Q Consensus 9 gEKp~-C~~CgK~Fs~ks~Lk~H~R--EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~ 69 (406)
.++++ |++|++.|. ...|+.|++ .+++.|. |++.+ .+..|..|+++|..++.+.|..|
T Consensus 450 l~~H~~C~~Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC 510 (567)
T PLN03086 450 AKNHVHCEKCGQAFQ-QGEMEKHMKVFHEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFC 510 (567)
T ss_pred cccCccCCCCCCccc-hHHHHHHHHhcCCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCC
Confidence 45666 999999996 688999998 7899999 99765 67899999988888888888764
No 17
>PHA02768 hypothetical protein; Provisional
Probab=98.21 E-value=2.9e-07 Score=69.53 Aligned_cols=44 Identities=11% Similarity=0.220 Sum_probs=34.4
Q ss_pred ccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHHH
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVLA 92 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~ 92 (406)
-|+|++||+.|.+.++|.+|+|+|+ +.++ |..|++.|.....|.
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 4899999999999999999999987 3333 455667776665554
No 18
>PHA00616 hypothetical protein
Probab=97.94 E-value=2.7e-06 Score=61.55 Aligned_cols=33 Identities=24% Similarity=0.465 Sum_probs=30.7
Q ss_pred ccccccccCccCCchhhHhhhhhhccCcccccC
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVP 67 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHgek~~~Cp 67 (406)
+|+|..||+.|..+.+|++|++.||+++.+.|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 689999999999999999999999999987775
No 19
>PHA00732 hypothetical protein
Probab=97.93 E-value=6.7e-06 Score=66.75 Aligned_cols=42 Identities=26% Similarity=0.397 Sum_probs=35.3
Q ss_pred cCccCcccCChHHHHHHhh--ccccccccccCccCCchhhHhhhhhh
Q 015460 14 CYYCDREFDDEKILVQHQK--AKHFKCHVCHKKLSTAGGMAIHVLQV 58 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R--EKPfkC~~CgksFss~s~LkrH~rth 58 (406)
|.+||+.|.+...|++|++ ..++.|.+|+++|. .|..|.+++
T Consensus 4 C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~CgKsF~---~l~~H~~~~ 47 (79)
T PHA00732 4 CPICGFTTVTLFALKQHARRNHTLTKCPVCNKSYR---RLNQHFYSQ 47 (79)
T ss_pred CCCCCCccCCHHHHHHHhhcccCCCccCCCCCEeC---Chhhhhccc
Confidence 9999999999999999986 56788999999998 478887544
No 20
>PHA00732 hypothetical protein
Probab=97.72 E-value=1.8e-05 Score=64.30 Aligned_cols=49 Identities=20% Similarity=0.259 Sum_probs=39.1
Q ss_pred ccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHHHHHhhhccC
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVLAAHYGEEEE 100 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~~H~k~he~ 100 (406)
+|+|.+|++.|.+..+|++|++.+|.. +.|+.||+.|. .|..|.+.+.|
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~--------------~~C~~CgKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL--------------TKCPVCNKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC--------------CccCCCCCEeC---ChhhhhcccCC
Confidence 589999999999999999999754431 24788999987 47788766554
No 21
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.64 E-value=1.5e-05 Score=81.74 Aligned_cols=48 Identities=29% Similarity=0.599 Sum_probs=43.3
Q ss_pred cCccCcccCChHHHHHHhh----------------cc---------------------ccccccccCccCCchhhHhhhh
Q 015460 14 CYYCDREFDDEKILVQHQK----------------AK---------------------HFKCHVCHKKLSTAGGMAIHVL 56 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R----------------EK---------------------PfkC~~CgksFss~s~LkrH~r 56 (406)
|.+|+|.|+.-.+|..|+| ++ -|.|.+|+|+|.+...|+.|+.
T Consensus 298 CPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHql 377 (500)
T KOG3993|consen 298 CPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQL 377 (500)
T ss_pred CCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHH
Confidence 9999999999999999988 11 2889999999999999999998
Q ss_pred hhccC
Q 015460 57 QVHKE 61 (406)
Q Consensus 57 thHge 61 (406)
+||..
T Consensus 378 thq~~ 382 (500)
T KOG3993|consen 378 THQRA 382 (500)
T ss_pred hhhcc
Confidence 98854
No 22
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.57 E-value=2.1e-05 Score=78.16 Aligned_cols=64 Identities=23% Similarity=0.398 Sum_probs=39.7
Q ss_pred cccccccc--ccCccCCchhhHhhhhhhc-cCcccccCC------CCCCCCccceeecCCCCCCHhHHHHHhh
Q 015460 33 AKHFKCHV--CHKKLSTAGGMAIHVLQVH-KENVTKVPN------AKPGRESTDIEIYGMQGIPPDVLAAHYG 96 (406)
Q Consensus 33 EKPfkC~~--CgksFss~s~LkrH~rthH-gek~~~Cp~------~~~~r~s~~c~iCG~~fi~~~~L~~H~k 96 (406)
+|||||.+ |.|+++....|+.|++.-| ..+...-+. =....+.|.|++|++++....-|+-|.+
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 57788877 7788877777777764333 111111111 1234677777788877777777776665
No 23
>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=97.45 E-value=0.00014 Score=54.54 Aligned_cols=46 Identities=28% Similarity=0.701 Sum_probs=36.1
Q ss_pred cccCccCcccCChHHHHHHhh------ccccccccccCccCCchhhHhhhhhhcc
Q 015460 12 VWCYYCDREFDDEKILVQHQK------AKHFKCHVCHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 12 p~C~~CgK~Fs~ks~Lk~H~R------EKPfkC~~CgksFss~s~LkrH~rthHg 60 (406)
+.|.+|++.|+ ...|..|.. .+.+.|.+|.+.+. .+|.+|++.+|+
T Consensus 3 f~CP~C~~~~~-~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPYCGKGFS-ESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred cCCCCCCCccC-HHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 44999999544 578999976 46789999998755 489999988774
No 24
>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=97.41 E-value=6.6e-05 Score=48.21 Aligned_cols=21 Identities=38% Similarity=0.725 Sum_probs=14.6
Q ss_pred HHHHHhh----ccccccccccCccC
Q 015460 26 ILVQHQK----AKHFKCHVCHKKLS 46 (406)
Q Consensus 26 ~Lk~H~R----EKPfkC~~CgksFs 46 (406)
+|++|++ ||+|+|++|+++|.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEES
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeC
Confidence 3556665 77777777777775
No 25
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=97.33 E-value=0.0027 Score=61.27 Aligned_cols=54 Identities=33% Similarity=0.447 Sum_probs=40.9
Q ss_pred CCCCCCCCCCCCCCCcccCCCCCCCCCCceEEEEEcccccChHHHhhccCceee
Q 015460 291 ASGPNTGGPSIGPPPVIANKAPATQPAVNEVYLVWEDEAMSMEERRMSSVKYQV 344 (406)
Q Consensus 291 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (406)
++...|+.++.+.+.++...-+++--++.-.-|+-+||.+|.||||+.|+|||-
T Consensus 283 ~sttsttnsta~kpaasitskpatltttsatklihpdedisleerraqlpkyqr 336 (341)
T KOG2893|consen 283 ESTTSTTNSTAGKPAASITSKPATLTTTSATKLIHPDEDISLEERRAQLPKYQR 336 (341)
T ss_pred cccccCcccccccchhhhhcccceeccccceeeeCCcccccHHHHhhhhhhhhh
Confidence 344445555566666655555777766777789999999999999999999984
No 26
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.31 E-value=8.1e-05 Score=45.80 Aligned_cols=22 Identities=27% Similarity=0.730 Sum_probs=17.1
Q ss_pred cccccccCccCCchhhHhhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rt 57 (406)
|+|.+|++.|.++..|++|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 5778888888888888888765
No 27
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.21 E-value=0.00015 Score=44.20 Aligned_cols=24 Identities=25% Similarity=0.661 Sum_probs=18.6
Q ss_pred cccccccCccCCchhhHhhhhhhc
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQVH 59 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rthH 59 (406)
|+|.+|++.|.+...|++|+++||
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 678888888888888888888775
No 28
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.20 E-value=0.00033 Score=75.27 Aligned_cols=64 Identities=16% Similarity=0.203 Sum_probs=45.8
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCcccccCCCC---------------CCCCccceeecCCCCCC----------
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAK---------------PGRESTDIEIYGMQGIP---------- 87 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~---------------~~r~s~~c~iCG~~fi~---------- 87 (406)
+++++|.+|++.|. ...|+.|++.|| +.+.|+ |. ...+.+.|..|++.+..
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H--kpv~Cp-Cg~~~~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~ 526 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH--EPLQCP-CGVVLEKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDR 526 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC--CCccCC-CCCCcchhHHHhhhhccCCCCceeCCCCCCccccCccccchhhh
Confidence 45689999999996 688999999987 567786 41 12344678889888741
Q ss_pred HhHHHHHhhhccC
Q 015460 88 PDVLAAHYGEEEE 100 (406)
Q Consensus 88 ~~~L~~H~k~he~ 100 (406)
...|..|+..+..
T Consensus 527 ~s~Lt~HE~~CG~ 539 (567)
T PLN03086 527 LRGMSEHESICGS 539 (567)
T ss_pred hhhHHHHHHhcCC
Confidence 2367788776543
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.07 E-value=0.00024 Score=57.71 Aligned_cols=72 Identities=21% Similarity=0.279 Sum_probs=17.9
Q ss_pred cCccCcccCChHHHHHHhh-ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHHH
Q 015460 14 CYYCDREFDDEKILVQHQK-AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVLA 92 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~ 92 (406)
|.+|+..|.....|..|++ ...+... ..+.+.....|..+.+. .....+.|.+|++.|.....|.
T Consensus 2 C~~C~~~f~~~~~l~~H~~~~H~~~~~-~~~~l~~~~~~~~~~~~-------------~~~~~~~C~~C~~~f~s~~~l~ 67 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMKKKHGFDIP-DQKYLVDPNRLLNYLRK-------------KVKESFRCPYCNKTFRSREALQ 67 (100)
T ss_dssp -------------------------------------------------------------SSEEBSSSS-EESSHHHHH
T ss_pred ccccccccccccccccccccccccccc-ccccccccccccccccc-------------ccCCCCCCCccCCCCcCHHHHH
Confidence 7778888888888888776 1111111 11112222222222211 1223567777777777777888
Q ss_pred HHhhhcc
Q 015460 93 AHYGEEE 99 (406)
Q Consensus 93 ~H~k~he 99 (406)
.|++.+.
T Consensus 68 ~Hm~~~~ 74 (100)
T PF12756_consen 68 EHMRSKH 74 (100)
T ss_dssp HHHHHTT
T ss_pred HHHcCcc
Confidence 8877543
No 30
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.95 E-value=0.00033 Score=44.75 Aligned_cols=26 Identities=23% Similarity=0.443 Sum_probs=21.9
Q ss_pred ccccccccCccCCchhhHhhhhhhcc
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHg 60 (406)
+|+|.+|++.|.+...|..|++.|++
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 57899999999999999999877753
No 31
>PHA00616 hypothetical protein
Probab=96.66 E-value=0.00072 Score=49.03 Aligned_cols=29 Identities=17% Similarity=0.458 Sum_probs=26.4
Q ss_pred c-cCccCcccCChHHHHHHhh----ccccccccc
Q 015460 13 W-CYYCDREFDDEKILVQHQK----AKHFKCHVC 41 (406)
Q Consensus 13 ~-C~~CgK~Fs~ks~Lk~H~R----EKPfkC~~C 41 (406)
| |..||+.|..++.|++|++ ++++.|+.-
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~ 35 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYF 35 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCCCccceeEE
Confidence 5 9999999999999999998 889998763
No 32
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.40 E-value=0.0011 Score=66.19 Aligned_cols=48 Identities=25% Similarity=0.651 Sum_probs=43.6
Q ss_pred CCCccc-cCc--cCcccCChHHHHHHhh-----------------------ccccccccccCccCCchhhHhhh
Q 015460 8 VSSKVW-CYY--CDREFDDEKILVQHQK-----------------------AKHFKCHVCHKKLSTAGGMAIHV 55 (406)
Q Consensus 8 ~gEKp~-C~~--CgK~Fs~ks~Lk~H~R-----------------------EKPfkC~~CgksFss~s~LkrH~ 55 (406)
.++|+| |.+ |+|.++...-||-|+. +|||.|++|+|+++....|+.|+
T Consensus 345 ~d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 345 KDGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred ecCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecc
Confidence 467999 987 9999999999999976 59999999999999999999995
No 33
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.39 E-value=0.0018 Score=39.67 Aligned_cols=19 Identities=26% Similarity=0.705 Sum_probs=18.3
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|.+|++.|.++..|++|++
T Consensus 3 C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 3 CPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp ETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCccCCHHHHHHHHh
Confidence 9999999999999999985
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.34 E-value=0.0015 Score=52.93 Aligned_cols=23 Identities=22% Similarity=0.619 Sum_probs=16.1
Q ss_pred ccccccccCccCCchhhHhhhhh
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rt 57 (406)
.+.|.+|++.|.+...|+.|++.
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRS 72 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHH
T ss_pred CCCCCccCCCCcCHHHHHHHHcC
Confidence 47777777777777777777743
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=96.31 E-value=0.0015 Score=48.80 Aligned_cols=31 Identities=13% Similarity=0.288 Sum_probs=23.6
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCcc
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKENV 63 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek~ 63 (406)
++|..|.+|+..+.+..+|++|++.+|+.|+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 8999999999999999999999999998774
No 36
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.19 E-value=0.003 Score=38.60 Aligned_cols=23 Identities=17% Similarity=0.509 Sum_probs=18.4
Q ss_pred cccccccCccCCchhhHhhhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQV 58 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rth 58 (406)
|+|..|++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57888888888888888887644
No 37
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=96.05 E-value=0.082 Score=58.60 Aligned_cols=9 Identities=11% Similarity=0.264 Sum_probs=4.0
Q ss_pred CCCCCCCCC
Q 015460 242 PIPSTSIAL 250 (406)
Q Consensus 242 ~~~~~~~p~ 250 (406)
+..|=+...
T Consensus 608 PvlP~gLkp 616 (1102)
T KOG1924|consen 608 PVLPFGLKP 616 (1102)
T ss_pred ccCCCCCCc
Confidence 444444443
No 38
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=95.85 E-value=0.0088 Score=44.71 Aligned_cols=51 Identities=20% Similarity=0.313 Sum_probs=37.0
Q ss_pred ccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHHHHHhhhc
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVLAAHYGEE 98 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~~H~k~h 98 (406)
-|.|.+|++ ..+...|..|....|... ++.+.|.+|...+. ..|..|+..+
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~----------~~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSE----------SKNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCC----------CCCccCCCchhhhh--hHHHHHHHHh
Confidence 489999999 455688999988877653 13566777776533 4888888754
No 39
>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=95.56 E-value=0.0071 Score=38.73 Aligned_cols=19 Identities=21% Similarity=0.218 Sum_probs=15.4
Q ss_pred hhHhhhhhhccCcccccCC
Q 015460 50 GMAIHVLQVHKENVTKVPN 68 (406)
Q Consensus 50 ~LkrH~rthHgek~~~Cp~ 68 (406)
+|++|+++|+++++|.|+.
T Consensus 1 ~l~~H~~~H~~~k~~~C~~ 19 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPY 19 (26)
T ss_dssp HHHHHHHHHSSSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCC
Confidence 5899999999998766644
No 40
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=95.18 E-value=0.013 Score=35.39 Aligned_cols=19 Identities=32% Similarity=0.709 Sum_probs=16.2
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|.+|++.|.+...|++|++
T Consensus 3 C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 3 CPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp -SSTS-EESSHHHHHHHHH
T ss_pred CcCCCCcCCcHHHHHHHHH
Confidence 9999999999999999985
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=95.02 E-value=0.01 Score=38.04 Aligned_cols=20 Identities=45% Similarity=0.841 Sum_probs=10.1
Q ss_pred ccCccCcccCChHHHHHHhh
Q 015460 13 WCYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~R 32 (406)
+|..|+|.|.....|+.|++
T Consensus 3 ~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 3 YCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp BBTTTTBBBSSHHHHHCCTT
T ss_pred CcccCCCCcCCHHHHHHHHc
Confidence 35555555555555555543
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.78 E-value=0.013 Score=36.34 Aligned_cols=24 Identities=25% Similarity=0.527 Sum_probs=18.4
Q ss_pred cccccccCccCCchhhHhhhhhhcc
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rthHg 60 (406)
|+|..|+.... +..|++|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 68999998887 8899999988774
No 43
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=94.59 E-value=2.7 Score=44.95 Aligned_cols=18 Identities=22% Similarity=0.257 Sum_probs=13.8
Q ss_pred hHHHhhccCceeeecccc
Q 015460 332 MEERRMSSVKYQVHDETS 349 (406)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~ 349 (406)
|++|||+|=+..-.||-+
T Consensus 541 m~ara~a~~i~~tkd~de 558 (569)
T KOG3671|consen 541 MDARASALAIHSTKDEDE 558 (569)
T ss_pred HHHHHHhhcccccccccc
Confidence 899999999888544433
No 44
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.45 E-value=0.016 Score=36.08 Aligned_cols=21 Identities=29% Similarity=0.767 Sum_probs=13.6
Q ss_pred cccccccCccCCchhhHhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVL 56 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~r 56 (406)
|.|++|++.|.+...|+.|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 456666666666666666664
No 45
>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=94.31 E-value=0.025 Score=35.88 Aligned_cols=19 Identities=26% Similarity=0.677 Sum_probs=18.3
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|..|++.|.....|.+|++
T Consensus 4 C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 4 CDECGKTFSSLSALREHKR 22 (27)
T ss_dssp ETTTTEEESSHHHHHHHHC
T ss_pred CCccCCccCChhHHHHHhH
Confidence 9999999999999999986
No 46
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.01 E-value=0.057 Score=59.30 Aligned_cols=42 Identities=31% Similarity=0.672 Sum_probs=25.1
Q ss_pred cCccCcccCChHHHHHHhh--ccccccccccC---------ccCCchhhHhhhh
Q 015460 14 CYYCDREFDDEKILVQHQK--AKHFKCHVCHK---------KLSTAGGMAIHVL 56 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R--EKPfkC~~Cgk---------sFss~s~LkrH~r 56 (406)
|.+| -.|.....|+.|++ -+-+.|.+|-. ...++..|.+|++
T Consensus 118 ~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~ 170 (669)
T KOG2231|consen 118 CLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLM 170 (669)
T ss_pred Cccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHh
Confidence 4444 34447888999987 45566666532 2334566777764
No 47
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.94 E-value=0.041 Score=55.83 Aligned_cols=72 Identities=19% Similarity=0.335 Sum_probs=51.8
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCc-------cCCchhhHhhhhhhccCcccccCC--CCCCCCccceeecCCC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKK-------LSTAGGMAIHVLQVHKENVTKVPN--AKPGRESTDIEIYGMQ 84 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgks-------Fss~s~LkrH~rthHgek~~~Cp~--~~~~r~s~~c~iCG~~ 84 (406)
|.+|.+.|.+...|.+|+|+|.-+|.+|++. |..-..|.+|-+. ..|.|.. |..++. -.
T Consensus 223 C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~----~hy~ct~qtc~~~k~--------~v 290 (493)
T COG5236 223 CIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRN----AHYCCTFQTCRVGKC--------YV 290 (493)
T ss_pred hhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhc----CceEEEEEEEecCcE--------EE
Confidence 9999999999999999999777778888763 7788888888732 3355543 221111 34
Q ss_pred CCCHhHHHHHhhh
Q 015460 85 GIPPDVLAAHYGE 97 (406)
Q Consensus 85 fi~~~~L~~H~k~ 97 (406)
|.....|..|+..
T Consensus 291 f~~~~el~~h~~~ 303 (493)
T COG5236 291 FPYHTELLEHLTR 303 (493)
T ss_pred eccHHHHHHHHHH
Confidence 6777888888654
No 48
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=93.92 E-value=0.21 Score=55.46 Aligned_cols=10 Identities=0% Similarity=-0.091 Sum_probs=4.7
Q ss_pred cccccccccc
Q 015460 370 DRPYVSCFQI 379 (406)
Q Consensus 370 ~~~~~~~~~~ 379 (406)
|-||+++.+|
T Consensus 692 el~ilDsKta 701 (1102)
T KOG1924|consen 692 ELRILDSKTA 701 (1102)
T ss_pred hheecchHHH
Confidence 3455555443
No 49
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=93.81 E-value=0.027 Score=36.06 Aligned_cols=22 Identities=27% Similarity=0.625 Sum_probs=19.9
Q ss_pred cccccccCccCCchhhHhhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rt 57 (406)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999864
No 50
>smart00355 ZnF_C2H2 zinc finger.
Probab=93.42 E-value=0.057 Score=32.71 Aligned_cols=19 Identities=26% Similarity=0.672 Sum_probs=18.1
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|..|++.|.....|..|++
T Consensus 3 C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 3 CPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCcchhCCHHHHHHHHH
Confidence 9999999999999999975
No 51
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=92.55 E-value=0.075 Score=33.01 Aligned_cols=20 Identities=35% Similarity=0.851 Sum_probs=18.8
Q ss_pred ccCccCcccCChHHHHHHhh
Q 015460 13 WCYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~R 32 (406)
+|+.|++.|..+..|+.|++
T Consensus 2 ~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 2 YCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHC
Confidence 49999999999999999986
No 52
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=91.88 E-value=0.082 Score=53.62 Aligned_cols=91 Identities=19% Similarity=0.353 Sum_probs=64.2
Q ss_pred CccccCccCcccCChHHHHHHhh---------------------------------------------------------
Q 015460 10 SKVWCYYCDREFDDEKILVQHQK--------------------------------------------------------- 32 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~R--------------------------------------------------------- 32 (406)
++..|-+|.|.|..+..|+.|||
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed 273 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNED 273 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcC
Confidence 34459999999999999999998
Q ss_pred -ccc--cccccccCccCCchhhHhhhhhhccCcccccCCC---------------CCCCCccceeecCCCCCCHhHHHHH
Q 015460 33 -AKH--FKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNA---------------KPGRESTDIEIYGMQGIPPDVLAAH 94 (406)
Q Consensus 33 -EKP--fkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~---------------~~~r~s~~c~iCG~~fi~~~~L~~H 94 (406)
+-. .+|-.|.+..-....|..||+.+|.-.-.+-... ........|-.|...|-.+..|..|
T Consensus 274 ~a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~h 353 (423)
T KOG2482|consen 274 DAEALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIH 353 (423)
T ss_pred CCCccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhh
Confidence 001 3788888888778889999988885332222110 0111234678888899999999999
Q ss_pred hhhccC
Q 015460 95 YGEEEE 100 (406)
Q Consensus 95 ~k~he~ 100 (406)
+..+..
T Consensus 354 m~e~k~ 359 (423)
T KOG2482|consen 354 MVEDKH 359 (423)
T ss_pred cccccc
Confidence 876543
No 53
>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=91.33 E-value=0.17 Score=37.96 Aligned_cols=26 Identities=19% Similarity=0.314 Sum_probs=18.1
Q ss_pred CCCCccc-cCccCcccCChHHHHHHhh
Q 015460 7 RVSSKVW-CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 7 r~gEKp~-C~~CgK~Fs~ks~Lk~H~R 32 (406)
...+.+. |.+|+..+.+..+|++|+.
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHH
T ss_pred hccCCCCCCCcchhhccchhhHHHHHH
Confidence 3456666 9999999999999999986
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=90.96 E-value=0.079 Score=52.47 Aligned_cols=54 Identities=24% Similarity=0.428 Sum_probs=41.5
Q ss_pred cCccCcccCChHHHHHHhh------c--cccccc--cccCccCCchhhHhhhhhhccCcccccC
Q 015460 14 CYYCDREFDDEKILVQHQK------A--KHFKCH--VCHKKLSTAGGMAIHVLQVHKENVTKVP 67 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R------E--KPfkC~--~CgksFss~s~LkrH~rthHgek~~~Cp 67 (406)
|..|.+.|.+...|.+|.+ + +++.|. .|++.|.+.+.|++|..+|.+.+.++|.
T Consensus 292 ~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (467)
T COG5048 292 SKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEK 355 (467)
T ss_pred CccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccc
Confidence 8888888888888877765 5 788888 6888888888888888777776655554
No 55
>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=90.94 E-value=0.18 Score=33.65 Aligned_cols=20 Identities=35% Similarity=0.730 Sum_probs=11.8
Q ss_pred ccCccCcccCChHHHHHHhh
Q 015460 13 WCYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~R 32 (406)
+|+.|++.|.....++.|++
T Consensus 5 ~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 5 YCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred EccccCCccCCHHHHHHHHC
Confidence 36666666666666666654
No 56
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=90.38 E-value=0.12 Score=60.11 Aligned_cols=84 Identities=14% Similarity=0.163 Sum_probs=62.4
Q ss_pred cCccCcccCChHHHHHHhh-----ccccccccccCccCCchhhHhhhhhhccCcc-cccC-------CC-----CCCCCc
Q 015460 14 CYYCDREFDDEKILVQHQK-----AKHFKCHVCHKKLSTAGGMAIHVLQVHKENV-TKVP-------NA-----KPGRES 75 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-----EKPfkC~~CgksFss~s~LkrH~rthHgek~-~~Cp-------~~-----~~~r~s 75 (406)
|.-|+..|.++..+..|+. .|-|+|.+|+..|+....|-.|+|..|-+-. -.|- .+ ......
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 5556667777777777766 7889999999999999999999998654311 1221 11 112356
Q ss_pred cceeecCCCCCCHhHHHHHhhh
Q 015460 76 TDIEIYGMQGIPPDVLAAHYGE 97 (406)
Q Consensus 76 ~~c~iCG~~fi~~~~L~~H~k~ 97 (406)
+.|..|.-.+.....|..|++.
T Consensus 519 ~~C~~C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHH
Confidence 7899999999999999999874
No 57
>PRK04860 hypothetical protein; Provisional
Probab=88.86 E-value=0.25 Score=45.28 Aligned_cols=32 Identities=19% Similarity=0.339 Sum_probs=25.2
Q ss_pred cccccccccCccCCchhhHhhhhhhccCcccccCCC
Q 015460 34 KHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNA 69 (406)
Q Consensus 34 KPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~ 69 (406)
-+|+|. |++ ....+++|.++|.+++.|.|..|
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C 149 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRC 149 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCC
Confidence 368997 987 77788999999988887777553
No 58
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.48 E-value=0.35 Score=53.31 Aligned_cols=46 Identities=26% Similarity=0.553 Sum_probs=27.7
Q ss_pred cCccCcccCChHHHHHHhhccccccccccC------ccCCchhhHhhhhhhc
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHK------KLSTAGGMAIHVLQVH 59 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgk------sFss~s~LkrH~rthH 59 (406)
|.+|...|-....|.+|++...|.|..|.+ -|..-++|..|-|.+|
T Consensus 185 C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~H 236 (669)
T KOG2231|consen 185 CKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGH 236 (669)
T ss_pred chhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhcC
Confidence 666666666666666666655566666642 3455566666665444
No 59
>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=88.12 E-value=0.3 Score=42.09 Aligned_cols=37 Identities=19% Similarity=0.429 Sum_probs=28.8
Q ss_pred CCCccccCccCcccCChHHHHHHhhccccccccccCccCCchhh
Q 015460 8 VSSKVWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGGM 51 (406)
Q Consensus 8 ~gEKp~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s~L 51 (406)
.|.|..|..||++|.... ..|..|.+||..|.-...+
T Consensus 6 lGtKR~Cp~CG~kFYDLn-------k~PivCP~CG~~~~~~~~~ 42 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDLN-------KDPIVCPKCGTEFPPEPPL 42 (108)
T ss_pred cCCcccCCCCcchhccCC-------CCCccCCCCCCccCccccc
Confidence 356666999999997643 5688999999999887333
No 60
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=87.18 E-value=0.43 Score=30.35 Aligned_cols=18 Identities=39% Similarity=0.861 Sum_probs=13.2
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|..||+.| ..+.|.+|++
T Consensus 5 C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 5 CPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CCCCCCEE-CHHHHHHHHH
Confidence 78888888 5667777754
No 61
>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=86.82 E-value=0.39 Score=32.01 Aligned_cols=23 Identities=17% Similarity=0.485 Sum_probs=19.7
Q ss_pred ccccccccCccCCchhhHhhhhh
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rt 57 (406)
.|.|++|++.|.....++.|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57899999999999999999753
No 62
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=85.58 E-value=0.36 Score=47.78 Aligned_cols=60 Identities=17% Similarity=0.191 Sum_probs=49.9
Q ss_pred cccccccccCccCCchhhHhhhh--hhccC--cccccCCCCCCCCccceeecCCCCCCHhHHHHHhhhccCCCC
Q 015460 34 KHFKCHVCHKKLSTAGGMAIHVL--QVHKE--NVTKVPNAKPGRESTDIEIYGMQGIPPDVLAAHYGEEEEVPS 103 (406)
Q Consensus 34 KPfkC~~CgksFss~s~LkrH~r--thHge--k~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~~H~k~he~~~s 103 (406)
+.+.|..|.+.|.+...|.+|.+ .|.++ +++.|+.. .|++.|.+...+..|...|.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~----------~~~~~~~~~~~~~~~~~~~~~~~~ 351 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYS----------LCGKLFSRNDALKRHILLHTSISP 351 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeecc----------CCCccccccccccCCcccccCCCc
Confidence 47999999999999999999999 67777 66666531 788999999999999998887443
No 63
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=85.53 E-value=0.49 Score=30.08 Aligned_cols=20 Identities=20% Similarity=0.561 Sum_probs=15.5
Q ss_pred cccccccCccCCchhhHhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVL 56 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~r 56 (406)
..|..||+.| ..+.|.+|++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 4688899999 5577888864
No 64
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=84.84 E-value=0.37 Score=56.34 Aligned_cols=82 Identities=11% Similarity=0.119 Sum_probs=61.4
Q ss_pred cCccCcccCChHHHHHHhh-ccccccccccCccCCchhhHhhhhhhccC-cc--cccC--CCCCCCCccceeecCCCCCC
Q 015460 14 CYYCDREFDDEKILVQHQK-AKHFKCHVCHKKLSTAGGMAIHVLQVHKE-NV--TKVP--NAKPGRESTDIEIYGMQGIP 87 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-EKPfkC~~CgksFss~s~LkrH~rthHge-k~--~~Cp--~~~~~r~s~~c~iCG~~fi~ 87 (406)
|..|++.|.-...+. |.- +++|+|.+|...|..+..|..|.+....- +. ..-+ .....+.-+ |.+|...+..
T Consensus 1263 c~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~~~ 1340 (1406)
T KOG1146|consen 1263 CGAVDELLTPSFGIS-TLDVTHRYLCRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-CLACEVLLSG 1340 (1406)
T ss_pred hhhccccccCcccee-ecccchhHHHHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-chHHHhhcch
Confidence 999999999888888 877 99999999999999999999997322110 00 0000 012233344 9999999999
Q ss_pred HhHHHHHhhh
Q 015460 88 PDVLAAHYGE 97 (406)
Q Consensus 88 ~~~L~~H~k~ 97 (406)
+..|+.|++.
T Consensus 1341 ~~alqihm~~ 1350 (1406)
T KOG1146|consen 1341 REALQIHMRS 1350 (1406)
T ss_pred hHHHHHHHHH
Confidence 9999999986
No 65
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=83.13 E-value=0.73 Score=40.78 Aligned_cols=38 Identities=11% Similarity=0.159 Sum_probs=29.1
Q ss_pred CCCccccCccCcccCChHHHHHHhhccccccccccCccCCchhhH
Q 015460 8 VSSKVWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGGMA 52 (406)
Q Consensus 8 ~gEKp~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s~Lk 52 (406)
.|.|..|..||++|.... ..|..|.+||..|.....++
T Consensus 6 lGtKr~Cp~cg~kFYDLn-------k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 6 LGTKRICPNTGSKFYDLN-------RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred hCccccCCCcCccccccC-------CCCccCCCcCCccCcchhhc
Confidence 355666999999997643 56899999999987764444
No 66
>PHA03247 large tegument protein UL36; Provisional
Probab=82.17 E-value=1.7e+02 Score=37.98 Aligned_cols=10 Identities=10% Similarity=-0.164 Sum_probs=4.0
Q ss_pred ccCccCCchh
Q 015460 41 CHKKLSTAGG 50 (406)
Q Consensus 41 CgksFss~s~ 50 (406)
|+.-|-..-.
T Consensus 2470 ~~~~y~~~p~ 2479 (3151)
T PHA03247 2470 LGELFPGAPV 2479 (3151)
T ss_pred ccccCCCCcc
Confidence 4444434333
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.34 E-value=1.1 Score=45.73 Aligned_cols=87 Identities=17% Similarity=0.132 Sum_probs=48.1
Q ss_pred cCc--cCcccCChHHHHHHhh--ccccccccccC---ccC------CchhhHhhhhhhccCcccccCCCCCCCCccceee
Q 015460 14 CYY--CDREFDDEKILVQHQK--AKHFKCHVCHK---KLS------TAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEI 80 (406)
Q Consensus 14 C~~--CgK~Fs~ks~Lk~H~R--EKPfkC~~Cgk---sFs------s~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~i 80 (406)
|.. |.++......|+.|.+ -..+.|.+|-+ .|. ++..|+.|. ++.. ....++..-.|..
T Consensus 154 CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~-----~~G~---~e~GFKGHP~C~F 225 (493)
T COG5236 154 CPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHK-----NGGL---EEEGFKGHPLCIF 225 (493)
T ss_pred CCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccc-----cCCc---cccCcCCCchhhh
Confidence 643 5555556667777776 23455776643 233 233444443 1100 0112333446778
Q ss_pred cCCCCCCHhHHHHHhhhccCCCCccccC
Q 015460 81 YGMQGIPPDVLAAHYGEEEEVPSKMAKV 108 (406)
Q Consensus 81 CG~~fi~~~~L~~H~k~he~~~sk~~k~ 108 (406)
|...|-..+.|..|++...+...-|..+
T Consensus 226 C~~~FYdDDEL~~HcR~~HE~ChICD~v 253 (493)
T COG5236 226 CKIYFYDDDELRRHCRLRHEACHICDMV 253 (493)
T ss_pred ccceecChHHHHHHHHhhhhhhhhhhcc
Confidence 8888888888888887766555555544
No 68
>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=79.94 E-value=0.79 Score=40.88 Aligned_cols=28 Identities=25% Similarity=0.367 Sum_probs=17.9
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCcc
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKENV 63 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek~ 63 (406)
+.-..|-+|||.|.. |++|.++|||-.+
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~gltp 97 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLTP 97 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-H
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCCH
Confidence 445679999999987 6999999988644
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=76.52 E-value=1.1 Score=34.35 Aligned_cols=26 Identities=23% Similarity=0.433 Sum_probs=16.7
Q ss_pred CCCCccc-cCccCcccCChHHHHHHhh
Q 015460 7 RVSSKVW-CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 7 r~gEKp~-C~~CgK~Fs~ks~Lk~H~R 32 (406)
+.||.+. |.-||+.|....+..+|..
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhh
Confidence 3456665 7777777776666666654
No 70
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=74.30 E-value=2.3 Score=26.08 Aligned_cols=18 Identities=28% Similarity=0.460 Sum_probs=14.6
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|.+|+.... +..|++|++
T Consensus 3 C~~C~y~t~-~~~l~~H~~ 20 (24)
T PF13909_consen 3 CPHCSYSTS-KSNLKRHLK 20 (24)
T ss_dssp -SSSS-EES-HHHHHHHHH
T ss_pred CCCCCCcCC-HHHHHHHHH
Confidence 999999988 999999975
No 71
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.80 E-value=0.95 Score=43.26 Aligned_cols=82 Identities=17% Similarity=0.234 Sum_probs=54.2
Q ss_pred cCc--cCcccCChHHHHHHhh-ccccccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccce--eecCCCCCCH
Q 015460 14 CYY--CDREFDDEKILVQHQK-AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDI--EIYGMQGIPP 88 (406)
Q Consensus 14 C~~--CgK~Fs~ks~Lk~H~R-EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c--~iCG~~fi~~ 88 (406)
|+. |-+.|....+...|-. ..--.|.+|.+.|-+...|..|+...|.- .|..-. ..+..-|.| +.|+..|...
T Consensus 82 cqvagc~~~~d~lD~~E~hY~~~h~~sCs~C~r~~Pt~hLLd~HI~E~HDs-~Fqa~v-eRG~dMy~ClvEgCt~KFkT~ 159 (253)
T KOG4173|consen 82 CQVAGCCQVFDALDDYEHHYHTLHGNSCSFCKRAFPTGHLLDAHILEWHDS-LFQALV-ERGQDMYQCLVEGCTEKFKTS 159 (253)
T ss_pred ccccchHHHHhhhhhHHHhhhhcccchhHHHHHhCCchhhhhHHHHHHHHH-HHHHHH-HcCccHHHHHHHhhhhhhhhh
Confidence 776 7778877777777654 33447999999999998888888665531 111111 012344556 6788888888
Q ss_pred hHHHHHhhh
Q 015460 89 DVLAAHYGE 97 (406)
Q Consensus 89 ~~L~~H~k~ 97 (406)
.+.++|+-+
T Consensus 160 r~RkdH~I~ 168 (253)
T KOG4173|consen 160 RDRKDHMIR 168 (253)
T ss_pred hhhhhHHHH
Confidence 888888643
No 72
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=73.26 E-value=0.81 Score=43.72 Aligned_cols=35 Identities=20% Similarity=0.460 Sum_probs=26.3
Q ss_pred cCccCcccCChHHHHHHhh-------------------ccccccccccCccCCc
Q 015460 14 CYYCDREFDDEKILVQHQK-------------------AKHFKCHVCHKKLSTA 48 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-------------------EKPfkC~~CgksFss~ 48 (406)
|.+|++.|..+..+....| -....|..||.+|...
T Consensus 8 CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 8 CPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 9999999988866665554 1236799999887755
No 73
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=72.37 E-value=1.8 Score=38.91 Aligned_cols=19 Identities=21% Similarity=0.445 Sum_probs=12.3
Q ss_pred cccccccccCccCCchhhH
Q 015460 34 KHFKCHVCHKKLSTAGGMA 52 (406)
Q Consensus 34 KPfkC~~CgksFss~s~Lk 52 (406)
.-|.|..|++.|.....+.
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~ 116 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQ 116 (147)
T ss_pred cEEECcCCCCEeeHHHHHH
Confidence 3577777777777655443
No 74
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.54 E-value=1.2 Score=42.69 Aligned_cols=47 Identities=30% Similarity=0.719 Sum_probs=40.3
Q ss_pred cCccCcccCChHHHHHHhh-----------cc---cccccc--ccCccCCchhhHhhhhhhcc
Q 015460 14 CYYCDREFDDEKILVQHQK-----------AK---HFKCHV--CHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-----------EK---PfkC~~--CgksFss~s~LkrH~rthHg 60 (406)
|.+|.|.|.....|..|+- || -|.|-+ |+..|.+...-++|+-..|+
T Consensus 109 Cs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 109 CSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred hHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhcc
Confidence 9999999999999999976 44 488976 99999999999999866554
No 75
>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=70.65 E-value=2.3 Score=30.06 Aligned_cols=22 Identities=23% Similarity=0.496 Sum_probs=9.7
Q ss_pred ccccccccCccCCc----hhhHhhhh
Q 015460 35 HFKCHVCHKKLSTA----GGMAIHVL 56 (406)
Q Consensus 35 PfkC~~CgksFss~----s~LkrH~r 56 (406)
-.+|.+|++.+... ++|++|++
T Consensus 16 ~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 16 KAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp -EEETTTTEE-----SSTHHHHHHHH
T ss_pred eEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 34555555555442 56666653
No 76
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=69.70 E-value=0.99 Score=38.39 Aligned_cols=14 Identities=29% Similarity=0.655 Sum_probs=7.1
Q ss_pred ccccccccccCccC
Q 015460 33 AKHFKCHVCHKKLS 46 (406)
Q Consensus 33 EKPfkC~~CgksFs 46 (406)
+|-|.|..|++.-.
T Consensus 20 ~k~FtCp~Cghe~v 33 (104)
T COG4888 20 PKTFTCPRCGHEKV 33 (104)
T ss_pred CceEecCccCCeee
Confidence 45555555554333
No 77
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=69.06 E-value=2.8 Score=42.88 Aligned_cols=82 Identities=17% Similarity=0.231 Sum_probs=49.6
Q ss_pred CccccCccCcccCChHHHHHHhhcccccccccc------CccCCchhhHhhhhhhccC----------cccccCCCCCCC
Q 015460 10 SKVWCYYCDREFDDEKILVQHQKAKHFKCHVCH------KKLSTAGGMAIHVLQVHKE----------NVTKVPNAKPGR 73 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cg------ksFss~s~LkrH~rthHge----------k~~~Cp~~~~~r 73 (406)
|...|+-|||.--. -+.|||-.|- ..|.....--.|...|--. ..++|..+....
T Consensus 7 e~v~CdgC~k~~~t---------~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPmqcil~~~dfeL~f~Ge~i~~y~~ 77 (381)
T KOG1280|consen 7 EGVSCDGCGKTAFT---------FRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPMQCILSRVDFELYFGGEPISHYDP 77 (381)
T ss_pred CCceecccccccee---------eeeeEeeeecchhHHHHHhhcCCCCcccCCCCceeEEeeccceeeEecCcccccccc
Confidence 44559999975111 4567886653 3344443333443222100 013455555566
Q ss_pred CccceeecCCCCCCHhHHHHHhhh-ccC
Q 015460 74 ESTDIEIYGMQGIPPDVLAAHYGE-EEE 100 (406)
Q Consensus 74 ~s~~c~iCG~~fi~~~~L~~H~k~-he~ 100 (406)
.+|.|.+||+.+..+..+..|... |-+
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpd 105 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPE 105 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCcc
Confidence 689999999999999999999754 444
No 78
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=68.51 E-value=2.9 Score=39.00 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=12.0
Q ss_pred cccccccccCccCCchhh
Q 015460 34 KHFKCHVCHKKLSTAGGM 51 (406)
Q Consensus 34 KPfkC~~CgksFss~s~L 51 (406)
.-|.|..|+++|+....+
T Consensus 116 ~~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAM 133 (178)
T ss_pred CEEECCCCCcEEeHHHHh
Confidence 346777777777776654
No 79
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=67.55 E-value=1.4 Score=40.29 Aligned_cols=39 Identities=15% Similarity=0.376 Sum_probs=24.0
Q ss_pred cCccCcccCCh--H-HHHH--HhhccccccccccCccCCchhhHh
Q 015460 14 CYYCDREFDDE--K-ILVQ--HQKAKHFKCHVCHKKLSTAGGMAI 53 (406)
Q Consensus 14 C~~CgK~Fs~k--s-~Lk~--H~REKPfkC~~CgksFss~s~Lkr 53 (406)
|.+||-.++.- + .+.. +. .|.++|..||++|.+-..+..
T Consensus 3 cp~c~~~~~~~~~s~~~~~~~~~-~~~~~c~~c~~~f~~~e~~~~ 46 (154)
T PRK00464 3 CPFCGHPDTRVIDSRPAEDGNAI-RRRRECLACGKRFTTFERVEL 46 (154)
T ss_pred CCCCCCCCCEeEeccccCCCCce-eeeeeccccCCcceEeEeccC
Confidence 99999765211 1 1111 11 344899999999998655443
No 80
>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=67.32 E-value=3 Score=38.05 Aligned_cols=17 Identities=18% Similarity=0.331 Sum_probs=10.5
Q ss_pred ccccccccCccCCchhh
Q 015460 35 HFKCHVCHKKLSTAGGM 51 (406)
Q Consensus 35 PfkC~~CgksFss~s~L 51 (406)
-|.|..|+.+|+....+
T Consensus 109 ~Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAM 125 (158)
T ss_pred eEECCCCCcEeeHHHHH
Confidence 46666666666666555
No 81
>PF14353 CpXC: CpXC protein
Probab=66.60 E-value=2.9 Score=36.31 Aligned_cols=44 Identities=25% Similarity=0.396 Sum_probs=31.4
Q ss_pred cCccCcccCCh----------HHHHHHhh---ccccccccccCccCCchhhHhhhhh
Q 015460 14 CYYCDREFDDE----------KILVQHQK---AKHFKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 14 C~~CgK~Fs~k----------s~Lk~H~R---EKPfkC~~CgksFss~s~LkrH~rt 57 (406)
|..|++.|... ..|+.-.. ---|.|..||+.|.-...+..|...
T Consensus 4 CP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~ 60 (128)
T PF14353_consen 4 CPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPE 60 (128)
T ss_pred CCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCC
Confidence 99999988543 33333322 3468899999999988888888644
No 82
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=66.52 E-value=2.4 Score=37.97 Aligned_cols=25 Identities=16% Similarity=0.123 Sum_probs=20.6
Q ss_pred cccccccCccCCchhhHhhhhhhccCcc
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQVHKENV 63 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rthHgek~ 63 (406)
..|-+|||.|.+ |+||..+|++-.+
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~gmTP 101 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHYGLTP 101 (148)
T ss_pred EEEeccCcchHH---HHHHHhcccCCCH
Confidence 469999999975 9999999987543
No 83
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=65.65 E-value=3.8 Score=29.96 Aligned_cols=8 Identities=13% Similarity=0.260 Sum_probs=4.7
Q ss_pred hhhHhhhh
Q 015460 49 GGMAIHVL 56 (406)
Q Consensus 49 s~LkrH~r 56 (406)
++|.+|++
T Consensus 37 s~L~rHl~ 44 (50)
T smart00614 37 SNLRRHLR 44 (50)
T ss_pred HHHHHHHH
Confidence 46666654
No 84
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.74 E-value=3 Score=28.79 Aligned_cols=32 Identities=16% Similarity=0.550 Sum_probs=20.5
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLS 46 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFs 46 (406)
|..|+..|.-...... .+.+..+|..|+..|.
T Consensus 5 Cp~C~~~y~i~d~~ip-~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 5 CPNCQAKYEIDDEKIP-PKGRKVRCSKCGHVFF 36 (36)
T ss_pred CCCCCCEEeCCHHHCC-CCCcEEECCCCCCEeC
Confidence 7778877776665432 1145677888877663
No 85
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=61.46 E-value=2.9 Score=28.94 Aligned_cols=31 Identities=16% Similarity=0.433 Sum_probs=21.0
Q ss_pred cCccCcccCChHHH-HHHhhccccccccccCccC
Q 015460 14 CYYCDREFDDEKIL-VQHQKAKHFKCHVCHKKLS 46 (406)
Q Consensus 14 C~~CgK~Fs~ks~L-k~H~REKPfkC~~CgksFs 46 (406)
|..|+..|...... ... .+..+|..|+..|.
T Consensus 5 CP~C~~~f~v~~~~l~~~--~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 5 CPNCQTRFRVPDDKLPAG--GRKVRCPKCGHVFR 36 (37)
T ss_pred CCCCCceEEcCHHHcccC--CcEEECCCCCcEee
Confidence 88888888766542 222 55678888887764
No 86
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.42 E-value=5.3 Score=34.69 Aligned_cols=38 Identities=11% Similarity=-0.026 Sum_probs=27.9
Q ss_pred CCCccccCccCcccCChHHHHHHhhccccccccccCccCCchhhHh
Q 015460 8 VSSKVWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGGMAI 53 (406)
Q Consensus 8 ~gEKp~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s~Lkr 53 (406)
.|.|..|..|||.|.... .+|..|.+||++| -++.|..
T Consensus 6 LGtKridPetg~KFYDLN-------rdPiVsPytG~s~-P~s~fe~ 43 (129)
T COG4530 6 LGTKRIDPETGKKFYDLN-------RDPIVSPYTGKSY-PRSYFEE 43 (129)
T ss_pred ccccccCccccchhhccC-------CCccccCcccccc-hHHHHHh
Confidence 355556999999987532 6799999999999 4445543
No 87
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=60.96 E-value=6 Score=27.70 Aligned_cols=22 Identities=27% Similarity=0.797 Sum_probs=9.2
Q ss_pred ccccCccCcccCCh--HHHHHHhh
Q 015460 11 KVWCYYCDREFDDE--KILVQHQK 32 (406)
Q Consensus 11 Kp~C~~CgK~Fs~k--s~Lk~H~R 32 (406)
|.||++|++-|... ...+.|.+
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT-
T ss_pred CeecccccceecCCChHHHHHhhc
Confidence 45699998888433 34477755
No 88
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=60.68 E-value=3.7 Score=36.15 Aligned_cols=23 Identities=22% Similarity=0.473 Sum_probs=17.8
Q ss_pred ccccccccCccCCchhhHhhhhh
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rt 57 (406)
.|-|-+|.+-|.....|+.|.|+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhc
Confidence 37788888888888888888765
No 89
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=60.61 E-value=3.9 Score=33.21 Aligned_cols=29 Identities=28% Similarity=0.647 Sum_probs=20.9
Q ss_pred cCccCcccCChHHHHHHhhcccc-ccccccCccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHF-KCHVCHKKLS 46 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPf-kC~~CgksFs 46 (406)
|..||..| .+.+|+++-++ .|..|+..|+
T Consensus 15 c~~cg~~~----dvvq~~~ddplt~ce~c~a~~k 44 (82)
T COG2331 15 CTECGNRF----DVVQAMTDDPLTTCEECGARLK 44 (82)
T ss_pred ecccchHH----HHHHhcccCccccChhhChHHH
Confidence 99998664 57788885554 4999986543
No 90
>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=60.52 E-value=2.8 Score=40.36 Aligned_cols=30 Identities=20% Similarity=0.500 Sum_probs=23.7
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCc
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKEN 62 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek 62 (406)
+..|.|..|+|.|.-..-.+.|++..|.++
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 456999999999999999999999888876
No 91
>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=59.93 E-value=3.1 Score=28.52 Aligned_cols=32 Identities=16% Similarity=0.379 Sum_probs=19.5
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLS 46 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFs 46 (406)
|..|+..|.-........ .....|..|+..|.
T Consensus 5 CP~C~~~~~v~~~~~~~~-~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 5 CPNCKTSFRVVDSQLGAN-GGKVRCGKCGHVWY 36 (38)
T ss_pred CCCCCCEEEeCHHHcCCC-CCEEECCCCCCEEE
Confidence 777887777665443211 22467888877664
No 92
>KOG3214 consensus Uncharacterized Zn ribbon-containing protein [Function unknown]
Probab=59.40 E-value=4 Score=34.76 Aligned_cols=35 Identities=20% Similarity=0.581 Sum_probs=16.3
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCc
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~ 48 (406)
|.+|+..-.....|.+-...--..|.+|+.+|.+.
T Consensus 26 ClfcnHek~v~~~~Dk~~~iG~~sC~iC~esFqt~ 60 (109)
T KOG3214|consen 26 CLFCNHEKSVSCTLDKKHNIGKASCRICEESFQTT 60 (109)
T ss_pred cCccccccceeeeehhhcCcceeeeeehhhhhccc
Confidence 66666443333333221112223466666666654
No 93
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=57.34 E-value=4.1 Score=38.94 Aligned_cols=55 Identities=16% Similarity=0.204 Sum_probs=32.0
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCcccccCCCCC-CCC---ccceeecCCCCCCH
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKP-GRE---STDIEIYGMQGIPP 88 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~-~r~---s~~c~iCG~~fi~~ 88 (406)
+|.+.|.+|++.|.++.-+....|....+. --|+.-.. .-. -..|..||-.+...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~-D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDS-DFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecC-CCccccCCCCCeeeeEEECCCCCCccccc
Confidence 467899999999999876666654432221 12322110 001 12577888776554
No 94
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=55.31 E-value=2.9 Score=33.51 Aligned_cols=38 Identities=13% Similarity=0.318 Sum_probs=21.1
Q ss_pred ccCccCcccCChHHHHHHhh--ccccccc--cccCccCCchh
Q 015460 13 WCYYCDREFDDEKILVQHQK--AKHFKCH--VCHKKLSTAGG 50 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~R--EKPfkC~--~CgksFss~s~ 50 (406)
+|.+||..-........+.. ++-+.|. .||.+|+....
T Consensus 3 ~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~eCg~tF~t~es 44 (72)
T PRK09678 3 HCPLCQHAAHARTSRYITDTTKERYHQCQNVNCSATFITYES 44 (72)
T ss_pred cCCCCCCccEEEEChhcChhhheeeeecCCCCCCCEEEEEEE
Confidence 37777765533332222222 6667776 67777776544
No 95
>PHA00626 hypothetical protein
Probab=54.67 E-value=4.1 Score=31.25 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=19.7
Q ss_pred cCccCcc-cCChHHHHHHhhccccccccccCccCCc
Q 015460 14 CYYCDRE-FDDEKILVQHQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 14 C~~CgK~-Fs~ks~Lk~H~REKPfkC~~CgksFss~ 48 (406)
|..||.. .......+.| ...|+|..||..|+..
T Consensus 3 CP~CGS~~Ivrcg~cr~~--snrYkCkdCGY~ft~~ 36 (59)
T PHA00626 3 CPKCGSGNIAKEKTMRGW--SDDYVCCDCGYNDSKD 36 (59)
T ss_pred CCCCCCceeeeeceeccc--CcceEcCCCCCeechh
Confidence 7778763 2222222222 4579999999888753
No 96
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=54.66 E-value=10 Score=39.29 Aligned_cols=45 Identities=20% Similarity=0.471 Sum_probs=38.7
Q ss_pred cc-cCccCcccCChHHHHHHhh---------------------------cccccccccc---CccCCchhhHhhhh
Q 015460 12 VW-CYYCDREFDDEKILVQHQK---------------------------AKHFKCHVCH---KKLSTAGGMAIHVL 56 (406)
Q Consensus 12 p~-C~~CgK~Fs~ks~Lk~H~R---------------------------EKPfkC~~Cg---ksFss~s~LkrH~r 56 (406)
+. |-+|++.|.....-..||. .+-|.|-.|. +.|.+-...+.||+
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~ 241 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMR 241 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHh
Confidence 35 9999999999988888986 3468899999 89999999999984
No 97
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=53.96 E-value=3 Score=42.80 Aligned_cols=62 Identities=24% Similarity=0.308 Sum_probs=39.2
Q ss_pred cccccccc--ccCccCCchhhHhhhhhhccCc---ccccCC----CCCCCCccceeecCCCCCCHhHHHHH
Q 015460 33 AKHFKCHV--CHKKLSTAGGMAIHVLQVHKEN---VTKVPN----AKPGRESTDIEIYGMQGIPPDVLAAH 94 (406)
Q Consensus 33 EKPfkC~~--CgksFss~s~LkrH~rthHgek---~~~Cp~----~~~~r~s~~c~iCG~~fi~~~~L~~H 94 (406)
.|+|+|.+ |++.++....|+.|..+-|-.. +.+.+. -....+.++|++|.+++.....|+-|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
Confidence 88999987 9999888888888865433211 111221 12356778888888766544445444
No 98
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=53.96 E-value=3.3e+02 Score=29.74 Aligned_cols=6 Identities=17% Similarity=0.041 Sum_probs=3.2
Q ss_pred ccccch
Q 015460 349 SQVSYN 354 (406)
Q Consensus 349 ~~~~~~ 354 (406)
.||..|
T Consensus 506 ~~Lk~v 511 (569)
T KOG3671|consen 506 GQLKKV 511 (569)
T ss_pred cccccc
Confidence 455555
No 99
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=53.12 E-value=5.3 Score=33.52 Aligned_cols=15 Identities=13% Similarity=0.496 Sum_probs=11.9
Q ss_pred ccccccccccCccCC
Q 015460 33 AKHFKCHVCHKKLST 47 (406)
Q Consensus 33 EKPfkC~~CgksFss 47 (406)
-+|-.|..||..|..
T Consensus 56 v~Pa~CkkCGfef~~ 70 (97)
T COG3357 56 VRPARCKKCGFEFRD 70 (97)
T ss_pred ecChhhcccCccccc
Confidence 567888888888876
No 100
>PRK04023 DNA polymerase II large subunit; Validated
Probab=52.64 E-value=13 Score=43.17 Aligned_cols=24 Identities=21% Similarity=0.232 Sum_probs=14.7
Q ss_pred cccccCCCCCCCCccceeecCCCC
Q 015460 62 NVTKVPNAKPGRESTDIEIYGMQG 85 (406)
Q Consensus 62 k~~~Cp~~~~~r~s~~c~iCG~~f 85 (406)
..+.|+.|......+.|..||..-
T Consensus 650 ~i~fCP~CG~~~~~y~CPKCG~El 673 (1121)
T PRK04023 650 PVYRCPRCGIEVEEDECEKCGREP 673 (1121)
T ss_pred cceeCccccCcCCCCcCCCCCCCC
Confidence 345677765555556677777543
No 101
>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=52.64 E-value=5.8 Score=38.18 Aligned_cols=26 Identities=19% Similarity=0.558 Sum_probs=19.6
Q ss_pred CCCCccc-cCccCcccCChHHHHHHhh
Q 015460 7 RVSSKVW-CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 7 r~gEKp~-C~~CgK~Fs~ks~Lk~H~R 32 (406)
...+..| |..|+|.|.-....+.|+.
T Consensus 72 e~~~~K~~C~lc~KlFkg~eFV~KHI~ 98 (214)
T PF04959_consen 72 EEDEDKWRCPLCGKLFKGPEFVRKHIF 98 (214)
T ss_dssp SSSSEEEEE-SSS-EESSHHHHHHHHH
T ss_pred HHcCCEECCCCCCcccCChHHHHHHHh
Confidence 3345456 9999999999999999986
No 102
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=52.61 E-value=8.1 Score=28.20 Aligned_cols=20 Identities=25% Similarity=0.659 Sum_probs=17.1
Q ss_pred ccCccCcccCCh-----HHHHHHhh
Q 015460 13 WCYYCDREFDDE-----KILVQHQK 32 (406)
Q Consensus 13 ~C~~CgK~Fs~k-----s~Lk~H~R 32 (406)
.|.+|++.++.. ++|.+|++
T Consensus 20 ~C~~C~~~l~~~~~~gTs~L~rHl~ 44 (50)
T smart00614 20 KCKYCGKKLSRSSKGGTSNLRRHLR 44 (50)
T ss_pred EecCCCCEeeeCCCCCcHHHHHHHH
Confidence 399999999876 69999975
No 103
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=51.92 E-value=9.3 Score=43.08 Aligned_cols=8 Identities=25% Similarity=0.488 Sum_probs=4.8
Q ss_pred cCccCccc
Q 015460 14 CYYCDREF 21 (406)
Q Consensus 14 C~~CgK~F 21 (406)
|..||..+
T Consensus 438 C~~Cg~v~ 445 (730)
T COG1198 438 CRDCGYIA 445 (730)
T ss_pred cccCCCcc
Confidence 77776443
No 104
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=51.46 E-value=8 Score=40.75 Aligned_cols=33 Identities=15% Similarity=0.415 Sum_probs=23.4
Q ss_pred CccccCccCcccCChHHHHHHhhccccccccccCccCCch
Q 015460 10 SKVWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAG 49 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s 49 (406)
+++.|..||++...+. .+-|+|..||+++....
T Consensus 349 ~~p~Cp~Cg~~m~S~G-------~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 349 VNPVCPRCGGRMKSAG-------RNGFRCKKCGTRARETL 381 (421)
T ss_pred cCCCCCccCCchhhcC-------CCCcccccccccCCccc
Confidence 4556999997655432 23899999998887754
No 105
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=50.88 E-value=7.3 Score=38.42 Aligned_cols=44 Identities=18% Similarity=0.388 Sum_probs=34.4
Q ss_pred cCccCcccCChHHHHHHhh---ccccccccccCccCCchhhHhhhhhhc
Q 015460 14 CYYCDREFDDEKILVQHQK---AKHFKCHVCHKKLSTAGGMAIHVLQVH 59 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R---EKPfkC~~CgksFss~s~LkrH~rthH 59 (406)
|..||.... +..|.+|+- ..-|.|-.|++.|.+ ...+.|..-.+
T Consensus 6 CnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 6 CNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred hhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhhhcc
Confidence 999997755 456777876 677999999999999 67788875443
No 106
>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=49.70 E-value=9 Score=32.33 Aligned_cols=25 Identities=20% Similarity=0.359 Sum_probs=22.4
Q ss_pred ccc----ccccCccCCchhhHhhhhhhcc
Q 015460 36 FKC----HVCHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 36 fkC----~~CgksFss~s~LkrH~rthHg 60 (406)
|.| ..|+..+.+...|++|.+.+||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 8899999999999999988875
No 107
>PF10716 NdhL: NADH dehydrogenase transmembrane subunit; InterPro: IPR019654 NAD(P)H-quinone oxidoreductase subunit L (NdhL) is a component of the NDH-1L complex that is one of the proton-pumping NADH:ubiquinone oxidoreductases that catalyse the electron transfer from NADH to ubiquinone linked with proton translocation across the membrane. NDH-1L is essential for photoheterotrophic cell growth. NdhL appears to contain two transmembrane helices and it is necessary for the functioning of though not the correct assembly of the NDH-1 complex in Synechocystis 6803. The conservation between cyanobacteria and green plants suggests that chloroplast NDH-1 complexes contain related subunits []. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process
Probab=49.52 E-value=11 Score=30.96 Aligned_cols=19 Identities=37% Similarity=0.824 Sum_probs=17.0
Q ss_pred ehhHHHHHHHHHHHHhhhe
Q 015460 383 RFVTYLERYFLYEFQFFFF 401 (406)
Q Consensus 383 ~~~~~~~~~~~~~~~~~~~ 401 (406)
++.+-+|||+.|-+.||||
T Consensus 45 y~~~~~Er~~~y~lvF~FF 63 (81)
T PF10716_consen 45 YVMSSFERLFMYFLVFLFF 63 (81)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 6778899999999999887
No 108
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=48.86 E-value=6 Score=27.44 Aligned_cols=32 Identities=22% Similarity=0.289 Sum_probs=20.2
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCch
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAG 49 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s 49 (406)
|..||+.|.....-- ...=+|+.||..+.++.
T Consensus 4 C~~Cg~~Yh~~~~pP----~~~~~Cd~cg~~L~qR~ 35 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPP----KVEGVCDNCGGELVQRK 35 (36)
T ss_dssp ETTTTEEEETTTB------SSTTBCTTTTEBEBEEG
T ss_pred cCCCCCccccccCCC----CCCCccCCCCCeeEeCC
Confidence 888888876543211 44567888887766553
No 109
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=48.80 E-value=3.9e+02 Score=29.13 Aligned_cols=9 Identities=33% Similarity=0.368 Sum_probs=4.4
Q ss_pred ceeecCCCC
Q 015460 77 DIEIYGMQG 85 (406)
Q Consensus 77 ~c~iCG~~f 85 (406)
.|.+||-.|
T Consensus 287 ~c~~cg~~g 295 (554)
T KOG0119|consen 287 VCKICGPLG 295 (554)
T ss_pred cccccCCcc
Confidence 455555433
No 110
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=48.73 E-value=4.8 Score=44.84 Aligned_cols=50 Identities=20% Similarity=0.433 Sum_probs=30.1
Q ss_pred cCccCcccCChHHHHHHhh---ccccc-cccccCccCCchhhHhhhhhhccCcccccCCC
Q 015460 14 CYYCDREFDDEKILVQHQK---AKHFK-CHVCHKKLSTAGGMAIHVLQVHKENVTKVPNA 69 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R---EKPfk-C~~CgksFss~s~LkrH~rthHgek~~~Cp~~ 69 (406)
|..||=+|+.-..|=--+. -+.|. |+.|.+.|....+-+-| .+ +..|+.|
T Consensus 126 CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfH-----AQ-p~aCp~C 179 (750)
T COG0068 126 CTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFH-----AQ-PIACPKC 179 (750)
T ss_pred cCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccc-----cc-cccCccc
Confidence 8888888877655522211 34454 88888887777664333 33 3456654
No 111
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=47.77 E-value=5.6 Score=35.23 Aligned_cols=37 Identities=19% Similarity=0.422 Sum_probs=22.1
Q ss_pred ccccCccCcccCChHHHHHHhh-ccccccccccCccCCch
Q 015460 11 KVWCYYCDREFDDEKILVQHQK-AKHFKCHVCHKKLSTAG 49 (406)
Q Consensus 11 Kp~C~~CgK~Fs~ks~Lk~H~R-EKPfkC~~CgksFss~s 49 (406)
+.+|..|+... ......+.+ ...|+|..|++.|....
T Consensus 30 ~~~cP~C~s~~--~~k~g~~~~~~qRyrC~~C~~tf~~~~ 67 (129)
T COG3677 30 KVNCPRCKSSN--VVKIGGIRRGHQRYKCKSCGSTFTVET 67 (129)
T ss_pred cCcCCCCCccc--eeeECCccccccccccCCcCcceeeec
Confidence 34588887443 111111122 45699999999988653
No 112
>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=46.52 E-value=11 Score=25.61 Aligned_cols=22 Identities=27% Similarity=0.632 Sum_probs=11.0
Q ss_pred cCccCcccCChHHHHHHhhccccccccccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHK 43 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgk 43 (406)
|..||..+... +.|.+|.+|+.
T Consensus 5 C~~CG~i~~g~--------~~p~~CP~Cg~ 26 (34)
T cd00729 5 CPVCGYIHEGE--------EAPEKCPICGA 26 (34)
T ss_pred CCCCCCEeECC--------cCCCcCcCCCC
Confidence 66666544332 23455666653
No 113
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=45.49 E-value=7.1 Score=30.01 Aligned_cols=29 Identities=17% Similarity=0.305 Sum_probs=24.9
Q ss_pred ccccccccccCccCCchhhHhhhhhhccC
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKE 61 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHge 61 (406)
|.-++|..|+.-|..+.+..+|...-|+-
T Consensus 15 E~~lrCPRC~~~FR~~K~Y~RHVNKaH~~ 43 (65)
T COG4049 15 EEFLRCPRCGMVFRRRKDYIRHVNKAHGW 43 (65)
T ss_pred ceeeeCCchhHHHHHhHHHHHHhhHHhhh
Confidence 66789999999999999999998666653
No 114
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=45.04 E-value=14 Score=28.54 Aligned_cols=10 Identities=30% Similarity=0.776 Sum_probs=6.2
Q ss_pred ccccccccCc
Q 015460 35 HFKCHVCHKK 44 (406)
Q Consensus 35 PfkC~~Cgks 44 (406)
.|.|..||+.
T Consensus 25 ~F~CPnCG~~ 34 (59)
T PRK14890 25 KFLCPNCGEV 34 (59)
T ss_pred EeeCCCCCCe
Confidence 4666666655
No 115
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=44.71 E-value=3.9e+02 Score=27.97 Aligned_cols=15 Identities=33% Similarity=0.749 Sum_probs=8.9
Q ss_pred CCCCCCcccCCCCCC
Q 015460 300 SIGPPPVIANKAPAT 314 (406)
Q Consensus 300 ~~~~~~~~~~~~p~~ 314 (406)
+.|++|..+.+.++.
T Consensus 327 s~GppP~~~~~~~pP 341 (498)
T KOG4849|consen 327 SMGPPPQMNTAMRPP 341 (498)
T ss_pred cCCCCCCCccCCCCC
Confidence 356666666666443
No 116
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=43.91 E-value=15 Score=36.25 Aligned_cols=46 Identities=17% Similarity=0.203 Sum_probs=32.3
Q ss_pred cccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHHHHHhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVLAAHYG 96 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~~H~k 96 (406)
|.|..||....- -.|-+|+- .|.+ ..|.|-.||+.|-+ ...+.|.+
T Consensus 4 FtCnvCgEsvKK-p~vekH~s--------rCrn-----~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMS--------RCRN-----AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccc-cchHHHHH--------hccC-----CeeEEeeccccccc-chhhhhhh
Confidence 789999987765 45667873 4433 44778889998887 55666654
No 117
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=43.14 E-value=8.2 Score=33.34 Aligned_cols=21 Identities=19% Similarity=0.322 Sum_probs=13.2
Q ss_pred cccccccCccCCchhhHhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVL 56 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~r 56 (406)
|-|-+|.+-|.+...|..|.+
T Consensus 56 hYCieCaryf~t~~aL~~Hkk 76 (126)
T COG5112 56 HYCIECARYFITEKALMEHKK 76 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhc
Confidence 456666666666666666653
No 118
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.10 E-value=23 Score=35.74 Aligned_cols=58 Identities=19% Similarity=0.156 Sum_probs=36.7
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCcccccCCC--CCCCCccceeecCCC----CCCHhHHHHHhhhc
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNA--KPGRESTDIEIYGMQ----GIPPDVLAAHYGEE 98 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~--~~~r~s~~c~iCG~~----fi~~~~L~~H~k~h 98 (406)
.-||+|.+|++.|.+. .++.-+.|-|..| ...++.-.|-+|++. |.....|..-++.+
T Consensus 239 ~~Pf~c~icr~~f~~p--------Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~L~~k 302 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRP--------VVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVSLKLK 302 (313)
T ss_pred cCCccccccccccccc--------hhhcCCceeehhhhccccccCCcceecccccccccchHHHHHHHHHhh
Confidence 4589999999999873 2333344566664 345566678888763 45555666555443
No 119
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=43.03 E-value=10 Score=31.81 Aligned_cols=11 Identities=27% Similarity=0.757 Sum_probs=6.8
Q ss_pred ccccccccccC
Q 015460 33 AKHFKCHVCHK 43 (406)
Q Consensus 33 EKPfkC~~Cgk 43 (406)
...|.|..|++
T Consensus 34 ~a~y~CpfCgk 44 (90)
T PTZ00255 34 HAKYFCPFCGK 44 (90)
T ss_pred hCCccCCCCCC
Confidence 44566777764
No 120
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=42.77 E-value=4e+02 Score=27.48 Aligned_cols=18 Identities=17% Similarity=-0.053 Sum_probs=14.6
Q ss_pred ecCCCCCCHhHHHHHhhh
Q 015460 80 IYGMQGIPPDVLAAHYGE 97 (406)
Q Consensus 80 iCG~~fi~~~~L~~H~k~ 97 (406)
-|-+.|..+.+|+.|...
T Consensus 152 GC~RTyLsqrDlqAHInh 169 (389)
T KOG2932|consen 152 GCLRTYLSQRDLQAHINH 169 (389)
T ss_pred hHHHHHhhHHHHHHHhhh
Confidence 366888999999999864
No 121
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=42.39 E-value=9.2 Score=27.43 Aligned_cols=27 Identities=22% Similarity=0.643 Sum_probs=14.7
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLS 46 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFs 46 (406)
|..||..|..... ...++|..||..+.
T Consensus 6 C~~CG~~~~~~~~------~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 6 CARCGREVELDEY------GTGVRCPYCGYRIL 32 (46)
T ss_pred CCCCCCEEEECCC------CCceECCCCCCeEE
Confidence 7777766554322 11456777765443
No 122
>PRK14873 primosome assembly protein PriA; Provisional
Probab=42.25 E-value=15 Score=40.93 Aligned_cols=23 Identities=4% Similarity=-0.071 Sum_probs=13.5
Q ss_pred cccccCCCCCCCCccceeecCCC
Q 015460 62 NVTKVPNAKPGRESTDIEIYGMQ 84 (406)
Q Consensus 62 k~~~Cp~~~~~r~s~~c~iCG~~ 84 (406)
+...|..|........|..||..
T Consensus 409 ~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 409 GTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred CeeECCCCcCCCcCccCCCCcCC
Confidence 34456665433346678888765
No 123
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=42.19 E-value=16 Score=28.39 Aligned_cols=32 Identities=25% Similarity=0.435 Sum_probs=18.5
Q ss_pred ccCccCcccCChHHHHHHhhccccccccccCccCCchh
Q 015460 13 WCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGG 50 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s~ 50 (406)
.|.-||+...-... .-.|.|..||+.-..+..
T Consensus 11 ~CtSCg~~i~p~e~------~v~F~CPnCGe~~I~Rc~ 42 (61)
T COG2888 11 VCTSCGREIAPGET------AVKFPCPNCGEVEIYRCA 42 (61)
T ss_pred eeccCCCEeccCCc------eeEeeCCCCCceeeehhh
Confidence 37777766532211 345778888866555443
No 124
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=41.48 E-value=20 Score=39.17 Aligned_cols=77 Identities=17% Similarity=0.082 Sum_probs=0.0
Q ss_pred CCccc-cCccCcccCChHHHHHHhh----------------ccccccccccCccCCchhhHhhhhhhccCcccc------
Q 015460 9 SSKVW-CYYCDREFDDEKILVQHQK----------------AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTK------ 65 (406)
Q Consensus 9 gEKp~-C~~CgK~Fs~ks~Lk~H~R----------------EKPfkC~~CgksFss~s~LkrH~rthHgek~~~------ 65 (406)
..++. |..||++|.+.....+|+. ++.-+|..--..-..-..-+.-..+...++.-.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n~~~r~s~~~~~sR~Wf~s~s~W~~~K~~e~t~e~~~~~~~~~~~~ 494 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKNTTIRGSSKWQKSRSWFPSKSGWLAAKAGEETDEKEKVEHEELQIK 494 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhhhhhhhhhhcccccccccccceeechhhhccccccccccccccccchhhcch
Q ss_pred --------cCC-CCCCCCccceeecCCCC
Q 015460 66 --------VPN-AKPGRESTDIEIYGMQG 85 (406)
Q Consensus 66 --------Cp~-~~~~r~s~~c~iCG~~f 85 (406)
|.. .........|.+|+..|
T Consensus 495 ~~~s~~~k~~~Vp~d~e~~~~C~IC~EkF 523 (579)
T KOG2071|consen 495 KELSLRSKYELVPADSERQASCPICQEKF 523 (579)
T ss_pred hhhhhhccceecccCcccccCCccccccc
No 125
>PF15269 zf-C2H2_7: Zinc-finger
Probab=41.39 E-value=14 Score=27.28 Aligned_cols=21 Identities=19% Similarity=0.422 Sum_probs=16.6
Q ss_pred cccccccCccCCchhhHhhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVL 56 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~r 56 (406)
|+|-+|.-+...+++|-.||+
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 568888888888888888874
No 126
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=41.28 E-value=4.2e+02 Score=27.32 Aligned_cols=28 Identities=18% Similarity=0.433 Sum_probs=22.3
Q ss_pred cccccccc---ccCccCCchhhHhhhhhhcc
Q 015460 33 AKHFKCHV---CHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 33 EKPfkC~~---CgksFss~s~LkrH~rthHg 60 (406)
+--|.|.. |.++|.++.+|+.|+...|+
T Consensus 142 g~iFmC~~~~GC~RTyLsqrDlqAHInhrH~ 172 (389)
T KOG2932|consen 142 GGIFMCAAPHGCLRTYLSQRDLQAHINHRHG 172 (389)
T ss_pred cceEEeecchhHHHHHhhHHHHHHHhhhhhc
Confidence 55688865 88999999999999866665
No 127
>PF04404 ERF: ERF superfamily; InterPro: IPR007499 The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways. This family includes proteins related to ERF [].
Probab=40.91 E-value=18 Score=32.48 Aligned_cols=67 Identities=21% Similarity=0.251 Sum_probs=33.9
Q ss_pred ceEEEEEcccccChHHHhhccCceeeecccccccchhhchhcccccccccccccccc-----ccccceeehhHHHHHHHH
Q 015460 319 NEVYLVWEDEAMSMEERRMSSVKYQVHDETSQVSYNYLFKIWSWFVFSNQMDRPYVS-----CFQISCLRFVTYLERYFL 393 (406)
Q Consensus 319 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~ 393 (406)
+.+.|+|+++...+|+.-.---++.+.++.-. ..|+.++...+.--.. ....| -..||.+||.|
T Consensus 45 ~gl~~~~~~~~~~~~~~~~~~v~~~l~~~~g~---------~e~~~~~~~~~~~~~k~~~~~~Q~~G--sa~TYArRY~l 113 (160)
T PF04404_consen 45 HGLSLTQEFEEIETEENGIVKVTTTLTHASGP---------SEWIEFPGPADENGSKNQMDDPQATG--SAITYARRYAL 113 (160)
T ss_pred cCCeEEEEeecceecccceEEEEEEEEECCCC---------cEEEEEEEEeecccccccCcHHHHHH--HHHHHHHHHHH
Confidence 56788888888766633322233333333221 1233333333321111 12222 46899999998
Q ss_pred HHH
Q 015460 394 YEF 396 (406)
Q Consensus 394 ~~~ 396 (406)
-..
T Consensus 114 ~~~ 116 (160)
T PF04404_consen 114 SAA 116 (160)
T ss_pred HHh
Confidence 654
No 128
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=40.77 E-value=15 Score=38.80 Aligned_cols=35 Identities=14% Similarity=0.316 Sum_probs=24.1
Q ss_pred ccccccccccCccCCchhhHhhhhhhccCcccccCCCC
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAK 70 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~ 70 (406)
..-|+|..|.+.|+....++--. -....|.|..|.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~L~~---~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQLLD---NETGEFHCENCG 160 (436)
T ss_pred cccccCCccccchhhhHHHHhhc---ccCceEEEecCC
Confidence 45799999999999987765322 123346777654
No 129
>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=40.62 E-value=13 Score=25.01 Aligned_cols=9 Identities=33% Similarity=0.899 Sum_probs=4.7
Q ss_pred ccccccccc
Q 015460 34 KHFKCHVCH 42 (406)
Q Consensus 34 KPfkC~~Cg 42 (406)
.+++|.+|+
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 345555554
No 130
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=40.36 E-value=12 Score=31.84 Aligned_cols=7 Identities=43% Similarity=1.184 Sum_probs=4.3
Q ss_pred CCCCccC
Q 015460 1 MGKKKKR 7 (406)
Q Consensus 1 M~rKkkr 7 (406)
||||+++
T Consensus 1 MGkRk~~ 7 (99)
T PRK14892 1 MGRRRKK 7 (99)
T ss_pred CCCcccc
Confidence 6776554
No 131
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=40.20 E-value=13 Score=42.01 Aligned_cols=33 Identities=21% Similarity=0.449 Sum_probs=20.1
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCch
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAG 49 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s 49 (406)
|..|++.|.....+. -.|.+-|..||+.|....
T Consensus 463 C~~C~kkFfSlsK~L---~~RKHHCRkCGrVFC~~C 495 (1374)
T PTZ00303 463 CPSCGRAFISLSRPL---GTRAHHCRSCGIRLCVFC 495 (1374)
T ss_pred ccCcCCccccccccc---ccccccccCCccccCccc
Confidence 999999986542100 023456777777766554
No 132
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=39.98 E-value=6 Score=44.19 Aligned_cols=26 Identities=19% Similarity=0.342 Sum_probs=22.4
Q ss_pred ccccccccCccCCchhhHhhhhhhcc
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHK 60 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHg 60 (406)
-|-|.+|+|.|..-..+..||++|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 38899999999998889999988753
No 133
>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=39.28 E-value=18 Score=26.54 Aligned_cols=27 Identities=19% Similarity=0.630 Sum_probs=19.7
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCc
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~ 48 (406)
|..|++.|... .+.+.|..||+.|-..
T Consensus 5 C~~C~~~F~~~--------~rk~~Cr~Cg~~~C~~ 31 (57)
T cd00065 5 CMGCGKPFTLT--------RRRHHCRNCGRIFCSK 31 (57)
T ss_pred CcccCccccCC--------ccccccCcCcCCcChH
Confidence 88888888862 4456788888877653
No 134
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=39.16 E-value=22 Score=36.70 Aligned_cols=23 Identities=17% Similarity=0.495 Sum_probs=21.3
Q ss_pred ccccccccCccCCchhhHhhhhh
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQ 57 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rt 57 (406)
.+.|-+|.|.|..+..|+.|||.
T Consensus 195 r~~CLyCekifrdkntLkeHMrk 217 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRK 217 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHh
Confidence 58999999999999999999975
No 135
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.80 E-value=40 Score=29.33 Aligned_cols=26 Identities=4% Similarity=-0.316 Sum_probs=19.6
Q ss_pred CccceeecCCCCCCHhHHHHHhhhcc
Q 015460 74 ESTDIEIYGMQGIPPDVLAAHYGEEE 99 (406)
Q Consensus 74 ~s~~c~iCG~~fi~~~~L~~H~k~he 99 (406)
..|.|..|...|--.-++-.|+..|.
T Consensus 80 ~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 80 HRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cceeCCCCCCccccccchhhhhhccC
Confidence 45778888888877777777877665
No 136
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=38.73 E-value=14 Score=38.93 Aligned_cols=33 Identities=18% Similarity=0.560 Sum_probs=20.5
Q ss_pred cc-cCccCcccCChHHHHHHhh-ccccccccccCc
Q 015460 12 VW-CYYCDREFDDEKILVQHQK-AKHFKCHVCHKK 44 (406)
Q Consensus 12 p~-C~~CgK~Fs~ks~Lk~H~R-EKPfkC~~Cgks 44 (406)
.| |..|.|.|+....|+.-.. +--|.|..|+..
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGE 162 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCCCc
Confidence 45 7777777776666554433 446777777643
No 137
>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=38.28 E-value=11 Score=25.92 Aligned_cols=24 Identities=29% Similarity=0.652 Sum_probs=9.3
Q ss_pred ccCccCcccCChHHHHHHhhcccccccccc
Q 015460 13 WCYYCDREFDDEKILVQHQKAKHFKCHVCH 42 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cg 42 (406)
.|.+|+|.|..+.. -+.|.|.+|+
T Consensus 5 ~C~eC~~~f~dSyL------~~~F~~~VCD 28 (34)
T PF01286_consen 5 KCDECGKPFMDSYL------LNNFDLPVCD 28 (34)
T ss_dssp E-TTT--EES-SSC------CCCTS-S--T
T ss_pred hHhHhCCHHHHHHH------HHhCCccccc
Confidence 37777777766543 2345555554
No 138
>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=37.88 E-value=12 Score=28.69 Aligned_cols=28 Identities=18% Similarity=0.605 Sum_probs=13.7
Q ss_pred ccCccCcccCChHHHHHHhhccccccccccCccCCc
Q 015460 13 WCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~ 48 (406)
.|..|++.|... .|.+.|..||+.|-..
T Consensus 11 ~C~~C~~~F~~~--------~rrhhCr~CG~~vC~~ 38 (69)
T PF01363_consen 11 NCMICGKKFSLF--------RRRHHCRNCGRVVCSS 38 (69)
T ss_dssp B-TTT--B-BSS--------S-EEE-TTT--EEECC
T ss_pred cCcCcCCcCCCc--------eeeEccCCCCCEECCc
Confidence 399999999643 4566888888877654
No 139
>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=37.75 E-value=8.7 Score=27.99 Aligned_cols=11 Identities=18% Similarity=1.050 Sum_probs=5.6
Q ss_pred cccccccCccC
Q 015460 36 FKCHVCHKKLS 46 (406)
Q Consensus 36 fkC~~CgksFs 46 (406)
|+|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44555555444
No 140
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=37.50 E-value=1.3e+02 Score=34.24 Aligned_cols=33 Identities=36% Similarity=0.391 Sum_probs=18.5
Q ss_pred eEEEEEcccc------cChHHHhhccCc--eeeeccccccc
Q 015460 320 EVYLVWEDEA------MSMEERRMSSVK--YQVHDETSQVS 352 (406)
Q Consensus 320 ~~~~~~~~~~------~~~~~~~~~~~~--~~~~~~~~~~~ 352 (406)
-||---|||- |+|-|-++-+.| -++-||.++.+
T Consensus 387 tvf~~~~De~Il~~lD~~~~ee~Fk~~~s~~~~~~e~~a~~ 427 (830)
T KOG1923|consen 387 TVFHELNDEKILEALDFSRFEEQFKILKSNGQILDESSAVS 427 (830)
T ss_pred chhhhhhHHHHHHhhhHHHHHHHHHhhhcccchhhhHHHHH
Confidence 4566667764 455555565544 34567766543
No 141
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=36.55 E-value=23 Score=36.86 Aligned_cols=62 Identities=13% Similarity=0.070 Sum_probs=44.0
Q ss_pred cccccccCccCCchhhHhhhhhhccCcc----cccCC-------CCCCCCccceeecC---CCCCCHhHHHHHhhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQVHKENV----TKVPN-------AKPGRESTDIEIYG---MQGIPPDVLAAHYGE 97 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rthHgek~----~~Cp~-------~~~~r~s~~c~iCG---~~fi~~~~L~~H~k~ 97 (406)
-.|-.|++.|.+-.....||..+|+--. |-... +......+.|-.|. +.|..-...++||..
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 5589999999999999999998887421 11110 11223445677776 899999999999974
No 142
>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=36.02 E-value=7.8 Score=27.50 Aligned_cols=13 Identities=15% Similarity=0.787 Sum_probs=7.1
Q ss_pred cccccccCccCCc
Q 015460 36 FKCHVCHKKLSTA 48 (406)
Q Consensus 36 fkC~~CgksFss~ 48 (406)
|+|..||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (42)
T PF09723_consen 6 YRCEECGHEFEVL 18 (42)
T ss_pred EEeCCCCCEEEEE
Confidence 5555666555543
No 143
>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=35.75 E-value=21 Score=23.04 Aligned_cols=10 Identities=20% Similarity=0.527 Sum_probs=6.0
Q ss_pred ccccccCccC
Q 015460 37 KCHVCHKKLS 46 (406)
Q Consensus 37 kC~~CgksFs 46 (406)
.|..||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5666666653
No 144
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=34.70 E-value=19 Score=26.08 Aligned_cols=23 Identities=26% Similarity=0.593 Sum_probs=12.1
Q ss_pred cCccCcccCChHHHHHHhhccccccccccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHK 43 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgk 43 (406)
|..||..|..+. .-..+|..||.
T Consensus 5 C~~Cg~~~~~~~-------~~~irC~~CG~ 27 (44)
T smart00659 5 CGECGRENEIKS-------KDVVRCRECGY 27 (44)
T ss_pred CCCCCCEeecCC-------CCceECCCCCc
Confidence 666666555431 23455666654
No 145
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=34.25 E-value=16 Score=31.36 Aligned_cols=24 Identities=29% Similarity=0.840 Sum_probs=12.0
Q ss_pred ccCccCcccCChHHHHHHhhccccccccccCc
Q 015460 13 WCYYCDREFDDEKILVQHQKAKHFKCHVCHKK 44 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgks 44 (406)
+|..||+.|.-... .+.|..||..
T Consensus 72 ~C~~Cg~~~~~~~~--------~~~CP~Cgs~ 95 (113)
T PF01155_consen 72 RCRDCGHEFEPDEF--------DFSCPRCGSP 95 (113)
T ss_dssp EETTTS-EEECHHC--------CHH-SSSSSS
T ss_pred ECCCCCCEEecCCC--------CCCCcCCcCC
Confidence 36666666655431 2456666643
No 146
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=34.21 E-value=21 Score=38.13 Aligned_cols=24 Identities=29% Similarity=0.765 Sum_probs=20.9
Q ss_pred CCccccCccCcccCChHHHHHHhh
Q 015460 9 SSKVWCYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 9 gEKp~C~~CgK~Fs~ks~Lk~H~R 32 (406)
++..||-.|+|.|.....|+-|..
T Consensus 290 ge~lyC~vCnKsFKseKq~kNHEn 313 (508)
T KOG0717|consen 290 GEVLYCVVCNKSFKSEKQLKNHEN 313 (508)
T ss_pred CCceEEeeccccccchHHHHhhHH
Confidence 555779999999999999999977
No 147
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=34.20 E-value=19 Score=30.02 Aligned_cols=9 Identities=22% Similarity=0.818 Sum_probs=4.6
Q ss_pred ccccccccC
Q 015460 35 HFKCHVCHK 43 (406)
Q Consensus 35 PfkC~~Cgk 43 (406)
.|.|..|++
T Consensus 35 ~~~Cp~C~~ 43 (89)
T COG1997 35 KHVCPFCGR 43 (89)
T ss_pred CCcCCCCCC
Confidence 455555554
No 148
>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 PF04573 SPC22: Signal peptidase subunit; InterPro: IPR007653 Translocation of polypeptide chains across the endoplasmic reticulum membrane is triggered by signal sequences. During translocation of the nascent chain through the membrane, the signal sequence of most secretory and membrane proteins is cleaved off. Cleavage occurs by the signal peptidase complex (SPC), which consists of four subunits in yeast and five in mammals. This family is is described as similar to microsomal signal peptidase 23 kDa subunit. Found in eukaryotes [, ].; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=33.91 E-value=31 Score=32.17 Aligned_cols=36 Identities=25% Similarity=0.441 Sum_probs=30.5
Q ss_pred CCceEEEEEcccccChHHHhhccC----ceeeecccccccc
Q 015460 317 AVNEVYLVWEDEAMSMEERRMSSV----KYQVHDETSQVSY 353 (406)
Q Consensus 317 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~ 353 (406)
..||| .+||+=.-+.|+-++.|. ||.+.|....+..
T Consensus 99 ~~Nev-viWD~Ii~~~~~a~~~~~~~~~KY~~~d~~~~l~~ 138 (175)
T PF04573_consen 99 PVNEV-VIWDKIIRRKEDAVLNLKNVKSKYPFWDDGNGLRG 138 (175)
T ss_pred CcceE-EEehHhhcccchhhhhhhccccceeeECCCCcccC
Confidence 37898 679999999999888877 9999999887766
No 150
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.63 E-value=22 Score=30.92 Aligned_cols=19 Identities=16% Similarity=0.149 Sum_probs=11.9
Q ss_pred ccc-cCccCcccCChHHHHH
Q 015460 11 KVW-CYYCDREFDDEKILVQ 29 (406)
Q Consensus 11 Kp~-C~~CgK~Fs~ks~Lk~ 29 (406)
-+. |..||-......+|.|
T Consensus 14 LP~~CpiCgLtLVss~HLAR 33 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLAR 33 (112)
T ss_pred CCCcCCcCCCEEeccchHHH
Confidence 344 6666666666666655
No 151
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=32.39 E-value=21 Score=30.75 Aligned_cols=10 Identities=20% Similarity=0.780 Sum_probs=4.7
Q ss_pred cCccCcccCC
Q 015460 14 CYYCDREFDD 23 (406)
Q Consensus 14 C~~CgK~Fs~ 23 (406)
|..||+.|..
T Consensus 73 C~~Cg~~~~~ 82 (113)
T PRK12380 73 CWDCSQVVEI 82 (113)
T ss_pred cccCCCEEec
Confidence 5555544433
No 152
>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=32.26 E-value=25 Score=23.78 Aligned_cols=9 Identities=33% Similarity=0.822 Sum_probs=4.6
Q ss_pred cCccCcccC
Q 015460 14 CYYCDREFD 22 (406)
Q Consensus 14 C~~CgK~Fs 22 (406)
|..||..+.
T Consensus 3 C~~Cg~~~~ 11 (32)
T PF03604_consen 3 CGECGAEVE 11 (32)
T ss_dssp ESSSSSSE-
T ss_pred CCcCCCeeE
Confidence 555655554
No 153
>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=31.99 E-value=39 Score=24.44 Aligned_cols=15 Identities=33% Similarity=0.574 Sum_probs=12.3
Q ss_pred cCccCcccCChHHHH
Q 015460 14 CYYCDREFDDEKILV 28 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk 28 (406)
|.+||+.|+.+....
T Consensus 11 C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 11 CPVCGRPFTWRKKWA 25 (42)
T ss_pred CcccCCcchHHHHHH
Confidence 999999998876655
No 154
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=31.84 E-value=14 Score=33.52 Aligned_cols=22 Identities=18% Similarity=0.484 Sum_probs=15.8
Q ss_pred ccccccccccCccCCchhhHhh
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIH 54 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH 54 (406)
.|.-.|..|+++|++-.....-
T Consensus 26 RRRReC~~C~~RFTTyErve~~ 47 (147)
T TIGR00244 26 RRRRECLECHERFTTFERAELL 47 (147)
T ss_pred eecccCCccCCccceeeecccc
Confidence 4556899999999986554433
No 155
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=31.06 E-value=13 Score=27.60 Aligned_cols=33 Identities=21% Similarity=0.565 Sum_probs=16.1
Q ss_pred cCc--cCcccCChHHHHHHhh----cccccccc----ccCccCC
Q 015460 14 CYY--CDREFDDEKILVQHQK----AKHFKCHV----CHKKLST 47 (406)
Q Consensus 14 C~~--CgK~Fs~ks~Lk~H~R----EKPfkC~~----CgksFss 47 (406)
|.. |.+.+. +..|..|.. .+...|.+ |+..+.+
T Consensus 12 C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 12 CPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp -TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEEH
T ss_pred CCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccch
Confidence 666 434344 346777766 55666777 6665544
No 156
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=30.74 E-value=22 Score=26.48 Aligned_cols=26 Identities=23% Similarity=0.755 Sum_probs=14.6
Q ss_pred cc-cCccCcccCChHHHHHHhhccccccccccC
Q 015460 12 VW-CYYCDREFDDEKILVQHQKAKHFKCHVCHK 43 (406)
Q Consensus 12 p~-C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgk 43 (406)
.| |-.||+.|.... ......|..||.
T Consensus 6 ~Y~C~~Cg~~~~~~~------~~~~irCp~Cg~ 32 (49)
T COG1996 6 EYKCARCGREVELDQ------ETRGIRCPYCGS 32 (49)
T ss_pred EEEhhhcCCeeehhh------ccCceeCCCCCc
Confidence 35 777777772111 144566777764
No 157
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=29.90 E-value=50 Score=33.92 Aligned_cols=66 Identities=11% Similarity=-0.015 Sum_probs=46.7
Q ss_pred ccccccccccCccCCchhhHhhhhhhc------------c-----CcccccCCCCCCCCccceeecCCCCCCHhHHHHHh
Q 015460 33 AKHFKCHVCHKKLSTAGGMAIHVLQVH------------K-----ENVTKVPNAKPGRESTDIEIYGMQGIPPDVLAAHY 95 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~LkrH~rthH------------g-----ek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~~H~ 95 (406)
+-|-.|..|+-+.....+|.|-- || + +..|.|.........|.|+.|...|--.-+.-.|+
T Consensus 288 sLP~eCpiC~ltLVss~hLARSy--hhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHe 365 (378)
T KOG2807|consen 288 SLPIECPICSLTLVSSPHLARSY--HHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHE 365 (378)
T ss_pred cCCccCCccceeEecchHHHHHH--HhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHh
Confidence 56889999999988888887653 22 1 11355644445556789999999997777777788
Q ss_pred hhccC
Q 015460 96 GEEEE 100 (406)
Q Consensus 96 k~he~ 100 (406)
..|.-
T Consensus 366 sLh~C 370 (378)
T KOG2807|consen 366 SLHNC 370 (378)
T ss_pred hhhcC
Confidence 77653
No 158
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=29.36 E-value=31 Score=29.64 Aligned_cols=24 Identities=29% Similarity=0.580 Sum_probs=13.2
Q ss_pred cCccCcccCChHHHHHHhhccccccccccC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHK 43 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~Cgk 43 (406)
|.-||+.|..-+.+.. -.|..||.
T Consensus 5 CtrCG~vf~~g~~~il------~GCp~CG~ 28 (112)
T COG3364 5 CTRCGEVFDDGSEEIL------SGCPKCGC 28 (112)
T ss_pred ecccccccccccHHHH------ccCccccc
Confidence 6777777766433221 25666663
No 159
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=29.06 E-value=28 Score=31.11 Aligned_cols=12 Identities=42% Similarity=0.988 Sum_probs=7.4
Q ss_pred cCccCcccCChH
Q 015460 14 CYYCDREFDDEK 25 (406)
Q Consensus 14 C~~CgK~Fs~ks 25 (406)
|..||+.|..-+
T Consensus 4 Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 4 CTKCGRVFEDGS 15 (131)
T ss_pred cCcCCCCcCCCc
Confidence 666666666544
No 160
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=28.91 E-value=35 Score=24.19 Aligned_cols=24 Identities=25% Similarity=0.239 Sum_probs=16.2
Q ss_pred cceeecCCCCCC--HhHHHHHhhhcc
Q 015460 76 TDIEIYGMQGIP--PDVLAAHYGEEE 99 (406)
Q Consensus 76 ~~c~iCG~~fi~--~~~L~~H~k~he 99 (406)
..|..|||.+.. .++.+.|.+.|+
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 468888887744 456677777664
No 161
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=28.61 E-value=21 Score=36.96 Aligned_cols=24 Identities=38% Similarity=0.753 Sum_probs=20.1
Q ss_pred CCccccCccCcccCChHHHHHHhh
Q 015460 9 SSKVWCYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 9 gEKp~C~~CgK~Fs~ks~Lk~H~R 32 (406)
.++.||..|+|-|.+...+..|..
T Consensus 236 ~~~~YC~~C~r~f~~~~VFe~Hl~ 259 (470)
T COG5188 236 FPKVYCVKCGREFSRSKVFEYHLE 259 (470)
T ss_pred ccceeeHhhhhHhhhhHHHHHHHh
Confidence 356789999999999888888865
No 162
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=28.44 E-value=9.8e+02 Score=27.72 Aligned_cols=11 Identities=36% Similarity=0.498 Sum_probs=5.0
Q ss_pred CCCCCCHhHHH
Q 015460 82 GMQGIPPDVLA 92 (406)
Q Consensus 82 G~~fi~~~~L~ 92 (406)
|-.+|.-+.|.
T Consensus 510 GVt~IP~~kLt 520 (894)
T KOG0132|consen 510 GVTYIPWEKLT 520 (894)
T ss_pred CeeEeehHhcC
Confidence 44445444443
No 163
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=28.33 E-value=19 Score=32.95 Aligned_cols=18 Identities=17% Similarity=0.451 Sum_probs=13.3
Q ss_pred ccccccccccCccCCchh
Q 015460 33 AKHFKCHVCHKKLSTAGG 50 (406)
Q Consensus 33 EKPfkC~~CgksFss~s~ 50 (406)
.|.-.|..|+++|++-..
T Consensus 26 RRRReC~~C~~RFTTfE~ 43 (156)
T COG1327 26 RRRRECLECGERFTTFER 43 (156)
T ss_pred hhhhcccccccccchhhe
Confidence 445679999999988543
No 164
>KOG4215 consensus Hepatocyte nuclear factor 4 and similar steroid hormone receptors [Transcription]
Probab=28.04 E-value=18 Score=37.67 Aligned_cols=18 Identities=28% Similarity=0.506 Sum_probs=13.5
Q ss_pred cCccCcccCChHHHHHHhh
Q 015460 14 CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R 32 (406)
|+-| |.|-+++.++.|+-
T Consensus 39 CdGC-KGFFRRSVrk~~~Y 56 (432)
T KOG4215|consen 39 CDGC-KGFFRRSVRKNHQY 56 (432)
T ss_pred cCcc-hHHHHHHHHhccee
Confidence 7777 57777888888863
No 165
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=27.91 E-value=24 Score=39.95 Aligned_cols=12 Identities=8% Similarity=-0.014 Sum_probs=6.5
Q ss_pred CCccceeecCCC
Q 015460 73 RESTDIEIYGMQ 84 (406)
Q Consensus 73 r~s~~c~iCG~~ 84 (406)
+....|..||..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 444556666544
No 166
>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=27.80 E-value=20 Score=26.94 Aligned_cols=43 Identities=19% Similarity=0.498 Sum_probs=19.4
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCchhhHhhhhhh
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGGMAIHVLQV 58 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s~LkrH~rth 58 (406)
|--|.+.|.....-..- ...|+|..|++.|--.-++-.|...|
T Consensus 2 CfgC~~~~~~~~~~~~~--~~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKAD--SSRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp ETTTTEE-TTS---------EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CccCCCCCCCccccccc--CCeEECCCCCCccccCcChhhhcccc
Confidence 45566666654321111 34678888888888777777775433
No 167
>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=27.73 E-value=44 Score=28.07 Aligned_cols=27 Identities=11% Similarity=0.153 Sum_probs=22.8
Q ss_pred CCccce----eecCCCCCCHhHHHHHhhhcc
Q 015460 73 RESTDI----EIYGMQGIPPDVLAAHYGEEE 99 (406)
Q Consensus 73 r~s~~c----~iCG~~fi~~~~L~~H~k~he 99 (406)
-..+.| ..|+-.....+.+++|.+.+.
T Consensus 78 ~~G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 78 YDGYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCCeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 366889 999999999999999988754
No 168
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=27.64 E-value=42 Score=30.76 Aligned_cols=28 Identities=25% Similarity=0.484 Sum_probs=15.2
Q ss_pred ccccccccccCccC------CchhhHhhh-hhhcc
Q 015460 33 AKHFKCHVCHKKLS------TAGGMAIHV-LQVHK 60 (406)
Q Consensus 33 EKPfkC~~CgksFs------s~s~LkrH~-rthHg 60 (406)
+--.+|..|+|-|- ..+++..|+ |.+|.
T Consensus 12 ~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ 46 (152)
T PF09416_consen 12 SCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHK 46 (152)
T ss_dssp CCEEEETTTTEEEES--TTSSS-HHHHHHHHHT--
T ss_pred ccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCC
Confidence 33457777777653 456777774 33444
No 169
>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=27.08 E-value=30 Score=29.86 Aligned_cols=12 Identities=25% Similarity=0.755 Sum_probs=5.9
Q ss_pred cccccccCccCC
Q 015460 36 FKCHVCHKKLST 47 (406)
Q Consensus 36 fkC~~CgksFss 47 (406)
+.|..|++.|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (115)
T TIGR00100 71 CECEDCSEEVSP 82 (115)
T ss_pred EEcccCCCEEec
Confidence 445555544443
No 170
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=26.95 E-value=31 Score=29.89 Aligned_cols=10 Identities=30% Similarity=0.803 Sum_probs=5.0
Q ss_pred cCccCcccCC
Q 015460 14 CYYCDREFDD 23 (406)
Q Consensus 14 C~~CgK~Fs~ 23 (406)
|..||+.|..
T Consensus 74 C~~Cg~~~~~ 83 (117)
T PRK00564 74 CKDCSHVFKP 83 (117)
T ss_pred hhhCCCcccc
Confidence 5555544443
No 171
>KOG3815 consensus Transcription factor Doublesex [Transcription]
Probab=26.76 E-value=23 Score=35.87 Aligned_cols=42 Identities=17% Similarity=0.265 Sum_probs=30.4
Q ss_pred CCccccCccCcccCChHHHHHHhh---ccccccccccCccCCchhh
Q 015460 9 SSKVWCYYCDREFDDEKILVQHQK---AKHFKCHVCHKKLSTAGGM 51 (406)
Q Consensus 9 gEKp~C~~CgK~Fs~ks~Lk~H~R---EKPfkC~~CgksFss~s~L 51 (406)
..+++|..|. .+.....||-|.| -|.-.|.+|.....++..+
T Consensus 34 ~r~p~CaRCr-nHG~~~~LKGHk~~C~~~~C~C~kC~li~eRqrvm 78 (322)
T KOG3815|consen 34 ARGPKCARCE-NHGVLSRLKGHKRSCPYRDCPCEKCGLVEERRRVM 78 (322)
T ss_pred cccchhhhhh-ccCcceeccCCCCCCCCCCCCchHhcchHHHHHHH
Confidence 3455688884 5667788999988 6777788898877765443
No 172
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=25.77 E-value=46 Score=33.38 Aligned_cols=31 Identities=16% Similarity=0.409 Sum_probs=21.2
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCch
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAG 49 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~s 49 (406)
|..|++....+. |. +.-+.|..|+.-|.-..
T Consensus 29 c~~c~~~~~~~~-l~----~~~~vc~~c~~h~rl~a 59 (285)
T TIGR00515 29 CPKCGQVLYTKE-LE----RNLEVCPKCDHHMRMDA 59 (285)
T ss_pred CCCCcchhhHHH-HH----hhCCCCCCCCCcCcCCH
Confidence 999997765543 32 23478999998776543
No 173
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=25.00 E-value=29 Score=30.72 Aligned_cols=22 Identities=36% Similarity=0.658 Sum_probs=16.8
Q ss_pred CccccCccCcccCChHHHHHHh
Q 015460 10 SKVWCYYCDREFDDEKILVQHQ 31 (406)
Q Consensus 10 EKp~C~~CgK~Fs~ks~Lk~H~ 31 (406)
..+||-+|.|-|.+...|..|.
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~ 77 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHF 77 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHH
Confidence 3456888888888888888883
No 174
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=24.85 E-value=1.6e+02 Score=30.13 Aligned_cols=25 Identities=16% Similarity=0.224 Sum_probs=12.5
Q ss_pred ccCccCCchhhHhhhhhhccCcccccCCCC
Q 015460 41 CHKKLSTAGGMAIHVLQVHKENVTKVPNAK 70 (406)
Q Consensus 41 CgksFss~s~LkrH~rthHgek~~~Cp~~~ 70 (406)
|++.|..... . +-.-+..|+|++|.
T Consensus 293 C~~~fc~eci-~----~al~dsDf~CpnC~ 317 (427)
T COG5222 293 CGHTFCDECI-G----TALLDSDFKCPNCS 317 (427)
T ss_pred ccchHHHHHH-h----hhhhhccccCCCcc
Confidence 6666655321 1 11234456777754
No 175
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=24.65 E-value=25 Score=36.29 Aligned_cols=35 Identities=20% Similarity=0.408 Sum_probs=13.5
Q ss_pred cCccCcccCChHHHHH---Hhh------ccccccccccCccCCc
Q 015460 14 CYYCDREFDDEKILVQ---HQK------AKHFKCHVCHKKLSTA 48 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~---H~R------EKPfkC~~CgksFss~ 48 (406)
|..|.+..-....+-. |.- .|=|+|..|+++..+-
T Consensus 255 C~~C~yt~~~~~~~C~~~~H~l~~~~a~KRFFkC~~C~~Rt~sl 298 (344)
T PF09332_consen 255 CKQCKYTAFKPSDRCKEEGHPLKWHDAVKRFFKCKDCGNRTISL 298 (344)
T ss_dssp ETTT--EESS--HHHHHTT--EEEEEEE-EEEE-T-TS-EEEES
T ss_pred cCCCCCcccCcchhHHhcCCceEEeeeeeeeEECCCCCCeeeec
Confidence 7777766444333321 211 4456777777765543
No 176
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=24.63 E-value=38 Score=21.11 Aligned_cols=7 Identities=43% Similarity=1.027 Sum_probs=3.2
Q ss_pred cCccCcc
Q 015460 14 CYYCDRE 20 (406)
Q Consensus 14 C~~CgK~ 20 (406)
|..||+.
T Consensus 2 Cp~CG~~ 8 (23)
T PF13240_consen 2 CPNCGAE 8 (23)
T ss_pred CcccCCC
Confidence 4445443
No 177
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=24.56 E-value=40 Score=30.17 Aligned_cols=39 Identities=15% Similarity=0.398 Sum_probs=27.5
Q ss_pred CCccc-cCccCcccCChHHHHH-HhhccccccccccCccCCc
Q 015460 9 SSKVW-CYYCDREFDDEKILVQ-HQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 9 gEKp~-C~~CgK~Fs~ks~Lk~-H~REKPfkC~~CgksFss~ 48 (406)
....| |..|++.|.....+.. +. +..|.|..||......
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~~d~-~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQLLDM-DGTFTCPRCGEELEED 136 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHhcCC-CCcEECCCCCCEEEEc
Confidence 34466 9999999997665543 22 4459999999876543
No 178
>PF14369 zf-RING_3: zinc-finger
Probab=24.27 E-value=35 Score=23.42 Aligned_cols=31 Identities=23% Similarity=0.572 Sum_probs=16.6
Q ss_pred cccCccCcccCChHHHHHHhhccccccccccCccCC
Q 015460 12 VWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLST 47 (406)
Q Consensus 12 p~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss 47 (406)
++|..|++....... . ...-.|..|+..|..
T Consensus 3 ywCh~C~~~V~~~~~----~-~~~~~CP~C~~gFvE 33 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPS----P-DSDVACPRCHGGFVE 33 (35)
T ss_pred EeCccCCCEeEeCcC----C-CCCcCCcCCCCcEeE
Confidence 447778766553211 0 111248888777753
No 179
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.26 E-value=43 Score=25.04 Aligned_cols=17 Identities=29% Similarity=0.536 Sum_probs=13.3
Q ss_pred cCccCcccCChHHHHHH
Q 015460 14 CYYCDREFDDEKILVQH 30 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H 30 (406)
|+.|++-|+.+....+-
T Consensus 15 CpvCqRPFsWRkKW~~c 31 (54)
T COG4338 15 CPVCQRPFSWRKKWARC 31 (54)
T ss_pred hhhhcCchHHHHHHHHH
Confidence 99999999887655543
No 180
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=24.18 E-value=35 Score=29.40 Aligned_cols=8 Identities=25% Similarity=0.758 Sum_probs=3.7
Q ss_pred cCccCccc
Q 015460 14 CYYCDREF 21 (406)
Q Consensus 14 C~~CgK~F 21 (406)
|..||+.|
T Consensus 73 C~~Cg~~~ 80 (114)
T PRK03681 73 CETCQQYV 80 (114)
T ss_pred cccCCCee
Confidence 44454433
No 181
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=24.11 E-value=38 Score=25.14 Aligned_cols=27 Identities=19% Similarity=0.586 Sum_probs=18.1
Q ss_pred ccCccCcccCChHHHHHHhhccccccccccCccC
Q 015460 13 WCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLS 46 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFs 46 (406)
+|..||.. .|..| +..+.|..||.++-
T Consensus 22 fCP~Cg~~-----~m~~~--~~r~~C~~Cgyt~~ 48 (50)
T PRK00432 22 FCPRCGSG-----FMAEH--LDRWHCGKCGYTEF 48 (50)
T ss_pred cCcCCCcc-----hhecc--CCcEECCCcCCEEe
Confidence 48888742 44445 56788998987653
No 182
>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=23.57 E-value=42 Score=29.96 Aligned_cols=17 Identities=24% Similarity=0.669 Sum_probs=10.0
Q ss_pred ccCccCcccCChHHHHHHhh
Q 015460 13 WCYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 13 ~C~~CgK~Fs~ks~Lk~H~R 32 (406)
.|-+|||.|+.. ++|.+
T Consensus 74 ~clecGk~~k~L---krHL~ 90 (132)
T PF05443_consen 74 ICLECGKKFKTL---KRHLR 90 (132)
T ss_dssp E-TBT--EESBH---HHHHH
T ss_pred EEccCCcccchH---HHHHH
Confidence 399999999863 66654
No 183
>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=23.53 E-value=25 Score=29.48 Aligned_cols=11 Identities=27% Similarity=0.818 Sum_probs=6.2
Q ss_pred ccccccccccC
Q 015460 33 AKHFKCHVCHK 43 (406)
Q Consensus 33 EKPfkC~~Cgk 43 (406)
...|.|..|++
T Consensus 33 ~a~y~CpfCgk 43 (91)
T TIGR00280 33 KAKYVCPFCGK 43 (91)
T ss_pred hcCccCCCCCC
Confidence 34566666654
No 184
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.38 E-value=41 Score=25.74 Aligned_cols=27 Identities=19% Similarity=0.604 Sum_probs=18.0
Q ss_pred cCccCcccCChHHHHHHhh-ccccccccccCccCC
Q 015460 14 CYYCDREFDDEKILVQHQK-AKHFKCHVCHKKLST 47 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-EKPfkC~~CgksFss 47 (406)
|..||..-.. .+ .+-|.|..||..+.+
T Consensus 31 C~~CG~~~~~-------~~~~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 31 CPRCGHRNKK-------RRSGRVFTCPNCGFEMDR 58 (69)
T ss_pred ccCccccccc-------ccccceEEcCCCCCEECc
Confidence 8888765544 12 677888888876543
No 185
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=23.16 E-value=33 Score=31.90 Aligned_cols=34 Identities=21% Similarity=0.525 Sum_probs=24.0
Q ss_pred Cccc-cCccCcccCChHHHHHHhhccccccccccCccCCc
Q 015460 10 SKVW-CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 10 EKp~-C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~ 48 (406)
..+| |..|++.|+....+. .-|.|..||.....-
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~-----~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME-----YGFRCPQCGEMLEEY 149 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh-----cCCcCCCCCCCCeec
Confidence 4566 888888888776653 368888888765543
No 186
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=22.84 E-value=58 Score=32.75 Aligned_cols=30 Identities=20% Similarity=0.453 Sum_probs=20.5
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCCc
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTA 48 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss~ 48 (406)
|..|++....+. |. +.-+.|.+|+.-|.-.
T Consensus 30 c~~c~~~~~~~~-l~----~~~~vc~~c~~h~rl~ 59 (292)
T PRK05654 30 CPSCGQVLYRKE-LE----ANLNVCPKCGHHMRIS 59 (292)
T ss_pred CCCccchhhHHH-HH----hcCCCCCCCCCCeeCC
Confidence 999987655443 32 3346899999887643
No 187
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=22.58 E-value=82 Score=29.76 Aligned_cols=30 Identities=20% Similarity=0.609 Sum_probs=12.8
Q ss_pred cCccCcccCChHHHHHHhh-ccccccccccC
Q 015460 14 CYYCDREFDDEKILVQHQK-AKHFKCHVCHK 43 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-EKPfkC~~Cgk 43 (406)
|..|++.+.....+..... +..-+|..|+.
T Consensus 98 C~~C~~~~~~~~~~~~~~~~~~~p~C~~Cgg 128 (206)
T cd01410 98 CKSCGPEYVRDDVVETRGDKETGRRCHACGG 128 (206)
T ss_pred CCCCCCccchHHHHHHhhcCCCCCcCCCCcC
Confidence 6556655544333221111 22344555653
No 188
>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=22.46 E-value=67 Score=20.52 Aligned_cols=17 Identities=35% Similarity=0.675 Sum_probs=9.6
Q ss_pred cCccCcccCChHHHHHHh
Q 015460 14 CYYCDREFDDEKILVQHQ 31 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~ 31 (406)
|..|++.+ ....+.+|.
T Consensus 4 CPiC~~~v-~~~~in~HL 20 (26)
T smart00734 4 CPVCFREV-PENLINSHL 20 (26)
T ss_pred CCCCcCcc-cHHHHHHHH
Confidence 66666666 444555554
No 189
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=22.12 E-value=9.3e+02 Score=25.31 Aligned_cols=17 Identities=18% Similarity=0.013 Sum_probs=7.2
Q ss_pred CCCCCCCCCCCCCCCCC
Q 015460 148 PPAGWPVPPRPQPWYPQ 164 (406)
Q Consensus 148 Pp~~~~lP~~P~p~~P~ 164 (406)
|+-....|+|+-..+.|
T Consensus 237 P~N~~~~P~~~~Q~~Gq 253 (498)
T KOG4849|consen 237 PSNLNQAPQMRLQINGQ 253 (498)
T ss_pred CCCcCcCcccCcCcCCC
Confidence 33334445544433333
No 190
>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=22.00 E-value=52 Score=21.01 Aligned_cols=9 Identities=33% Similarity=0.811 Sum_probs=5.0
Q ss_pred ccccccccc
Q 015460 34 KHFKCHVCH 42 (406)
Q Consensus 34 KPfkC~~Cg 42 (406)
..|.|..||
T Consensus 15 v~f~CPnCG 23 (24)
T PF07754_consen 15 VPFPCPNCG 23 (24)
T ss_pred ceEeCCCCC
Confidence 345666665
No 191
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.95 E-value=55 Score=34.90 Aligned_cols=41 Identities=17% Similarity=0.343 Sum_probs=27.8
Q ss_pred HHHhhcccccccccc-CccCCchhhHhhh---hhhccCcccccCC
Q 015460 28 VQHQKAKHFKCHVCH-KKLSTAGGMAIHV---LQVHKENVTKVPN 68 (406)
Q Consensus 28 k~H~REKPfkC~~Cg-ksFss~s~LkrH~---rthHgek~~~Cp~ 68 (406)
+.|--.+-|.|.+|| +++.-+..+.+|- |.-||-++...++
T Consensus 394 KLHGL~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrCLGIpn 438 (497)
T KOG2636|consen 394 KLHGLDIEYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRCLGIPN 438 (497)
T ss_pred hhcCCCcccceeeccCccccCcHHHHHHhHHHHHhhcceecCCCC
Confidence 334337789999999 7888888888884 2334555555554
No 192
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=21.90 E-value=20 Score=34.17 Aligned_cols=31 Identities=19% Similarity=0.349 Sum_probs=22.3
Q ss_pred cCccCcccCChHHHHHHhh-----------ccccccccccCccCCchh
Q 015460 14 CYYCDREFDDEKILVQHQK-----------AKHFKCHVCHKKLSTAGG 50 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~R-----------EKPfkC~~CgksFss~s~ 50 (406)
|..||. .|+.|++ .--+.|+.||.+++.-..
T Consensus 17 CPvCg~------~l~~~~~~~~IPyFG~V~i~t~~C~~CgYR~~DV~~ 58 (201)
T COG1779 17 CPVCGG------TLKAHMYLYDIPYFGEVLISTGVCERCGYRSTDVKT 58 (201)
T ss_pred CCcccc------eeeEEEeeecCCccceEEEEEEEccccCCcccceee
Confidence 999986 5566665 445779999988776433
No 193
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=21.54 E-value=47 Score=30.82 Aligned_cols=24 Identities=21% Similarity=0.326 Sum_probs=14.5
Q ss_pred ccccccccCccCCchhhHhhhhhhccCcccccCCCCC
Q 015460 35 HFKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKP 71 (406)
Q Consensus 35 PfkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~ 71 (406)
-|.|.+||..+ -++-+..||.|..
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCCC
Confidence 38888887432 2445556766543
No 194
>COG0186 RpsQ Ribosomal protein S17 [Translation, ribosomal structure and biogenesis]
Probab=21.49 E-value=26 Score=29.20 Aligned_cols=37 Identities=22% Similarity=0.282 Sum_probs=25.4
Q ss_pred Cceeeecccccccchhhchhccccccccccccccccccccc---eeehhHHHHH
Q 015460 340 VKYQVHDETSQVSYNYLFKIWSWFVFSNQMDRPYVSCFQIS---CLRFVTYLER 390 (406)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~ 390 (406)
-||.+|||-.+..-= |.. +|.|+|=.. .|.||..+++
T Consensus 45 kK~~aHde~~~~k~G-----------D~V---~I~EtRPLSKtK~~~vv~i~~~ 84 (87)
T COG0186 45 KKYHAHDECNEAKVG-----------DIV---RIAETRPLSKTKRFVVVEIVEK 84 (87)
T ss_pred eeeEeecccccCCCC-----------CEE---EEEEccccCCcceEEEEEEeee
Confidence 378999987765433 322 688888766 8888776654
No 195
>PRK05978 hypothetical protein; Provisional
Probab=21.43 E-value=36 Score=31.01 Aligned_cols=11 Identities=18% Similarity=0.800 Sum_probs=5.6
Q ss_pred ccccccCccCC
Q 015460 37 KCHVCHKKLST 47 (406)
Q Consensus 37 kC~~CgksFss 47 (406)
.|..||..|..
T Consensus 54 ~C~~CG~~~~~ 64 (148)
T PRK05978 54 HCAACGEDFTH 64 (148)
T ss_pred CccccCCcccc
Confidence 45555554443
No 196
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=21.42 E-value=26 Score=26.62 Aligned_cols=26 Identities=23% Similarity=0.568 Sum_probs=16.7
Q ss_pred cCccCcccCChHHHHHHhhccccccccccCccCC
Q 015460 14 CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLST 47 (406)
Q Consensus 14 C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss 47 (406)
|..||+.|....+ --.|..|+..+-+
T Consensus 8 C~~Cg~~~~~~dD--------iVvCp~CgapyHR 33 (54)
T PF14446_consen 8 CPVCGKKFKDGDD--------IVVCPECGAPYHR 33 (54)
T ss_pred ChhhCCcccCCCC--------EEECCCCCCcccH
Confidence 8888888865543 2367777755443
No 197
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=20.91 E-value=33 Score=25.54 Aligned_cols=11 Identities=18% Similarity=0.845 Sum_probs=5.3
Q ss_pred cccccccCccC
Q 015460 36 FKCHVCHKKLS 46 (406)
Q Consensus 36 fkC~~CgksFs 46 (406)
|+|..||..|.
T Consensus 2 y~C~~CgyiYd 12 (50)
T cd00730 2 YECRICGYIYD 12 (50)
T ss_pred cCCCCCCeEEC
Confidence 44555554444
No 198
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=20.68 E-value=85 Score=22.71 Aligned_cols=49 Identities=12% Similarity=0.172 Sum_probs=28.3
Q ss_pred cccccccCccCCchhhHhhhhhhccCcccccCCCCCCCCccceeecCCCCCCHhHHHHHhh
Q 015460 36 FKCHVCHKKLSTAGGMAIHVLQVHKENVTKVPNAKPGRESTDIEIYGMQGIPPDVLAAHYG 96 (406)
Q Consensus 36 fkC~~CgksFss~s~LkrH~rthHgek~~~Cp~~~~~r~s~~c~iCG~~fi~~~~L~~H~k 96 (406)
..|..||+.+.... .+.+...|.|........ .|....+..+.|++...
T Consensus 6 l~C~~CG~~m~~~~-------~~~~~~yy~C~~~~~~~~-----~C~~~~i~~~~ie~~v~ 54 (58)
T PF13408_consen 6 LRCGHCGSKMTRRK-------RKGKYRYYRCSNRRRKGK-----GCPNKSIREEEIEEAVL 54 (58)
T ss_pred EEcccCCcEeEEEE-------CCCCceEEEcCCCcCCCC-----CCCCCEeCHHHHHHHHH
Confidence 46888887766621 112235578876443332 25566788877766543
No 199
>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=20.65 E-value=39 Score=22.99 Aligned_cols=15 Identities=13% Similarity=0.623 Sum_probs=11.9
Q ss_pred ccccccccCccCCch
Q 015460 35 HFKCHVCHKKLSTAG 49 (406)
Q Consensus 35 PfkC~~CgksFss~s 49 (406)
-|+|..||+.|....
T Consensus 5 ~y~C~~Cg~~fe~~~ 19 (41)
T smart00834 5 EYRCEDCGHTFEVLQ 19 (41)
T ss_pred EEEcCCCCCEEEEEE
Confidence 389999999887643
No 200
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=20.61 E-value=22 Score=39.97 Aligned_cols=21 Identities=29% Similarity=0.499 Sum_probs=17.5
Q ss_pred cc-cCccCcccCChHHHHHHhh
Q 015460 12 VW-CYYCDREFDDEKILVQHQK 32 (406)
Q Consensus 12 p~-C~~CgK~Fs~ks~Lk~H~R 32 (406)
++ |++|||.|.....+..||+
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK 813 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMK 813 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHH
Confidence 45 9999999988877777776
No 201
>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=20.60 E-value=49 Score=30.11 Aligned_cols=34 Identities=18% Similarity=0.350 Sum_probs=24.6
Q ss_pred CCccc-cCccCcccCChHHHHHHhhccccccccccCccCC
Q 015460 9 SSKVW-CYYCDREFDDEKILVQHQKAKHFKCHVCHKKLST 47 (406)
Q Consensus 9 gEKp~-C~~CgK~Fs~ks~Lk~H~REKPfkC~~CgksFss 47 (406)
...+| |..|++.|+....+. .-|.|..||.....
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~-----~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME-----LNFTCPRCGAMLDY 140 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH-----cCCcCCCCCCEeee
Confidence 34566 888888888877774 35888888876443
No 202
>KOG1740 consensus Predicted mitochondrial/chloroplast ribosomal protein S17 [Translation, ribosomal structure and biogenesis]
Probab=20.43 E-value=92 Score=26.74 Aligned_cols=37 Identities=16% Similarity=0.275 Sum_probs=24.8
Q ss_pred Cceeeecccccccchhhchhccccccccccccccccccccc---eeehhHHHHH
Q 015460 340 VKYQVHDETSQVSYNYLFKIWSWFVFSNQMDRPYVSCFQIS---CLRFVTYLER 390 (406)
Q Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~ 390 (406)
-||+||||-.|-+-= |.. ||.-+|-.. .|-|..-|++
T Consensus 39 ~kymahD~~n~cnvG-----------D~V---rlepsRPlSk~K~f~i~eII~~ 78 (107)
T KOG1740|consen 39 SKYMAHDDKNQCNVG-----------DRV---RLEPSRPLSKTKHFIIAEIIKK 78 (107)
T ss_pred hheeecCcccccccc-----------ceE---EeccCCcccccceeehHHHHHH
Confidence 589999999887655 432 666677655 5555555544
No 203
>CHL00142 rps17 ribosomal protein S17; Validated
Probab=20.03 E-value=27 Score=28.78 Aligned_cols=55 Identities=16% Similarity=0.079 Sum_probs=33.0
Q ss_pred ceE-EEEEcccccChHHHhhccCceeeecccccccchhhchhccccccccccccccccccccc---eeehhHHHHH
Q 015460 319 NEV-YLVWEDEAMSMEERRMSSVKYQVHDETSQVSYNYLFKIWSWFVFSNQMDRPYVSCFQIS---CLRFVTYLER 390 (406)
Q Consensus 319 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~ 390 (406)
=|| |++|+ ...--.+||- -||.||||.....-= |- =+|.|+|=.+ .|.++.-|++
T Consensus 21 V~v~r~~~h-~kY~K~~~r~--kk~~aHDe~n~~~~G-----------D~---V~I~e~RPlSKtK~~~v~~i~~~ 79 (84)
T CHL00142 21 VAVENRYKH-PIYGKIITKT--KKYLVHDEENECNIG-----------DQ---VLIEETRPLSKTKRWILKEILSK 79 (84)
T ss_pred EEEEEEEEc-CcccEEEEee--EEEEEeCCCCCCCCC-----------CE---EEEEEcCCCCCcEEEEEEEEEEe
Confidence 344 77887 3444444443 389999998753322 22 1677888766 7766655544
No 204
>PRK08572 rps17p 30S ribosomal protein S17P; Reviewed
Probab=20.00 E-value=30 Score=29.90 Aligned_cols=67 Identities=21% Similarity=0.269 Sum_probs=37.6
Q ss_pred CCcccCCCCCCCCCCceE-EEEEcccccChHHHhhccCceeeeccc-ccccchhhchhccccccccccccccccccccc-
Q 015460 304 PPVIANKAPATQPAVNEV-YLVWEDEAMSMEERRMSSVKYQVHDET-SQVSYNYLFKIWSWFVFSNQMDRPYVSCFQIS- 380 (406)
Q Consensus 304 ~~~~~~~~p~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 380 (406)
+.|+++|.--+ .+=|| +++|+ ....-.+||- -||.||||. .+.+-= |- =+|.|+|=..
T Consensus 34 G~VvS~Km~KT--vvV~v~r~~~h-pkY~K~i~r~--kky~aHDe~cn~~kvG-----------D~---V~I~E~RPiSK 94 (108)
T PRK08572 34 GTVVSDKMHKT--VVVEREYLHYV-PKYERYEKRR--SRIHAHNPPCIDAKVG-----------DK---VKIAECRPLSK 94 (108)
T ss_pred EEEEecCCCce--EEEEEEEEEec-CCccEEEEEe--eeEEEECCCCCCCCCC-----------CE---EEEEEcCCCCC
Confidence 34566663322 33455 77776 4455555554 379999998 432221 11 1577777765
Q ss_pred --eeehhHHHH
Q 015460 381 --CLRFVTYLE 389 (406)
Q Consensus 381 --~~~~~~~~~ 389 (406)
.|.|+.-++
T Consensus 95 tK~w~v~~i~~ 105 (108)
T PRK08572 95 TKSFVVVEKKE 105 (108)
T ss_pred ceEEEEEEEEE
Confidence 666655443
Done!